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Citation listings: deposit and third-party usage

The following list represents third-party publications that cite GEO data as evidence to support or complement independent studies, or use GEO data as the basis of statistical/analytical hypotheses or tools. Please report omitted publications to geo@ncbi.nlm.nih.gov

Total number of citations: 31878 Download
  • Jiang Z, Ju Y, Ali A, Chung PED et al. Distinct shared and compartment-enriched oncogenic networks drive primary versus metastatic breast cancer. Nat Commun 2023 Jul 18;14(1):4313. PMID: 37463901
  • Zhang W, Qi L, Liu Z, He S et al. Integrated multiomic analysis and high-throughput screening reveal potential gene targets and synergetic drug combinations for osteosarcoma therapy. MedComm (2020) 2023 Aug;4(4):e317. PMID: 37457661
  • Navarrete-López P, Maroto M, Pericuesta E, Fernández-González R et al. Loss of the importin Kpna2 causes infertility in male mice by disrupting the translocation of testis-specific transcription factors. iScience 2023 Jul 21;26(7):107134. PMID: 37456838
  • Wu Y, Hu SS, Zhang R, Goplen NP et al. Single cell RNA sequencing unravels mechanisms underlying senescence-like phenotypes of alveolar macrophages. iScience 2023 Jul 21;26(7):107197. PMID: 37456831
  • Huang X, Zhao Y, Liu D, Gu S et al. ALKBH5-mediated m(6)A demethylation fuels cutaneous wound re-epithelialization by enhancing PELI2 mRNA stability. Inflamm Regen 2023 Jul 14;43(1):36. PMID: 37452367
  • Salz L, Seitz A, Schäfer D, Franzen J et al. Culture expansion of CAR T cells results in aberrant DNA methylation that is associated with adverse clinical outcome. Leukemia 2023 Jul 14 PMID: 37452103
  • Pan F, Chocarro S, Ramos M, Chen Y et al. FOXM1 is critical for the fitness recovery of chromosomally unstable cells. Cell Death Dis 2023 Jul 14;14(7):430. PMID: 37452072
  • Yehuda H, Madrer N, Goldberg D, Soreq H et al. Inversely Regulated Inflammation-Related Processes Mediate Anxiety-Obesity Links in Zebrafish Larvae and Adults. Cells 2023 Jul 6;12(13). PMID: 37443828
  • Qu G, Liu H, Li J, Huang S et al. GPX4 is a key ferroptosis biomarker and correlated with immune cell populations and immune checkpoints in childhood sepsis. Sci Rep 2023 Jul 13;13(1):11358. PMID: 37443372
  • Bravo González-Blas C, De Winter S, Hulselmans G, Hecker N et al. SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networks. Nat Methods 2023 Jul 13 PMID: 37443338
  • Cui Y, Chen Y, Gan N, Li M et al. A novel cuproptosis-related diagnostic gene signature and differential expression validation in atherosclerosis. Mol Biomed 2023 Jul 14;4(1):21. PMID: 37442861
  • Xie Y, Zhou W, Shi J, Xu M et al. A global database for modeling tumor-immune cell communication. Sci Data 2023 Jul 12;10(1):444. PMID: 37438390
  • Chen W, Chen Y, Wu L, Gao Y et al. Identification of cell death-related biomarkers and immune infiltration in ischemic stroke between male and female patients. Front Immunol 2023;14:1164742. PMID: 37435058
  • Zhu L, Wang J, Hu J et al. High expression of IL4I1 is correlated with poor prognosis and immune infiltration in thyroid cancer. BMC Endocr Disord 2023 Jul 11;23(1):148. PMID: 37434155
  • Lavudi K, Banerjee A, Li N, Yang Y et al. ALDH1A1 promotes PARP inhibitor resistance by enhancing retinoic acid receptor-mediated DNA polymerase θ expression. NPJ Precis Oncol 2023 Jul 10;7(1):66. PMID: 37429899
  • Huang X, Liu Y, Wang Q, Rehman HM et al. Brief literature review and comprehensive bioinformatics analytics unravel the potential mechanism of curcumin in the treatment of periodontitis. BMC Oral Health 2023 Jul 8;23(1):469. PMID: 37422651
  • Bahrami E, Schmid JP, Jurinovic V, Becker M et al. Combined proteomics and CRISPR‒Cas9 screens in PDX identify ADAM10 as essential for leukemia in vivo. Mol Cancer 2023 Jul 8;22(1):107. PMID: 37422628
  • Gomes Moreira D, Jan A et al. A beginner's guide into curated analyses of open access datasets for biomarker discovery in neurodegeneration. Sci Data 2023 Jul 6;10(1):432. PMID: 37414779
  • Michael AK, Stoos L, Crosby P, Eggers N et al. Cooperation between bHLH transcription factors and histones for DNA access. Nature 2023 Jul;619(7969):385-393. PMID: 37407816
  • Qiu J, Chen J, Deng G, Yuan S et al. Identification of MiR-223 Associated with Diagnosis in Ectopic Pregnancy. Int J Gen Med 2023;16:2693-2705. PMID: 37398511
  • Lu C, Zhang X, Schardey J, Wirth U et al. Molecular characteristics of microsatellite stable early-onset colorectal cancer as predictors of prognosis and immunotherapeutic response. NPJ Precis Oncol 2023 Jul 1;7(1):63. PMID: 37393364
  • Chen L, Hua J, He X et al. Identification of cuproptosis-related molecular subtypes as a biomarker for differentiating active from latent tuberculosis in children. BMC Genomics 2023 Jul 1;24(1):368. PMID: 37393262
  • Chen XQ, Ma J, Xu D, Xiang ZL et al. Comprehensive analysis of KLF2 as a prognostic biomarker associated with fibrosis and immune infiltration in advanced hepatocellular carcinoma. BMC Bioinformatics 2023 Jun 29;24(1):270. PMID: 37386390
  • Xiang M, Gao Y, Zhou Y, Wang M et al. A novel nomogram based on cell cycle-related genes for predicting overall survival in early-onset colorectal cancer. BMC Cancer 2023 Jun 27;23(1):595. PMID: 37370046
  • Ge S, Hu J, Gao S, Ren J et al. LncRNA NEAT1: A novel regulator associated with the inflammatory response in acute respiratory distress syndrome. Gene 2023 Aug 20;878:147582. PMID: 37353041
  • Nault R, Cave MC, Ludewig G, Moseley HNB et al. A Case for Accelerating Standards to Achieve the FAIR Principles of Environmental Health Research Experimental Data. Environ Health Perspect 2023 Jun;131(6):65001. PMID: 37352010
  • Li C, Chen T, Liu J, Wang Y et al. FGF19-Induced Inflammatory CAF Promoted Neutrophil Extracellular Trap Formation in the Liver Metastasis of Colorectal Cancer. Adv Sci (Weinh) 2023 Jun 22;:e2302613. PMID: 37345586
  • Li J, Lan Z, Liao W, Horner JW et al. Histone demethylase KDM5D upregulation drives sex differences in colon cancer. Nature 2023 Jul;619(7970):632-639. PMID: 37344599
  • Bod L, Kye YC, Shi J, Torlai Triglia E et al. B-cell-specific checkpoint molecules that regulate anti-tumour immunity. Nature 2023 Jul;619(7969):348-356. PMID: 37344597
  • Gallini S, Annusver K, Rahman NT, Gonzalez DG et al. Injury prevents Ras mutant cell expansion in mosaic skin. Nature 2023 Jul;619(7968):167-175. PMID: 37344586
  • Zhu G, Xiong Z, Chen W, Zhu Z et al. Identification of key biomarkers and related immune cell infiltration in cervical cancer tissue based on bioinformatics analysis. Sci Rep 2023 Jun 21;13(1):10121. PMID: 37344577
  • Hedman ÅK, Winter E, Yoosuf N, Benita Y et al. Peripheral blood cellular dynamics of rheumatoid arthritis treatment informs about efficacy of response to disease modifying drugs. Sci Rep 2023 Jun 21;13(1):10058. PMID: 37344505
  • Wu Y, Yang L, Wu X, Wang L et al. Identification of the hub genes in polycystic ovary syndrome based on disease-associated molecule network. FASEB J 2023 Jul;37(7):e23056. PMID: 37342921
  • Lei PJ, Pereira ER, Andersson P, Amoozgar Z et al. Cancer cell plasticity and MHC-II-mediated immune tolerance promote breast cancer metastasis to lymph nodes. J Exp Med 2023 Sep 4;220(9). PMID: 37341991
  • Tsuyama T, Sato Y, Yoshizawa T, Matsuoka T et al. Hypoxia causes pancreatic β-cell dysfunction and impairs insulin secretion by activating the transcriptional repressor BHLHE40. EMBO Rep 2023 Aug 3;24(8):e56227. PMID: 37341148
  • Parvez A, Mahjabeen I, Mehmood A, Khan AU et al. Expression variations of DNA damage response genes ATM and ATR in blood cancer patients. Mol Genet Genomics 2023 Sep;298(5):1173-1183. PMID: 37338595
  • Chen Z, Ge L, Xu S, Li Q et al. A novel defined pyroptosis-related gene signature predicts prognosis and correlates with the tumour immune microenvironment in lung adenocarcinoma. Sci Rep 2023 Jun 19;13(1):9921. PMID: 37337018
  • Dong W, Jin Y, Shi H, Zhang X et al. Using bioinformatics and systems biology methods to identify the mechanism of interaction between COVID-19 and nonalcoholic fatty liver disease. Medicine (Baltimore) 2023 Jun 9;102(23):e33912. PMID: 37335656
  • Dong T, Lu S, Li X, Yang J et al. Genetic association between ankylosing spondylitis and major depressive disorders: Shared pathways, protein networks and the key gene. Medicine (Baltimore) 2023 Jun 16;102(24):e33985. PMID: 37327287
  • Feng L, Li G, Li D, Duan G et al. Cuproptosis-related gene SERPINE1 is a prognostic biomarker and correlated with immune infiltrates in gastric cancer. J Cancer Res Clin Oncol 2023 Jun 15 PMID: 37318594
  • Naas S, Krüger R, Knaup KX, Naas J et al. Hypoxia controls expression of kidney-pathogenic MUC1 variants. Life Sci Alliance 2023 Sep;6(9). PMID: 37316299
  • Liu P, Zhang M, Gao H, Han S et al. Regulation of whole-transcriptome sequencing expression in COPD after personalized precise exercise training: a pilot study. Respir Res 2023 Jun 13;24(1):156. PMID: 37312153
  • Huang T, Chen S, Ding K, Zheng B et al. SLC35E1 promotes keratinocyte proliferation in psoriasis by regulating zinc homeostasis. Cell Death Dis 2023 Jun 9;14(6):354. PMID: 37296095
  • Zhang C, Huang Z et al. KAT2A Promotes the Succinylation of PKM2 to Inhibit its Activity and Accelerate Glycolysis of Gastric Cancer. Mol Biotechnol 2023 Jun 9 PMID: 37294531
  • Spriano F, Aresu L, Cascione L, Risi G et al. The microtubule-targeted agent lisavanbulin (BAL101553) shows anti-tumor activity in lymphoma models. Am J Cancer Res 2023;13(5):2076-2086. PMID: 37293172
  • Patop IL, Anduaga AM, Bussi IL, Ceriani MF et al. Organismal landscape of clock cells and circadian gene expression in Drosophila. bioRxiv 2023 May 23 PMID: 37292867
  • Han L, Cui DJ, Huang B, Yang Q et al. CLDN5 identified as a biomarker for metastasis and immune infiltration in gastric cancer via pan-cancer analysis. Aging (Albany NY) 2023 Jun 7;15(11):5032-5051. PMID: 37286335
  • Zhang F, Huang X, Lin J, Yu R et al. Identification of a novel diagnosis model based on 5 hub genes for chronic thromboembolic pulmonary hypertension. Curr Med Chem 2023 Jun 5 PMID: 37282570
  • Chen S, Zhou Z, Wang Y, Chen S et al. Machine learning-based identification of cuproptosis-related markers and immune infiltration in severe community-acquired pneumonia. Clin Respir J 2023 Jul;17(7):618-628. PMID: 37279744
  • Zhang Y, Wang L, Yan F, Yang M et al. Mettl3 Mediated m6A Methylation Involved in Epithelial-Mesenchymal Transition by Targeting SOCS3/STAT3/SNAI1 in Cigarette Smoking-Induced COPD. Int J Chron Obstruct Pulmon Dis 2023;18:1007-1017. PMID: 37275442
  • Weng H, Xiong KP, Wang W, Qian KY et al. Aspartoacylase suppresses prostate cancer progression by blocking LYN activation. Mil Med Res 2023 Jun 5;10(1):25. PMID: 37271807
  • Zong C, Zhang Z, Gao L, He J et al. APOBEC3B coordinates R-loop to promote replication stress and sensitize cancer cells to ATR/Chk1 inhibitors. Cell Death Dis 2023 Jun 3;14(6):348. PMID: 37270643
  • Tyshkovskiy A, Ma S, Shindyapina AV, Tikhonov S et al. Distinct longevity mechanisms across and within species and their association with aging. Cell 2023 Jun 22;186(13):2929-2949.e20. PMID: 37269831
  • Han L, Huang D, Wu S, Liu S et al. Lipid droplet-associated lncRNA LIPTER preserves cardiac lipid metabolism. Nat Cell Biol 2023 Jul;25(7):1033-1046. PMID: 37264180
  • Marchal-Duval E, Homps-Legrand M, Froidure A, Jaillet M et al. Identification of Paired-related Homeobox Protein 1 as a key mesenchymal transcription factor in pulmonary fibrosis. Elife 2023 Jun 1;12. PMID: 37261432
  • Chen W, Yang Q, Hu L, Wang M et al. Shared diagnostic genes and potential mechanism between PCOS and recurrent implantation failure revealed by integrated transcriptomic analysis and machine learning. Front Immunol 2023;14:1175384. PMID: 37261354
  • Chin DH, Osman I, Porch J, Kim H et al. BET Bromodomain Degradation Disrupts Function but Not 3D Formation of RNA Pol2 Clusters. Pharmaceuticals (Basel) 2023 Jan 29;16(2). PMID: 37259348
  • Hui X, Wang Y, Li W, Yuan Y et al. Nd-Mn Molecular Cluster with Searched Targets for Oral Cancer Imaging. Mol Imaging Biol 2023 May 31 PMID: 37256508
  • Yang W, Zhao X, Duan L, Niu L et al. Development and validation of a ligand-receptor pairs signature to predict outcome and provide a therapeutic strategy in gastric cancer. Expert Rev Mol Diagn 2023 Jul-Dec;23(7):619-634. PMID: 37248704
  • Chu Y, Dai E, Li Y, Han G et al. Pan-cancer T cell atlas links a cellular stress response state to immunotherapy resistance. Nat Med 2023 Jun;29(6):1550-1562. PMID: 37248301
  • Li C, Cui X, Li Y, Guo D et al. Identification of ferroptosis and drug resistance related hub genes to predict the prognosis in Hepatocellular Carcinoma. Sci Rep 2023 May 29;13(1):8681. PMID: 37248280
  • Li JSY, Robertson H, Trinh K, Raghubar AM et al. Tolerogenic dendritic cells protect against acute kidney injury. Kidney Int 2023 May 25 PMID: 37244471
  • Wang L, Dou X, Chen S, Yu X et al. YTHDF2 inhibition potentiates radiotherapy antitumor efficacy. Cancer Cell 2023 Jul 10;41(7):1294-1308.e8. PMID: 37236197
  • Wang X, Campbell MR, Cho HY, Pittman GS et al. Epigenomic profiling of isolated blood cell types reveals highly specific B cell smoking signatures and links to disease risk. Clin Epigenetics 2023 May 25;15(1):90. PMID: 37231515
  • Hui Z, Ren Y, Zhang D, Chen Y et al. PD-1 blockade potentiates neoadjuvant chemotherapy in NSCLC via increasing CD127(+) and KLRG1(+) CD8 T cells. NPJ Precis Oncol 2023 May 25;7(1):48. PMID: 37231145
  • Rommasi FIdentification, characterization, and prognosis investigation of pivotal genes shared in different stages of breast cancer. Sci Rep 2023 May 25;13(1):8447. PMID: 37231064
  • Andries L, Kancheva D, Masin L, Scheyltjens I et al. Immune stimulation recruits a subset of pro-regenerative macrophages to the retina that promotes axonal regrowth of injured neurons. Acta Neuropathol Commun 2023 May 24;11(1):85. PMID: 37226256
  • Guo J, Tang H, Huang P, Ye X et al. Integrative single-cell RNA and ATAC sequencing reveals that the FOXO1-PRDX2-TNF axis regulates tendinopathy. Front Immunol 2023;14:1092778. PMID: 37223090
  • Patsouras M, Alexopoulou E, Foutadakis S, Tsiki E et al. Antiphospholipid antibodies induce proinflammatory and procoagulant pathways in endothelial cells. J Transl Autoimmun 2023;6:100202. PMID: 37216142
  • Sun M, Shen Y, Jia G, Deng Z et al. Activation of the HNRNPA2B1/miR-93-5p/FRMD6 axis facilitates prostate cancer progression in an m6A-dependent manner. J Cancer 2023;14(7):1242-1256. PMID: 37215455
  • Li Y, Yang Y, Guo T, Weng C et al. Heme oxygenase-1 determines the cell fate of ferroptotic death of alveolar macrophages in COPD. Front Immunol 2023;14:1162087. PMID: 37215140
  • Luo ZH, Shi MW, Zhang Y, Wang DY et al. CenhANCER: a comprehensive cancer enhancer database for primary tissues and cell lines. Database (Oxford) 2023 May 18;2023. PMID: 37207350
  • McCutcheon SR, Swartz AM, Brown MC, Barrera A et al. Orthogonal CRISPR screens to identify transcriptional and epigenetic regulators of human CD8 T cell function. bioRxiv 2023 May 1 PMID: 37205457
  • Xiong L, Liu J, Han SY, Koppitch K et al. Direct androgen receptor regulation of sexually dimorphic gene expression in the mammalian kidney. bioRxiv 2023 May 25 PMID: 37205355
  • Chen Y, Ma F, Zhang Z, Guo Y et al. LncRNA-PVT1 was identified as a key regulator for TMZ resistance and STAT-related pathway in glioma. BMC Cancer 2023 May 18;23(1):455. PMID: 37202742
  • Azim S, Zubair H, Rousselle T, McDaniels JM et al. Single-cell RNA sequencing reveals peripheral blood mononuclear immune cell landscape associated with operational tolerance in a kidney transplant recipient. Am J Transplant 2023 May 16 PMID: 37201755
  • Li T, Roberts R, Liu Z, Tong W et al. TransOrGAN: An Artificial Intelligence Mapping of Rat Transcriptomic Profiles between Organs, Ages, and Sexes. Chem Res Toxicol 2023 Jun 19;36(6):916-925. PMID: 37200521
  • Yuan H, Wu X, Wu Q, Chatoff A et al. Lysine catabolism reprograms tumour immunity through histone crotonylation. Nature 2023 May;617(7962):818-826. PMID: 37198486
  • Jiang J, Yu W, Fang T, Li Y et al. Cyclin O promotes lung cancer progression and cetuximab resistance via cell cycle regulation and CDK13 interaction. J Thorac Dis 2023 Apr 28;15(4):2167-2183. PMID: 37197505
  • Wu X, Li JH, Xu L, Li YX et al. SUMO specific peptidase 3 halts pancreatic ductal adenocarcinoma metastasis via deSUMOylating DKC1. Cell Death Differ 2023 Jul;30(7):1742-1756. PMID: 37188742
  • Depoërs L, Dumont-Lagacé M, Trinh VQ, Houques C et al. Klf4 protects thymus integrity during late pregnancy. Front Immunol 2023;14:1016378. PMID: 37180153
  • Liu X, Yan R, Liu H, Zhang S et al. Genome-Wide Expression Analysis of Long Noncoding RNAs and Their Target Genes in Metafemale Drosophila. Int J Mol Sci 2023 May 6;24(9). PMID: 37176087
  • Schafer ST, Mansour AA, Schlachetzki JCM, Pena M et al. An in vivo neuroimmune organoid model to study human microglia phenotypes. Cell 2023 May 11;186(10):2111-2126.e20. PMID: 37172564
  • van Pelt J, Meeusen B, Derua R, Guffens L et al. Human pancreatic cancer patients with Epithelial-to-Mesenchymal Transition and an aggressive phenotype show a disturbed balance in Protein Phosphatase Type 2A expression and functionality. J Transl Med 2023 May 11;21(1):317. PMID: 37170215
  • Elahimanesh M, Najafi M et al. Cross talk between bacterial and human gene networks enriched using ncRNAs in IBD disease. Sci Rep 2023 May 11;13(1):7704. PMID: 37169818
  • Zhang Y, Shi L, Yang K, Liu X et al. Transglutaminase 2 regulates terminal erythroid differentiation via cross-linking activity. Front Cell Dev Biol 2023;11:1183176. PMID: 37169024
  • Cui J, Ge Y, Sun W, Liu B et al. CgB promotes EMT and stemness via MAPK pathway in colonic neuroendocrine carcinoma. Am J Cancer Res 2023;13(4):1560-1570. PMID: 37168358
  • Bilgic SN, Domaniku A, Toledo B, Agca S et al. EDA2R-NIK signalling promotes muscle atrophy linked to cancer cachexia. Nature 2023 May;617(7962):827-834. PMID: 37165186
  • Yanan L, Hui L, Zhuo C, Longqing D et al. Comprehensive analysis of mitophagy in HPV-related head and neck squamous cell carcinoma. Sci Rep 2023 May 9;13(1):7480. PMID: 37161060
  • Menevse AN, Ammer LM, Vollmann-Zwerenz A, Kupczyk M et al. TSPO acts as an immune resistance gene involved in the T cell mediated immune control of glioblastoma. Acta Neuropathol Commun 2023 May 8;11(1):75. PMID: 37158962
  • Jiang L, Zhao J, Yang Q, Li M et al. Lysosomal-associated protein transmembrane 5 ameliorates non-alcoholic steatohepatitis by promoting the degradation of CDC42 in mice. Nat Commun 2023 May 8;14(1):2654. PMID: 37156795
  • Chamberlain JD, Nusslé S, Bochud M, Gonseth-Nusslé S et al. Investigating the association of measures of epigenetic age with COVID-19 severity: evidence from secondary analyses of open access data. Swiss Med Wkly 2023 Apr 24;153:40076. PMID: 37155825
  • Medzikovic L, Aryan L, Ruffenach G, Li M et al. Myocardial fibrosis and calcification are attenuated by microRNA-129-5p targeting Asporin and Sox9 in cardiac fibroblasts. JCI Insight 2023 May 8;8(9). PMID: 37154157
  • Ni Z, Lyu L, Gong H, Du L et al. Multilineage commitment of Sca-1(+) cells in reshaping vein grafts. Theranostics 2023;13(7):2154-2175. PMID: 37153747
  • Liu B, Lv LL, Liu P, Xu YY et al. Proteomic analysis of anti-aging effects of Dendrobium nobile Lindl. alkaloids in aging-accelerated SAMP8 mice. Exp Gerontol 2023 Jun 15;177:112198. PMID: 37150330
  • Zia A, Litvin Y, Voskoboynik R, Klein A et al. Transcriptome Analysis Identifies Oncogenic Tissue Remodeling during Progression from Common Nevi to Early Melanoma. Am J Pathol 2023 Jul;193(7):995-1004. PMID: 37146966
  • Wang Y, Ming H, Yu L, Li J et al. Establishment of bovine trophoblast stem cells. Cell Rep 2023 May 30;42(5):112439. PMID: 37146606
  • Tong X, Liu YS, Tong R, Tang WW et al. TEAD4 predicts poor prognosis and transcriptionally targets PLAGL2 in serous ovarian cancer. Hum Cell 2023 Jul;36(4):1535-1547. PMID: 37145265
  • Chibaya L, Murphy KC, DeMarco KD, Gopalan S et al. EZH2 inhibition remodels the inflammatory senescence-associated secretory phenotype to potentiate pancreatic cancer immune surveillance. Nat Cancer 2023 Jun;4(6):872-892. PMID: 37142692
  • Al-Dalahmah O, Argenziano MG, Kannan A, Mahajan A et al. Re-convolving the compositional landscape of primary and recurrent glioblastoma reveals prognostic and targetable tissue states. Nat Commun 2023 May 4;14(1):2586. PMID: 37142563
  • Bian F, Lan YW, Zhao S, Deng Z et al. Lung endothelial cells regulate pulmonary fibrosis through FOXF1/R-Ras signaling. Nat Commun 2023 May 4;14(1):2560. PMID: 37137915
  • Kim H, Kim HK, Hong D, Kim M et al. Identification of ulcerative colitis-specific immune cell signatures from public single-cell RNA-seq data. Genes Genomics 2023 Jul;45(7):957-967. PMID: 37133723
  • Mahmoudi A, Atkin SL, Jamialahmadi T, Sahebkar A et al. Identification of key upregulated genes involved in foam cell formation and the modulatory role of statin therapy. Int Immunopharmacol 2023 Jun;119:110209. PMID: 37130442
  • Hu Q, Li Y, Li D, Yuan Y et al. Amino acid metabolism regulated by lncRNAs: the propellant behind cancer metabolic reprogramming. Cell Commun Signal 2023 May 1;21(1):87. PMID: 37127605
  • Qu Y, Jiang D, Liu M, Wang H et al. LncRNA DANCR restrained the survival of mycobacterium tuberculosis H37Ra by sponging miR-1301-3p/miR-5194. Front Microbiol 2023;14:1119629. PMID: 37125193
  • Zhang Z, Chen P, Yun J et al. Comprehensive analysis of a novel RNA modifications-related model in the prognostic characterization, immune landscape and drug therapy of bladder cancer. Front Genet 2023;14:1156095. PMID: 37124622
  • Liu Y, Jian J, Zhang Y, Wang L et al. Construction of cancer- associated fibroblasts related risk signature based on single-cell RNA-seq and bulk RNA-seq data in bladder urothelial carcinoma. Front Oncol 2023;13:1170893. PMID: 37124542
  • Chen Z, Yang J, Tang L, Sun X et al. SUMOylation patterns and signature characterize the tumor microenvironment and predict prognosis in lung adenocarcinoma. Front Cell Dev Biol 2023;11:1094588. PMID: 37123398
  • Ge Y, Liu X, Chen H, Li G et al. The serum soluble scavenger with 5 domains levels: A novel biomarker for individuals with heart failure. Front Physiol 2023;14:1140856. PMID: 37123263
  • Yamaguchi K, Nakagawa S, Saku A, Isobe Y et al. Bromodomain protein BRD8 regulates cell cycle progression in colorectal cancer cells through a TIP60-independent regulation of the pre-RC complex. iScience 2023 Apr 21;26(4):106563. PMID: 37123243
  • Hu C, Lin W, Zhao K, Tian G et al. NDC80 status pinpoints mitotic kinase inhibitors as emerging therapeutic options in clear cell renal cell carcinoma. iScience 2023 Apr 21;26(4):106531. PMID: 37123230
  • Pavan RR, Diniz F, El-Dahr S, Tortelote GG et al. Gene length is a pivotal feature to explain disparities in transcript capture between single transcriptome techniques. Front Bioinform 2023;3:1144266. PMID: 37122996
  • Zhao T, Wu X, Zhao X, Yao K et al. Identification and validation of chemokine system-related genes in idiopathic pulmonary fibrosis. Front Immunol 2023;14:1159856. PMID: 37122736
  • Bai YM, Liang S, Zhou B et al. Revealing immune infiltrate characteristics and potential immune-related genes in hepatic fibrosis: based on bioinformatics, transcriptomics and q-PCR experiments. Front Immunol 2023;14:1133543. PMID: 37122694
  • Thomas KT, Vermare A, Egleston SO, Wang YD et al. MicroRNA 3' ends shorten during adolescent brain maturation. Front Mol Neurosci 2023;16:1168695. PMID: 37122627
  • Zhong H, Yang L, Zeng Q, Chen W et al. Machine Learning Predicts the Oxidative Stress Subtypes Provide an Innovative Insight into Colorectal Cancer. Oxid Med Cell Longev 2023;2023:1737501. PMID: 37122535
  • Wang X, Kong F, Lin Z et al. Cromolyn prevents cerebral vasospasm and dementia by targeting WDR43. Front Aging Neurosci 2023;15:1132733. PMID: 37122373
  • Park JC, Lim H, Byun MS, Yi D et al. Sex differences in the progression of glucose metabolism dysfunction in Alzheimer's disease. Exp Mol Med 2023 May;55(5):1023-1032. PMID: 37121979
  • Bera BS, Thompson TV, Sosa E, Nomaru H et al. An optimized approach for multiplexing single-nuclear ATAC-seq using oligonucleotide-conjugated antibodies. Epigenetics Chromatin 2023 Apr 28;16(1):14. PMID: 37118773
  • Kumar DK, Jonas F, Jana T, Brodsky S et al. Complementary strategies for directing in vivo transcription factor binding through DNA binding domains and intrinsically disordered regions. Mol Cell 2023 May 4;83(9):1462-1473.e5. PMID: 37116493
  • Shah AM, Guo L, Morales MG, Jaichander P et al. TWIST2-mediated chromatin remodeling promotes fusion-negative rhabdomyosarcoma. Sci Adv 2023 Apr 28;9(17):eade8184. PMID: 37115930
  • Kang YA, Paik H, Zhang SY, Chen JJ et al. Secretory MPP3 reinforce myeloid differentiation trajectory and amplify myeloid cell production. J Exp Med 2023 Aug 7;220(8). PMID: 37115584
  • Jiao K, Su P, Feng Y, Li C et al. Bioinformatics analysis and identification of hub genes associated with female acute myocardial infarction patients by using weighted gene co-expression networks. Medicine (Baltimore) 2023 Apr 25;102(17):e33634. PMID: 37115066
  • Sun H, Lu X, Zou L et al. EccBase: A high-quality database for exploration and characterization of extrachromosomal circular DNAs in cancer. Comput Struct Biotechnol J 2023;21:2591-2601. PMID: 37114214
  • Spaner DE, Luo TY, Wang G, Schreiber G et al. Paradoxical activation of chronic lymphocytic leukemia cells by ruxolitinib in vitro and in vivo. Front Oncol 2023;13:1043694. PMID: 37114129
  • Schroeder JH, Beattie G, Lo JW, Zabinski T et al. CD90 is not constitutively expressed in functional innate lymphoid cells. Front Immunol 2023;14:1113735. PMID: 37114052
  • Li B, Zhao X, Xie W, Hong Z et al. Integrative analyses of biomarkers and pathways for diabetic nephropathy. Front Genet 2023;14:1128136. PMID: 37113991
  • Reagor CC, Velez-Angel N, Hudspeth AJ et al. Depicting pseudotime-lagged causality across single-cell trajectories for accurate gene-regulatory inference. PNAS Nexus 2023 Apr;2(4):pgad113. PMID: 37113980
  • Li B, Liu J, Xu L, Xu Q et al. Comprehensive Analysis of NABP2 as a Prognostic Biomarker and Its Correlation with Immune Infiltration in Hepatocellular Carcinoma. J Inflamm Res 2023;16:1783-1804. PMID: 37113629
  • Feng Y, Shen J, He J, Lu M et al. Schizophrenia and cell senescence candidate genes screening, machine learning, diagnostic models, and drug prediction. Front Psychiatry 2023;14:1105987. PMID: 37113536
  • Ou H, Fan Y, Guo X, Lao Z et al. Identifying key genes related to inflammasome in severe COVID-19 patients based on a joint model with random forest and artificial neural network. Front Cell Infect Microbiol 2023;13:1139998. PMID: 37113134
  • Xie M, Zhu C, Ye Y et al. Ferroptosis-Related Molecular Clusters and Diagnostic Model in Rheumatoid Arthritis. Int J Mol Sci 2023 Apr 16;24(8). PMID: 37108505
  • Wu Z, Wang X, Liang H, Liu F et al. Identification of Signature Genes of Dilated Cardiomyopathy Using Integrated Bioinformatics Analysis. Int J Mol Sci 2023 Apr 16;24(8). PMID: 37108502
  • Zhang Y, Chi X, Hu J, Wang S et al. LncRNA LINC02574 Inhibits Influenza A Virus Replication by Positively Regulating the Innate Immune Response. Int J Mol Sci 2023 Apr 14;24(8). PMID: 37108410
  • Jia P, Liu J, Yan R, Yang K et al. Systematical Characterization of the AT-Hook Gene Family in Juglans regia L. and the Functional Analysis of the JrAHL2 in Flower Induction and Hypocotyl Elongation. Int J Mol Sci 2023 Apr 14;24(8). PMID: 37108407
  • Martín-Masot R, Herrador-López M, Navas-López VM, Carmona FD et al. Celiac Disease Is a Risk Factor for Mature T and NK Cell Lymphoma: A Mendelian Randomization Study. Int J Mol Sci 2023 Apr 13;24(8). PMID: 37108375
  • Gelemanović A, Ćatipović Ardalić T, Pribisalić A, Hayward C et al. Genome-Wide Meta-Analysis Identifies Multiple Novel Rare Variants to Predict Common Human Infectious Diseases Risk. Int J Mol Sci 2023 Apr 10;24(8). PMID: 37108169
  • Arrigo AB, Zhu W, Williams KA, Guzman-Moreno C et al. Contribution of LRP1 in Human Congenital Heart Disease Correlates with Its Roles in the Outflow Tract and Atrioventricular Cushion Development. Genes (Basel) 2023 Apr 21;14(4). PMID: 37107705
  • Huang J, Zheng T, Liang Y, Qin Y et al. Transcriptome Analysis of Natural Killer Cells in Response to Newcastle Disease Virus Infected Hepatocellular Carcinoma Cells. Genes (Basel) 2023 Apr 10;14(4). PMID: 37107646
  • Mazhar HS, Shafiq M, Ali H, Ashfaq M et al. Genome-Wide Identification, and In-Silico Expression Analysis of YABBY Gene Family in Response to Biotic and Abiotic Stresses in Potato (Solanum tuberosum). Genes (Basel) 2023 Mar 29;14(4). PMID: 37107580
  • Nettleford SK, Liao C, Short SP, Rossi RM et al. Selenoprotein W Ameliorates Experimental Colitis and Promotes Intestinal Epithelial Repair. Antioxidants (Basel) 2023 Apr 1;12(4). PMID: 37107231
  • Kirschen GW, Hessami K, AlAshqar A, Afrin S et al. Uterine Transcriptome: Understanding Physiology and Disease Processes. Biology (Basel) 2023 Apr 21;12(4). PMID: 37106834
  • Al-Aamri A, Kudlicki AS, Maalouf M, Taha K et al. Inferring Gene Regulatory Networks from RNA-seq Data Using Kernel Classification. Biology (Basel) 2023 Mar 29;12(4). PMID: 37106719
  • Rajan S, Franz EM, McAloney CA, Vetter TA et al. Osteosarcoma tumors maintain intra-tumoral transcriptional heterogeneity during bone and lung colonization. BMC Biol 2023 Apr 27;21(1):98. PMID: 37106386
  • Tao J, Ge Q, Meng J, Liang C et al. Overexpression of DDX49 in prostate cancer is associated with poor prognosis. BMC Urol 2023 Apr 27;23(1):66. PMID: 37106339
  • Soltani Z, Moghadam A, Tahmasebi A, Niazi A et al. Integrative systems biology analysis of barley transcriptome ─ hormonal signaling against biotic stress. PLoS One 2023;18(4):e0281470. PMID: 37104505
  • Oğuz AK, Oygür ÇŞ, Taşır S, Özdağ H et al. Behçet syndrome: The disturbed balance between anti- (CLEC12A, CLC) and proinflammatory (IFI27) gene expressions. Immun Inflamm Dis 2023 Apr;11(4):e836. PMID: 37102643
  • Zhang J, Li CC, Li X, Liu Y et al. Novel enhancers conferring compensatory transcriptional regulation of Nkx2-5 in heart development. iScience 2023 Apr 21;26(4):106509. PMID: 37102151
  • Li J, Qi Y, Li B, Liu Y et al. STIL/AURKA axis promotes cell proliferation by influencing primary cilia formation in bladder cancer. J Transl Med 2023 Apr 26;21(1):281. PMID: 37101292
  • Choi JM, Park C, Chae H et al. meth-SemiCancer: a cancer subtype classification framework via semi-supervised learning utilizing DNA methylation profiles. BMC Bioinformatics 2023 Apr 26;24(1):168. PMID: 37101254
  • Solier S, Müller S, Cañeque T, Versini A et al. A druggable copper-signalling pathway that drives inflammation. Nature 2023 May;617(7960):386-394. PMID: 37100912
  • Nguyen T, Wei Y, Nakada Y, Chen JY et al. Analysis of cardiac single-cell RNA-sequencing data can be improved by the use of artificial-intelligence-based tools. Sci Rep 2023 Apr 26;13(1):6821. PMID: 37100826
  • Guo F, Wang H, Lian G, Cai G et al. Initiation of scutellum-derived callus is regulated by an embryo-like developmental pathway in rice. Commun Biol 2023 Apr 25;6(1):457. PMID: 37100819
  • Ono N, Horikoshi J, Izawa T, Nishiyama K et al. L-arginine-induced pancreatitis aggravated by inhibiting Na(+)/Ca(2+) exchanger 1. J Vet Med Sci 2023 Jun 13;85(6):657-666. PMID: 37100607
  • Zhang J, Xie S, Xiao R, Yang D et al. Identification of mitophagy-related biomarkers and immune infiltration in major depressive disorder. BMC Genomics 2023 Apr 25;24(1):216. PMID: 37098514
  • Yamazaki M, Hino S, Usuki S, Miyazaki Y et al. YAP/BRD4-controlled ROR1 promotes tumor-initiating cells and hyperproliferation in pancreatic cancer. EMBO J 2023 Jul 17;42(14):e112614. PMID: 37096681
  • Kim D, Jeong W, Kim Y, Lee J et al. Pharmacologic Activation of Angiotensin-Converting Enzyme II Alleviates Diabetic Cardiomyopathy in db/db Mice by Reducing Reactive Oxidative Stress. Diabetes Metab J 2023 Jul;47(4):487-499. PMID: 37096378
  • Jin X, Cai Y, Xue G, Que J et al. Identification of shared characteristics in tumor-infiltrating T cells across 15 cancers. Mol Ther Nucleic Acids 2023 Jun 13;32:189-202. PMID: 37096165
  • Qian Y, Wang J, Wang B, Wang W et al. Systematic fine-mapping and functional studies of prostate cancer risk variants. iScience 2023 Apr 21;26(4):106497. PMID: 37096036
  • Srivastava A, Sharma H, Chowdhury S, Chowdhury R et al. Transforming growth factor- β mediated regulation of epigenome is required for epithelial to mesenchymal transition associated features in liver cancer cells. Heliyon 2023 Apr;9(4):e14665. PMID: 37095942
  • Lu P, Yang J, Li M, Wen S et al. A desert lncRNA HIDEN regulates human endoderm differentiation via interacting with IMP1 and stabilizing FZD5 mRNA. Genome Biol 2023 Apr 24;24(1):92. PMID: 37095549
  • Li Y, Zhu S, Chen Y, Ma Q et al. Post-transcriptional modification of m(6)A methylase METTL3 regulates ERK-induced androgen-deprived treatment resistance prostate cancer. Cell Death Dis 2023 Apr 24;14(4):289. PMID: 37095108
  • Feng L, Ding R, Qu X, Li Y et al. BCR-ABL triggers a glucose-dependent survival program during leukemogenesis through the suppression of TXNIP. Cell Death Dis 2023 Apr 24;14(4):287. PMID: 37095099
  • Wiedmann L, De Angelis Rigotti F, Vaquero-Siguero N, Donato E et al. HAPLN1 potentiates peritoneal metastasis in pancreatic cancer. Nat Commun 2023 Apr 24;14(1):2353. PMID: 37095087
  • Mölbert C, Haghverdi L et al. Adjustments to the reference dataset design improve cell type label transfer. Front Bioinform 2023;3:1150099. PMID: 37091908
  • Zhang Y, Chen C, Li D, Chen P et al. Exploration and identification of six novel ferroptosis-related hub genes as potential gene signatures for peripheral nerve injury. Front Genet 2023;14:1156467. PMID: 37091802
  • She H, Tan L, Yang R, Zheng J et al. Identification of featured necroptosis-related genes and imbalanced immune infiltration in sepsis via machine learning. Front Genet 2023;14:1158029. PMID: 37091800
  • Chen J, Meng Y, Huang X, Liao X et al. Potential effective diagnostic biomarker in patients with primary and metastatic small intestinal neuroendocrine tumors. Front Genet 2023;14:1110396. PMID: 37091799
  • Zhou X, Wu L et al. Bioinformatics analysis based on crucial genes of endothelial cells in rheumatoid. Front Genet 2023;14:1143644. PMID: 37091794
  • Lin Y, Li T, Li Z, Shen C et al. Comprehensive characterization of endoplasmic reticulum stress in bladder cancer revealing the association with tumor immune microenvironment and prognosis. Front Genet 2023;14:1097179. PMID: 37091788
  • Li Z, Cui Y, Zhang S, Xu J et al. Novel hypoxia-related gene signature for predicting prognoses that correlate with the tumor immune microenvironment in NSCLC. Front Genet 2023;14:1115308. PMID: 37091782
  • Ban Q, Hui W, Duan Q, Liu W et al. Commercial dishes with gelatin-free microstructured inserts for elongated stem cell self-renewal and pluripotency. iScience 2023 Apr 21;26(4):106446. PMID: 37091250
  • Wang Y, Zong H, Yang F, Tong Y et al. A knowledge empowered explainable gene ontology fingerprint approach to improve gene functional explication and prediction. iScience 2023 Apr 21;26(4):106356. PMID: 37091235
  • Nelson AR, Bugg D, Davis J, Saucerman JJ et al. Network model integrated with multi-omic data predicts MBNL1 signals that drive myofibroblast activation. iScience 2023 Apr 21;26(4):106502. PMID: 37091233
  • Gao SQ, Chen JQ, Zhou HY, Luo L et al. Thrombospondin1 mimics rapidly relieve depression via Shank3 dependent uncoupling between dopamine D1 and D2 receptors. iScience 2023 Apr 21;26(4):106488. PMID: 37091229
  • Fathi M, Martinez-Paniagua M, Rezvan A, Montalvo MJ et al. Identifying signatures of EV secretion in metastatic breast cancer through functional single-cell profiling. iScience 2023 Apr 21;26(4):106482. PMID: 37091228
  • Jin N, Kan CM, Pei XM, Cheung WL et al. Cell-free circulating tumor RNAs in plasma as the potential prognostic biomarkers in colorectal cancer. Front Oncol 2023;13:1134445. PMID: 37091184
  • Fang WB, Medrano M, Cote P, Portsche M et al. Transcriptome analysis reveals differences in cell cycle, growth and migration related genes that distinguish fibroblasts derived from pre-invasive and invasive breast cancer. Front Oncol 2023;13:1130911. PMID: 37091166
  • Wu H, Han F et al. Investigation of shared genes and regulatory mechanisms associated with coronavirus disease 2019 and ischemic stroke. Front Neurol 2023;14:1151946. PMID: 37090981
  • Tang D, Pu B, Liu S, Li H et al. Identification of cuproptosis-associated subtypes and signature genes for diagnosis and risk prediction of Ulcerative colitis based on machine learning. Front Immunol 2023;14:1142215. PMID: 37090740
  • Tauber PA, Kratzer B, Schatzlmaier P, Smole U et al. The small molecule inhibitor BX-795 uncouples IL-2 production from inhibition of Th2 inflammation and induces CD4(+) T cells resembling iTreg. Front Immunol 2023;14:1094694. PMID: 37090735
  • Wu Q, Tian R, He X, Liu J et al. Machine learning-based integration develops an immune-related risk model for predicting prognosis of high-grade serous ovarian cancer and providing therapeutic strategies. Front Immunol 2023;14:1164408. PMID: 37090728
  • Yu S, Chen M, Xu L, Mao E et al. A senescence-based prognostic gene signature for colorectal cancer and identification of the role of SPP1-positive macrophages in tumor senescence. Front Immunol 2023;14:1175490. PMID: 37090726
  • Hou S, Wang D, Yuan X, Yuan X et al. Identification of biomarkers co-associated with M1 macrophages, ferroptosis and cuproptosis in alcoholic hepatitis by bioinformatics and experimental verification. Front Immunol 2023;14:1146693. PMID: 37090703
  • Bao H, Li J, Zhang B, Huang J et al. Integrated bioinformatics and machine-learning screening for immune-related genes in diagnosing non-alcoholic fatty liver disease with ischemic stroke and RRS1 pan-cancer analysis. Front Immunol 2023;14:1113634. PMID: 37090698
  • Li Z, Zhang X, Zhu W, Zhang C et al. FGF-21 Conducts a Liver-Brain-Kidney Axis to Promote Renal Cell Carcinoma. bioRxiv 2023 Apr 13 PMID: 37090652
  • Qi F, Li J, Qi Z, Zhou B et al. Modeling cross-talk of RNA modification enzymes reveals tumor microenvironment-associated clinical significance and immunotherapy prediction in hepatobiliary malignancy. MedComm (2020) 2023 Jun;4(3):e256. PMID: 37090117
  • Wu Y, Wang Z, Li S, Chen X et al. SHFM1 deficiency suppresses esophageal squamous cell carcinomas progression via modulating NF‑κB signaling and enhancing nature killer cell‑mediated tumor surveillance. Exp Ther Med 2023 May;25(5):195. PMID: 37090067
  • Zhang Z, Lu Y, Vosoughi S, Levy JJ et al. HiTAIC: hierarchical tumor artificial intelligence classifier traces tissue of origin and tumor type in primary and metastasized tumors using DNA methylation. NAR Cancer 2023 Jun;5(2):zcad017. PMID: 37089814
  • Sutormin D, Galivondzhyan A, Gafurov A, Severinov K et al. Single-nucleotide resolution detection of Topo IV cleavage activity in the Escherichia coli genome with Topo-Seq. Front Microbiol 2023;14:1160736. PMID: 37089538
  • Zhang P, Zhao Y, Xia X, Mei S et al. Expression of OLR1 gene on tumor-associated macrophages of head and neck squamous cell carcinoma, and its correlation with clinical outcome. Oncoimmunology 2023;12(1):2203073. PMID: 37089448
  • Liu H, Yu Z, Liu Y, Li M et al. Investigation of Diagnostic and Prognostic Value of CLEC4M of Non-Small Cell Lung Carcinoma Associated with Immune Microenvironment. Int J Gen Med 2023;16:1317-1332. PMID: 37089135
  • Radzikowska U, Eljaszewicz A, Tan G, Stocker N et al. Rhinovirus-induced epithelial RIG-I inflammasome suppresses antiviral immunity and promotes inflammation in asthma and COVID-19. Nat Commun 2023 Apr 22;14(1):2329. PMID: 37087523
  • Fan X, Yang X, Guo N, Gao X et al. Development of an endoplasmic reticulum stress-related signature with potential implications in prognosis and immunotherapy in head and neck squamous cell carcinoma. Diagn Pathol 2023 Apr 22;18(1):51. PMID: 37087456
  • Poganik JR, Zhang B, Baht GS, Tyshkovskiy A et al. Biological age is increased by stress and restored upon recovery. Cell Metab 2023 May 2;35(5):807-820.e5. PMID: 37086720
  • Cao S, Feng H, Yi H, Pan M et al. Single-cell RNA sequencing reveals the developmental program underlying proximal-distal patterning of the human lung at the embryonic stage. Cell Res 2023 Jun;33(6):421-433. PMID: 37085732
  • El Hadi C, Hilal G, Aoun R et al. Enhancing cancer treatment and understanding through clustering of gene responses to categorical stressors. Sci Rep 2023 Apr 21;13(1):6517. PMID: 37085609
  • Okonechnikov K, Camgöz A, Chapman O, Wani S et al. 3D genome mapping identifies subgroup-specific chromosome conformations and tumor-dependency genes in ependymoma. Nat Commun 2023 Apr 21;14(1):2300. PMID: 37085539
  • Ali Hossain M, Asa TA, Rabiul Auwul M, Aktaruzzaman M et al. The pathogenetic influence of smoking on SARS-CoV-2 infection: Integrative transcriptome and regulomics analysis of lung epithelial cells. Comput Biol Med 2023 Jun;159:106885. PMID: 37084641
  • Liu K, Xu X, Bai D, Li Y et al. Bilineage embryo-like structure from EPS cells can produce live mice with tetraploid trophectoderm. Protein Cell 2023 Apr 21;14(4):262-278. PMID: 37084236
  • Kumagai Y, Saito Y, Kida YS et al. A Multiomics Atlas of Brown Adipose Tissue Development Over Time. Endocrinology 2023 Apr 17;164(6). PMID: 37083724
  • Xu W, Yu H, Chen D, Pan W et al. Identifying the potential transcriptional regulatory network in Hirschsprung disease by integrated analysis of microarray datasets. World J Pediatr Surg 2023;6(2):e000547. PMID: 37082700
  • Kang X, Zhang K, Wang Y, Zhao Y et al. Single-cell RNA sequencing analysis of human chondrocytes reveals cell-cell communication alterations mediated by interactive signaling pathways in osteoarthritis. Front Cell Dev Biol 2023;11:1099287. PMID: 37082621
  • Liao C, Moyses-Oliveira M, De Esch CEF, Bhavsar R et al. Convergent coexpression of autism-associated genes suggests some novel risk genes may not be detectable in large-scale genetic studies. Cell Genom 2023 Apr 12;3(4):100277. PMID: 37082147
  • Marlétaz F, Couloux A, Poulain J, Labadie K et al. Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes. Cell Genom 2023 Apr 12;3(4):100295. PMID: 37082140
  • Martínez-Zamudio RI, Stefa A, Nabuco Leva Ferreira Freitas JA, Vasilopoulos T et al. Escape from oncogene-induced senescence is controlled by POU2F2 and memorized by chromatin scars. Cell Genom 2023 Apr 12;3(4):100293. PMID: 37082139
  • Bouzid A, Al Ani M, de la Fuente D, Al Shareef ZM et al. Identification of p53-target genes in human papillomavirus-associated head and neck cancer by integrative bioinformatics analysis. Front Oncol 2023;13:1128753. PMID: 37081989
  • Chang W, Li H, Cheng Y, He H et al. Construction and validation of a T cell proliferation regulator-related signature for predicting prognosis and immunotherapy response in lung adenocarcinoma. Front Immunol 2023;14:1171145. PMID: 37081889
  • Chen J, Sun M, Chen C, Kang M et al. Construction of a novel anoikis-related prognostic model and analysis of its correlation with infiltration of immune cells in neuroblastoma. Front Immunol 2023;14:1135617. PMID: 37081871
  • Yu X, Xie L, Ge J, Li H et al. Integrating single-cell RNA-seq and spatial transcriptomics reveals MDK-NCL dependent immunosuppressive environment in endometrial carcinoma. Front Immunol 2023;14:1145300. PMID: 37081869
  • Mohammadi E, Chojnowska K, Bieńkowski M, Kostecka A et al. Size matters: the impact of nucleus size on results from spatial transcriptomics. J Transl Med 2023 Apr 21;21(1):270. PMID: 37081484
  • Zhang Z, Wang J, Han W, Zhao L et al. Novel chemokine related LncRNA signature correlates with the prognosis, immune landscape, and therapeutic sensitivity of esophageal squamous cell cancer. BMC Gastroenterol 2023 Apr 20;23(1):132. PMID: 37081402
  • Wang Y, Li Y, Skuland T, Zhou C et al. The RNA m(6)A landscape of mouse oocytes and preimplantation embryos. Nat Struct Mol Biol 2023 May;30(5):703-709. PMID: 37081317
  • Corria-Osorio J, Carmona SJ, Stefanidis E, Andreatta M et al. Orthogonal cytokine engineering enables novel synthetic effector states escaping canonical exhaustion in tumor-rejecting CD8(+) T cells. Nat Immunol 2023 May;24(5):869-883. PMID: 37081150
  • Chen L, Zhang W, Chen D, Yang Q et al. RBM4 dictates ESCC cell fate switch from cellular senescence to glutamine-addiction survival through inhibiting LKB1-AMPK-axis. Signal Transduct Target Ther 2023 Apr 21;8(1):159. PMID: 37080995
  • Wu Y, Gettler K, Kars ME, Giri M et al. Identifying high-impact variants and genes in exomes of Ashkenazi Jewish inflammatory bowel disease patients. Nat Commun 2023 Apr 20;14(1):2256. PMID: 37080976
  • Caratti G, Stifel U, Caratti B, Jamil AJM et al. Glucocorticoid activation of anti-inflammatory macrophages protects against insulin resistance. Nat Commun 2023 Apr 20;14(1):2271. PMID: 37080971
  • Ziff OJ, Neeves J, Mitchell J, Tyzack G et al. Integrated transcriptome landscape of ALS identifies genome instability linked to TDP-43 pathology. Nat Commun 2023 Apr 20;14(1):2176. PMID: 37080969
  • He XY, Fan X, Qu L, Wang X et al. LncRNA modulates Hippo-YAP signaling to reprogram iron metabolism. Nat Commun 2023 Apr 20;14(1):2253. PMID: 37080959
  • Hu Z, Jin X, Hong W, Sui Q et al. Dissecting the single-cell transcriptome network of macrophage and identifies a signature to predict prognosis in lung adenocarcinoma. Cell Oncol (Dordr) 2023 Apr 20;:1-18. PMID: 37079186
  • Hüther P, Hagmann J, Nunn A, Kakoulidou I et al. MethylScore, a pipeline for accurate and context-aware identification of differentially methylated regions from population-scale plant whole-genome bisulfite sequencing data. Quant Plant Biol 2022;3:e19. PMID: 37077980
  • Zhou J, Shi S, Qiu Y, Jin Z et al. Integrative bioinformatics approaches to establish potential prognostic immune-related genes signature and drugs in the non-small cell lung cancer microenvironment. Front Pharmacol 2023;14:1153565. PMID: 37077811
  • Wang X, Zhou J, Li Z, Chen X et al. A novel pyroptosis-related prognostic signature for lung adenocarcinoma: Identification and multi-angle verification. Front Genet 2023;14:1160915. PMID: 37077542
  • Xiao Y, Zhang Y, Wang C, Ge Y et al. The use of multiple datasets to identify autophagy-related molecular mechanisms in intracerebral hemorrhage. Front Genet 2023;14:1032639. PMID: 37077541
  • Nix JL, Schettini GP, Biase FH et al. Sexing of cattle embryos using RNA-sequencing data or polymerase chain reaction based on a complete sequence of cattle chromosome Y. Front Genet 2023;14:1038291. PMID: 37077537
  • Zhou H, He Y, Huang Y, Li R et al. Comprehensive analysis of prognostic value, immune implication and biological function of CPNE1 in clear cell renal cell carcinoma. Front Cell Dev Biol 2023;11:1157269. PMID: 37077419
  • Jin J, Ren P, Li X, Zhang Y et al. Ovulatory signal-triggered chromatin remodeling in ovarian granulosa cells by HDAC2 phosphorylation activation-mediated histone deacetylation. Epigenetics Chromatin 2023 Apr 19;16(1):11. PMID: 37076890
  • Janizek JD, Spiro A, Celik S, Blue BW et al. PAUSE: principled feature attribution for unsupervised gene expression analysis. Genome Biol 2023 Apr 19;24(1):81. PMID: 37076856
  • Chen X, Lu T, Cai Y, Han Y et al. KIAA1429-mediated m6A modification of CHST11 promotes progression of diffuse large B-cell lymphoma by regulating Hippo-YAP pathway. Cell Mol Biol Lett 2023 Apr 19;28(1):32. PMID: 37076815
  • Scarborough JA, Eschrich SA, Torres-Roca J, Dhawan A et al. Exploiting convergent phenotypes to derive a pan-cancer cisplatin response gene expression signature. NPJ Precis Oncol 2023 Apr 19;7(1):38. PMID: 37076665
  • Lee JH, Wang LC, Lin YT, Yang YH et al. Differentially expressed microRNAs in peripheral blood cell are associated with downregulated expression of IgE in nonallergic childhood asthma. Sci Rep 2023 Apr 19;13(1):6381. PMID: 37076662
  • Sun Q, Lee W, Hu H, Ogawa T et al. Dedifferentiation maintains melanocyte stem cells in a dynamic niche. Nature 2023 Apr;616(7958):774-782. PMID: 37076619
  • Maurya NS, Kushwah S, Kushwaha S, Chawade A et al. Prognostic model development for classification of colorectal adenocarcinoma by using machine learning model based on feature selection technique boruta. Sci Rep 2023 Apr 19;13(1):6413. PMID: 37076536
  • Lv W, He X, Wang Y, Zhao C et al. A novel immune score model predicting the prognosis and immunotherapy response of breast cancer. Sci Rep 2023 Apr 19;13(1):6403. PMID: 37076508
  • Goh GYS, Beigi A, Yan J, Doering KRS et al. Mediator subunit MDT-15 promotes expression of propionic acid breakdown genes to prevent embryonic lethality in Caenorhabditis elegans. G3 (Bethesda) 2023 Jun 1;13(6). PMID: 37075089
  • Bouck EG, Arvanitis M, Osburn WO, Sang Y et al. High risk oral contraceptive hormones do not directly enhance endothelial cell procoagulant activity in vitro. PLoS One 2023;18(4):e0284333. PMID: 37075041
  • Zhou T, Gilliam NJ, Li S, Spandau S et al. Generation and Functional Analysis of Defective Viral Genomes during SARS-CoV-2 Infection. mBio 2023 Jun 27;14(3):e0025023. PMID: 37074178
  • Chen XH, Yang MK, Li YY, Xie ZX et al. Improving the genome and proteome annotations of the marine model diatom Thalassiosira pseudonana using a proteogenomics strategy. Mar Life Sci Technol 2023 Feb;5(1):102-115. PMID: 37073328
  • Guaita-Cespedes M, Grillo-Risco R, Hidalgo MR, Fernández-Veledo S et al. Deciphering the sex bias in housekeeping gene expression in adipose tissue: a comprehensive meta-analysis of transcriptomic studies. Biol Sex Differ 2023 Apr 18;14(1):20. PMID: 37072826
  • Hosseini-Gerami L, Higgins IA, Collier DA, Laing E et al. Benchmarking causal reasoning algorithms for gene expression-based compound mechanism of action analysis. BMC Bioinformatics 2023 Apr 18;24(1):154. PMID: 37072707
  • Chang YW, Tony Yang T, Chen MC, Liaw YG et al. Spatial and temporal dynamics of ATP synthase from mitochondria toward the cell surface. Commun Biol 2023 Apr 18;6(1):427. PMID: 37072500
  • Zhu QYBioinformatics analysis of the pathogenic link between Epstein-Barr virus infection, systemic lupus erythematosus and diffuse large B cell lymphoma. Sci Rep 2023 Apr 18;13(1):6310. PMID: 37072474
  • Ahn SH, Kim JH et al. Factor-specific generative pattern from large-scale drug-induced gene expression profile. Sci Rep 2023 Apr 18;13(1):6339. PMID: 37072452
  • Tian H, Liu C, Yu J, Han J et al. PHF14 enhances DNA methylation of SMAD7 gene to promote TGF-β-driven lung adenocarcinoma metastasis. Cell Discov 2023 Apr 18;9(1):41. PMID: 37072414
  • Chen Y, Zhang X, Jiang J, Luo M et al. Regulation of Miwi-mediated mRNA stabilization by Ck137956/Tssa is essential for male fertility. BMC Biol 2023 Apr 17;21(1):89. PMID: 37069605
  • Mawla AM, van der Meulen T, Huising MO et al. Chromatin accessibility differences between alpha, beta, and delta cells identifies common and cell type-specific enhancers. BMC Genomics 2023 Apr 17;24(1):202. PMID: 37069576
  • Wang H, Wang Y, Li J, He Z et al. Three tyrosine kinase inhibitors cause cardiotoxicity by inducing endoplasmic reticulum stress and inflammation in cardiomyocytes. BMC Med 2023 Apr 17;21(1):147. PMID: 37069550
  • Lietz K, Saremi B, Wiese L et al. Genealyzer: web application for the analysis and comparison of gene expression data. BMC Bioinformatics 2023 Apr 17;24(1):150. PMID: 37069540
  • Chu Z, Yang S, Li Q, Shang J et al. The V protein in oncolytic Newcastle disease virus promotes HepG2 hepatoma cell proliferation at the single-cell level. BMC Cancer 2023 Apr 17;23(1):346. PMID: 37069523
  • Duperron MG, Knol MJ, Le Grand Q, Evans TE et al. Genomics of perivascular space burden unravels early mechanisms of cerebral small vessel disease. Nat Med 2023 Apr;29(4):950-962. PMID: 37069360
  • Long Q, Li G, Dong Q, Wang M et al. Landscape of co-expressed genes between the myocardium and blood in sepsis and ceRNA network construction: a bioinformatic approach. Sci Rep 2023 Apr 17;13(1):6221. PMID: 37069215
  • Becker LJ, Fillinger C, Waegaert R, Journée SH et al. The basolateral amygdala-anterior cingulate pathway contributes to depression-like behaviors and comorbidity with chronic pain behaviors in male mice. Nat Commun 2023 Apr 17;14(1):2198. PMID: 37069164
  • Wan C, Ji Z et al. Integrating multiple single-cell multi-omics samples with Smmit. bioRxiv 2023 Apr 6 PMID: 37066420
  • Xiang G, He X, Giardine BM, Weaver KJ et al. Cross-species regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes. bioRxiv 2023 Apr 4 PMID: 37066352
  • Zheng J, Wang L, Zhao S, Zhang W et al. TREM2 mediates MHCII-associated CD4 (+) T cell response against gliomas. bioRxiv 2023 Apr 6 PMID: 37066234
  • Wang Q, Zhao Y, Wang F, Tan G et al. Clustering and machine learning-based integration identify cancer associated fibroblasts genes' signature in head and neck squamous cell carcinoma. Front Genet 2023;14:1111816. PMID: 37065499
  • Yang Z, He M, Zhang Q, Li S et al. Exploring the bi-directional relationship and shared genes between depression and stroke via NHANES and bioinformatic analysis. Front Genet 2023;14:1004457. PMID: 37065487
  • Yan J, Ye G, Shao Y, Zhou H et al. Identification of novel prognostic biomarkers in the TF-enhancer-target regulatory network in hepatocellular carcinoma and immune infiltration analysis. Front Genet 2023;14:1158341. PMID: 37065474
  • Zhao M, Lei Y, Zhou Y, Sun M et al. Development and investigation of metabolism-associated risk assessment models for patients with viral hepatitis. Front Cell Infect Microbiol 2023;13:1165647. PMID: 37065201
  • Tsaturyan V, Manvelyan A, Balayan M, Harutyunyan N et al. Host genetics and gut microbiota composition: Baseline gut microbiota composition as a possible prognostic factor for the severity of COVID-19 in patients with familial Mediterranean fever disease. Front Microbiol 2023;14:1107485. PMID: 37065143
  • Jan SM, Fahira A, Shi Y, Khan MI et al. Integrative Genomic Analysis of m6a-SNPs Identifies Potential Functional Variants Associated with Alzheimer's Disease. ACS Omega 2023 Apr 11;8(14):13332-13341. PMID: 37065064
  • Guo Y, He Z, Chen Z, Chen F et al. Inhibition of Th17 cells by donepezil ameliorates experimental lung fibrosis and pulmonary hypertension. Theranostics 2023;13(6):1826-1842. PMID: 37064881
  • Liu X, Xie F, Ding J, Li S et al. Systematic pan-cancer analysis identifies gasdermin B as an immunological and prognostic biomarker for kidney renal clear cell carcinoma. Front Oncol 2023;13:1164214. PMID: 37064151
  • Ding X, Yao T, Liu X, Fan Z et al. A macropinocytosis-related gene signature predicts the prognosis and immune microenvironment in hepatocellular carcinoma. Front Oncol 2023;13:1143013. PMID: 37064147
  • Yu Y, Wang H, Yang JJ, Fang S et al. A novel scoring system for the quantitative prediction of prognosis in acute myeloid leukemia. Front Oncol 2023;13:1144403. PMID: 37064135
  • Yuan L, Liu J, Bao L, Qu H et al. Upregulation of the ferroptosis-related STEAP3 gene is a specific predictor of poor triple-negative breast cancer patient outcomes. Front Oncol 2023;13:1032364. PMID: 37064114
  • Liu C, Zeng J, Wu J, Wang J et al. Identification and validation of key genes associated with atrial fibrillation in the elderly. Front Cardiovasc Med 2023;10:1118686. PMID: 37063972
  • Ding Y, Yang Y, Xue L et al. Immune cells and their related genes provide a new perspective on the common pathogenesis of ankylosing spondylitis and inflammatory bowel diseases. Front Immunol 2023;14:1137523. PMID: 37063924
  • Liu R, Liu Y, Zhang F, Wei J et al. A cuproptosis random forest cox score model-based evaluation of prognosis, mutation characterization, immune infiltration, and drug sensitivity in hepatocellular carcinoma. Front Immunol 2023;14:1146411. PMID: 37063920
  • Lücke J, Nawrocki M, Schnell J, Meins N et al. TNFα aggravates detrimental effects of SARS-CoV-2 infection in the liver. Front Immunol 2023;14:1151937. PMID: 37063909
  • Li J, Liu X, Wang J, Wang F et al. Identification of immunodiagnostic blood biomarkers associated with spinal cord injury severity. Front Immunol 2023;14:1101564. PMID: 37063890
  • Chen H, Yang W, Ji Z et al. Machine learning-based identification of tumor-infiltrating immune cell-associated model with appealing implications in improving prognosis and immunotherapy response in bladder cancer patients. Front Immunol 2023;14:1171420. PMID: 37063886
  • Cai Y, Zuo X, Zuo Y, Wu S et al. Transcriptomic analysis reveals shared gene signatures and molecular mechanisms between obesity and periodontitis. Front Immunol 2023;14:1101854. PMID: 37063877
  • Deng YX, Liu K, Qiu QX, Tang ZY et al. Identification and validation of hub genes in drug induced acute kidney injury basing on integrated transcriptomic analysis. Front Immunol 2023;14:1126348. PMID: 37063876
  • Liu Y, Lu S, Sun Y, Wang F et al. Deciphering the role of QPCTL in glioma progression and cancer immunotherapy. Front Immunol 2023;14:1166377. PMID: 37063864
  • Hua T, Liu DX, Zhang XC, Li ST et al. CD4+ conventional T cells-related genes signature is a prognostic indicator for ovarian cancer. Front Immunol 2023;14:1151109. PMID: 37063862
  • Chen X, Ding Q, Lin T, Sun Y et al. An immune-related prognostic model predicts neoplasm-immunity interactions for metastatic nasopharyngeal carcinoma. Front Immunol 2023;14:1109503. PMID: 37063853
  • Chen X, Wang X, Cui Z, Luo Q et al. M1 Microglia-derived Exosomes Promote Activation of Resting Microglia and Amplifies Proangiogenic Effects through Irf1/miR-155-5p/Socs1 Axis in the Retina. Int J Biol Sci 2023;19(6):1791-1812. PMID: 37063422
  • Yang M, Wang X, Ye Z, Liu T et al. Mitochondrial creatine kinase 1 regulates the cell cycle in non-small cell lung cancer via activation of cyclin-dependent kinase 4. Respir Res 2023 Apr 15;24(1):111. PMID: 37061730
  • Ruan Y, Wang J, Yu M, Wang F et al. A multi-omics integrative analysis based on CRISPR screens re-defines the pluripotency regulatory network in ESCs. Commun Biol 2023 Apr 14;6(1):410. PMID: 37059858
  • Lismer A, Kimmins S et al. Emerging evidence that the mammalian sperm epigenome serves as a template for embryo development. Nat Commun 2023 Apr 14;14(1):2142. PMID: 37059740
  • Austin RJ, Straube J, Halder R, Janardhanan Y et al. Oncogenic drivers dictate immune control of acute myeloid leukemia. Nat Commun 2023 Apr 14;14(1):2155. PMID: 37059710
  • Lee AJ, Kim C, Park S, Joo J et al. Characterization of altered molecular mechanisms in Parkinson's disease through cell type-resolved multiomics analyses. Sci Adv 2023 Apr 14;9(15):eabo2467. PMID: 37058563
  • Dinda M, Fine RD, Saha S, Wang Z et al. Fob1-dependent condensin recruitment and loop extrusion on yeast chromosome III. PLoS Genet 2023 Apr;19(4):e1010705. PMID: 37058545
  • Tomofuji K, Kondo J, Onuma K, Coppo R et al. Hepatocyte differentiation from mouse liver ductal organoids by transducing 4 liver-specific transcription factors. Hepatol Commun 2023 May 1;7(5). PMID: 37058099
  • Zhu J, Wang W, Ma Y, Zhao J et al. Development and validation of a gene-based classification model for pN2 lung adenocarcinoma. Transl Lung Cancer Res 2023 Mar 31;12(3):494-509. PMID: 37057107
  • Sun Z, Lin J, Zhang T, Sun X et al. Combining bioinformatics and machine learning to identify common mechanisms and biomarkers of chronic obstructive pulmonary disease and atrial fibrillation. Front Cardiovasc Med 2023;10:1121102. PMID: 37057099
  • Zhu G, Gao Y, Qian J, Lai Y et al. Comprehensive analysis of atherosclerotic plaques reveals crucial genes and molecular mechanisms associated with plaque progression and rupture. Front Cardiovasc Med 2023;10:951242. PMID: 37057098
  • Zhong C, Long Z, Yang T, Wang S et al. M6A-modified circRBM33 promotes prostate cancer progression via PDHA1-mediated mitochondrial respiration regulation and presents a potential target for ARSI therapy. Int J Biol Sci 2023;19(5):1543-1563. PMID: 37056926
  • Xia Y, Wang Y, Hao Y, Shan M et al. Multi-omics integrative analysis reveals the role of tumor necrosis factor superfamily member 4 in keloidal scarring. Am J Transl Res 2023;15(3):1607-1625. PMID: 37056826
  • Liu Y, Shi Z, Zheng J, Zheng Z et al. Establishment and validation of a novel anoikis-related prognostic signature of clear cell renal cell carcinoma. Front Immunol 2023;14:1171883. PMID: 37056778
  • Zhang K, Yuan E et al. Combined analysis of bulk and single-cell RNA sequencing reveals novel natural killer cell-related prognostic biomarkers for predicting immunotherapeutic response in hepatocellular carcinoma. Front Immunol 2023;14:1142126. PMID: 37056756
  • Xu D, Cao M, Wang B, Bi X et al. Epigenetically regulated lncRNAs dissect the intratumoural heterogeneity and facilitate immune evasion of glioblastomas. Theranostics 2023;13(5):1490-1505. PMID: 37056564
  • Weber C, Hirst MB, Ernest B, Schaub NJ et al. SEQUIN is an R/Shiny framework for rapid and reproducible analysis of RNA-seq data. Cell Rep Methods 2023 Mar 27;3(3):100420. PMID: 37056373
  • Hu C, Yan L, Li P, Yu Y et al. Identification of calcium metabolism related score associated with the poor outcome in papillary thyroid carcinoma. Front Oncol 2023;13:1108773. PMID: 37056339
  • Benzon B, Marijan S, Pervan M, Čikeš Čulić V et al. Eta polycaprolactone (ε-PCL) implants appear to cause a partial differentiation of breast cancer lung metastasis in a murine model. BMC Cancer 2023 Apr 13;23(1):343. PMID: 37055783
  • He M, Tao K, Xiang M, Sun J et al. Hpgd affects the progression of hypoxic pulmonary hypertension by regulating vascular remodeling. BMC Pulm Med 2023 Apr 13;23(1):116. PMID: 37055764
  • Klein DC, Troy K, Tripplehorn SA, Hainer SJ et al. The esBAF and ISWI nucleosome remodeling complexes influence occupancy of overlapping dinucleosomes and fragile nucleosomes in murine embryonic stem cells. BMC Genomics 2023 Apr 13;24(1):201. PMID: 37055726
  • Kim DJ, Anandh S, Null JL, Przanowski P et al. Priming a vascular-selective cytokine response permits CD8(+) T-cell entry into tumors. Nat Commun 2023 Apr 14;14(1):2122. PMID: 37055433
  • Sanchez-Moral L, Paul T, Martori C, Font-Díaz J et al. Macrophage CD5L is a target for cancer immunotherapy. EBioMedicine 2023 May;91:104555. PMID: 37054630
  • Zhong W, Feng L, Tian W, Qu H et al. SMURF1 inhibits the Th17 and Th17.1 polarization and improves the Treg/Th17 imbalance in systemic lupus erythematosus through the ubiquitination of RORγt. Mol Immunol 2023 May;157:186-194. PMID: 37054520
  • Ayaz H, Aslam N, Awan FM, Basri R et al. Mapping CircRNA-miRNA-mRNA regulatory axis identifies hsa_circ_0080942 and hsa_circ_0080135 as a potential theranostic agents for SARS-CoV-2 infection. PLoS One 2023;18(4):e0283589. PMID: 37053191
  • Lu L, Wang JR, Henderson YC, Bai S et al. Anaplastic transformation in thyroid cancer revealed by single-cell transcriptomics. J Clin Invest 2023 Jun 1;133(11). PMID: 37053016
  • Chen S, Zhuang Q, Li P, Zeng J et al. The long non-coding RNA KLF3-AS1/miR-10a-3p/ZBTB20 axis improves the degenerative changes in human nucleus pulposus cells. Cell Tissue Res 2023 Jul;393(1):97-109. PMID: 37052702
  • Zhang D, Luo L, Lu F, Li B et al. Transcriptional landscape of myasthenia gravis revealed by weighted gene coexpression network analysis. Front Genet 2023;14:1106359. PMID: 37051601
  • Chen C, Wang J, Dong C, Lim D et al. Development of a risk model to predict prognosis in breast cancer based on cGAS-STING-related genes. Front Genet 2023;14:1121018. PMID: 37051596
  • Liu J, Zhang B, Zhu G, Liu C et al. Discovering genetic linkage between periodontitis and type 1 diabetes: A bioinformatics study. Front Genet 2023;14:1147819. PMID: 37051594
  • Zhu J, Xu X, Jiang M, Yang F et al. Comprehensive characterization of ferroptosis in hepatocellular carcinoma revealing the association with prognosis and tumor immune microenvironment. Front Oncol 2023;13:1145380. PMID: 37051544
  • Chen Y, Zhu Y, Dong Y, Li H et al. A pyroptosis-related gene signature for prognosis prediction in hepatocellular carcinoma. Front Oncol 2023;13:1085188. PMID: 37051536
  • Das M, David D, Horo I, Van Hooij A et al. Mycobacterium leprae and host immune transcriptomic signatures for reactional states in leprosy. Front Microbiol 2023;14:1113318. PMID: 37051521
  • Fenelon KD, Gao F, Borad P, Abbasi S et al. Cell-specific occupancy dynamics between the pioneer-like factor Opa/ZIC and Ocelliless/OTX regulate early head development in embryos. Front Cell Dev Biol 2023;11:1126507. PMID: 37051467
  • Floy ME, Shabnam F, Givens SE, Patil VA et al. Identifying molecular and functional similarities and differences between human primary cardiac valve interstitial cells and ventricular fibroblasts. Front Bioeng Biotechnol 2023;11:1102487. PMID: 37051268
  • Sun L, Liu Z, Wu Z, Ning K et al. Molecular subtype identification and signature construction based on Golgi apparatus-related genes for better prediction prognosis and immunotherapy response in hepatocellular carcinoma. Front Immunol 2023;14:1113455. PMID: 37051238
  • Chen H, Xia Z, Qing B, Wang W et al. Analysis of necroptosis-related prognostic genes and immune infiltration in idiopathic pulmonary fibrosis. Front Immunol 2023;14:1119139. PMID: 37051233
  • Wang S, Greenbaum J, Qiu C, Gong Y et al. Single-cell RNA sequencing reveals in vivo osteoimmunology interactions between the immune and skeletal systems. Front Endocrinol (Lausanne) 2023;14:1107511. PMID: 37051201
  • Wang P, Zhu L, Li Z, Cheng M et al. Genome-Wide Identification of the U-Box E3 Ubiquitin Ligase Gene Family in Cabbage (Brassica oleracea var. capitata) and Its Expression Analysis in Response to Cold Stress and Pathogen Infection. Plants (Basel) 2023 Mar 24;12(7). PMID: 37050063
  • Hsu WT, Williamson P, Khatkar MS et al. Identification of Genomic Signatures in Bullmastiff Dogs Using Composite Selection Signals Analysis of 23 Purebred Clades. Animals (Basel) 2023 Mar 24;13(7). PMID: 37048405
  • Kuzelova A, Dupacova N, Antosova B, Sunny SS et al. Chromatin Remodeling Enzyme Snf2h Is Essential for Retinal Cell Proliferation and Photoreceptor Maintenance. Cells 2023 Mar 28;12(7). PMID: 37048108
  • Boronat-Toscano A, Vañó I, Monfort-Ferré D, Menacho M et al. Smoking Suppresses the Therapeutic Potential of Adipose Stem Cells in Crohn's Disease Patients through Epigenetic Changes. Cells 2023 Mar 27;12(7). PMID: 37048094
  • Tian J, Cheng C, Gao J, Fu G et al. POLD1 as a Prognostic Biomarker Correlated with Cell Proliferation and Immune Infiltration in Clear Cell Renal Cell Carcinoma. Int J Mol Sci 2023 Apr 6;24(7). PMID: 37047824
  • Xu Z, Yan Y, Gu B, Cai W et al. Up-Regulation of microRNA-424 Causes an Imbalance in AKT Phosphorylation and Impairs Enteric Neural Crest Cell Migration in Hirschsprung Disease. Int J Mol Sci 2023 Apr 4;24(7). PMID: 37047673
  • Ioannou I, Chatziantoniou A, Drenios C, Christodoulou P et al. Signatures of Co-Deregulated Genes and Their Transcriptional Regulators in Kidney Cancers. Int J Mol Sci 2023 Mar 31;24(7). PMID: 37047552
  • Zheng H, Liang Y, Hong B, Xu Y et al. Genome-Scale Analysis of the Grapevine KCS Genes Reveals Its Potential Role in Male Sterility. Int J Mol Sci 2023 Mar 30;24(7). PMID: 37047480
  • Zapperi S, La Porta CAM et al. The Response of Triple-Negative Breast Cancer to Neoadjuvant Chemotherapy and the Epithelial-Mesenchymal Transition. Int J Mol Sci 2023 Mar 29;24(7). PMID: 37047393
  • Britsemmer JH, Krause C, Taege N, Geißler C et al. Fatty Acid Induced Hypermethylation in the Slc2a4 Gene in Visceral Adipose Tissue Is Associated to Insulin-Resistance and Obesity. Int J Mol Sci 2023 Mar 29;24(7). PMID: 37047391
  • Sun S, Wang H et al. Reprogramming the Circadian Dynamics of Epileptic Genes in Mouse Temporal Lobe Epilepsy. Int J Mol Sci 2023 Mar 29;24(7). PMID: 37047373
  • Permtermsin C, Lalchungnunga H, Nakjang S, Casement J et al. Identification of TIAM1 as a Potential Synthetic-Lethal-like Gene in a Defined Subset of Hepatocellular Carcinoma. Int J Mol Sci 2023 Mar 28;24(7). PMID: 37047360
  • Bello B, Bundey YN, Bhave R, Khotimchenko M et al. Integrating AI/ML Models for Patient Stratification Leveraging Omics Dataset and Clinical Biomarkers from COVID-19 Patients: A Promising Approach to Personalized Medicine. Int J Mol Sci 2023 Mar 26;24(7). PMID: 37047222
  • Tan C, Li N, Wang Y, Yu X et al. Integrated Physiological and Transcriptomic Analyses Revealed Improved Cold Tolerance in Cucumber (Cucumis sativus L.) by Exogenous Chitosan Oligosaccharide. Int J Mol Sci 2023 Mar 25;24(7). PMID: 37047175
  • Rosa IF, Peçanha APB, Carvalho TRB, Alexandre LS et al. Photobiomodulation Reduces the Cytokine Storm Syndrome Associated with COVID-19 in the Zebrafish Model. Int J Mol Sci 2023 Mar 24;24(7). PMID: 37047078
  • Sharma N, Jaiswal DK, Kumari S, Dash GK et al. Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency. Int J Mol Sci 2023 Mar 23;24(7). PMID: 37047052
  • Dai Z, Zhang J, Xu W, Du P et al. Single-Cell Sequencing-Based Validation of T Cell-Associated Diagnostic Model Genes and Drug Response in Crohn's Disease. Int J Mol Sci 2023 Mar 23;24(7). PMID: 37047025
  • Southekal S, Shakyawar SK, Bajpai P, Elkholy A et al. Molecular Subtyping and Survival Analysis of Osteosarcoma Reveals Prognostic Biomarkers and Key Canonical Pathways. Cancers (Basel) 2023 Apr 4;15(7). PMID: 37046795
  • Guo J, Han X, Li J, Li Z et al. Single-cell transcriptomics in ovarian cancer identify a metastasis-associated cell cluster overexpressed RAB13. J Transl Med 2023 Apr 12;21(1):254. PMID: 37046345
  • Zhao F, Yan Y, Wang Y, Liu Y et al. Splicing complexity as a pivotal feature of alternative exons in mammalian species. BMC Genomics 2023 Apr 12;24(1):198. PMID: 37046221
  • Zhang Y, Sun L, Wang X, Zhou Q et al. Integrative analysis of HASMCs gene expression profile revealed the role of thrombin in the pathogenesis of atherosclerosis. BMC Cardiovasc Disord 2023 Apr 12;23(1):191. PMID: 37046189
  • Marlétaz F, de la Calle-Mustienes E, Acemel RD, Paliou C et al. The little skate genome and the evolutionary emergence of wing-like fins. Nature 2023 Apr;616(7957):495-503. PMID: 37046085
  • Weinstock JS, Gopakumar J, Burugula BB, Uddin MM et al. Aberrant activation of TCL1A promotes stem cell expansion in clonal haematopoiesis. Nature 2023 Apr;616(7958):755-763. PMID: 37046083
  • Shi Y, Niu Y, Zhang P, Luo H et al. Characterization of genome-wide STR variation in 6487 human genomes. Nat Commun 2023 Apr 12;14(1):2092. PMID: 37045857
  • Onyshchenko K, Luo R, Guffart E, Gaedicke S et al. Expansion of circulating stem-like CD8(+) T cells by adding CD122-directed IL-2 complexes to radiation and anti-PD1 therapies in mice. Nat Commun 2023 Apr 12;14(1):2087. PMID: 37045833
  • Inaba A, Tuong ZK, Zhao TX, Stewart AP et al. Low-dose IL-2 enhances the generation of IL-10-producing immunoregulatory B cells. Nat Commun 2023 Apr 12;14(1):2071. PMID: 37045832
  • Alburquerque-Bejar JJ, Navajas-Chocarro P, Saigi M, Ferrero-Andres A et al. MYC activation impairs cell-intrinsic IFNγ signaling and confers resistance to anti-PD1/PD-L1 therapy in lung cancer. Cell Rep Med 2023 Apr 18;4(4):101006. PMID: 37044092
  • Jiang Y, Yang J, Liang R, Zan X et al. Single-cell RNA sequencing highlights intratumor heterogeneity and intercellular network featured in adamantinomatous craniopharyngioma. Sci Adv 2023 Apr 14;9(15):eadc8933. PMID: 37043580
  • Hsu PL, Chien CW, Tang YA, Lin BW et al. Targeting BRD3 eradicates nuclear TYRO3-induced colorectal cancer metastasis. Sci Adv 2023 Apr 14;9(15):eade3422. PMID: 37043564
  • Lee WY, Lee CY, Kim CE et al. Predicting activatory and inhibitory drug-target interactions based on structural compound representations and genetically perturbed transcriptomes. PLoS One 2023;18(4):e0282042. PMID: 37043429
  • Ma Z, Zhong P, Yue P, Sun Z et al. Identification of immune-related molecular markers in intracranial aneurysm (IA) based on machine learning and cytoscape-cytohubba plug-in. BMC Genom Data 2023 Apr 11;24(1):20. PMID: 37041519
  • Xu C, Gu L, Hu L, Jiang C et al. FADS1-arachidonic acid axis enhances arachidonic acid metabolism by altering intestinal microecology in colorectal cancer. Nat Commun 2023 Apr 11;14(1):2042. PMID: 37041160
  • Meškytė EM, Pezzè L, Bartolomei L, Forcato M et al. ETV7 reduces inflammatory responses in breast cancer cells by repressing the TNFR1/NF-κB axis. Cell Death Dis 2023 Apr 12;14(4):263. PMID: 37041130
  • Quon S, Yu B, Russ BE, Tsyganov K et al. DNA architectural protein CTCF facilitates subset-specific chromatin interactions to limit the formation of memory CD8(+) T cells. Immunity 2023 May 9;56(5):959-978.e10. PMID: 37040762
  • Simón-Fuentes M, Herrero C, Acero-Riaguas L, Nieto C et al. TLR7 activation in M-CSF-dependent monocyte-derived human macrophages potentiates inflammatory responses and prompts neutrophil recruitment. J Innate Immun 2023 Apr 11;15(1):517-30. PMID: 37040733
  • Wu JJ, Zhu S, Tang YF, Gu F et al. Age- and Microbiota-Dependent Cell Stemness Plasticity Revealed by Cattle Cell Landscape. Research (Wash D C) 2023;6:0025. PMID: 37040481
  • Depew CE, Rixon JA, McSorley SJ et al. Optimal generation of hepatic tissue-resident memory CD4 T cells requires IL-1 and IL-2. Proc Natl Acad Sci U S A 2023 Apr 18;120(16):e2214699120. PMID: 37040404
  • Gohari K, Kazemnejad A, Mostafaei S, Saberi S et al. Chronic Obstructive Pulmonary Disease: Novel Genes Detection with Penalized Logistic Regression. Cell J 2023 Mar 7;25(3):203-211. PMID: 37038700
  • Zhang W, Young JI, Gomez L, Schmidt MA et al. Distinct CSF biomarker-associated DNA methylation in Alzheimer's disease and cognitively normal subjects. Alzheimers Res Ther 2023 Apr 10;15(1):78. PMID: 37038196
  • Bogomiakova ME, Sekretova EK, Anufrieva KS, Khabarova PO et al. iPSC-derived cells lack immune tolerance to autologous NK-cells due to imbalance in ligands for activating and inhibitory NK-cell receptors. Stem Cell Res Ther 2023 Apr 11;14(1):77. PMID: 37038186
  • Cai X, Han M, Lou F, Sun Y et al. Tenascin C(+) papillary fibroblasts facilitate neuro-immune interaction in a mouse model of psoriasis. Nat Commun 2023 Apr 10;14(1):2004. PMID: 37037861
  • Alagia A, Tereňová J, Ketley RF, Di Fazio A et al. Small vault RNA1-2 modulates expression of cell membrane proteins through nascent RNA silencing. Life Sci Alliance 2023 Jun;6(6). PMID: 37037596
  • Lee B, Hwang S, Kim PG, Ko G et al. Introduction of the Korea BioData Station (K-BDS) for sharing biological data. Genomics Inform 2023 Mar;21(1):e12. PMID: 37037470
  • Samelak-Czajka A, Wojciechowski P, Marszalek-Zenczak M, Figlerowicz M et al. Differences in the intraspecies copy number variation of Arabidopsis thaliana conserved and nonconserved miRNA genes. Funct Integr Genomics 2023 Apr 10;23(2):120. PMID: 37036577
  • Lan Y, Jia Q, Feng M, Zhao P et al. A novel natural killer cell-related signatures to predict prognosis and chemotherapy response of pancreatic cancer patients. Front Genet 2023;14:1100020. PMID: 37035749
  • Yang C, Han Z, Zhan W, Wang Y et al. Predictive investigation of idiopathic pulmonary fibrosis subtypes based on cellular senescence-related genes for disease treatment and management. Front Genet 2023;14:1157258. PMID: 37035748
  • Song J, Ren K, Zhang D, Lv X et al. A novel signature combing cuproptosis- and ferroptosis-related genes in sepsis-induced cardiomyopathy. Front Genet 2023;14:1170737. PMID: 37035738
  • Wang F, Li X, Li C et al. Mitochondrial non-coding RNA in nasopharyngeal carcinoma: Clinical diagnosis and functional analysis. Front Genet 2023;14:1162332. PMID: 37035732
  • Jiang L, Hao S, Lin L, Gao X et al. fRNC: Uncovering the dynamic and condition-specific RBP-ncRNA circuits from multi-omics data. Comput Struct Biotechnol J 2023;21:2276-2285. PMID: 37035550
  • Cha J, Lavi M, Kim J, Shomron N et al. Imputation of single-cell transcriptome data enables the reconstruction of networks predictive of breast cancer metastasis. Comput Struct Biotechnol J 2023;21:2296-2304. PMID: 37035549
  • Tian X, Cao F, Li X, He Y et al. Tumor dormancy is closely related to prognosis prediction and tumor immunity in neuroblastoma. Transl Pediatr 2023 Mar 31;12(3):445-461. PMID: 37035400
  • Ko M, Oh JM, Kim IW et al. Drug repositioning prediction for psoriasis using the adverse event reporting database. Front Med (Lausanne) 2023;10:1159453. PMID: 37035327
  • Liu Z, Zhao X, Wang R, Tang X et al. Heterogeneous pattern of gene expression driven by TTN mutation is involved in the construction of a prognosis model of lung squamous cell carcinoma. Front Oncol 2023;13:916568. PMID: 37035196
  • Lu N, Fu C, Zhang L, You Y et al. Immune microenvironment and clinical feature analyses based on a prognostic model in lymph node-positive breast cancer. Front Oncol 2023;13:1029070. PMID: 37035163
  • Fang Z, Gao ZJ, Yu X, Sun SR et al. Identification of a centrosome-related prognostic signature for breast cancer. Front Oncol 2023;13:1138049. PMID: 37035151
  • Jiang J, Srivastava S, Liu S, Seim G et al. Asparagine starvation suppresses histone demethylation through iron depletion. iScience 2023 Apr 21;26(4):106425. PMID: 37034982
  • Grub LK, Held JP, Hansen TJ, Schaffner SH et al. A role for N6-methyldeoxyadenosine in C. elegans mitochondrial genome regulation. bioRxiv 2023 Mar 29 PMID: 37034795
  • Werner JM, Gillis J et al. Preservation of co-expression defines the primary tissue fidelity of human neural organoids. bioRxiv 2023 Mar 31 PMID: 37034757
  • Jeong R, Bulyk ML et al. Colocalization of blood cell traits GWAS associations and variation in PU.1 genomic occupancy prioritizes causal noncoding regulatory variants. bioRxiv 2023 Mar 30 PMID: 37034747
  • Tung VSK, Mathews F, Boruk M, Suppa G et al. Cultured Mesenchymal Cells from Nasal Turbinate as a Cellular Model of the Neurodevelopmental Component of Schizophrenia Etiology. bioRxiv 2023 Mar 29 PMID: 37034711
  • van den Oord EJ, Guintivano JD, Aberg KA et al. A method to improve the reproducibility of findings from epigenome- and transcriptome-wide association studies. bioRxiv 2023 Mar 31 PMID: 37034675
  • Yanai I, Pountain A, Jiang P, Yao T et al. Transcription-replication interactions reveal principles of bacterial genome regulation. Res Sq 2023 Mar 31 PMID: 37034646
  • Winchester EW, Hardy A, Cotney J et al. Integration of multimodal data in the developing tooth reveals candidate regulatory loci driving human odontogenic phenotypes. Front Dent Med 2022;3. PMID: 37034481
  • Thomas DD, Lacinski RA, Lindsey BA et al. Single-cell RNA-seq reveals intratumoral heterogeneity in osteosarcoma patients: A review. J Bone Oncol 2023 Apr;39:100475. PMID: 37034356
  • Alexander MR, Dale BL, Smart CD, Elijovich F et al. Immune Profiling Reveals Decreases in Circulating Regulatory and Exhausted T Cells in Human Hypertension. JACC Basic Transl Sci 2023 Mar;8(3):319-336. PMID: 37034287
  • Pei J, Tian X, Yu C, Luo J et al. GPX3 and GSTT1 as biomarkers related to oxidative stress during renal ischemia reperfusion injuries and their relationship with immune infiltration. Front Immunol 2023;14:1136146. PMID: 37033969
  • Liu Z, Wan R, Bai H, Wang J et al. Damage-associated molecular patterns and sensing receptors based molecular subtypes in malignant pleural mesothelioma and implications for immunotherapy. Front Immunol 2023;14:1104560. PMID: 37033966
  • Zhu E, Liu Y, Zhong M, Liu Y et al. Targeting NK-1R attenuates renal fibrosis via modulating inflammatory responses and cell fate in chronic kidney disease. Front Immunol 2023;14:1142240. PMID: 37033943
  • Chang W, Li H, Ou W, Wang SY et al. A novel zinc metabolism-related gene signature to predict prognosis and immunotherapy response in lung adenocarcinoma. Front Immunol 2023;14:1147528. PMID: 37033934
  • Pan J, Ma Z, Liu B, Qian H et al. Identification of cancer-associated fibroblasts subtypes in prostate cancer. Front Immunol 2023;14:1133160. PMID: 37033924
  • Guang Z, Min Z, Jun-Tan L, Tian-Xu D et al. Single-cell protein activity analysis reveals a novel subpopulation of chondrocytes and the corresponding key master regulator proteins associated with anti-senescence and OA progression. Front Immunol 2023;14:1077003. PMID: 37033917
  • Ding R, Liu Q, Yu J, Wang Y et al. Identification of Breast Cancer Subtypes by Integrating Genomic Analysis with the Immune Microenvironment. ACS Omega 2023 Apr 4;8(13):12217-12231. PMID: 37033796
  • Du Z, Wang H, Gao Y, Zheng S et al. Exploring the Potential Molecular Mechanism of Sijunzi Decoction in the Treatment of Non-Segmental Vitiligo Based on Network Pharmacology and Molecular Docking. Clin Cosmet Investig Dermatol 2023;16:821-836. PMID: 37033783
  • Denisko D, Viner C, Hoffman MM et al. Motif elucidation in ChIP-seq datasets with a knockout control. Bioinform Adv 2023;3(1):vbad031. PMID: 37033469
  • Zhang P, Pei S, Gong Z, Ren Q et al. The integrated single-cell analysis developed a lactate metabolism-driven signature to improve outcomes and immunotherapy in lung adenocarcinoma. Front Endocrinol (Lausanne) 2023;14:1154410. PMID: 37033259
  • Liu J, Zhang P, Yang F, Jiang K et al. Integrating single-cell analysis and machine learning to create glycosylation-based gene signature for prognostic prediction of uveal melanoma. Front Endocrinol (Lausanne) 2023;14:1163046. PMID: 37033251
  • Tan Y, He Q, Chan KHK et al. Identification of shared genetic architecture between non-alcoholic fatty liver disease and type 2 diabetes: A genome-wide analysis. Front Endocrinol (Lausanne) 2023;14:1050049. PMID: 37033223
  • Zheng Z, Zhan S, Zhou Y, Huang G et al. Pediatric Crohn's disease diagnosis aid via genomic analysis and machine learning. Front Pediatr 2023;11:991247. PMID: 37033178
  • Jiang L, Yu H, Guo Y et al. Modeling the relationship between gene expression and mutational signature. Quant Biol 2023 Mar;11(1):31-43. PMID: 37032811
  • Zhou J, Toh SH, Tan TK, Balan K et al. Super-enhancer-driven TOX2 mediates oncogenesis in Natural Killer/T Cell Lymphoma. Mol Cancer 2023 Apr 10;22(1):69. PMID: 37032358
  • Glancy E, Wang C, Tuck E, Healy E et al. PRC2.1- and PRC2.2-specific accessory proteins drive recruitment of different forms of canonical PRC1. Mol Cell 2023 May 4;83(9):1393-1411.e7. PMID: 37030288
  • Kunhiraman H, McSwain L, Shahab SW, Gershon TR et al. IGFBP2 promotes proliferation and cell migration through STAT3 signaling in Sonic hedgehog medulloblastoma. Acta Neuropathol Commun 2023 Apr 8;11(1):62. PMID: 37029430
  • Coleman K, Hu J, Schroeder A, Lee EB et al. SpaDecon: cell-type deconvolution in spatial transcriptomics with semi-supervised learning. Commun Biol 2023 Apr 7;6(1):378. PMID: 37029267
  • Gurshaney S, Morales-Alvarez A, Ezhakunnel K, Manalo A et al. Metabolic dysregulation impairs lymphocyte function during severe SARS-CoV-2 infection. Commun Biol 2023 Apr 7;6(1):374. PMID: 37029220
  • Martins Nascentes Melo L, Herrera-Rios D, Hinze D, Löffek S et al. Glucocorticoid activation by HSD11B1 limits T cell-driven interferon signaling and response to PD-1 blockade in melanoma. J Immunother Cancer 2023 Apr;11(4). PMID: 37028818
  • Zheng ZQ, Huang ZH, Liang YL, Zheng WH et al. VIRMA promotes nasopharyngeal carcinoma, tumorigenesis, and metastasis by upregulation of E2F7 in an m6A-dependent manner. J Biol Chem 2023 May;299(5):104677. PMID: 37028765
  • Chen HW, Zhu JL, Martyanov V, Tsoi LC et al. Gene Expression Signatures in Inflammatory and Sclerotic Morphea Skin and Sera Distinguish Morphea from Systemic Sclerosis. J Invest Dermatol 2023 Apr 6 PMID: 37028702
  • Lee J, Møller AF, Chae S, Bussek A et al. A single-cell, time-resolved profiling of Xenopus mucociliary epithelium reveals nonhierarchical model of development. Sci Adv 2023 Apr 7;9(14):eadd5745. PMID: 37027470
  • Lv C, Chen K, Zhu L et al. Identification of key genes and potential mechanisms based on the autophagy regulatory network in intervertebral disc degeneration. Medicine (Baltimore) 2023 Apr 7;102(14):e33482. PMID: 37026912
  • Zhang W, Liu L, Xiao X, Zhou H et al. Identification of common molecular signatures of SARS-CoV-2 infection and its influence on acute kidney injury and chronic kidney disease. Front Immunol 2023;14:961642. PMID: 37026010
  • Bensussen A, Torres-Magallanes JA, Roces de Álvarez-Buylla E et al. Molecular tracking of insulin resistance and inflammation development on visceral adipose tissue. Front Immunol 2023;14:1014778. PMID: 37026009
  • Nie Y, Yao G, Xu X, Liu Y et al. Single-cell mapping of N6-methyladenosine in esophageal squamous cell carcinoma and exploration of the risk model for immune infiltration. Front Endocrinol (Lausanne) 2023;14:1155009. PMID: 37025404
  • Chai C, Chen Y, Luo Y, Zhang H et al. Mitochondria-associated gene expression perturbation predicts clinical outcomes and shows potential for targeted therapy in neuroblastoma. Front Pediatr 2023;11:1094926. PMID: 37025299
  • Nabeel-Shah S, Garg J, Ashraf K, Jeyapala R et al. Multilevel interrogation of H3.3 reveals a primordial role in transcription regulation. Epigenetics Chromatin 2023 Apr 7;16(1):10. PMID: 37024975
  • Zhu W, Ding Y, Meng J, Gu L et al. Reading and writing of mRNA m(6)A modification orchestrate maternal-to-zygotic transition in mice. Genome Biol 2023 Apr 6;24(1):67. PMID: 37024923
  • Chen L, Huang H, Huang Z, Chen J et al. Prognostic values of tissue-resident CD8(+)T cells in human hepatocellular carcinoma and intrahepatic cholangiocarcinoma. World J Surg Oncol 2023 Apr 6;21(1):124. PMID: 37024870
  • Li J, Liang H, Xiao W, Wei P et al. Whole-exome mutational landscape and molecular marker study in mucinous and clear cell ovarian cancer cell lines 3AO and ES2. BMC Cancer 2023 Apr 6;23(1):321. PMID: 37024829
  • Jiravejchakul N, Abe GL, Loza M, Park S et al. Intercellular crosstalk in adult dental pulp is mediated by heparin-binding growth factors Pleiotrophin and Midkine. BMC Genomics 2023 Apr 6;24(1):184. PMID: 37024794
  • Narita T, Higashijima Y, Kilic S, Liebner T et al. Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes. Nat Genet 2023 Apr;55(4):679-692. PMID: 37024579
  • Gong L, Luo J, Zhang Y, Yang Y et al. Nasopharyngeal carcinoma cells promote regulatory T cell development and suppressive activity via CD70-CD27 interaction. Nat Commun 2023 Apr 6;14(1):1912. PMID: 37024479
  • Das N, de Almeida LGN, Derakhshani A, Young D et al. Tryptase β regulation of joint lubrication and inflammation via proteoglycan-4 in osteoarthritis. Nat Commun 2023 Apr 6;14(1):1910. PMID: 37024468
  • Zhou Q, Jiang Y, Cai C, Li W et al. Multidimensional conservation analysis decodes the expression of conserved long noncoding RNAs. Life Sci Alliance 2023 Jun;6(6). PMID: 37024123
  • Sun Y, Asano K, Sedes L, Cantalupo A et al. Dissecting aortic aneurysm in Marfan syndrome is associated with losartan-sensitive transcriptomic modulation of aortic cells. JCI Insight 2023 May 22;8(10). PMID: 37022786
  • Lyu L, Li Z, Wen Z, He Y et al. Fate mapping RNA-sequencing reveal Malat1 regulates Sca1(+) progenitor cells to vascular smooth muscle cells transition in vascular remodeling. Cell Mol Life Sci 2023 Apr 6;80(5):118. PMID: 37022488
  • Frantz WT, Iyengar S, Neiswender J, Cousineau A et al. Pigment cell progenitor heterogeneity and reiteration of developmental signaling underlie melanocyte regeneration in zebrafish. Elife 2023 Apr 6;12. PMID: 37021774
  • Ping W, Sheng Y, Hu G, Zhong H et al. RBBP4 is an epigenetic barrier for the induced transition of pluripotent stem cells into totipotent 2C-like cells. Nucleic Acids Res 2023 Jun 23;51(11):5414-5431. PMID: 37021556
  • Chen Y, Sun T, Liu K, Yuan P et al. Exploration of the common genetic landscape of COVID-19 and male infertility. Front Immunol 2023;14:1123913. PMID: 37020555
  • Zhu J, Kong W, Huang L, Bi S et al. Identification of immunotherapy and chemotherapy-related molecular subtypes in colon cancer by integrated multi-omics data analysis. Front Immunol 2023;14:1142609. PMID: 37020539
  • Yang X, Zheng W, Li M, Zhang S et al. Somatic Super-Enhancer Epigenetic Signature for Overall Survival Prediction in Patients with Breast Invasive Carcinoma. Bioinform Biol Insights 2023;17:11779322231162767. PMID: 37020500
  • Yang X, Yu L, Ding Y, Yang M et al. Diagnostic signature composed of seven genes in HIF-1 signaling pathway for preeclampsia. BMC Pregnancy Childbirth 2023 Apr 5;23(1):233. PMID: 37020283
  • Ji L, Shi Y, Bian Q et al. Comparative genomics analyses reveal sequence determinants underlying interspecies variations in injury-responsive enhancers. BMC Genomics 2023 Apr 5;24(1):177. PMID: 37020217
  • Briend M, Rufiange A, Moncla LM, Mathieu S et al. Connectome and regulatory hubs of CAGE highly active enhancers. Sci Rep 2023 Apr 5;13(1):5594. PMID: 37019979
  • Nozaki T, Shinkai S, Ide S, Higashi K et al. Condensed but liquid-like domain organization of active chromatin regions in living human cells. Sci Adv 2023 Apr 5;9(14):eadf1488. PMID: 37018405
  • Zhao Z, Chen Y, Cheng X, Huang L et al. The landscape of cryptic antisense transcription in human cancers reveals an oncogenic noncoding RNA in lung cancer. Sci Adv 2023 Apr 5;9(14):eadf3264. PMID: 37018400
  • Li L, Hu L, Qiao X, Mo R et al. Integrative Analysis of DNA Methylation and Gene Expression Data Identifies Potential Biomarkers and Functional Epigenetic Modules for SARS-CoV-2. Biochem Genet 2023 Apr 5;:1-12. PMID: 37017853
  • Li L, Ye K, Wang D et al. Upregulation of HTRA1 mediated by the lncRNA NEAT1/miR-141-3p axis contributes to endometriosis development through activating NLRP3 inflammasome-mediated pyroptotic cell death and cellular inflammation. In Vitro Cell Dev Biol Anim 2023 Mar;59(3):166-178. PMID: 37017808
  • Zhang L, He C, Lai Y, Wang Y et al. Asymmetric gene expression and cell-type-specific regulatory networks in the root of bread wheat revealed by single-cell multiomics analysis. Genome Biol 2023 Apr 4;24(1):65. PMID: 37016448
  • Jiao J, Ruan L, Cheng CS, Wang F et al. Paired protein kinases PRKCI-RIPK2 promote pancreatic cancer growth and metastasis via enhancing NF-κB/JNK/ERK phosphorylation. Mol Med 2023 Apr 4;29(1):47. PMID: 37016317
  • Pandey RS, Kotredes KP, Sasner M, Howell GR et al. Differential splicing of neuronal genes in a Trem2*R47H mouse model mimics alterations associated with Alzheimer's disease. BMC Genomics 2023 Apr 4;24(1):172. PMID: 37016304
  • Viswanath A, Cutter AD et al. Regulatory Divergence as a Mechanism for X-Autosome Incompatibilities in Caenorhabditis Nematodes. Genome Biol Evol 2023 Apr 6;15(4). PMID: 37014784
  • Li J, Yang J, Xing R, Wang Y et al. A novel inflammation-related signature for predicting prognosis and characterizing the tumor microenvironment in colorectal cancer. Aging (Albany NY) 2023 Apr 2;15(7):2554-2581. PMID: 37014331
  • Hamann MV, Adiba M, Lange UC et al. Confounding factors in profiling of locus-specific human endogenous retrovirus (HERV) transcript signatures in primary T cells using multi-study-derived datasets. BMC Med Genomics 2023 Apr 3;16(1):68. PMID: 37013607
  • Tang W, Shao Q, He Z, Zhang X et al. Clinical significance of nonerythrocytic spectrin Beta 1 (SPTBN1) in human kidney renal clear cell carcinoma and uveal melanoma: a study based on Pan-Cancer Analysis. BMC Cancer 2023 Apr 3;23(1):303. PMID: 37013511
  • Ibañez-Solé O, Barrio I, Izeta A et al. Age or lifestyle-induced accumulation of genotoxicity is associated with a length-dependent decrease in gene expression. iScience 2023 Apr 21;26(4):106368. PMID: 37013186
  • Huang T, Li J, Wang SM et al. Etiological roles of core promoter variation in triple-negative breast cancer. Genes Dis 2023 Jan;10(1):228-238. PMID: 37013029
  • Malhan D, Yalçin M, Schoenrock B, Blottner D et al. Skeletal muscle gene expression dysregulation in long-term spaceflights and aging is clock-dependent. NPJ Microgravity 2023 Apr 3;9(1):30. PMID: 37012297
  • Botos MA, Arora P, Chouvardas P, Mercader N et al. Transcriptomic data meta-analysis reveals common and injury model specific gene expression changes in the regenerating zebrafish heart. Sci Rep 2023 Apr 3;13(1):5418. PMID: 37012284
  • Ma W, Lu J, Wu H et al. Cellcano: supervised cell type identification for single cell ATAC-seq data. Nat Commun 2023 Apr 3;14(1):1864. PMID: 37012226
  • Singh Kakan S, Li X, Edman MC, Okamoto CT et al. The miRNA Landscape of Lacrimal Glands in a Murine Model of Autoimmune Dacryoadenitis. Invest Ophthalmol Vis Sci 2023 Apr 3;64(4):1. PMID: 37010857
  • Yang X, Lu Y, Zhou H, Jiang HT et al. Integrated proteome sequencing, bulk RNA sequencing and single-cell RNA sequencing to identify potential biomarkers in different grades of intervertebral disc degeneration. Front Cell Dev Biol 2023;11:1136777. PMID: 37009470
  • Grunwell JR, Rad MG, Ripple MJ, Yehya N et al. Identification of a pediatric acute hypoxemic respiratory failure signature in peripheral blood leukocytes at 24 hours post-ICU admission with machine learning. Front Pediatr 2023;11:1159473. PMID: 37009294
  • Abdelfatah E, Long MD, Kajihara R, Oba T et al. Predictive and Prognostic Implications of Circulating CX3CR1(+) CD8(+) T Cells in Non-Small Cell Lung Cancer Patients Treated with Chemo-Immunotherapy. Cancer Res Commun 2023 Mar;3(3):510-520. PMID: 37009132
  • Li J, Cui Y, Jin X, Ruan H et al. Significance of pyroptosis-related gene in the diagnosis and classification of rheumatoid arthritis. Front Endocrinol (Lausanne) 2023;14:1144250. PMID: 37008939
  • Zhang S, Zhou J, Wu W, Zhu Y et al. The Role of Bile Acids in Cardiovascular Diseases: from Mechanisms to Clinical Implications. Aging Dis 2023 Apr 1;14(2):261-282. PMID: 37008052
  • Li H, Ma Q, Ren J, Guo W et al. Immune responses of different COVID-19 vaccination strategies by analyzing single-cell RNA sequencing data from multiple tissues using machine learning methods. Front Genet 2023;14:1157305. PMID: 37007947
  • Tao L, Zhu Y, Liu J et al. Identification of new co-diagnostic genes for sepsis and metabolic syndrome using single-cell data analysis and machine learning algorithms. Front Genet 2023;14:1129476. PMID: 37007944
  • Liang ZT, Li JK, Li J, Tang H et al. PECAM1 plays a role in the pathogenesis and treatment of bone metastases. Front Genet 2023;14:1151651. PMID: 37007939
  • Li Y, Wood TK, Zhang W, Li C et al. Purine metabolism regulates Vibrio splendidus persistence associated with protein aggresome formation and intracellular tetracycline efflux. Front Microbiol 2023;14:1127018. PMID: 37007472
  • Wang X, Zuo X, Hu X, Liu Y et al. Identification of cuproptosis-based molecular subtypes, construction of prognostic signature and characterization of immune landscape in colon cancer. Front Oncol 2023;13:927608. PMID: 37007145
  • Helderman RFCPA, Bokan B, van Bochove GGW, Rodermond HM et al. Elevated temperatures and longer durations improve the efficacy of oxaliplatin- and mitomycin C-based hyperthermic intraperitoneal chemotherapy in a confirmed rat model for peritoneal metastasis of colorectal cancer origin. Front Oncol 2023;13:1122755. PMID: 37007077
  • Zheng X, Wu J, Song L, Huang B et al. ACSM3 suppresses proliferation and induces apoptosis and cell cycle arrest in acute myeloid leukemia cells via the regulation of IGF2BP2. Exp Ther Med 2023 Apr;25(4):177. PMID: 37006876
  • Wang X, Bai Y, Zhang F, Li D et al. Prognostic value of COL10A1 and its correlation with tumor-infiltrating immune cells in urothelial bladder cancer: A comprehensive study based on bioinformatics and clinical analysis validation. Front Immunol 2023;14:955949. PMID: 37006317
  • Pichler R, Siska PJ, Tymoszuk P, Martowicz A et al. A chemokine network of T cell exhaustion and metabolic reprogramming in renal cell carcinoma. Front Immunol 2023;14:1095195. PMID: 37006314
  • Liu Z, Liu H, Li D, Ma L et al. Comprehensive analysis of m6A RNA methylation modification patterns and the immune microenvironment in osteoarthritis. Front Immunol 2023;14:1128459. PMID: 37006311
  • Guo J, Han S, Chen Q, Wang T et al. Analysis of potential immune-related genes involved in the pathogenesis of ischemia-reperfusion injury following liver transplantation. Front Immunol 2023;14:1126497. PMID: 37006305
  • Yang J, Zeng L, Chen R, Zheng S et al. Characterization of heterogeneous metabolism in hepatocellular carcinoma identifies new therapeutic target and treatment strategy. Front Immunol 2023;14:1076587. PMID: 37006288
  • Zhang X, Zhuge J, Liu J, Xia Z et al. Prognostic signatures of sphingolipids: Understanding the immune landscape and predictive role in immunotherapy response and outcomes of hepatocellular carcinoma. Front Immunol 2023;14:1153423. PMID: 37006285
  • Chen Z, Wang W, Hua Y et al. Expression patterns of eight RNA-modified regulators correlating with immune infiltrates during the progression of osteoarthritis. Front Immunol 2023;14:1019445. PMID: 37006267
  • Chi H, Zhao S, Yang J, Gao X et al. T-cell exhaustion signatures characterize the immune landscape and predict HCC prognosis via integrating single-cell RNA-seq and bulk RNA-sequencing. Front Immunol 2023;14:1137025. PMID: 37006257
  • Xu X, Ding C, Zhong H, Qin W et al. Integrative analysis revealed that distinct cuprotosis patterns reshaped tumor microenvironment and responses to immunotherapy of colorectal cancer. Front Immunol 2023;14:1165101. PMID: 37006250
  • Yin G, Tian T, Ji X, Zheng S et al. Integrated analysis to identify the prognostic and immunotherapeutic roles of coagulation-associated gene signature in clear cell renal cell carcinoma. Front Immunol 2023;14:1107419. PMID: 37006234
  • Sharma K, Aminian M, Ghosh T, Liu X et al. Using machine learning to determine the time of exposure to infection by a respiratory pathogen. Sci Rep 2023 Apr 1;13(1):5340. PMID: 37005391
  • Barone I, Gelsomino L, Accattatis FM, Giordano F et al. Analysis of circulating extracellular vesicle derived microRNAs in breast cancer patients with obesity: a potential role for Let-7a. J Transl Med 2023 Mar 31;21(1):232. PMID: 37004031
  • Han GH, Yun H, Chung JY, Kim JH et al. High ATP6V1B1 expression is associated with poor prognosis and platinum‑based chemotherapy resistance in epithelial ovarian cancer. Oncol Rep 2023 May;49(5). PMID: 36999629
  • Hao Y, Guy MM, Liu Q, Li R et al. Construction of a prognostic model based on eight ubiquitination-related genes via machine learning and potential therapeutics analysis for cervical cancer. Front Genet 2023;14:1142938. PMID: 36999051
  • Wu H, Feng J, Zhong W, Zouxu X et al. Model for predicting immunotherapy based on M2 macrophage infiltration in TNBC. Front Immunol 2023;14:1151800. PMID: 36999020
  • Chen F, Yang J, Guo Y, Su D et al. Integrating bulk and single-cell RNA sequencing data reveals the relationship between intratumor microbiome signature and host metabolic heterogeneity in breast cancer. Front Immunol 2023;14:1140995. PMID: 36999009
  • Salnikov L, Goldberg S, Rijhwani H, Shi Y et al. The RNA-Seq data analysis shows how the ontogenesis defines aging. Front Aging 2023;4:1143334. PMID: 36999000
  • Dinh P, Peng J, Tran T, Wu D et al. Identification of hsa_circ_0001445 of a novel circRNA-miRNA-mRNA regulatory network as potential biomarker for coronary heart disease. Front Cardiovasc Med 2023;10:1104223. PMID: 36998978
  • Li R, Zhang J, Li Z et al. EasyCellType: marker-based cell-type annotation by automatically querying multiple databases. Bioinform Adv 2023;3(1):vbad029. PMID: 36998720
  • Xiang J, Liu C, He Q, He P et al. Comprehensive analysis of immunogenic cell death associated genes expression, tumor microenvironment, and prognosis in hepatocellular carcinoma. Front Pharmacol 2023;14:1122011. PMID: 36998605
  • Yu Y, Xu X, Lin C, Liu R et al. Systematic identification of potential key microRNAs and circRNAs in the dorsal root ganglia of mice with sciatic nerve injury. Front Mol Neurosci 2023;16:1119164. PMID: 36998510
  • Di Giorgio C, Bellini R, Lupia A, Massa C et al. Discovery of BAR502, as potent steroidal antagonist of leukemia inhibitory factor receptor for the treatment of pancreatic adenocarcinoma. Front Oncol 2023;13:1140730. PMID: 36998446
  • Chen P, Bi F, Tan W, Jian L et al. A novel immune-related model to predict prognosis and responsiveness to checkpoint and angiogenesis blockade therapy in advanced renal cancer. Front Oncol 2023;13:1127448. PMID: 36998443
  • Hu XE, Yang P, Chen S, Wei G et al. Clinical and biological heterogeneities in triple-negative breast cancer reveals a non-negligible role of HER2-low. Breast Cancer Res 2023 Mar 30;25(1):34. PMID: 36998014
  • Tommasini D, Fox R, Ngo KJ, Hinman JD et al. Alterations in oligodendrocyte transcriptional networks reveal region-specific vulnerabilities to neurological disease. iScience 2023 Apr 21;26(4):106358. PMID: 36994077
  • Luo Y, Ye Y, Chen Y, Zhang C et al. A degradome-based prognostic signature that correlates with immune infiltration and tumor mutation burden in breast cancer. Front Immunol 2023;14:1140993. PMID: 36993976
  • Xu J, Farsad HL, Hou Y, Barclay K et al. Human striatal glia differentially contribute to AD- and PD-specific neurodegeneration. Nat Aging 2023 Mar;3(3):346-365. PMID: 36993867
  • Chen L, Yang Y, Zhao Z, Lu S et al. Genome-wide identification and comparative analyses of key genes involved in C(4) photosynthesis in five main gramineous crops. Front Plant Sci 2023;14:1134170. PMID: 36993845
  • Johansson K, Gagnon JD, Zhou S, Fassett MS et al. An essential role for miR-15/16 in Treg suppression and restriction of proliferation. bioRxiv 2023 Mar 26 PMID: 36993421
  • Parker SM, Davis ES, Phanstiel DH et al. Guiding the design of well-powered Hi-C experiments to detect differential loops. bioRxiv 2023 Mar 16 PMID: 36993250
  • Swindell WR, Bojanowski K, Singh P, Randhawa M et al. Bakuchiol and Ethyl (Linoleate/Oleate) Synergistically Modulate Endocannabinoid Tone in Keratinocytes and Repress Inflammatory Pathway mRNAs. JID Innov 2023 May;3(3):100178. PMID: 36992949
  • Li J, Zhang X, Guo D, Shi Y et al. The mechanism of action of paeoniae radix rubra-angelicae sinensis radix drug pair in the treatment of rheumatoid arthritis through PI3K/AKT/NF-κB signaling pathway. Front Pharmacol 2023;14:1113810. PMID: 36992829
  • Bostanci E, Kocak E, Unal M, Guzel MS et al. Machine Learning Analysis of RNA-seq Data for Diagnostic and Prognostic Prediction of Colon Cancer. Sensors (Basel) 2023 Mar 13;23(6). PMID: 36991790
  • Weng Z, Ruan F, Chen W, Chen Z et al. BIND&MODIFY: a long-range method for single-molecule mapping of chromatin modifications in eukaryotes. Genome Biol 2023 Mar 29;24(1):61. PMID: 36991510
  • Horaira MA, Islam MA, Kibria MK, Alam MJ et al. Bioinformatics screening of colorectal-cancer causing molecular signatures through gene expression profiles to discover therapeutic targets and candidate agents. BMC Med Genomics 2023 Mar 29;16(1):64. PMID: 36991484
  • Crowell HL, Morillo Leonardo SX, Soneson C, Robinson MD et al. The shaky foundations of simulating single-cell RNA sequencing data. Genome Biol 2023 Mar 29;24(1):62. PMID: 36991470
  • Huh HD, Sub Y, Oh J, Kim YE et al. Reprogramming anchorage dependency by adherent-to-suspension transition promotes metastatic dissemination. Mol Cancer 2023 Mar 30;22(1):63. PMID: 36991428
  • Alexander AK, Rice EJ, Lujic J, Simon LE et al. A-MYB and BRDT-dependent RNA Polymerase II pause release orchestrates transcriptional regulation in mammalian meiosis. Nat Commun 2023 Mar 29;14(1):1753. PMID: 36990976
  • Bao X, Wang D, Dai X, Liu C et al. An immunometabolism subtyping system identifies S100A9(+) macrophage as an immune therapeutic target in colorectal cancer based on multiomics analysis. Cell Rep Med 2023 Apr 18;4(4):100987. PMID: 36990096
  • Sidhaye J, Trepte P, Sepke N, Novatchkova M et al. Integrated transcriptome and proteome analysis reveals posttranscriptional regulation of ribosomal genes in human brain organoids. Elife 2023 Mar 29;12. PMID: 36989136
  • Zhai H, Zhong S, Wu R, Mo Z et al. Suppressing circIDE/miR-19b-3p/RBMS1 axis exhibits promoting-tumour activity through upregulating GPX4 to diminish ferroptosis in hepatocellular carcinoma. Epigenetics 2023 Dec;18(1):2192438. PMID: 36989117
  • Zummo FP, Berthier A, Gheeraert C, Vinod M et al. A time- and space-resolved nuclear receptor atlas in mouse liver. J Mol Endocrinol 2023 Jul 1;71(1). PMID: 36988391
  • Galves M, Sperber M, Amer-Sarsour F, Elkon R et al. Transcriptional profiling of the response to starvation and fattening reveals differential regulation of autophagy genes in mammals. Proc Biol Sci 2023 Mar 29;290(1995):20230407. PMID: 36987635
  • Bullones A, Castro AJ, Lima-Cabello E, Alché JD et al. OliveAtlas: A Gene Expression Atlas Tool for Olea europaea. Plants (Basel) 2023 Mar 10;12(6). PMID: 36986964
  • Kola-Mustapha AT, Raji MA, Adedeji O, Ambrose GO et al. Network Pharmacology and Molecular Modeling to Elucidate the Potential Mechanism of Neem Oil against Acne vulgaris. Molecules 2023 Mar 21;28(6). PMID: 36985821
  • Kaddoura R, Ghelani H, Alqutami F, Altaher H et al. Identification of Specific Biomarkers and Pathways in the Treatment Response of Infliximab for Inflammatory Bowel Disease: In-Silico Analysis. Life (Basel) 2023 Mar 2;13(3). PMID: 36983834
  • Zhelankin AV, Iulmetova LN, Ahmetov II, Generozov EV et al. Diversity and Differential Expression of MicroRNAs in the Human Skeletal Muscle with Distinct Fiber Type Composition. Life (Basel) 2023 Feb 28;13(3). PMID: 36983815
  • Zhang C, Qin C, Lin Y et al. Development and Validation of a Prognostic Risk Model Based on Nature Killer Cells for Serous Ovarian Cancer. J Pers Med 2023 Feb 24;13(3). PMID: 36983585
  • Yang Y, Shi L, Xu X, Wen J et al. Spermidine Synthase and Saccharopine Reductase Have Co-Expression Patterns Both in Basidiomycetes with Fusion Form and Ascomycetes with Separate Form. J Fungi (Basel) 2023 Mar 14;9(3). PMID: 36983520
  • Li D, Hu J, Li S, Zhou C et al. LINC01393, a Novel Long Non-Coding RNA, Promotes the Cell Proliferation, Migration and Invasion through MiR-128-3p/NUSAP1 Axis in Glioblastoma. Int J Mol Sci 2023 Mar 20;24(6). PMID: 36982952
  • Lambouras M, Roelofs C, Pereira M, Gruber E et al. Functional and Phenotypic Characterisations of Common Syngeneic Tumour Cell Lines as Estrogen Receptor-Positive Breast Cancer Models. Int J Mol Sci 2023 Mar 16;24(6). PMID: 36982737
  • Dong L, Shen Y, Li H, Zhang R et al. Shared Genes of PPARG and NOS2 in Alzheimer's Disease and Ulcerative Colitis Drive Macrophages and Microglia Polarization: Evidence from Bioinformatics Analysis and Following Validation. Int J Mol Sci 2023 Mar 15;24(6). PMID: 36982725
  • Gallardo FS, Córdova-Casanova A, Bock-Pereda A, Rebolledo DL et al. Denervation Drives YAP/TAZ Activation in Muscular Fibro/Adipogenic Progenitors. Int J Mol Sci 2023 Mar 15;24(6). PMID: 36982659
  • Hamarsha A, Balachandran K, Sailan AT, Nasruddin NS et al. Predicting Key Genes and Therapeutic Molecular Modelling to Explain the Association between Porphyromonas gingivalis (P. gingivalis) and Alzheimer's Disease (AD). Int J Mol Sci 2023 Mar 12;24(6). PMID: 36982508
  • Lin J, Cai Y, Ma Y, Pan J et al. A New Signature That Predicts Progression-Free Survival of Clear Cell Renal Cell Carcinoma with Anti-PD-1 Therapy. Int J Mol Sci 2023 Mar 10;24(6). PMID: 36982415
  • Santos DB, Fernandez GJ, Pardini LMC, Pardini MIMC et al. Transcriptomic Profile of Canine Mammary Ductal Carcinoma. Int J Mol Sci 2023 Mar 8;24(6). PMID: 36982287
  • Trostle AJ, Li L, Kim SY, Wang J et al. A Comprehensive and Integrative Approach to MeCP2 Disease Transcriptomics. Int J Mol Sci 2023 Mar 7;24(6). PMID: 36982190
  • Sadeghi M, Karimi MR, Karimi AH, Ghorbanpour Farshbaf N et al. Network-Based and Machine-Learning Approaches Identify Diagnostic and Prognostic Models for EMT-Type Gastric Tumors. Genes (Basel) 2023 Mar 19;14(3). PMID: 36981021
  • Neupane A, Chariker JH, Rouchka EC et al. Structural and Functional Classification of G-Quadruplex Families within the Human Genome. Genes (Basel) 2023 Mar 4;14(3). PMID: 36980918
  • Vasighizaker A, Trivedi Y, Rueda L et al. Cell Type Annotation Model Selection: General-Purpose vs. Pattern-Aware Feature Gene Selection in Single-Cell RNA-Seq Data. Genes (Basel) 2023 Feb 26;14(3). PMID: 36980868
  • Song L, Huo X, Li X, Xu X et al. SERPINF1 Mediates Tumor Progression and Stemness in Glioma. Genes (Basel) 2023 Feb 25;14(3). PMID: 36980858
  • Attri S, Lone M, Katiyar A, Sharma V et al. Genetic Analysis of HIBM Myopathy-Specific GNE V727M Hotspot Mutation Identifies a Novel COL6A3 Allied Gene Signature That Is Also Deregulated in Multiple Neuromuscular Diseases and Myopathies. Genes (Basel) 2023 Feb 24;14(3). PMID: 36980840
  • Rasmussen MQ, Tindbæk G, Nielsen MM, Merrild C et al. Epigenetic Silencing of LRP2 Is Associated with Dedifferentiation and Poor Survival in Multiple Solid Tumor Types. Cancers (Basel) 2023 Mar 17;15(6). PMID: 36980716
  • Kanellou P, Georgakopoulos-Soares I, Zaravinos A et al. Deregulated Gene Expression Profiles and Regulatory Networks in Adult and Pediatric RUNX1/RUNX1T1-Positive AML Patients. Cancers (Basel) 2023 Mar 16;15(6). PMID: 36980682
  • Lim B, Yoo D, Chun Y, Go A et al. Integrative Analyses Reveal the Anticancer Mechanisms and Sensitivity Markers of the Next-Generation Hypomethylating Agent NTX-301. Cancers (Basel) 2023 Mar 13;15(6). PMID: 36980623
  • Vottero P, Wang Q, Michalak M, Aminpour M et al. Computational Analysis and Experimental Testing of the Molecular Mode of Action of Gatastatin and Its Derivatives. Cancers (Basel) 2023 Mar 10;15(6). PMID: 36980600
  • Hu W, Wang X, Bi Y, Bao J et al. The Molecular Mechanism of the TEAD1 Gene and miR-410-5p Affect Embryonic Skeletal Muscle Development: A miRNA-Mediated ceRNA Network Analysis. Cells 2023 Mar 20;12(6). PMID: 36980284
  • Özden-Yılmaz G, Savas B, Bursalı A, Eray A et al. Differential Occupancy and Regulatory Interactions of KDM6A in Bladder Cell Lines. Cells 2023 Mar 8;12(6). PMID: 36980177
  • Ramírez-Coronel AA, Rostami A, Younus LA, Arias Gonzáles JL et al. Designing Effective Multi-Target Drugs and Identifying Biomarkers in Recurrent Pregnancy Loss (RPL) Using In Vivo, In Vitro, and In Silico Approaches. Biomedicines 2023 Mar 13;11(3). PMID: 36979858
  • Sun J, Su Y, Chen J, Qin D et al. Differential Roles of CD36 in Regulating Muscle Insulin Response Depend on Palmitic Acid Load. Biomedicines 2023 Feb 28;11(3). PMID: 36979708
  • Laurino S, Brancaccio M, Angrisano T, Calice G et al. Role of IL-6/STAT3 Axis in Resistance to Cisplatin in Gastric Cancers. Biomedicines 2023 Feb 24;11(3). PMID: 36979673
  • Guglas K, Kolenda T, Kozłowska-Masłoń J, Severino P et al. The Impact of YRNAs on HNSCC and HPV Infection. Biomedicines 2023 Feb 23;11(3). PMID: 36979661
  • LeVine SM, Tsau S, Gunewardena S et al. Exploring Whether Iron Sequestration within the CNS of Patients with Alzheimer's Disease Causes a Functional Iron Deficiency That Advances Neurodegeneration. Brain Sci 2023 Mar 18;13(3). PMID: 36979320
  • Raddatz AD, Furdui CM, Bey EA, Kemp ML et al. Single-Cell Kinetic Modeling of β-Lapachone Metabolism in Head and Neck Squamous Cell Carcinoma. Antioxidants (Basel) 2023 Mar 17;12(3). PMID: 36978989
  • Li X, Zeng M, Liu J, Zhang S et al. Identifying potential biomarkers for the diagnosis and treatment of IgA nephropathy based on bioinformatics analysis. BMC Med Genomics 2023 Mar 28;16(1):63. PMID: 36978098
  • Bai T, Li M, Liu Y, Qiao Z et al. The promotion action of AURKA on post-ischemic angiogenesis in diabetes-related limb ischemia. Mol Med 2023 Mar 28;29(1):39. PMID: 36977984
  • Li Y, Li Z, Chen R, Lian M et al. A regulatory variant at 19p13.3 is associated with primary biliary cholangitis risk and ARID3A expression. Nat Commun 2023 Mar 28;14(1):1732. PMID: 36977669
  • Yu J, Zhuang A, Gu X, Hua Y et al. Nuclear PD-L1 promotes EGR1-mediated angiogenesis and accelerates tumorigenesis. Cell Discov 2023 Mar 28;9(1):33. PMID: 36977660
  • Fedorka CE, Ali HE, Troedsson MHT et al. Galectins in Equine Placental Disease. Vet Sci 2023 Mar 13;10(3). PMID: 36977257
  • Egelberg M, De Marchi T, Pekar G, Tran L et al. Low levels of WRAP53 predict decreased efficacy of radiotherapy and are prognostic for local recurrence and death from breast cancer: a long-term follow-up of the SweBCG91RT randomized trial. Mol Oncol 2023 Mar 28 PMID: 36975842
  • Vadnais D, Oluwadare O et al. ParticleChromo3D+: A Web Server for ParticleChromo3D Algorithm for 3D Chromosome Structure Reconstruction. Curr Issues Mol Biol 2023 Mar 17;45(3):2549-2560. PMID: 36975537
  • Wu J, Fan S, Feinberg D, Wang X et al. Inhibition of Sphingosine Kinase 2 Results in PARK2-Mediated Mitophagy and Induces Apoptosis in Multiple Myeloma. Curr Oncol 2023 Mar 4;30(3):3047-3063. PMID: 36975444
  • Fang Z, Wang W, Liu Y, Hua J et al. Cuproptosis-Related Gene DLAT as a Novel Biomarker Correlated with Prognosis, Chemoresistance, and Immune Infiltration in Pancreatic Adenocarcinoma: A Preliminary Study Based on Bioinformatics Analysis. Curr Oncol 2023 Mar 2;30(3):2997-3019. PMID: 36975441
  • Guo Z, Hu L, Wang Q, Wang Y et al. Molecular Characterization and Prognosis of Lactate-Related Genes in Lung Adenocarcinoma. Curr Oncol 2023 Feb 27;30(3):2845-2861. PMID: 36975430
  • Navarrete-López P, Lombó M, Maroto M, Pericuesta E et al. An ancient testis-specific IQ motif-containing H gene regulates specific transcript isoform expression during spermatogenesis. Development 2023 Apr 1;150(7). PMID: 36975404
  • Wu F, Ning H, Sun Y, Wu H et al. Integrative exploration of the mutual gene signatures and immune microenvironment between benign prostate hyperplasia and castration-resistant prostate cancer. Aging Male 2023 Dec;26(1):2183947. PMID: 36974949
  • Wang L, Western D, Timsina J, Repaci C et al. Plasma proteomics of SARS-CoV-2 infection and severity reveals impact on Alzheimer's and coronary disease pathways. iScience 2023 Apr 21;26(4):106408. PMID: 36974157
  • Liu R, Cao Z, Wu M, Li X et al. Golgi-apparatus genes related signature for predicting the progression-free interval of patients with papillary thyroid carcinoma. BMC Med Genomics 2023 Mar 27;16(1):60. PMID: 36973751
  • Liu S, Dou L, Miao M, Man X et al. HES1-mediated down-regulation of miR-138 sustains NOTCH1 activation and promotes proliferation and invasion in renal cell carcinoma. J Exp Clin Cancer Res 2023 Mar 28;42(1):72. PMID: 36973704
  • Park WY, Gray JM, Holewinski RJ, Andresson T et al. Apoptosis-induced nuclear expulsion in tumor cells drives S100a4-mediated metastatic outgrowth through the RAGE pathway. Nat Cancer 2023 Mar;4(3):419-435. PMID: 36973439
  • Han T, Zhang Y, Qi B, Chen M et al. Clinical features and shared mechanisms of chronic gastritis and osteoporosis. Sci Rep 2023 Mar 27;13(1):4991. PMID: 36973348
  • Prazanowska KH, Lim SB et al. An integrated single-cell transcriptomic dataset for non-small cell lung cancer. Sci Data 2023 Mar 27;10(1):167. PMID: 36973297
  • Vasaikar SV, Savage AK, Gong Q, Swanson E et al. A comprehensive platform for analyzing longitudinal multi-omics data. Nat Commun 2023 Mar 27;14(1):1684. PMID: 36973282
  • Quah HS, Cao EY, Suteja L, Li CH et al. Single cell analysis in head and neck cancer reveals potential immune evasion mechanisms during early metastasis. Nat Commun 2023 Mar 27;14(1):1680. PMID: 36973261
  • Saisomboon S, Kariya R, Boonnate P, Sawanyawisuth K et al. Diminishing acetyl-CoA carboxylase 1 attenuates CCA migration via AMPK-NF-κB-snail axis. Biochim Biophys Acta Mol Basis Dis 2023 Jun;1869(5):166694. PMID: 36972768
  • Ayoub CA, Wagner CS, Kuret J et al. Identification of gene networks mediating regional resistance to tauopathy in late-onset Alzheimer's disease. PLoS Genet 2023 Mar;19(3):e1010681. PMID: 36972319
  • Chen Q, Chen S, Wang J, Zhao Y et al. Construction and validation of a hypoxia-related risk signature identified EXO1 as a prognostic biomarker based on 12 genes in lung adenocarcinoma. Aging (Albany NY) 2023 Mar 25;15(6):2293-2307. PMID: 36971680
  • Zhou JJ, Cho JS, Han H, Blitz IL et al. Histone deacetylase 1 maintains lineage integrity through histone acetylome refinement during early embryogenesis. Elife 2023 Mar 27;12. PMID: 36971347
  • Saeki K, Qiu W, Friedman RA, Pan S et al. Inactivation of Notch4 Attenuated Pancreatic Tumorigenesis in Mice. Cancer Res Commun 2022 Dec;2(12):1601-1616. PMID: 36970723
  • Karimi N, Motovali-Bashi M, Ghaderi-Zefrehei M et al. Gene network reveals LASP1, TUBA1C, and S100A6 are likely playing regulatory roles in multiple sclerosis. Front Neurol 2023;14:1090631. PMID: 36970516
  • Wang Y, Zhang L, Chen H, Yang J et al. Coronary artery disease-associated immune gene RBP1 and its pan-cancer analysis. Front Cardiovasc Med 2023;10:1091950. PMID: 36970364
  • Xu H, Shao Z, Zhang S, Liu X et al. How can childhood maltreatment affect post-traumatic stress disorder in adult: Results from a composite null hypothesis perspective of mediation analysis. Front Psychiatry 2023;14:1102811. PMID: 36970281
  • Hao M, Fu R, Tai J, Tian Z et al. S1PR1 serves as a viable drug target against pulmonary fibrosis by increasing the integrity of the endothelial barrier of the lung. Acta Pharm Sin B 2023 Mar;13(3):1110-1127. PMID: 36970190
  • Kumari S, Kumar P et al. Design and Computational Analysis of an MMP9 Inhibitor in Hypoxia-Induced Glioblastoma Multiforme. ACS Omega 2023 Mar 21;8(11):10565-10590. PMID: 36969457
  • Zhong Y, Zhao J, Deng H, Wu Y et al. Integrative bioinformatics analysis to identify novel biomarkers associated with non-obstructive azoospermia. Front Immunol 2023;14:1088261. PMID: 36969237
  • Zheng J, Wang Y, Hu J et al. Study of the shared gene signatures of polyarticular juvenile idiopathic arthritis and autoimmune uveitis. Front Immunol 2023;14:1048598. PMID: 36969183
  • Liu F, Huang Y, Liu F, Wang H et al. Identification of immune-related genes in diagnosing atherosclerosis with rheumatoid arthritis through bioinformatics analysis and machine learning. Front Immunol 2023;14:1126647. PMID: 36969166
  • Yao S, Zhao L, Chen S, Wang H et al. Cervical cancer immune infiltration microenvironment identification, construction of immune scores, assisting patient prognosis and immunotherapy. Front Immunol 2023;14:1135657. PMID: 36969161
  • Zhang K, Qiu W, Li H, Li J et al. MACF1 overexpression in BMSCs alleviates senile osteoporosis in mice through TCF4/miR-335-5p signaling pathway. J Orthop Translat 2023 Mar;39:177-190. PMID: 36969134
  • Ryu JW, Shin HY, Kim HS, Han GH et al. Prognostic value of β-Arrestins in combination with glucocorticoid receptor in epithelial ovarian cancer. Front Oncol 2023;13:1104521. PMID: 36969037
  • Yang L, Zhu J, Wang L, He L et al. A novel risk score model based on gamma-aminobutyric acid signature predicts the survival prognosis of patients with breast cancer. Front Oncol 2023;13:1108823. PMID: 36969015
  • Sun KK, Zu C, Wu XY, Wang QH et al. Identification of lncRNA and mRNA regulatory networks associated with gastric cancer progression. Front Oncol 2023;13:1140460. PMID: 36969001
  • Zhang H, Kong W, Xie Y, Zhao X et al. Telomere-related genes as potential biomarkers to predict endometriosis and immune response: Development of a machine learning-based risk model. Front Med (Lausanne) 2023;10:1132676. PMID: 36968845
  • Liu W, Sun X, Huang J, Zhang J et al. Development and validation of a genomic nomogram based on a ceRNA network for comprehensive analysis of obstructive sleep apnea. Front Genet 2023;14:1084552. PMID: 36968605
  • Zhao G, Luo T, Liu Z, Li J et al. Development and validation of focal adhesion-related genes signature in gastric cancer. Front Genet 2023;14:1122580. PMID: 36968601
  • Tapak L, Hamidi O, Amini P, Afshar S et al. Identification of Prognostic Biomarkers for Breast Cancer Metastasis Using Penalized Additive Hazards Regression Model. Cancer Inform 2023;22:11769351231157942. PMID: 36968522
  • Wu YJ, Yi X, Gu X, Wang Q et al. Synaptic scaling of corticostriatal circuits underlies hyperactivity in GABA Transporter-1 deficient mice. iScience 2023 Apr 21;26(4):106322. PMID: 36968092
  • Xu H, Yang F, Chen D, Ye W et al. Trigging stepwise-strand displacement amplification lights up numerous G-quadruplex for colorimetric signaling of serum microRNAs. iScience 2023 Apr 21;26(4):106331. PMID: 36968075
  • Rundberg Nilsson A, Hidalgo I, Bryder D, Pronk CJ et al. Temporal dynamics of TNF-mediated changes in hematopoietic stem cell function and recovery. iScience 2023 Apr 21;26(4):106341. PMID: 36968066
  • Xin P, Li M, Dong J, Zhu H et al. Bioinformatics gene analysis of potential biomarkers and therapeutic targets of osteoarthritis associated myelodysplastic syndrome. Front Genet 2022;13:1040438. PMID: 36968004
  • Dai L, Liu Z, Zhu Y, Ma L et al. Genome-wide methylation analysis of circulating tumor DNA: A new biomarker for recurrent glioblastom. Heliyon 2023 Mar;9(3):e14339. PMID: 36967887
  • Song Y, He C, Jiang Y, Yang M et al. Bulk and single-cell transcriptome analyses of islet tissue unravel gene signatures associated with pyroptosis and immune infiltration in type 2 diabetes. Front Endocrinol (Lausanne) 2023;14:1132194. PMID: 36967805
  • Xu Z, Yu Z, Li S, Tian Z et al. Exploration of the core gene signatures and mechanisms between NAFLD and sarcopenia through transcriptomic level. Front Endocrinol (Lausanne) 2023;14:1140804. PMID: 36967768
  • Zhang P, Chen H, Xie B, Zhao W et al. Bioinformatics identification and experimental validation of m6A-related diagnostic biomarkers in the subtype classification of blood monocytes from postmenopausal osteoporosis patients. Front Endocrinol (Lausanne) 2023;14:990078. PMID: 36967763
  • Yuan Y, Mei Z, Qu Z, Li G et al. Exosomes secreted from cardiomyocytes suppress the sensitivity of tumor ferroptosis in ischemic heart failure. Signal Transduct Target Ther 2023 Mar 27;8(1):121. PMID: 36967385
  • Dadashkhan S, Mirmotalebisohi SA, Poursheykhi H, Sameni M et al. Deciphering crucial genes in multiple sclerosis pathogenesis and drug repurposing: A systems biology approach. J Proteomics 2023 May 30;280:104890. PMID: 36966969
  • Liu Z, Liu Y, Dai J, Lao J et al. The temporal and spatial signature of microglial transcriptome in neuropathic pain. Neuroreport 2023 Apr 5;34(6):338-347. PMID: 36966811
  • Landais Y, Vallot C et al. Multi-modal quantification of pathway activity with MAYA. Nat Commun 2023 Mar 25;14(1):1668. PMID: 36966153
  • Kommoss FKF, Chong AS, Chong AL, Pfaff E et al. Genomic characterization of DICER1-associated neoplasms uncovers molecular classes. Nat Commun 2023 Mar 25;14(1):1677. PMID: 36966138
  • Trac QT, Pawitan Y, Mou T, Erkers T et al. Prediction model for drug response of acute myeloid leukemia patients. NPJ Precis Oncol 2023 Mar 24;7(1):32. PMID: 36964195
  • Read KA, Jones DM, Pokhrel S, Hales EDS et al. Aiolos represses CD4(+) T cell cytotoxic programming via reciprocal regulation of T(FH) transcription factors and IL-2 sensitivity. Nat Commun 2023 Mar 24;14(1):1652. PMID: 36964178
  • Wu J, Bu D, Wang H, Shen D et al. The rhythmic coupling of Egr-1 and Cidea regulates age-related metabolic dysfunction in the liver of male mice. Nat Commun 2023 Mar 24;14(1):1634. PMID: 36964140
  • Tan X, Zheng C, Zhuang Y, Jin P et al. The m6A reader PRRC2A is essential for meiosis I completion during spermatogenesis. Nat Commun 2023 Mar 24;14(1):1636. PMID: 36964127
  • Lin X, Cui C, Cui Q et al. Combating pancreatic cancer with ovarian cancer cells. Aging (Albany NY) 2023 Mar 23;15(6):2189-2207. PMID: 36961421
  • Liao X, Li Z, Zheng H, Qian W et al. Downregulation of BASP1 Promotes Temozolomide Resistance in Gliomas via Epigenetic Activation of the FBXO32/NF-κB/MGMT Axis. Mol Cancer Res 2023 Jul 5;21(7):648-663. PMID: 36961398
  • Sun G, Qi M, Kim AS, Lizhar EM et al. Reassessing the Abundance of miRNAs in the Human Pancreas and Rodent Cell Lines and Its Implication. Noncoding RNA 2023 Mar 17;9(2). PMID: 36960965
  • Aung TN, Gavrielatou N, Vathiotis IA, Fernandez AI et al. Quantitative, Spatially Defined Expression of Leukocyte-associated Immunoglobulin-like Receptor in Non-small Cell Lung Cancer. Cancer Res Commun 2023 Mar;3(3):471-482. PMID: 36960400
  • Zhong M, Zhu E, Li N, Gong L et al. Identification of diagnostic markers related to oxidative stress and inflammatory response in diabetic kidney disease by machine learning algorithms: Evidence from human transcriptomic data and mouse experiments. Front Endocrinol (Lausanne) 2023;14:1134325. PMID: 36960398
  • Zhang XZ, Chen XL, Tang TT, Zhang S et al. T lymphocyte characteristics and immune repertoires in the epicardial adipose tissue of heart failure patients. Front Immunol 2023;14:1126997. PMID: 36960061
  • De Kleijn KMA, Zuure WA, Straasheijm KR, Martens MB et al. Human cortical spheroids with a high diversity of innately developing brain cell types. Stem Cell Res Ther 2023 Mar 23;14(1):50. PMID: 36959625
  • Feng J, Hu Y, Peng P, Li J et al. Potential biomarkers of aortic dissection based on expression network analysis. BMC Cardiovasc Disord 2023 Mar 23;23(1):147. PMID: 36959563
  • Nofech-Mozes I, Soave D, Awadalla P, Abelson S et al. Pan-cancer classification of single cells in the tumour microenvironment. Nat Commun 2023 Mar 23;14(1):1615. PMID: 36959212
  • Golovine K, Abalakov G, Lian Z, Chatla S et al. ABL1 kinase as a tumor suppressor in AML1-ETO and NUP98-PMX1 leukemias. Blood Cancer J 2023 Mar 23;13(1):42. PMID: 36959186
  • Li Mow Chee F, Beernaert B, Griffith BGC, Loftus AEP et al. Mena regulates nesprin-2 to control actin-nuclear lamina associations, trans-nuclear membrane signalling and gene expression. Nat Commun 2023 Mar 23;14(1):1602. PMID: 36959177
  • Leonidou N, Renz A, Mostolizadeh R, Dräger A et al. New workflow predicts drug targets against SARS-CoV-2 via metabolic changes in infected cells. PLoS Comput Biol 2023 Mar;19(3):e1010903. PMID: 36952396
  • Hou J, Zhou Y, Cai Z, Terekhova M et al. Transcriptomic atlas and interaction networks of brain cells in mouse CNS demyelination and remyelination. Cell Rep 2023 Mar 21;42(4):112293. PMID: 36952346
  • Fabunmi BT, Adegaye AC, Ogunjo ST et al. Identification and characterization of molecular entities differentially expressed in bacteria genome upon treatment with glyphosate shock. Heliyon 2023 Mar;9(3):e13868. PMID: 36950589
  • Du Q, Liu W, Mei T, Wang J et al. Prognostic and immunological characteristics of CDK1 in lung adenocarcinoma: A systematic analysis. Front Oncol 2023;13:1128443. PMID: 36950551
  • Santhanam B, Oikonomou P, Tavazoie S et al. Systematic assessment of prognostic molecular features across cancers. Cell Genom 2023 Mar 8;3(3):100262. PMID: 36950380
  • Raths F, Karimzadeh M, Ing N, Martinez A et al. The molecular consequences of androgen activity in the human breast. Cell Genom 2023 Mar 8;3(3):100272. PMID: 36950379
  • Feng H, Wang L, Liu J, Wang S et al. The bioinformatic approach identifies PARM1 as a new potential prognostic factor in osteosarcoma. Front Oncol 2022;12:1059547. PMID: 36950314
  • Wang Y, Liu X, Yu K, Xu S et al. A generalized non-linear model predicting efficacy of neoadjuvant therapy in HER2+ breast cancer. iScience 2023 Apr 21;26(4):106330. PMID: 36950120
  • Cai DQ, Cai D, Zou Y, Chen X et al. Construction and validation of chemoresistance-associated tumor- infiltrating exhausted-like CD8+ T cell signature in breast cancer: cr-TILCD8TSig. Front Immunol 2023;14:1120886. PMID: 36949939
  • Ullah F, Jabeen S, Salton M, Reddy ASN et al. Evidence for the role of transcription factors in the co-transcriptional regulation of intron retention. Genome Biol 2023 Mar 22;24(1):53. PMID: 36949544
  • Tan D, Miao D, Zhao C, Shi J et al. Comprehensive analyses of A 12-metabolism-associated gene signature and its connection with tumor metastases in clear cell renal cell carcinoma. BMC Cancer 2023 Mar 23;23(1):264. PMID: 36949462
  • Gao LJ, He ZM, Li YY, Yang RR et al. Role of OAS gene family in COVID-19 induced heart failure. J Transl Med 2023 Mar 22;21(1):212. PMID: 36949448
  • Xu HJ, Yao Y, Yao F, Chen J et al. Generation of functional posterior spinal motor neurons from hPSCs-derived human spinal cord neural progenitor cells. Cell Regen 2023 Mar 23;12(1):15. PMID: 36949352
  • Islam MA, Kibria MK, Hossen MB, Reza MS et al. Bioinformatics-based investigation on the genetic influence between SARS-CoV-2 infections and idiopathic pulmonary fibrosis (IPF) diseases, and drug repurposing. Sci Rep 2023 Mar 22;13(1):4685. PMID: 36949176
  • Zahaf A, Kassoussi A, Hutteau-Hamel T, Mellouk A et al. Androgens show sex-dependent differences in myelination in immune and non-immune murine models of CNS demyelination. Nat Commun 2023 Mar 22;14(1):1592. PMID: 36949062
  • Hess JL, Quinn TP, Zhang C, Hearn GC et al. BrainGENIE: The Brain Gene Expression and Network Imputation Engine. Transl Psychiatry 2023 Mar 22;13(1):98. PMID: 36949060
  • McKerr N, Mohd-Sarip A, Dorrian H, Breen C et al. CACNA1D overexpression and voltage-gated calcium channels in prostate cancer during androgen deprivation. Sci Rep 2023 Mar 22;13(1):4683. PMID: 36949059
  • Hou Y, Park JH, Dan X, Chu X et al. RecQ dysfunction contributes to social and depressive-like behavior and affects aldolase activity in mice. Neurobiol Dis 2023 May;180:106092. PMID: 36948261
  • Kliesmete Z, Wange LE, Vieth B, Esgleas M et al. Regulatory and coding sequences of TRNP1 co-evolve with brain size and cortical folding in mammals. Elife 2023 Mar 22;12. PMID: 36947129
  • Yin L, Zander M, Huang SC, Xie M et al. Transcription Factor Dynamics in Cross-Regulation of Plant Hormone Signaling Pathways. bioRxiv 2023 Mar 9 PMID: 36945593
  • Owings KG, Chow CY et al. A Drosophila screen identifies a role for histone methylation in ER stress preconditioning. bioRxiv 2023 Mar 11 PMID: 36945590
  • Carbonetto P, Luo K, Sarkar A, Hung A et al. Interpreting structure in sequence count data with differential expression analysis allowing for grades of membership. bioRxiv 2023 Jun 23 PMID: 36945441
  • Kober KM, Berger LG, Roy R, Olshen A et al. Torch-eCpG: A fast and scalable eQTM mapper for thousands of molecular phenotypes with graphical processing units. bioRxiv 2023 Mar 10 PMID: 36945384
  • Chen Y, Yuan P, Gu L, Bai J et al. Constructing a seventeen-gene signature model for non-obstructive azoospermia based on integrated transcriptome analyses and WGCNA. Reprod Biol Endocrinol 2023 Mar 21;21(1):30. PMID: 36945018
  • Ni B, Huang G, Yang R, Wang Z et al. The short isoform of MS4A7 is a novel player in glioblastoma microenvironment, M2 macrophage polarization, and tumor progression. J Neuroinflammation 2023 Mar 21;20(1):80. PMID: 36944954
  • Neyret-Kahn H, Fontugne J, Meng XY, Groeneveld CS et al. Epigenomic mapping identifies an enhancer repertoire that regulates cell identity in bladder cancer through distinct transcription factor networks. Oncogene 2023 May;42(19):1524-1542. PMID: 36944729
  • Yang M, Wu Y, Yang XB, Liu T et al. Establishing a prediction model of severe acute mountain sickness using machine learning of support vector machine recursive feature elimination. Sci Rep 2023 Mar 21;13(1):4633. PMID: 36944699
  • Porukala M, Vinod PK et al. Network-level analysis of ageing and its relationship with diseases and tissue regeneration in the mouse liver. Sci Rep 2023 Mar 21;13(1):4632. PMID: 36944690
  • Nguyen HCT, Baik B, Yoon S, Park T et al. Benchmarking integration of single-cell differential expression. Nat Commun 2023 Mar 21;14(1):1570. PMID: 36944632
  • Battistello E, Hixon KA, Comstock DE, Collings CK et al. Stepwise activities of mSWI/SNF family chromatin remodeling complexes direct T cell activation and exhaustion. Mol Cell 2023 Apr 20;83(8):1216-1236.e12. PMID: 36944333
  • Jiang Z, Wang X, Huang J, Li G et al. Pyroptosis-based risk score predicts prognosis and drug sensitivity in lung adenocarcinoma. Open Med (Wars) 2023;18(1):20230663. PMID: 36941988
  • Patiño-Mercau JR, Baliñas-Gavira C, Andrades A, Benitez-Cantos MS et al. BCL7A is silenced by hypermethylation to promote acute myeloid leukemia. Biomark Res 2023 Mar 20;11(1):32. PMID: 36941700
  • Melzer MK, Schirge S, Gout J, Arnold F et al. TBX3 is dynamically expressed in pancreatic organogenesis and fine-tunes regeneration. BMC Biol 2023 Mar 20;21(1):55. PMID: 36941669
  • Litman T, Stein WD et al. Ancient lineages of the keratin-associated protein (KRTAP) genes and their co-option in the evolution of the hair follicle. BMC Ecol Evol 2023 Mar 20;23(1):7. PMID: 36941546
  • Xiong Z, Li W, Luo X, Lin Y et al. Seven bacterial response-related genes are biomarkers for colon cancer. BMC Bioinformatics 2023 Mar 20;24(1):103. PMID: 36941538
  • Qu H, Li X, Chen F, Zhang M et al. LncRNA PVT1 influences breast cancer cells glycolysis through sponging miR-145-5p. Genes Genomics 2023 May;45(5):581-592. PMID: 36941464
  • Taghi Khani A, Kumar A, Sanchez Ortiz A, Radecki KC et al. Isoform-specific knockdown of long and intermediate prolactin receptors interferes with evolution of B-cell neoplasms. Commun Biol 2023 Mar 20;6(1):295. PMID: 36941341
  • Gomez-Bañuelos E, Yu Y, Li J, Cashman KS et al. Affinity maturation generates pathogenic antibodies with dual reactivity to DNase1L3 and dsDNA in systemic lupus erythematosus. Nat Commun 2023 Mar 20;14(1):1388. PMID: 36941260
  • Yang T, Huang W, Ma T, Yin X et al. The PRMT6/PARP1/CRL4B Complex Regulates the Circadian Clock and Promotes Breast Tumorigenesis. Adv Sci (Weinh) 2023 May;10(14):e2202737. PMID: 36941223
  • Zheng ZQ, Yuan GQ, Zhang GG, Chen YT et al. Identification of CCL20 as a Key Biomarker of Inflammatory Responses in the Pathogenesis of Intracerebral Hemorrhage. Inflammation 2023 Aug;46(4):1290-1304. PMID: 36939977
  • Jin X, Wang Q, Luo F, Pan J et al. Single-cell transcriptomic analysis of tumor heterogeneity and intercellular networks in human urothelial carcinoma. Chin Med J (Engl) 2023 Mar 20;136(6):690-706. PMID: 36939254
  • Sotcheff S, Zhou Y, Yeung J, Sun Y et al. ViReMa: a virus recombination mapper of next-generation sequencing data characterizes diverse recombinant viral nucleic acids. Gigascience 2023 Mar 20;12. PMID: 36939008
  • Wang Z, Yao C, Huang L, Liang J et al. Enhanced external counterpulsation improves dysfunction of forearm muscle caused by radial artery occlusion. Front Cardiovasc Med 2023;10:1115494. PMID: 36937941
  • Xu X, Yu Y, Yang L, Wang B et al. Integrated analysis of Dendrobium nobile extract Dendrobin A against pancreatic ductal adenocarcinoma based on network pharmacology, bioinformatics, and validation experiments. Front Pharmacol 2023;14:1079539. PMID: 36937875
  • Qi L, Chen F, Wang L, Yang Z et al. Identification of anoikis-related molecular patterns to define tumor microenvironment and predict immunotherapy response and prognosis in soft-tissue sarcoma. Front Pharmacol 2023;14:1136184. PMID: 36937870
  • Wang H, Wang Q, Wu Y, Lou J et al. Autophagy-related gene LAPTM4B promotes the progression of renal clear cell carcinoma and is associated with immunity. Front Pharmacol 2023;14:1118217. PMID: 36937841
  • He Z, Chen Q, He W, Cao J et al. Hepatocellular carcinoma subtypes based on metabolic pathways reveals potential therapeutic targets. Front Oncol 2023;13:1086604. PMID: 36937389
  • Ma M, Li J, Zeng Z, Zheng Z et al. Integrated analysis from multicentre studies identities m7G-related lncRNA-derived molecular subtypes and risk stratification systems for gastric cancer. Front Immunol 2023;14:1096488. PMID: 36936957
  • Li J, Huang F, Ma Q, Guo W et al. Identification of genes related to immune enhancement caused by heterologous ChAdOx1-BNT162b2 vaccines in lymphocytes at single-cell resolution with machine learning methods. Front Immunol 2023;14:1131051. PMID: 36936955
  • Wei E, Li J, Anand P, French LE et al. "From molecular to clinic": The pivotal role of CDC42 in pathophysiology of human papilloma virus related cancers and a correlated sensitivity of afatinib. Front Immunol 2023;14:1118458. PMID: 36936942
  • Zhang T, Gu J, Wang X, Lu Y et al. A novel liver zonation phenotype-associated molecular classification of hepatocellular carcinoma. Front Immunol 2023;14:1140201. PMID: 36936935
  • Yang H, Zou X, Yang S, Zhang A et al. Identification of lactylation related model to predict prognostic, tumor infiltrating immunocytes and response of immunotherapy in gastric cancer. Front Immunol 2023;14:1149989. PMID: 36936929
  • Xu L, Gao X, Xing J, Guo Z et al. Identification of a necroptosis-related gene signature as a novel prognostic biomarker of cholangiocarcinoma. Front Immunol 2023;14:1118816. PMID: 36936916
  • Daamen AR, Wang H, Bachali P, Shen N et al. Molecular mechanisms governing the progression of nephritis in lupus prone mice and human lupus patients. Front Immunol 2023;14:1147526. PMID: 36936908
  • Venkatesh G, Tönges S, Hanna K, Ng YL et al. Context-dependent DNA methylation signatures in animal livestock. Environ Epigenet 2023;9(1):dvad001. PMID: 36936885
  • Lu X, Chen Y, Zhang G et al. Functional evolution of SARS-CoV-2 spike protein: Maintaining wide host spectrum and enhancing infectivity via surface charge of spike protein. Comput Struct Biotechnol J 2023;21:2068-2074. PMID: 36936817
  • Rayford KJ, Cooley A, Strode AW, Osi I et al. Trypanosoma cruzi dysregulates expression profile of piRNAs in primary human cardiac fibroblasts during early infection phase. Front Cell Infect Microbiol 2023;13:1083379. PMID: 36936778
  • Ghabriel M, El Hosseiny A, Moustafa A, Amleh A et al. Computational comparative analysis identifies potential stemness-related markers for mesenchymal stromal/stem cells. Front Cell Dev Biol 2023;11:1065050. PMID: 36936690
  • Wu Z, Li W, Zhu H, Li X et al. Identification of cuproptosis-related subtypes and the development of a prognostic model in glioma. Front Genet 2023;14:1124439. PMID: 36936439
  • Li M, Tao J, Qian R, Jiang F et al. Development of alternative herbals remedy for gastric cancer based on transcriptomic analysis of immune infiltration and ferroptosis. Front Genet 2023;14:1086368. PMID: 36936437
  • He B, Wang F, Shu J, Cheng Y et al. Developing a non-invasive diagnostic model for pediatric Crohn's disease using RNA-seq analysis. Front Genet 2023;14:1142326. PMID: 36936436
  • Xu Y, Huang F, Guo W, Feng K et al. Characterization of chromatin accessibility patterns in different mouse cell types using machine learning methods at single-cell resolution. Front Genet 2023;14:1145647. PMID: 36936430
  • Yu L, Wang L, Sun J, Zhou X et al. N6-methyladenosine related gene expression signatures for predicting the overall survival and immune responses of patients with colorectal cancer. Front Genet 2023;14:885930. PMID: 36936424
  • Ji N, Xiang L, Zhou B, Lu Y et al. Hepatic gene expression profiles during fed-fasted-refed state in mice. Front Genet 2023;14:1145769. PMID: 36936413
  • Singh P, Mohsin M, Sultan A, Jha P et al. Combined Multiomics and In Silico Approach Uncovers PRKAR1A as a Putative Therapeutic Target in Multi-Organ Dysfunction Syndrome. ACS Omega 2023 Mar 14;8(10):9555-9568. PMID: 36936296
  • Zhong Y, Peng F, Luo X, Wang X et al. A pyroptosis-related gene signature for prognostic and immunological evaluation in breast cancer. Front Oncol 2022;12:964508. PMID: 36936274
  • Xiao B, Li M, Cui M, Yin C et al. A large-scale screening and functional sorting of tumour microenvironment prognostic genes for breast cancer patients. Front Endocrinol (Lausanne) 2023;14:1131525. PMID: 36936167
  • Garcia-Beltran C, Navarro-Gascon A, López-Bermejo A, Quesada-López T et al. Meteorin-like levels are associated with active brown adipose tissue in early infancy. Front Endocrinol (Lausanne) 2023;14:1136245. PMID: 36936161
  • Lucas M, Morris A, Townsend-Teague A, Tichit L et al. Inferring cell cycle phases from a partially temporal network of protein interactions. Cell Rep Methods 2023 Feb 27;3(2):100397. PMID: 36936083
  • Zhu X, Jiang C, Wang Z, Zhu X et al. PSKH1 affects proliferation and invasion of osteosarcoma cells via the p38/MAPK signaling pathway. Oncol Lett 2023 Apr;25(4):144. PMID: 36936027
  • Li T, Zhou T, Wu J, Lv H et al. Plasma exosome-derived circGAPVD1 as a potential diagnostic marker for colorectal cancer. Transl Oncol 2023 May;31:101652. PMID: 36934637
  • Wirth J, Huber N, Yin K, Brood S et al. Spatial transcriptomics using multiplexed deterministic barcoding in tissue. Nat Commun 2023 Mar 18;14(1):1523. PMID: 36934108
  • Zhang C, Sun Y, Guo Y, Xu J et al. JMJD1C promotes smooth muscle cell proliferation by activating glycolysis in pulmonary arterial hypertension. Cell Death Discov 2023 Mar 18;9(1):98. PMID: 36934091
  • Mu A, Klare WP, Baines SL, Ignatius Pang CN et al. Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria. Nat Commun 2023 Mar 18;14(1):1530. PMID: 36934086
  • Agosto LM, Mallory MJ, Ferretti MB, Blake D et al. Alternative splicing of HDAC7 regulates its interaction with 14-3-3 proteins to alter histone marks and target gene expression. Cell Rep 2023 Mar 28;42(3):112273. PMID: 36933216
  • Yu L, Ji T, Liao W, Xu Y et al. H4-methylation regulators mediated epitranscriptome patterns and tumor microenvironment infiltration characterization in hepatocellular carcinoma. Clin Epigenetics 2023 Mar 17;15(1):43. PMID: 36932439
  • Chen X, Gao Y, Xie J, Hua H et al. Identification of FCN1 as a novel macrophage infiltration-associated biomarker for diagnosis of pediatric inflammatory bowel diseases. J Transl Med 2023 Mar 17;21(1):203. PMID: 36932401
  • Njouendou AJ, Szarvas T, Tiofack AAZ, Kenfack RN et al. SOX2 dosage sustains tumor-promoting inflammation to drive disease aggressiveness by modulating the FOSL2/IL6 axis. Mol Cancer 2023 Mar 17;22(1):52. PMID: 36932385
  • Ascolani G, Angaroni F, Maspero D, Craighero F et al. LACE 2.0: an interactive R tool for the inference and visualization of longitudinal cancer evolution. BMC Bioinformatics 2023 Mar 17;24(1):99. PMID: 36932333
  • Liang Y, Wu D, Qu Q, Li Z et al. MORC4 plays a tumor-promoting role in colorectal cancer via regulating PCGF1/CDKN1A axis in vitro and in vivo. Cancer Gene Ther 2023 Jul;30(7):985-996. PMID: 36932196
  • Tang C, Sun H, Kadoki M, Han W et al. Blocking Dectin-1 prevents colorectal tumorigenesis by suppressing prostaglandin E2 production in myeloid-derived suppressor cells and enhancing IL-22 binding protein expression. Nat Commun 2023 Mar 17;14(1):1493. PMID: 36932082
  • Matsuzawa M, Ando T, Fukase S, Kimura M et al. The protective role of conjunctival goblet cell mucin sialylation. Nat Commun 2023 Mar 17;14(1):1417. PMID: 36932081
  • Jeong JS, Yoon Y, Kim W, Kim HJ et al. NecroX Improves Polyhexamethylene Guanidine-induced Lung Injury by Regulating Mitochondrial Oxidative Stress and Endoplasmic Reticulum Stress. Am J Respir Cell Mol Biol 2023 Jul;69(1):57-72. PMID: 36930952
  • de la Aleja AG, Herrero C, Torres-Torresano M, Schiaffino MT et al. Inhibition of LXR controls the polarization of human inflammatory macrophages through upregulation of MAFB. Cell Mol Life Sci 2023 Mar 17;80(4):96. PMID: 36930354
  • Li Y, Deng Y, He J et al. A novel prognostic index based on the analysis of glycolysis-related genes in idiopathic pulmonary fibrosis. Medicine (Baltimore) 2023 Mar 17;102(11):e33330. PMID: 36930085
  • Shetty A, Lim S, Strell P, Steer CJ et al. In Silico Stage-Matching of Human, Marmoset, Mouse, and Pig Embryos to Enhance Organ Development Through Interspecies Chimerism. Cell Transplant 2023 Jan-Dec;32:9636897231158728. PMID: 36929807
  • Xue T, Chen Y, Xu J, Du W et al. Cyclovirobuxine D inhibits growth and progression of non‑small cell lung cancer cells by suppressing the KIF11‑CDC25C‑CDK1‑CyclinB1 G(2)/M phase transition regulatory network and the NFκB/JNK signaling pathway. Int J Oncol 2023 May;62(5). PMID: 36929198
  • Larrayoz M, Garcia-Barchino MJ, Celay J, Etxebeste A et al. Preclinical models for prediction of immunotherapy outcomes and immune evasion mechanisms in genetically heterogeneous multiple myeloma. Nat Med 2023 Mar;29(3):632-645. PMID: 36928817
  • Tyagi N, Mehla K, Gupta D et al. Deciphering novel common gene signatures for rheumatoid arthritis and systemic lupus erythematosus by integrative analysis of transcriptomic profiles. PLoS One 2023;18(3):e0281637. PMID: 36928613
  • Mangiante L, Alcala N, Sexton-Oates A, Di Genova A et al. Multiomic analysis of malignant pleural mesothelioma identifies molecular axes and specialized tumor profiles driving intertumor heterogeneity. Nat Genet 2023 Apr;55(4):607-618. PMID: 36928603
  • Valente M, Collinet N, Vu Manh TP, Popoff D et al. Novel mouse models based on intersectional genetics to identify and characterize plasmacytoid dendritic cells. Nat Immunol 2023 Apr;24(4):714-728. PMID: 36928414
  • Zhang Y, Liu G, Tao M, Ning H et al. Integrated transcriptome study of the tumor microenvironment for treatment response prediction in male predominant hypopharyngeal carcinoma. Nat Commun 2023 Mar 16;14(1):1466. PMID: 36928331
  • García-Valiente R, Merino Tejero E, Stratigopoulou M, Balashova D et al. Understanding repertoire sequencing data through a multiscale computational model of the germinal center. NPJ Syst Biol Appl 2023 Mar 16;9(1):8. PMID: 36927990
  • Zhong Z, Li J, Zhong J, Huang Y et al. MAPKAPK2, a potential dynamic network biomarker of α-synuclein prior to its aggregation in PD patients. NPJ Parkinsons Dis 2023 Mar 16;9(1):41. PMID: 36927756
  • Yu J, Wang B, Zhang F, Ren Z et al. Single-cell transcriptome reveals Staphylococcus aureus modulating fibroblast differentiation in the bone-implant interface. Mol Med 2023 Mar 16;29(1):35. PMID: 36927352
  • Escorcia-Rodríguez JM, Gaytan-Nuñez E, Hernandez-Benitez EM, Zorro-Aranda A et al. Improving gene regulatory network inference and assessment: The importance of using network structure. Front Genet 2023;14:1143382. PMID: 36926589
  • Chen Y, Ouyang T, Yin Y, Fang C et al. Identification of immune-related hub genes and analysis of infiltrated immune cells of idiopathic pulmonary artery hypertension. Front Cardiovasc Med 2023;10:1125063. PMID: 36926043
  • Hsiao YC, Wang IH, Yang TL et al. Fibrotic remodeling and tissue regeneration mechanisms define the therapeutic potential of human muscular progenitors. Bioeng Transl Med 2023 Mar;8(2):e10439. PMID: 36925693
  • Tang P, Wu Y, Zhu C, Li Q et al. Microdissecting the Hypoxia Landscape in Colon Cancer Reveals Three Distinct Subtypes and Their Potential Mechanism to Facilitate the Development of Cancer. J Oncol 2023;2023:9346621. PMID: 36925652
  • Datta R, Gholampour MA, Yang CD, Volk R et al. MFGE8 links absorption of dietary fatty acids with catabolism of enterocyte lipid stores through HNF4γ-dependent transcription of CES enzymes. Cell Rep 2023 Mar 28;42(3):112249. PMID: 36924494
  • Ming X, Cai W, Li Z, Yang X et al. CD40LG and GZMB were correlated with adipose tissue macrophage infiltration and involved in obstructive sleep apnea related metabolic dysregulation: Evidence from bioinformatics analysis. Front Genet 2023;14:1128139. PMID: 36923793
  • Wang X, Bajpai AK, Gu Q, Ashbrook DG et al. Weighted gene co-expression network analysis identifies key hub genes and pathways in acute myeloid leukemia. Front Genet 2023;14:1009462. PMID: 36923792
  • Zeng Y, Huang J, Guo R, Cao S et al. Identification and validation of metabolism-related hub genes in idiopathic pulmonary fibrosis. Front Genet 2023;14:1058582. PMID: 36923791
  • Dittrich AM, Mienert J, Pott J, Engels L et al. Clinical phenotyping of plasma thrombospondin-2 reveals relationship to right ventricular structure and function in pulmonary hypertension. ERJ Open Res 2023 Mar;9(2). PMID: 36923572
  • Ning L, Wang X, Xuan B, Ma Y et al. Identification and investigation of depression-related molecular subtypes in inflammatory bowel disease and the anti-inflammatory mechanisms of paroxetine. Front Immunol 2023;14:1145070. PMID: 36923403
  • Fang Y, Zhang Y, Jia C, Ren C et al. Niaoduqing alleviates podocyte injury in high glucose model via regulating multiple targets and AGE/RAGE pathway: Network pharmacology and experimental validation. Front Pharmacol 2023;14:1047184. PMID: 36923354
  • Kacher J, Manches O, Aspord C, Sartelet H et al. Impaired Antitumor Immune Response in MYCN-amplified Neuroblastoma Is Associated with Lack of CCL2 Secretion and Poor Dendritic Cell Recruitment. Cancer Res Commun 2022 Jul;2(7):577-589. PMID: 36923280
  • Cao Y, Du Y, Jia W, Ding J et al. Identification of biomarkers for the diagnosis of chronic kidney disease (CKD) with non-alcoholic fatty liver disease (NAFLD) by bioinformatics analysis and machine learning. Front Endocrinol (Lausanne) 2023;14:1125829. PMID: 36923221
  • Shi X, Zhang W, Bao X, Liu X et al. Eugenol modulates the NOD1-NF-κB signaling pathway via targeting NF-κB protein in triple-negative breast cancer cells. Front Endocrinol (Lausanne) 2023;14:1136067. PMID: 36923216
  • Ye XW, Liu MN, Wang X, Cheng SQ et al. Exploring the common pathogenesis of Alzheimer's disease and type 2 diabetes mellitus via microarray data analysis. Front Aging Neurosci 2023;15:1071391. PMID: 36923118
  • Qu L, Yin Y, Yin T, Zhang X et al. NCOA2-induced secretion of leptin leads to fetal growth restriction via the NF-κB signaling pathway. Ann Transl Med 2023 Feb 28;11(4):166. PMID: 36923094
  • Gao H, Zhou F, Li R, Yuan J et al. E2F1 inhibits cellular senescence and promotes oxaliplatin resistance in colorectal cancer. Ann Transl Med 2023 Feb 28;11(4):185. PMID: 36923082
  • Hong W, Zhao Y, Weng YL, Cheng C et al. Random Forest model reveals the interaction between N6-methyladenosine modifications and RNA-binding proteins. iScience 2023 Mar 17;26(3):106250. PMID: 36922995
  • Storti M, Faietti ML, Murgia X, Catozzi C et al. Time-resolved transcriptomic profiling of the developing rabbit's lungs: impact of premature birth and implications for modelling bronchopulmonary dysplasia. Respir Res 2023 Mar 15;24(1):80. PMID: 36922832
  • Issa GC, Aldoss I, DiPersio J, Cuglievan B et al. The menin inhibitor revumenib in KMT2A-rearranged or NPM1-mutant leukaemia. Nature 2023 Mar;615(7954):920-924. PMID: 36922593
  • Du M, Gu D, Xin J, Peters U et al. Integrated multi-omics approach to distinct molecular characterization and classification of early-onset colorectal cancer. Cell Rep Med 2023 Mar 21;4(3):100974. PMID: 36921601
  • Li Y, Wang S, Jin K, Jin W et al. UHMK1 promotes lung adenocarcinoma oncogenesis by regulating the PI3K/AKT/mTOR signaling pathway. Thorac Cancer 2023 Apr;14(12):1077-1088. PMID: 36919755
  • Eun JW, Yoon JH, Ahn HR, Kim S et al. Cancer-associated fibroblast-derived secreted phosphoprotein 1 contributes to resistance of hepatocellular carcinoma to sorafenib and lenvatinib. Cancer Commun (Lond) 2023 Apr;43(4):455-479. PMID: 36919193
  • Liang X, Liu J, Liu X, Jin Y et al. LINP1 represses unfolded protein response by directly inhibiting eIF2α phosphorylation to promote cutaneous squamous cell carcinoma. Exp Hematol Oncol 2023 Mar 14;12(1):31. PMID: 36918934
  • Russo M, Morelli S, Capranico G et al. Expression of down-regulated ERV LTR elements associates with immune activation in human small-cell lung cancers. Mob DNA 2023 Mar 14;14(1):2. PMID: 36918931
  • Xia P, Ma H, Chen J, Liu Y et al. Differential expression of pyroptosis-related genes in the hippocampus of patients with Alzheimer's disease. BMC Med Genomics 2023 Mar 14;16(1):56. PMID: 36918839
  • Gonzalez P, Dos Santos A, Darnaud M, Moniaux N et al. Antimicrobial protein REG3A regulates glucose homeostasis and insulin resistance in obese diabetic mice. Commun Biol 2023 Mar 15;6(1):269. PMID: 36918710
  • Dai W, Guo Y, Shen Z, Wang J et al. Identification of LBH and SPP1 involved in hepatic stellate cell activation during liver fibrogenesis. Hum Cell 2023 May;36(3):1054-1067. PMID: 36917392
  • Pham D, Silberger DJ, Nguyen KN, Gao M et al. Batf stabilizes Th17 cell development via impaired Stat5 recruitment of Ets1-Runx1 complexes. EMBO J 2023 Apr 17;42(8):e109803. PMID: 36917143
  • Chen G, Hao H, Wang LE et al. Bioinformatics analysis and verification of key candidate genes influencing the pathogenesis of chronic rhinosinusitis with nasal polyps. Am J Transl Res 2023;15(2):710-728. PMID: 36915741
  • Shi J, Wu Z, Wu X, Huangfu L et al. Characterization of glycometabolism and tumor immune microenvironment for predicting clinical outcomes in gastric cancer. iScience 2023 Mar 17;26(3):106214. PMID: 36915686
  • Albadawy R, Hasanin AH, Agwa SHA, Hamady S et al. Prospective insight into the role of benzyl propylene glycoside as a modulator of the cGAS-STING signaling pathway in the management of nonalcoholic fatty pancreas animal model. Biol Res 2023 Mar 13;56(1):11. PMID: 36915161
  • Chang J, Wu H, Wu J, Liu M et al. Constructing a novel mitochondrial-related gene signature for evaluating the tumor immune microenvironment and predicting survival in stomach adenocarcinoma. J Transl Med 2023 Mar 13;21(1):191. PMID: 36915111
  • Ceranski AK, Carreño-Gonzalez MJ, Ehlers AC, Colombo MV et al. Hypoxia and HIFs in Ewing sarcoma: new perspectives on a multi-facetted relationship. Mol Cancer 2023 Mar 13;22(1):49. PMID: 36915100
  • Ren Y, Tseng E, Smith TPL, Hiendleder S et al. Long read isoform sequencing reveals hidden transcriptional complexity between cattle subspecies. BMC Genomics 2023 Mar 13;24(1):108. PMID: 36915055
  • Song S, Feng L, Xi K, Sun Z et al. Single-cell profiling of the copy-number heterogeneity in colorectal cancer. Chin Med J (Engl) 2023 Mar 20;136(6):707-718. PMID: 36914941
  • Pu W, Zhu H, Zhang M, Pikiolek M et al. Bipotent transitional liver progenitor cells contribute to liver regeneration. Nat Genet 2023 Apr;55(4):651-664. PMID: 36914834
  • Turrell FK, Orha R, Guppy NJ, Gillespie A et al. Age-associated microenvironmental changes highlight the role of PDGF-C in ER(+) breast cancer metastatic relapse. Nat Cancer 2023 Apr;4(4):468-484. PMID: 36914817
  • Zhang Y, Gao Y, Jiang Y, Ding Y et al. Histone demethylase KDM5B licenses macrophage-mediated inflammatory responses by repressing Nfkbia transcription. Cell Death Differ 2023 May;30(5):1279-1292. PMID: 36914768
  • Jusue-Torres I, Tiv R, Ricarte-Filho JC, Mallisetty A et al. Myo1e overexpression in lung adenocarcinoma is associated with increased risk of mortality. Sci Rep 2023 Mar 13;13(1):4107. PMID: 36914720
  • Rajendren S, Ye X, Dunker W, Richardson A et al. The cellular and KSHV A-to-I RNA editome in primary effusion lymphoma and its role in the viral lifecycle. Nat Commun 2023 Mar 13;14(1):1367. PMID: 36914661
  • Li Z, Sun X, He J, Kong D et al. Identification of a hypoxia-related signature as candidate detector for schizophrenia based on genome-wide gene expression. Hum Hered 2023 Mar 13;88(1):18-28. PMID: 36913932
  • Feng X, Sun R, Lee M, Chen X et al. Cell circuits between leukemic cells and mesenchymal stem cells block lymphopoiesis by activating lymphotoxin beta receptor signaling. Elife 2023 Mar 13;12. PMID: 36912771
  • Zhang R, Gan W, Zong J, Hou Y et al. Developing an m5C regulator-mediated RNA methylation modification signature to predict prognosis and immunotherapy efficacy in rectal cancer. Front Immunol 2023;14:1054700. PMID: 36911744
  • Zhou TT, Sun JJ, Tang LD, Yuan Y et al. Potential diagnostic markers and therapeutic targets for rheumatoid arthritis with comorbid depression based on bioinformatics analysis. Front Immunol 2023;14:1007624. PMID: 36911710
  • Depierreux DM, Smith GL, Ferguson BJ et al. Transcriptional reprogramming of natural killer cells by vaccinia virus shows both distinct and conserved features with mCMV. Front Immunol 2023;14:1093381. PMID: 36911702
  • Sun Z, Ke L, Zhao Q, Qu J et al. The use of bioinformatics methods to identify the effects of SARS-CoV-2 and influenza viruses on the regulation of gene expression in patients. Front Immunol 2023;14:1098688. PMID: 36911695
  • Xu M, Zhou H, Hu P, Pan Y et al. Identification and validation of immune and oxidative stress-related diagnostic markers for diabetic nephropathy by WGCNA and machine learning. Front Immunol 2023;14:1084531. PMID: 36911691
  • Li J, Diamante G, Ahn IS, Wijaya D et al. Determination of the nanoparticle- and cell-specific toxicological mechanisms in 3D liver spheroids using scRNAseq analysis. Nano Today 2022 Dec;47. PMID: 36911538
  • Gao J, Wang D, Yang Q, Tang M et al. The signature of pyroptosis-related gene prognostic and immune microenvironment in adrenocortical carcinoma. Front Mol Biosci 2023;10:1131402. PMID: 36911522
  • Dong X, Zhou M, Li X, Huang H et al. Gene profiling reveals the role of inflammation, abnormal uterine muscle contraction and vascularity in recurrent implantation failure. Front Genet 2023;14:1108805. PMID: 36911409
  • Ren C, Gao A, Fu C, Teng X et al. The biomarkers related to immune infiltration to predict distant metastasis in breast cancer patients. Front Genet 2023;14:1105689. PMID: 36911401
  • Zhao S, Zhu K, Li X, Zhong X et al. Co-expression and interaction network analysis reveals dysregulated neutrophil and T-cell activation as the core mechanism associated with septic shock. Front Genet 2023;14:1132361. PMID: 36911395
  • Deng Y, Wang Y, Shi Q, Jiang Y et al. Identification of hub genes associated with osteoporosis development by comprehensive bioinformatics analysis. Front Genet 2023;14:1028681. PMID: 36911390
  • Ma D, Qin X, Zhong ZA, Liao H et al. Systematic analysis of myocardial immune progression in septic cardiomyopathy: Immune-related mechanisms in septic cardiomyopathy. Front Cardiovasc Med 2022;9:1036928. PMID: 36911241
  • Tao Y, Zhang H, Jin M, Xu H et al. Co-expression network of mRNA and DNA methylation in first-episode and drug-naive adolescents with major depressive disorder. Front Psychiatry 2023;14:1065417. PMID: 36911124
  • Jinteng L, Peitao X, Wenhui Y, Guiwen Y et al. BMAL1-TTK-H2Bub1 loop deficiency contributes to impaired BM-MSC-mediated bone formation in senile osteoporosis. Mol Ther Nucleic Acids 2023 Mar 14;31:568-585. PMID: 36910712
  • Fan H, Li J, Manuel AM, Zhao Z et al. Enzalutamide-induced signatures revealed by epigenetic plasticity using single-cell multi-omics sequencing in prostate cancer. Mol Ther Nucleic Acids 2023 Mar 14;31:648-661. PMID: 36910711
  • Wang J, Guo L, Lv C, Zhou M et al. Developing mRNA signatures as a novel prognostic biomarker predicting high risk multiple myeloma. Front Oncol 2023;13:1105196. PMID: 36910651
  • Qu G, Xu Y, Qu Y, Qiu J et al. Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing's sarcoma. Front Oncol 2023;13:1000949. PMID: 36910645
  • Fan LY, Yang J, Li ML, Liu RY et al. Single-nucleus transcriptional profiling uncovers the reprogrammed metabolism of astrocytes in Alzheimer's disease. Front Mol Neurosci 2023;16:1136398. PMID: 36910261
  • Coelho FS, Gava SG, Andrade LF, Geraldo JA et al. Schistosoma mansoni coactivator associated arginine methyltransferase 1 (SmCARM1) effect on parasite reproduction. Front Microbiol 2023;14:1079855. PMID: 36910171
  • Zhang J, Li X, Xiao J, Xiang Y et al. Analysis of gene expression profiles in Alzheimer's disease patients with different lifespan: A bioinformatics study focusing on the disease heterogeneity. Front Aging Neurosci 2023;15:1072184. PMID: 36909942
  • Pratomo IP, Tedjo A, Noor DR, Rosmalena et al. Differentially Expressed Genes Analysis in the Human Small Airway Epithelium of Healthy Smokers Shows Potential Risks of Disease Caused by Oxidative Stress and Inflammation and the Potentiality of Astaxanthin as an Anti-Inflammatory Agent. Int J Inflam 2023;2023:4251299. PMID: 36909892
  • Wang X, Tan Y, Liu F, Wang J et al. Pharmacological network analysis of the functions and mechanism of kaempferol from Du Zhong in intervertebral disc degeneration (IDD). J Orthop Translat 2023 Mar;39:135-146. PMID: 36909862
  • Pranaya S, Ragunath PK, Venkatesan P et al. Diagnosis of triple negative breast cancer using expression data with several machine learning tools. Bioinformation 2022;18(4):325-330. PMID: 36909691
  • Yi H, Plotkin A, Stanley N et al. Benchmarking differential abundance methods for finding condition-specific prototypical cells in multi-sample single-cell datasets. bioRxiv 2023 Feb 27 PMID: 36909641
  • Warren E, Gordon-Lipkin EM, Cheung F, Chen J et al. Inflammatory and interferon gene expression signatures in patients with mitochondrial disease. Res Sq 2023 Feb 27 PMID: 36909538
  • Gurdon B, Yates SC, Csucs G, Groeneboom NE et al. Detecting the effect of genetic diversity on brain composition in an Alzheimer's disease mouse model. bioRxiv 2023 Feb 28 PMID: 36909528
  • Liu L, Hu Q, Zhang Y, Sun X et al. Classification molecular subtypes of hepatocellular carcinoma based on PRMT-related genes. Front Pharmacol 2023;14:1145408. PMID: 36909154
  • Li R, Zhu H, Li Q, Tang J et al. METTL3-mediated m6A modification of has_circ_0007905 promotes age-related cataract progression through miR-6749-3p/EIF4EBP1. PeerJ 2023;11:e14863. PMID: 36908822
  • Luo HT, He Q, Yang W, He F et al. Single-cell analyses reveal distinct expression patterns and roles of long non-coding RNAs during hESC differentiation into pancreatic progenitors. Stem Cell Res Ther 2023 Mar 13;14(1):38. PMID: 36907881
  • Kobayashi M, Wei H, Yamanashi T, Azevedo Portilho N et al. HSC-independent definitive hematopoiesis persists into adult life. Cell Rep 2023 Mar 28;42(3):112239. PMID: 36906851
  • Steinfass T, Poelchen J, Sun Q, Mastrogiulio G et al. Secretogranin II influences the assembly and function of MHC class I in melanoma. Exp Hematol Oncol 2023 Mar 11;12(1):29. PMID: 36906639
  • Charytonowicz D, Brody R, Sebra R et al. Interpretable and context-free deconvolution of multi-scale whole transcriptomic data with UniCell deconvolve. Nat Commun 2023 Mar 11;14(1):1350. PMID: 36906603
  • Schnöller LE, Piehlmaier D, Weber P, Brix N et al. Systematic in vitro analysis of therapy resistance in glioblastoma cell lines by integration of clonogenic survival data with multi-level molecular data. Radiat Oncol 2023 Mar 11;18(1):51. PMID: 36906590
  • Veschi V, Turdo A, Modica C, Verona F et al. Recapitulating thyroid cancer histotypes through engineering embryonic stem cells. Nat Commun 2023 Mar 11;14(1):1351. PMID: 36906579
  • Zhang X, Yang L, Zhang D, Wang X et al. Prognostic assessment capability of a five-gene signature in pancreatic cancer: a machine learning based-study. BMC Gastroenterol 2023 Mar 11;23(1):68. PMID: 36906533
  • Dress RJ, Ginhoux F et al. Characterization of Developmental Trajectories of Dendritic Cell Hematopoiesis Through Single-Cell RNA Sequencing Methods. Methods Mol Biol 2023;2618:375-385. PMID: 36905527
  • Ribas-Aulinas F, Ribo S, Casas E, Mourin-Fernandez M et al. Intergenerational Inheritance of Hepatic Steatosis in a Mouse Model of Childhood Obesity: Potential Involvement of Germ-Line microRNAs. Nutrients 2023 Mar 1;15(5). PMID: 36904241
  • Xie CG, Jin P, Xu J, Li S et al. Genome-Wide Analysis of MYB Transcription Factor Gene Superfamily Reveals BjPHL2a Involved in Modulating the Expression of BjCHI1 in Brassica juncea. Plants (Basel) 2023 Feb 23;12(5). PMID: 36903872
  • Chen Y, Xia S, Zhang L, Qin X et al. Mitochondria-Associated Endoplasmic Reticulum Membrane (MAM) Is a Promising Signature to Predict Prognosis and Therapies for Hepatocellular Carcinoma (HCC). J Clin Med 2023 Feb 24;12(5). PMID: 36902617
  • Saeed R, Mohammed AK, Saleh SE, Aboulwafa MM et al. Dual Role of Mitogen-Activated Protein Kinase 8 Interacting Protein-1 in Inflammasome and Pancreatic β-Cell Function. Int J Mol Sci 2023 Mar 5;24(5). PMID: 36902422
  • Christodoulou CC, Papanicolaou EZ et al. Integrated Bioinformatics Analysis of Shared Genes, miRNA, Biological Pathways and Their Potential Role as Therapeutic Targets in Huntington's Disease Stages. Int J Mol Sci 2023 Mar 2;24(5). PMID: 36902304
  • Lucarelli G, Netti GS, Rutigliano M, Lasorsa F et al. MUC1 Expression Affects the Immunoflogosis in Renal Cell Carcinoma Microenvironment through Complement System Activation and Immune Infiltrate Modulation. Int J Mol Sci 2023 Mar 2;24(5). PMID: 36902242
  • Ma L, Chen H, Yang W, Ji Z et al. Crosstalk between Mesenchymal Stem Cells and Cancer Stem Cells Reveals a Novel Stemness-Related Signature to Predict Prognosis and Immunotherapy Responses for Bladder Cancer Patients. Int J Mol Sci 2023 Mar 1;24(5). PMID: 36902193
  • Park JF, Liang J, Umar S et al. Electrical Remodeling in Right Ventricular Failure Due to Pulmonary Hypertension: Unraveling Novel Therapeutic Targets. Int J Mol Sci 2023 Feb 27;24(5). PMID: 36902065
  • Li M, Gong W, Chen J, Zhang Y et al. PPP3R1 Promotes MSCs Senescence by Inducing Plasma Membrane Depolarization and Increasing Ca(2+) Influx. Int J Mol Sci 2023 Feb 23;24(5). PMID: 36901851
  • Hoch M, Rauthe J, Cesnulevicius K, Schultz M et al. Cell-Type-Specific Gene Regulatory Networks of Pro-Inflammatory and Pro-Resolving Lipid Mediator Biosynthesis in the Immune System. Int J Mol Sci 2023 Feb 22;24(5). PMID: 36901771
  • Jiang C, Liu Z, Yuan J, Wu Z et al. Construction of Two Independent RAB Family-Based Scoring Systems Based on Machine Learning Algorithms and Definition of RAB13 as a Novel Therapeutic Target for Hepatocellular Carcinoma. Int J Mol Sci 2023 Feb 22;24(5). PMID: 36901767
  • Tokić S, Jirouš M, Plužarić V, Mihalj M et al. The miR-20a/miR-92b Profile Is Associated with Circulating γδ T-Cell Perturbations in Mild Psoriasis. Int J Mol Sci 2023 Feb 21;24(5). PMID: 36901753
  • Markov AV, Savin IA, Zenkova MA, Sen'kova AV et al. Identification of Novel Core Genes Involved in Malignant Transformation of Inflamed Colon Tissue Using a Computational Biology Approach and Verification in Murine Models. Int J Mol Sci 2023 Feb 21;24(5). PMID: 36901742
  • Delcroix V, Mauduit O, Yang M, Srivastava A et al. Lacrimal Gland Epithelial Cells Shape Immune Responses through the Modulation of Inflammasomes and Lipid Metabolism. Int J Mol Sci 2023 Feb 21;24(5). PMID: 36901740
  • Yan S, Yao N, Li X, Sun M et al. The Association between the Differential Expression of lncRNA and Type 2 Diabetes Mellitus in People with Hypertriglyceridemia. Int J Mol Sci 2023 Feb 21;24(5). PMID: 36901708
  • Liu C, Huo Y, Zhang Y, Yin F et al. Development and Experimental Validation of a Novel Prognostic Signature for Gastric Cancer. Cancers (Basel) 2023 Mar 5;15(5). PMID: 36900401
  • He Y, Døssing KBV, Sloth AB, He X et al. Quantitative Evaluation of Stem-like Markers of Human Glioblastoma Using Single-Cell RNA Sequencing Datasets. Cancers (Basel) 2023 Mar 2;15(5). PMID: 36900348
  • Gharib E, Nasrabadi PN, Robichaud GA et al. Circular RNA Expression Signatures Provide Promising Diagnostic and Therapeutic Biomarkers for Chronic Lymphocytic Leukemia. Cancers (Basel) 2023 Mar 1;15(5). PMID: 36900344
  • Islam MA, Hossen MB, Horaira MA, Hossen MA et al. Exploring Core Genes by Comparative Transcriptomics Analysis for Early Diagnosis, Prognosis, and Therapies of Colorectal Cancer. Cancers (Basel) 2023 Feb 21;15(5). PMID: 36900162
  • Tan X, Xu L, Jian X, Ouyang J et al. PGNneo: A Proteogenomics-Based Neoantigen Prediction Pipeline in Noncoding Regions. Cells 2023 Mar 1;12(5). PMID: 36899918
  • Rajtak A, Czerwonka A, Pitter M, Kotarski J et al. Clinical Relevance of Mortalin in Ovarian Cancer Patients. Cells 2023 Feb 23;12(5). PMID: 36899836
  • Cortellari M, Bionda A, Cocco R, Sechi S et al. Genomic Analysis of the Endangered Fonni's Dog Breed: A Comparison of Genomic and Phenotypic Evaluation Scores. Animals (Basel) 2023 Feb 23;13(5). PMID: 36899675
  • Banigan EJ, Tang W, van den Berg AA, Stocsits RR et al. Transcription shapes 3D chromatin organization by interacting with loop extrusion. Proc Natl Acad Sci U S A 2023 Mar 14;120(11):e2210480120. PMID: 36897969
  • Halkola AS, Joki K, Mirtti T, Mäkelä MM et al. OSCAR: Optimal subset cardinality regression using the L0-pseudonorm with applications to prognostic modelling of prostate cancer. PLoS Comput Biol 2023 Mar;19(3):e1010333. PMID: 36897911
  • Zhang Y, Zhang Z, Wang SJ, Yang JN et al. Molecular targets and mechanisms involved in the action of Banxia Shumi decoction in insomnia treatment. Medicine (Baltimore) 2023 Mar 10;102(10):e33229. PMID: 36897671
  • Zhao D, Wang X, Beeraka NM, Zhou R et al. High Body Mass Index Was Associated With Human Epidermal Growth Factor Receptor 2-Positivity, Histological Grade and Disease Progression Differently by Age. World J Oncol 2023 Feb;14(1):75-83. PMID: 36895993
  • Ju G, Zeng K, Lu L, Diao H et al. Identification and validation of the cellular senescence-related molecular subtypes of triple negative breast cancer via integrating bulk and single-cell RNA sequencing data. Am J Cancer Res 2023;13(2):569-588. PMID: 36895975
  • Huang K, Mei K, Duan J, Wang R et al. Identification and validation of ferroptosis-related genes and immune infiltration in ischemic cardiomyopathy. Front Cardiovasc Med 2023;10:1078290. PMID: 36895830
  • Callegaro G, Schimming JP, Piñero González J, Kunnen SJ et al. Identifying multiscale translational safety biomarkers using a network-based systems approach. iScience 2023 Mar 17;26(3):106094. PMID: 36895646
  • Mei Y, Liang D, Ai B, Wang T et al. Genome-wide identification of A-to-I RNA editing events provides the functional implications in PDAC. Front Oncol 2023;13:1092046. PMID: 36895481
  • Liu Q, Li R, Wu H, Liang Z et al. A novel cuproptosis-related gene model predicts outcomes and treatment responses in pancreatic adenocarcinoma. BMC Cancer 2023 Mar 10;23(1):226. PMID: 36894917
  • Chen D, Chen H, Dai G, Zhang H et al. Genome-wide identification and expression analysis of the anthocyanin-related genes during seed coat development in six Brassica species. BMC Genomics 2023 Mar 9;24(1):103. PMID: 36894869
  • Vlasevska S, Garcia-Ibanez L, Duval R, Holmes AB et al. KMT2D acetylation by CREBBP reveals a cooperative functional interaction at enhancers in normal and malignant germinal center B cells. Proc Natl Acad Sci U S A 2023 Mar 14;120(11):e2218330120. PMID: 36893259
  • Zhou Y, Li X, Ng L, Zhao Q et al. Identification of copper death-associated molecular clusters and immunological profiles in rheumatoid arthritis. Front Immunol 2023;14:1103509. PMID: 36891318
  • Han C, Deng Y, Yang B, Hu P et al. Identification of a novel senescence-associated signature to predict biochemical recurrence and immune microenvironment for prostate cancer. Front Immunol 2023;14:1126902. PMID: 36891298
  • Lacotte S, Slits F, Moeckli B, Peloso A et al. Anti-CD122 antibody restores specific CD8(+) T cell response in nonalcoholic steatohepatitis and prevents hepatocellular carcinoma growth. Oncoimmunology 2023;12(1):2184991. PMID: 36891258
  • Jiang J, Chen S, Yu T, Chang C et al. Dynamic analysis of gene signatures in the progression of COPD. ERJ Open Res 2023 Mar;9(2). PMID: 36891078
  • Yu K, Li S, Wang C, Zhang Y et al. APOC1 as a novel diagnostic biomarker for DN based on machine learning algorithms and experiment. Front Endocrinol (Lausanne) 2023;14:1102634. PMID: 36891052
  • Song S, Zhu Y, Zhang X, Chen S et al. Prognostic values of long noncoding RNA in bone metastasis of prostate cancer: A systematic review and meta-analysis. Front Oncol 2023;13:1085464. PMID: 36890836
  • Zhang B, Qin J et al. LINC00659 exacerbates endothelial progenitor cell dysfunction in deep vein thrombosis of the lower extremities by activating DNMT3A-mediated FGF1 promoter methylation. Thromb J 2023 Mar 8;21(1):24. PMID: 36890543
  • Zhuang L, Sun Q, Huang S, Hu L et al. A comprehensive analysis of PANoptosome to prognosis and immunotherapy response in pan-cancer. Sci Rep 2023 Mar 8;13(1):3877. PMID: 36890219
  • Yang G, Li T, Liu J, Quan Z et al. lncRNA MAGI2-AS3 suppresses castration-resistant prostate cancer proliferation and migration via the miR-106a-5p/RAB31 axis. Genomics 2023 Mar;115(2):110599. PMID: 36889366
  • González-García I, García-Clavé E, Cebrian-Serrano A, Le Thuc O et al. Estradiol regulates leptin sensitivity to control feeding via hypothalamic Cited1. Cell Metab 2023 Mar 7;35(3):438-455.e7. PMID: 36889283
  • Wei S, Lu K, Xing J, Yu W et al. A multidimensional pan-cancer analysis of DCAF13 and its protumorigenic effect in lung adenocarcinoma. FASEB J 2023 Apr;37(4):e22849. PMID: 36884358
  • Cao W, Sturmlechner I, Zhang H, Jin J et al. TRIB2 safeguards naive T cell homeostasis during aging. Cell Rep 2023 Mar 28;42(3):112195. PMID: 36884349
  • Wang JX, Cao B, Ma N, Wu KY et al. Collectin-11 promotes cancer cell proliferation and tumor growth. JCI Insight 2023 Mar 8;8(5). PMID: 36883567
  • Hasan MAM, Maniruzzaman M, Shin J et al. Differentially expressed discriminative genes and significant meta-hub genes based key genes identification for hepatocellular carcinoma using statistical machine learning. Sci Rep 2023 Mar 7;13(1):3771. PMID: 36882493
  • Li G, Gu L, Zhao F, Hu Y et al. WFDC12-overexpressing contributes to the development of atopic dermatitis via accelerating ALOX12/15 metabolism and PAF accumulation. Cell Death Dis 2023 Mar 8;14(3):185. PMID: 36882395
  • Yan ZJ, Yu CT, Chen L, Wang HY et al. Development of a TMErisk model based on immune infiltration in tumour microenvironment to predict prognosis of immune checkpoint inhibitor treatment in hepatocellular carcinoma. Brief Bioinform 2023 Mar 19;24(2). PMID: 36882021
  • Wang T, Jiang X, Lu Y, Ruan Y et al. Identification and integration analysis of a novel prognostic signature associated with cuproptosis-related ferroptosis genes and relevant lncRNA regulatory axis in lung adenocarcinoma. Aging (Albany NY) 2023 Mar 3;15(5):1543-1563. PMID: 36881404
  • Gallego-Paez LM, Edwards WJS, Chanduri M, Guo Y et al. TLN1 contains a cancer-associated cassette exon that alters talin-1 mechanosensitivity. J Cell Biol 2023 May 1;222(5). PMID: 36880935
  • Yang X, Tang W, He Y, An H et al. A novel fatty-acid metabolism-based classification for triple negative breast cancer. Aging (Albany NY) 2023 Feb 25;15(4):1177-1198. PMID: 36880837
  • Farrell M, Fairfield H, Karam M, D'Amico A et al. Targeting the fatty acid binding proteins disrupts multiple myeloma cell cycle progression and MYC signaling. Elife 2023 Mar 7;12. PMID: 36880649
  • Kenney AD, Zani A, Kawahara J, Eddy AC et al. Interferon-induced transmembrane protein 3 (IFITM3) limits lethality of SARS-CoV-2 in mice. EMBO Rep 2023 Apr 5;24(4):e56660. PMID: 36880581
  • Oubounyt M, Elkjaer ML, Laske T, Grønning AGB et al. De-novo reconstruction and identification of transcriptional gene regulatory network modules differentiating single-cell clusters. NAR Genom Bioinform 2023 Mar;5(1):lqad018. PMID: 36879901
  • Höllbacher B, Strickland B, Greulich F, Uhlenhaut NH et al. Machine learning reveals STAT motifs as predictors for GR-mediated gene repression. Comput Struct Biotechnol J 2023;21:1697-1710. PMID: 36879886
  • Santamarina-García M, Brea-Iglesias J, Bramsen JB, Fuentes-Losada M et al. MSIMEP: Predicting microsatellite instability from microarray DNA methylation tumor profiles. iScience 2023 Mar 17;26(3):106127. PMID: 36879816
  • Zanini F, Che X, Knutsen C, Liu M et al. Developmental diversity and unique sensitivity to injury of lung endothelial subtypes during postnatal growth. iScience 2023 Mar 17;26(3):106097. PMID: 36879800
  • Chen X, Li M, Zhu S, Lu Y et al. Proteomic profiling of IgA nephropathy reveals distinct molecular prognostic subtypes. iScience 2023 Mar 17;26(3):105961. PMID: 36879796
  • Kodam P, Sai Swaroop R, Pradhan SS, Sivaramakrishnan V et al. Integrated multi-omics analysis of Alzheimer's disease shows molecular signatures associated with disease progression and potential therapeutic targets. Sci Rep 2023 Mar 6;13(1):3695. PMID: 36879094
  • Zhu GQ, Tang Z, Huang R, Qu WF et al. CD36(+) cancer-associated fibroblasts provide immunosuppressive microenvironment for hepatocellular carcinoma via secretion of macrophage migration inhibitory factor. Cell Discov 2023 Mar 6;9(1):25. PMID: 36878933
  • Hou X, Xu M, Zhu C, Gao J et al. Systematic characterization of chromodomain proteins reveals an H3K9me1/2 reader regulating aging in C. elegans. Nat Commun 2023 Mar 6;14(1):1254. PMID: 36878913
  • Guardia T, Zhang Y, Thompson KN, Lee SJ et al. OBSCN restoration via OBSCN-AS1 long-noncoding RNA CRISPR-targeting suppresses metastasis in triple-negative breast cancer. Proc Natl Acad Sci U S A 2023 Mar 14;120(11):e2215553120. PMID: 36877839
  • Nekoeian S, Ferdowsian S, Asgari Y, Azizi Z et al. Identification of Hub Genes Associated with Resistance to Prednisolone in Acute Lymphoblastic Leukemia Based on Weighted Gene Co-expression Network Analysis. Mol Biotechnol 2023 Mar 6 PMID: 36877306
  • Li M, Liu M, Han W, Wang Z et al. LSD1 Inhibition Disrupts Super-Enhancer-Driven Oncogenic Transcriptional Programs in Castration-Resistant Prostate Cancer. Cancer Res 2023 May 15;83(10):1684-1698. PMID: 36877164
  • Taliani V, Buonaiuto G, Desideri F, Setti A et al. The long noncoding RNA Charme supervises cardiomyocyte maturation by controlling cell differentiation programs in the developing heart. Elife 2023 Mar 6;12. PMID: 36877136
  • Wang C, Wang T, Hu R, Duan L et al. 9-Butyl-Harmol Exerts Antiviral Activity against Newcastle Disease Virus through Targeting GSK-3β and HSP90β. J Virol 2023 Mar 30;97(3):e0198422. PMID: 36877059
  • Yildiz E, El Alam G, Perino A, Jalil A et al. Hepatic lipid overload triggers biliary epithelial cell activation via E2Fs. Elife 2023 Mar 6;12. PMID: 36876915
  • Gawriyski L, Jouhilahti EM, Yoshihara M, Fei L et al. Comprehensive characterization of the embryonic factor LEUTX. iScience 2023 Mar 17;26(3):106172. PMID: 36876139
  • Meseguer S, Rubio MP, Lainez B, Pérez-Benavente B et al. SARS-CoV-2-encoded small RNAs are able to repress the host expression of SERINC5 to facilitate viral replication. Front Microbiol 2023;14:1066493. PMID: 36876111
  • Pezzanite LM, Chow L, Griffenhagen GM, Bass L et al. Distinct differences in immunological properties of equine orthobiologics revealed by functional and transcriptomic analysis using an activated macrophage readout system. Front Vet Sci 2023;10:1109473. PMID: 36876001
  • Park SM, Lee SH, Zhao H, Kim J et al. Literature review on the interdisciplinary biomarkers of multi-target and multi-time herbal medicine therapy to modulate peripheral systems in cognitive impairment. Front Neurosci 2023;17:1108371. PMID: 36875644
  • Ziegler N, Cortés-López M, Alt F, Sprang M et al. Analysis of RBP expression and binding sites identifies PTBP1 as a regulator of CD19 expression in B-ALL. Oncoimmunology 2023;12(1):2184143. PMID: 36875548
  • Zou S, Khoo BL et al. Subtyping based on immune cell fractions reveal heterogeneity of cardiac fibrosis in end-stage heart failure. Front Immunol 2023;14:1053793. PMID: 36875078
  • Mahendran N, Vincent P M DR et al. Deep belief network-based approach for detecting Alzheimer's disease using the multi-omics data. Comput Struct Biotechnol J 2023;21:1651-1660. PMID: 36874164
  • Zheng K, Hou Y, Zhang Y, Wang F et al. Molecular features and predictive models identify the most lethal subtype and a therapeutic target for osteosarcoma. Front Oncol 2023;13:1111570. PMID: 36874110
  • Jin R, Luo Z, Jun-Li, Tao Q et al. USP20 is a predictor of poor prognosis in colorectal cancer and associated with lymph node metastasis, immune infiltration and chemotherapy resistance. Front Oncol 2023;13:1023292. PMID: 36874086
  • O'Donoghue S, Earley B, Johnston D, McCabe MS et al. Whole blood transcriptome analysis in dairy calves experimentally challenged with bovine herpesvirus 1 (BoHV-1) and comparison to a bovine respiratory syncytial virus (BRSV) challenge. Front Genet 2023;14:1092877. PMID: 36873940
  • Aini W, Xie L, Hu W, Tang Y et al. Exploration and identification of anoikis-related genes in polycythemia vera. Front Genet 2023;14:1139351. PMID: 36873934
  • Lin S, Jin X, Gu H, Bi F et al. Relationships of ferroptosis-related genes with the pathogenesis in polycystic ovary syndrome. Front Med (Lausanne) 2023;10:1120693. PMID: 36873892
  • Yi S, Zhang C, Li M, Wang J et al. Construction of a Novel Diagnostic Model Based on Ferroptosis-Related Genes for Hepatocellular Carcinoma Using Machine and Deep Learning Methods. J Oncol 2023;2023:1624580. PMID: 36873737
  • Lakkis J, Schroeder A, Su K, Lee MYY et al. A multi-use deep learning method for CITE-seq and single-cell RNA-seq data integration with cell surface protein prediction and imputation. Nat Mach Intell 2022 Nov;4(11):940-952. PMID: 36873621
  • Bühler M, Li D, Li L, Runft S et al. IFNAR signaling of neuroectodermal cells is essential for the survival of C57BL/6 mice infected with Theiler's murine encephalomyelitis virus. J Neuroinflammation 2023 Mar 5;20(1):58. PMID: 36872323
  • Liao S, Tang Y, Zhang Y, Cao Q et al. Identification of the shared genes and immune signatures between systemic lupus erythematosus and idiopathic pulmonary fibrosis. Hereditas 2023 Mar 4;160(1):9. PMID: 36871016
  • Nappi A, Miro C, Pezone A, Tramontano A et al. Loss of p53 activates thyroid hormone via type 2 deiodinase and enhances DNA damage. Nat Commun 2023 Mar 4;14(1):1244. PMID: 36871014
  • Avancini D, Testori A, Fresolone L, Andolfi G et al. Aryl hydrocarbon receptor activity downstream of IL-10 signaling is required to promote regulatory functions in human dendritic cells. Cell Rep 2023 Mar 28;42(3):112193. PMID: 36870061
  • Wang H, Cai Y, Jin M, Huang CQ et al. Identification of specific susceptibility loci for the early-onset colorectal cancer. Genome Med 2023 Mar 3;15(1):13. PMID: 36869385
  • Bernasconi A, Canakoglu A, Comolli F et al. Processing genome-wide association studies within a repository of heterogeneous genomic datasets. BMC Genom Data 2023 Mar 3;24(1):13. PMID: 36869294
  • Srinath A, Xie B, Li Y, Sone JY et al. Plasma metabolites with mechanistic and clinical links to the neurovascular disease cavernous angioma. Commun Med (Lond) 2023 Mar 3;3(1):35. PMID: 36869161
  • Huang JQ, Duan LX, Liu QY, Li HF et al. Serine-arginine protein kinase 1 (SRPK1) promotes EGFR-TKI resistance by enhancing GSK3β Ser9 autophosphorylation independent of its kinase activity in non-small-cell lung cancer. Oncogene 2023 Apr;42(15):1233-1246. PMID: 36869126
  • Kitakaze M, Uemura M, Hara T, Chijimatsu R et al. Cancer-specific tissue-resident memory T-cells express ZNF683 in colorectal cancer. Br J Cancer 2023 May;128(10):1828-1837. PMID: 36869093
  • Zhao H, Yin X, Wang L, Liu K et al. Identifying tumour microenvironment-related signature that correlates with prognosis and immunotherapy response in breast cancer. Sci Data 2023 Mar 3;10(1):119. PMID: 36869083
  • Wang Z, Liang Q, Qian X, Hu B et al. An autoimmune pleiotropic SNP modulates IRF5 alternative promoter usage through ZBTB3-mediated chromatin looping. Nat Commun 2023 Mar 3;14(1):1208. PMID: 36869052
  • Siatra P, Vatsellas G, Chatzianastasiou A, Balafas E et al. Return of the Tbx5; lineage-tracing reveals ventricular cardiomyocyte-like precursors in the injured adult mammalian heart. NPJ Regen Med 2023 Mar 3;8(1):13. PMID: 36869039
  • Frias A, Di Leo L, Antoranz A, Nazerai L et al. Ambra1 modulates the tumor immune microenvironment and response to PD-1 blockade in melanoma. J Immunother Cancer 2023 Mar;11(3). PMID: 36868570
  • Härkönen J, Pölönen P, Deen AJ, Selvarajan I et al. A pan-cancer analysis shows immunoevasive characteristics in NRF2 hyperactive squamous malignancies. Redox Biol 2023 May;61:102644. PMID: 36867945
  • Goering R, Arora A, Pockalny MC, Taliaferro JM et al. RNA localization mechanisms transcend cell morphology. Elife 2023 Mar 3;12. PMID: 36867563
  • Li K, Zhu Y, Cheng J, Li A et al. A novel lipid metabolism gene signature for clear cell renal cell carcinoma using integrated bioinformatics analysis. Front Cell Dev Biol 2023;11:1078759. PMID: 36866272
  • Ge Y, Zhang Y, Yang S, Liu T et al. The Comprehensive Analysis of N6-Methyadenosine Writer METTL3 and METTL14 in Gastric Cancer. J Oncol 2023;2023:9822995. PMID: 36866236
  • He N, Xi Y, Yu D, Yu C et al. Construction of IL-1 signalling pathway correlation model in lung adenocarcinoma and association with immune microenvironment prognosis and immunotherapy: Multi-data validation. Front Immunol 2023;14:1116789. PMID: 36865560
  • Ding M, Xu Q, Jin X, Han Z et al. Novel exosome-related risk signature as prognostic biomarkers in glioblastoma. Front Immunol 2023;14:1071023. PMID: 36865549
  • Ma KS, Wang LT, Chong W, Lin CL et al. Exposure to environmental air pollutants as a risk factor for primary Sjögren's syndrome. Front Immunol 2022;13:1044462. PMID: 36865525
  • Eshibona N, Livesey M, Christoffels A, Bendou H et al. Investigation of distinct gene expression profile patterns that can improve the classification of intermediate-risk prognosis in AML patients. Front Genet 2023;14:1131159. PMID: 36865386
  • Wu C, Liu X, Zhong L, Zhou Y et al. Identification of Cuproptosis-Related Genes in Nonalcoholic Fatty Liver Disease. Oxid Med Cell Longev 2023;2023:9245667. PMID: 36865349
  • Li D, Yang J, Ma F, Malik V et al. The pluripotency factor Tex10 finetunes Wnt signaling for PGC and male germline development. bioRxiv 2023 Feb 24 PMID: 36865339
  • Chen J, Zheng Q, Hicks JL, Trabzonlu L et al. MYC-driven increases in mitochondrial DNA copy number occur early and persist throughout prostatic cancer progression. bioRxiv 2023 Mar 10 PMID: 36865273
  • Mi QS, Dimitrion P, Hamzavi I, Yin C et al. Dysregulated CD38 expression in blood and skin immune cells of patients with hidradenitis suppurativa. Res Sq 2023 Feb 24 PMID: 36865257
  • Yuan Y, Xu Q, Wani A, Dahrendor J et al. Differentially Expressed Heterogeneous Overdispersion Genes Testing for Count Data. bioRxiv 2023 Feb 22 PMID: 36865247
  • Zhang W, Young JI, Gomez L, Schmidt MA et al. Distinct CSF biomarker-associated DNA methylation in Alzheimer's disease and cognitively normal subjects. Res Sq 2023 Feb 21 PMID: 36865230
  • Felce SL, Farnie G, Dustin ML, Felce JH et al. RNA-Seq analysis of early transcriptional responses to activation in the leukaemic Jurkat E6.1 T cell line. Wellcome Open Res 2020;5:42. PMID: 36865034
  • Guo J, Qiu J, Jia M, Li Q et al. BACH1 deficiency prevents neointima formation and maintains the differentiated phenotype of vascular smooth muscle cells by regulating chromatin accessibility. Nucleic Acids Res 2023 May 22;51(9):4284-4301. PMID: 36864760
  • Li S, Liu H, Ruan Z, Guo R et al. Landscape analysis of m6A modification regulators related biological functions and immune characteristics in myasthenia gravis. J Transl Med 2023 Mar 2;21(1):166. PMID: 36864526
  • Li H, Ma L, Luo F, Liu W et al. Construct of qualitative diagnostic biomarkers specific for glioma by pairing serum microRNAs. BMC Genomics 2023 Mar 2;24(1):96. PMID: 36864382
  • Boitard S, Liaubet L, Paris C, Fève K et al. Whole-genome sequencing of cryopreserved resources from French Large White pigs at two distinct sampling times reveals strong signatures of convergent and divergent selection between the dam and sire lines. Genet Sel Evol 2023 Mar 2;55(1):13. PMID: 36864379
  • Xia L, Yuan LZ, Hu YH, Liu JY et al. A SARS-CoV-2-specific CAR-T-cell model identifies felodipine, fasudil, imatinib, and caspofungin as potential treatments for lethal COVID-19. Cell Mol Immunol 2023 Apr;20(4):351-364. PMID: 36864189
  • Dugan MP, Ferguson LB, Hertz NT, Chalkley RJ et al. Chemical Genetic Identification of PKC Epsilon Substrates in Mouse Brain. Mol Cell Proteomics 2023 Apr;22(4):100522. PMID: 36863607
  • Vladimirova O, Soldan S, Su C, Kossenkov A et al. Elevated iNOS and 3'-nitrotyrosine in Kaposi's Sarcoma tumors and mouse model. Tumour Virus Res 2023 Jun;15:200259. PMID: 36863485
  • Wang B, Su A, Li M, Wang X et al. Construction of a prognostic model for radical esophagectomy based on immunohistochemical prognostic markers combined with clinicopathological factors. Medicine (Baltimore) 2023 Mar 3;102(9):e32889. PMID: 36862875
  • Päll T, Luidalepp H, Tenson T, Maiväli Ü et al. A field-wide assessment of differential expression profiling by high-throughput sequencing reveals widespread bias. PLoS Biol 2023 Mar;21(3):e3002007. PMID: 36862747
  • Traunmüller L, Schulz J, Ortiz R, Feng H et al. A cell-type-specific alternative splicing regulator shapes synapse properties in a trans-synaptic manner. Cell Rep 2023 Mar 28;42(3):112173. PMID: 36862556
  • Park G, Fukasawa K, Horie T, Masuo Y et al. l-Type amino acid transporter 1 in hypothalamic neurons in mice maintains energy and bone homeostasis. JCI Insight 2023 Apr 10;8(7). PMID: 36862514
  • Ke F, Benet ZL, Maz MP, Liu J et al. Germinal center B cells that acquire nuclear proteins are specifically suppressed by follicular regulatory T cells. Elife 2023 Mar 2;12. PMID: 36862132
  • Verstegen NJM, Pollastro S, Unger PA, Marsman C et al. Single-cell analysis reveals dynamics of human B cell differentiation and identifies novel B and antibody-secreting cell intermediates. Elife 2023 Mar 2;12. PMID: 36861964
  • Huang H, Dong X, Mao K, Pan W et al. Identification of key candidate genes and pathways in rheumatoid arthritis and osteoarthritis by integrated bioinformatical analysis. Front Genet 2023;14:1083615. PMID: 36861127
  • Wu W, Wang J, Jiang Y, Hu X et al. Prognostic Significance of Ribosome-related Genes Signature in Diffuse Large B Cell Lymphoma. J Cancer 2023;14(3):403-416. PMID: 36860924
  • Li W, Lv S, Liu G, Lu N et al. Epstein-Barr virus DNA seropositivity links distinct tumoral heterogeneity and immune landscape in nasopharyngeal carcinoma. Front Immunol 2023;14:1124066. PMID: 36860875
  • Liang Z, Hu X, Lin R, Tang Z et al. Identification of shared gene signatures and molecular mechanisms between chronic kidney disease and ulcerative colitis. Front Immunol 2023;14:1078310. PMID: 36860851
  • Sergeeva O, Zhang Y, Gao S, Chan ER et al. PET Imaging of Hepatocellular Carcinoma Using ZD2-((68)Ga-NOTA). J Hepatocell Carcinoma 2023;10:291-301. PMID: 36860804
  • Zheng P, Ren D, Cong Y, Xiaoxue Zhang et al. Single-Cell Sequencing Reveals Necroptosis-Related Prognostic Genes of Glioblastoma. Oxid Med Cell Longev 2023;2023:2926655. PMID: 36860730
  • Wang H, Wang L, Sun G et al. MiRNA and Potential Prognostic Value in Non-Smoking Females with Lung Adenocarcinoma by High-Throughput Sequencing. Int J Gen Med 2023;16:683-696. PMID: 36860345
  • Shen J, Sun W, Liu J, Li J et al. Metabolism-related signatures is correlated with poor prognosis and immune infiltration in hepatocellular carcinoma via multi-omics analysis and basic experiments. Front Oncol 2023;13:1130094. PMID: 36860325
  • Han C, Chen J, Huang J, Zhu R et al. Single-cell transcriptome analysis reveals the metabolic changes and the prognostic value of malignant hepatocyte subpopulations and predict new therapeutic agents for hepatocellular carcinoma. Front Oncol 2023;13:1104262. PMID: 36860314
  • Kazerani R, Salehipour P, Shah Mohammadi M, Amanzadeh Jajin E et al. Identification of TSGA10 and GGNBP2 splicing variants in 5' untranslated region with distinct expression profiles in brain tumor samples. Front Oncol 2023;13:1075638. PMID: 36860313
  • Cao S, Chen C, Gu D, Wang Z et al. Establishment and external verification of an oxidative stress-related gene signature to predict clinical outcomes and therapeutic responses of colorectal cancer. Front Pharmacol 2022;13:991881. PMID: 36860211
  • Przanowski P, Przanowska RK, Guertin MJ et al. ANKLE1 cleaves mitochondrial DNA and contributes to cancer risk by promoting apoptosis resistance and metabolic dysregulation. Commun Biol 2023 Mar 1;6(1):231. PMID: 36859531
  • Deng S, Zhu Q, Chen H, Xiao T et al. Screening of prognosis-related Immune cells and prognostic predictors in Colorectal Cancer Patients. BMC Cancer 2023 Mar 1;23(1):195. PMID: 36859111
  • Ji X, Cai J, Liang L, Shi T et al. Gene expression variability across cells and species shapes the relationship between renal resident macrophages and infiltrated macrophages. BMC Bioinformatics 2023 Mar 1;24(1):72. PMID: 36858955
  • Lilja S, Li X, Smelik M, Lee EJ et al. Multi-organ single-cell analysis reveals an on/off switch system with potential for personalized treatment of immunological diseases. Cell Rep Med 2023 Mar 21;4(3):100956. PMID: 36858042
  • Khoroshevskyi O, LeRoy N, Reuter VP, Sheffield NC et al. GEOfetch: a command-line tool for downloading data and standardized metadata from GEO and SRA. Bioinformatics 2023 Mar 1;39(3). PMID: 36857584
  • Singh AK, Chen Q, Nguyen C, Meerzaman D et al. Cohesin regulates alternative splicing. Sci Adv 2023 Mar;9(9):eade3876. PMID: 36857449
  • Wang X, Wang H, Yin G, Zhang YD et al. Network-based drug repurposing for the treatment of COVID-19 patients in different clinical stages. Heliyon 2023 Mar;9(3):e14059. PMID: 36855680
  • Chen L, Li Z, Wu H et al. CeDAR: incorporating cell type hierarchy improves cell type-specific differential analyses in bulk omics data. Genome Biol 2023 Feb 28;24(1):37. PMID: 36855165
  • Li X, Fu C, Li G, He H et al. RNA-seq reveals novel mechanistic targets of Livin in bladder cancer. BMC Urol 2023 Feb 28;23(1):26. PMID: 36855119
  • Xiong J, Li Z, Tang H, Duan Y et al. Bulk and single-cell characterisation of the immune heterogeneity of atherosclerosis identifies novel targets for immunotherapy. BMC Biol 2023 Feb 28;21(1):46. PMID: 36855107
  • Zhang Q, Wang C, Li S, Li Y et al. Screening of core genes prognostic for sepsis and construction of a ceRNA regulatory network. BMC Med Genomics 2023 Feb 28;16(1):37. PMID: 36855106
  • Zhao C, Qian S, Tai Y, Guo Y et al. Proangiogenic role of circRNA-007371 in liver fibrosis. Cell Prolif 2023 Jun;56(6):e13432. PMID: 36854930
  • Shahnazari M, Afshar S, Emami MH, Amini R et al. Novel biomarkers for neoplastic progression from ulcerative colitis to colorectal cancer: a systems biology approach. Sci Rep 2023 Feb 28;13(1):3413. PMID: 36854781
  • Pal D, Ghatak S, Singh K, Abouhashem AS et al. Identification of a physiologic vasculogenic fibroblast state to achieve tissue repair. Nat Commun 2023 Feb 28;14(1):1129. PMID: 36854749
  • Zhao W, Johnston KG, Ren H, Xu X et al. Inferring neuron-neuron communications from single-cell transcriptomics through NeuronChat. Nat Commun 2023 Feb 28;14(1):1128. PMID: 36854676
  • Shi G, Thirumalai D et al. A maximum-entropy model to predict 3D structural ensembles of chromatin from pairwise distances with applications to interphase chromosomes and structural variants. Nat Commun 2023 Mar 1;14(1):1150. PMID: 36854665
  • De Vas MG, Boulet F, Joshi SS, Garstang MG et al. Regulatory de novo mutations underlying intellectual disability. Life Sci Alliance 2023 May;6(5). PMID: 36854624
  • Souidi A, Nakamori M, Zmojdzian M, Jagla T et al. Deregulations of miR-1 and its target Multiplexin promote dilated cardiomyopathy associated with myotonic dystrophy type 1. EMBO Rep 2023 Apr 5;24(4):e56616. PMID: 36852954
  • Omar M, Dinalankara W, Mulder L, Coady T et al. Using biological constraints to improve prediction in precision oncology. iScience 2023 Mar 17;26(3):106108. PMID: 36852282
  • Matsuno T, Mikami T, Hayashi H, Funahashi K et al. Estrogen receptor beta expression in colitis-associated carcinoma in comparison with sporadic colonic tumor: An immunohistochemical study. JGH Open 2023 Feb;7(2):110-117. PMID: 36852140
  • Nguyen Thanh D, Thanh Giang NT, Le TV, Truong NM et al. Predicting the severity of COVID-19 patients using the CD24-CSF1R index in whole blood samples. Heliyon 2023 Mar;9(3):e13945. PMID: 36851954
  • D'Rozario R, Raychaudhuri D, Bandopadhyay P, Sarif J et al. Circulating Interleukin-8 Dynamics Parallels Disease Course and Is Linked to Clinical Outcomes in Severe COVID-19. Viruses 2023 Feb 16;15(2). PMID: 36851762
  • Mukherjee SB, Detroja R, Mukherjee S, Frenkel-Morgenstern M et al. The Landscape of Expressed Chimeric Transcripts in the Blood of Severe COVID-19 Infected Patients. Viruses 2023 Feb 4;15(2). PMID: 36851647
  • Meeuwsen MH, Wouters AK, Wachsmann TLA, Hagedoorn RS et al. Broadly applicable TCR-based therapy for multiple myeloma targeting the immunoglobulin J chain. J Hematol Oncol 2023 Feb 27;16(1):16. PMID: 36850001
  • Tapak L, Ghasemi MK, Afshar S, Mahjub H et al. Identification of gene profiles related to the development of oral cancer using a deep learning technique. BMC Med Genomics 2023 Feb 27;16(1):35. PMID: 36849997
  • Zou H, Poore B, Brown EE, Qian J et al. A neurodevelopmental epigenetic programme mediated by SMARCD3-DAB1-Reelin signalling is hijacked to promote medulloblastoma metastasis. Nat Cell Biol 2023 Mar;25(3):493-507. PMID: 36849558
  • Hafner A, Mackenzie S et al. Re-analysis of publicly available methylomes using signal detection yields new information. Sci Rep 2023 Feb 27;13(1):3307. PMID: 36849495
  • Ye D, Liu H, Zhao G, Chen A et al. LncGMDS-AS1 promotes the tumorigenesis of colorectal cancer through HuR-STAT3/Wnt axis. Cell Death Dis 2023 Feb 27;14(2):165. PMID: 36849492
  • Amin A, Kadam S, Mieczkowski J, Ahmed I et al. Disruption of polyhomeotic polymerization decreases nucleosome occupancy and alters genome accessibility. Life Sci Alliance 2023 May;6(5). PMID: 36849253
  • Cui L, Fang Z, De Souza CM, Lerbs T et al. Innate immune cell activation causes lung fibrosis in a humanized model of long COVID. Proc Natl Acad Sci U S A 2023 Mar 7;120(10):e2217199120. PMID: 36848564
  • Giuliani A, Sabbatinelli J, Amatori S, Graciotti L et al. MiR-422a promotes adipogenesis via MeCP2 downregulation in human bone marrow mesenchymal stem cells. Cell Mol Life Sci 2023 Feb 27;80(3):75. PMID: 36847916
  • Zorzan I, Betto RM, Rossignoli G, Arboit M et al. Chemical conversion of human conventional PSCs to TSCs following transient naive gene activation. EMBO Rep 2023 Apr 5;24(4):e55235. PMID: 36847616
  • Lê-Bury P, Druart K, Savin C, Lechat P et al. Yersiniomics, a Multi-Omics Interactive Database for Yersinia Species. Microbiol Spectr 2023 Feb 27;11(2):e0382622. PMID: 36847572
  • Wang T, Yu Y, Ba X, Zhang X et al. PTPN18 Serves as a Potential Oncogene for Glioblastoma by Enhancing Immune Suppression. Oxid Med Cell Longev 2023;2023:2994316. PMID: 36846716
  • Yuan P, Sun T, Han Z, Chen Y et al. Uncovering the genetic links of diabetic erectile dysfunction and chronic prostatitis/chronic pelvic pain syndrome. Front Physiol 2023;14:1096677. PMID: 36846330
  • Song Z, Han Q, Wen Z, Lv Q et al. LncRNA RASSF8-AS1 knockdown displayed antiproliferative and proapoptotic effects through miR-188-3p/ATG7 pathway in ox-LDL-treated vascular smooth muscle cells. Ann Transl Med 2023 Feb 15;11(3):143. PMID: 36846012
  • Salvà-Serra F, Jaén-Luchoro D, Marathe NP, Adlerberth I et al. Responses of carbapenemase-producing and non-producing carbapenem-resistant Pseudomonas aeruginosa strains to meropenem revealed by quantitative tandem mass spectrometry proteomics. Front Microbiol 2022;13:1089140. PMID: 36845973
  • Nie G, Peng D, Wen N, Wang Y et al. Cuproptosis-related genes score: A predictor for hepatocellular carcinoma prognosis, immunotherapy efficacy, and metabolic reprogramming. Front Oncol 2023;13:1096351. PMID: 36845733
  • Chen T, Zhao L, Chen J, Jin G et al. Identification of three metabolic subtypes in gastric cancer and the construction of a metabolic pathway-based risk model that predicts the overall survival of GC patients. Front Genet 2023;14:1094838. PMID: 36845398
  • Deng S, Shen S, Liu K, El-Ashram S et al. Integrated bioinformatic analyses investigate macrophage-M1-related biomarkers and tuberculosis therapeutic drugs. Front Genet 2023;14:1041892. PMID: 36845395
  • Xu W, Wang X, Liu D, Lin X et al. Identification and validation of hub genes and potential drugs involved in osteoarthritis through bioinformatics analysis. Front Genet 2023;14:1117713. PMID: 36845391
  • Abdallah AS, Cardona HJ, Gadd SL, Brat DJ et al. Novel genetically engineered H3.3G34R model reveals cooperation with ATRX loss in upregulation of Hoxa cluster genes and promotion of neuronal lineage. Neurooncol Adv 2023 Jan-Dec;5(1):vdad003. PMID: 36845293
  • Zhu K, Chen Z, Xiao Y, Lai D et al. Multi-omics and immune cells' profiling of COVID-19 patients for ICU admission prediction: in silico analysis and an integrated machine learning-based approach in the framework of Predictive, Preventive, and Personalized Medicine. EPMA J 2023 Mar;14(1):101-117. PMID: 36845281
  • Wang L, Nguyen T, Rosa-Garrido M, Zhou Y et al. Comparative analysis of the cardiomyocyte differentiation potential of induced pluripotent stem cells reprogrammed from human atrial or ventricular fibroblasts. Front Bioeng Biotechnol 2023;11:1108340. PMID: 36845191
  • Gao H, Zhou H, Zhang Z, Gao J et al. Vitamin D3 alleviates inflammation in ulcerative colitis by activating the VDR-NLRP6 signaling pathway. Front Immunol 2023;14:1135930. PMID: 36845152
  • Li F, Wang S, Wang Y, Lv Z et al. Multi-omics analysis unravels the underlying mechanisms of poor prognosis and differential therapeutic responses of solid predominant lung adenocarcinoma. Front Immunol 2023;14:1101649. PMID: 36845145
  • Martín GRegulation of alternative splicing by retrograde and light signals converges to control chloroplast proteins. Front Plant Sci 2023;14:1097127. PMID: 36844062
  • Wang H, Jia Y, Gu J, Chen O et al. Ferroptosis-related genes are involved in asthma and regulate the immune microenvironment. Front Pharmacol 2023;14:1087557. PMID: 36843917
  • Liu X, Seguin-Orlando A, Chauvey L, Tressières G et al. DNA methylation-based profiling of horse archaeological remains for age-at-death and castration. iScience 2023 Mar 17;26(3):106144. PMID: 36843848
  • Zhu L, Tang Y, Li XY, Kerk SA et al. A Zeb1/MtCK1 metabolic axis controls osteoclast activation and skeletal remodeling. EMBO J 2023 Apr 3;42(7):e111148. PMID: 36843552
  • Jamshidi N, Senthilvelan J, Dawson DW, Donahue TR et al. Construction of a radiogenomic association map of pancreatic ductal adenocarcinoma. BMC Cancer 2023 Feb 27;23(1):189. PMID: 36843111
  • De Falco A, Caruso F, Su XD, Iavarone A et al. A variational algorithm to detect the clonal copy number substructure of tumors from scRNA-seq data. Nat Commun 2023 Feb 25;14(1):1074. PMID: 36841879
  • Garces A, Martinez B, De La Garza R, Roy D et al. Differential expression of interferon-induced protein with tetratricopeptide repeats 3 (IFIT3) in Alzheimer's disease and HIV-1 associated neurocognitive disorders. Sci Rep 2023 Feb 25;13(1):3276. PMID: 36841839
  • Shayeghpour A, Forghani-Ramandi MM, Solouki S, Hosseini A et al. Identification of novel miRNAs potentially involved in the pathogenesis of adult T-cell leukemia/lymphoma using WGCNA followed by RT-qPCR test of hub genes. Infect Agent Cancer 2023 Feb 25;18(1):12. PMID: 36841815
  • He HL, Lai HY, Chan TC, Hsing CH et al. Low expression of ZSCAN4 predicts unfavorable outcome in urothelial carcinoma of upper urinary tract and urinary bladder. World J Surg Oncol 2023 Feb 25;21(1):62. PMID: 36841776
  • Ilter D, Drapela S, Schild T, Ward NP et al. NADK-mediated de novo NADP(H) synthesis is a metabolic adaptation essential for breast cancer metastasis. Redox Biol 2023 May;61:102627. PMID: 36841051
  • Kim HH, Shim YR, Choi SE, Falana TE et al. Exosome-Based Delivery of Super-Repressor IκBα Alleviates Alcohol-Associated Liver Injury in Mice. Pharmaceutics 2023 Feb 14;15(2). PMID: 36839957
  • Wang X, Shang M, Hu W, Zhang L et al. Multi-Omics Analysis Reveals the Potential Effects of Maternal Dietary Restriction on Fetal Muscle Growth and Development. Nutrients 2023 Feb 20;15(4). PMID: 36839409
  • Feng Y, Cui Z, Lu X, Gong H et al. Transcriptomics Dissection of Calorie Restriction and Exercise Training in Brown Adipose Tissue and Skeletal Muscle. Nutrients 2023 Feb 20;15(4). PMID: 36839405
  • Saeed R, Mohammed AK, Saleh SE, Aboshanab KM et al. Expression Silencing of Mitogen-Activated Protein Kinase 8 Interacting Protein-1 Conferred Its Role in Pancreatic β-Cell Physiology and Insulin Secretion. Metabolites 2023 Feb 20;13(2). PMID: 36837926
  • Kaddoura R, Alqutami F, Asbaita M, Hachim M et al. In Silico Analysis of Publicly Available Transcriptomic Data for the Identification of Triple-Negative Breast Cancer-Specific Biomarkers. Life (Basel) 2023 Feb 2;13(2). PMID: 36836779
  • Jang Y, Cheong W, Park G, Kim Y et al. Tumor Microenvironment and Genes Affecting the Prognosis of Temozolomide-Treated Glioblastoma. J Pers Med 2023 Jan 20;13(2). PMID: 36836422
  • Li H, Tang Y, Hua L, Wang Z et al. A Systematic Pan-Cancer Analysis of MEIS1 in Human Tumors as Prognostic Biomarker and Immunotherapy Target. J Clin Med 2023 Feb 18;12(4). PMID: 36836180
  • Qiao L, Gu J, Ni Y, Wu J et al. RNA-Seq Reveals the mRNAs, miRNAs, and lncRNAs Expression Profile of Knee Joint Synovial Tissue in Osteoarthritis Patients. J Clin Med 2023 Feb 11;12(4). PMID: 36835984
  • Ramírez-González A, Ávila-López P, Bahena-Román M, Contreras-Ochoa CO et al. Critical Role of the Transcription Factor AKNA in T-Cell Activation: An Integrative Bioinformatics Approach. Int J Mol Sci 2023 Feb 20;24(4). PMID: 36835622
  • Tripathi M, Colige A, Deroanne CF et al. The Dual Function of RhoGDI2 in Immunity and Cancer. Int J Mol Sci 2023 Feb 16;24(4). PMID: 36835422
  • Liu M, Lin C, Huang Q, Jia J et al. SRSF3-Mediated Ki67 Exon 7-Inclusion Promotes Head and Neck Squamous Cell Carcinoma Progression via Repressing AKR1C2. Int J Mol Sci 2023 Feb 15;24(4). PMID: 36835286
  • Trink Y, Urbach A, Dekel B, Hohenstein P et al. Characterization of Continuous Transcriptional Heterogeneity in High-Risk Blastemal-Type Wilms' Tumors Using Unsupervised Machine Learning. Int J Mol Sci 2023 Feb 9;24(4). PMID: 36834944
  • Ghatak S, Satapathy SR, Sjölander A et al. DNA Methylation and Gene Expression of the Cysteinyl Leukotriene Receptors as a Prognostic and Metastatic Factor for Colorectal Cancer Patients. Int J Mol Sci 2023 Feb 8;24(4). PMID: 36834820
  • Colantoni A, Capauto D, Alfano V, D'Ambra E et al. FUS Alters circRNA Metabolism in Human Motor Neurons Carrying the ALS-Linked P525L Mutation. Int J Mol Sci 2023 Feb 6;24(4). PMID: 36834591
  • Peng Q, Li J, Wu Q, Wang P et al. ZNF385A and ZNF346 Serve as Prognostic Biomarkers Associated with an Inflamed Immunosuppressive Tumor Microenvironment in Hepatocellular Carcinoma. Int J Mol Sci 2023 Feb 5;24(4). PMID: 36834567
  • Li Z, Duan Q, Cui Y, Jones OD et al. Cardiac-Specific Expression of Cre Recombinase Leads to Age-Related Cardiac Dysfunction Associated with Tumor-like Growth of Atrial Cardiomyocyte and Ventricular Fibrosis and Ferroptosis. Int J Mol Sci 2023 Feb 4;24(4). PMID: 36834504
  • Zhang W, Raza SHA, Li B, Sun B et al. miR-33a Inhibits the Differentiation of Bovine Preadipocytes through the IRS2-Akt Pathway. Genes (Basel) 2023 Feb 20;14(2). PMID: 36833456
  • Wang P, Cao W, Yang L, Zhang Y et al. Glucosinolate Biosynthetic Genes of Cabbage: Genome-Wide Identification, Evolution, and Expression Analysis. Genes (Basel) 2023 Feb 13;14(2). PMID: 36833404
  • Kircher M, Säurich J, Selle M, Jung K et al. Assessing Outlier Probabilities in Transcriptomics Data When Evaluating a Classifier. Genes (Basel) 2023 Feb 1;14(2). PMID: 36833313
  • Madsen-Østerbye J, Abdelhalim M, Pickering SH, Collas P et al. Gene Regulatory Interactions at Lamina-Associated Domains. Genes (Basel) 2023 Jan 28;14(2). PMID: 36833261
  • Shao C, Wang P, Liao B, Gong S et al. Multi-Omics Integration Analysis of TK1 in Glioma: A Potential Biomarker for Predictive, Preventive, and Personalized Medical Approaches. Brain Sci 2023 Jan 30;13(2). PMID: 36831773
  • Moon SJ, Choi HJ, Kye YH, Jeong GY et al. CTTN Overexpression Confers Cancer Stem Cell-like Properties and Trastuzumab Resistance via DKK-1/WNT Signaling in HER2 Positive Breast Cancer. Cancers (Basel) 2023 Feb 11;15(4). PMID: 36831511
  • Urwanisch L, Unger MS, Sieberer H, Dang HH et al. The Class IIA Histone Deacetylase (HDAC) Inhibitor TMP269 Downregulates Ribosomal Proteins and Has Anti-Proliferative and Pro-Apoptotic Effects on AML Cells. Cancers (Basel) 2023 Feb 7;15(4). PMID: 36831382
  • Ahn J, Suh Y, Lee K et al. Chordin-like 1, a Novel Adipokine, Markedly Promotes Adipogenesis and Lipid Accumulation. Cells 2023 Feb 15;12(4). PMID: 36831292
  • Schnell S, Knierim E, Bittigau P, Kreye J et al. Hodgkin Lymphoma Cell Lines and Tissues Express mGluR5: A Potential Link to Ophelia Syndrome and Paraneoplastic Neurological Disease. Cells 2023 Feb 13;12(4). PMID: 36831273
  • Imeri J, Desterke C, Marcoux P, Telliam G et al. Modeling Blast Crisis Using Mutagenized Chronic Myeloid Leukemia-Derived Induced Pluripotent Stem Cells (iPSCs). Cells 2023 Feb 12;12(4). PMID: 36831265
  • Scagnoli F, Palma A, Favia A, Scuoppo C et al. A New Insight into MYC Action: Control of RNA Polymerase II Methylation and Transcription Termination. Biomedicines 2023 Jan 30;11(2). PMID: 36830948
  • Zhang Z, Zhang R, Xiao K, Sun X et al. G4Beacon: An In Vivo G4 Prediction Method Using Chromatin and Sequence Information. Biomolecules 2023 Feb 3;13(2). PMID: 36830661
  • Liu CL, Dai YH et al. Bioinformatic Analyses of Peripheral Blood Transcriptome Identify Altered Neutrophil-Related Pathway and Different Transcriptomic Profiles for Acute Pancreatitis in Patients with and without Chylomicronemia Syndrome. Biomolecules 2023 Feb 2;13(2). PMID: 36830652
  • Wang X, Lin T, He Y, Zhou Y et al. Reduced Renal CSE/CBS/H2S Contributes to the Progress of Lupus Nephritis. Biology (Basel) 2023 Feb 16;12(2). PMID: 36829595
  • Francis IM, Bergin D, Deflandre B, Gupta S et al. Role of Alternative Elicitor Transporters in the Onset of Plant Host Colonization by Streptomyces scabiei 87-22. Biology (Basel) 2023 Feb 1;12(2). PMID: 36829511
  • Hamdy H, Yang Y, Cheng C, Liu Q et al. Identification of Potential Hub Genes Related to Aflatoxin B1, Liver Fibrosis and Hepatocellular Carcinoma via Integrated Bioinformatics Analysis. Biology (Basel) 2023 Jan 29;12(2). PMID: 36829489
  • Wang X, Zhao J, Zhang Y, Liu Y et al. Molecular mechanism of Wilms' tumor (Wt1) (+/-KTS) variants promoting proliferation and migration of ovarian epithelial cells by bioinformatics analysis. J Ovarian Res 2023 Feb 24;16(1):46. PMID: 36829196
  • Jaksik R, Wheeler DA, Kimmel M et al. Detection and characterization of constitutive replication origins defined by DNA polymerase epsilon. BMC Biol 2023 Feb 24;21(1):41. PMID: 36829160
  • Olshen AB, Segal MR et al. Does multi-way, long-range chromatin contact data advance 3D genome reconstruction? BMC Bioinformatics 2023 Feb 24;24(1):64. PMID: 36829114
  • Choi JH, Lee BS, Jang JY, Lee YS et al. Single-cell transcriptome profiling of the stepwise progression of head and neck cancer. Nat Commun 2023 Feb 24;14(1):1055. PMID: 36828832
  • Lyu M, Zhou J, Zhou Y, Chong W et al. From tuberculosis bedside to bench: UBE2B splicing as a potential biomarker and its regulatory mechanism. Signal Transduct Target Ther 2023 Feb 24;8(1):82. PMID: 36828823
  • Kota NK, Vigorito M, Krishnan V, Chang SL et al. Using IPA tools to characterize molecular pathways underlying the involvement of IRF7 in antiviral response to HIV. NeuroImmune Pharm Ther 2022 Mar 25;1(1):23-35. PMID: 36827648
  • Polakowski N, Sarker MAK, Hoang K, Boateng G et al. HBZ upregulates myoferlin expression to facilitate HTLV-1 infection. PLoS Pathog 2023 Feb;19(2):e1011202. PMID: 36827461
  • Soreq L, Bird H, Mohamed W, Hardy J et al. Single-cell RNA sequencing analysis of human Alzheimer's disease brain samples reveals neuronal and glial specific cells differential expression. PLoS One 2023;18(2):e0277630. PMID: 36827281
  • Xie SS, Zhang YZ, Peng L, Yu DT et al. JMJ28 guides sequence-specific targeting of ATX1/2-containing COMPASS-like complex in Arabidopsis. Cell Rep 2023 Mar 28;42(3):112163. PMID: 36827182
  • Ma N, Li Z, Yan J, Liu X et al. Diverse roles of UBE2T in cancer (Review). Oncol Rep 2023 Apr;49(4). PMID: 36825587
  • Marques RF, Moreno DA, da Silva L, Leal LF et al. Digital expression profile of immune checkpoint genes in medulloblastomas identifies CD24 and CD276 as putative immunotherapy targets. Front Immunol 2023;14:1062856. PMID: 36825029
  • Barmaki S, Al-Samadi A, Leskinen K, Wahbi W et al. Transcriptomic Profiling of JEG-3 cells using human leiomyoma derived matrix. Biomater Biosyst 2022 Aug;7:100056. PMID: 36824489
  • Warwick T, Buchmann GK, Pflüger-Müller B, Spaeth M et al. Acute injury to the mouse carotid artery provokes a distinct healing response. Front Physiol 2023;14:1125864. PMID: 36824462
  • Kong X, Meng L, Wei K, Lv X et al. Exploration and validation of the influence of angiogenesis-related factors in aortic valve calcification. Front Cardiovasc Med 2023;10:1061077. PMID: 36824454
  • Ye LF, Weng JY, Wu LD et al. Integrated genomic analysis defines molecular subgroups in dilated cardiomyopathy and identifies novel biomarkers based on machine learning methods. Front Genet 2023;14:1050696. PMID: 36824437
  • Yang Y, Zhang W, Wang X, Yang J et al. A passage-dependent network for estimating the in vitro senescence of mesenchymal stromal/stem cells using microarray, bulk and single cell RNA sequencing. Front Cell Dev Biol 2023;11:998666. PMID: 36824368
  • Song WM, Chia PL, Zhou X, Walsh M et al. Pseudo-temporal dynamics of chemoresistant triple negative breast cancer cells reveal EGFR/HER2 inhibition as synthetic lethal during mid-neoadjuvant chemotherapy. iScience 2023 Feb 17;26(2):106064. PMID: 36824282
  • Yu Y, Dai M, Huang L, Chen W et al. PTEN phosphatase inhibits metastasis by negatively regulating the Entpd5/IGF1R pathway through ATF6. iScience 2023 Feb 17;26(2):106070. PMID: 36824269
  • Zhu P, Li X, Liu Y, Xiong J et al. Methylation-mediated silencing of EDN3 promotes cervical cancer proliferation, migration and invasion. Front Oncol 2023;13:1010132. PMID: 36824133
  • Wu JY, Shao Y, Huang CZ, Wang ZL et al. Genetic variants in the calcium signaling pathway participate in the pathogenesis of colorectal cancer through the tumor microenvironment. Front Oncol 2023;13:992326. PMID: 36824126
  • Zhang C, Wu S, Chen B et al. A novel prognostic model based on pyroptosis-related genes for multiple myeloma. BMC Med Genomics 2023 Feb 23;16(1):32. PMID: 36823654
  • Yousef M, Ozdemir F, Jaber A, Allmer J et al. PriPath: identifying dysregulated pathways from differential gene expression via grouping, scoring, and modeling with an embedded feature selection approach. BMC Bioinformatics 2023 Feb 23;24(1):60. PMID: 36823571
  • Issa H, Swart LE, Rasouli M, Ashtiani M et al. Nanoparticle-mediated targeting of the fusion gene RUNX1/ETO in t(8;21)-positive acute myeloid leukaemia. Leukemia 2023 Apr;37(4):820-834. PMID: 36823395
  • Wu YY, Xiao YF, Tian LX, He B et al. The hTERT-p50 homodimer inhibits PLEKHA7 expression to promote gastric cancer invasion and metastasis. Oncogene 2023 Mar;42(14):1144-1156. PMID: 36823376
  • Shono M, Kishimoto K, Hikabe O, Hayashi M et al. Induction of primordial germ cell-like cells from common marmoset embryonic stem cells by inhibition of WNT and retinoic acid signaling. Sci Rep 2023 Feb 23;13(1):3186. PMID: 36823310
  • Zhang Y, Lowe S, Ding AZ, Li X et al. Notch-dependent binary fate choice regulates the Netrin pathway to control axon guidance of Drosophila visual projection neurons. Cell Rep 2023 Mar 28;42(3):112143. PMID: 36821442
  • Wortham M, Liu F, Harrington AR, Fleischman JY et al. Nutrient regulation of the islet epigenome controls adaptive insulin secretion. J Clin Invest 2023 Apr 17;133(8). PMID: 36821378
  • Shirai M, Shimoda N, Takahashi H, Takayama K et al. Microarray transcriptome datasets of maternal-zygotic DNA methyltransferase 3aa (-/-) zebrafish during early developmental stages. Data Brief 2023 Apr;47:108967. PMID: 36820127
  • Balfourier A, Marty AP, Gazeau F et al. Importance of Metal Biotransformation in Cell Response to Metallic Nanoparticles: A Transcriptomic Meta-analysis Study. ACS Nanosci Au 2023 Feb 15;3(1):46-57. PMID: 36820094
  • Yang H, Jin G, Chen S, Luo J et al. Glycoprotein non-metastatic melanoma B interacts with epidermal growth factor receptor to regulate neural stem cell survival and differentiation. Open Med (Wars) 2023;18(1):20230639. PMID: 36820063
  • Yin F, Liu K, Peng W, Jiang D et al. The Effect of N6-Methyladenosine Regulators and m6A Reader YTHDC1-Mediated N6-Methyladenosine Modification Is Involved in Oxidative Stress in Human Aortic Dissection. Oxid Med Cell Longev 2023;2023:3918393. PMID: 36819785
  • Liu S, Li H, Shen Y, Zhu W et al. Moxibustion improves hypothalamus Aqp4 polarization in APP/PS1 mice: Evidence from spatial transcriptomics. Front Aging Neurosci 2023;15:1069155. PMID: 36819717
  • Liao H, Xiao C, Li W, Chen W et al. Silencing hsa_circ_0049271 attenuates hypoxia-reoxygenation (H/R)-induced myocardial cell injury via the miR-17-3p/FZD4 signaling axis. Ann Transl Med 2023 Jan 31;11(2):99. PMID: 36819541
  • Basu J, Madhulika S, Murmu KC, Mohanty S et al. Molecular and epigenetic alterations in normal and malignant myelopoiesis in human leukemia 60 (HL60) promyelocytic cell line model. Front Cell Dev Biol 2023;11:1060537. PMID: 36819104
  • Ahmed NY, Knowles R, Liu L, Yan Y et al. Developmental deficits of MGE-derived interneurons in the Cntnap2 knockout mouse model of autism spectrum disorder. Front Cell Dev Biol 2023;11:1112062. PMID: 36819097
  • Zhao Q, Shi XS, Wang T, Chen Y et al. Identification of QTNs, QTN-by-environment interactions, and their candidate genes for grain size traits in main crop and ratoon rice. Front Plant Sci 2023;14:1119218. PMID: 36818826
  • Mei J, Fu Z, Cai Y, Song C et al. SECTM1 is upregulated in immuno-hot tumors and predicts immunotherapeutic efficacy in multiple cancers. iScience 2023 Feb 17;26(2):106027. PMID: 36818292
  • Barker BE, Hanlon MM, Marzaioli V, Smith CM et al. The mammalian target of rapamycin contributes to synovial fibroblast pathogenicity in rheumatoid arthritis. Front Med (Lausanne) 2023;10:1029021. PMID: 36817783
  • Shu H, Huang Y, Zhang W, Ling L et al. An integrated study of hormone-related sarcopenia for modeling and comparative transcriptome in rats. Front Endocrinol (Lausanne) 2023;14:1073587. PMID: 36817606
  • Zhang ZJ, Huang YP, Liu ZT, Wang YX et al. Identification of immune related gene signature for predicting prognosis of cholangiocarcinoma patients. Front Immunol 2023;14:1028404. PMID: 36817485
  • Zheng B, Li J, Zhang M, Zhang P et al. Analysis of immunotherapeutic response-related signatures in esophageal squamous-cell carcinoma. Front Immunol 2023;14:1117658. PMID: 36817484
  • Zhang C, Ma Z, Nan X, Wang W et al. Comprehensive analysis to identify the influences of SARS-CoV-2 infections to inflammatory bowel disease. Front Immunol 2023;14:1024041. PMID: 36817436
  • Zhu Y, Yang H, Han L, Mervin LH et al. In silico prediction and biological assessment of novel angiogenesis modulators from traditional Chinese medicine. Front Pharmacol 2023;14:1116081. PMID: 36817116
  • Chirravuri-Venkata R, Dam V, Nimmakayala RK, Alsafwani ZW et al. MUC16 and TP53 family co-regulate tumor-stromal heterogeneity in pancreatic adenocarcinoma. Front Oncol 2023;13:1073820. PMID: 36816942
  • Huang XF, Fu LS, Cai QQ, Fan F et al. Prognostic and immunological role of sulfatide-related lncRNAs in hepatocellular carcinoma. Front Oncol 2023;13:1091132. PMID: 36816914
  • Ding Z, Song W, Zhu W, Xie H et al. Bioinformatics analysis identifies heparan sulfate proteoglycans acting as different progress subtypes of biliary atresia. Front Pediatr 2023;11:1065521. PMID: 36816373
  • Hu L, Yin W, Ma Y, Zhang Q et al. Gene expression signature of human neuropathic pain identified through transcriptome analysis. Front Genet 2023;14:1127167. PMID: 36816032
  • Lai W, Liao J, Li X, Liang P et al. Characterization of the microenvironment in different immune-metabolism subtypes of cervical cancer with prognostic significance. Front Genet 2023;14:1067666. PMID: 36816023
  • Fang F, Liu P, Song L, Wagner P et al. Diagnosis of T-cell-mediated kidney rejection by biopsy-based proteomic biomarkers and machine learning. Front Immunol 2023;14:1090373. PMID: 36814924
  • Zhang X, Zhang X, Song X, Xiang C et al. Interleukin 17 B regulates colonic myeloid cell infiltration in a mouse model of DSS-induced colitis. Front Immunol 2023;14:1055256. PMID: 36814913
  • Li Z, Gao E, Zhou J, Han W et al. Applications of deep learning in understanding gene regulation. Cell Rep Methods 2023 Jan 23;3(1):100384. PMID: 36814848
  • Gong H, Li M, Ji M, Zhang X et al. MINE is a method for detecting spatial density of regulatory chromatin interactions based on a multi-modal network. Cell Rep Methods 2023 Jan 23;3(1):100386. PMID: 36814847
  • Xu J, Xu J, Meng Y, Lu C et al. Graph embedding and Gaussian mixture variational autoencoder network for end-to-end analysis of single-cell RNA sequencing data. Cell Rep Methods 2023 Jan 23;3(1):100382. PMID: 36814845
  • Bakr S, Brennan K, Mukherjee P, Argemi J et al. Identifying key multifunctional components shared by critical cancer and normal liver pathways via SparseGMM. Cell Rep Methods 2023 Jan 23;3(1):100392. PMID: 36814838
  • Xiang Q, Zhao Y, Li W et al. Identification and validation of ferroptosis-related gene signature in intervertebral disc degeneration. Front Endocrinol (Lausanne) 2023;14:1089796. PMID: 36814575
  • Hu P, Ma J, Chen J et al. A systematic and comprehensive analysis of T cell exhaustion related to therapy in lung adenocarcinoma tumor microenvironment. Front Pharmacol 2023;14:1126916. PMID: 36814485
  • He B, Xiao Y, Liang H, Huang Q et al. ASGARD is A Single-cell Guided Pipeline to Aid Repurposing of Drugs. Nat Commun 2023 Feb 22;14(1):993. PMID: 36813801
  • Tian XP, Zhang YC, Lin NJ, Wang L et al. Diagnostic performance and prognostic value of circulating tumor DNA methylation marker in extranodal natural killer/T cell lymphoma. Cell Rep Med 2023 Feb 21;4(2):100859. PMID: 36812892
  • Ames K, Kaur I, Shi Y, Tong MM et al. PI3-kinase deletion promotes myelodysplasia by dysregulating autophagy in hematopoietic stem cells. Sci Adv 2023 Feb 22;9(8):eade8222. PMID: 36812307
  • Sato T, Saito M, Nakajima S, Saito K et al. ARID1A deficiency is targetable by AKT inhibitors in HER2-negative gastric cancer. Gastric Cancer 2023 May;26(3):379-392. PMID: 36811690
  • Qi J, Lin J, Wu C, He H et al. Combined scRNAseq and Bulk RNAseq Analysis to Reveal the Dual Roles of Oxidative Stress-Related Genes in Acute Myeloid Leukemia. Oxid Med Cell Longev 2023;2023:5343746. PMID: 36811020
  • Wang G, Yang X, Qi M, Li M et al. Systematic analysis identifies REST as an oncogenic and immunological biomarker in glioma. Sci Rep 2023 Feb 21;13(1):3023. PMID: 36810892
  • Hui HWH, Kong W, Peng H, Goh WWB et al. The importance of batch sensitization in missing value imputation. Sci Rep 2023 Feb 21;13(1):3003. PMID: 36810890
  • Ma A, Wang X, Li J, Wang C et al. Single-cell biological network inference using a heterogeneous graph transformer. Nat Commun 2023 Feb 21;14(1):964. PMID: 36810839
  • Campbell B, Weber LM, Engle SJ, Ozolinš TRS et al. Investigation of SAMD1 ablation in mice. Sci Rep 2023 Feb 21;13(1):3000. PMID: 36810619
  • Huang Q, Liu M, Zhang D, Lin BB et al. Nitazoxanide inhibits acetylated KLF5-induced bone metastasis by modulating KLF5 function in prostate cancer. BMC Med 2023 Feb 21;21(1):68. PMID: 36810084
  • Malonzo MH, Lähdesmäki H et al. LuxHMM: DNA methylation analysis with genome segmentation via hidden Markov model. BMC Bioinformatics 2023 Feb 22;24(1):58. PMID: 36810075
  • Sekaran K, Alsamman AM, George Priya Doss C, Zayed H et al. Bioinformatics investigation on blood-based gene expressions of Alzheimer's disease revealed ORAI2 gene biomarker susceptibility: An explainable artificial intelligence-based approach. Metab Brain Dis 2023 Apr;38(4):1297-1310. PMID: 36809524
  • Haq MFU, Hussain MZ, Mahjabeen I, Akram Z et al. Oncometabolic role of mitochondrial sirtuins in glioma patients. PLoS One 2023;18(2):e0281840. PMID: 36809279
  • Wei Y, Lan B, Zheng T, Yang L et al. GSDME-mediated pyroptosis promotes the progression and associated inflammation of atherosclerosis. Nat Commun 2023 Feb 18;14(1):929. PMID: 36807553
  • Li CH, Fang CY, Chan MH, Chen CL et al. The cytoplasmic expression of FSTL3 correlates with colorectal cancer progression, metastasis status and prognosis. J Cell Mol Med 2023 Mar;27(5):672-686. PMID: 36807490
  • Hoeft K, Schaefer GJL, Kim H, Schumacher D et al. Platelet-instructed SPP1(+) macrophages drive myofibroblast activation in fibrosis in a CXCL4-dependent manner. Cell Rep 2023 Feb 17;42(2):112131. PMID: 36807143
  • Burden F, Ellis PJI, Farré M et al. A shared 'vulnerability code' underpins varying sources of DNA damage throughout paternal germline transmission in mouse. Nucleic Acids Res 2023 Mar 21;51(5):2319-2332. PMID: 36806949
  • Lu Y, Fang Q, Qi M, Li X et al. Copy number variation-associated lncRNAs may contribute to the etiologies of congenital heart disease. Commun Biol 2023 Feb 17;6(1):189. PMID: 36806749
  • Garofano K, Rashid K, Smith M, Brantner C et al. Prostate cancer cell-platelet bidirectional signaling promotes calcium mobilization, invasion and apoptotic resistance via distinct receptor-ligand pairs. Sci Rep 2023 Feb 17;13(1):2864. PMID: 36806315
  • Wang Y, Wang Y, Liu W, Ding L et al. TIM-4 orchestrates mitochondrial homeostasis to promote lung cancer progression via ANXA2/PI3K/AKT/OPA1 axis. Cell Death Dis 2023 Feb 20;14(2):141. PMID: 36806050
  • Xu P, Xu S, Pan H, Dai C et al. Differential effects of the LncRNA RNF157-AS1 on epithelial ovarian cancer cells through suppression of DIRAS3- and ULK1-mediated autophagy. Cell Death Dis 2023 Feb 20;14(2):140. PMID: 36805591
  • Guneri-Sozeri PY, Özden-Yılmaz G, Kisim A, Cakiroglu E et al. FLI1 and FRA1 transcription factors drive the transcriptional regulatory networks characterizing muscle invasive bladder cancer. Commun Biol 2023 Feb 20;6(1):199. PMID: 36805539
  • Li X, Pan J, Liu T, Yin W et al. Novel TCF21(high) pericyte subpopulation promotes colorectal cancer metastasis by remodelling perivascular matrix. Gut 2023 Apr;72(4):710-721. PMID: 36805487
  • Hossain MA, Rahman MH, Sultana H, Ahsan A et al. An integrated in-silico Pharmaco-BioInformatics approaches to identify synergistic effects of COVID-19 to HIV patients. Comput Biol Med 2023 Mar;155:106656. PMID: 36805222
  • Guo D, Zhang X, Du X, Yao W et al. A novel DNA damage repair gene-related prognostic model for evaluating the prognosis and tumor microenvironment infiltration of esophageal squamous cell carcinoma. BMC Med Genomics 2023 Feb 20;16(1):27. PMID: 36803971
  • Zhang Y, Tran D, Nguyen T, Dascalu SM et al. A robust and accurate single-cell data trajectory inference method using ensemble pseudotime. BMC Bioinformatics 2023 Feb 20;24(1):55. PMID: 36803767
  • Choi Y, Li R, Quon G et al. siVAE: interpretable deep generative models for single-cell transcriptomes. Genome Biol 2023 Feb 20;24(1):29. PMID: 36803416
  • Liebhoff AM, Menden K, Laschtowitz A, Franke A et al. Pathogen detection in RNA-seq data with Pathonoia. BMC Bioinformatics 2023 Feb 17;24(1):53. PMID: 36803415
  • Guo Z, Zhang H, Liu X, Zhao Y et al. Water channel protein AQP1 in cytoplasm is a critical factor in breast cancer local invasion. J Exp Clin Cancer Res 2023 Feb 20;42(1):49. PMID: 36803413
  • Pierson Smela MD, Kramme CC, Fortuna PRJ, Adams JL et al. Directed differentiation of human iPSCs to functional ovarian granulosa-like cells via transcription factor overexpression. Elife 2023 Feb 21;12. PMID: 36803359
  • Martinez RJ, Breed ER, Worota Y, Ashby KM et al. Type III interferon drives thymic B cell activation and regulatory T cell generation. Proc Natl Acad Sci U S A 2023 Feb 28;120(9):e2220120120. PMID: 36802427
  • Lowe K, Small A, Song Q, Hao LY et al. Transcriptomic profiling of programmed cell death 1 (PD-1) expressing T cells in early rheumatoid arthritis identifies a decreased CD4 + PD-1 + signature post-treatment. Sci Rep 2023 Feb 17;13(1):2847. PMID: 36801909
  • Chan KR, Koh CWT, Ng DHL, Qin S et al. Early peripheral blood MCEMP1 and HLA-DRA expression predicts COVID-19 prognosis. EBioMedicine 2023 Mar;89:104472. PMID: 36801619
  • Zhang J, Zhang Y, McGrenaghan CJ, Kelly VP et al. Disruption to tRNA Modification by Queuine Contributes to Inflammatory Bowel Disease. Cell Mol Gastroenterol Hepatol 2023;15(6):1371-1389. PMID: 36801450
  • Peng H, Lin Y, Hu F, Lv C et al. Prolonged generation of multi-lineage blood cells in wild-type animals from pluripotent stem cells. Stem Cell Reports 2023 Mar 14;18(3):720-735. PMID: 36801005
  • Novakovsky G, Sasaki S, Fornes O, Omur ME et al. In silico discovery of small molecules for efficient stem cell differentiation into definitive endoderm. Stem Cell Reports 2023 Mar 14;18(3):765-781. PMID: 36801003
  • Calzari L, Zanotti L, Inglese E, Scaglione F et al. Role of epigenetics in the clinical evolution of COVID-19 disease. Epigenome-wide association study identifies markers of severe outcome. Eur J Med Res 2023 Feb 17;28(1):81. PMID: 36800980
  • Gong Z, Li Q, Shi J, Li P et al. Immunosuppressive reprogramming of neutrophils by lung mesenchymal cells promotes breast cancer metastasis. Sci Immunol 2023 Feb 24;8(80):eadd5204. PMID: 36800412
  • Liu W, Wang Z, Liu S, Zhang X et al. RNF138 inhibits late inflammatory gene transcription through degradation of SMARCC1 of the SWI/SNF complex. Cell Rep 2023 Feb 15;42(2):112097. PMID: 36800290
  • Fu Y, Xu L, Zhang H, Ding N et al. Identification and Validation of Immune-Related Genes Diagnostic for Progression of Atherosclerosis and Diabetes. J Inflamm Res 2023;16:505-521. PMID: 36798871
  • Guo M, Fang Z, Chen B, Songyang Z et al. Distinct dosage compensations of ploidy-sensitive and -insensitive X chromosome genes during development and in diseases. iScience 2023 Feb 17;26(2):105997. PMID: 36798435
  • Buyukcelebi K, Chen X, Abdula F, Duval A et al. Engineered MED12 mutations drive uterine fibroid-like transcriptional and metabolic programs by altering the 3D genome compartmentalization. Res Sq 2023 Feb 9 PMID: 36798375
  • Shulman D, Dubnov S, Zorbaz T, Madrer N et al. Sex-specific declines in cholinergic-targeting tRNA fragments in the nucleus accumbens in Alzheimer's disease. bioRxiv 2023 Feb 20 PMID: 36798311
  • Ramachandran J, Chen W, Lex RK, Windsor KE et al. The BAF chromatin complex component SMARCC1 does not mediate GLI transcriptional repression of Hedgehog target genes in limb buds. bioRxiv 2023 Jul 17 PMID: 36798239
  • Horváth V, Guirao-Rico S, Salces-Ortiz J, Rech GE et al. Gene expression differences consistent with water loss reduction underlie desiccation tolerance of natural Drosophila populations. BMC Biol 2023 Feb 16;21(1):35. PMID: 36797754
  • Zhang Y, Shi W, Sun Y et al. A functional gene module identification algorithm in gene expression data based on genetic algorithm and gene ontology. BMC Genomics 2023 Feb 17;24(1):76. PMID: 36797662
  • Li S, Guo D, Sun Q, Zhang L et al. MAPK4 silencing in gastric cancer drives liver metastasis by positive feedback between cancer cells and macrophages. Exp Mol Med 2023 Feb;55(2):457-469. PMID: 36797541
  • Haghshenas S, Foroutan A, Bhai P, Levy MA et al. Identification of a DNA methylation signature for Renpenning syndrome (RENS1), a spliceopathy. Eur J Hum Genet 2023 Aug;31(8):879-886. PMID: 36797465
  • Price BA, Marron JS, Mose LE, Perou CM et al. Translating transcriptomic findings from cancer model systems to humans through joint dimension reduction. Commun Biol 2023 Feb 16;6(1):179. PMID: 36797360
  • Zhang FL, Feng YQ, Wang JY, Zhu KX et al. Single cell epigenomic and transcriptomic analysis uncovers potential transcription factors regulating mitotic/meiotic switch. Cell Death Dis 2023 Feb 17;14(2):134. PMID: 36797258
  • Xie M, Zhu Y, Zhou Y, Wang Q et al. Interleukin-35 -producing B cells rescues inflammatory bowel disease in a mouse model via STAT3 phosphorylation and intestinal microbiota modification. Cell Death Discov 2023 Feb 17;9(1):67. PMID: 36797242
  • Xu J, Li S, Jin W, Zhou H et al. Epithelial Gab1 calibrates RIPK3-dependent necroptosis to prevent intestinal inflammation. JCI Insight 2023 Mar 22;8(6). PMID: 36795486
  • Nandi I, Smith HW, Sanguin-Gendreau V, Ji L et al. Coordinated activation of c-Src and FOXM1 drives tumor cell proliferation and breast cancer progression. J Clin Invest 2023 Apr 3;133(7). PMID: 36795481
  • Wang T, Cui S, Liu X, Han L et al. LncTUG1 ameliorates renal tubular fibrosis in experimental diabetic nephropathy through the miR-145-5p/dual-specificity phosphatase 6 axis. Ren Fail 2023 Dec;45(1):2173950. PMID: 36794657
  • Hou Y, Zhang X, Yao H, Hou L et al. METTL14 modulates glycolysis to inhibit colorectal tumorigenesis in p53-wild-type cells. EMBO Rep 2023 Apr 5;24(4):e56325. PMID: 36794620
  • Tsujioka H, Yamashita T et al. Utilization of ethanolamine phosphate phospholyase as a unique astrocytic marker. Front Cell Neurosci 2023;17:1097512. PMID: 36794261
  • Shang H, Fang L, Qin L, Jiang H et al. Genome-wide identification of the class III peroxidase gene family of sugarcane and its expression profiles under stresses. Front Plant Sci 2023;14:1101665. PMID: 36794222
  • Tian D, Pan Y, Zhao Y, Wang H et al. TCRαβ(+)NK1.1(-)CD4(-)CD8(-) double-negative T cells inhibit central and peripheral inflammation and ameliorate ischemic stroke in mice. Theranostics 2023;13(3):896-909. PMID: 36793857
  • Guo C, Fan Y, Cheng J, Deng Y et al. AFM negatively regulates the infiltration of monocytes to mediate sepsis-associated acute kidney injury. Front Immunol 2023;14:1049536. PMID: 36793712
  • Zhan X, Liu Y, Jannu AJ, Huang S et al. Identify potential driver genes for PAX-FOXO1 fusion-negative rhabdomyosarcoma through frequent gene co-expression network mining. Front Oncol 2023;13:1080989. PMID: 36793601
  • Hu J, Song Y, Cai X, Halina H et al. A novel pyroptosis gene expression-based risk score for survival in gastric cancer. Front Endocrinol (Lausanne) 2023;14:1120216. PMID: 36793271
  • Wang S, Gong Y, Wang Z, Meng X et al. Regulon active landscape reveals cell development and functional state changes of human primary osteoblasts in vivo. Hum Genomics 2023 Feb 15;17(1):11. PMID: 36793138
  • Kang HS, Grimm SA, Jothi R, Santisteban P et al. GLIS3 regulates transcription of thyroid hormone biosynthetic genes in coordination with other thyroid transcription factors. Cell Biosci 2023 Feb 15;13(1):32. PMID: 36793061
  • Chen ZA, Ma HH, Wang Y, Tian H et al. Integrated multiple microarray studies by robust rank aggregation to identify immune-associated biomarkers in Crohn's disease based on three machine learning methods. Sci Rep 2023 Feb 15;13(1):2694. PMID: 36792688
  • Li Q, Zhang XX, Hu LP, Ni B et al. Coadaptation fostered by the SLIT2-ROBO1 axis facilitates liver metastasis of pancreatic ductal adenocarcinoma. Nat Commun 2023 Feb 15;14(1):861. PMID: 36792623
  • Raccosta L, Marinozzi M, Costantini S, Maggioni D et al. Harnessing the reverse cholesterol transport pathway to favor differentiation of monocyte-derived APCs and antitumor responses. Cell Death Dis 2023 Feb 15;14(2):129. PMID: 36792589
  • Zhang R, Shu H, Wang Y, Tao T et al. G-Quadruplex Structures Are Key Modulators of Somatic Structural Variants in Cancers. Cancer Res 2023 Apr 14;83(8):1234-1248. PMID: 36791413
  • Misra N, Damara M, Ye T, Chambon P et al. The circadian demethylation of a unique intronic deoxymethylCpG-rich island boosts the transcription of its cognate circadian clock output gene. Proc Natl Acad Sci U S A 2023 Feb 21;120(8):e2214062120. PMID: 36791105
  • Misra N, Damara M, Chambon P et al. The HP1α protein is mandatory to repress the circadian clock and its output genes during the 12 h period of transcriptional repression. Proc Natl Acad Sci U S A 2023 Feb 21;120(8):e2213075120. PMID: 36791098
  • Seroussi U, Lugowski A, Wadi L, Lao RX et al. A comprehensive survey of C. elegans argonaute proteins reveals organism-wide gene regulatory networks and functions. Elife 2023 Feb 15;12. PMID: 36790166
  • Sweet DR, Padmanabhan R, Liao X, Dashora HR et al. Krüppel-Like Factors Orchestrate Endothelial Gene Expression Through Redundant and Non-Redundant Enhancer Networks. J Am Heart Assoc 2023 Feb 21;12(4):e024303. PMID: 36789992
  • Kang J, Dai Y, Li J, Fan H et al. Investigating cellular heterogeneity at the single-cell level by the flexible and mobile extrachromosomal circular DNA. Comput Struct Biotechnol J 2023;21:1115-1121. PMID: 36789262
  • Saberi F, Dehghan Z, Noori E, Taheri Z et al. Identification of Critical Molecular Factors and Side Effects Underlying the Response to Thalicthuberine in Prostate Cancer: A Systems Biology Approach. Avicenna J Med Biotechnol 2023 Jan-Mar;15(1):53-64. PMID: 36789117
  • Li S, Yan B, Li TKT, Lu J et al. Ultra-low-coverage genome-wide association study-insights into gestational age using 17,844 embryo samples with preimplantation genetic testing. Genome Med 2023 Feb 14;15(1):10. PMID: 36788602
  • Blöchl C, Wang D, Mayboroda OA, Lageveen-Kammeijer GSM et al. Transcriptionally imprinted glycomic signatures of acute myeloid leukemia. Cell Biosci 2023 Feb 14;13(1):31. PMID: 36788594
  • Rong D, Wang Y, Liu L, Cao H et al. GLIS1 intervention enhances anti-PD1 therapy for hepatocellular carcinoma by targeting SGK1-STAT3-PD1 pathway. J Immunother Cancer 2023 Feb;11(2). PMID: 36787938
  • Park SS, Lee YK, Park SH, Lim SB et al. p15(INK4B) is an alternative marker of senescent tumor cells in colorectal cancer. Heliyon 2023 Feb;9(2):e13170. PMID: 36785830
  • Ma C, Tu D, Xu Q, Wu Y et al. Identification of m(7)G regulator-mediated RNA methylation modification patterns and related immune microenvironment regulation characteristics in heart failure. Clin Epigenetics 2023 Feb 13;15(1):22. PMID: 36782329
  • Tafessu A, O'Hara R, Martire S, Dube AL et al. H3.3 contributes to chromatin accessibility and transcription factor binding at promoter-proximal regulatory elements in embryonic stem cells. Genome Biol 2023 Feb 13;24(1):25. PMID: 36782260
  • Li F, Zhang Y, Peng Z, Wang Y et al. Diagnostic, clustering, and immune cell infiltration analysis of m6A regulators in patients with sepsis. Sci Rep 2023 Feb 13;13(1):2532. PMID: 36781867
  • Zhu L, Li X, Liu D, Bai W et al. The positive feedback loop of MAD2L1/TYK2/STAT3 induces progression in B-cell acute lymphoblastic leukaemia. J Cancer Res Clin Oncol 2023 Aug;149(9):6527-6540. PMID: 36781502
  • Li Y, Shi Y, Zhang X, Li P et al. FGFR2 upregulates PAI-1 via JAK2/STAT3 signaling to induce M2 polarization of macrophages in colorectal cancer. Biochim Biophys Acta Mol Basis Dis 2023 Apr;1869(4):166665. PMID: 36781088
  • Raschka T, Sood M, Schultz B, Altay A et al. AI reveals insights into link between CD33 and cognitive impairment in Alzheimer's Disease. PLoS Comput Biol 2023 Feb;19(2):e1009894. PMID: 36780558
  • Muse ME, Carroll CD, Salas LA, Karagas MR et al. Application of Novel Breast Biospecimen Cell-Type Adjustment Identifies Shared DNA Methylation Alterations in Breast Tissue and Milk with Breast Cancer-Risk Factors. Cancer Epidemiol Biomarkers Prev 2023 Apr 3;32(4):550-560. PMID: 36780234
  • Hughes BW, Siemsen BM, Tsvetkov E, Berto S et al. NPAS4 in the medial prefrontal cortex mediates chronic social defeat stress-induced anhedonia-like behavior and reductions in excitatory synapses. Elife 2023 Feb 13;12. PMID: 36780219
  • Zhong L, Lu J, Fang J, Yao L et al. Csf1 from marrow adipogenic precursors is required for osteoclast formation and hematopoiesis in bone. Elife 2023 Feb 13;12. PMID: 36779854
  • Zhou C, Halstead MM, Bonnet-Garnier A, Schultz RM et al. Histone remodeling reflects conserved mechanisms of bovine and human preimplantation development. EMBO Rep 2023 Mar 6;24(3):e55726. PMID: 36779365
  • Chen C, Zhou J, Xia Y, Li M et al. A Higher Dysregulation Burden of Brain DNA Methylation in Female Patients Implicated in the Sex Bias of Schizophrenia. Res Sq 2023 Jan 30 PMID: 36778507
  • Zheng Y, Sun C, Zhang X, Ruzycki PA et al. Missense mutations in CRX homeodomain cause dominant retinopathies through two distinct mechanisms. bioRxiv 2023 Jun 15 PMID: 36778408
  • Neupane A, Chariker JH, Rouchka EC et al. Analysis of nucleotide variations in human g-quadruplex forming regions associated with disease states. bioRxiv 2023 Feb 2 PMID: 36778288
  • Chen MM, Guo W, Chen SM, Guo XZ et al. Xanthine dehydrogenase rewires metabolism and the survival of nutrient deprived lung adenocarcinoma cells by facilitating UPR and autophagic degradation. Int J Biol Sci 2023;19(3):772-788. PMID: 36778128
  • Zhao W, Cao Y, Chen Y, Chen Y et al. NLRP3 Regulates Mandibular Healing through Interaction with UCHL5 in MSCs. Int J Biol Sci 2023;19(3):936-949. PMID: 36778113
  • Benaglio P, Zhu H, Okino ML, Yan J et al. Type 1 diabetes risk genes mediate pancreatic beta cell survival in response to proinflammatory cytokines. Cell Genom 2022 Dec 14;2(12):100214. PMID: 36778047
  • Grimplet JGenomic and Bioinformatic Resources for Perennial Fruit Species. Curr Genomics 2022 Aug 11;23(4):217-233. PMID: 36777875
  • Gu Y, Wang Z, Wang R, Yang Y et al. N6-methyladenine regulator-mediated RNA methylation modification patterns in immune microenvironment regulation of osteoarthritis. Front Genet 2023;14:1113515. PMID: 36777725
  • Lin Z, Lin X, Sun Y, Lei S et al. Melanoma molecular subtyping and scoring model construction based on ligand-receptor pairs. Front Genet 2023;14:1098202. PMID: 36777724
  • Sharma S, Kumar P et al. Decoding the Role of MDM2 as a Potential Ubiquitin E3 Ligase and Identifying the Therapeutic Efficiency of Alkaloids against MDM2 in Combating Glioblastoma. ACS Omega 2023 Feb 7;8(5):5072-5087. PMID: 36777618
  • Zhu Q, Rao B, Chen Y, Jia P et al. In silico development and in vitro validation of a novel five-gene signature for prognostic prediction in colon cancer. Am J Cancer Res 2023;13(1):45-65. PMID: 36777511
  • Tang F, Liu Y, Sun Y, Xiong Y et al. Construction of a serum diagnostic signature based on m5C-related miRNAs for cancer detection. Front Endocrinol (Lausanne) 2023;14:1099703. PMID: 36777349
  • Karthik KV, Rajalingam A, Shivashankar M, Ganjiwale A et al. Recursive Feature Elimination-based Biomarker Identification for Open Neural Tube Defects. Curr Genomics 2022 Jul 5;23(3):195-206. PMID: 36777008
  • Drummer C 4th, Saaoud F, Jhala NC, Cueto R et al. Caspase-11 promotes high-fat diet-induced NAFLD by increasing glycolysis, OXPHOS, and pyroptosis in macrophages. Front Immunol 2023;14:1113883. PMID: 36776889
  • Wang Z, He Y, Li Q, Zhao Y et al. Network analyses of upper and lower airway transcriptomes identify shared mechanisms among children with recurrent wheezing and school-age asthma. Front Immunol 2023;14:1087551. PMID: 36776870
  • Zhang P, Pei S, Gong Z, Feng Y et al. By integrating single-cell RNA-seq and bulk RNA-seq in sphingolipid metabolism, CACYBP was identified as a potential therapeutic target in lung adenocarcinoma. Front Immunol 2023;14:1115272. PMID: 36776843
  • Barbero G, de Sousa Serro MG, Perez Lujan C, Vitullo AD et al. Transcriptome profiling of histone writers/erasers enzymes across spermatogenesis, mature sperm and pre-cleavage embryo: Implications in paternal epigenome transitions and inheritance mechanisms. Front Cell Dev Biol 2023;11:1086573. PMID: 36776561
  • Zhao LP, Wu J, Quan W, Zhou Y et al. DSS-induced colitis activates the kynurenine pathway in serum and brain by affecting IDO-1 and gut microbiota. Front Immunol 2022;13:1089200. PMID: 36776388
  • Pan X, Xu X, Wang L, Zhang S et al. BASP1 is a prognostic biomarker associated with immunotherapeutic response in head and neck squamous cell carcinoma. Front Oncol 2023;13:1021262. PMID: 36776328
  • Eloranta K, Pihlajoki M, Liljeström E, Nousiainen R et al. SLC-0111, an inhibitor of carbonic anhydrase IX, attenuates hepatoblastoma cell viability and migration. Front Oncol 2023;13:1118268. PMID: 36776327
  • Liu X, Dong X, Hu Y, Fang Y et al. Identification of thioredoxin-1 as a biomarker of lung cancer and evaluation of its prognostic value based on bioinformatics analysis. Front Oncol 2023;13:1080237. PMID: 36776308
  • Somadder PD, Hossain MA, Ahsan A, Sultana T et al. Drug Repurposing and Systems Biology approaches of Enzastaurin can target potential biomarkers and critical pathways in Colorectal Cancer. Comput Biol Med 2023 Mar;155:106630. PMID: 36774894
  • Okada D, Cheng JH, Zheng C, Kumaki T et al. Data-driven identification and classification of nonlinear aging patterns reveals the landscape of associations between DNA methylation and aging. Hum Genomics 2023 Feb 11;17(1):8. PMID: 36774528
  • Cury SS, de Moraes D, Oliveira JS, Freire PP et al. Low muscle mass in lung cancer is associated with an inflammatory and immunosuppressive tumor microenvironment. J Transl Med 2023 Feb 11;21(1):116. PMID: 36774484
  • Wang G, Wang A, Wang L, Xu G et al. Identification and validation of novel lung adenocarcinoma subtypes and construction of prognostic models: based on cuprotosis-related genes. BMC Pulm Med 2023 Feb 11;23(1):63. PMID: 36774456
  • Zhang X, Fang B, Huang YF et al. Transcription factor binding sites are frequently under accelerated evolution in primates. Nat Commun 2023 Feb 11;14(1):783. PMID: 36774380
  • Ma R, Sun ED, Zou J et al. A spectral method for assessing and combining multiple data visualizations. Nat Commun 2023 Feb 11;14(1):780. PMID: 36774377
  • Tan Y, Duan X, Wang B, Liu X et al. Murine neonatal cardiac B cells promote cardiomyocyte proliferation and heart regeneration. NPJ Regen Med 2023 Feb 11;8(1):7. PMID: 36774363
  • Malagoli Tagliazucchi G, Wiecek AJ, Withnell E, Secrier M et al. Genomic and microenvironmental heterogeneity shaping epithelial-to-mesenchymal trajectories in cancer. Nat Commun 2023 Feb 11;14(1):789. PMID: 36774358
  • Vuerich R, Groppa E, Vodret S, Ring NAR et al. Ischemic wound revascularization by the stromal vascular fraction relies on host-donor hybrid vessels. NPJ Regen Med 2023 Feb 11;8(1):8. PMID: 36774354
  • Wang X, Collet L, Rediti M, Debien V et al. Predictive Biomarkers for Response to Immunotherapy in Triple Negative Breast Cancer: Promises and Challenges. J Clin Med 2023 Jan 26;12(3). PMID: 36769602
  • Zhou X, Wang Y, Chen W, Zhang H et al. Circulating HHIP Levels in Women with Insulin Resistance and PCOS: Effects of Physical Activity, Cold Stimulation and Anti-Diabetic Drug Therapy. J Clin Med 2023 Jan 22;12(3). PMID: 36769536
  • Wang Z, Liu J, Wang Y, Guo H et al. Identification of Key Biomarkers Associated with Immunogenic Cell Death and Their Regulatory Mechanisms in Severe Acute Pancreatitis Based on WGCNA and Machine Learning. Int J Mol Sci 2023 Feb 3;24(3). PMID: 36769358
  • Massaiu I, Campodonico J, Mapelli M, Salvioni E et al. Dysregulation of Iron Metabolism-Linked Genes at Myocardial Tissue and Cell Levels in Dilated Cardiomyopathy. Int J Mol Sci 2023 Feb 2;24(3). PMID: 36769209
  • Schossig P, Coskun E, Arsenic R, Horst D et al. Target Selection for T-Cell Therapy in Epithelial Ovarian Cancer: Systematic Prioritization of Self-Antigens. Int J Mol Sci 2023 Jan 24;24(3). PMID: 36768616
  • Yan G, Zhang M, Guan W, Zhang F et al. Genome-Wide Identification and Functional Characterization of Stress Related Glyoxalase Genes in Brassica napus L. Int J Mol Sci 2023 Jan 21;24(3). PMID: 36768459
  • Röder A, Hüsken S, Hutter MC, Rettie AE et al. Spotlight on CYP4B1. Int J Mol Sci 2023 Jan 20;24(3). PMID: 36768362
  • Roy G, Yang T, Liu S, Luo YL et al. Epigenetic Regulation of MAP3K8 in EBV-Associated Gastric Carcinoma. Int J Mol Sci 2023 Jan 19;24(3). PMID: 36768307
  • Bellanti F, Mangieri D, di Bello G, Lo Buglio A et al. Redox-Dependent Modulation of Human Liver Progenitor Cell Line Fate. Int J Mol Sci 2023 Jan 18;24(3). PMID: 36768260
  • Washburn RL, Martinez-Marin D, Korać K, Sniegowski T et al. The Sertoli Cell Complement Signature: A Suspected Mechanism in Xenograft Survival. Int J Mol Sci 2023 Jan 18;24(3). PMID: 36768217
  • Rowland G, Kronbichler A, Smith R, Jayne D et al. Using a Network-Based Analysis Approach to Investigate the Involvement of S. aureus in the Pathogenesis of Granulomatosis with Polyangiitis. Int J Mol Sci 2023 Jan 17;24(3). PMID: 36768148
  • Al Mahri S, Okla M, Rashid M, Malik SS et al. Profiling of G-Protein Coupled Receptors in Adipose Tissue and Differentiating Adipocytes Offers a Translational Resource for Obesity/Metabolic Research. Cells 2023 Jan 19;12(3). PMID: 36766718
  • Hervás-Corpión I, Navarro-Calvo J, Martín-Climent P, Iriarte-Gahete M et al. Defining a Correlative Transcriptional Signature Associated with Bulk Histone H3 Acetylation Levels in Adult Glioblastomas. Cells 2023 Jan 19;12(3). PMID: 36766715
  • Scott P, Wang S, Onyeaghala G, Pankratz N et al. Lower Expression of CFTR Is Associated with Higher Mortality in a Meta-Analysis of Individuals with Colorectal Cancer. Cancers (Basel) 2023 Feb 3;15(3). PMID: 36765944
  • Collin G, Foy JP, Aznar N, Rama N et al. Intestinal Epithelial Cells Adapt to Chronic Inflammation through Partial Genetic Reprogramming. Cancers (Basel) 2023 Feb 3;15(3). PMID: 36765930
  • Di Benedetto C, Khan T, Serrano-Saenz S, Rodriguez-Lemus A et al. Enhancer Clusters Drive Type I Interferon-Induced TRAIL Overexpression in Cancer, and Its Intracellular Protein Accumulation Fails to Induce Apoptosis. Cancers (Basel) 2023 Feb 3;15(3). PMID: 36765925
  • Vitiello M, Mercatanti A, Podda MS, Baldanzi C et al. A Network of MicroRNAs and mRNAs Involved in Melanosome Maturation and Trafficking Defines the Lower Response of Pigmentable Melanoma Cells to Targeted Therapy. Cancers (Basel) 2023 Jan 31;15(3). PMID: 36765859
  • Tedja R, Alvero AB, Fox A, Cardenas C et al. Generation of Stable Epithelial-Mesenchymal Hybrid Cancer Cells with Tumorigenic Potential. Cancers (Basel) 2023 Jan 22;15(3). PMID: 36765641
  • Liu J, Zhou Z, Jiang Y, Lin Y et al. EPHA3 Could Be a Novel Prognosis Biomarker and Correlates with Immune Infiltrates in Bladder Cancer. Cancers (Basel) 2023 Jan 19;15(3). PMID: 36765579
  • Li X, Li L, Wu J et al. The members of the miR-148/152 family inhibit cancer stem cell-like properties in gastric cancer via negative regulation of ITGA5. J Transl Med 2023 Feb 10;21(1):105. PMID: 36765401
  • Torre-Healy LA, Kawalerski RR, Oh K, Chrastecka L et al. Open-source curation of a pancreatic ductal adenocarcinoma gene expression analysis platform (pdacR) supports a two-subtype model. Commun Biol 2023 Feb 10;6(1):163. PMID: 36765128
  • Luo A, Kong J, Chen J, Xiao X et al. H2B ubiquitination recruits FACT to maintain a stable altered nucleosome state for transcriptional activation. Nat Commun 2023 Feb 10;14(1):741. PMID: 36765085
  • Pan Z, Bao Y, Hu M, Zhu Y et al. Role of NAT10-mediated ac4C-modified HSP90AA1 RNA acetylation in ER stress-mediated metastasis and lenvatinib resistance in hepatocellular carcinoma. Cell Death Discov 2023 Feb 10;9(1):56. PMID: 36765042
  • Shi H, Qi H, Xie D, Zhuang J et al. Inhibition of ACSF2 protects against renal ischemia/reperfusion injury via mediating mitophagy in proximal tubular cells. Free Radic Biol Med 2023 Mar;198:68-82. PMID: 36764625
  • Fang Y, Ji Z, Zhou W, Abante J et al. DNA methylation entropy is associated with DNA sequence features and developmental epigenetic divergence. Nucleic Acids Res 2023 Mar 21;51(5):2046-2065. PMID: 36762477
  • Kenarangi T, Bakhshi E, InanlooRahatloo K, Biglarian A et al. Identification of gene signature in RNA-Seq hepatocellular carcinoma data by Pareto-optimal cluster algorithm. Gastroenterol Hepatol Bed Bench 2022;15(4):387-394. PMID: 36762216
  • Arjmand B, Jahani Sherafat S, Rezaei Tavirani M, Hamzeloo Moghadam M et al. Evaluation of cellular response to Clostridium difficile toxin-A: a network analysis. Gastroenterol Hepatol Bed Bench 2022;15(4):421-425. PMID: 36762215
  • Li Y, Zhu Y, Chen L, Xia S et al. Transcription factor ZBTB42 is a novel prognostic factor associated with immune cell infiltration in glioma. Front Pharmacol 2023;14:1102277. PMID: 36762114
  • Zhang Q, Yang L, Xiao H, Dang Z et al. Pan-cancer analysis of chromothripsis-related gene expression patterns indicates an association with tumor immune and therapeutic agent responses. Front Oncol 2023;13:1074955. PMID: 36761982
  • Wu S, Li X, Hong F, Chen Q et al. Integrative analysis of single-cell transcriptomics reveals age-associated immune landscape of glioblastoma. Front Immunol 2023;14:1028775. PMID: 36761752
  • Wu B, Fu L, Guo X, Hu H et al. Multi-omics profiling and digital image analysis reveal the potential prognostic and immunotherapeutic properties of CD93 in stomach adenocarcinoma. Front Immunol 2023;14:984816. PMID: 36761750
  • Sun Z, Jing C, Zhan H, Guo X et al. Identification of tumor antigens and immune landscapes for bladder urothelial carcinoma mRNA vaccine. Front Immunol 2023;14:1097472. PMID: 36761744
  • Li H, Xu Y, Li W, Zhang L et al. Novel insights into the immune cell landscape and gene signatures in autism spectrum disorder by bioinformatics and clinical analysis. Front Immunol 2022;13:1082950. PMID: 36761165
  • Wild AR, Hogg PW, Flibotte S, Kochhar S et al. CellPalmSeq: A curated RNAseq database of palmitoylating and de-palmitoylating enzyme expression in human cell types and laboratory cell lines. Front Physiol 2023;14:1110550. PMID: 36760531
  • Zhang J, Ding Z, Chen L, Qin H et al. Hypermethylated WASF2: tumor suppressive role in head and neck squamous cell carcinoma. Transl Cancer Res 2023 Jan 30;12(1):78-92. PMID: 36760387
  • Zhou H, Ren R, Yau SS et al. Utilizing the codon adaptation index to evaluate the susceptibility to HIV-1 and SARS-CoV-2 related coronaviruses in possible target cells in humans. Front Cell Infect Microbiol 2022;12:1085397. PMID: 36760235
  • Zheng A, Bai J, Ha Y, Yu Y et al. Integrated analysis of the relation to tumor immune microenvironment and predicted value of Stonin1 gene for immune checkpoint blockage and targeted treatment in kidney renal clear cell carcinoma. BMC Cancer 2023 Feb 9;23(1):135. PMID: 36759775
  • Aanes H, Bleka Ø, Dahlberg PS, Carm KT et al. A new blood based epigenetic age predictor for adolescents and young adults. Sci Rep 2023 Feb 9;13(1):2303. PMID: 36759656
  • Villiers W, Kelly A, He X, Kaufman-Cook J et al. Multi-omics and machine learning reveal context-specific gene regulatory activities of PML::RARA in acute promyelocytic leukemia. Nat Commun 2023 Feb 9;14(1):724. PMID: 36759620
  • Arif W, Mathur B, Saikali MF, Chembazhi UV et al. Splicing factor SRSF1 deficiency in the liver triggers NASH-like pathology and cell death. Nat Commun 2023 Feb 9;14(1):551. PMID: 36759613
  • Hughes AL, Szczurek AT, Kelley JR, Lastuvkova A et al. A CpG island-encoded mechanism protects genes from premature transcription termination. Nat Commun 2023 Feb 9;14(1):726. PMID: 36759609
  • Jeong H, Hong EH, Ahn JH, Cho J et al. ERdj5 protects goblet cells from endoplasmic reticulum stress-mediated apoptosis under inflammatory conditions. Exp Mol Med 2023 Feb;55(2):401-412. PMID: 36759578
  • Han D, Liu G, Oh Y, Oh S et al. ZBTB12 is a molecular barrier to dedifferentiation in human pluripotent stem cells. Nat Commun 2023 Feb 9;14(1):632. PMID: 36759523
  • Yi N, Zhao H, He J, Xie X et al. Identification of potential biomarkers in Barrett's esophagus derived esophageal adenocarcinoma. Sci Rep 2023 Feb 9;13(1):2345. PMID: 36759514
  • Zhang C, Wang XY, Zuo JL, Wang XF et al. Localization and density of tertiary lymphoid structures associate with molecular subtype and clinical outcome in colorectal cancer liver metastases. J Immunother Cancer 2023 Feb;11(2). PMID: 36759015
  • Wieser V, Tsibulak I, Reimer DU, Zeimet AG et al. An angiogenic tumor phenotype predicts poor prognosis in ovarian cancer. Gynecol Oncol 2023 Mar;170:290-299. PMID: 36758419
  • Tunalı G, Rúbies Bedós M, Nagarajan D, Fridh P et al. IL-1 receptor-associated kinase-3 acts as an immune checkpoint in myeloid cells to limit cancer immunotherapy. J Clin Invest 2023 Apr 3;133(7). PMID: 36757800
  • Peng J, Shuopeng J, Wang H, Wang X et al. Thirdhand Smoke May Promote Lung Adenocarcinoma Development through HN1. Comput Math Methods Med 2023;2023:3407313. PMID: 36756386
  • Cui Y, Leng C et al. A glycolysis-related gene signatures in diffuse large B-Cell lymphoma predicts prognosis and tumor immune microenvironment. Front Cell Dev Biol 2023;11:1070777. PMID: 36755971
  • Feng R, Lu M, Yin C, Xu K et al. Identification of candidate genes and pathways associated with juvenile idiopathic arthritis by integrative transcriptome-wide association studies and mRNA expression profiles. Arthritis Res Ther 2023 Feb 8;25(1):19. PMID: 36755318
  • Jia F, Zhang L, Jiang Z, Tan G et al. FZD1/KLF10-hsa-miR-4762-5p/miR-224-3p-circular RNAs axis as prognostic biomarkers and therapeutic targets for glioblastoma: a comprehensive report. BMC Med Genomics 2023 Feb 8;16(1):21. PMID: 36755291
  • Luo J, Shi H, Ran H, Zhang C et al. Identification of key biomarkers and immune infiltration in the thoracic acute aortic dissection by bioinformatics analysis. BMC Cardiovasc Disord 2023 Feb 8;23(1):75. PMID: 36755239
  • Sun Y, Zhang J, Hong J, Zhang Z et al. Human RSPO1 Mutation Represses Beige Adipocyte Thermogenesis and Contributes to Diet-Induced Adiposity. Adv Sci (Weinh) 2023 Apr;10(12):e2207152. PMID: 36755192
  • Kamimoto K, Stringa B, Hoffmann CM, Jindal K et al. Dissecting cell identity via network inference and in silico gene perturbation. Nature 2023 Feb;614(7949):742-751. PMID: 36755098
  • Kang S, Kim J, Park A, Koh M et al. TRIM40 is a pathogenic driver of inflammatory bowel disease subverting intestinal barrier integrity. Nat Commun 2023 Feb 9;14(1):700. PMID: 36755029
  • Horii Y, Matsuda S, Toyota C, Morinaga T et al. VGLL3 is a mechanosensitive protein that promotes cardiac fibrosis through liquid-liquid phase separation. Nat Commun 2023 Feb 8;14(1):550. PMID: 36754961
  • Castagnoli L, Corso S, Franceschini A, Raimondi A et al. Fatty acid synthase as a new therapeutic target for HER2-positive gastric cancer. Cell Oncol (Dordr) 2023 Jun;46(3):661-676. PMID: 36753044
  • Kang EJ, Jang SM, Lee YJ, Jeong YJ et al. The couple of netrin-1/α-Synuclein regulates the survival of dopaminergic neurons via α-Synuclein disaggregation. BMB Rep 2023 Feb;56(2):126-131. PMID: 36751943
  • Henry S, Kokity L, Pirity MK et al. Polycomb protein RYBP activates transcription factor Plagl1 during in vitro cardiac differentiation of mouse embryonic stem cells. Open Biol 2023 Feb;13(2):220305. PMID: 36751888
  • Lingui X, Weifeng L, Yufei W, Yibin Z et al. High SPATA18 Expression and its Diagnostic and Prognostic Value in Clear Cell Renal Cell Carcinoma. Med Sci Monit 2023 Feb 8;29:e938474. PMID: 36751118
  • Liu Y, Peng L, Chen J, Chen L et al. EIF5A2 specifically regulates the transcription of aging-related genes in human neuroblastoma cells. BMC Geriatr 2023 Feb 7;23(1):83. PMID: 36750933
  • Maslova A, Plotnikov V, Nuriddinov M, Gridina M et al. Hi-C analysis of genomic contacts revealed karyotype abnormalities in chicken HD3 cell line. BMC Genomics 2023 Feb 7;24(1):66. PMID: 36750787
  • Khunsriraksakul C, Li Q, Markus H, Patrick MT et al. Multi-ancestry and multi-trait genome-wide association meta-analyses inform clinical risk prediction for systemic lupus erythematosus. Nat Commun 2023 Feb 7;14(1):668. PMID: 36750564
  • Zhao J, Zhou X, Chen B, Lu M et al. p53 promotes peroxisomal fatty acid β-oxidation to repress purine biosynthesis and mediate tumor suppression. Cell Death Dis 2023 Feb 7;14(2):87. PMID: 36750554
  • Li XF, Selli C, Zhou HL, Cao J et al. Macrophages promote anti-androgen resistance in prostate cancer bone disease. J Exp Med 2023 Apr 3;220(4). PMID: 36749798
  • Bueno M, Calyeca J, Khaliullin T, Miller MP et al. CYB5R3 in type II alveolar epithelial cells protects against lung fibrosis by suppressing TGF-β1 signaling. JCI Insight 2023 Mar 8;8(5). PMID: 36749633
  • Ma J, Wu H, Yang X, Zheng L et al. Identification and validation of an angiogenesis-related signature associated with preeclampsia by bioinformatic analysis. Medicine (Baltimore) 2023 Feb 3;102(5):e32741. PMID: 36749240
  • Theune WC, Trakhtenberg EF et al. Transcriptomic profiling of retinal cells reveals a subpopulation of microglia/macrophages expressing Rbpms and Spp1 markers of retinal ganglion cells (RGCs) that confound identification of RGCs. bioRxiv 2023 Jan 24 PMID: 36747805
  • Tatekoshi Y, Shapiro JS, Liu M, Bianco GM et al. Hexokinase-1 mitochondrial dissociation and protein O-GlcNAcylation drive heart failure with preserved ejection fraction. Res Sq 2023 Jan 25 PMID: 36747777
  • Rundberg Nilsson A, Xian H, Shalapour S, Cammenga J et al. IRF1 regulates self-renewal and stress-responsiveness to support hematopoietic stem cell maintenance. bioRxiv 2023 Mar 2 PMID: 36747722
  • Tan Y, Yao L, Gamliel A, Nair SJ et al. Signal-induced enhancer activation requires Ku70 to read topoisomerase1-DNA covalent complexes. Nat Struct Mol Biol 2023 Feb;30(2):148-158. PMID: 36747093
  • Choudhary MNK, Quaid K, Xing X, Schmidt H et al. Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes. Nat Commun 2023 Feb 6;14(1):634. PMID: 36746940
  • Chen Y, Jiang H, Zhan Z, Lu J et al. Restoration of lipid homeostasis between TG and PE by the LXRα-ATGL/EPT1 axis ameliorates hepatosteatosis. Cell Death Dis 2023 Feb 6;14(2):85. PMID: 36746922
  • Yang Y, Cao Y, Han X, Ma X et al. Revealing EXPH5 as a potential diagnostic gene biomarker of the late stage of COPD based on machine learning analysis. Comput Biol Med 2023 Mar;154:106621. PMID: 36746116
  • Angueyra JM, Kunze VP, Patak LK, Kim H et al. Transcription factors underlying photoreceptor diversity. Elife 2023 Feb 6;12. PMID: 36745553
  • Shchepina OA, Menshanov PN et al. Neuron-Glia-Ratio-Like Approach Evidenced for Limited Variability and In-Aggregate Circadian Shifts in Cortical Cell-Specific Transcriptomes. J Mol Neurosci 2023 Mar;73(2-3):159-170. PMID: 36745298
  • Koyyada P, Mishra S et al. A systematic computational analysis of Mycobacterium tuberculosis H37Rv and human CD34+ genomic expression reveals crucial molecular entities involved in infection progression. J Biomol Struct Dyn 2023 Feb 6;:1-16. PMID: 36744528
  • Yang F, Zhang X, Wang X, Xue Y et al. The new oncogene transmembrane protein 60 is a potential therapeutic target in glioma. Front Genet 2022;13:1029270. PMID: 36744183
  • Gong H, Qiu X, Li P, Zhao R et al. Immune infiltration analysis reveals immune cell signatures in salivary gland tissue of primary Sjögren's syndrome. Front Med (Lausanne) 2023;10:1033232. PMID: 36744136
  • Xu R, Yang L, Zhang Z, Liao Y et al. Cancer-associated fibroblast related gene signature in Helicobacter pylori-based subtypes of gastric carcinoma for prognosis and tumor microenvironment estimation in silico analysis. Front Med (Lausanne) 2023;10:1079470. PMID: 36744128
  • Zhang B, Yuan Q, Zhang B, Li S et al. Characterization of neuroendocrine regulation- and metabolism-associated molecular features and prognostic indicators with aid to clinical chemotherapy and immunotherapy of patients with pancreatic cancer. Front Endocrinol (Lausanne) 2022;13:1078424. PMID: 36743929
  • Donohue LKH, Guo MG, Zhao Y, Jung N et al. A cis-regulatory lexicon of DNA motif combinations mediating cell-type-specific gene regulation. Cell Genom 2022 Nov 9;2(11). PMID: 36742369
  • Ding C, Yu Z, Li X, Zhu J et al. Collagen type VII α1 chain: A promising prognostic and immune infiltration biomarker of pancreatic cancer. Oncol Lett 2023 Feb;25(2):77. PMID: 36742365
  • Zhang M, Zhou J, Wang H, He L et al. Exploration of the shared pathways and common biomarker PAN3 in ankylosing spondylitis and ulcerative colitis using integrated bioinformatics analysis. Front Immunol 2023;14:1089622. PMID: 36742304
  • Pan Z, Lin H, Fu Y, Zeng F et al. Identification of gene signatures associated with ulcerative colitis and the association with immune infiltrates in colon cancer. Front Immunol 2023;14:1086898. PMID: 36742294
  • Deng H, Li T, Wei F, Han W et al. High expression of TMEM200A is associated with a poor prognosis and immune infiltration in gastric cancer. Pathol Oncol Res 2023;29:1610893. PMID: 36741965
  • Zhang S, Nie Y, Fan X, Wei W et al. A transcriptional activator from Rhizophagus irregularis regulates phosphate uptake and homeostasis in AM symbiosis during phosphorous starvation. Front Microbiol 2022;13:1114089. PMID: 36741887
  • Chat V, Dagayev S, Moran U, Snuderl M et al. A genome-wide association study of germline variation and melanoma prognosis. Front Oncol 2022;12:1050741. PMID: 36741706
  • Liu J, Fu N, Yang Z, Li A et al. The genetic and epigenetic regulation of CD55 and its pathway analysis in colon cancer. Front Immunol 2022;13:947136. PMID: 36741376
  • Jia Y, Li HY, Wang J, Chen X et al. Tripartite motif containing 69 elicits ERK2-dependent EYA4 turnover to impart pancreatic tumorigenesis. J Cancer 2023;14(2):200-218. PMID: 36741265
  • Ma J, Zuo D, Ye H, Yan Y et al. Genome-wide identification, characterization, and expression pattern of the late embryogenesis abundant (LEA) gene family in Juglans regia and its wild relatives J. mandshurica. BMC Plant Biol 2023 Feb 6;23(1):80. PMID: 36740678
  • Ao Y, Wang Z, Hu J, Yao M et al. Identification of essential genes and immune cell infiltration in rheumatoid arthritis by bioinformatics analysis. Sci Rep 2023 Feb 4;13(1):2032. PMID: 36739468
  • Lin M, Zhang XL, You R, Liu YP et al. Evolutionary route of nasopharyngeal carcinoma metastasis and its clinical significance. Nat Commun 2023 Feb 4;14(1):610. PMID: 36739462
  • Wu X, Choi JM et al. The impact of spatial correlation on methylation entropy with application to mouse brain methylome. Epigenetics Chromatin 2023 Feb 4;16(1):5. PMID: 36739438
  • Feng J, Yu Y, Yin W, Qian S et al. Development and verification of a 7-lncRNA prognostic model based on tumor immunity for patients with ovarian cancer. J Ovarian Res 2023 Feb 4;16(1):31. PMID: 36739404
  • Casal-Dominguez M, Pinal-Fernandez I, Pak K, Muñoz-Braceras S et al. Coordinated local RNA overexpression of complement induced by interferon gamma in myositis. Sci Rep 2023 Feb 4;13(1):2038. PMID: 36739295
  • Seitter H, Obkircher J, Grabher P, Hartl J et al. A novel calcium channel Cavβ(2) splice variant with unique properties predominates in the retina. J Biol Chem 2023 Apr;299(4):102972. PMID: 36738788
  • Shanchun H, You P, Sujuan N, Xuebing Z et al. Integrative analyses of biomarkers and pathways for metformin reversing cisplatin resistance in head and neck squamous cell carcinoma cells. Arch Oral Biol 2023 Mar;147:105637. PMID: 36738487
  • Chen Z, Zhang M, Liu Y, Chen Z et al. VEGF-A enhances the cytotoxic function of CD4(+) cytotoxic T cells via the VEGF-receptor 1/VEGF-receptor 2/AKT/mTOR pathway. J Transl Med 2023 Feb 3;21(1):74. PMID: 36737819
  • Lee DJ, Tsai PH, Chen CC, Dai YH et al. Incorporating knowledge of disease-defining hub genes and regulatory network into a machine learning-based model for predicting treatment response in lupus nephritis after the first renal flare. J Transl Med 2023 Feb 3;21(1):76. PMID: 36737814
  • Ma J, Wang R, Chen Y, Wang Z et al. 5-HT attenuates chronic stress-induced cognitive impairment in mice through intestinal flora disruption. J Neuroinflammation 2023 Feb 3;20(1):23. PMID: 36737776
  • Son S, Kim H, Lim H, Lee JH et al. CCN3/NOV promotes metastasis and tumor progression via GPNMB-induced EGFR activation in triple-negative breast cancer. Cell Death Dis 2023 Feb 3;14(2):81. PMID: 36737605
  • Ren X, Wang D, Zhang G, Zhou T et al. Nucleic DHX9 cooperates with STAT1 to transcribe interferon-stimulated genes. Sci Adv 2023 Feb 3;9(5):eadd5005. PMID: 36735791
  • Shilts J, Crozier TWM, Teixeira-Silva A, Gabaev I et al. LRRC15 mediates an accessory interaction with the SARS-CoV-2 spike protein. PLoS Biol 2023 Feb;21(2):e3001959. PMID: 36735681
  • Wang M, Gong L, Luo Y, He S et al. Transcriptomic analysis of asthma and allergic rhinitis reveals CST1 as a biomarker of unified airways. Front Immunol 2023;14:1048195. PMID: 36733482
  • Sae-Fung A, Mutirangura A, Jitkaew S et al. Identification and validation of a novel ferroptosis-related gene signature for prognosis and potential therapeutic target prediction in cholangiocarcinoma. Front Immunol 2022;13:1051273. PMID: 36733386
  • Dong X, Li Y, Li Q, Li W et al. Identification of immune signatures in Parkinson's disease based on co-expression networks. Front Genet 2023;14:1090382. PMID: 36733342
  • Migliozzi S, Oh YT, Hasanain M, Garofano L et al. Integrative multi-omics networks identify PKCδ and DNA-PK as master kinases of glioblastoma subtypes and guide targeted cancer therapy. Nat Cancer 2023 Feb;4(2):181-202. PMID: 36732634
  • Lotfollahi M, Rybakov S, Hrovatin K, Hediyeh-Zadeh S et al. Biologically informed deep learning to query gene programs in single-cell atlases. Nat Cell Biol 2023 Feb;25(2):337-350. PMID: 36732632
  • Dhillon P, Mulholland KA, Hu H, Park J et al. Increased levels of endogenous retroviruses trigger fibroinflammation and play a role in kidney disease development. Nat Commun 2023 Feb 2;14(1):559. PMID: 36732547
  • Zhang Y, Chen F, Creighton CJ et al. Pan-cancer molecular subtypes of metastasis reveal distinct and evolving transcriptional programs. Cell Rep Med 2023 Feb 21;4(2):100932. PMID: 36731467
  • Misson P, Bruder E, Cornuault JK, De Paepe M et al. Phage production is blocked in the adherent-invasive Escherichia coli LF82 upon macrophage infection. PLoS Pathog 2023 Feb;19(2):e1011127. PMID: 36730457
  • Schmidt T, Dabrowska A, Waldron JA, Hodge K et al. eIF4A1-dependent mRNAs employ purine-rich 5'UTR sequences to activate localised eIF4A1-unwinding through eIF4A1-multimerisation to facilitate translation. Nucleic Acids Res 2023 Feb 28;51(4):1859-1879. PMID: 36727461
  • Akcan TS, Vilov S, Heinig M et al. Predictive model of transcriptional elongation control identifies trans regulatory factors from chromatin signatures. Nucleic Acids Res 2023 Feb 28;51(4):1608-1624. PMID: 36727445
  • Davies CR, Guo T, Burke E, Stankiewicz E et al. The potential of using circulating tumour cells and their gene expression to predict docetaxel response in metastatic prostate cancer. Front Oncol 2022;12:1060864. PMID: 36727071
  • Zhang J, Wang YJ, Han YQ et al. Identification of autophagy-associated genes and prognostic implications in adults with acute myeloid leukemia by integrated bioinformatics analysis. Front Oncol 2022;12:1074057. PMID: 36727051
  • Li W, Wang R, Wang W et al. Exploring the causality and pathogenesis of systemic lupus erythematosus in breast cancer based on Mendelian randomization and transcriptome data analyses. Front Immunol 2022;13:1029884. PMID: 36726984
  • Li P, Bai C, Zhan L, Zhang H et al. Specific gene module pair-based target identification and drug discovery. Front Pharmacol 2022;13:1089217. PMID: 36726786
  • Eid RA, Eldeen MA, Soltan MA, Al-Shraim M et al. Integrative analysis of WDR12 as a potential prognostic and immunological biomarker in multiple human tumors. Front Genet 2022;13:1008502. PMID: 36726716
  • Zhang H, Zhu S, Zhou H, Li R et al. Identification of MTHFD2 as a prognostic biomarker and ferroptosis regulator in triple-negative breast cancer. Front Oncol 2023;13:1098357. PMID: 36726381
  • Cai S, Hu B, Wang X, Liu T et al. Integrative single-cell RNA-seq and ATAC-seq analysis of myogenic differentiation in pig. BMC Biol 2023 Feb 1;21(1):19. PMID: 36726129
  • Kaltdorf M, Breitenbach T, Karl S, Fuchs M et al. Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis. Sci Rep 2023 Feb 1;13(1):1855. PMID: 36725967
  • Despic V, Jaffrey SR et al. mRNA ageing shapes the Cap2 methylome in mammalian mRNA. Nature 2023 Feb;614(7947):358-366. PMID: 36725932
  • Du TY, Gao YX, Zheng YS et al. Identification of key genes related to immune infiltration in cirrhosis via bioinformatics analysis. Sci Rep 2023 Feb 1;13(1):1876. PMID: 36725885
  • Li F, Fang J, Yu Y, Hao S et al. Reanalysis of ribosome profiling datasets reveals a function of rocaglamide A in perturbing the dynamics of translation elongation via eIF4A. Nat Commun 2023 Feb 2;14(1):553. PMID: 36725859
  • Ma S, Yang Q, Chen N, Zheng A et al. RNA binding protein DDX5 restricts RORγt(+) T(reg) suppressor function to promote intestine inflammation. Sci Adv 2023 Feb 3;9(5):eadd6165. PMID: 36724232
  • Zhang Y, Huynh-Dam KT, Ding X, Sikirzhytski V et al. RASSF1 is identified by transcriptome coordination analysis as a target of ATF4. FEBS Open Bio 2023 Mar;13(3):556-569. PMID: 36723232
  • Li N, Liu H, Xue Y, Xu Z et al. Targetable Brg1-CXCL14 axis contributes to alcoholic liver injury by driving neutrophil trafficking. EMBO Mol Med 2023 Mar 8;15(3):e16592. PMID: 36722664
  • Chen Y, Deng Z, Sun Y et al. Development of a risk model based on autophagy-related genes to predict survival and immunotherapy response in ovarian cancer. Hereditas 2023 Feb 1;160(1):4. PMID: 36721247
  • Leipold AM, Werner RA, Düll J, Jung P et al. Th17.1 cell driven sarcoidosis-like inflammation after anti-BCMA CAR T cells in multiple myeloma. Leukemia 2023 Mar;37(3):650-658. PMID: 36720972
  • Hanley CJ, Waise S, Ellis MJ, Lopez MA et al. Single-cell analysis reveals prognostic fibroblast subpopulations linked to molecular and immunological subtypes of lung cancer. Nat Commun 2023 Jan 31;14(1):387. PMID: 36720863
  • Cheng L, He Q, Liu B, Chen L et al. SGK2 promotes prostate cancer metastasis by inhibiting ferroptosis via upregulating GPX4. Cell Death Dis 2023 Jan 31;14(1):74. PMID: 36720852
  • Sun Y, Demagny H, Faure A, Pontanari F et al. Asparagine protects pericentral hepatocytes during acute liver injury. J Clin Invest 2023 Apr 3;133(7). PMID: 36719750
  • Kapell H, Fazio L, Dyckow J, Schwarz S et al. Neuron-oligodendrocyte potassium shuttling at nodes of Ranvier protects against inflammatory demyelination. J Clin Invest 2023 Apr 3;133(7). PMID: 36719741
  • Xiao X, Feng H, Liao Y, Tang H et al. Identification of lncRNA-miRNA-mRNA Regulatory Network and Therapeutic Agents for Skin Aging by Bioinformatics Analysis. Biochem Genet 2023 Aug;61(4):1606-1624. PMID: 36719625
  • Seita Y, Cheng K, McCarrey JR, Yadu N et al. Efficient generation of marmoset primordial germ cell-like cells using induced pluripotent stem cells. Elife 2023 Jan 31;12. PMID: 36719274
  • Duran-Castells C, Llano A, Kawana-Tachikawa A, Prats A et al. Sirtuin-2, NAD-Dependent Deacetylase, Is a New Potential Therapeutic Target for HIV-1 Infection and HIV-Related Neurological Dysfunction. J Virol 2023 Feb 28;97(2):e0165522. PMID: 36719240
  • Ransom MA, Bunn KE, Negretti NM, Jetter CS et al. Developmental trajectory of extracellular vesicle characteristics from the lungs of preterm infants. Am J Physiol Lung Cell Mol Physiol 2023 Mar 1;324(3):L385-L392. PMID: 36719083
  • Zhao L, Wang Y, Jaganathan A, Sun Y et al. BRD4-PRC2 represses transcription of T-helper 2-specific negative regulators during T-cell differentiation. EMBO J 2023 Mar 15;42(6):e111473. PMID: 36719036
  • Chung YC, Bisht M, Thuma J, Tu LC et al. Single-chromosome dynamics reveals locus-dependent dynamics and chromosome territory orientation. J Cell Sci 2023 Feb 15;136(4). PMID: 36718642
  • Chen M, Wan Y, Li X, Xiang J et al. Dynamic single-cell RNA-seq analysis reveals distinct tumor program associated with microenvironmental remodeling and drug sensitivity in multiple myeloma. Cell Biosci 2023 Jan 30;13(1):19. PMID: 36717896
  • Kaemena DF, Yoshihara M, Beniazza M, Ashmore J et al. B1 SINE-binding ZFP266 impedes mouse iPSC generation through suppression of chromatin opening mediated by reprogramming factors. Nat Commun 2023 Jan 30;14(1):488. PMID: 36717582
  • Khan NM, Diaz-Hernandez ME, Chihab S, Priyadarshani P et al. Differential chondrogenic differentiation between iPSC derived from healthy and OA cartilage is associated with changes in epigenetic regulation and metabolic transcriptomic signatures. Elife 2023 Jan 30;12. PMID: 36715686
  • Zhang N, Tan Z, Wei J, Zhang S et al. Identification of novel anti-ZIKV drugs from viral-infection temporal gene expression profiles. Emerg Microbes Infect 2023 Dec;12(1):2174777. PMID: 36715162
  • Koganti PP, Tu LN, Selvaraj V et al. Functional metabolite reserves and lipid homeostasis revealed by the MA-10 Leydig cell metabolome. PNAS Nexus 2022 Sep;1(4):pgac215. PMID: 36714831
  • Tian Z, Ji C, Xie Z, Shi X et al. Integrated cytological and transcriptomic analysis reveals insights into pollen fertility in newly synthetic Brassica allohexaploids. Front Plant Sci 2022;13:1096804. PMID: 36714744
  • Gao J, Liu H, Wang X, Wang L et al. Associative analysis of multi-omics data indicates that acetylation modification is widely involved in cigarette smoke-induced chronic obstructive pulmonary disease. Front Med (Lausanne) 2022;9:1030644. PMID: 36714109
  • Ji X, Ma S, Sun X, Yu D et al. Analysis of ferroptosis-associated genes in Crohn's disease based on bioinformatics. Front Med (Lausanne) 2022;9:1058076. PMID: 36714107
  • Huang H, Cao W, Long Z, Kuang L et al. DNA methylation-based patterns for early diagnostic prediction and prognostic evaluation in colorectal cancer patients with high tumor mutation burden. Front Oncol 2022;12:1030335. PMID: 36713578
  • Liu M, Fang X, Wang H, Ji R et al. Characterization of lipid droplet metabolism patterns identified prognosis and tumor microenvironment infiltration in gastric cancer. Front Oncol 2022;12:1038932. PMID: 36713557
  • Wu Y, Zhang J et al. Study on differentially expressed genes between stage M and stage MS neuroblastoma. Front Oncol 2022;12:1083570. PMID: 36713522
  • Weng Y, Qian H, Hong L, Zhao S et al. Identification of EMT-related alternative splicing event of TMC7 to promote invasion and migration of pancreatic cancer. Front Immunol 2022;13:1089008. PMID: 36713450
  • Chen D, Zhang C, Luo J, Deng H et al. Activated autophagy of innate immune cells during the early stages of major trauma. Front Immunol 2022;13:1090358. PMID: 36713435
  • Yang Z, Wen P, Chen J, Kang J et al. DNA methylation regulatory patterns and underlying pathways behind the co-pathogenesis of allergic rhinitis and chronic spontaneous urticaria. Front Immunol 2022;13:1053558. PMID: 36713372
  • Sun L, Lu J, Li K, Zhang H et al. Diagnostic and prognostic value of STAP1 and AHNAK methylation in peripheral blood immune cells for HBV-related hepatopathy. Front Immunol 2022;13:1091103. PMID: 36713363
  • Yu M, Chang Y, Zhai Y, Pang B et al. TREM2 is associated with tumor immunity and implies poor prognosis in glioma. Front Immunol 2022;13:1089266. PMID: 36713360
  • Kang J, Xiang X, Chen X, Jiang J et al. Angiogenesis-related gene signatures reveal the prognosis of cervical cancer based on single cell sequencing and co-expression network analysis. Front Cell Dev Biol 2022;10:1086835. PMID: 36712973
  • Zhang Q, Gao Y, Lin S, Goldin LR et al. Genome-wide DNA methylation profiling in chronic lymphocytic leukaemia. Front Genet 2022;13:1056043. PMID: 36712882
  • Jiang R, Wang J, Liang J, Lin D et al. HIPPO signaling-related signature for predicting prognosis and therapeutic response in gastric cancer. Front Pharmacol 2022;13:1096055. PMID: 36712672
  • Yao J, Liang J, Li H et al. Screening for key genes in circadian regulation in advanced atherosclerosis: A bioinformatic analysis. Front Cardiovasc Med 2022;9:990757. PMID: 36712250
  • Zhang L, Lin Y, Wang K, Han L et al. Multiple-model machine learning identifies potential functional genes in dilated cardiomyopathy. Front Cardiovasc Med 2022;9:1044443. PMID: 36712235
  • Altay G, Zapardiel-Gonzalo J, Peters B et al. RNA-seq preprocessing and sample size considerations for gene network inference. bioRxiv 2023 Jan 3 PMID: 36711979
  • Wang G, Chiou J, Zeng C, Miller M et al. Integration of single-cell multiomic measurements across disease states with genetics identifies mechanisms of beta cell dysfunction in type 2 diabetes. bioRxiv 2023 Jan 2 PMID: 36711922
  • Chen L, Dupre A, Qiu X, Pellon-Cardenas O et al. TGFB1 Induces Fetal Reprogramming and Enhances Intestinal Regeneration. bioRxiv 2023 Jan 13 PMID: 36711781
  • Laajala TD, Sreekanth V, Soupir A, Creed J et al. curatedPCaData: Integration of clinical, genomic, and signature features in a curated and harmonized prostate cancer data resource. bioRxiv 2023 Jan 19 PMID: 36711769
  • Afzal M, Alharbi KS, Alzarea SI, Alyamani NM et al. Revealing genetic links of Type 2 diabetes that lead to the development of Alzheimer's disease. Heliyon 2023 Jan;9(1):e12202. PMID: 36711310
  • Huang M, Ma J, Zhang J et al. Inferring cell developmental stage-specific lncRNA regulation in the developing human neocortex with CDSlncR. Front Mol Neurosci 2022;15:1037565. PMID: 36710930
  • Kuang M, Zhou Z, Lu Z, Shen W et al. Prognostic prediction of lung adenocarcinoma by integrative analysis of RHOH expression and methylation. Clin Respir J 2023 Mar;17(3):148-156. PMID: 36710485
  • Wang L, Chen Y, Chen R, Mao F et al. Risk modeling of single-cell transcriptomes reveals the heterogeneity of immune infiltration in hepatocellular carcinoma. J Biol Chem 2023 Mar;299(3):102948. PMID: 36708920
  • Mohanan EM, Jhala D, More CB, Patel AK et al. Bioinformatics analysis of miRNA and its associated genes to identify potential biomarkers of oral submucous fibrosis and oral malignancy. Cancer Rep (Hoboken) 2023 Apr;6(4):e1787. PMID: 36708238
  • Zeng Q, Yi C, Lu J, Wang X et al. Identification of EMP1 as a critical gene for cisplatin resistance in ovarian cancer by using integrated bioinformatics analysis. Cancer Med 2023 Apr;12(7):9024-9040. PMID: 36708070
  • Liao Y, Cai H, Luo F, Li D et al. Three nervous system-specific expressed genes are potential biomarkers for the diagnosis of sporadic amyotrophic lateral sclerosis through a bioinformatic analysis. BMC Med Genomics 2023 Jan 27;16(1):15. PMID: 36707813
  • Chai H, Pan C, Zhang M, Huo H et al. Histone methyltransferase SETD1A interacts with notch and promotes notch transactivation to augment ovarian cancer development. BMC Cancer 2023 Jan 27;23(1):96. PMID: 36707804
  • Fitzgerald G, Turiel G, Gorski T, Soro-Arnaiz I et al. MME(+) fibro-adipogenic progenitors are the dominant adipogenic population during fatty infiltration in human skeletal muscle. Commun Biol 2023 Jan 27;6(1):111. PMID: 36707617
  • Salam R, Saliou A, Bielle F, Bertrand M et al. Cellular senescence in malignant cells promotes tumor progression in mouse and patient Glioblastoma. Nat Commun 2023 Jan 27;14(1):441. PMID: 36707509
  • Correia ACP, Straub D, Read M, Hoefnagel SJM et al. Inhibition of BMP2 and BMP4 Represses Barrett's Esophagus While Enhancing the Regeneration of Squamous Epithelium in Preclinical Models. Cell Mol Gastroenterol Hepatol 2023;15(5):1199-1217. PMID: 36706916
  • Sanfilippo C, Castrogiovanni P, Vinciguerra M, Imbesi R et al. Neuro-immune deconvolution analysis of OAS3 as a transcriptomic central node in HIV-associated neurocognitive disorders. J Neurol Sci 2023 Mar 15;446:120562. PMID: 36706688
  • Ajabnoor G, Alsubhi F, Shinawi T, Habhab W et al. Computational approaches for discovering significant microRNAs, microRNA-mRNA regulatory pathways, and therapeutic protein targets in endometrial cancer. Front Genet 2022;13:1105173. PMID: 36704357
  • Qin C, Wang Y, Zhang Y, Zhu Y et al. Transcriptome-wide analysis reveals the molecular mechanisms of cannabinoid type II receptor agonists in cardiac injury induced by chronic psychological stress. Front Genet 2022;13:1095428. PMID: 36704356
  • Ma X, Feng Y, Quan X, Geng B et al. Multi-omics analysis revealed the role of CCT2 in the induction of autophagy in Alzheimer's disease. Front Genet 2022;13:967730. PMID: 36704351
  • Zheng P, Long Z, Gao A, Lu J et al. A five-pseudouridylation-associated-LncRNA classifier for primary prostate cancer prognosis prediction. Front Genet 2022;13:1110799. PMID: 36704346
  • Xin C, Lai Y, Ji L, Wang Y et al. A novel 9-gene signature for the prediction of postoperative recurrence in stage II/III colorectal cancer. Front Genet 2022;13:1097234. PMID: 36704343
  • Bian R, Xu X, Li W et al. Uncovering the molecular mechanisms between heart failure and end-stage renal disease via a bioinformatics study. Front Genet 2022;13:1037520. PMID: 36704339
  • Hou Y, Qiao S, Li M, Han X et al. The gene signature of tertiary lymphoid structures within ovarian cancer predicts the prognosis and immunotherapy benefit. Front Genet 2022;13:1090640. PMID: 36704336
  • Wu Z, Hu Z, Gao Y, Xia Y et al. A computational approach based on weighted gene co-expression network analysis for biomarkers analysis of Parkinson's disease and construction of diagnostic model. Front Comput Neurosci 2022;16:1095676. PMID: 36704228
  • Nan Z, Dou Y, Chen A, Wang K et al. Identification and validation of a prognostic signature of autophagy, apoptosis and pyroptosis-related genes for head and neck squamous cell carcinoma: to imply therapeutic choices of HPV negative patients. Front Immunol 2022;13:1100417. PMID: 36703967
  • Zhao X, Lu M, Liu Z, Zhang M et al. Comprehensive analysis of alfa defensin expression and prognosis in human colorectal cancer. Front Oncol 2022;12:974654. PMID: 36703795
  • Tan L, Fu D, Liu F, Liu J et al. MXRA8 is an immune-relative prognostic biomarker associated with metastasis and CD8(+) T cell infiltration in colorectal cancer. Front Oncol 2022;12:1094612. PMID: 36703779
  • Wu H, Xie C, Wang R, Cheng J et al. Comparative analysis of thoracic and abdominal aortic aneurysms across the segment and species at the single-cell level. Front Pharmacol 2022;13:1095757. PMID: 36703732
  • Li D, Huang Z, Dai Y, Guo L et al. Bioinformatic identification of potential biomarkers and therapeutic targets in carotid atherosclerosis and vascular dementia. Front Neurol 2022;13:1091453. PMID: 36703641
  • Wang Y, Robinson PS, Coorens THH, Moore L et al. APOBEC mutagenesis is a common process in normal human small intestine. Nat Genet 2023 Feb;55(2):246-254. PMID: 36702998
  • Steinbrink JM, Miller C, Myers RA, Sanoff S et al. Transcriptional responses define dysregulated immune activation in Hepatitis C (HCV)-naïve recipients of HCV-infected donor kidneys. PLoS One 2023;18(1):e0280602. PMID: 36701416
  • Boos F, Oo JA, Warwick T, Günther S et al. The endothelial-enriched lncRNA LINC00607 mediates angiogenic function. Basic Res Cardiol 2023 Jan 26;118(1):5. PMID: 36700983
  • Liu X, Xiao H, Peng X, Chai Y et al. Identification and comprehensive analysis of circRNA-miRNA-mRNA regulatory networks in osteoarthritis. Front Immunol 2022;13:1050743. PMID: 36700234
  • Kong Y, Jiang J, Huang Y, Liu X et al. Narciclasine inhibits phospholipase A2 and regulates phospholipid metabolism to ameliorate psoriasis-like dermatitis. Front Immunol 2022;13:1094375. PMID: 36700214
  • Wang X, Wang G, Wu Z, Dong Y et al. Exosomal circ-PTPN22 and circ-ADAMTS6 mark T cell exhaustion and neutrophil extracellular traps in Asian intrahepatic cholangiocarcinoma. Mol Ther Nucleic Acids 2023 Mar 14;31:151-163. PMID: 36700045
  • Li B, Zhang F, Niu Q, Liu J et al. A molecular classification of gastric cancer associated with distinct clinical outcomes and validated by an XGBoost-based prediction model. Mol Ther Nucleic Acids 2023 Mar 14;31:224-240. PMID: 36700042
  • Zhao M, Zhang Y, Zhao H et al. Identification of ferroptosis-related genes and predicted overall survival in patients with burns. Front Surg 2022;9:1060036. PMID: 36700031
  • Sun Q, Zhao J, Liu L, Wang X et al. Identification of the potential biomarkers associated with circadian rhythms in heart failure. PeerJ 2023;11:e14734. PMID: 36699999
  • Wang GC, Zhou M, Zhang Y, Cai HM et al. Screening and identifying a novel M-MDSCs-related gene signature for predicting prognostic risk and immunotherapeutic responses in patients with lung adenocarcinoma. Front Genet 2022;13:989141. PMID: 36699465
  • Liu Y, Zhang J, Du Z, Huang J et al. Comprehensive analysis of PTPN family expression and prognosis in acute myeloid leukemia. Front Genet 2022;13:1087938. PMID: 36699453
  • Eltager M, Abdelaal T, Mahfouz A, Reinders MJT et al. scMoC: single-cell multi-omics clustering. Bioinform Adv 2022;2(1):vbac011. PMID: 36699396
  • de Weerd HA, Åkesson J, Guala D, Gustafsson M et al. MODalyseR-a novel software for inference of disease module hub regulators identified a putative multiple sclerosis regulator supported by independent eQTL data. Bioinform Adv 2022;2(1):vbac006. PMID: 36699378
  • Karimnezhad AMore accurate estimation of cell composition in bulk expression through robust integration of single-cell information. Bioinform Adv 2022;2(1):vbac049. PMID: 36699374
  • Hartebrodt A, Röttger R et al. Federated horizontally partitioned principal component analysis for biomedical applications. Bioinform Adv 2022;2(1):vbac026. PMID: 36699354
  • Todorow V, Hintze S, Schoser B, Meinke P et al. Nuclear envelope transmembrane proteins involved in genome organization are misregulated in myotonic dystrophy type 1 muscle. Front Cell Dev Biol 2022;10:1007331. PMID: 36699009
  • Hovenga V, Kalita J, Oluwadare O et al. HiC-GNN: A generalizable model for 3D chromosome reconstruction using graph convolutional neural networks. Comput Struct Biotechnol J 2023;21:812-836. PMID: 36698967
  • Rahmani F, Abdeahad H, Jaberi N, Hanaie R et al. The protective effect of curcumin on thrombin-induced hyper-permeability. Avicenna J Phytomed 2023 Jan-Feb;13(1):97-108. PMID: 36698738
  • Cui Z, Wang J, Chen G, Li D et al. The upregulation of CLGN in hepatocellular carcinoma is potentially regulated by hsa-miR-194-3p and associated with patient progression. Front Oncol 2022;12:1081510. PMID: 36698420
  • Yao S, Yu Y, Xu L, Pan X et al. Genomic and clinical features of endoplasmic reticulum stress factor in digestive system pan-cancer studies. Front Oncol 2022;12:1072576. PMID: 36698399
  • Chang W, Zhao Y, Rayêe D, Xie Q et al. Dynamic changes in whole genome DNA methylation, chromatin and gene expression during mouse lens differentiation. Epigenetics Chromatin 2023 Jan 25;16(1):4. PMID: 36698218
  • Mahmood SR, Said NHE, Gunsalus KC, Percipalle P et al. β-actin mediated H3K27ac changes demonstrate the link between compartment switching and enhancer-dependent transcriptional regulation. Genome Biol 2023 Jan 25;24(1):18. PMID: 36698204
  • Huang X, Han C, Zhong J, Hu J et al. Low expression of the dynamic network markers FOS/JUN in pre-deteriorated epithelial cells is associated with the progression of colorectal adenoma to carcinoma. J Transl Med 2023 Jan 25;21(1):45. PMID: 36698183
  • Boyd JR, Gao C, Quinn K, Fritz A et al. peaksat: an R package for ChIP-seq peak saturation analysis. BMC Genomics 2023 Jan 25;24(1):43. PMID: 36698077
  • Kazenwadel J, Venugopal P, Oszmiana A, Toubia J et al. A Prox1 enhancer represses haematopoiesis in the lymphatic vasculature. Nature 2023 Feb;614(7947):343-348. PMID: 36697821
  • Li G, Song B, Singh H, Surya Prasath VB et al. Decision level integration of unimodal and multimodal single cell data with scTriangulate. Nat Commun 2023 Jan 25;14(1):406. PMID: 36697445
  • Takahashi N, Franciosi F, Daldello EM, Luong XG et al. CPEB1-dependent disruption of the mRNA translation program in oocytes during maternal aging. Nat Commun 2023 Jan 26;14(1):416. PMID: 36697412
  • Yu Z, Su Y, Lu Y, Yang Y et al. Topological identification and interpretation for single-cell gene regulation elucidation across multiple platforms using scMGCA. Nat Commun 2023 Jan 25;14(1):400. PMID: 36697410
  • Gong Y, Zou S, Deng D, Wang L et al. Loss of RanGAP1 drives chromosome instability and rapid tumorigenesis of osteosarcoma. Dev Cell 2023 Feb 6;58(3):192-210.e11. PMID: 36696903
  • Yu Q, Liu X, Fang J, Wu H et al. Dynamics and regulation of mitotic chromatin accessibility bookmarking at single-cell resolution. Sci Adv 2023 Jan 25;9(4):eadd2175. PMID: 36696508
  • Anstine LJ, Majmudar PR, Aponte A, Singh S et al. TLE3 Sustains Luminal Breast Cancer Lineage Fidelity to Suppress Metastasis. Cancer Res 2023 Apr 4;83(7):997-1015. PMID: 36696357
  • Araki H, Hino S, Anan K, Kuribayashi K et al. LSD1 defines the fiber type-selective responsiveness to environmental stress in skeletal muscle. Elife 2023 Jan 25;12. PMID: 36695573
  • Meng Q, Li Y, Sun Z, Yang X et al. CircRNA hsa_circ_0070659 predicts poor prognosis and promotes non-small cell lung cancer (NSCLC) progression via microRNA-377 (miR-377) / Ras-Associated Binding Protein 3C (RAB3C) pathway. Bioengineered 2022 Jun;13(6):14578-14594. PMID: 36694911
  • Sokolowski DJ, Ahn J, Erdman L, Hou H et al. Differential Expression Enrichment Tool (DEET): an interactive atlas of human differential gene expression. NAR Genom Bioinform 2023 Mar;5(1):lqad003. PMID: 36694664
  • Fishov H, Muchtar E, Salmon-Divon M, Dispenzieri A et al. AL amyloidosis clonal plasma cells are regulated by microRNAs and dependent on anti-apoptotic BCL2 family members. Cancer Med 2023 Apr;12(7):8199-8210. PMID: 36694297
  • Swanson GM, Nassan FL, Ford JB, Hauser R et al. Phthalates impact on the epigenetic factors contributed specifically by the father at fertilization. Epigenetics Chromatin 2023 Jan 24;16(1):3. PMID: 36694265
  • Zou Z, Sepich-Poore C, Zhou X, Wei J et al. The mechanism underlying redundant functions of the YTHDF proteins. Genome Biol 2023 Jan 24;24(1):17. PMID: 36694229
  • Peters LA, Friedman JR, Stojmirovic A, Hagen J et al. A temporal classifier predicts histopathology state and parses acute-chronic phasing in inflammatory bowel disease patients. Commun Biol 2023 Jan 24;6(1):95. PMID: 36694043
  • Meng G, Xu H, Lu D, Li S et al. Three-dimensional chromatin architecture datasets for aging and Alzheimer's disease. Sci Data 2023 Jan 24;10(1):51. PMID: 36693875
  • Zhang Z, Sun H, Mariappan R, Chen X et al. scMoMaT jointly performs single cell mosaic integration and multi-modal bio-marker detection. Nat Commun 2023 Jan 24;14(1):384. PMID: 36693837
  • Swami S, Zhu H, Nisco A, Kimura T et al. Parathyroid hormone 1 receptor signaling mediates breast cancer metastasis to bone in mice. JCI Insight 2023 Mar 8;8(5). PMID: 36692956
  • Vo D, Ghosh P, Sahoo D et al. Artificial intelligence-guided discovery of gastric cancer continuum. Gastric Cancer 2023 Mar;26(2):286-297. PMID: 36692601
  • Li L, Zhao Y, Li H, Zhang S et al. BLTSA: pseudotime prediction for single cells by branched local tangent space alignment. Bioinformatics 2023 Feb 3;39(2). PMID: 36692140
  • Dharmaratne M, Kulkarni AS, Taherian Fard A, Mar JC et al. scShapes: a statistical framework for identifying distribution shapes in single-cell RNA-sequencing data. Gigascience 2022 Dec 28;12. PMID: 36691728
  • Alles J, Legnini I, Pacelli M, Rajewsky N et al. Rapid nuclear deadenylation of mammalian messenger RNA. iScience 2023 Jan 20;26(1):105878. PMID: 36691625
  • Wenhua S, Tsunematsu T, Umeda M, Tawara H et al. Cancer cell-derived novel periostin isoform promotes invasion in head and neck squamous cell carcinoma. Cancer Med 2023 Apr;12(7):8510-8525. PMID: 36691359
  • Sun JK, Wu D, Wong GC, Lau TM et al. Chronic alcohol metabolism results in DNA repair infidelity and cell cycle-induced senescence in neurons. Aging Cell 2023 Feb;22(2):e13772. PMID: 36691110
  • Wang Z, Coban B, Wu H, Chouaref J et al. GRHL2-controlled gene expression networks in luminal breast cancer. Cell Commun Signal 2023 Jan 23;21(1):15. PMID: 36691073
  • Fleischer JR, Schmitt AM, Haas G, Xu X et al. Molecular differences of angiogenic versus vessel co-opting colorectal cancer liver metastases at single-cell resolution. Mol Cancer 2023 Jan 24;22(1):17. PMID: 36691028
  • Rastegari M, Salehi N, Zare-Mirakabad F et al. Biomarker prediction in autism spectrum disorder using a network-based approach. BMC Med Genomics 2023 Jan 23;16(1):12. PMID: 36691005
  • Cang Z, Zhao Y, Almet AA, Stabell A et al. Screening cell-cell communication in spatial transcriptomics via collective optimal transport. Nat Methods 2023 Feb;20(2):218-228. PMID: 36690742
  • Yu D, Liang Y, Kim C, Jaganathan A et al. Structural mechanism of BRD4-NUT and p300 bipartite interaction in propagating aberrant gene transcription in chromatin in NUT carcinoma. Nat Commun 2023 Jan 24;14(1):378. PMID: 36690674
  • Durand S, Bruelle M, Bourdelais F, Bennychen B et al. RSL24D1 sustains steady-state ribosome biogenesis and pluripotency translational programs in embryonic stem cells. Nat Commun 2023 Jan 23;14(1):356. PMID: 36690642
  • Andrews S, Krueger C, Mellado-Lopez M, Hemberger M et al. Mechanisms and function of de novo DNA methylation in placental development reveals an essential role for DNMT3B. Nat Commun 2023 Jan 23;14(1):371. PMID: 36690623
  • Lauria A, Meng G, Proserpio V, Rapelli S et al. DNMT3B supports meso-endoderm differentiation from mouse embryonic stem cells. Nat Commun 2023 Jan 23;14(1):367. PMID: 36690616
  • Hironaka T, Takizawa N, Yamauchi Y, Horii Y et al. The well-developed actin cytoskeleton and Cthrc1 expression by actin-binding protein drebrin in myofibroblasts promote cardiac and hepatic fibrosis. J Biol Chem 2023 Mar;299(3):102934. PMID: 36690273
  • Tuohinto K, DiMaio TA, Kiss EA, Laakkonen P et al. KSHV infection of endothelial precursor cells with lymphatic characteristics as a novel model for translational Kaposi's sarcoma studies. PLoS Pathog 2023 Jan;19(1):e1010753. PMID: 36689549
  • Kim H, Aponte-Diaz D, Sotoudegan MS, Shengjuler D et al. The enterovirus genome can be translated in an IRES-independent manner that requires the initiation factors eIF2A/eIF2D. PLoS Biol 2023 Jan;21(1):e3001693. PMID: 36689548
  • Royer-Pokora B, Wruck W, Adjaye J, Beier M et al. Gene expression studies of WT1 mutant Wilms tumor cell lines in the frame work of published kidney development data reveals their early kidney stem cell origin. PLoS One 2023;18(1):e0270380. PMID: 36689432
  • Petkova M, Kraft M, Stritt S, Martinez-Corral I et al. Immune-interacting lymphatic endothelial subtype at capillary terminals drives lymphatic malformation. J Exp Med 2023 Apr 3;220(4). PMID: 36688917
  • Sousa A, Dugourd A, Memon D, Petursson B et al. Pan-Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival. Mol Syst Biol 2023 Mar 9;19(3):e10631. PMID: 36688815
  • Himmel NJ, Sakurai A, Patel AA, Bhattacharjee S et al. Chloride-dependent mechanisms of multimodal sensory discrimination and nociceptive sensitization in Drosophila. Elife 2023 Jan 23;12. PMID: 36688373
  • Ebadi N, Arefizadeh R, Nasrollahzadeh Sabet M, Goodarzi N et al. Identification of Key Genes and Biological Pathways Related to Myocardial Infarction through Integrated Bioinformatics Analysis. Iran J Med Sci 2023 Jan;48(1):35-42. PMID: 36688193
  • Yu L, Liang X, Wang J, Ding G et al. Identification of Key Biomarkers and Candidate Molecules in Non-Small-Cell Lung Cancer by Integrated Bioinformatics Analysis. Genet Res (Camb) 2023;2023:6782732. PMID: 36688087
  • Peng X, Zhu J, Liu S, Liu Z et al. The Upregulation of GSTO2 is Associated with Colon Cancer Progression and a Poor Prognosis. J Oncol 2023;2023:4931650. PMID: 36688005
  • Qiao P, Tian Z et al. Atractylenolide I inhibits EMT and enhances the antitumor effect of cabozantinib in prostate cancer via targeting Hsp27. Front Oncol 2022;12:1084884. PMID: 36686743
  • Wang Y, Qin D, Gao Y, Zhang Y et al. Identification of therapeutic targets for osteosarcoma by integrating single-cell RNA sequencing and network pharmacology. Front Pharmacol 2022;13:1098800. PMID: 36686663
  • Chi Q, Wang D, Sun T, Liang HP et al. Integrated bioinformatical and in vitro study on drug targets for liver cirrhosis based on unsupervised consensus clustering and immune cell infiltration. Front Pharmacol 2022;13:909668. PMID: 36686655
  • Li M, Ma H, Zhang S, Peng Y et al. Potential therapeutic effect of NK1R antagonist in diabetic non-healing wound and depression. Front Endocrinol (Lausanne) 2022;13:1077514. PMID: 36686487
  • Lin J, Cai Y, Wang Z, Ma Y et al. Novel biomarkers predict prognosis and drug-induced neuroendocrine differentiation in patients with prostate cancer. Front Endocrinol (Lausanne) 2022;13:1005916. PMID: 36686485
  • Chen Z, Sun X, Kang Y, Zhang J et al. A novel risk model based on the correlation between the expression of basement membrane genes and immune infiltration to predict the invasiveness of pituitary adenomas. Front Endocrinol (Lausanne) 2022;13:1079777. PMID: 36686480
  • Chen L, Chen L, Li X, Qin L et al. Transcriptomic profiling of hepatic tissues for drug metabolism genes in nonalcoholic fatty liver disease: A study of human and animals. Front Endocrinol (Lausanne) 2022;13:1034494. PMID: 36686439
  • Li Y, Ju S, Li X, Li W et al. Characterization of the microenvironment of diabetic foot ulcers and potential drug identification based on scRNA-seq. Front Endocrinol (Lausanne) 2022;13:997880. PMID: 36686438
  • Chen G, Yan J et al. Integrated bioinformatics-based identification of potential diagnostic biomarkers associated with atopic dermatitis. Postepy Dermatol Alergol 2022 Dec;39(6):1059-1068. PMID: 36686015
  • Zhang ZFA novel pyroptosis scoring model was associated with the prognosis and immune microenvironment of esophageal squamous cell carcinoma. Front Genet 2022;13:1034606. PMID: 36685978
  • Lu K, Yuan X, Zhao L, Wang B et al. Comprehensive pan-cancer analysis and the regulatory mechanism of AURKA, a gene associated with prognosis of ferroptosis of adrenal cortical carcinoma in the tumor micro-environment. Front Genet 2022;13:996180. PMID: 36685952
  • Li J, Yang C, Zheng Y et al. Identification of a tissue resident memory CD8 T cell-related risk score signature for colorectal cancer, the association with TME landscapes and therapeutic responses. Front Genet 2022;13:1088230. PMID: 36685946
  • Wang Z, Ma Y, Chen Z, Yang R et al. COVID-19 inhibits spermatogenesis in the testes by inducing cellular senescence. Front Genet 2022;13:981471. PMID: 36685935
  • Kuang W, Jiang C, Yu C, Hu J et al. A microarray data analysis investigating the pathogenesis and potential biomarkers of autophagy and ferroptosis in intervertebral disc degeneration. Front Genet 2022;13:1090467. PMID: 36685932
  • Cai T, Wang N, Meng P, Sun W et al. Up-regulated PIF1 predicts poor clinical outcomes and correlates with low immune infiltrates in clear cell renal cell carcinoma. Front Genet 2022;13:1058040. PMID: 36685888
  • Zhou Z, Yin H, Suye S, He J et al. Pan-cancer analysis of the prognostic and immunological role of Fanconi anemia complementation group E. Front Genet 2022;13:1024989. PMID: 36685883
  • Liu H, Chen C, Liu L, Wang Z et al. A four-lncRNA risk signature for prognostic prediction of osteosarcoma. Front Genet 2022;13:1081478. PMID: 36685868
  • Tang C, Deng L, Luo Q, He G et al. Identification of oxidative stress-related genes and potential mechanisms in atherosclerosis. Front Genet 2022;13:998954. PMID: 36685865
  • Fu Y, Du Q, Cui T, Lu Y et al. A pan-cancer analysis reveals role of clusterin (CLU) in carcinogenesis and prognosis of human tumors. Front Genet 2022;13:1056184. PMID: 36685863
  • Zhu Y, Wang Y, Hu M, Lu X et al. Identification of oncogenes and tumor-suppressor genes with hepatocellular carcinoma: A comprehensive analysis based on TCGA and GEO datasets. Front Genet 2022;13:934883. PMID: 36685860
  • Kaya IH, Al-Harazi O, Colak D et al. Transcriptomic data analysis coupled with copy number aberrations reveals a blood-based 17-gene signature for diagnosis and prognosis of patients with colorectal cancer. Front Genet 2022;13:1031086. PMID: 36685857
  • Zhu D, Liu J, Wang J, Zhang L et al. Transcriptome and pan-cancer system analysis identify PM2.5-induced stanniocalcin 2 as a potential prognostic and immunological biomarker for cancers. Front Genet 2022;13:1077615. PMID: 36685853
  • Luo YS, Shen XC, Li W, Wu GF et al. Genetic screening for hypertension and COVID-19 reveals functional variation of SPEG potentially associated with severe COVID-19 in women. Front Genet 2022;13:1041470. PMID: 36685827
  • Tian Y, Yu B, Lv B, Zhang Y et al. Experimental verification and comprehensive analysis of m7G methylation regulators in the subcluster classification of ischemic stroke. Front Genet 2022;13:1036345. PMID: 36685826
  • Wu Y, Zhong L, Qiu L, Dong L et al. A potential three-gene-based diagnostic signature for idiopathic pulmonary fibrosis. Front Genet 2022;13:985217. PMID: 36685820
  • Omit SBS, Akhter S, Rana HK, Rana ARMMH et al. Identification of Comorbidities, Genomic Associations, and Molecular Mechanisms for COVID-19 Using Bioinformatics Approaches. Biomed Res Int 2023;2023:6996307. PMID: 36685671
  • Almaghrabi S, Lovewell T, Azzouz M, Tazi Ahnini R et al. Characterisation of APS-1 Experimental Models Is Crucial for Development of Novel Therapies. Biomed Res Int 2023;2023:7960443. PMID: 36685668
  • Julé AM, Lam KP, Taylor M, Hoyt KJ et al. Disordered T cell-B cell interactions in autoantibody-positive inflammatory arthritis. Front Immunol 2022;13:1068399. PMID: 36685593
  • Shembrey C, Foroutan M, Hollande F et al. A new natural killer cell-specific gene signature predicting recurrence in colorectal cancer patients. Front Immunol 2022;13:1011247. PMID: 36685584
  • Xie S, Cai Y, Chen D, Xiang Y et al. Single-cell transcriptome analysis reveals heterogeneity and convergence of the tumor microenvironment in colorectal cancer. Front Immunol 2022;13:1003419. PMID: 36685571
  • Ni L, Sun P, Zhang S, Qian B et al. Transcriptome and single-cell analysis reveal the contribution of immunosuppressive microenvironment for promoting glioblastoma progression. Front Immunol 2022;13:1051701. PMID: 36685556
  • Yao RQ, Shen Z, Ma QM, Ling P et al. Combination of transcriptional biomarkers and clinical parameters for early prediction of sepsis indued acute respiratory distress syndrome. Front Immunol 2022;13:1084568. PMID: 36685531
  • Li S, Li K, Tian F, Li H et al. A high interferon gamma signature of CD8(+) T cells predicts response to neoadjuvant immunotherapy plus chemotherapy in gastric cancer. Front Immunol 2022;13:1056144. PMID: 36685525
  • Wu MN, Zhou DM, Jiang CY, Chen WW et al. Genetic analysis of potential biomarkers and therapeutic targets in ferroptosis from psoriasis. Front Immunol 2022;13:1104462. PMID: 36685512
  • Zhang Y, Guo J, Gao Y, Li S et al. Dynamic transcriptome analyses reveal m(6)A regulated immune non-coding RNAs during dengue disease progression. Heliyon 2023 Jan;9(1):e12690. PMID: 36685392
  • Yarani R, Palasca O, Doncheva NT, Anthon C et al. Cross-species high-resolution transcriptome profiling suggests biomarkers and therapeutic targets for ulcerative colitis. Front Mol Biosci 2022;9:1081176. PMID: 36685283
  • Rigter PMF, de Konink C, van Woerden GM et al. Loss of CAMK2G affects intrinsic and motor behavior but has minimal impact on cognitive behavior. Front Neurosci 2022;16:1086994. PMID: 36685241
  • Wang Y, Bai X, Guo X, Gao X et al. Bioinformatics analysis combined with clinical sample screening reveals that leptin may be a biomarker of preeclampsia. Front Physiol 2022;13:1031950. PMID: 36685185
  • Cao B, Patel KB, Li T, Yao S et al. A subnetwork-based framework for prioritizing and evaluating prognostic gene modules from cancer transcriptome data. iScience 2023 Feb 17;26(2):105915. PMID: 36685033
  • Liu C, Feng H, Zhang L, Guo Y et al. MicroRNA‑143‑3p levels are reduced in the peripheral blood of patients with gestational diabetes mellitus and influences pancreatic β‑cell function and viability. Exp Ther Med 2023 Feb;25(2):81. PMID: 36684655
  • Qin M, Chen Q, Li N, Xu X et al. Shared gene characteristics and molecular mechanisms of macrophages M1 polarization in calcified aortic valve disease. Front Cardiovasc Med 2022;9:1058274. PMID: 36684607
  • Li W, Huang M, Wang R, Wang W et al. Impact of genetically predicted atrial fibrillation on cancer risks: A large cardio-oncology Mendelian randomization study using UK biobank. Front Cardiovasc Med 2022;9:974402. PMID: 36684576
  • Liu C, Liu J, Zhang Y, Wang X et al. Immune-related potential biomarkers and therapeutic targets in coronary artery disease. Front Cardiovasc Med 2022;9:1055422. PMID: 36684561
  • Nguyen TB, Lac Q, Abdi L, Banerjee D et al. Harshening stem cell research and precision medicine: The states of human pluripotent cells stem cell repository diversity, and racial and sex differences in transcriptomes. Front Cell Dev Biol 2022;10:1071243. PMID: 36684445
  • Pecori R, Chillón I, Lo Giudice C, Arnold A et al. ADAR RNA editing on antisense RNAs results in apparent U-to-C base changes on overlapping sense transcripts. Front Cell Dev Biol 2022;10:1080626. PMID: 36684421
  • Dong H, Zhao S, Zhang C, Wang X et al. Identification of cuproptosis related subtypes and construction of prognostic signature in gastric cancer. Front Surg 2022;9:991624. PMID: 36684237
  • Li Q, Zhao YH, Xu C, Liang YL et al. Chemotherapy-Induced Senescence Reprogramming Promotes Nasopharyngeal Carcinoma Metastasis by circRNA-Mediated PKR Activation. Adv Sci (Weinh) 2023 Mar;10(8):e2205668. PMID: 36683218
  • Lee J, Kim M, Kang K, Yang CS et al. Hierarchical cell-type identifier accurately distinguishes immune-cell subtypes enabling precise profiling of tissue microenvironment with single-cell RNA-sequencing. Brief Bioinform 2023 Mar 19;24(2). PMID: 36681937
  • Zhou W, Jie Q, Pan T, Shi J et al. Single-cell RNA binding protein regulatory network analyses reveal oncogenic HNRNPK-MYC signalling pathway in cancer. Commun Biol 2023 Jan 21;6(1):82. PMID: 36681772
  • Georges A, Lavergne A, Mandai M, Lepiemme F et al. Comparing the transcriptome of developing native and iPSC-derived mouse retinae by single cell RNA sequencing. Sci Rep 2023 Jan 21;13(1):1223. PMID: 36681719
  • Su YH, Wu YZ, Ann DK, Chen JL et al. Obesity promotes radioresistance through SERPINE1-mediated aggressiveness and DNA repair of triple-negative breast cancer. Cell Death Dis 2023 Jan 21;14(1):53. PMID: 36681663
  • Ito M, Fujii N, Kohara S, Hori S et al. Inositol pyrophosphate profiling reveals regulatory roles of IP6K2-dependent enhanced IP(7) metabolism in the enteric nervous system. J Biol Chem 2023 Mar;299(3):102928. PMID: 36681123
  • Lin P, Wan WJ, Kang T, Qin LF et al. Molecular hallmarks of breast multiparametric magnetic resonance imaging during neoadjuvant chemotherapy. Radiol Med 2023 Feb;128(2):171-183. PMID: 36680710
  • Elzinga J, Grouls M, Hooiveld GJEJ, van der Zande M et al. Systematic comparison of transcriptomes of Caco-2 cells cultured under different cellular and physiological conditions. Arch Toxicol 2023 Mar;97(3):737-753. PMID: 36680592
  • Pollari M, Sipari N, Poque S, Himanen K et al. Effects of Poty-Potexvirus Synergism on Growth, Photosynthesis and Metabolite Status of Nicotiana benthamiana. Viruses 2022 Dec 30;15(1). PMID: 36680161
  • Bouwmeester MC, Tao Y, Proença S, van Steenbeek FG et al. Drug Metabolism of Hepatocyte-like Organoids and Their Applicability in In Vitro Toxicity Testing. Molecules 2023 Jan 7;28(2). PMID: 36677681
  • Chen Q, Li F, Gao Y, Yang F et al. Identification of FGF13 as a Potential Biomarker and Target for Diagnosis of Impaired Glucose Tolerance. Int J Mol Sci 2023 Jan 16;24(2). PMID: 36675322
  • Huang J, Sun M, Tao Y, Ren J et al. Cytoplasmic Expression of TP53INP2 Modulated by Demethylase FTO and Mutant NPM1 Promotes Autophagy in Leukemia Cells. Int J Mol Sci 2023 Jan 13;24(2). PMID: 36675134
  • Feng M, Yang K, Wang J, Li G et al. First Report of FARSA in the Regulation of Cell Cycle and Survival in Mantle Cell Lymphoma Cells via PI3K-AKT and FOXO1-RAG1 Axes. Int J Mol Sci 2023 Jan 13;24(2). PMID: 36675119
  • Hartl L, Roelofs JJTH, Dijk F, Bijlsma MF et al. C/EBP-Family Redundancy Determines Patient Survival and Lymph Node Involvement in PDAC. Int J Mol Sci 2023 Jan 12;24(2). PMID: 36675048
  • Petazzi P, Jorge-Torres OC, Gomez A, Scognamiglio I et al. Global Impairment of Immediate-Early Genes Expression in Rett Syndrome Models and Patients Linked to Myelination Defects. Int J Mol Sci 2023 Jan 11;24(2). PMID: 36674969
  • Xenos A, Malod-Dognin N, Zambrana C, Pržulj N et al. Integrated Data Analysis Uncovers New COVID-19 Related Genes and Potential Drug Re-Purposing Candidates. Int J Mol Sci 2023 Jan 11;24(2). PMID: 36674947
  • Vahlensieck C, Thiel CS, Mosimann M, Bradley T et al. Transcriptional Response in Human Jurkat T Lymphocytes to a near Physiological Hypergravity Environment and to One Common in Routine Cell Culture Protocols. Int J Mol Sci 2023 Jan 10;24(2). PMID: 36674869
  • Mijit M, Liu S, Sishtla K, Hartman GD et al. Identification of Novel Pathways Regulated by APE1/Ref-1 in Human Retinal Endothelial Cells. Int J Mol Sci 2023 Jan 6;24(2). PMID: 36674619
  • Poulet A, Rousselot E, Téletchéa S, Noirot C et al. The Histone Chaperone Network Is Highly Conserved in Physarum polycephalum. Int J Mol Sci 2023 Jan 5;24(2). PMID: 36674565
  • Zhang P, Li Q, Zhang Y, Wang Q et al. Identification of a Novel Gene Signature with DDR and EMT Difunctionalities for Predicting Prognosis, Immune Activity, and Drug Response in Breast Cancer. Int J Environ Res Public Health 2023 Jan 10;20(2). PMID: 36673982
  • Xue J, Li F, Dai P et al. The Potential of ANK1 to Predict Parkinson's Disease. Genes (Basel) 2023 Jan 15;14(1). PMID: 36672967
  • Zhang X, Qin L, Lu J, Xia Y et al. Genome-Wide Identification of GYF-Domain Encoding Genes in Three Brassica Species and Their Expression Responding to Sclerotinia sclerotiorum in Brassica napus. Genes (Basel) 2023 Jan 15;14(1). PMID: 36672966
  • Wang A, Wang J, Mao M, Zhao X et al. Analyses of lncRNAs, circRNAs, and the Interactions between ncRNAs and mRNAs in Goat Submandibular Glands Reveal Their Potential Function in Immune Regulation. Genes (Basel) 2023 Jan 10;14(1). PMID: 36672927
  • Martini L, Bardini R, Savino A, Di Carlo S et al. GAGAM v1.2: An Improvement on Peak Labeling and Genomic Annotated Gene Activity Matrix Construction. Genes (Basel) 2022 Dec 30;14(1). PMID: 36672856
  • Ariyanfar S, Good DJ et al. Analysis of SNHG14: A Long Non-Coding RNA Hosting SNORD116, Whose Loss Contributes to Prader-Willi Syndrome Etiology. Genes (Basel) 2022 Dec 29;14(1). PMID: 36672838
  • Gupta S, Singh P, Tasneem A, Almatroudi A et al. Integrative Multiomics and Regulatory Network Analyses Uncovers the Role of OAS3, TRAFD1, miR-222-3p, and miR-125b-5p in Hepatitis E Virus Infection. Genes (Basel) 2022 Dec 23;14(1). PMID: 36672782
  • Jiang L, Duan B, Jia P, Zhang Y et al. The Role of Intratumor Microbiomes in Cervical Cancer Metastasis. Cancers (Basel) 2023 Jan 13;15(2). PMID: 36672459
  • Zhuang Y, Lan S, Zhong W, Huang F et al. Comprehensive Analysis of PPMs in Pancreatic Adenocarcinoma Indicates the Value of PPM1K in the Tumor Microenvironment. Cancers (Basel) 2023 Jan 12;15(2). PMID: 36672423
  • Wang Y, Ohara T, Chen Y, Hamada Y et al. Highly Metastatic Subpopulation of TNBC Cells Has Limited Iron Metabolism and Is a Target of Iron Chelators. Cancers (Basel) 2023 Jan 12;15(2). PMID: 36672419
  • Ke C, Bandyopadhyay D, Sarkar D et al. Gene Screening for Prognosis of Non-Muscle-Invasive Bladder Carcinoma under Competing Risks Endpoints. Cancers (Basel) 2023 Jan 6;15(2). PMID: 36672328
  • Poschel DB, Kehinde-Ige M, Klement JD, Yang D et al. IRF8 Regulates Intrinsic Ferroptosis through Repressing p53 Expression to Maintain Tumor Cell Sensitivity to Cytotoxic T Lymphocytes. Cells 2023 Jan 13;12(2). PMID: 36672246
  • Çelen İ, Jayasinghe A, Doh JH, Sabanayagam CR et al. Transcriptomic Signature of the Simulated Microgravity Response in Caenorhabditis elegans and Comparison to Spaceflight Experiments. Cells 2023 Jan 10;12(2). PMID: 36672205
  • Willems A, Panchy N, Hong T et al. Using Single-Cell RNA Sequencing and MicroRNA Targeting Data to Improve Colorectal Cancer Survival Prediction. Cells 2023 Jan 5;12(2). PMID: 36672162
  • Hu T, Lv X, Getachew T, Mwacharo JM et al. Effect of Sox18 on the Induction Ability of Dermal Papilla Cells in Hu Sheep. Biology (Basel) 2022 Dec 30;12(1). PMID: 36671756
  • Wu Y, Kang K, Han C, Wang L et al. Single-Cell Profiling Comparisons of Tumor Microenvironment between Primary Advanced Lung Adenocarcinomas and Brain Metastases and Machine Learning Algorithms in Predicting Immunotherapeutic Responses. Biomolecules 2023 Jan 16;13(1). PMID: 36671569
  • Li HX, Liu TR, Tu ZX, Xie CB et al. Screening of Tumor Antigens and Construction of Immune Subtypes for mRNA Vaccine Development in Head and Neck Squamous Cell Carcinoma. Biomolecules 2022 Dec 31;13(1). PMID: 36671475
  • Ma H, Qiu Q, Tan D, Chen Q et al. The Cancer-Associated Fibroblasts-Related Gene COMP Is a Novel Predictor for Prognosis and Immunotherapy Efficacy and Is Correlated with M2 Macrophage Infiltration in Colon Cancer. Biomolecules 2022 Dec 28;13(1). PMID: 36671447
  • Chen S, Zhang L, Lin H, Liang Y et al. Functional Gene Expression Signatures from On-Treatment Tumor Specimens Predict Anti-PD1 Blockade Response in Metastatic Melanoma. Biomolecules 2022 Dec 27;13(1). PMID: 36671443
  • Bauer S, Chen CY, Jonson M, Kaczmarczyk L et al. Cerebellar granule neurons induce Cyclin D1 before the onset of motor symptoms in Huntington's disease mice. Acta Neuropathol Commun 2023 Jan 20;11(1):17. PMID: 36670467
  • Megat S, Mora N, Sanogo J, Roman O et al. Integrative genetic analysis illuminates ALS heritability and identifies risk genes. Nat Commun 2023 Jan 20;14(1):342. PMID: 36670122
  • Liu E, Becker N, Sudha P, Dong C et al. Alternative splicing in multiple myeloma is associated with the non-homologous end joining pathway. Blood Cancer J 2023 Jan 20;13(1):16. PMID: 36670103
  • Chan JF, Huang X, Hu B, Chai Y et al. Altered host protease determinants for SARS-CoV-2 Omicron. Sci Adv 2023 Jan 20;9(3):eadd3867. PMID: 36662861
  • Li F, Liu R, Negi V, Yang P et al. VGLL4 and MENIN function as TEAD1 corepressors to block pancreatic β cell proliferation. Cell Rep 2023 Jan 31;42(1):111904. PMID: 36662616
  • Hayward DA, Vanes L, Wissmann S, Sivapatham S et al. B cell-intrinsic requirement for WNK1 kinase in antibody responses in mice. J Exp Med 2023 Mar 6;220(3). PMID: 36662229
  • Chen H, Tao L, Liang J, Pan C et al. Ubiquitin D promotes the progression of rheumatoid arthritis via activation of the p38 MAPK pathway. Mol Med Rep 2023 Feb;27(2). PMID: 36660934
  • Xu J, Si H, Zeng Y, Wu Y et al. Transcriptome-wide association study identifies new susceptibility genes for degenerative cervical spondylosis. Bone Joint Res 2023 Jan;12(1):80-90. PMID: 36660900
  • Sun G, Jiao M, Cui Y, Liang X et al. Identifying the mechanisms and molecular targets of Hongjingtian injection on treatment of TGFβ1-induced HK-2 cells: coupling network pharmacology with experimental verification. Ann Transl Med 2022 Dec;10(24):1329. PMID: 36660701
  • Zhu R, Gao C, Feng Q, Guan H et al. Ferroptosis-related genes with post-transcriptional regulation mechanisms in hepatocellular carcinoma determined by bioinformatics and experimental validation. Ann Transl Med 2022 Dec;10(24):1390. PMID: 36660631
  • Huang Y, Gao BQ, Meng Q, Yang LZ et al. CRISPR-dCas13-tracing reveals transcriptional memory and limited mRNA export in developing zebrafish embryos. Genome Biol 2023 Jan 19;24(1):15. PMID: 36658633
  • Yang Y, Booker SA, Clegg JM, Quintana-Urzainqui I et al. Identifying foetal forebrain interneurons as a target for monogenic autism risk factors and the polygenic 16p11.2 microdeletion. BMC Neurosci 2023 Jan 19;24(1):5. PMID: 36658491
  • Gyenis A, Chang J, Demmers JJPG, Bruens ST et al. Genome-wide RNA polymerase stalling shapes the transcriptome during aging. Nat Genet 2023 Feb;55(2):268-279. PMID: 36658433
  • Mazet JM, Mahale JN, Tong O, Watson RA et al. IFNγ signaling in cytotoxic T cells restricts anti-tumor responses by inhibiting the maintenance and diversity of intra-tumoral stem-like T cells. Nat Commun 2023 Jan 19;14(1):321. PMID: 36658158
  • Yao H, Gao CC, Zhang D, Xu J et al. scm(6)A-seq reveals single-cell landscapes of the dynamic m(6)A during oocyte maturation and early embryonic development. Nat Commun 2023 Jan 19;14(1):315. PMID: 36658155
  • Broséus J, Hergalant S, Vogt J, Tausch E et al. Molecular characterization of Richter syndrome identifies de novo diffuse large B-cell lymphomas with poor prognosis. Nat Commun 2023 Jan 19;14(1):309. PMID: 36658118
  • Jeyananthan PRole of different types of RNA molecules in the severity prediction of SARS-CoV-2 patients. Pathol Res Pract 2023 Feb;242:154311. PMID: 36657221
  • Watson S, LaVigne CA, Xu L, Surdez D et al. VGLL2-NCOA2 leverages developmental programs for pediatric sarcomagenesis. Cell Rep 2023 Jan 31;42(1):112013. PMID: 36656711
  • Liao X, Kennel PJ, Liu B, Nash TR et al. Effect of mechanical unloading on genome-wide DNA methylation profile of the failing human heart. JCI Insight 2023 Feb 22;8(4). PMID: 36656640
  • Gao X, Luo K, Wang D, Wei Y et al. T follicular helper 17 (Tfh17) cells are superior for immunological memory maintenance. Elife 2023 Jan 19;12. PMID: 36655976
  • Kuo TL, Cheng KH, Chen LT, Hung WC et al. ARID1A loss in pancreas leads to islet developmental defect and metabolic disturbance. iScience 2023 Jan 20;26(1):105881. PMID: 36654862
  • Jiang Y, Zhang R, Guo JQ, Qian LL et al. Identification of major hub genes involved in high-fat diet-induced obese visceral adipose tissue based on bioinformatics approach. Adipocyte 2023 Dec;12(1):2169227. PMID: 36654490
  • Zhu X, You S, Du X, Song K et al. LRRC superfamily expression in stromal cells predicts the clinical prognosis and platinum resistance of ovarian cancer. BMC Med Genomics 2023 Jan 18;16(1):10. PMID: 36653841
  • Tang F, Li FP, Huang XT, Wang GH et al. Anti-Vascular Endothelial Growth Factor Therapy Abolishes Glioma-Associated Endothelial Cell-Induced Tumor Invasion. J Mol Neurosci 2023 Mar;73(2-3):104-116. PMID: 36653624
  • Noyes C, Kitajima S, Li F, Suita Y et al. The germline factor DDX4 contributes to the chemoresistance of small cell lung cancer cells. Commun Biol 2023 Jan 18;6(1):65. PMID: 36653474
  • Gong X, Karchin R et al. Clustering by antigen-presenting genes reveals immune landscapes and predicts response to checkpoint immunotherapy. Sci Rep 2023 Jan 18;13(1):950. PMID: 36653470
  • Leesch F, Lorenzo-Orts L, Pribitzer C, Grishkovskaya I et al. A molecular network of conserved factors keeps ribosomes dormant in the egg. Nature 2023 Jan;613(7945):712-720. PMID: 36653451
  • Su Z, Su W, Li C, Ding P et al. Identification and immune features of cuproptosis-related molecular clusters in polycystic ovary syndrome. Sci Rep 2023 Jan 18;13(1):980. PMID: 36653385
  • An Y, Zhao X, Zhang Z, Xia Z et al. DNA methylation analysis explores the molecular basis of plasma cell-free DNA fragmentation. Nat Commun 2023 Jan 18;14(1):287. PMID: 36653380
  • Liu W, Liao X, Luo Z, Yang Y et al. Probabilistic embedding, clustering, and alignment for integrating spatial transcriptomics data with PRECAST. Nat Commun 2023 Jan 18;14(1):296. PMID: 36653349
  • Smirnov D, Eremenko E, Stein D, Kaluski S et al. SIRT6 is a key regulator of mitochondrial function in the brain. Cell Death Dis 2023 Jan 18;14(1):35. PMID: 36653345
  • Zhang J, Ouyang Z, Xia L, Wang Q et al. Dynamic chromatin landscape encodes programs for perinatal transition of cardiomyocytes. Cell Death Discov 2023 Jan 18;9(1):11. PMID: 36653336
  • Li Z, Zhong Z, Wu Z, Pausch P et al. Genome editing in plants using the compact editor CasΦ. Proc Natl Acad Sci U S A 2023 Jan 24;120(4):e2216822120. PMID: 36652483
  • Quan J, Zhao X, Xiao Y, Wu H et al. USP39 Regulates NF-κB-Mediated Inflammatory Responses through Deubiquitinating K48-Linked IκBα. J Immunol 2023 Mar 1;210(5):640-652. PMID: 36651806
  • Li W, Ayers C, Huang W, Schilling JS et al. A Laccase Gene Reporting System That Enables Genetic Manipulations in a Brown Rot Wood Decomposer Fungus Gloeophyllum trabeum. Microbiol Spectr 2023 Feb 14;11(1):e0424622. PMID: 36651769
  • Tsujino T, Takai T, Hinohara K, Gui F et al. CRISPR screens reveal genetic determinants of PARP inhibitor sensitivity and resistance in prostate cancer. Nat Commun 2023 Jan 17;14(1):252. PMID: 36650183
  • Gharbia FZ, Abouhashem AS, Moqidem YA, Elbaz AA et al. Adult skin fibroblast state change in murine wound healing. Sci Rep 2023 Jan 17;13(1):886. PMID: 36650180
  • Edginton-White B, Maytum A, Kellaway SG, Goode DK et al. A genome-wide relay of signalling-responsive enhancers drives hematopoietic specification. Nat Commun 2023 Jan 17;14(1):267. PMID: 36650172
  • Lin W, Chen L, Zhang H, Qiu X et al. Tumor-intrinsic YTHDF1 drives immune evasion and resistance to immune checkpoint inhibitors via promoting MHC-I degradation. Nat Commun 2023 Jan 17;14(1):265. PMID: 36650153
  • Taniguchi S, Matsui T, Kimura K, Funaki S et al. In vivo induction of activin A-producing alveolar macrophages supports the progression of lung cell carcinoma. Nat Commun 2023 Jan 17;14(1):143. PMID: 36650150
  • Tomás-Daza L, Rovirosa L, López-Martí P, Nieto-Aliseda A et al. Low input capture Hi-C (liCHi-C) identifies promoter-enhancer interactions at high-resolution. Nat Commun 2023 Jan 17;14(1):268. PMID: 36650138
  • Ye Z, Ai X, Yang K, Yang Z et al. Targeting Microglial Metabolic Rewiring Synergizes with Immune-Checkpoint Blockade Therapy for Glioblastoma. Cancer Discov 2023 Apr 3;13(4):974-1001. PMID: 36649564
  • D'Angelo A, Kilili H, Chapman R, Generali D et al. Immune-related pan-cancer gene expression signatures of patient survival revealed by NanoString-based analyses. PLoS One 2023;18(1):e0280364. PMID: 36649303
  • Zhang L, Li W, Hou Z, Wang Z et al. Theaflavin-3,3'-Digallate Ameliorates Collagen-Induced Arthritis Through Regulation of Autophagy and Macrophage Polarization. J Inflamm Res 2023;16:109-126. PMID: 36647388
  • Seol S, Kwon J, Kang HJ et al. Cell type characterization of spatiotemporal gene co-expression modules in Down syndrome brain. iScience 2023 Jan 20;26(1):105884. PMID: 36647384
  • Niu M, Cao W, Wang Y, Zhu Q et al. Droplet-based transcriptome profiling of individual synapses. Nat Biotechnol 2023 Jan 16 PMID: 36646931
  • Mendonsa S, von Kügelgen N, Dantsuji S, Ron M et al. Massively parallel identification of mRNA localization elements in primary cortical neurons. Nat Neurosci 2023 Mar;26(3):394-405. PMID: 36646877
  • Wu N, Ma YC, Gong XQ, Zhao PJ et al. The metabolite alpha-ketobutyrate extends lifespan by promoting peroxisomal function in C. elegans. Nat Commun 2023 Jan 16;14(1):240. PMID: 36646719
  • Ascensao JA, Wetmore KM, Good BH, Arkin AP et al. Quantifying the local adaptive landscape of a nascent bacterial community. Nat Commun 2023 Jan 16;14(1):248. PMID: 36646697
  • Klughammer J, Romanovskaia D, Nemc A, Posautz A et al. Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species. Nat Commun 2023 Jan 16;14(1):232. PMID: 36646694
  • Chen WJ, Dong KQ, Pan XW, Gan SS et al. Single-cell RNA-seq integrated with multi-omics reveals SERPINE2 as a target for metastasis in advanced renal cell carcinoma. Cell Death Dis 2023 Jan 16;14(1):30. PMID: 36646679
  • Kim SH, Oh J, Roh WS, Park J et al. Pellino-1 promotes intrinsic activation of skin-resident IL-17A-producing T cells in psoriasis. J Allergy Clin Immunol 2023 May;151(5):1317-1328. PMID: 36646143
  • Witonsky D, Bielski MC, Li J, Lawrence KM et al. Genomic and epigenomic responses to aspirin in human colonic organoids. Physiol Genomics 2023 Mar 1;55(3):101-112. PMID: 36645669
  • Rossi G, Ordazzo G, Vanni NN, Castoldi V et al. MCT1-dependent energetic failure and neuroinflammation underlie optic nerve degeneration in Wolfram syndrome mice. Elife 2023 Jan 16;12. PMID: 36645345
  • Forte E, Li M, Ayaloglu Butun F, Hu Q et al. Critical Role for the Human Cytomegalovirus Major Immediate Early Proteins in Recruitment of RNA Polymerase II and H3K27Ac To an Enhancer-Like Element in OriLyt. Microbiol Spectr 2023 Feb 14;11(1):e0314422. PMID: 36645269
  • Huang F, Ma Q, Ren J, Li J et al. Identification of Smoking-Associated Transcriptome Aberration in Blood with Machine Learning Methods. Biomed Res Int 2023;2023:5333361. PMID: 36644165
  • Zhang C, Wei G, Zhu X, Chen X et al. Exosome-Delivered circSTAU2 Inhibits the Progression of Gastric Cancer by Targeting the miR-589/CAPZA1 Axis. Int J Nanomedicine 2023;18:127-142. PMID: 36643863
  • Liu M, Guo C, Xie K, Chen K et al. A cross-species co-functional gene network underlying leaf senescence. Hortic Res 2023;10(1):uhac251. PMID: 36643763
  • Zhang X, Chen T, Qian X, He X et al. Bioinformatics Analysis of Immune Cell Infiltration and Diagnostic Biomarkers between Ankylosing Spondylitis and Inflammatory Bowel Disease. Comput Math Methods Med 2023;2023:9065561. PMID: 36643579
  • Liu T, Zhuang XX, Qin XJ, Wei LB et al. Identifying effective diagnostic biomarkers and immune infiltration features in chronic kidney disease by bioinformatics and validation. Front Pharmacol 2022;13:1069810. PMID: 36642989
  • Huang Y, Zhou Y, Zhang M et al. Identification of seven hypoxia-related genes signature and risk score models for predicting prognosis for ovarian cancer. Funct Integr Genomics 2023 Jan 16;23(1):39. PMID: 36642729
  • Stocker N, Radzikowska U, Wawrzyniak P, Tan G et al. Regulation of angiotensin-converting enzyme 2 isoforms by type 2 inflammation and viral infection in human airway epithelium. Mucosal Immunol 2023 Feb;16(1):5-16. PMID: 36642382
  • Dean JW, Helm EY, Fu Z, Xiong L et al. The aryl hydrocarbon receptor cell intrinsically promotes resident memory CD8(+) T cell differentiation and function. Cell Rep 2023 Jan 31;42(1):111963. PMID: 36640340
  • Krämer B, Nalin AP, Ma F, Eickhoff S et al. Single-cell RNA sequencing identifies a population of human liver-type ILC1s. Cell Rep 2023 Jan 31;42(1):111937. PMID: 36640314
  • Lindhorst D, Halfon MS et al. Reporter gene assays and chromatin-level assays define substantially non-overlapping sets of enhancer sequences. BMC Genomics 2023 Jan 13;24(1):17. PMID: 36639739
  • Kim H, Kim Y, Lee CY, Kim DG et al. Investigation of early molecular alterations in tauopathy with generative adversarial networks. Sci Rep 2023 Jan 13;13(1):732. PMID: 36639689
  • Zhao L, Yang Y, Chen J, Lin X et al. Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat. Genome Biol 2023 Jan 13;24(1):7. PMID: 36639687
  • Wang F, Yang Y, Du X, Zhu X et al. Claudin18.2 as a potential therapeutic target for primary ovarian mucinous carcinomas and metastatic ovarian mucinous carcinomas from upper gastrointestinal primary tumours. BMC Cancer 2023 Jan 13;23(1):44. PMID: 36639622
  • Wang L, Zhang X, Sheng J, Chen L et al. RBM4 regulates cellular senescence via miR1244/SERPINE1 axis. Cell Death Dis 2023 Jan 13;14(1):27. PMID: 36639375
  • Yi Y, Zeng Y, Sam TW, Hamashima K et al. Ribosomal proteins regulate 2-cell-stage transcriptome in mouse embryonic stem cells. Stem Cell Reports 2023 Feb 14;18(2):463-474. PMID: 36638791
  • Li H, Sun J, Dong Y, Huang Y et al. Remodeling of H3K9me3 during the pluripotent to totipotent-like state transition. Stem Cell Reports 2023 Feb 14;18(2):449-462. PMID: 36638787
  • Jia H, Liu J, Fang T, Zhou Z et al. The role of altered lipid composition and distribution in liver fibrosis revealed by multimodal nonlinear optical microscopy. Sci Adv 2023 Jan 13;9(2):eabq2937. PMID: 36638165
  • Wang YA, Neff R, Song WM, Zhou X et al. Multi-omics-based analysis of high grade serous ovarian cancer subtypes reveals distinct molecular processes linked to patient prognosis. FEBS Open Bio 2023 Apr;13(4):617-637. PMID: 36637997
  • Xiao Z, Feng X, Zhou Y, Li P et al. Exosomal miR-10527-5p Inhibits Migration, Invasion, Lymphangiogenesis and Lymphatic Metastasis by Affecting Wnt/β-Catenin Signaling via Rab10 in Esophageal Squamous Cell Carcinoma. Int J Nanomedicine 2023;18:95-114. PMID: 36636641
  • Thurfjell V, Micke P, Yu H, Krupar R et al. Comparison of ROS1-rearrangement detection methods in a cohort of surgically resected non-small cell lung carcinomas. Transl Lung Cancer Res 2022 Dec;11(12):2477-2494. PMID: 36636421
  • Zhong L, Tan W, Yang Q, Zou Z et al. PRRX1 promotes colorectal cancer stemness and chemoresistance via the JAK2/STAT3 axis by targeting IL-6. J Gastrointest Oncol 2022 Dec;13(6):2989-3008. PMID: 36636075
  • Xue W, Shi J et al. Identification of genes and cellular response factors related to immunotherapy response in mismatch repair-proficient colorectal cancer: a bioinformatics analysis. J Gastrointest Oncol 2022 Dec;13(6):3038-3055. PMID: 36636048
  • Feng D, Zhu W, Shi X, Wang Z et al. Immune-related gene index predicts metastasis for prostate cancer patients undergoing radical radiotherapy. Exp Hematol Oncol 2023 Jan 12;12(1):8. PMID: 36635777
  • Wang W, Zhang Y, Huang W, Yuan Y et al. Alamandine/MrgD axis prevents TGF-β1-mediated fibroblast activation via regulation of aerobic glycolysis and mitophagy. J Transl Med 2023 Jan 13;21(1):24. PMID: 36635651
  • Sparbier CE, Gillespie A, Gomez J, Kumari N et al. Targeting Menin disrupts the KMT2A/B and polycomb balance to paradoxically activate bivalent genes. Nat Cell Biol 2023 Feb;25(2):258-272. PMID: 36635503
  • Li S, Xiao J, Huang C, Sun J et al. Identification and validation of oxidative stress and immune-related hub genes in Alzheimer's disease through bioinformatics analysis. Sci Rep 2023 Jan 12;13(1):657. PMID: 36635346
  • Houthuijzen JM, de Bruijn R, van der Burg E, Drenth AP et al. CD26-negative and CD26-positive tissue-resident fibroblasts contribute to functionally distinct CAF subpopulations in breast cancer. Nat Commun 2023 Jan 12;14(1):183. PMID: 36635273
  • Wen L, Ren Q, Guo F, Du X et al. Tubular aryl hydratocarbon receptor upregulates EZH2 to promote cellular senescence in cisplatin-induced acute kidney injury. Cell Death Dis 2023 Jan 12;14(1):18. PMID: 36635272
  • Hong YG, Yang Z, Chen Y, Liu T et al. The RNA m6A Reader YTHDF1 Is Required for Acute Myeloid Leukemia Progression. Cancer Res 2023 Mar 15;83(6):845-860. PMID: 36634204
  • Jergović M, Watanabe M, Bhat R, Coplen CP et al. T-cell cellular stress and reticulocyte signatures, but not loss of naïve T lymphocytes, characterize severe COVID-19 in older adults. Geroscience 2023 Jun;45(3):1713-1728. PMID: 36633825
  • Wang J, Du M, Meng L, Yang Y et al. Integrative analysis implicates the significance of m6A in the liver fibrosis of biliary atresia by regulating THY1. Hepatol Commun 2023 Jan 1;7(1):e0004. PMID: 36633486
  • Huang XY, Zhang JT, Li F, Li TT et al. Exosomal proteomics identifies RAB13 as a potential regulator of metastasis for HCC. Hepatol Commun 2023 Jan 1;7(1):e0006. PMID: 36633475
  • Qin M, Chen G, Hou J, Wang L et al. Tumor-infiltrating lymphocyte: features and prognosis of lymphocytes infiltration on colorectal cancer. Bioengineered 2022 Jun;13(6):14872-14888. PMID: 36633318
  • Mo J, Ruan S, Yang B, Jin Y et al. A novel defined risk signature of endoplasmic reticulum stress-related genes for predicting the prognosis and immune infiltration status of ovarian cancer. J Zhejiang Univ Sci B 2023 Jan 15;24(1):64-77. PMID: 36632751
  • Zhao Q, Zhang L, He Q, Chang H et al. Targeting TRMT5 suppresses hepatocellular carcinoma progression via inhibiting the HIF-1α pathways. J Zhejiang Univ Sci B 2023 Jan 15;24(1):50-63. PMID: 36632750
  • Yan D, Cui D, Zhu Y, Chan CKW et al. M6PR- and EphB4-Rich Exosomes Secreted by Serglycin-Overexpressing Esophageal Cancer Cells Promote Cancer Progression. Int J Biol Sci 2023;19(2):625-640. PMID: 36632458
  • Huang S, Li B, Liu Z, Xu M et al. Three-dimensional mapping of hepatic lymphatic vessels and transcriptome profiling of lymphatic endothelial cells in healthy and diseased livers. Theranostics 2023;13(2):639-658. PMID: 36632228
  • Dovrolis N, Filidou E, Tarapatzi G, Kokkotis G et al. Co-expression of fibrotic genes in inflammatory bowel disease; A localized event? Front Immunol 2022;13:1058237. PMID: 36632136
  • Qu JH, Telljohann R, Byshkov R, Lakatta EG et al. Characterization of diverse populations of sinoatrial node cells and their proliferation potential at single nucleus resolution. Heliyon 2023 Jan;9(1):e12708. PMID: 36632093
  • Kurata K, James-Bott A, Tye MA, Yamamoto L et al. Prolyl-tRNA synthetase as a novel therapeutic target in multiple myeloma. Blood Cancer J 2023 Jan 12;13(1):12. PMID: 36631435
  • Ainciburu M, Ezponda T, Berastegui N, Alfonso-Pierola A et al. Uncovering perturbations in human hematopoiesis associated with healthy aging and myeloid malignancies at single-cell resolution. Elife 2023 Jan 11;12. PMID: 36629404
  • Sánchez BJ, Mubaid S, Busque S, de Los Santos YL et al. The formation of HuR/YB1 complex is required for the stabilization of target mRNA to promote myogenesis. Nucleic Acids Res 2023 Feb 22;51(3):1375-1392. PMID: 36629268
  • Cowell IG, Austin CA et al. DNA fragility at the KMT2A/MLL locus: insights from old and new technologies. Open Biol 2023 Jan;13(1):220232. PMID: 36629017
  • Chen K, Ye C, Gao Z, Hu J et al. Immune infiltration patterns and identification of new diagnostic biomarkers GDF10, NCKAP5, and RTKN2 in non-small cell lung cancer. Transl Oncol 2023 Mar;29:101618. PMID: 36628881
  • Liu S, Zhao Y, Lu S, Zhang T et al. Single-cell transcriptomics reveals a mechanosensitive injury signaling pathway in early diabetic nephropathy. Genome Med 2023 Jan 10;15(1):2. PMID: 36627643
  • Ren R, Horton JR, Chen Q, Yang J et al. Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia. J Biol Chem 2023 Feb;299(2):102885. PMID: 36626981
  • Ahangari F, Price NL, Malik S, Chioccioli M et al. microRNA-33 deficiency in macrophages enhances autophagy, improves mitochondrial homeostasis, and protects against lung fibrosis. JCI Insight 2023 Feb 22;8(4). PMID: 36626225
  • Qin G, Park ES, Chen X, Han S et al. Distinct niche structures and intrinsic programs of fallopian tube and ovarian surface epithelial cells. iScience 2023 Jan 20;26(1):105861. PMID: 36624845
  • Rashidieh B, Bain AL, Tria SM, Sharma S et al. Alpha-B-Crystallin overexpression is sufficient to promote tumorigenesis and metastasis in mice. Exp Hematol Oncol 2023 Jan 9;12(1):4. PMID: 36624493
  • Ahn S, Grimes T, Datta S et al. A pseudo-value regression approach for differential network analysis of co-expression data. BMC Bioinformatics 2023 Jan 9;24(1):8. PMID: 36624383
  • Ragusa D, Dijkhuis L, Pina C, Tosi S et al. Mechanisms associated with t(7;12) acute myeloid leukaemia: from genetics to potential treatment targets. Biosci Rep 2023 Jan 31;43(1). PMID: 36622782
  • Hu W, Li M, Wang Y, Zhong C et al. Comprehensive bioinformatics analysis reveals the significance of forkhead box family members in pancreatic adenocarcinoma. Aging (Albany NY) 2023 Jan 4;15(1):92-107. PMID: 36622275
  • Han Y, Micklem G, Kim SY et al. Transcriptional landscape of oncogene-induced senescence: a machine learning-based meta-analytic approach. Ageing Res Rev 2023 Mar;85:101849. PMID: 36621646
  • Pei Y, Liu C, Feng M, Li L et al. The clinical application of (68)Ga-PSMA PET/CT and regulating mechanism of PSMA expression in patients with brain metastases of lung cancer. Transl Oncol 2023 Feb;28:101616. PMID: 36621073
  • Maskalenka K, Alagöz G, Krueger F, Wright J et al. NANOGP1, a tandem duplicate of NANOG, exhibits partial functional conservation in human naïve pluripotent stem cells. Development 2023 Jan 15;150(2). PMID: 36621005
  • Yan Z, Zong Y, Zhang C, Han Z et al. Exploring the role of Tibetan medicinal formula Qishiwei Zhenzhu Pills (Ranasampel) against diabetes mellitus-linked cognitive impairment of db/db mice through serum pharmacochemistry and microarray data analysis. Front Aging Neurosci 2022;14:1033128. PMID: 36620773
  • Liu Y, Lin W, Yang Y, Shao J et al. Role of cuproptosis-related gene in lung adenocarcinoma. Front Oncol 2022;12:1080985. PMID: 36620594
  • Huang P, Xia L, Guo Q, Huang C et al. Genome-wide association studies identify miRNA-194 as a prognostic biomarker for gastrointestinal cancer by targeting ATP6V1F, PPP1R14B, BTF3L4 and SLC7A5. Front Oncol 2022;12:1025594. PMID: 36620589
  • Liu B, He J, Zhong L, Huang L et al. Single-cell transcriptome reveals diversity of Müller cells with different metabolic-mitochondrial signatures in normal and degenerated macula. Front Neurosci 2022;16:1079498. PMID: 36620436
  • Zhao Q, Zhu Y, Ren Y, Yin S et al. Neurogenesis potential of oligodendrocyte precursor cells from oligospheres and injured spinal cord. Front Cell Neurosci 2022;16:1049562. PMID: 36619671
  • Hossain MA, Al Ashik SA, Mahin MR, Al Amin M et al. Systems biology and in silico-based analysis of PCOS revealed the risk of metabolic disorders. Heliyon 2022 Dec;8(12):e12480. PMID: 36619413
  • Ren J, Zhou X, Guo W, Feng K et al. Identification of Methylation Signatures and Rules for Sarcoma Subtypes by Machine Learning Methods. Biomed Res Int 2022;2022:5297235. PMID: 36619306
  • Han Q, Hung YH, Zhang C, Bartels A et al. Loss of linker histone H1 in the maternal genome influences DEMETER-mediated demethylation and affects the endosperm DNA methylation landscape. Front Plant Sci 2022;13:1070397. PMID: 36618671
  • Parakkunnel R, Naik K B, Vanishree G, C S et al. Gene fusions, micro-exons and splice variants define stress signaling by AP2/ERF and WRKY transcription factors in the sesame pan-genome. Front Plant Sci 2022;13:1076229. PMID: 36618639
  • Niu X, Chen L, Kato A, Ito H et al. Regulatory mechanism of a heat-activated retrotransposon by DDR complex in Arabidopsis thaliana. Front Plant Sci 2022;13:1048957. PMID: 36618621
  • Liu Q, Liu Z, Gu H, Ge Y et al. Comparative study of differentiating human pluripotent stem cells into vascular smooth muscle cells in hydrogel-based culture methods. Regen Ther 2023 Mar;22:39-49. PMID: 36618488
  • Chen YT, Chang YH, Pathak N, Tzou SC et al. Methotrexate inhibition of SARS-CoV-2 entry, infection and inflammation revealed by bioinformatics approach and a hamster model. Front Immunol 2022;13:1080897. PMID: 36618412
  • Luo L, Zhang XY, Zhen YW, Guo GC et al. Polo-like kinase 1 is related with malignant characteristics and inhibits macrophages infiltration in glioma. Front Immunol 2022;13:1058036. PMID: 36618405
  • Liang S, Xing M, Chen X, Peng J et al. Predicting the prognosis in patients with sepsis by a pyroptosis-related gene signature. Front Immunol 2022;13:1110602. PMID: 36618365
  • Wang L, Wang D, Yang L, Zeng X et al. Cuproptosis related genes associated with Jab1 shapes tumor microenvironment and pharmacological profile in nasopharyngeal carcinoma. Front Immunol 2022;13:989286. PMID: 36618352
  • Wei D, Qi J, Wang Y, Li L et al. NR4A2 may be a potential diagnostic biomarker for myocardial infarction: A comprehensive bioinformatics analysis and experimental validation. Front Immunol 2022;13:1061800. PMID: 36618351
  • Lu GA, Zhang J, Zhao Y, Chen Q et al. Canalization of Phenotypes-When the Transcriptome is Constantly but Weakly Perturbed. Mol Biol Evol 2023 Jan 4;40(1). PMID: 36617265
  • Sghaier N, Essemine J, Ayed RB, Gorai M et al. An Evidence Theory and Fuzzy Logic Combined Approach for the Prediction of Potential ARF-Regulated Genes in Quinoa. Plants (Basel) 2022 Dec 23;12(1). PMID: 36616201
  • Chung J, Vig V, Sun X, Han X et al. Genome-Wide Pleiotropy Study Identifies Association of PDGFB with Age-Related Macular Degeneration and COVID-19 Infection Outcomes. J Clin Med 2022 Dec 23;12(1). PMID: 36614910
  • Zhu XL, Du H, Wang LL, Hu EL et al. Integrative Proteome Analysis Revels 3-Hydroxybutyrate Exerts Neuroprotective Effect by Influencing Chromatin Bivalency. Int J Mol Sci 2023 Jan 3;24(1). PMID: 36614311
  • Du F, Hawez A, Ding Z, Wang Y et al. E3 Ubiquitin Ligase Midline 1 Regulates Endothelial Cell ICAM-1 Expression and Neutrophil Adhesion in Abdominal Sepsis. Int J Mol Sci 2022 Dec 31;24(1). PMID: 36614145
  • Kim YK, Jung YS, Song J et al. Transcriptome Profile in the Mouse Brain of Hepatic Encephalopathy and Alzheimer's Disease. Int J Mol Sci 2022 Dec 30;24(1). PMID: 36614117
  • Pan Z, Zhang M, Zhang F, Pan H et al. Single-Cell Transcriptomics Unveils the Dedifferentiation Mechanism of Lung Adenocarcinoma Stem Cells. Int J Mol Sci 2022 Dec 28;24(1). PMID: 36613925
  • Bae MK, Shin E, Lee SJ et al. Complementary Roles of Two DNA Protection Proteins from Deinococcus geothermalis. Int J Mol Sci 2022 Dec 27;24(1). PMID: 36613913
  • Turchi R, Tortolici F, Benvenuto M, Punziano C et al. Low Sulfur Amino Acid, High Polyunsaturated Fatty Acid Diet Inhibits Breast Cancer Growth. Int J Mol Sci 2022 Dec 23;24(1). PMID: 36613691
  • Orzechowska MJ, Anusewicz D, Bednarek AK et al. Age- and Stage-Dependent Prostate Cancer Aggressiveness Associated with Differential Notch Signaling. Int J Mol Sci 2022 Dec 22;24(1). PMID: 36613607
  • Zhang ER, Ghezelbash S, Xie P, Fotovati M et al. Comparison of the Basal Cell Carcinoma (BCC) Tumour Microenvironment to Other Solid Malignancies. Cancers (Basel) 2023 Jan 2;15(1). PMID: 36612301
  • Yang J, Davidoff AM et al. Remarkable Synergy When Combining EZH2 Inhibitors with YM155 Is H3K27me3-Independent. Cancers (Basel) 2022 Dec 29;15(1). PMID: 36612203
  • Jung J, Park S, Jang Y, Lee SH et al. Clinical Significance of Glycolytic Metabolic Activity in Hepatocellular Carcinoma. Cancers (Basel) 2022 Dec 28;15(1). PMID: 36612182
  • Xie W, Cheng J, Hong Z, Cai W et al. Multi-Transcriptomic Analysis Reveals the Heterogeneity and Tumor-Promoting Role of SPP1/CD44-Mediated Intratumoral Crosstalk in Gastric Cancer. Cancers (Basel) 2022 Dec 27;15(1). PMID: 36612160
  • Abdul Razzaq EA, Bajbouj K, Bouzid A, Alkhayyal N et al. Transcriptomic Changes Associated with ERBB2 Overexpression in Colorectal Cancer Implicate a Potential Role of the Wnt Signaling Pathway in Tumorigenesis. Cancers (Basel) 2022 Dec 26;15(1). PMID: 36612126
  • Zhang X, Xie J, He D, Yan X et al. Cell Pair Algorithm-Based Immune Infiltrating Cell Signature for Improving Outcomes and Treatment Responses in Patients with Hepatocellular Carcinoma. Cells 2023 Jan 3;12(1). PMID: 36611994
  • Lei Y, Guo J, He S, Yan H et al. Essential Role of Multi-Omics Approaches in the Study of Retinal Vascular Diseases. Cells 2022 Dec 26;12(1). PMID: 36611897
  • Lu C, Ren S, Xie W, Zhao Z et al. Characterizing Relevant MicroRNA Editing Sites in Parkinson's Disease. Cells 2022 Dec 24;12(1). PMID: 36611869
  • Jeon S, Jin H, Kim JM, Hur Y et al. The miR-15b-Smurf2-HSP27 axis promotes pulmonary fibrosis. J Biomed Sci 2023 Jan 7;30(1):2. PMID: 36611161
  • Gálvez-Merchán Á, Min KHJ, Pachter L, Booeshaghi AS et al. Metadata retrieval from sequence databases with ffq. Bioinformatics 2023 Jan 1;39(1). PMID: 36610997
  • Huang Z, Efthymiadou A, Liang N, Fan R et al. Antagonistic action of GPS2 and KDM1A at enhancers governs alternative macrophage activation by interleukin 4. Nucleic Acids Res 2023 Feb 22;51(3):1067-1086. PMID: 36610795
  • Morita T, Hayashi K et al. Actin-related protein 5 suppresses the cooperative activation of cardiac gene transcription by myocardin and MEF2. FEBS Open Bio 2023 Feb;13(2):363-379. PMID: 36610028
  • Zuch DT, Herrmann A, Kim ED, Torii KU et al. Cell Cycle Dynamics during Stomatal Development: Window of MUTE Action and Ramification of Its Loss-of-Function on an Uncommitted Precursor. Plant Cell Physiol 2023 Mar 15;64(3):325-335. PMID: 36609867
  • Wang S, Xie X, Che X, Lai W et al. Host- and virus-induced gene silencing of HOG1-MAPK cascade genes in Rhizophagus irregularis inhibit arbuscule development and reduce resistance of plants to drought stress. Plant Biotechnol J 2023 Apr;21(4):866-883. PMID: 36609693
  • Rebelo AR, Homem CCF et al. dMyc-dependent upregulation of CD98 amino acid transporters is required for Drosophila brain tumor growth. Cell Mol Life Sci 2023 Jan 6;80(1):30. PMID: 36609617
  • Inkster AM, Wong MT, Matthews AM, Brown CJ et al. Who's afraid of the X? Incorporating the X and Y chromosomes into the analysis of DNA methylation array data. Epigenetics Chromatin 2023 Jan 7;16(1):1. PMID: 36609459
  • Wang W, Huang Q, Liao Z, Zhang H et al. ALKBH5 prevents hepatocellular carcinoma progression by post-transcriptional inhibition of PAQR4 in an m6A dependent manner. Exp Hematol Oncol 2023 Jan 6;12(1):1. PMID: 36609413
  • Eshima J, O'Connor SA, Marschall E, NYGC ALS Consortium et al. Molecular subtypes of ALS are associated with differences in patient prognosis. Nat Commun 2023 Jan 6;14(1):95. PMID: 36609402
  • Pérez-Núñez R, Chamorro A, González MF, Contreras P et al. Protein kinase B (AKT) upregulation and Thy-1-α(v)β(3) integrin-induced phosphorylation of Connexin43 by activated AKT in astrogliosis. J Neuroinflammation 2023 Jan 6;20(1):5. PMID: 36609298
  • Liu X, Hasan MR, Ahmed KA, Hossain MZ et al. Machine learning to analyse omic-data for COVID-19 diagnosis and prognosis. BMC Bioinformatics 2023 Jan 6;24(1):7. PMID: 36609221
  • Altman MC, Kattan M, O'Connor GT, Murphy RC et al. Associations between outdoor air pollutants and non-viral asthma exacerbations and airway inflammatory responses in children and adolescents living in urban areas in the USA: a retrospective secondary analysis. Lancet Planet Health 2023 Jan;7(1):e33-e44. PMID: 36608946
  • Pan W, Wang S, Liu X, Wang M et al. KNTC1, regulated by HPV E7, inhibits cervical carcinogenesis partially through Smad2. Exp Cell Res 2023 Feb 1;423(1):113458. PMID: 36608837
  • Wang YQ, Wu DH, Wei D, Shen JY et al. TEAD4 is a master regulator of high-risk nasopharyngeal carcinoma. Sci Adv 2023 Jan 6;9(1):eadd0960. PMID: 36608137
  • Fu Z, Chen S, Zhu Y, Zhang D et al. Proteolytic regulation of CD73 by TRIM21 orchestrates tumor immunogenicity. Sci Adv 2023 Jan 6;9(1):eadd6626. PMID: 36608132
  • Wang R, Bhatt AB, Minden-Birkenmaier BA, Travis OK et al. ZBTB18 restricts chromatin accessibility and prevents transcriptional adaptations that drive metastasis. Sci Adv 2023 Jan 6;9(1):eabq3951. PMID: 36608120
  • Hossain MA, Sohel M, Rahman MH, Hasan MI et al. Bioinformatics and In silico approaches to identify novel biomarkers and key pathways for cancers that are linked to the progression of female infertility: A comprehensive approach for drug discovery. PLoS One 2023;18(1):e0265746. PMID: 36608061
  • Liu Q, Li H, He W, Zhao Q et al. Role of aerobic exercise in ameliorating NASH: Insights into the hepatic thyroid hormone signaling and circulating thyroid hormones. Front Endocrinol (Lausanne) 2022;13:1075986. PMID: 36605939
  • Yang X, Zhou Y, Ge H, Tian Z et al. Identification of a transcription factor‑cyclin family genes network in lung adenocarcinoma through bioinformatics analysis and validation through RT‑qPCR. Exp Ther Med 2023 Jan;25(1):63. PMID: 36605530
  • Wang L, Jiang P, Li J, Huang Y et al. Loss of MiR-155 Sensitizes FLT3-ITD(+)AML to Chemotherapy and FLT3 Inhibitors via Glycolysis Blocking by Targeting PIK3R1. J Cancer 2023;14(1):99-113. PMID: 36605494
  • Qin J, Sharma A, Wang Y, Tobar-Tosse F et al. Systematic discrimination of the repetitive genome in proximity of ferroptosis genes and a novel prognostic signature correlating with the oncogenic lncRNA CRNDE in multiple myeloma. Front Oncol 2022;12:1026153. PMID: 36605450
  • Yang J, Han L, Sha Y, Jin Y et al. A novel ganglioside-related risk signature can reveal the distinct immune landscape of neuroblastoma and predict the immunotherapeutic response. Front Immunol 2022;13:1061814. PMID: 36605200
  • Yang H, Gou X, Feng C, Zhang Y et al. Computed tomography-detected extramural venous invasion-related gene signature: a potential negative biomarker of immune checkpoint inhibitor treatment in patients with gastric cancer. J Transl Med 2023 Jan 5;21(1):4. PMID: 36604653
  • Fernandes P, Sharma Y, Zulqarnain F, McGrew B et al. Identifying metabolic shifts in Crohn's disease using' omics-driven contextualized computational metabolic network models. Sci Rep 2023 Jan 5;13(1):203. PMID: 36604447
  • Sastourné-Arrey Q, Mathieu M, Contreras X, Monferran S et al. Adipose tissue is a source of regenerative cells that augment the repair of skeletal muscle after injury. Nat Commun 2023 Jan 5;14(1):80. PMID: 36604419
  • Lao L, Zeng W, Huang P, Chen H et al. CD8+ T cell-Dependent Remodeling of the Tumor Microenvironment Overcomes Chemoresistance. Cancer Immunol Res 2023 Mar 1;11(3):320-338. PMID: 36603133
  • Kelliher CM, Stevenson EL, Loros JJ, Dunlap JC et al. Nutritional compensation of the circadian clock is a conserved process influenced by gene expression regulation and mRNA stability. PLoS Biol 2023 Jan;21(1):e3001961. PMID: 36603054
  • Oza VH, Whitlock JH, Wilk EJ, Uno-Antonison A et al. Ten simple rules for using public biological data for your research. PLoS Comput Biol 2023 Jan;19(1):e1010749. PMID: 36602970
  • Kumar S, Budhathoki S, Oliveira CB, Kahle AD et al. Role of the caspase-8/RIPK3 axis in Alzheimer's disease pathogenesis and Aβ-induced NLRP3 inflammasome activation. JCI Insight 2023 Feb 8;8(3). PMID: 36602874
  • Grandi N, Erbì MC, Scognamiglio S, Tramontano E et al. Human Endogenous Retrovirus (HERV) Transcriptome Is Dynamically Modulated during SARS-CoV-2 Infection and Allows Discrimination of COVID-19 Clinical Stages. Microbiol Spectr 2023 Feb 14;11(1):e0251622. PMID: 36602345
  • Cao X, Wen Y, Li Y, Ma X et al. PfSET2 Is Involved in Genome Organization of Var Gene Family in Plasmodium falciparum. Microbiol Spectr 2023 Feb 14;11(1):e0389122. PMID: 36602337
  • Wang N, He J, Feng X, Liao S et al. Single-cell profiling of lncRNAs in human germ cells and molecular analysis reveals transcriptional regulation of LNC1845 on LHX8. Elife 2023 Jan 5;12. PMID: 36602025
  • De Riso G, Sarnataro A, Scala G, Cuomo M et al. MC profiling: a novel approach to analyze DNA methylation heterogeneity in genome-wide bisulfite sequencing data. NAR Genom Bioinform 2022 Dec;4(4):lqac096. PMID: 36601577
  • Hermawan A, Putri H, Hanif N, Fatimah N et al. Identification of potential target genes of honokiol in overcoming breast cancer resistance to tamoxifen. Front Oncol 2022;12:1019025. PMID: 36601474
  • Cai J, Ye Z, Hu Y, Yang J et al. Identification of immunogenic cell death-related gene classification patterns and immune infiltration characterization in ischemic stroke based on machine learning. Front Cell Neurosci 2022;16:1094500. PMID: 36601430
  • Gao W, Chen D, Liu J, Zang L et al. Interplay of four types of RNA modification writers revealed distinct tumor microenvironment and biological characteristics in pancreatic cancer. Front Immunol 2022;13:1031184. PMID: 36601127
  • Li G, Peng L, Wu M, Zhao Y et al. Appropriate level of cuproptosis may be involved in alleviating pulmonary fibrosis. Front Immunol 2022;13:1039510. PMID: 36601107
  • Liu M, Xiao Q, Yu X, Zhao Y et al. Characterization of lung adenocarcinoma based on immunophenotyping and constructing an immune scoring model to predict prognosis. Front Pharmacol 2022;13:1081244. PMID: 36601052
  • Salem K, Reese RM, Alarid ET, Fowler AM et al. Progesterone Receptor-Mediated Regulation of Cellular Glucose and (18)F-Fluorodeoxyglucose Uptake in Breast Cancer. J Endocr Soc 2022 Dec 15;7(2):bvac186. PMID: 36601022
  • Kang L, Zhao Q, Jiang K, Yu X et al. Uncovering potential diagnostic biomarkers of acute myocardial infarction based on machine learning and analyzing its relationship with immune cells. BMC Cardiovasc Disord 2023 Jan 4;23(1):2. PMID: 36600215
  • Guo W, Jin P, Li R, Huang L et al. Dynamic network biomarker identifies cdkn1a-mediated bone mineralization in the triggering phase of osteoporosis. Exp Mol Med 2023 Jan;55(1):81-94. PMID: 36599933
  • Kim HS, Na MJ, Son KH, Yang HD et al. ADAR1-dependent miR-3144-3p editing simultaneously induces MSI2 expression and suppresses SLC38A4 expression in liver cancer. Exp Mol Med 2023 Jan;55(1):95-107. PMID: 36599932
  • Qin Q, Ramesh S, Gomez-Salazar M, Zhong L et al. CNTNAP4 signaling regulates osteosarcoma disease progression. NPJ Precis Oncol 2023 Jan 4;7(1):2. PMID: 36599925
  • Sparks R, Lau WW, Liu C, Han KL et al. Influenza vaccination reveals sex dimorphic imprints of prior mild COVID-19. Nature 2023 Feb;614(7949):752-761. PMID: 36599369
  • Clark IC, Wheeler MA, Lee HG, Li Z et al. Identification of astrocyte regulators by nucleic acid cytometry. Nature 2023 Feb;614(7947):326-333. PMID: 36599367
  • Gerace D, Zhou Q, Kenty JH, Veres A et al. Engineering human stem cell-derived islets to evade immune rejection and promote localized immune tolerance. Cell Rep Med 2023 Jan 17;4(1):100879. PMID: 36599351
  • Wang G, Sweren E, Andrews W, Li Y et al. Commensal microbiome promotes hair follicle regeneration by inducing keratinocyte HIF-1α signaling and glutamine metabolism. Sci Adv 2023 Jan 4;9(1):eabo7555. PMID: 36598999
  • Chen Z, Bordieanu B, Kesavan R, Lesner NP et al. Lactate metabolism is essential in early-onset mitochondrial myopathy. Sci Adv 2023 Jan 4;9(1):eadd3216. PMID: 36598990
  • Gonen N, Eozenou C, Mitter R, Elzaiat M et al. In vitro cellular reprogramming to model gonad development and its disorders. Sci Adv 2023 Jan 4;9(1):eabn9793. PMID: 36598988
  • Kijima Y, Evans-Yamamoto D, Toyoshima H, Yachie N et al. A universal sequencing read interpreter. Sci Adv 2023 Jan 4;9(1):eadd2793. PMID: 36598975
  • Xu M, Sun M, Zhang X, Nguyen R et al. HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype. Cancer Res 2023 Mar 2;83(5):686-699. PMID: 36598365
  • Miguel-Rojas C, Cavinder B, Townsend JP, Trail F et al. Comparative Transcriptomics of Fusarium graminearum and Magnaporthe oryzae Spore Germination Leading up To Infection. mBio 2023 Feb 28;14(1):e0244222. PMID: 36598191
  • Prado CAS, Fonseca DLM, Singh Y, Filgueiras IS et al. Integrative systems immunology uncovers molecular networks of the cell cycle that stratify COVID-19 severity. J Med Virol 2023 Feb;95(2):e28450. PMID: 36597912
  • Yang B, Fan Y, Liang R, Wu Y et al. Identification of a prognostic six-immune-gene signature and a nomogram model for uveal melanoma. BMC Ophthalmol 2023 Jan 3;23(1):2. PMID: 36597071
  • Jeong JH, Park SH, Kim H, Nam HY et al. ZBTB7A suppresses glioblastoma tumorigenesis through the transcriptional repression of EPB41L5. Exp Mol Med 2023 Jan;55(1):43-54. PMID: 36596853
  • Villatoro A, Cuminetti V, Bernal A, Torroja C et al. Endogenous IL-1 receptor antagonist restricts healthy and malignant myeloproliferation. Nat Commun 2023 Jan 3;14(1):12. PMID: 36596811
  • Han L, Wu Y, Fang K, Sweeney S et al. The splanchnic mesenchyme is the tissue of origin for pancreatic fibroblasts during homeostasis and tumorigenesis. Nat Commun 2023 Jan 3;14(1):1. PMID: 36596776
  • Mahlke MA, Lumerman L, Ly P, Nechemia-Arbely Y et al. Epigenetic centromere identity is precisely maintained through DNA replication but is uniquely specified among human cells. Life Sci Alliance 2023 Mar;6(3). PMID: 36596606
  • Feng F, Zhong YX, Huang JH, Lin FX et al. Identifying stage-associated hub genes in bladder cancer via weighted gene co-expression network and robust rank aggregation analyses. Medicine (Baltimore) 2022 Dec 23;101(51):e32318. PMID: 36595851
  • Ma J, Zhang H, Chu W, Wang P et al. Construction of molecular subgroups in childhood systemic lupus erythematosus using bioinformatics. Medicine (Baltimore) 2022 Dec 23;101(51):e32274. PMID: 36595784
  • Gu SC, Yuan CX, Gu C et al. Identification of ferroptosis-related gene signatures associated with multiple sclerosis using weighted gene co-expression network analysis. Medicine (Baltimore) 2022 Dec 23;101(51):e31802. PMID: 36595760
  • Patel SA, Nilsson MB, Yang Y, Le X et al. IL6 Mediates Suppression of T- and NK-cell Function in EMT-associated TKI-resistant EGFR-mutant NSCLC. Clin Cancer Res 2023 Apr 3;29(7):1292-1304. PMID: 36595561
  • MacDonald JA, Sheehan HC, Piasecki A, Faustino LR et al. Characterization of Oogonial Stem Cells in Adult Mouse Ovaries with Age and Comparison to In Silico Data on Human Ovarian Aging. Stem Cells Dev 2023 Mar;32(5-6):99-114. PMID: 36594561
  • Kronenberg M, Carey MF et al. Temporal regulation of head-on transcription at replication initiation sites. iScience 2023 Jan 20;26(1):105791. PMID: 36594032
  • Ren L, Du W, Song D, Lu H et al. Genetic ablation of diabetes-associated gene Ccdc92 reduces obesity and insulin resistance in mice. iScience 2023 Jan 20;26(1):105769. PMID: 36594018
  • Takamatsu S, Yoshihara K, Baba T, Shimada M et al. Prognostic relevance of HRDness gene expression signature in ovarian high-grade serous carcinoma; JGOG3025-TR2 study. Br J Cancer 2023 Apr;128(6):1095-1104. PMID: 36593360
  • van Wouw SAE, van den Berg M, El Ouraoui M, Meurs A et al. Sterol-regulated transmembrane protein TMEM86a couples LXR signaling to regulation of lysoplasmalogens in macrophages. J Lipid Res 2023 Feb;64(2):100325. PMID: 36592658
  • Chen X, Mao D, Li D, Li W et al. Identification and validation of a PD-L1-related signature from mass spectrometry in gastric cancer. J Cancer Res Clin Oncol 2023 Aug;149(9):5871-5884. PMID: 36592213
  • Buratin A, Bortoluzzi S, Gaffo E et al. Systematic benchmarking of statistical methods to assess differential expression of circular RNAs. Brief Bioinform 2023 Jan 19;24(1). PMID: 36592056
  • Chen Z, Qin C, Wang G, Shang D et al. A tumor microenvironment preoperative nomogram for prediction of lymph node metastasis in bladder cancer. Front Oncol 2022;12:1099965. PMID: 36591526
  • Xu L, Xiao T, Xu L, Yao W et al. Identification of therapeutic targets and prognostic biomarkers in cholangiocarcinoma via WGCNA. Front Oncol 2022;12:977992. PMID: 36591499
  • Zeng Z, Yu J, Yang Z, Du K et al. Investigation of M2 macrophage-related gene affecting patients prognosis and drug sensitivity in non-small cell lung cancer: Evidence from bioinformatic and experiments. Front Oncol 2022;12:1096449. PMID: 36591493
  • Yuan B, Qin H, Zhang J, Zhang M et al. m(6)A regulators featured by tumor immune microenvironment landscapes and correlated with immunotherapy in non-small cell lung cancer (NSCLC). Front Oncol 2022;12:1087753. PMID: 36591468
  • Hosen SMZ, Uddin MN, Xu Z, Buckley BJ et al. Metastatic phenotype and immunosuppressive tumour microenvironment in pancreatic ductal adenocarcinoma: Key role of the urokinase plasminogen activator (PLAU). Front Immunol 2022;13:1060957. PMID: 36591282
  • Park JH, Kang I, Lee HK et al. The immune landscape of high-grade brain tumor after treatment with immune checkpoint blockade. Front Immunol 2022;13:1044544. PMID: 36591276
  • Liang Z, Sun R, Tu P, Liang Y et al. Immune-related gene-based prognostic index for predicting survival and immunotherapy outcomes in colorectal carcinoma. Front Immunol 2022;13:944286. PMID: 36591255
  • He Y, Zhou H, Huang X, Qu Y et al. Infiltration of LPAR5(+) macrophages in osteosarcoma tumor microenvironment predicts better outcomes. Front Immunol 2022;13:909932. PMID: 36591220
  • Hua J, Ding T, Shao Y et al. A transient receptor potential channel-related model based on machine learning for evaluating tumor microenvironment and immunotherapeutic strategies in acute myeloid leukemia. Front Immunol 2022;13:1040661. PMID: 36591215
  • Hu W, Liu J, Hu Y, Xu Q et al. Transcriptome-wide association study reveals cholesterol metabolism gene Lpl is a key regulator of cognitive dysfunction. Front Mol Neurosci 2022;15:1044022. PMID: 36590920
  • Gupta R, Cerletti D, Gut G, Oxenius A et al. Simulation-based inference of differentiation trajectories from RNA velocity fields. Cell Rep Methods 2022 Dec 19;2(12):100359. PMID: 36590685
  • Bernstein MN, Ni Z, Prasad A, Brown J et al. SpatialCorr identifies gene sets with spatially varying correlation structure. Cell Rep Methods 2022 Dec 19;2(12):100369. PMID: 36590683
  • Liu Q, Li L, Xu D, Zhu J et al. Identification of novel immune-related targets mediating disease progression in acute pancreatitis. Front Cell Infect Microbiol 2022;12:1052466. PMID: 36590588
  • Zhang S, Lyons N, Koedam M, van de Peppel J et al. Identification of small molecules as novel anti-adipogenic compounds based on Connectivity Map. Front Endocrinol (Lausanne) 2022;13:1017832. PMID: 36589834
  • Dong N, Ma X, Shen J, Zheng Y et al. Identification and validation of critical genes with prognostic value in gastric cancer. Front Cell Dev Biol 2022;10:1072062. PMID: 36589754
  • Wan Y, He Y, Yang Q, Cheng Y et al. Construction of a prognostic assessment model for colon cancer patients based on immune-related genes and exploration of related immune characteristics. Front Cell Dev Biol 2022;10:993580. PMID: 36589748
  • Yu W, Chakravarthi VP, Borosha S, Dilower I et al. Transcriptional regulation of Satb1 in mouse trophoblast stem cells. Front Cell Dev Biol 2022;10:918235. PMID: 36589740
  • Mujalli A, Alghamdi KS, Nasser KK, Al-Rayes N et al. Bioinformatics insights into the genes and pathways on severe COVID-19 pathology in patients with comorbidities. Front Physiol 2022;13:1045469. PMID: 36589459
  • Lv X, Wang X, Liu J, Wang F et al. Potential biomarkers and immune cell infiltration involved in aortic valve calcification identified through integrated bioinformatics analysis. Front Physiol 2022;13:944551. PMID: 36589450
  • Zieger HK, Weinhold L, Schmidt A, Holtgrewe M et al. Prioritization of non-coding elements involved in non-syndromic cleft lip with/without cleft palate through genome-wide analysis of de novo mutations. HGG Adv 2023 Jan 12;4(1):100166. PMID: 36589413
  • Wei C, Zhu Y, Li S, Chen W et al. Identification of an immune-related gene prognostic index for predicting prognosis, immunotherapeutic efficacy, and candidate drugs in amyotrophic lateral sclerosis. Front Cell Neurosci 2022;16:993424. PMID: 36589282
  • Duan F, Wang W, Zhai W, Wang J et al. A novel diagnostic model for predicting immune microenvironment subclass based on costimulatory molecules in lung squamous carcinoma. Front Genet 2022;13:1078790. PMID: 36588791
  • Liu A, Li F, Wang B, Yang L et al. Prognostic and immunological significance of calcium-related gene signatures in renal clear cell carcinoma. Front Pharmacol 2022;13:1055841. PMID: 36588677
  • Ruan P, Gao L, Jiang H, Chu T et al. Identification of PTPN22 as a potential genetic biomarker for abdominal aortic aneurysm. Front Cardiovasc Med 2022;9:1061771. PMID: 36588574
  • Zhang H, Wang T, Gong H, Jiang R et al. A novel molecular classification method for osteosarcoma based on tumor cell differentiation trajectories. Bone Res 2023 Jan 2;11(1):1. PMID: 36588108
  • Townes FW, Engelhardt BE et al. Nonnegative spatial factorization applied to spatial genomics. Nat Methods 2023 Feb;20(2):229-238. PMID: 36587187
  • Sanosaka T, Okuno H, Mizota N, Andoh-Noda T et al. Chromatin remodeler CHD7 targets active enhancer region to regulate cell type-specific gene expression in human neural crest cells. Sci Rep 2022 Dec 31;12(1):22648. PMID: 36587182
  • Pan W, Huang X, Yu Z, Ding Q et al. Netrin-3 Suppresses Diabetic Neuropathic Pain by Gating the Intra-epidermal Sprouting of Sensory Axons. Neurosci Bull 2023 May;39(5):745-758. PMID: 36587114
  • Jin Y, Liu X, Liang X, Liu J et al. Resveratrol rescues cutaneous radiation-induced DNA damage via a novel AMPK/SIRT7/HMGB1 regulatory axis. Cell Death Dis 2023 Jan 1;13(10):847. PMID: 36587031
  • Yesharim L, Talebi S, Mojbafan M, Alemrajabi M et al. An evaluation of gastric adenocarcinoma-associated CircRNAs based on microarray meta-analysis and ceRNA networks. Transl Oncol 2023 Feb;28:101611. PMID: 36586189
  • Christensen E, Luo P, Turinsky A, Husić M et al. Evaluation of single-cell RNAseq labelling algorithms using cancer datasets. Brief Bioinform 2023 Jan 19;24(1). PMID: 36585784
  • Hu S, Shen C, Yao X, Zou Y et al. m6A regulator-mediated methylation modification patterns and immune microenvironment infiltration characterization in osteoarthritis. BMC Med Genomics 2022 Dec 30;15(1):273. PMID: 36585683
  • Garcia-Recio S, Hinoue T, Wheeler GL, Kelly BJ et al. Multiomics in primary and metastatic breast tumors from the AURORA US network finds microenvironment and epigenetic drivers of metastasis. Nat Cancer 2023 Jan;4(1):128-147. PMID: 36585450
  • Inkster AM, Konwar C, Peñaherrera MS, Brain U et al. Profiling placental DNA methylation associated with maternal SSRI treatment during pregnancy. Sci Rep 2022 Dec 30;12(1):22576. PMID: 36585414
  • Murmann AE, Patel M, Jeong SY, Bartom ET et al. The length of uninterrupted CAG repeats in stem regions of repeat disease associated hairpins determines the amount of short CAG oligonucleotides that are toxic to cells through RNA interference. Cell Death Dis 2022 Dec 30;13(12):1078. PMID: 36585400
  • Lagman D, Haines HJ, Abalo XM, Larhammar D et al. Ancient multiplicity in cyclic nucleotide-gated (CNG) cation channel repertoire was reduced in the ancestor of Olfactores before re-expansion by whole genome duplications in vertebrates. PLoS One 2022;17(12):e0279548. PMID: 36584110
  • Xue M, Mi S, Zhang Z, Wang H et al. MFAP2, upregulated by m1A methylation, promotes colorectal cancer invasiveness via CLK3. Cancer Med 2023 Apr;12(7):8403-8414. PMID: 36583532
  • Moutsopoulos I, Williams EC, Mohorianu II et al. bulkAnalyseR: an accessible, interactive pipeline for analysing and sharing bulk multi-modal sequencing data. Brief Bioinform 2023 Jan 19;24(1). PMID: 36583521
  • Li Y, Feng J, Wang T, Li M et al. Construction of an immunogenic cell death-based risk score prognosis model in breast cancer. Front Genet 2022;13:1069921. PMID: 36583019
  • Deng Y, Li H, Fu J, Pu Y et al. A hypoxia risk score for prognosis prediction and tumor microenvironment in adrenocortical carcinoma. Front Genet 2022;13:796681. PMID: 36583015
  • Hsieh CC, Yen BL, Chang CC, Hsu PJ et al. Wnt antagonism without TGFβ induces rapid MSC chondrogenesis via increasing AJ interactions and restricting lineage commitment. iScience 2023 Jan 20;26(1):105713. PMID: 36582823
  • Siddique R, Awan FM, Nabi G, Khan S et al. Chronic jet lag-like conditions dysregulate molecular profiles of neurological disorders in nucleus accumbens and prefrontal cortex. Front Neuroinform 2022;16:1031448. PMID: 36582489
  • Wang C, Li S, Shen Y, Li Y et al. Mechanisms of Panax Ginseng on Treating Sepsis by RNA-Seq Technology. Infect Drug Resist 2022;15:7667-7678. PMID: 36582454
  • Mredul MBR, Khan U, Rana HK, Meem TM et al. Bioinformatics and System Biology Techniques to Determine Biomolecular Signatures and Pathways of Prion Disorder. Bioinform Biol Insights 2022;16:11779322221145373. PMID: 36582393
  • Wang X, Jiang Y, Zhou P, Lin L et al. Effective natural inhibitors targeting granzyme B in rheumatoid arthritis by computational study. Front Med (Lausanne) 2022;9:1052792. PMID: 36582296
  • Wang G, Miao C, Mo L, Kahlert UD et al. MYCBP2 expression correlated with inflammatory cell infiltration and prognosis immunotherapy in thyroid cancer patients. Front Immunol 2022;13:1048503. PMID: 36582246
  • Song H, Arredondo Carrera HM, Sprules A, Ji Y et al. C-terminal variants of the P2X7 receptor are associated with prostate cancer progression and bone metastasis - evidence from clinical and pre-clinical data. Cancer Commun (Lond) 2023 Mar;43(3):400-404. PMID: 36582013
  • Park NJ, Choi Y, Lee D, Park JY et al. Transcriptomic Network Analysis Using Exfoliative Cervical Cells Could Discriminate a Potential Risk of Progression to Cancer in HPV-related Cervical Lesions: A Pilot Study. Cancer Genomics Proteomics 2023 Jan-Feb;20(1):75-87. PMID: 36581343
  • De Falco P, Lazzarino G, Felice F, Desideri E et al. Hindering NAT8L expression in hepatocellular carcinoma increases cytosolic aspartate delivery that fosters pentose phosphate pathway and purine biosynthesis promoting cell proliferation. Redox Biol 2023 Feb;59:102585. PMID: 36580805
  • Zhang M, Chong KK, Chen ZY, Guo H et al. Rapamycin improves Graves' orbitopathy by suppressing CD4+ cytotoxic T lymphocytes. JCI Insight 2023 Feb 8;8(3). PMID: 36580373
  • San Martin R, Das P, Sanders JT, Hill AM et al. Transcriptional profiling of Hutchinson-Gilford Progeria syndrome fibroblasts reveals deficits in mesenchymal stem cell commitment to differentiation related to early events in endochondral ossification. Elife 2022 Dec 29;11. PMID: 36579892
  • Lio CT, Grabert G, Louadi Z, Fenn A et al. Systematic analysis of alternative splicing in time course data using Spycone. Bioinformatics 2023 Jan 1;39(1). PMID: 36579860
  • Guo G, Wang Y, Kou W, Gan H et al. Identifying the molecular mechanisms of sepsis-associated acute kidney injury and predicting potential drugs. Front Genet 2022;13:1062293. PMID: 36579331
  • Wei S, Sun Q, Chen J, Li X et al. Bioinformatics analyses for the identification of tumor antigens and immune subtypes of gastric adenocarcinoma. Front Genet 2022;13:1068112. PMID: 36579327
  • Zhang W, Lyu P, Andreev D, Jia Y et al. Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma. Front Cell Dev Biol 2022;10:974851. PMID: 36578780
  • Fan G, Liu J, Wu Z, Li C et al. Development and validation of the prognostic model based on autophagy-associated genes in idiopathic pulmonary fibrosis. Front Immunol 2022;13:1049361. PMID: 36578501
  • Vladejić J, Yang F, Dvořák Tomaštíková E, Doležel J et al. Analysis of BRCT5 domain-containing proteins reveals a new component of DNA damage repair in Arabidopsis. Front Plant Sci 2022;13:1023358. PMID: 36578335
  • Zuo JF, Chen Y, Ge C, Liu JY et al. Identification of QTN-by-environment interactions and their candidate genes for soybean seed oil-related traits using 3VmrMLM. Front Plant Sci 2022;13:1096457. PMID: 36578334
  • Luo Q, Maity AK, Teschendorff AE et al. Distance covariance entropy reveals primed states and bifurcation dynamics in single-cell RNA-Seq data. iScience 2022 Dec 22;25(12):105709. PMID: 36578319
  • Ibañez-Solé O, Ascensión AM, Araúzo-Bravo MJ, Izeta A et al. Lack of evidence for increased transcriptional noise in aged tissues. Elife 2022 Dec 28;11. PMID: 36576247
  • Jung SC, Zhou T, Ko EA et al. Age-dependent expression of ion channel genes in rat. Korean J Physiol Pharmacol 2023 Jan 1;27(1):85-94. PMID: 36575936
  • Martins-Ferreira R, Leal B, Chaves J, Ciudad L et al. Circulating cell-free DNA methylation mirrors alterations in cerebral patterns in epilepsy. Clin Epigenetics 2022 Dec 28;14(1):188. PMID: 36575526
  • Yang Y, Qiu R, Zhao S, Shen L et al. SMYD3 associates with the NuRD (MTA1/2) complex to regulate transcription and promote proliferation and invasiveness in hepatocellular carcinoma cells. BMC Biol 2022 Dec 27;20(1):294. PMID: 36575438
  • Haddad Derafshi B, Danko T, Chanda S, Batista PJ et al. The autism risk factor CHD8 is a chromatin activator in human neurons and functionally dependent on the ERK-MAPK pathway effector ELK1. Sci Rep 2022 Dec 27;12(1):22425. PMID: 36575212
  • Golovina E, Fadason T, Jaros RK, Kumar H et al. De novo discovery of traits co-occurring with chronic obstructive pulmonary disease. Life Sci Alliance 2023 Mar;6(3). PMID: 36574990
  • Wang S, Chen Z, Lv H, Wang C et al. LIPG is a novel prognostic biomarker and correlated with immune infiltrates in lung adenocarcinoma. J Clin Lab Anal 2023 Jan;37(1):e24824. PMID: 36572999
  • Rastogi N, Gonzalez JBM, Srivastava VK, Alanazi B et al. Nuclear factor I-C overexpression promotes monocytic development and cell survival in acute myeloid leukemia. Leukemia 2023 Feb;37(2):276-287. PMID: 36572750
  • Nagirnaja L, Lopes AM, Charng WL, Miller B et al. Diverse monogenic subforms of human spermatogenic failure. Nat Commun 2022 Dec 26;13(1):7953. PMID: 36572685
  • Maher AK, Burnham KL, Jones EM, Tan MMH et al. Transcriptional reprogramming from innate immune functions to a pro-thrombotic signature by monocytes in COVID-19. Nat Commun 2022 Dec 26;13(1):7947. PMID: 36572683
  • Yadav DK, Bhadresha K, Rao P, Shaikh S et al. Identification of hub genes associated with prognosis of lung cancer via integrated bioinformatics and in vitro approach. J Biomol Struct Dyn 2022 Dec 26;:1-15. PMID: 36572419
  • Hodge SH, Krauss MZ, Kaymak I, King JI et al. Amino acid availability acts as a metabolic rheostat to determine the magnitude of ILC2 responses. J Exp Med 2023 Mar 6;220(3). PMID: 36571761
  • Rijavec M, Maver A, Turner PJ, Hočevar K et al. Integrative transcriptomic analysis in human and mouse model of anaphylaxis identifies gene signatures associated with cell movement, migration and neuroinflammatory signalling. Front Immunol 2022;13:1016165. PMID: 36569939
  • Zhang X, Zhang Y, Zhao L, Wang J et al. Exploitation of tumor antigens and construction of immune subtype classifier for mRNA vaccine development in bladder cancer. Front Immunol 2022;13:1014638. PMID: 36569935
  • Chen YJ, Guo X, Liu ML, Yu YY et al. Interaction between glycolysis‒cholesterol synthesis axis and tumor microenvironment reveal that gamma-glutamyl hydrolase suppresses glycolysis in colon cancer. Front Immunol 2022;13:979521. PMID: 36569910
  • Wang RQ, Cui W, Cai J, Sun Y et al. Integrative analysis indicates the prognostic value of circadian rhythm disruption in liver cancer: Potential for therapeutic targeting. Front Immunol 2022;13:1011264. PMID: 36569894
  • Zhang Z, Zhang J, Duan Y, Li X et al. Identification of B cell marker genes based on single-cell sequencing to establish a prognostic model and identify immune infiltration in osteosarcoma. Front Immunol 2022;13:1026701. PMID: 36569871
  • Xie X, Dou CX, Luo MR, Zhang K et al. Plasma cell subtypes analyzed using artificial intelligence algorithm for predicting biochemical recurrence, immune escape potential, and immunotherapy response of prostate cancer. Front Immunol 2022;13:946209. PMID: 36569837
  • Wang F, Wang S, Wang J, Huang K et al. Pharmacological mechanisms of Fuzheng Huayu formula for Aristolochic acid I-induced kidney fibrosis through network pharmacology. Front Pharmacol 2022;13:1056865. PMID: 36569327
  • Huang J, Zhao C, Zhang X, Zhao Q et al. Hepatitis B virus pathogenesis relevant immunosignals uncovering amino acids utilization related risk factors guide artificial intelligence-based precision medicine. Front Pharmacol 2022;13:1079566. PMID: 36569318
  • Ren Z, Huang X, Lv Q, Lei Y et al. High expression of B4GALT1 is associated with poor prognosis in acute myeloid leukemia. Front Genet 2022;13:882004. PMID: 36568388
  • Tao Y, Li X, Zhang Y, He L et al. TP53-related signature for predicting prognosis and tumor microenvironment characteristics in bladder cancer: A multi-omics study. Front Genet 2022;13:1057302. PMID: 36568387
  • Li H, Gao L, Du J, Ma T et al. Differentially expressed gene profiles and associated ceRNA network in ATG7-Deficient lens epithelial cells under oxidative stress. Front Genet 2022;13:1088943. PMID: 36568386
  • Zhang LL, Zhu WJ, Zhang XX, Feng D et al. Ferroptosis patterns and tumor microenvironment infiltration characterization in esophageal squamous cell cancer. Front Genet 2022;13:1047382. PMID: 36568375
  • Yang Y, Ma B, Han L, Xu W et al. Integrated single-cell and bulk RNA sequencing analyses reveal a prognostic signature of cancer-associated fibroblasts in head and neck squamous cell carcinoma. Front Genet 2022;13:1028469. PMID: 36568368
  • Ji C, He Y, Wang Y et al. Identification of necroptosis subtypes and development of necroptosis-related risk score model for in ovarian cancer. Front Genet 2022;13:1043870. PMID: 36568363
  • Lu G, Zhang Y, Xia H, He X et al. Identification of a de novo mutation of the FOXG1 gene and comprehensive analysis for molecular factors in Chinese FOXG1-related encephalopathies. Front Mol Neurosci 2022;15:1039990. PMID: 36568277
  • Xu N, Li B, Liu Y, Yang C et al. Ferroptosis and triple-negative breast cancer: Potential therapeutic targets. Front Oncol 2022;12:1017041. PMID: 36568247
  • Li J, Li Z, Gao Y, Zhao H et al. Integrating single-cell RNA sequencing and prognostic model revealed the carcinogenicity and clinical significance of FAM83D in ovarian cancer. Front Oncol 2022;12:1055648. PMID: 36568230
  • Gao L, Wang X, Wang X, Wang F et al. A prognostic model and immune regulation analysis of uterine corpus endometrial carcinoma based on cellular senescence. Front Oncol 2022;12:1054564. PMID: 36568182
  • Yang M, Zhan Y, Hou Z, Wang C et al. VLDLR disturbs quiescence of breast cancer stem cells in a ligand-independent function. Front Oncol 2022;12:887035. PMID: 36568166
  • Li T, Qu J, Xu C, Fang T et al. Exploring the common gene signatures and pathogeneses of obesity with Alzheimer's disease via transcriptome data. Front Endocrinol (Lausanne) 2022;13:1072955. PMID: 36568118
  • Alam MS, Sultana A, Wang G, Haque Mollah MN et al. Gene expression profile analysis to discover molecular signatures for early diagnosis and therapies of triple-negative breast cancer. Front Mol Biosci 2022;9:1049741. PMID: 36567949
  • Wu Q, Tian R, Tan H, Liu J et al. A comprehensive analysis focusing on cuproptosis to investigate its clinical and biological relevance in uterine corpus endometrial carcinoma and its potential in indicating prognosis. Front Mol Biosci 2022;9:1048356. PMID: 36567939
  • Deng Y, Tang L, Zhou X, Wang W et al. Integrating extrusion complex-associated pattern to predict cell type-specific long-range chromatin loops. iScience 2022 Dec 22;25(12):105687. PMID: 36567710
  • Yin Y, Huang C, Wang Z, Huang P et al. Identification of cellular heterogeneity and key signaling pathways associated with vascular remodeling and calcification in young and old primate aortas based on single-cell analysis. Aging (Albany NY) 2022 Dec 23;15(4):982-1003. PMID: 36566020
  • Cui X, Yu H, Yao J, Li J et al. ncRNA-mediated overexpression of ubiquitin-specific proteinase 13 contributes to the progression of prostate cancer via modulating AR signaling, DNA damage repair and immune infiltration. BMC Cancer 2022 Dec 23;22(1):1350. PMID: 36564767
  • Lin J, Chen Y, Zhang Y, Lin H et al. Deciphering the role of RNA structure in translation efficiency. BMC Bioinformatics 2022 Dec 23;23(Suppl 3):559. PMID: 36564729
  • Zagelbaum J, Schooley A, Zhao J, Schrank BR et al. Multiscale reorganization of the genome following DNA damage facilitates chromosome translocations via nuclear actin polymerization. Nat Struct Mol Biol 2023 Jan;30(1):99-106. PMID: 36564591
  • Zhao J, Zhang S, Jiang Y, Liu Y et al. Mutation analysis of the WFS1 gene in a Chinese family with autosomal-dominant non-syndrome deafness. Sci Rep 2022 Dec 23;12(1):22180. PMID: 36564540
  • Fedorova AD, Kiniry SJ, Andreev DE, Mudge JM et al. Thousands of human non-AUG extended proteoforms lack evidence of evolutionary selection among mammals. Nat Commun 2022 Dec 23;13(1):7910. PMID: 36564405
  • Jiang X, Ji S, Yuan F, Li T et al. Pyruvate dehydrogenase B regulates myogenic differentiation via the FoxP1-Arih2 axis. J Cachexia Sarcopenia Muscle 2023 Feb;14(1):606-621. PMID: 36564038
  • Park G, Xu K, Chea L, Kim K et al. Neurodegeneration risk factor, EIF2AK3 (PERK), influences tau protein aggregation. J Biol Chem 2023 Feb;299(2):102821. PMID: 36563857
  • Barnett KC, Xie Y, Asakura T, Song D et al. An epithelial-immune circuit amplifies inflammasome and IL-6 responses to SARS-CoV-2. Cell Host Microbe 2023 Feb 8;31(2):243-259.e6. PMID: 36563691
  • Li N, Cai Y, Zou M, Zhou J et al. CFIm-mediated alternative polyadenylation safeguards the development of mammalian pre-implantation embryos. Stem Cell Reports 2023 Jan 10;18(1):81-96. PMID: 36563685
  • Miao H, Wu F, Li Y, Qin C et al. MALAT1 modulates alternative splicing by cooperating with the splicing factors PTBP1 and PSF. Sci Adv 2022 Dec 23;8(51):eabq7289. PMID: 36563164
  • He W, Huang C, Shi X, Wu M et al. Single-cell transcriptomics of hepatic stellate cells uncover crucial pathways and key regulators involved in non-alcoholic steatohepatitis. Endocr Connect 2023 Feb 1;12(2). PMID: 36562664
  • Yang X, Li J, Hu X, Zhang Y et al. Identification of PFKFB2 as a key gene for the transition from acute to old myocardial infarction in peripheral blood. Front Cardiovasc Med 2022;9:993579. PMID: 36561770
  • Wei J, Wang X, Dong Y, Zhong X et al. Curcumae Rhizoma - combined with Sparganii Rhizoma in the treatment of liver cancer: Chemical analysis using UPLC-LTQ-Orbitrap MS(n), network analysis, and experimental assessment. Front Pharmacol 2022;13:1027687. PMID: 36561345
  • Cui Y, Chen L, Wang X, Yu L et al. Identifying hub genes, key pathways and key immune-related genes in Peyronie's disease by integrated bioinformatic analysis. Front Pharmacol 2022;13:1019358. PMID: 36561343
  • Yao PA, Sun HJ, Li XY et al. Identification of key genes in late-onset major depressive disorder through a co-expression network module. Front Genet 2022;13:1048761. PMID: 36561317
  • Li W, Yi Q, Shi H et al. Hippocampal gene expression patterns in Sevoflurane anesthesia associated neurocognitive disorders: A bioinformatic analysis. Front Neurol 2022;13:1084874. PMID: 36561300
  • Tian T, Sun W, Du J, Sun Y et al. Analysis of co-expression gene network associated with intracranial aneurysm and type 2 diabetes mellitus. Front Neurol 2022;13:1032038. PMID: 36561297
  • Yu H, Wang M, Wang X, Jiang X et al. Immune-related matrisomes are potential biomarkers to predict the prognosis and immune microenvironment of glioma patients. FEBS Open Bio 2023 Feb;13(2):307-322. PMID: 36560848
  • Silva BRS, Jara CP, Sidarta-Oliveira D, Velloso LA et al. Downregulation of the Protein C Signaling System Is Associated with COVID-19 Hypercoagulability-A Single-Cell Transcriptomics Analysis. Viruses 2022 Dec 9;14(12). PMID: 36560757
  • Ryu YC, Kim YR, Park J, Choi S et al. Pyruvate Kinase M2 Promotes Hair Regeneration by Connecting Metabolic and Wnt/β-Catenin Signaling. Pharmaceutics 2022 Dec 13;14(12). PMID: 36559274
  • Sun X, Xia X, Guan X et al. Genome-Wide Identification and Characterisation of Stress-Associated Protein Gene Family to Biotic and Abiotic Stresses of Grapevine. Pathogens 2022 Nov 27;11(12). PMID: 36558760
  • Villalba Silva GC, Steindorff T, Silvestri Schuh R, Cardoso Flores N et al. Drug Repositioning Applied to Cardiovascular Disease in Mucopolysaccharidosis. Life (Basel) 2022 Dec 12;12(12). PMID: 36556450
  • Van Laethem F, Donaty L, Tchernonog E, Lacheretz-Szablewski V et al. LAIR1, an ITIM-Containing Receptor Involved in Immune Disorders and in Hematological Neoplasms. Int J Mol Sci 2022 Dec 17;23(24). PMID: 36555775
  • Chen H, Yang W, Xue X, Li Y et al. Integrated Analysis Revealed an Inflammatory Cancer-Associated Fibroblast-Based Subtypes with Promising Implications in Predicting the Prognosis and Immunotherapeutic Response of Bladder Cancer Patients. Int J Mol Sci 2022 Dec 15;23(24). PMID: 36555612
  • Indino S, Borzi C, Moscheni C, Sartori P et al. The Educational Program of Macrophages toward a Hyperprogressive Disease-Related Phenotype Is Orchestrated by Tumor-Derived Extracellular Vesicles. Int J Mol Sci 2022 Dec 13;23(24). PMID: 36555441
  • de Oya IG, Jiménez-Gutiérrez E, Gaillard H, Molina M et al. Manganese Stress Tolerance Depends on Yap1 and Stress-Activated MAP Kinases. Int J Mol Sci 2022 Dec 11;23(24). PMID: 36555348
  • Shevkoplyas D, Vuu YM, Davie JR, Rastegar M et al. The Chromatin Structure at the MECP2 Gene and In Silico Prediction of Potential Coding and Non-Coding MECP2 Splice Variants. Int J Mol Sci 2022 Dec 9;23(24). PMID: 36555295
  • Kumar S, Shih CM, Tsai LW, Dubey R et al. Transcriptomic Profiling Unravels Novel Deregulated Gene Signatures Associated with Acute Myocardial Infarction: A Bioinformatics Approach. Genes (Basel) 2022 Dec 9;13(12). PMID: 36553589
  • Li Y, Wang W, Wang D, Zhang L et al. Single-Cell Sequencing of Malignant Ascites Reveals Transcriptomic Remodeling of the Tumor Microenvironment during the Progression of Epithelial Ovarian Cancer. Genes (Basel) 2022 Dec 2;13(12). PMID: 36553542
  • Flores MA, Paniagua K, Huang W, Ramirez R et al. Characterizing Macrophages Diversity in COVID-19 Patients Using Deep Learning. Genes (Basel) 2022 Dec 1;13(12). PMID: 36553530
  • Makai D, Cseh A, Sepsi A, Makai S et al. A Multigraph-Based Representation of Hi-C Data. Genes (Basel) 2022 Nov 23;13(12). PMID: 36553456
  • Kołat D, Zhao LY, Kciuk M, Płuciennik E et al. AP-2δ Is the Most Relevant Target of AP-2 Family-Focused Cancer Therapy and Affects Genome Organization. Cells 2022 Dec 19;11(24). PMID: 36552887
  • Mobashir M, Turunen SP, Izhari MA, Ashankyty IM et al. An Approach for Systems-Level Understanding of Prostate Cancer from High-Throughput Data Integration to Pathway Modeling and Simulation. Cells 2022 Dec 19;11(24). PMID: 36552885
  • Vandewalle J, Garcia B, Timmermans S, Vanderhaeghen T et al. Hepatic Peroxisome Proliferator-Activated Receptor Alpha Dysfunction in Porcine Septic Shock. Cells 2022 Dec 16;11(24). PMID: 36552845
  • Gensous N, Sala C, Pirazzini C, Ravaioli F et al. A Targeted Epigenetic Clock for the Prediction of Biological Age. Cells 2022 Dec 14;11(24). PMID: 36552808
  • Cheng TY, Liu YJ, Yan H, Xi YB et al. Tumor Cell-Intrinsic BTLA Receptor Inhibits the Proliferation of Tumor Cells via ERK1/2. Cells 2022 Dec 12;11(24). PMID: 36552785
  • Alonso-Peña M, Espinosa-Escudero R, Hermanns HM, Briz O et al. Impact of Liver Inflammation on Bile Acid Side Chain Shortening and Amidation. Cells 2022 Dec 9;11(24). PMID: 36552746
  • He L, Palos-Jasso A, Yi Y, Qin M et al. Bioinformatic Analysis Revealed the Essential Regulatory Genes and Pathways of Early and Advanced Atherosclerotic Plaque in Humans. Cells 2022 Dec 8;11(24). PMID: 36552740
  • Vöcking O, Macias-Muñoz A, Jaeger SJ, Oakley TH et al. Deep Diversity: Extensive Variation in the Components of Complex Visual Systems across Animals. Cells 2022 Dec 8;11(24). PMID: 36552730
  • Mohammadinejad F, Mohammadabadi M, Roudbari Z, Sadkowski T et al. Identification of Key Genes and Biological Pathways Associated with Skeletal Muscle Maturation and Hypertrophy in Bos taurus, Ovis aries, and Sus scrofa. Animals (Basel) 2022 Dec 8;12(24). PMID: 36552391
  • Esmaeilzadeh AA, Kashian M, Salman HM, Alsaffar MF et al. Identify Biomarkers and Design Effective Multi-Target Drugs in Ovarian Cancer: Hit Network-Target Sets Model Optimizing. Biology (Basel) 2022 Dec 19;11(12). PMID: 36552360
  • Mailem RC, Tayo LL et al. Drug Repurposing Using Gene Co-Expression and Module Preservation Analysis in Acute Respiratory Distress Syndrome (ARDS), Systemic Inflammatory Response Syndrome (SIRS), Sepsis, and COVID-19. Biology (Basel) 2022 Dec 15;11(12). PMID: 36552336
  • Froese N, Szaroszyk M, Korf-Klingebiel M, Koch K et al. Endothelial Cell GATA2 Modulates the Cardiomyocyte Stress Response through the Regulation of Two Long Non-Coding RNAs. Biology (Basel) 2022 Nov 29;11(12). PMID: 36552246
  • Kim HJ, Park JL, Yoon BH, Haam K et al. Aberrant Methylation of Somatostatin Receptor 2 Gene Is Initiated in Aged Gastric Mucosa Infected with Helicobacter pylori and Consequential Gene Silencing Is Associated with Establishment of Inflammatory Microenvironment In Vitro Study. Cancers (Basel) 2022 Dec 14;14(24). PMID: 36551669
  • Ma S, Zhao Y, Liu X, Sun Zhang A et al. CD163 as a Potential Biomarker in Colorectal Cancer for Tumor Microenvironment and Cancer Prognosis: A Swedish Study from Tissue Microarrays to Big Data Analyses. Cancers (Basel) 2022 Dec 14;14(24). PMID: 36551651
  • Paret C, Ustjanzew A, Ersali S, Seidmann L et al. GD2 Expression in Medulloblastoma and Neuroblastoma for Personalized Immunotherapy: A Matter of Subtype. Cancers (Basel) 2022 Dec 8;14(24). PMID: 36551537
  • Lai MW, Chow N, Checco A, Kunar B et al. Systems Biology Analysis of Temporal Dynamics That Govern Endothelial Response to Cyclic Stretch. Biomolecules 2022 Dec 8;12(12). PMID: 36551265
  • Ye Q, Guo NL et al. Hub Genes in Non-Small Cell Lung Cancer Regulatory Networks. Biomolecules 2022 Nov 29;12(12). PMID: 36551208
  • Li K, Tan G, Zhang X, Lu W et al. EIF4G1 Is a Potential Prognostic Biomarker of Breast Cancer. Biomolecules 2022 Nov 26;12(12). PMID: 36551184
  • Li X, Zhou X, Ding S, Chen L et al. Identification of Transcriptome Biomarkers for Severe COVID-19 with Machine Learning Methods. Biomolecules 2022 Nov 23;12(12). PMID: 36551164
  • Xie J, Wang W, Yang T, Zhang Q et al. Large-scale genomic and transcriptomic profiles of rice hybrids reveal a core mechanism underlying heterosis. Genome Biol 2022 Dec 22;23(1):264. PMID: 36550554
  • Olney KC, Plaisier SB, Phung TN, Silasi M et al. Sex differences in early and term placenta are conserved in adult tissues. Biol Sex Differ 2022 Dec 22;13(1):74. PMID: 36550527
  • Smyth LJ, Dahlström EH, Syreeni A, Kerr K et al. Epigenome-wide meta-analysis identifies DNA methylation biomarkers associated with diabetic kidney disease. Nat Commun 2022 Dec 22;13(1):7891. PMID: 36550108
  • Chawla DG, Cappuccio A, Tamminga A, Sealfon SC et al. Benchmarking transcriptional host response signatures for infection diagnosis. Cell Syst 2022 Dec 21;13(12):974-988.e7. PMID: 36549274
  • Fu Y, Zhang J, Xu L, Zhang H et al. Developing a Novel Immune-Related Seven-Gene Signature and Immune Infiltration Pattern in Patients with COVID-19 and Cardiovascular Disease. J Cardiovasc Dev Dis 2022 Dec 9;9(12). PMID: 36547446
  • Kim Y, Kang MH, Cho YH et al. API-2-Induced Cell Migration Is Overcome by Small Molecular Approaches Inhibiting β-Catenin. Curr Issues Mol Biol 2022 Nov 29;44(12):6006-6014. PMID: 36547070
  • Kim HJ, Seo BG, Seo EC, Lee KM et al. Checkpoint Kinase 1 (CHK1) Functions as Both a Diagnostic Marker and a Regulator of Epithelial-to-Mesenchymal Transition (EMT) in Triple-Negative Breast Cancer. Curr Issues Mol Biol 2022 Nov 23;44(12):5848-5865. PMID: 36547059
  • Luo L, Wang Z, Hu T, Feng Z et al. Multiomics characteristics and immunotherapeutic potential of EZH2 in pan-cancer. Biosci Rep 2023 Jan 31;43(1). PMID: 36545914
  • Han J, Zhao Z, Wang Y, Yu T et al. Screening for MicroRNA combination with engineered exosomes as a new tool against osteosarcoma in elderly patients. Front Bioeng Biotechnol 2022;10:1052252. PMID: 36545680
  • Wang G, Romero Y, Thevarajan I, Zolkiewska A et al. ADAM12 abrogation alters immune cell infiltration and improves response to checkpoint blockade therapy in the T11 murine model of triple-negative breast cancer. Oncoimmunology 2023;12(1):2158006. PMID: 36545255
  • Xiang L, Piao L, Wang D, Qi LF et al. Overexpression of SMS in the tumor microenvironment is associated with immunosuppression in hepatocellular carcinoma. Front Immunol 2022;13:974241. PMID: 36544774
  • Wang D, Mo Y, Zhang D, Bai Y et al. Analysis of m(7)G methylation modification patterns and pulmonary vascular immune microenvironment in pulmonary arterial hypertension. Front Immunol 2022;13:1014509. PMID: 36544768
  • Bashir S, Rehman N, Fakhar Zaman F, Naeem MK et al. Genome-wide characterization of the NLR gene family in tomato (Solanum lycopersicum) and their relatedness to disease resistance. Front Genet 2022;13:931580. PMID: 36544493
  • Ding L, Shen Y, Wang A, Lu C et al. Construction of a novel miRNA regulatory network and identification of target genes in gestational diabetes mellitus by integrated analysis. Front Genet 2022;13:966296. PMID: 36544488
  • Shen D, Hong Y, Feng Z, Chen X et al. Development of dynamical network biomarkers for regulation in Epstein-Barr virus positive peripheral T cell lymphoma unspecified type. Front Genet 2022;13:966247. PMID: 36544484
  • Bang I, Khanh Nong L, Young Park J, Thi Le H et al. ChEAP: ChIP-exo analysis pipeline and the investigation of Escherichia coli RpoN protein-DNA interactions. Comput Struct Biotechnol J 2023;21:99-104. PMID: 36544470
  • Lee BH, Wu Z, Rhie SK et al. Characterizing chromatin interactions of regulatory elements and nucleosome positions, using Hi-C, Micro-C, and promoter capture Micro-C. Epigenetics Chromatin 2022 Dec 21;15(1):41. PMID: 36544209
  • Ho BX, Pang JKS, Chen Y, Loh YH et al. Robust generation of human-chambered cardiac organoids from pluripotent stem cells for improved modelling of cardiovascular diseases. Stem Cell Res Ther 2022 Dec 21;13(1):529. PMID: 36544188
  • Jarred EG, Qu Z, Tsai T, Oberin R et al. Transient Polycomb activity represses developmental genes in growing oocytes. Clin Epigenetics 2022 Dec 21;14(1):183. PMID: 36544159
  • Sun X, Klingbeil O, Lu B, Wu C et al. BRD8 maintains glioblastoma by epigenetic reprogramming of the p53 network. Nature 2023 Jan;613(7942):195-202. PMID: 36544023
  • Crossley MP, Song C, Bocek MJ, Choi JH et al. R-loop-derived cytoplasmic RNA-DNA hybrids activate an immune response. Nature 2023 Jan;613(7942):187-194. PMID: 36544021
  • Griess K, Rieck M, Müller N, Karsai G et al. Sphingolipid subtypes differentially control proinsulin processing and systemic glucose homeostasis. Nat Cell Biol 2023 Jan;25(1):20-29. PMID: 36543979
  • Madissoon E, Oliver AJ, Kleshchevnikov V, Wilbrey-Clark A et al. A spatially resolved atlas of the human lung characterizes a gland-associated immune niche. Nat Genet 2023 Jan;55(1):66-77. PMID: 36543915
  • Li K, Du Y, Cai Y, Liu W et al. Single-cell analysis reveals the chemotherapy-induced cellular reprogramming and novel therapeutic targets in relapsed/refractory acute myeloid leukemia. Leukemia 2023 Feb;37(2):308-325. PMID: 36543880
  • Ding Y, Zheng Y, Wang J, Li H et al. Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Commun Biol 2022 Dec 21;5(1):1400. PMID: 36543858
  • De R, Azad RK et al. Molecular signatures in the progression of COVID-19 severity. Sci Rep 2022 Dec 21;12(1):22058. PMID: 36543855
  • Li F, Zhang Y, Lin Z, Yan L et al. Targeting SPHK1/S1PR3-regulated S-1-P metabolic disorder triggers autophagic cell death in pulmonary lymphangiomyomatosis (LAM). Cell Death Dis 2022 Dec 21;13(12):1065. PMID: 36543771
  • Imahashi N, Basar R, Huang Y, Wang F et al. Activated B cells suppress T-cell function through metabolic competition. J Immunother Cancer 2022 Dec;10(12). PMID: 36543374
  • Miao Y, Djeffal Y, De Simone A, Zhu K et al. Reconstruction and deconstruction of human somitogenesis in vitro. Nature 2023 Feb;614(7948):500-508. PMID: 36543321
  • Wang Y, Zhang S, Lan Z, Doan V et al. SOX2 is essential for astrocyte maturation and its deletion leads to hyperactive behavior in mice. Cell Rep 2022 Dec 20;41(12):111842. PMID: 36543123
  • Murthy M, Shireby G, Miki Y, Viré E et al. Epigenetic age acceleration is associated with oligodendrocyte proportions in MSA and control brain tissue. Neuropathol Appl Neurobiol 2023 Feb;49(1):e12872. PMID: 36542090
  • Niewiadomska-Cimicka A, Hache A, Le Gras S, Keime C et al. Polyglutamine-expanded ATXN7 alters a specific epigenetic signature underlying photoreceptor identity gene expression in SCA7 mouse retinopathy. J Biomed Sci 2022 Dec 20;29(1):107. PMID: 36539812
  • Harmanci A, Harmanci AS, Klisch TJ, Patel AJ et al. XCVATR: detection and characterization of variant impact on the Embeddings of single -cell and bulk RNA-sequencing samples. BMC Genomics 2022 Dec 20;23(1):841. PMID: 36539717
  • Zeller P, Yeung J, Viñas Gaza H, de Barbanson BA et al. Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis. Nat Genet 2023 Feb;55(2):333-345. PMID: 36539617
  • Wang L, Jung J, Babikir H, Shamardani K et al. A single-cell atlas of glioblastoma evolution under therapy reveals cell-intrinsic and cell-extrinsic therapeutic targets. Nat Cancer 2022 Dec;3(12):1534-1552. PMID: 36539501
  • Zhou T, Yang Z, Ni B, Zhou H et al. IL-4 induces reparative phenotype of RPE cells and protects against retinal neurodegeneration via Nrf2 activation. Cell Death Dis 2022 Dec 20;13(12):1056. PMID: 36539414
  • Vedunova M, Turubanova V, Vershinina O, Savyuk M et al. DC vaccines loaded with glioma cells killed by photodynamic therapy induce Th17 anti-tumor immunity and provide a four-gene signature for glioma prognosis. Cell Death Dis 2022 Dec 21;13(12):1062. PMID: 36539408
  • Cheroni C, Trattaro S, Caporale N, López-Tobón A et al. Benchmarking brain organoid recapitulation of fetal corticogenesis. Transl Psychiatry 2022 Dec 20;12(1):520. PMID: 36539399
  • Cunningham PS, Kitchen GB, Jackson C, Papachristos S et al. ClinCirc identifies alterations of the circadian peripheral oscillator in critical care patients. J Clin Invest 2023 Feb 15;133(4). PMID: 36538377
  • Arrieta-Ortiz ML, Pan M, Kaur A, Pepper-Tunick E et al. Disrupting the ArcA Regulatory Network Amplifies the Fitness Cost of Tetracycline Resistance in Escherichia coli. mSystems 2023 Feb 23;8(1):e0090422. PMID: 36537814
  • Deng J, Leijten E, Nordkamp MO, Zheng G et al. Multi-omics integration reveals a core network involved in host defence and hyperkeratinization in psoriasis. Clin Transl Med 2022 Dec;12(12):e976. PMID: 36536476
  • Straeten F, Zhu J, Börsch AL, Zhang B et al. Integrated single-cell transcriptomics of cerebrospinal fluid cells in treatment-naïve multiple sclerosis. J Neuroinflammation 2022 Dec 19;19(1):306. PMID: 36536441
  • Gu Z, Yang Y, Ma Q, Wang H et al. HNRNPC, a predictor of prognosis and immunotherapy response based on bioinformatics analysis, is related to proliferation and invasion of NSCLC cells. Respir Res 2022 Dec 19;23(1):362. PMID: 36536402
  • Choi SH, Yousefian-Jazi A, Hyeon SJ, Nguyen PTT et al. Modulation of histone H3K4 dimethylation by spermidine ameliorates motor neuron survival and neuropathology in a mouse model of ALS. J Biomed Sci 2022 Dec 20;29(1):106. PMID: 36536341
  • Jia C, Guo B, Wang B, Li X et al. The LEA gene family in tomato and its wild relatives: genome-wide identification, structural characterization, expression profiling, and role of SlLEA6 in drought stress. BMC Plant Biol 2022 Dec 19;22(1):596. PMID: 36536303
  • Paterson HAB, Yu S, Artigas N, Prado MA et al. Liver RBFOX2 regulates cholesterol homeostasis via Scarb1 alternative splicing in mice. Nat Metab 2022 Dec;4(12):1812-1829. PMID: 36536133
  • Begik O, Diensthuber G, Liu H, Delgado-Tejedor A et al. Nano3P-seq: transcriptome-wide analysis of gene expression and tail dynamics using end-capture nanopore cDNA sequencing. Nat Methods 2023 Jan;20(1):75-85. PMID: 36536091
  • Tavares Pereira M, Kazemian A, Rehrauer H, Kowalewski MP et al. Transcriptomic profiling of canine decidualization and effects of antigestagens on decidualized dog uterine stromal cells. Sci Rep 2022 Dec 19;12(1):21890. PMID: 36535952
  • Colas C, Mouchiroud M, Al Dow M, Kolnohuz A et al. DEPTOR loss impairs brown adipocyte development in vitro but has limited impacts in mice. Mol Metab 2023 Jan;67:101660. PMID: 36535626
  • Chen T, Dalton G, Oh SH, Maeso-Diaz R et al. Hepatocyte Smoothened Activity Controls Susceptibility to Insulin Resistance and Nonalcoholic Fatty Liver Disease. Cell Mol Gastroenterol Hepatol 2023;15(4):949-970. PMID: 36535507
  • Behle A, Dietsch M, Goldschmidt L, Murugathas W et al. Manipulation of topoisomerase expression inhibits cell division but not growth and reveals a distinctive promoter structure in Synechocystis. Nucleic Acids Res 2022 Dec 9;50(22):12790-12808. PMID: 36533444
  • Li X, Han G, Zhao J, Huang X et al. Intestinal flora induces depression by mediating the dysregulation of cerebral cortex gene expression and regulating the metabolism of stroke patients. Front Mol Biosci 2022;9:865788. PMID: 36533076
  • Agrawal K, Chauhan S, Kumar D et al. Expression analysis and regulation of GLI and its correlation with stemness and metabolic alteration in human brain tumor. 3 Biotech 2023 Jan;13(1):10. PMID: 36532860
  • Feng Y, Grotegut S, Jovanovic P, Gandin V et al. Inhibition of coronavirus HCoV-OC43 by targeting the eIF4F complex. Front Pharmacol 2022;13:1029093. PMID: 36532738
  • You M, Yuan P, Li L, Xu H et al. HIF-1 signalling pathway was identified as a potential new pathway for Icariin's treatment against Alzheimer's disease based on preclinical evidence and bioinformatics. Front Pharmacol 2022;13:1066819. PMID: 36532735
  • Zhang J, Jiang H, Li Y, Wang S et al. Transcriptomic and physiological analysis reveals the possible mechanism of ultrasound inhibiting strawberry (Fragaria × ananassa Duch.) postharvest softening. Front Nutr 2022;9:1066043. PMID: 36532521
  • Hasankhani A, Bahrami A, Mackie S, Maghsoodi S et al. In-depth systems biological evaluation of bovine alveolar macrophages suggests novel insights into molecular mechanisms underlying Mycobacterium bovis infection. Front Microbiol 2022;13:1041314. PMID: 36532492
  • Zeng J, Sun L, Huang J, Yang X et al. Enhancer of zeste homolog 2 is a negative prognostic biomarker and correlated with immune infiltrates in meningioma. Front Neurosci 2022;16:1076530. PMID: 36532284
  • Côrte-Real BF, Arroyo Hornero R, Dyczko A, Hamad I et al. Dissecting the role of CSF2RB expression in human regulatory T cells. Front Immunol 2022;13:1005965. PMID: 36532080
  • Wan Q, Wei R, Wei X, Deng YP et al. Crosstalk of four kinds of cell deaths defines subtypes of cutaneous melanoma for precise immunotherapy and chemotherapy. Front Immunol 2022;13:998454. PMID: 36532053
  • Lai W, Wang X, Liu L, Xu L et al. Single-cell profiling of T cells uncovers a tissue-resident memory-like T-cell subset associated with bidirectional prognosis for B-cell acute lymphoblastic leukemia. Front Immunol 2022;13:957436. PMID: 36532049
  • Yao Q, Wang C, Wang Y, Xiang W et al. STXBP3 and GOT2 predict immunological activity in acute allograft rejection. Front Immunol 2022;13:1025681. PMID: 36532048
  • Zheng Q, Lin R, Chen Y, Lv Q et al. SARS-CoV-2 induces "cytokine storm" hyperinflammatory responses in RA patients through pyroptosis. Front Immunol 2022;13:1058884. PMID: 36532040
  • Zheng Y, Liu B, Deng X, Chen Y et al. Construction and validation of a robust prognostic model based on immune features in sepsis. Front Immunol 2022;13:994295. PMID: 36532037
  • Chen K, Liu S, Lu C, Gu X et al. A prognostic and therapeutic hallmark developed by the integrated profile of basement membrane and immune infiltrative landscape in lung adenocarcinoma. Front Immunol 2022;13:1058493. PMID: 36532024
  • Wang L, Yang Z, Yu H, Lin W et al. Predicting diagnostic gene expression profiles associated with immune infiltration in patients with lupus nephritis. Front Immunol 2022;13:839197. PMID: 36532018
  • Zhang X, Miao Y, Sun HW, Wang YX et al. Integrated analysis from multi-center studies identities m7G-derived modification pattern and risk stratification system in skin cutaneous melanoma. Front Immunol 2022;13:1034516. PMID: 36532001
  • Li X, An Y, Wang Q, Han X et al. The new ceRNA crosstalk between mRNAs and miRNAs in intervertebral disc degeneration. Front Cell Dev Biol 2022;10:1083983. PMID: 36531954
  • Tian SZ, Yin P, Jing K, Yang Y et al. MCI-frcnn: A deep learning method for topological micro-domain boundary detection. Front Cell Dev Biol 2022;10:1050769. PMID: 36531953
  • He L, He W, Luo J, Xu M et al. Upregulated ENC1 predicts unfavorable prognosis and correlates with immune infiltration in endometrial cancer. Front Cell Dev Biol 2022;10:919637. PMID: 36531950
  • Duo M, Liu Z, Zhang Y, Li P et al. Construction of a diagnostic signature and immune landscape of pulmonary arterial hypertension. Front Cardiovasc Med 2022;9:940894. PMID: 36531729
  • Xiong T, Chen Y, Han S, Zhang TC et al. Development and analysis of a comprehensive diagnostic model for aortic valve calcification using machine learning methods and artificial neural networks. Front Cardiovasc Med 2022;9:913776. PMID: 36531717
  • Kim JY, Lee J, Kang MH, Trang TTM et al. Dynamic landscape of long noncoding RNAs during leaf aging in Arabidopsis. Front Plant Sci 2022;13:1068163. PMID: 36531391
  • He Y, Li Y, Xiang J, Huang X et al. TYK2 correlates with immune infiltration: A prognostic marker for head and neck squamous cell carcinoma. Front Genet 2022;13:1081519. PMID: 36531252
  • Wei M, Tian Y, Lv Y, Liu G et al. Identification and validation of a prognostic model based on ferroptosis-associated genes in head and neck squamous cancer. Front Genet 2022;13:1065546. PMID: 36531250
  • Huang B, Su W, Yu D et al. Data-driven analysis to identify prognostic immune-related biomarkers in BRAF mutated cutaneous melanoma microenvironment. Front Genet 2022;13:1081418. PMID: 36531226
  • Sun P, Xu H, Zhu K, Li M et al. The cuproptosis related genes signature predicts the prognosis and correlates with the immune status of clear cell renal cell carcinoma. Front Genet 2022;13:1061382. PMID: 36531222
  • Mugiyanto E, Adikusuma W, Irham LM, Huang WC et al. Integrated genomic analysis to identify druggable targets for pancreatic cancer. Front Oncol 2022;12:989077. PMID: 36531045
  • Wang J, Meng X, Chen K, Feng J et al. An autophagy-related four-lncRNA signature helps to predict progression-free survival of neuroblastoma patients. Front Oncol 2022;12:1014845. PMID: 36530992
  • Dong X, Yang Y, Hou J, Chen W et al. Weighted gene co-expression network reveals driver genes contributing to phenotypes of anaplastic thyroid carcinoma and immune checkpoint identification for therapeutic targets. Front Oncol 2022;12:1018479. PMID: 36530988
  • Xiao L, Xiao W, Lin S et al. Potential biomarkers for active renal involvement in systemic lupus erythematosus patients. Front Med (Lausanne) 2022;9:995103. PMID: 36530895
  • Su W, Chen X, Zhang W, Li D et al. Therapeutic targets and signaling mechanisms of dasatinib activity against radiation skin ulcer. Front Public Health 2022;10:1031038. PMID: 36530656
  • Grigorashvili EI, Chervontseva ZS, Gelfand MS et al. Predicting RNA secondary structure by a neural network: what features may be learned? PeerJ 2022;10:e14335. PMID: 36530406
  • Perez-Riverol YProteomic repository data submission, dissemination, and reuse: key messages. Expert Rev Proteomics 2022 Jul-Dec;19(7-12):297-310. PMID: 36529941
  • Li CX, Wang JS, Wang WN, Xu DK et al. Expression dynamics of periodic transcripts during cancer cell cycle progression and their correlation with anticancer drug sensitivity. Mil Med Res 2022 Dec 19;9(1):71. PMID: 36529792
  • Minohara K, Imai M, Matoba T, Wing JB et al. Mature dendritic cells enriched in regulatory molecules may control regulatory T cells and the prognosis of head and neck cancer. Cancer Sci 2023 Apr;114(4):1256-1269. PMID: 36529525
  • Zierfuss B, Buda A, Villoria-González A, Logist M et al. Saturated very long-chain fatty acids regulate macrophage plasticity and invasiveness. J Neuroinflammation 2022 Dec 17;19(1):305. PMID: 36528616
  • Grolaux R, Hardy A, Olsen C, Van Dooren S et al. Identification of differentially methylated regions in rare diseases from a single-patient perspective. Clin Epigenetics 2022 Dec 16;14(1):174. PMID: 36527161
  • Yang C, Zhang S, Cheng Z, Liu Z et al. Multi-region sequencing with spatial information enables accurate heterogeneity estimation and risk stratification in liver cancer. Genome Med 2022 Dec 16;14(1):142. PMID: 36527145
  • Liu J, Liu S, Yu Z, Qiu X et al. Uncovering the gene regulatory network of type 2 diabetes through multi-omic data integration. J Transl Med 2022 Dec 16;20(1):604. PMID: 36527108
  • Cao YF, Xie L, Tong BB, Chu MY et al. Targeting USP10 induces degradation of oncogenic ANLN in esophageal squamous cell carcinoma. Cell Death Differ 2023 Feb;30(2):527-543. PMID: 36526897
  • Song EC, Che M, Osinski J, Smalley K et al. ΔNp63 maintains the fidelity of the myoepithelial cell lineage and directs cell differentiation programs in the murine salivary gland. Cell Death Differ 2023 Feb;30(2):515-526. PMID: 36526896
  • Xu C, Zhou H, Jin Y, Sahay K et al. Hepatic neddylation deficiency triggers fatal liver injury via inducing NF-κB-inducing kinase in mice. Nat Commun 2022 Dec 16;13(1):7782. PMID: 36526632
  • Li J, Dai P, Sun J, Yu W et al. FBP1 induced by β-elemene enhances the sensitivity of gefitinib in lung cancer. Thorac Cancer 2023 Feb;14(4):371-380. PMID: 36525508
  • Carelli FN, Cerrato C, Dong Y, Appert A et al. Widespread transposon co-option in the Caenorhabditis germline regulatory network. Sci Adv 2022 Dec 16;8(50):eabo4082. PMID: 36525485
  • Kumar R, Acharya V et al. Deep learning based protocol to construct an immune-related gene network of host-pathogen interactions in plants. STAR Protoc 2022 Dec 14;4(1):101934. PMID: 36525344
  • Wild SA, Cannell IG, Nicholls A, Kania K et al. Clonal transcriptomics identifies mechanisms of chemoresistance and empowers rational design of combination therapies. Elife 2022 Dec 16;11. PMID: 36525288
  • Kirkwood PM, Gibson DA, Shaw I, Dobie R et al. Single-cell RNA sequencing and lineage tracing confirm mesenchyme to epithelial transformation (MET) contributes to repair of the endometrium at menstruation. Elife 2022 Dec 16;11. PMID: 36524724
  • Sun H, Chen Y, Yan K, Shao Y et al. Recruitment of TRIM33 to cell-context specific PML nuclear bodies regulates nodal signaling in mESCs. EMBO J 2023 Feb 1;42(3):e112058. PMID: 36524443
  • Qian C, Jiang Z, Zhou T, Wu T et al. Vesicle-mediated transport-related genes are prognostic predictors and are associated with tumor immunity in lung adenocarcinoma. Front Immunol 2022;13:1034992. PMID: 36524130
  • Chang W, Li H, Zhong L, Zhu T et al. Development of a copper metabolism-related gene signature in lung adenocarcinoma. Front Immunol 2022;13:1040668. PMID: 36524120
  • Li Y, Ma C, Liao S, Qi S et al. Combined proteomics and single cell RNA-sequencing analysis to identify biomarkers of disease diagnosis and disease exacerbation for systemic lupus erythematosus. Front Immunol 2022;13:969509. PMID: 36524113
  • Yuan X, Ma S, Fa B, Wei T et al. A high-efficiency differential expression method for cancer heterogeneity using large-scale single-cell RNA-sequencing data. Front Genet 2022;13:1063130. PMID: 36523772
  • Wu P, Pan X, Lu K, Gu N et al. Screening prognostic genes related to leucovorin, fluorouracil, and irinotecan treatment sensitivity by performing co-expression network analysis for colon cancer. Front Genet 2022;13:928356. PMID: 36523769
  • Yuan Y, Xiong X, Li L, Luo P et al. Novel targets in renal fibrosis based on bioinformatic analysis. Front Genet 2022;13:1046854. PMID: 36523757
  • Li S, Zhang Y, Shi S, Guo D et al. Identification of immune characteristic landscapes related to autophagy in ischemic stroke. Front Cell Dev Biol 2022;10:1026578. PMID: 36523507
  • Yu M, Yang Y, Zhao H, Li M et al. Targeting the chemerin/CMKLR1 axis by small molecule antagonist α-NETA mitigates endometriosis progression. Front Pharmacol 2022;13:985618. PMID: 36523492
  • Li C, Yin Z, Xiao R, Huang B et al. G-quadruplexes sense natural porphyrin metabolites for regulation of gene transcription and chromatin landscapes. Genome Biol 2022 Dec 15;23(1):259. PMID: 36522639
  • Wang C, Gu Y, Zhou J, Zang J et al. Leukocyte telomere length in children born following blastocyst-stage embryo transfer. Nat Med 2022 Dec;28(12):2646-2653. PMID: 36522605
  • Chang YC, Manent J, Schroeder J, Wong SFL et al. Nr6a1 controls Hox expression dynamics and is a master regulator of vertebrate trunk development. Nat Commun 2022 Dec 15;13(1):7766. PMID: 36522318
  • Meng X, Gao X, Shi K, Zhao J et al. Interferon-α2b-Induced RARRES3 Upregulation Inhibits Hypertrophic Scar Fibroblasts' Proliferation and Migration Through Wnt/β-Catenin Pathway Suppression. J Interferon Cytokine Res 2023 Jan;43(1):23-34. PMID: 36520614
  • Li J, Gao X, Tang M, Wang C et al. Autoencoder Networks Decipher the Association between Lung Cancer and Alzheimer's Disease. Comput Intell Neurosci 2022;2022:2009545. PMID: 36518809
  • Wang P, Zhang Z, Lin R, Lin J et al. Machine learning links different gene patterns of viral infection to immunosuppression and immune-related biomarkers in severe burns. Front Immunol 2022;13:1054407. PMID: 36518755
  • Sun L, Liu XP, Yan X, Wu S et al. Identification of molecular subtypes based on liquid-liquid phase separation and cross-talk with immunological phenotype in bladder cancer. Front Immunol 2022;13:1059568. PMID: 36518754
  • Huang G, Huang S, Cui H et al. Effect of M6A regulators on diagnosis, subtype classification, prognosis and novel therapeutic target development of idiopathic pulmonary fibrosis. Front Pharmacol 2022;13:993567. PMID: 36518679
  • Lu Y, Wang D, Zhu Y, Du Y et al. A risk model developed based on necroptosis to assess progression for ischemic cardiomyopathy and identify possible therapeutic drugs. Front Pharmacol 2022;13:1039857. PMID: 36518671
  • Tozzi ON, Jiacomini IG, Bastos TSB, Nicolazzi LHCN et al. Evaluation of the effects of Loxosceles intermedia's venom in zebrafish. Toxicol Rep 2022;9:1410-1418. PMID: 36518468
  • Szymczak F, Cohen-Fultheim R, Thomaidou S, de Brachène AC et al. ADAR1-dependent editing regulates human β cell transcriptome diversity during inflammation. Front Endocrinol (Lausanne) 2022;13:1058345. PMID: 36518246
  • Totoń-Żurańska J, Sulicka-Grodzicka J, Seweryn MT, Pitera E et al. MicroRNA composition of plasma extracellular vesicles: a harbinger of late cardiotoxicity of doxorubicin. Mol Med 2022 Dec 14;28(1):156. PMID: 36517751
  • Zhai J, Guo J, Wan H, Qi L et al. Primate gastrulation and early organogenesis at single-cell resolution. Nature 2022 Dec;612(7941):732-738. PMID: 36517595
  • Zhao D, Wu K, Sharma S, Xing F et al. Exosomal miR-1304-3p promotes breast cancer progression in African Americans by activating cancer-associated adipocytes. Nat Commun 2022 Dec 14;13(1):7734. PMID: 36517516
  • Cohn O, Yankovitz G, Peshes-Yaloz N, Steuerman Y et al. Distinct gene programs underpinning disease tolerance and resistance in influenza virus infection. Cell Syst 2022 Dec 21;13(12):1002-1015.e9. PMID: 36516834
  • Weiner AI, Zhao G, Zayas HM, Holcomb NP et al. ΔNp63 drives dysplastic alveolar remodeling and restricts epithelial plasticity upon severe lung injury. Cell Rep 2022 Dec 13;41(11):111805. PMID: 36516758
  • Wang R, Shen J, Chen Y, Gao J et al. Fatty acid metabolism-related signature predicts survival in patients with clear cell renal carcinoma. Aging (Albany NY) 2022 Dec 12;14(24):9969-9979. PMID: 36516496
  • Bastide S, Chomsky E, Saudemont B, Loe-Mie Y et al. TATTOO-seq delineates spatial and cell type-specific regulatory programs in the developing limb. Sci Adv 2022 Dec 14;8(50):eadd0695. PMID: 36516250
  • Kurahashi Y, Watanabe T, Yamamoto Y, Ureshino H et al. Dual targeting of aberrant DNA and histone methylation synergistically suppresses tumor cell growth in ATL. Blood Adv 2023 Apr 25;7(8):1545-1559. PMID: 36516085
  • Lévy R, Gothe F, Momenilandi M, Magg T et al. Human CARMIL2 deficiency underlies a broader immunological and clinical phenotype than CD28 deficiency. J Exp Med 2023 Feb 6;220(2). PMID: 36515678
  • Xiao Q, Han J, Yu F, Yan L et al. Elucidating the Gene Signatures and Immune Cell Types in HIV-Infected Immunological Non-Responders by Bioinformatics Analyses. Int J Gen Med 2022;15:8491-8507. PMID: 36514742
  • Zhang X, Zuo R, Xiao S, Wang L et al. Association between iron metabolism and non-alcoholic fatty liver disease: results from the National Health and Nutrition Examination Survey (NHANES 2017-2018) and a controlled animal study. Nutr Metab (Lond) 2022 Dec 13;19(1):81. PMID: 36514155
  • Michels EHA, Butler JM, Reijnders TDY, Cremer OL et al. Association between age and the host response in critically ill patients with sepsis. Crit Care 2022 Dec 13;26(1):385. PMID: 36514130
  • Wu JJ, Zhu S, Tang YF, Gu F et al. Microbiota-host crosstalk in the newborn and adult rumen at single-cell resolution. BMC Biol 2022 Dec 14;20(1):280. PMID: 36514051
  • Liu M, Chen MY, Huang JM, Liu Q et al. LncRNA weighted gene co-expression network analysis reveals novel biomarkers related to prostate cancer metastasis. BMC Med Genomics 2022 Dec 13;15(1):256. PMID: 36514044
  • Wu W, Chen A, Lin S, Wang Q et al. The identification and verification of hub genes associated with pulmonary arterial hypertension using weighted gene co-expression network analysis. BMC Pulm Med 2022 Dec 13;22(1):474. PMID: 36514015
  • Sanders LM, Chandra R, Zebarjadi N, Beale HC et al. Machine learning multi-omics analysis reveals cancer driver dysregulation in pan-cancer cell lines compared to primary tumors. Commun Biol 2022 Dec 13;5(1):1367. PMID: 36513728
  • Barsoum M, Stenzel AT, Bochyńska A, Kuo CC et al. Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Sci Rep 2022 Dec 13;12(1):21506. PMID: 36513698
  • Carpenter MD, Fischer DK, Zhang S, Bond AM et al. Cell-type specific profiling of histone post-translational modifications in the adult mouse striatum. Nat Commun 2022 Dec 13;13(1):7720. PMID: 36513652
  • Lin X, Tian T, Wei Z, Hakonarson H et al. Clustering of single-cell multi-omics data with a multimodal deep learning method. Nat Commun 2022 Dec 13;13(1):7705. PMID: 36513636
  • Schang AL, Van Steenwinckel J, Ioannidou ZS, Lipecki J et al. Epigenetic priming of immune/inflammatory pathways activation and abnormal activity of cell cycle pathway in a perinatal model of white matter injury. Cell Death Dis 2022 Dec 13;13(12):1038. PMID: 36513635
  • Kang YE, Yi HS, Yeo MK, Kim JT et al. Increased Pro-Inflammatory T Cells, Senescent T Cells, and Immune-Check Point Molecules in the Placentas of Patients With Gestational Diabetes Mellitus. J Korean Med Sci 2022 Dec 12;37(48):e338. PMID: 36513052
  • Tang X, Luo Y, Yuan D, Calandrelli R et al. Long noncoding RNA LEENE promotes angiogenesis and ischemic recovery in diabetes models. J Clin Invest 2023 Feb 1;133(3). PMID: 36512424
  • Germanos AA, Arora S, Zheng Y, Goddard ET et al. Defining cellular population dynamics at single-cell resolution during prostate cancer progression. Elife 2022 Dec 13;11. PMID: 36511483
  • Zhao Y, Lei Y, Ning H, Zhang Y et al. PGF(2α) facilitates pathological retinal angiogenesis by modulating endothelial FOS-driven ELR(+) CXC chemokine expression. EMBO Mol Med 2023 Jan 11;15(1):e16373. PMID: 36511116
  • Bhattacharjee A, Roy PK et al. Conjoint hepatobiliary-enterohepatic cycles for amyloid excretion and enhancing its drug-induced clearance: a systems biology approach to Alzheimer's disease. J Biomol Struct Dyn 2022 Dec 12;:1-18. PMID: 36510663
  • Wu F, Chen J, Yao K, Fan D et al. The Infiltration of Neutrophil Granulocytes Due to Loss of PTEN Was Associated with Poor Response to Immunotherapy in Renal Cell Carcinoma. J Inflamm Res 2022;15:6553-6567. PMID: 36510494
  • Zhang L, Qian Y et al. An epithelial-mesenchymal transition-related prognostic model for colorectal cancer based on weighted gene co-expression network analysis. J Int Med Res 2022 Dec;50(12):3000605221140683. PMID: 36510452
  • Singh A, Rajeevan A, Gopalan V, Agrawal P et al. Broad misappropriation of developmental splicing profile by cancer in multiple organs. Nat Commun 2022 Dec 12;13(1):7664. PMID: 36509773
  • Guo X, Lin F, Yi C, Song J et al. Deep transfer learning enables lesion tracing of circulating tumor cells. Nat Commun 2022 Dec 12;13(1):7687. PMID: 36509761
  • Ramos SI, Mussa ZM, Falk EN, Pai B et al. An atlas of late prenatal human neurodevelopment resolved by single-nucleus transcriptomics. Nat Commun 2022 Dec 12;13(1):7671. PMID: 36509746
  • Jin J, Wu Y, Zhao Z, Wu Y et al. Small-molecule PROTAC mediates targeted protein degradation to treat STAT3-dependent epithelial cancer. JCI Insight 2022 Nov 22;7(22). PMID: 36509291
  • Yamamoto H, Uchida Y, Kurimoto R, Chiba T et al. RNA-binding protein LIN28A upregulates transcription factor HIF1α by posttranscriptional regulation via direct binding to UGAU motifs. J Biol Chem 2023 Jan;299(1):102791. PMID: 36509142
  • Han SK, Muto Y, Wilson PC, Humphreys BD et al. Quality assessment and refinement of chromatin accessibility data using a sequence-based predictive model. Proc Natl Acad Sci U S A 2022 Dec 20;119(51):e2212810119. PMID: 36508674
  • Dai X, Yang Z, Zhang W, Liu S et al. Identification of diagnostic gene biomarkers related to immune infiltration in patients with idiopathic pulmonary fibrosis based on bioinformatics strategies. Front Med (Lausanne) 2022;9:959010. PMID: 36507532
  • Maqsood H, Munir F, Amir R, Gul A et al. Genome-wide identification, comprehensive characterization of transcription factors, cis-regulatory elements, protein homology, and protein interaction network of DREB gene family in Solanum lycopersicum. Front Plant Sci 2022;13:1031679. PMID: 36507398
  • Ma W, Zhang X, Ma C, Liu P et al. Highly expressed FAM189B predicts poor prognosis in hepatocellular carcinoma. Pathol Oncol Res 2022;28:1610674. PMID: 36507118
  • Liu C, Li Z, Xi H et al. Bioinformatics analysis and in vivo validation of ferroptosis-related genes in ischemic stroke. Front Pharmacol 2022;13:940260. PMID: 36506580
  • He YJ, Cong L, Liang SL, Ma X et al. Discovery and validation of Ferroptosis-related molecular patterns and immune characteristics in Alzheimer's disease. Front Aging Neurosci 2022;14:1056312. PMID: 36506471
  • Bishara I, Chen J, Griffiths JI, Bild AH et al. A machine learning framework for scRNA-seq UMI threshold optimization and accurate classification of cell types. Front Genet 2022;13:982019. PMID: 36506328
  • Zhuge J, Wang X, Li J, Wang T et al. Construction of the model for predicting prognosis by key genes regulating EGFR-TKI resistance. Front Genet 2022;13:968376. PMID: 36506325
  • Gong J, Yang J, He Y, Chen X et al. Construction of m7G subtype classification on heterogeneity of sepsis. Front Genet 2022;13:1021770. PMID: 36506322
  • Wang L, Yu C, Tao Y, Yang X et al. Transcriptome analysis reveals potential marker genes for diagnosis of Alzheimer's disease and vascular dementia. Front Genet 2022;13:1038585. PMID: 36506318
  • Wang J, Zhang H, Wang C, Fu L et al. Forensic age estimation from human blood using age-related microRNAs and circular RNAs markers. Front Genet 2022;13:1031806. PMID: 36506317
  • Zhong Y, Chen X, Zhao J, Deng H et al. Integrative analyses of potential biomarkers and pathways for non-obstructive azoospermia. Front Genet 2022;13:988047. PMID: 36506310
  • Li Y, Peng G, Qin C, Wang X et al. Positive regulators of T cell proliferation as biomarkers for predicting prognosis and characterizing the immune landscape in lung adenocarcinoma. Front Genet 2022;13:1003754. PMID: 36506303
  • Liu Z, Zhu F, Zhang P, Qian B et al. Construction of cuproptosis-related gene signature to predict the prognosis and immunotherapy efficacy of patients with bladder cancer through bioinformatics analysis and experimental validation. Front Genet 2022;13:1074981. PMID: 36506302
  • Kodali S, Meyer-Nava S, Landry S, Chakraborty A et al. Epigenomic signatures associated with spontaneous and replication stress-induced DNA double strand breaks. Front Genet 2022;13:907547. PMID: 36506300
  • Qiao Z, Xing Y, Zhang Q, Tang Y et al. Tamoxifen resistance-related ceRNA network for breast cancer. Front Cell Dev Biol 2022;10:1023079. PMID: 36506097
  • Hadar S, Meller A, Saida N, Shalgi R et al. Stress-induced transcriptional readthrough into neighboring genes is linked to intron retention. iScience 2022 Dec 22;25(12):105543. PMID: 36505935
  • Li K, Wu LL, Wang H, Cheng H et al. The characterization of tumor microenvironment infiltration and the construction of predictive index based on cuproptosis-related gene in primary lung adenocarcinoma. Front Oncol 2022;12:1011568. PMID: 36505852
  • Luo L, Li F, Gong B, Xi P et al. A novel prognostic model based on cellular senescence-related gene signature for bladder cancer. Front Oncol 2022;12:937951. PMID: 36505846
  • Wang S, Wang H, Zhu S, Wang Z et al. PSMD2 promotes the progression of bladder cancer and is correlated with immune infiltration. Front Oncol 2022;12:1058506. PMID: 36505799
  • Jia D, Li L, Wang P, Feng Q et al. ZNF24 regulates the progression of KRAS mutant lung adenocarcinoma by promoting SLC7A5 translation. Front Oncol 2022;12:1043177. PMID: 36505791
  • Liu ZC, Li LH, Li DY, Gao ZQ et al. KIAA1429 regulates alternative splicing events of cancer-related genes in hepatocellular carcinoma. Front Oncol 2022;12:1060574. PMID: 36505780
  • Zhou H, Chen Y, Xiao Y, Wu Q et al. Evaluation of the ability of fatty acid metabolism signature to predict response to neoadjuvant chemoradiotherapy and prognosis of patients with locally advanced rectal cancer. Front Immunol 2022;13:1050721. PMID: 36505493
  • Cui G, Liu J, Wang M, Shon K et al. Crosstalk of angiogenesis-related subtypes, establishment of a prognostic signature and immune infiltration characteristics in colorectal adenocarcinoma. Front Immunol 2022;13:1049485. PMID: 36505481
  • Wang J, Xia W, Huang Y, Li H et al. A vasculogenic mimicry prognostic signature associated with immune signature in human gastric cancer. Front Immunol 2022;13:1016612. PMID: 36505458
  • Melsen JE, van Ostaijen-Ten Dam MM, Schoorl DJA, Schol PJ et al. Single-cell transcriptomics in bone marrow delineates CD56(dim)GranzymeK(+) subset as intermediate stage in NK cell differentiation. Front Immunol 2022;13:1044398. PMID: 36505452
  • Hu J, Huang Z, Yu M, Zhang P et al. Caspase-8 activation in neutrophils facilitates autoimmune kidney vasculitis through regulating CD4(+) effector memory T cells. Front Immunol 2022;13:1038134. PMID: 36505410
  • Maurya VK, Szwarc MM, Lonard DM, Gibbons WE et al. Decidualization of human endometrial stromal cells requires steroid receptor coactivator-3. Front Reprod Health 2022;4:1033581. PMID: 36505394
  • Ma L, Meng Q, Shi F, Liu J et al. Genome-wide analysis of maize PR-1 gene family and expression profiles induced by plant hormones and fungal phytopathogens. Am J Transl Res 2022;14(11):8315-8331. PMID: 36505298
  • Xu L, Fan Y, Wang J, Shi R et al. Dysfunctional intercellular communication and metabolic signaling pathways in thin endometrium. Front Physiol 2022;13:1050690. PMID: 36505055
  • Wu R, Yu I, Tokumaru Y, Asaoka M et al. Elevated bile acid metabolism and microbiome are associated with suppressed cell proliferation and better survival in breast cancer. Am J Cancer Res 2022;12(11):5271-5285. PMID: 36504906
  • Bhoi TK, Samal I, Majhi PK, Komal J et al. Insight into aphid mediated Potato Virus Y transmission: A molecular to bioinformatics prospective. Front Microbiol 2022;13:1001454. PMID: 36504828
  • Powers EN, Chan C, Doron-Mandel E, Llacsahuanga Allcca L et al. Bidirectional promoter activity from expression cassettes can drive off-target repression of neighboring gene translation. Elife 2022 Dec 12;11. PMID: 36503721
  • Rizzello C, Cancila V, Sangaletti S, Botti L et al. Intracellular osteopontin protects from autoimmunity-driven lymphoma development inhibiting TLR9-MYD88-STAT3 signaling. Mol Cancer 2022 Dec 12;21(1):215. PMID: 36503430
  • Jeong YJ, Kim YC, Lee JS, Kim DG et al. Reduced Expression of PRX2/ATPRX1, PRX8, PRX35, and PRX73 Affects Cell Elongation, Vegetative Growth, and Vasculature Structures in Arabidopsis thaliana. Plants (Basel) 2022 Dec 2;11(23). PMID: 36501391
  • Yue Q, Li Z, Zhang Q, Jin Q et al. Identification of Novel Hub Genes Associated with Psoriasis Using Integrated Bioinformatics Analysis. Int J Mol Sci 2022 Dec 4;23(23). PMID: 36499614
  • Joshi S, Awan H, Paul P, Tian R et al. Revisiting AGAMOUS-LIKE15, a Key Somatic Embryogenesis Regulator, Using Next Generation Sequencing Analysis in Arabidopsis. Int J Mol Sci 2022 Dec 1;23(23). PMID: 36499403
  • De Vitis C, D'Ascanio M, Sacconi A, Pizzirusso D et al. B4GALT1 as a New Biomarker of Idiopathic Pulmonary Fibrosis. Int J Mol Sci 2022 Nov 30;23(23). PMID: 36499368
  • Huang Z, Gong L, Jin Y, Stanton C et al. Different Effects of Different Lactobacillus acidophilus Strains on DSS-Induced Colitis. Int J Mol Sci 2022 Nov 27;23(23). PMID: 36499169
  • Ding P, Liu L, Bin Y, Huang Y et al. T Cell-Mediated Tumor Killing-Related Classification of the Immune Microenvironment and Prognosis Prediction of Lung Adenocarcinoma. J Clin Med 2022 Dec 5;11(23). PMID: 36498802
  • Wang T, Wang Z, Yang J, Chen Y et al. Screening and Identification of Key Biomarkers in Metastatic Uveal Melanoma: Evidence from a Bioinformatic Analysis. J Clin Med 2022 Dec 5;11(23). PMID: 36498797
  • Gante I, Ribeiro JM, Mendes J, Gomes A et al. One Step Nucleic Acid Amplification (OSNA) Lysate Samples Are Suitable to Establish a Transcriptional Metastatic Signature in Patients with Early Stage Hormone Receptors-Positive Breast Cancer. Cancers (Basel) 2022 Nov 28;14(23). PMID: 36497336
  • Sallam M, Mysara M, Baatout S, Guns PJ et al. Meta-Analysis of RNA-Seq Datasets Identifies Novel Players in Glioblastoma. Cancers (Basel) 2022 Nov 24;14(23). PMID: 36497269
  • Kang H, Fichna J, Matlawska-Wasowska K, Jacenik D et al. The Expression Pattern of Adhesion G Protein-Coupled Receptor F5 Is Related to Cell Adhesion and Metastatic Pathways in Colorectal Cancer-Comprehensive Study Based on In Silico Analysis. Cells 2022 Dec 1;11(23). PMID: 36497132
  • Chen Z, Wei Y, Zheng Y, Zhu H et al. SERPINB2, an Early Responsive Gene to Epigallocatechin Gallate, Inhibits Migration and Promotes Apoptosis in Esophageal Cancer Cells. Cells 2022 Nov 30;11(23). PMID: 36497110
  • Paul AM, Amjesh R, George B, Sankaran D et al. The Revelation of Continuously Organized, Co-Overexpressed Protein-Coding Genes with Roles in Cellular Communications in Breast Cancer. Cells 2022 Nov 28;11(23). PMID: 36497066
  • Wei R, Song L, Miao Z, Liu K et al. Hydroxysafflor Yellow A Exerts Neuroprotective Effects via HIF-1α/BNIP3 Pathway to Activate Neuronal Autophagy after OGD/R. Cells 2022 Nov 22;11(23). PMID: 36496986
  • Chan LLY, Anderson DE, Cheng HS, Ivan FX et al. The establishment of COPD organoids to study host-pathogen interaction reveals enhanced viral fitness of SARS-CoV-2 in bronchi. Nat Commun 2022 Dec 10;13(1):7635. PMID: 36496442
  • Chen Q, Huang L, Pan D, Hu K et al. A brown fat-enriched adipokine Adissp controls adipose thermogenesis and glucose homeostasis. Nat Commun 2022 Dec 10;13(1):7633. PMID: 36496438
  • Jiang Y, Han L, Xue M, Wang T et al. Cystatin B increases autophagic flux by sustaining proteolytic activity of cathepsin B and fuels glycolysis in pancreatic cancer: CSTB orchestrates autophagy and glycolysis in PDAC. Clin Transl Med 2022 Dec;12(12):e1126. PMID: 36495123
  • Pérez-Benavente B, Fathinajafabadi A, de la Fuente L, Gandía C et al. New roles for AP-1/JUNB in cell cycle control and tumorigenic cell invasion via regulation of cyclin E1 and TGF-β2. Genome Biol 2022 Dec 9;23(1):252. PMID: 36494864
  • Shi H, Tsang Y, Yang Y et al. Identification of CEACAM5 as a stemness-related inhibitory immune checkpoint in pancreatic cancer. BMC Cancer 2022 Dec 9;22(1):1291. PMID: 36494785
  • Quereda C, Pastor À, Martín-Nieto J et al. Involvement of abnormal dystroglycan expression and matriglycan levels in cancer pathogenesis. Cancer Cell Int 2022 Dec 9;22(1):395. PMID: 36494657
  • Matsumura Y, To TK, Kunieda T, Kohno H et al. Mblk-1/E93, an ecdysone related-transcription factor, targets synaptic plasticity-related genes in the honey bee mushroom bodies. Sci Rep 2022 Dec 9;12(1):21367. PMID: 36494426
  • Lee DE, McKay LK, Bareja A, Li Y et al. Meteorin-like is an injectable peptide that can enhance regeneration in aged muscle through immune-driven fibro/adipogenic progenitor signaling. Nat Commun 2022 Dec 9;13(1):7613. PMID: 36494364
  • Nichols RV, O'Connell BL, Mulqueen RM, Thomas J et al. High-throughput robust single-cell DNA methylation profiling with sciMETv2. Nat Commun 2022 Dec 9;13(1):7627. PMID: 36494343
  • Berastegui N, Ainciburu M, Romero JP, Garcia-Olloqui P et al. The transcription factor DDIT3 is a potential driver of dyserythropoiesis in myelodysplastic syndromes. Nat Commun 2022 Dec 9;13(1):7619. PMID: 36494342
  • Sun X, Ni Y, Lu Q, Liang Y et al. Mechanistic target of rapamycin complex 1 orchestrates the interplay between hepatocytes and Kupffer cells to determine the outcome of immune-mediated hepatitis. Cell Death Dis 2022 Dec 9;13(12):1031. PMID: 36494334
  • Sinha S, Sparks HD, Labit E, Robbins HN et al. Fibroblast inflammatory priming determines regenerative versus fibrotic skin repair in reindeer. Cell 2022 Dec 8;185(25):4717-4736.e25. PMID: 36493752
  • Meroni A, Grosser J, Agashe S, Ramakrishnan N et al. NEDDylated Cullin 3 mediates the adaptive response to topoisomerase 1 inhibitors. Sci Adv 2022 Dec 9;8(49):eabq0648. PMID: 36490343
  • Yang Y, Chen C, Zuo Q, Lu H et al. NARF is a hypoxia-induced coactivator for OCT4-mediated breast cancer stem cell specification. Sci Adv 2022 Dec 9;8(49):eabo5000. PMID: 36490339
  • Li F, Negi V, Yang P, Lee J et al. TEAD1 regulates cell proliferation through a pocket-independent transcription repression mechanism. Nucleic Acids Res 2022 Dec 9;50(22):12723-12738. PMID: 36484096
  • Wang H, Zhan Y, Peng S, Fan S et al. Targeting ALDH1A1 to induce Necroptosis in Nasopharyngeal Carcinoma. J Cancer 2022;13(14):3515-3525. PMID: 36484016
  • Wu H, He H, Huang J, Wang C et al. Identification and validation of transferrin receptor protein 1 for predicting prognosis and immune infiltration in lower grade glioma. Front Mol Neurosci 2022;15:972308. PMID: 36483569
  • Pang Q, Chen H, Wu H, Wang Y et al. N6-methyladenosine regulators-related immune genes enable predict graft loss and discriminate T-cell mediate rejection in kidney transplantation biopsies for cause. Front Immunol 2022;13:1039013. PMID: 36483557
  • He K, Li C, Yuan H, Jiang K et al. Immunological role and prognostic value of SPARCL1 in pan-cancer analysis. Pathol Oncol Res 2022;28:1610687. PMID: 36483097
  • Sun R, Gao Y, Shen F et al. Identification of subtypes of hepatocellular carcinoma and screening of prognostic molecular diagnostic markers based on cell adhesion molecule related genes. Front Genet 2022;13:1042540. PMID: 36482887
  • Semina SE, Alejo LH, Chopra S, Kansara NS et al. Identification of a novel ER-NFĸB-driven stem-like cell population associated with relapse of ER+ breast tumors. Breast Cancer Res 2022 Dec 8;24(1):88. PMID: 36482488
  • Petrzilek J, Pasulka J, Malik R, Horvat F et al. De novo emergence, existence, and demise of a protein-coding gene in murids. BMC Biol 2022 Dec 8;20(1):272. PMID: 36482406
  • Zhong ME, Duan X, Ni-Jia-Ti MY, Qi H et al. CT-based radiogenomic analysis dissects intratumor heterogeneity and predicts prognosis of colorectal cancer: a multi-institutional retrospective study. J Transl Med 2022 Dec 8;20(1):574. PMID: 36482390
  • Brink KR, Hunt MG, Mu AM, Groszman K et al. An E. coli display method for characterization of peptide-sensor kinase interactions. Nat Chem Biol 2023 Apr;19(4):451-459. PMID: 36482094
  • Butti E, Cattaneo S, Bacigaluppi M, Cambiaghi M et al. Neural precursor cells tune striatal connectivity through the release of IGFBPL1. Nat Commun 2022 Dec 8;13(1):7579. PMID: 36482070
  • Taguchi YH, Turki T et al. A tensor decomposition-based integrated analysis applicable to multiple gene expression profiles without sample matching. Sci Rep 2022 Dec 8;12(1):21242. PMID: 36481877
  • Leap K, Yotova I, Horvath S, Martinez-Agosto JA et al. Epigenetic age provides insight into tissue origin in endometriosis. Sci Rep 2022 Dec 8;12(1):21281. PMID: 36481772
  • Lee B, Kim SK, Shin YJ, Son YH et al. Genome-wide analysis of a cellular exercise model based on electrical pulse stimulation. Sci Rep 2022 Dec 8;12(1):21251. PMID: 36481702
  • Kim IS, Lee SG, Shin SG, Jeong H et al. Dysregulated thrombospondin 1 and miRNA-29a-3p in severe COVID-19. Sci Rep 2022 Dec 8;12(1):21227. PMID: 36481664
  • Saarimäki LA, Morikka J, Pavel A, Korpilähde S et al. Toxicogenomics Data for Chemical Safety Assessment and Development of New Approach Methodologies: An Adverse Outcome Pathway-Based Approach. Adv Sci (Weinh) 2023 Jan;10(2):e2203984. PMID: 36479815
  • Taylor JY, Huang Y, Zhao W, Wright ML et al. Epigenome-wide association study of BMI in Black populations from InterGEN and GENOA. Obesity (Silver Spring) 2023 Jan;31(1):243-255. PMID: 36479596
  • Deng J, Zhao N, Lv LP, Ma P et al. Integrated analysis of multiple microarray studies to establish differential diagnostic models of Crohn's disease and ulcerative colitis based on a metalloproteinase-associated module. Front Immunol 2022;13:1022850. PMID: 36479126
  • Zhou J, Xu M, Tan J, Zhou L et al. MMP1 acts as a potential regulator of tumor progression and dedifferentiation in papillary thyroid cancer. Front Oncol 2022;12:1030590. PMID: 36479070
  • Xiao Y, Yang J, Yang M, Len J et al. The prognosis of bladder cancer is affected by fatty acid metabolism, inflammation, and hypoxia. Front Oncol 2022;12:916850. PMID: 36479065
  • Wu XJ, Gao J, Mu BJ, Yu LM et al. Transcriptomic analysis of LMH cells in response to the overexpression of a protein of Eimeria tenella encoded by the locus ETH_00028350. Front Vet Sci 2022;9:1053701. PMID: 36478946
  • Istiaq A, Umemoto T, Ito N, Suda T et al. Tsukushi proteoglycan maintains RNA splicing and developmental signaling network in GFAP-expressing subventricular zone neural stem/progenitor cells. Front Cell Dev Biol 2022;10:994588. PMID: 36478736
  • Zhang Z, Shi Y, Zhu Z, Fu J et al. Characterization of myeloid signature genes for predicting prognosis and immune landscape in Ewing sarcoma. Cancer Sci 2023 Apr;114(4):1240-1255. PMID: 36478349
  • Flanagan DJ, Amirkhah R, Vincent DF, Gunduz N et al. Epithelial TGFβ engages growth-factor signalling to circumvent apoptosis and drive intestinal tumourigenesis with aggressive features. Nat Commun 2022 Dec 7;13(1):7551. PMID: 36477656
  • Shen P, Chen L, Zhang D, Xia S et al. Rapid induction and long-term self-renewal of neural crest-derived ectodermal chondrogenic cells from hPSCs. NPJ Regen Med 2022 Dec 8;7(1):69. PMID: 36477591
  • Qian K, Tol MJ, Wu J, Uchiyama LF et al. CLSTN3β enforces adipocyte multilocularity to facilitate lipid utilization. Nature 2023 Jan;613(7942):160-168. PMID: 36477540
  • Labarre A, Guitard E, Tossing G, Forest A et al. Fatty acids derived from the probiotic Lacticaseibacillus rhamnosus HA-114 suppress age-dependent neurodegeneration. Commun Biol 2022 Dec 7;5(1):1340. PMID: 36477191
  • Dai T, Rosario SR, Katsuta E, Sawant Dessai A et al. Hypoxic activation of PFKFB4 in breast tumor microenvironment shapes metabolic and cellular plasticity to accentuate metastatic competence. Cell Rep 2022 Dec 6;41(10):111756. PMID: 36476868
  • Kaserman JE, Werder RB, Wang F, Matte T et al. Human iPSC-hepatocyte modeling of alpha-1 antitrypsin heterozygosity reveals metabolic dysregulation and cellular heterogeneity. Cell Rep 2022 Dec 6;41(10):111775. PMID: 36476855
  • Alečković M, Cristea S, Gil Del Alcazar CR, Yan P et al. Breast cancer prevention by short-term inhibition of TGFβ signaling. Nat Commun 2022 Dec 7;13(1):7558. PMID: 36476730
  • Ma L, Heinrich S, Wang L, Keggenhoff FL et al. Multiregional single-cell dissection of tumor and immune cells reveals stable lock-and-key features in liver cancer. Nat Commun 2022 Dec 7;13(1):7533. PMID: 36476645
  • Gao C, Zhou G, Shi J, Shi P et al. The A-to-I editing of KPC1 promotes intrahepatic cholangiocarcinoma by attenuating proteasomal processing of NF-κB1 p105 to p50. J Exp Clin Cancer Res 2022 Dec 8;41(1):338. PMID: 36476255
  • Moravec JC, Lanfear R, Spector DL, Diermeier SD et al. Testing for Phylogenetic Signal in Single-Cell RNA-Seq Data. J Comput Biol 2023 Apr;30(4):518-537. PMID: 36475926
  • Rexius-Hall ML, Khalil NN, Escopete SS, Li X et al. A myocardial infarct border-zone-on-a-chip demonstrates distinct regulation of cardiac tissue function by an oxygen gradient. Sci Adv 2022 Dec 9;8(49):eabn7097. PMID: 36475790
  • Gupta K, Wang G, Zhang S, Gao X et al. StripeDiff: Model-based algorithm for differential analysis of chromatin stripe. Sci Adv 2022 Dec 9;8(49):eabk2246. PMID: 36475785
  • Buzzatto-Leite I, Afonso J, Silva-Vignato B, Coutinho LL et al. Differential gene co-expression network analyses reveal novel molecules associated with transcriptional dysregulation of key biological processes in osteoarthritis knee cartilage. Osteoarthr Cartil Open 2022 Dec;4(4):100316. PMID: 36474801
  • Wei R, Feng Y et al. Noncoding RNA in the Regulation of Acute Aortic Dissection: From Profile to Mechanism. Cardiovasc Ther 2022;2022:2371401. PMID: 36474715
  • Zhang G, Liu Z, Deng J, Liu L et al. Smooth muscle cell fate decisions decipher a high-resolution heterogeneity within atherosclerosis molecular subtypes. J Transl Med 2022 Dec 6;20(1):568. PMID: 36474294
  • Wang L, Qiu M, Wu L, Li Z et al. Construction and validation of prognostic signature for hepatocellular carcinoma basing on hepatitis B virus related specific genes. Infect Agent Cancer 2022 Dec 6;17(1):60. PMID: 36474267
  • Shen Y, Zhao P, Dong K, Wang J et al. Tadalafil increases the antitumor activity of 5-FU through inhibiting PRMT5-mediated glycolysis and cell proliferation in colorectal cancer. Cancer Metab 2022 Dec 6;10(1):22. PMID: 36474242
  • Hossain MU, Ferdous N, Reza MN, Ahammad I et al. Pathogen-driven gene expression patterns lead to a novel approach to the identification of common therapeutic targets. Sci Rep 2022 Dec 6;12(1):21070. PMID: 36473896
  • Liu J, Pan L, Hong W, Chen S et al. GPR174 knockdown enhances blood flow recovery in hindlimb ischemia mice model by upregulating AREG expression. Nat Commun 2022 Dec 6;13(1):7519. PMID: 36473866
  • Zhang B, Liu Q, Wen W, Gao H et al. The chromatin remodeler CHD6 promotes colorectal cancer development by regulating TMEM65-mediated mitochondrial dynamics via EGF and Wnt signaling. Cell Discov 2022 Dec 6;8(1):130. PMID: 36473865
  • Alharthi J, Bayoumi A, Thabet K, Pan Z et al. A metabolic associated fatty liver disease risk variant in MBOAT7 regulates toll like receptor induced outcomes. Nat Commun 2022 Dec 6;13(1):7430. PMID: 36473860
  • He F, Yu Q, Wang M, Wang R et al. SESAME-catalyzed H3T11 phosphorylation inhibits Dot1-catalyzed H3K79me3 to regulate autophagy and telomere silencing. Nat Commun 2022 Dec 6;13(1):7526. PMID: 36473858
  • Haensel D, Gaddam S, Li NY, Gonzalez F et al. LY6D marks pre-existing resistant basosquamous tumor subpopulations. Nat Commun 2022 Dec 6;13(1):7520. PMID: 36473848
  • Weber R, Kleemann L, Hirschberg I, Chung MY et al. DAP5 enables main ORF translation on mRNAs with structured and uORF-containing 5' leaders. Nat Commun 2022 Dec 6;13(1):7510. PMID: 36473845
  • Carvajal-Oliveros A, Uriostegui-Arcos M, Zurita M, Melchy-Perez EI et al. The BE (2)-M17 cell line has a better dopaminergic phenotype than the traditionally used for Parkinson´s research SH-SY5Y, which is mostly serotonergic. IBRO Neurosci Rep 2022 Dec;13:543-551. PMID: 36471713
  • Nie M, Ren W, Ye X, Berglund M et al. The dual role of CD70 in B-cell lymphomagenesis. Clin Transl Med 2022 Dec;12(12):e1118. PMID: 36471481
  • Kuramoto J, Arai E, Fujimoto M, Tian Y et al. Quantification of DNA methylation for carcinogenic risk estimation in patients with non-alcoholic steatohepatitis. Clin Epigenetics 2022 Dec 5;14(1):168. PMID: 36471401
  • Zou C, Xu S, Geng H, Li E et al. Bioinformatics analysis identifies potential hub genes and crucial pathways in the pathogenesis of asthenozoospermia. BMC Med Genomics 2022 Dec 5;15(1):252. PMID: 36471356
  • Chen J, Lv S, Huang B, Ma X et al. Upregulation of SCD1 by ErbB2 via LDHA promotes breast cancer cell migration and invasion. Med Oncol 2022 Dec 5;40(1):40. PMID: 36471172
  • Liu I, Jiang L, Samuelsson ER, Marco Salas S et al. The landscape of tumor cell states and spatial organization in H3-K27M mutant diffuse midline glioma across age and location. Nat Genet 2022 Dec;54(12):1881-1894. PMID: 36471067
  • Saini S, Khurana S, Saini D, Rajput S et al. In silico analysis of genomic landscape of SARS-CoV-2 and its variant of concerns (Delta and Omicron) reveals changes in the coding potential of miRNAs and their target genes. Gene 2023 Feb 15;853:147097. PMID: 36470485
  • Kuo CS, Darmanis S, Diaz de Arce A, Liu Y et al. Neuroendocrinology of the lung revealed by single-cell RNA sequencing. Elife 2022 Dec 5;11. PMID: 36469459
  • Gao XY, Lai YY, Luo XS, Peng DW et al. Acetyltransferase p300 regulates atrial fibroblast senescence and age-related atrial fibrosis through p53/Smad3 axis. Aging Cell 2023 Jan;22(1):e13743. PMID: 36468256
  • Kou W, Zhao N, Zhao L, Yin Z et al. Single-cell characterization revealed hypoxia-induced metabolic reprogramming of gastric cancer. Heliyon 2022 Nov;8(11):e11866. PMID: 36468095
  • Liu Q, Hao T, Li L, Huang D et al. Construction of a mitochondrial dysfunction related signature of diagnosed model to obstructive sleep apnea. Front Genet 2022;13:1056691. PMID: 36468038
  • Wang Y, Zhou W, Chen Y, He D et al. Identification of susceptibility modules and hub genes of osteoarthritis by WGCNA analysis. Front Genet 2022;13:1036156. PMID: 36468029
  • Yu Y, Huang Y, Li C, Ou S et al. Clinical value of M1 macrophage-related genes identification in bladder urothelial carcinoma and in vitro validation. Front Genet 2022;13:1047004. PMID: 36468020
  • Shinawi T, Nasser KK, Moradi FA, Mujalli A et al. A comparative mRNA- and miRNA transcriptomics reveals novel molecular signatures associated with metastatic prostate cancers. Front Genet 2022;13:1066118. PMID: 36468011
  • Sun JJ, Chen B, Yu T et al. Construction of an immune-related ceRNA network to screen for potential diagnostic markers for autism spectrum disorder. Front Genet 2022;13:1025813. PMID: 36468003
  • Liang H, Zhao Y, Liu K, Xiao Y et al. The mechanism of lncRNAs in the crosstalk between epithelial-mesenchymal transition and tumor microenvironment for early colon adenocarcinoma based on molecular subtyping. Front Genet 2022;13:997739. PMID: 36467998
  • Zhu Z, Zhao Q, Li S, Weng J et al. Comprehensive analysis of cuproptosis-related lncRNAs to predict prognosis and immune infiltration characteristics in colorectal cancer. Front Genet 2022;13:984743. PMID: 36467996
  • Wang B, Fu C, Wei Y, Xu B et al. Ferroptosis-related biomarkers for Alzheimer's disease: Identification by bioinformatic analysis in hippocampus. Front Cell Neurosci 2022;16:1023947. PMID: 36467613
  • Zhu J, Kong W, Huang L, Wang S et al. MLSP: A bioinformatics tool for predicting molecular subtypes and prognosis in patients with breast cancer. Comput Struct Biotechnol J 2022;20:6412-6426. PMID: 36467575
  • Cao YJ, Zheng YH, Li Q, Zheng J et al. MSC Senescence-Related Genes Are Associated with Myeloma Prognosis and Lipid Metabolism-Mediated Resistance to Proteasome Inhibitors. J Oncol 2022;2022:4705654. PMID: 36467498
  • Luo K, Liu S, Shen X, Xu J et al. Integration of cancer stemness and neoantigen load to predict responsiveness to anti-PD1/PDL1 therapy. Front Cell Dev Biol 2022;10:1003656. PMID: 36467413
  • Chen Y, Jiang N, Chen M, Sui B et al. Identification of tumor antigens and immune subtypes in head and neck squamous cell carcinoma for mRNA vaccine development. Front Cell Dev Biol 2022;10:1064754. PMID: 36467412
  • Messinis DE, Poussin C, Latino DARS, Eb-Levadoux Y et al. Systems biology reveals anatabine to be an NRF2 activator. Front Pharmacol 2022;13:1011184. PMID: 36467029
  • Guan X, Liu Y, Xin W, Qin S et al. Activation of EP4 alleviates AKI-to-CKD transition through inducing CPT2-mediated lipophagy in renal macrophages. Front Pharmacol 2022;13:1030800. PMID: 36467025
  • Hu Y, Cai J, Ye M, Mou Q et al. Development and validation of immunogenic cell death-related signature for predicting the prognosis and immune landscape of uveal melanoma. Front Immunol 2022;13:1037128. PMID: 36466923
  • Zhu Y, Sun X, Tan S, Luo C et al. M2 macrophage-related gene signature in chronic rhinosinusitis with nasal polyps. Front Immunol 2022;13:1047930. PMID: 36466903
  • Ijima S, Saito Y, Nagaoka K, Yamamoto S et al. Fisetin reduces the senescent tubular epithelial cell burden and also inhibits proliferative fibroblasts in murine lupus nephritis. Front Immunol 2022;13:960601. PMID: 36466895
  • Yuan Y, Fu M, Li N, Ye M et al. Identification of immune infiltration and cuproptosis-related subgroups in Crohn's disease. Front Immunol 2022;13:1074271. PMID: 36466876
  • Yan X, Zhang X, Wu HH, Wu SJ et al. Novel T-cell signature based on cell pair algorithm predicts survival and immunotherapy response for patients with bladder urothelial carcinoma. Front Immunol 2022;13:994594. PMID: 36466869
  • Liu X, Liu D, Zhou S, Jiang W et al. CARARIME: Interactive web server for comprehensive analysis of renal allograft rejection in immune microenvironment. Front Immunol 2022;13:1026280. PMID: 36466852
  • Xu Y, Chen Y, Jiang W, Yin X et al. Identification of fatty acid metabolism-related molecular subtype biomarkers and their correlation with immune checkpoints in cutaneous melanoma. Front Immunol 2022;13:967277. PMID: 36466837
  • Sun T, Zeng L, Cai Z, Liu Q et al. Comprehensive analysis of dysregulated circular RNAs and construction of a ceRNA network involved in the pathology of Alzheimer's disease in a 5 × FAD mouse model. Front Aging Neurosci 2022;14:1020699. PMID: 36466608
  • Li C, Zhang Y, Xiao Y, Luo Y et al. Identifying the Effect of COVID-19 Infection in Multiple Myeloma and Diffuse Large B-Cell Lymphoma Patients Using Bioinformatics and System Biology. Comput Math Methods Med 2022;2022:7017317. PMID: 36466549
  • Guan Y, Tanwar UK, Sobieszczuk-Nowicka E, Floryszak-Wieczorek J et al. Comparative genomic analysis of the aldehyde dehydrogenase gene superfamily in Arabidopsis thaliana - searching for the functional key to hypoxia tolerance. Front Plant Sci 2022;13:1000024. PMID: 36466248
  • Liu W, Wan M, Shi Y, Yang XZ et al. Transcriptomic analysis identifies shared biological foundations between ischemic stroke and Alzheimer's disease. Front Neurosci 2022;16:1008752. PMID: 36466169
  • Lin N, Lin J, Plosch T, Sun P et al. An Oxidative Stress-Related Gene Signature in Granulosa Cells Is Associated with Ovarian Aging. Oxid Med Cell Longev 2022;2022:1070968. PMID: 36466095
  • Zhang Q, Li J, Shen H, Bai X et al. Screening and validation of lymph node metastasis risk-factor genes in papillary thyroid carcinoma. Front Endocrinol (Lausanne) 2022;13:991906. PMID: 36465624
  • Ibáñez-Molero S, van Vliet A, Pozniak J, Hummelink K et al. SERPINB9 is commonly amplified and high expression in cancer cells correlates with poor immune checkpoint blockade response. Oncoimmunology 2022;11(1):2139074. PMID: 36465485
  • Zhong Z, Zhang H, Xu T, Hao J et al. Identification and verification of immune-related biomarkers and immune infiltration in diabetic heart failure. Front Cardiovasc Med 2022;9:931066. PMID: 36465455
  • Zhang J, Chen M, Fang C, Luo P et al. A cancer-associated fibroblast gene signature predicts prognosis and therapy response in patients with pancreatic cancer. Front Oncol 2022;12:1052132. PMID: 36465388
  • Yang S, Yuan Y, Ren W, Wang H et al. MCM4 is a novel prognostic biomarker and promotes cancer cell growth in glioma. Front Oncol 2022;12:1004324. PMID: 36465369
  • Bin T, Lin C, Liu FJ, Wang Y et al. Establishment of a risk model correlated with metabolism based on RNA-binding proteins associated with cell pyroptosis in acute myeloid leukemia. Front Oncol 2022;12:1059978. PMID: 36465357
  • Mehl JL, Earle A, Lammerding J, Mhlanga M et al. Blockage of lamin-A/C loss diminishes the pro-inflammatory macrophage response. iScience 2022 Dec 22;25(12):105528. PMID: 36465100
  • Xu G, Li C, Di Z, Yang Y et al. Development of the expression and prognostic significance of m(5) C-related LncRNAs in breast cancer. Cancer Med 2023 Mar;12(6):7667-7681. PMID: 36464884
  • Zhang S, Hu X, Dong J, Du M et al. Identification, evolution, and expression analysis of OsBSK gene family in Oryza sativa Japonica. BMC Plant Biol 2022 Dec 5;22(1):565. PMID: 36464674
  • Jones C, Avino M, Giroux V, Boudreau F et al. HNF4α Acts as Upstream Functional Regulator of Intestinal Wnt3 and Paneth Cell Fate. Cell Mol Gastroenterol Hepatol 2023;15(3):593-612. PMID: 36464209
  • Shao T, Xie Y, Shi J, Yang C et al. Surveying lncRNA-lncRNA cooperations reveals dominant effect on tumor immunity cross cancers. Commun Biol 2022 Dec 3;5(1):1324. PMID: 36463330
  • Murgas KA, Saucan E, Sandhu R et al. Hypergraph geometry reflects higher-order dynamics in protein interaction networks. Sci Rep 2022 Dec 3;12(1):20879. PMID: 36463292
  • Doebley AL, Ko M, Liao H, Cruikshank AE et al. A framework for clinical cancer subtyping from nucleosome profiling of cell-free DNA. Nat Commun 2022 Dec 3;13(1):7475. PMID: 36463275
  • Leung D, Price ZK, Lokman NA, Wang W et al. Platinum-resistance in epithelial ovarian cancer: an interplay of epithelial-mesenchymal transition interlinked with reprogrammed metabolism. J Transl Med 2022 Dec 3;20(1):556. PMID: 36463238
  • Zhang W, Zhang Q, Zhu C, Shi Z et al. The intrarenal landscape of T cell receptor repertoire in clear cell renal cell cancer. J Transl Med 2022 Dec 3;20(1):558. PMID: 36463235
  • Janke F, Angeles AK, Riediger AL, Bauer S et al. Longitudinal monitoring of cell-free DNA methylation in ALK-positive non-small cell lung cancer patients. Clin Epigenetics 2022 Dec 2;14(1):163. PMID: 36461127
  • Gao Y, Pan T, Xu G, Li S et al. Pan-cancer illumination of TRIM gene family reveals immunology regulation and potential therapeutic implications. Hum Genomics 2022 Dec 2;16(1):65. PMID: 36461099
  • Panatta E, Butera A, Celardo I, Leist M et al. p53 regulates expression of nuclear envelope components in cancer cells. Biol Direct 2022 Dec 2;17(1):38. PMID: 36461070
  • Gu Y, Xu ZJ, Zhou JD, Wen XM et al. SLC22A3 methylation-mediated gene silencing predicts adverse prognosis in acute myeloid leukemia. Clin Epigenetics 2022 Dec 2;14(1):162. PMID: 36461046
  • Zhu M, Zhang J, Bian S, Zhang X et al. Circadian gene CSNK1D promoted the progression of hepatocellular carcinoma by activating Wnt/β-catenin pathway via stabilizing Dishevelled Segment Polarity Protein 3. Biol Proced Online 2022 Dec 2;24(1):21. PMID: 36460966
  • Loaeza-Loaeza J, Cerecedo-Castillo AJ, Rodríguez-Ruiz HA, Castro-Coronel Y et al. DNMT3B overexpression downregulates genes with CpG islands, common motifs, and transcription factor binding sites that interact with DNMT3B. Sci Rep 2022 Dec 2;12(1):20839. PMID: 36460706
  • Demin KA, Krotova NA, Ilyin NP, Galstyan DS et al. Evolutionarily conserved gene expression patterns for affective disorders revealed using cross-species brain transcriptomic analyses in humans, rats and zebrafish. Sci Rep 2022 Dec 2;12(1):20836. PMID: 36460699
  • Zhang Y, Blanchette M et al. Reference panel guided topological structure annotation of Hi-C data. Nat Commun 2022 Dec 2;13(1):7426. PMID: 36460680
  • Cattaneo P, Hayes MGB, Baumgarten N, Hecker D et al. DOT1L regulates chamber-specific transcriptional networks during cardiogenesis and mediates postnatal cell cycle withdrawal. Nat Commun 2022 Dec 2;13(1):7444. PMID: 36460641
  • Lu L, Li Y, Ao X, Huang J et al. The risk of COVID-19 can be predicted by a nomogram based on m6A-related genes. Infect Genet Evol 2022 Dec;106:105389. PMID: 36460278
  • Alsafadi HN, Stegmayr J, Ptasinski V, Silva I et al. Simultaneous isolation of proximal and distal lung progenitor cells from individual mice using a 3D printed guide reduces proximal cell contamination of distal lung epithelial cell isolations. Stem Cell Reports 2022 Dec 13;17(12):2718-2731. PMID: 36460000
  • Du JH, Cai Z, Roeder K et al. Robust probabilistic modeling for single-cell multimodal mosaic integration and imputation via scVAEIT. Proc Natl Acad Sci U S A 2022 Dec 6;119(49):e2214414119. PMID: 36459654
  • Camps J, Noël F, Liechti R, Massenet-Regad L et al. Meta-Analysis of Human Cancer Single-Cell RNA-Seq Datasets Using the IMMUcan Database. Cancer Res 2023 Feb 3;83(3):363-373. PMID: 36459564
  • Li X, Gordon PJ, Gaynes JA, Fuller AW et al. Lhx2 is a progenitor-intrinsic modulator of Sonic Hedgehog signaling during early retinal neurogenesis. Elife 2022 Dec 2;11. PMID: 36459481
  • Shu Z, Long Q, Zhang L, Yu Z et al. Robust Graph Regularized NMF with Dissimilarity and Similarity Constraints for ScRNA-seq Data Clustering. J Chem Inf Model 2022 Dec 12;62(23):6271-6286. PMID: 36459053
  • Ma X, Fan L, Zhang Z, Yang X et al. Global dissection of the recombination landscape in soybean using a high-density 600K SoySNP array. Plant Biotechnol J 2023 Mar;21(3):606-620. PMID: 36458856
  • Andreyeva EN, Emelyanov AV, Nevil M, Sun L et al. Drosophila SUMM4 complex couples insulator function and DNA replication control. Elife 2022 Dec 2;11. PMID: 36458689
  • Li HF, Liu HT, Chen PY, Lin H et al. Role of PVAT in obesity-related cardiovascular disease through the buffering activity of ATF3. iScience 2022 Dec 22;25(12):105631. PMID: 36458260
  • Yamatani Y, Nakai K et al. Comprehensive comparison of gene expression diversity among a variety of human stem cells. NAR Genom Bioinform 2022 Dec;4(4):lqac087. PMID: 36458020
  • Deng L, Xu G, Huang Q et al. Comprehensive analyses of the microRNA-messenger RNA-transcription factor regulatory network in mouse and human renal fibrosis. Front Genet 2022;13:925097. PMID: 36457754
  • Que Z, Lu Q, Shen C et al. Chromosome-level genome assembly of Dongxiang wild rice (Oryza rufipogon) provides insights into resistance to disease and freezing. Front Genet 2022;13:1029879. PMID: 36457753
  • Goldkamp AK, Li Y, Rivera RM, Hagen DE et al. Differentially expressed tRNA-derived fragments in bovine fetuses with assisted reproduction induced congenital overgrowth syndrome. Front Genet 2022;13:1055343. PMID: 36457750
  • Wang W, Chang G, Zhuo R, Ye C et al. Identification of a ferroptosis-related long noncoding RNA signature with a prognostic value in adrenocortical carcinoma. Front Genet 2022;13:949457. PMID: 36457749
  • Zheng LM, Ye JQ, Li HF, Liu Q et al. Construction of a potentially functional lncRNA-miRNA-mRNA network in sepsis by bioinformatics analysis. Front Genet 2022;13:1031589. PMID: 36457745
  • Zhang Z, Chen W, Luo C, Zhang W et al. Exploring a four-gene risk model based on doxorubicin resistance-associated lncRNAs in hepatocellular carcinoma. Front Pharmacol 2022;13:1015842. PMID: 36457707
  • Li J, Zhou F, Shang L, Liu N et al. Integrated network pharmacology and experimental verification to investigate the mechanisms of YYFZBJS against colorectal cancer via CDK1/PI3K/Akt signaling. Front Oncol 2022;12:961653. PMID: 36457504
  • Fang Z, Shen HY, Xu Q, Zhou HL et al. PUS1 is a novel biomarker for predicting poor outcomes and triple-negative status in breast cancer. Front Oncol 2022;12:1030571. PMID: 36457503
  • Dai L, Liang W, Shi Z, Li X et al. Systematic characterization and biological functions of non-coding RNAs in glioblastoma. Cell Prolif 2023 Mar;56(3):e13375. PMID: 36457281
  • Zhang D, Wu S, Zhang X, Ren S et al. Coordinated transcriptional and post-transcriptional epigenetic regulation during skeletal muscle development and growth in pigs. J Anim Sci Biotechnol 2022 Dec 1;13(1):146. PMID: 36457054
  • Mao T, Zhang X, Xu H, Zhang X et al. HDACs/mTOR inhibitor synergizes with pyrotinib in HER2-positive pancreatic cancer through degradation of mutant P53. Cancer Cell Int 2022 Dec 1;22(1):380. PMID: 36457011
  • Hernández-Verdin I, Akdemir KC, Ramazzotti D, Caravagna G et al. Pan-cancer landscape of AID-related mutations, composite mutations, and their potential role in the ICI response. NPJ Precis Oncol 2022 Dec 1;6(1):89. PMID: 36456685
  • Cao K, Gong Q, Hong Y, Wan L et al. A unified computational framework for single-cell data integration with optimal transport. Nat Commun 2022 Dec 1;13(1):7419. PMID: 36456571
  • Ricketts CJ, Killian JK, Vocke CD, Wang Y et al. Kidney tumors associated with germline mutations of FH and SDHB show a CpG island methylator phenotype (CIMP). PLoS One 2022;17(12):e0278108. PMID: 36455002
  • Apipongrat D, Roytrakul S, Prayongratana K, Charoenpitakchai M et al. Serum proteomic profiling reveals MTA2 and AGO2 as potential prognostic biomarkers associated with disease activity and adverse outcomes in multiple myeloma. PLoS One 2022;17(12):e0278464. PMID: 36454786
  • Meier S, Seddon JA, Maasdorp E, Kleynhans L et al. Neutrophil degranulation, NETosis and platelet degranulation pathway genes are co-induced in whole blood up to six months before tuberculosis diagnosis. PLoS One 2022;17(12):e0278295. PMID: 36454773
  • Hauschild AC, Pastrello C, Ekaputeri GKA, Bethune-Waddell D et al. MirDIP 5.2: tissue context annotation and novel microRNA curation. Nucleic Acids Res 2023 Jan 6;51(D1):D217-D225. PMID: 36453996
  • Jodkowska K, Pancaldi V, Rigau M, Almeida R et al. 3D chromatin connectivity underlies replication origin efficiency in mouse embryonic stem cells. Nucleic Acids Res 2022 Nov 28;50(21):12149-12165. PMID: 36453993
  • Zhao Y, Ren P, Yang Z, Wang L et al. Inhibition of SND1 overcomes chemoresistance in bladder cancer cells by promoting ferroptosis. Oncol Rep 2023 Jan;49(1). PMID: 36453257
  • Takahashi J, Mizutani T, Sugihara HY, Nagata S et al. Suspension culture in a rotating bioreactor for efficient generation of human intestinal organoids. Cell Rep Methods 2022 Nov 21;2(11):100337. PMID: 36452871
  • Hasanaj E, Alavi A, Gupta A, Póczos B et al. Multiset multicover methods for discriminative marker selection. Cell Rep Methods 2022 Nov 21;2(11):100332. PMID: 36452867
  • Van den Berge K, Chou HJ, Roux de Bézieux H, Street K et al. Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects. Cell Rep Methods 2022 Nov 21;2(11):100321. PMID: 36452861
  • Zhu Y, Liu Z, Guo Y, Li S et al. Whole-genome sequencing of extrachromosomal circular DNA of cerebrospinal fluid of medulloblastoma. Front Oncol 2022;12:934159. PMID: 36452490
  • Sun X, Zhang T et al. Identification of immune-related signature for the prognosis and benefit of immunotherapy in triple-negative breast cancer. Front Genet 2022;13:1067254. PMID: 36452159
  • Wu G, Feng D, Zhang Z, Zhang G et al. Establishment of lung adenocarcinoma classification and risk model based on necroptosis-related genes. Front Genet 2022;13:1037011. PMID: 36452156
  • Li P, Shi D, Shen W, Shi S et al. Pilot genome-wide association study of antibody response to inactivated SARS-CoV-2 vaccines. Front Immunol 2022;13:1054147. PMID: 36451823
  • Vermeirssen V, Deleu J, Morlion A, Everaert C et al. Whole transcriptome profiling of liquid biopsies from tumour xenografted mouse models enables specific monitoring of tumour-derived extracellular RNA. NAR Cancer 2022 Dec;4(4):zcac037. PMID: 36451702
  • Liu Y, Luo D, Xu B et al. The combination of molecular docking and network pharmacology reveals the molecular mechanism of Danggui Niantong decoction in treating gout. Medicine (Baltimore) 2022 Nov 25;101(47):e31535. PMID: 36451451
  • Hu C, Dai Y, Zhou H, Zhang J et al. Identification of GINS1 as a therapeutic target in the cancer patients infected with COVID-19: a bioinformatics and system biology approach. Hereditas 2022 Dec 1;159(1):45. PMID: 36451247
  • Almeida da Paz M, Taher L et al. T3E: a tool for characterising the epigenetic profile of transposable elements using ChIP-seq data. Mob DNA 2022 Nov 30;13(1):29. PMID: 36451223
  • Rossini R, Kumar V, Mathelier A, Rognes T et al. MoDLE: high-performance stochastic modeling of DNA loop extrusion interactions. Genome Biol 2022 Nov 30;23(1):247. PMID: 36451166
  • Seo SH, Lee D, Lee SH, Choi KY et al. Blockade of CXXC5-dishevelled interaction inhibits adipogenic differentiation, obesity, and insulin resistance in mice. Sci Rep 2022 Nov 30;12(1):20669. PMID: 36450849
  • de Lanna CA, da Silva BNM, de Melo AC, Bonamino MH et al. Oral Lichen Planus and Oral Squamous Cell Carcinoma share key oncogenic signatures. Sci Rep 2022 Nov 30;12(1):20645. PMID: 36450755
  • Kneppers J, Severson TM, Siefert JC, Schol P et al. Extensive androgen receptor enhancer heterogeneity in primary prostate cancers underlies transcriptional diversity and metastatic potential. Nat Commun 2022 Nov 30;13(1):7367. PMID: 36450752
  • Qie J, Liu Y, Wang Y, Zhang F et al. Integrated proteomic and transcriptomic landscape of macrophages in mouse tissues. Nat Commun 2022 Nov 30;13(1):7389. PMID: 36450731
  • Topchyan P, Zander R, Kasmani MY, Nguyen C et al. Spatial transcriptomics demonstrates the role of CD4 T cells in effector CD8 T cell differentiation during chronic viral infection. Cell Rep 2022 Nov 29;41(9):111736. PMID: 36450262
  • Xu J, Mao C, Hou Y, Luo Y et al. Interpretable deep learning translation of GWAS and multi-omics findings to identify pathobiology and drug repurposing in Alzheimer's disease. Cell Rep 2022 Nov 29;41(9):111717. PMID: 36450252
  • Goronzy IN, Quinodoz SA, Jachowicz JW, Ollikainen N et al. Simultaneous mapping of 3D structure and nascent RNAs argues against nuclear compartments that preclude transcription. Cell Rep 2022 Nov 29;41(9):111730. PMID: 36450242
  • Chen Z, King WC, Hwang A, Gerstein M et al. DeepVelo: Single-cell transcriptomic deep velocity field learning with neural ordinary differential equations. Sci Adv 2022 Dec 2;8(48):eabq3745. PMID: 36449617
  • Zhou TA, Hsu HP, Tu YH, Cheng HK et al. Thymic macrophages consist of two populations with distinct localization and origin. Elife 2022 Nov 30;11. PMID: 36449334
  • Ma M, Garza AG, Lemon DJ, Caro EA et al. Identifying the Gene Regulatory Network of the Starvation-Induced Transcriptional Activator Nla28. J Bacteriol 2022 Dec 20;204(12):e0026522. PMID: 36448789
  • Sun J, Li L, Hu J, Gao Y et al. Time-course RNA-Seq profiling reveals isoform-level gene expression dynamics of the cGAS-STING pathway. Comput Struct Biotechnol J 2022;20:6490-6500. PMID: 36448027
  • Kunitomi A, Hirohata R, Arreola V, Osawa M et al. Improved Sendai viral system for reprogramming to naive pluripotency. Cell Rep Methods 2022 Nov 21;2(11):100317. PMID: 36447645
  • Che Y, Jiang D, Zhang Y, Zhang J et al. Elevated ubiquitination contributes to protective immunity against severe SARS-CoV-2 infection. Clin Transl Med 2022 Dec;12(12):e1103. PMID: 36447039
  • Bertrams W, Hönzke K, Obermayer B, Tönnies M et al. Transcriptomic comparison of primary human lung cells with lung tissue samples and the human A549 lung cell line highlights cell type specific responses during infections with influenza A virus. Sci Rep 2022 Nov 29;12(1):20608. PMID: 36446841
  • Jones MR, Lingampally A, Ahmadvand N, Chong L et al. FGFR2b signalling restricts lineage-flexible alveolar progenitors during mouse lung development and converges in mature alveolar type 2 cells. Cell Mol Life Sci 2022 Nov 29;79(12):609. PMID: 36445537
  • Lin Z, Tang X, Cao Y, Yang L et al. CD229 interacts with RASAL3 to activate RAS/ERK pathway in multiple myeloma proliferation. Aging (Albany NY) 2022 Nov 28;14(22):9264-9279. PMID: 36445333
  • Min Z, Xin H, Liu X, Wan J et al. Chromodomain helicase DNA-binding domain 2 maintains spermatogonial self-renewal by promoting chromatin accessibility and mRNA stability. iScience 2022 Dec 22;25(12):105552. PMID: 36444304
  • Wang F, Gao T, Lin J, Zheng Z et al. GILoop: Robust chromatin loop calling across multiple sequencing depths on Hi-C data. iScience 2022 Dec 22;25(12):105535. PMID: 36444296
  • Jiang Y, Huang J, Tian K, Yi X et al. Cross-regulome profiling of RNA polymerases highlights the regulatory role of polymerase III on mRNA transcription by maintaining local chromatin architecture. Genome Biol 2022 Nov 28;23(1):246. PMID: 36443871
  • Wang YW, Lin WY, Wu FJ, Luo CW et al. Unveiling the transcriptomic landscape and the potential antagonist feedback mechanisms of TGF-β superfamily signaling module in bone and osteoporosis. Cell Commun Signal 2022 Nov 28;20(1):190. PMID: 36443839
  • Godoy-Tena G, Barmada A, Morante-Palacios O, de la Calle-Fabregat C et al. Epigenetic and transcriptomic reprogramming in monocytes of severe COVID-19 patients reflects alterations in myeloid differentiation and the influence of inflammatory cytokines. Genome Med 2022 Nov 29;14(1):134. PMID: 36443794
  • Chamberlain JD, Nusslé S, Chapatte L, Kinnaer C et al. Blood DNA methylation signatures of lifestyle exposures: tobacco and alcohol consumption. Clin Epigenetics 2022 Nov 28;14(1):155. PMID: 36443762
  • Meraviglia-Crivelli D, Villanueva H, Zheleva A, Villalba-Esparza M et al. IL-6/STAT3 signaling in tumor cells restricts the expression of frameshift-derived neoantigens by SMG1 induction. Mol Cancer 2022 Nov 28;21(1):211. PMID: 36443756
  • Moradi A, Shahsavari M, Gowdini E, Mohammadian K et al. Consequences of aberrated DNA methylation in Colon Adenocarcinoma: a bioinformatic-based multi-approach. BMC Genom Data 2022 Nov 29;23(1):83. PMID: 36443682
  • Lv Y, Bai Z, Wang X, Liu J et al. Comprehensive evaluation of breast cancer immunotherapy and tumor microenvironment characterization based on interleukin genes-related risk model. Sci Rep 2022 Nov 28;12(1):20524. PMID: 36443508
  • Giannareas N, Zhang Q, Yang X, Na R et al. Extensive germline-somatic interplay contributes to prostate cancer progression through HNF1B co-option of TMPRSS2-ERG. Nat Commun 2022 Nov 28;13(1):7320. PMID: 36443337
  • Song K, Yang X, An G, Xia X et al. Targeting APLN/APJ restores blood-testis barrier and improves spermatogenesis in murine and human diabetic models. Nat Commun 2022 Nov 28;13(1):7335. PMID: 36443325
  • Ong EZ, Yee JX, Ooi JSG, Syenina A et al. Immune gene expression analysis indicates the potential of a self-amplifying Covid-19 mRNA vaccine. NPJ Vaccines 2022 Nov 28;7(1):154. PMID: 36443317
  • Cao X, Wang J, Zhang T, Liu Z et al. Chromatin accessibility dynamics dictate renal tubular epithelial cell response to injury. Nat Commun 2022 Nov 28;13(1):7322. PMID: 36443310
  • Takano J, Ito S, Dong Y, Sharif J et al. PCGF1-PRC1 links chromatin repression with DNA replication during hematopoietic cell lineage commitment. Nat Commun 2022 Nov 28;13(1):7159. PMID: 36443290
  • Zeng PYF, Cecchini MJ, Barrett JW, Shammas-Toma M et al. Immune-based classification of HPV-associated oropharyngeal cancer with implications for biomarker-driven treatment de-intensification. EBioMedicine 2022 Dec;86:104373. PMID: 36442320
  • Zhang Q, Jin S, Zou X et al. scAB detects multiresolution cell states with clinical significance by integrating single-cell genomics and bulk sequencing data. Nucleic Acids Res 2022 Nov 28;50(21):12112-12130. PMID: 36440766
  • Liu Q, Peng X, Shen M, Qian Q et al. Ribo-uORF: a comprehensive data resource of upstream open reading frames (uORFs) based on ribosome profiling. Nucleic Acids Res 2023 Jan 6;51(D1):D248-D261. PMID: 36440758
  • Yu X, Liu Z, Pan Y, Cui X et al. Co-expression network analysis for identification of novel biomarkers of bronchopulmonary dysplasia model. Front Pediatr 2022;10:946747. PMID: 36440350
  • Sun P, Xiao M, Chen H, Zhong Z et al. A joint transcriptional regulatory network and protein activity inference analysis identifies clinically associated master regulators for biliary atresia. Front Pediatr 2022;10:1050326. PMID: 36440333
  • Jang HY, Oh JM, Kim IW et al. Drug repurposing using meta-analysis of gene expression in Alzheimer's disease. Front Neurosci 2022;16:989174. PMID: 36440278
  • Lei MML, Leung CON, Lau EYT, Leung RWH et al. SCYL3, as a novel binding partner and regulator of ROCK2, promotes hepatocellular carcinoma progression. JHEP Rep 2023 Jan;5(1):100604. PMID: 36440258
  • Fang T, Xue G, Jianjun W, Wei L et al. Dissecting lncRNA-mRNA competitive regulatory network in human islet tissue exosomes of a type 1 diabetes model reveals exosome miRNA markers. Front Endocrinol (Lausanne) 2022;13:1015800. PMID: 36440209
  • Yan Z, Liu Q, Cao Z, Wang J et al. Multi-omics integration reveals a six-malignant cell maker gene signature for predicting prognosis in high-risk neuroblastoma. Front Neuroinform 2022;16:1034793. PMID: 36439943
  • Yang Y, Yang T, Zhao Z, Zhang H et al. Down-regulation of BMAL1 by MiR-494-3p Promotes Hepatocellular Carcinoma Growth and Metastasis by Increasing GPAM-mediated Lipid Biosynthesis. Int J Biol Sci 2022;18(16):6129-6144. PMID: 36439870
  • Edwards JS, Delabat SA, Badilla AD, DiCaprio RC et al. Downregulation of SOCS1 increases interferon-induced ISGylation during differentiation of induced-pluripotent stem cells to hepatocytes. JHEP Rep 2022 Dec;4(12):100592. PMID: 36439639
  • Song GQ, He TL, Ji KJ, Duan YM et al. SKA1/2/3 is a biomarker of poor prognosis in human hepatocellular carcinoma. Front Oncol 2022;12:1038925. PMID: 36439516
  • Van Hiep N, Sun WL, Feng PH, Lin CW et al. Heparin binding epidermal growth factor-like growth factor is a prognostic marker correlated with levels of macrophages infiltrated in lung adenocarcinoma. Front Oncol 2022;12:963896. PMID: 36439487
  • Ostwaldt F, Los B, Heyd F et al. In silico analysis of alternative splicing events implicated in intracellular trafficking during B-lymphocyte differentiation. Front Immunol 2022;13:1030409. PMID: 36439187
  • Zhang YZ, Zeb A, Cheng LF et al. Exploring the molecular mechanism of hepatitis virus inducing hepatocellular carcinoma by microarray data and immune infiltrates analysis. Front Immunol 2022;13:1032819. PMID: 36439183
  • Lang C, Roy S, Wang Y, Graves D et al. Efferocytosis drives myeloid NLRP3 dependent inflammasome signaling secretion of IL-1β to promote tumor growth. Front Immunol 2022;13:993771. PMID: 36439171
  • Wei P, Dong M, Bi Y, Chen S et al. Identification and validation of a signature based on macrophage cell marker genes to predict recurrent miscarriage by integrated analysis of single-cell and bulk RNA-sequencing. Front Immunol 2022;13:1053819. PMID: 36439123
  • Wang J, He X, Bai Y, Du G et al. Identification and validation of novel biomarkers affecting bladder cancer immunotherapy via machine learning and its association with M2 macrophages. Front Immunol 2022;13:1051063. PMID: 36439109
  • Xie Y, Xu Z, Mei X, Shi W et al. A Necroptosis-Related Gene Signature to Predict the Prognosis of Skin Cutaneous Melanoma. Dis Markers 2022;2022:8232024. PMID: 36438905
  • Zhao K, Wei B, Zhang Y, Shi W et al. M6A regulator-mediated immune infiltration and methylation modification in hepatocellular carcinoma microenvironment and immunotherapy. Front Pharmacol 2022;13:1052177. PMID: 36438800
  • Weng W, Cheng F, Zhang J et al. Specific signature biomarkers highlight the potential mechanisms of circulating neutrophils in aneurysmal subarachnoid hemorrhage. Front Pharmacol 2022;13:1022564. PMID: 36438795
  • Zhang Y, Zhang Y, Yao R, He X et al. Ferroptosis-related differentially expressed genes serve as new biomarkers in ischemic stroke and identification of therapeutic drugs. Front Nutr 2022;9:1010918. PMID: 36438734
  • Zhou N, Tang Q, Yu H, Li T et al. Comprehensive analyses of one-carbon metabolism related genes and their association with prognosis, tumor microenvironment, chemotherapy resistance and immunotherapy in lung adenocarcinoma. Front Mol Biosci 2022;9:1034208. PMID: 36438661
  • Zhao L, Teng Q, Liu Y, Chen H et al. Machine learning-based identification of a novel prognosis-related long noncoding RNA signature for gastric cancer. Front Cell Dev Biol 2022;10:1017767. PMID: 36438557
  • Li C, Zhang Y, Leng L, Pan X et al. The single-cell expression profile of transposable elements and transcription factors in human early biparental and uniparental embryonic development. Front Cell Dev Biol 2022;10:1020490. PMID: 36438554
  • Wang T, Wang J, Sun Z, Zhang L et al. Single-cell RNA sequence presents atlas analysis for chondrocytes in the talus and reveals the potential mechanism in coping with mechanical stress. Front Cell Dev Biol 2022;10:1047119. PMID: 36438550
  • Li D, Sun A, Zhang L, Ding Z et al. Elevated ITGA5 facilitates hyperactivated mTORC1-mediated progression of laryngeal squamous cell carcinoma via upregulation of EFNB2. Theranostics 2022;12(17):7431-7449. PMID: 36438491
  • Li Q, Lv X, Han C, Kong Y et al. Enhancer reprogramming promotes the activation of cancer-associated fibroblasts and breast cancer metastasis. Theranostics 2022;12(17):7491-7508. PMID: 36438487
  • Jia SQ, Zhuo R, Zhang ZM, Yang Y et al. The BRD4 Inhibitor dBET57 Exerts Anticancer Effects by Targeting Superenhancer-Related Genes in Neuroblastoma. J Immunol Res 2022;2022:7945884. PMID: 36438198
  • Wang X, Shi N, Wu B, Yuan L et al. Bioinformatics analysis of gene expression profile and functional analysis in periodontitis and Parkinson's disease. Front Aging Neurosci 2022;14:1029637. PMID: 36437997
  • Wang J, Wang Z, Jia W, Gong W et al. The role of costimulatory molecules in glioma biology and immune microenvironment. Front Genet 2022;13:1024922. PMID: 36437961
  • Wang X, Huang H, Liu X, Li J et al. Immunogenic cell death-related classifications in breast cancer identify precise immunotherapy biomarkers and enable prognostic stratification. Front Genet 2022;13:1052720. PMID: 36437951
  • Jin Z, Song M, Wang J, Zhu W et al. Integrative multiomics evaluation reveals the importance of pseudouridine synthases in hepatocellular carcinoma. Front Genet 2022;13:944681. PMID: 36437949
  • Li Q, Chen Z, Yang C, Wang L et al. Role of ferroptosis-associated genes in ankylosing spondylitis and immune cell infiltration. Front Genet 2022;13:948290. PMID: 36437923
  • Bikorimana JP, El-Hachem N, Abusarah J, Eliopoulos N et al. The CIt protocol: A blueprint to potentiate the immunogenicity of immunoproteasome-reprogrammed mesenchymal stromal cells. iScience 2022 Dec 22;25(12):105537. PMID: 36437872
  • Gonçalves RL, de Souza GAP, de Souza Terceti M, de Castro RFG et al. Integrative transcriptome analysis of SARS-CoV-2 human-infected cells combined with deep learning algorithms identifies two potential cellular targets for the treatment of coronavirus disease. Braz J Microbiol 2023 Mar;54(1):53-68. PMID: 36435956
  • Li N, Liu Q, Han Y, Pei S et al. ARID1A loss induces polymorphonuclear myeloid-derived suppressor cell chemotaxis and promotes prostate cancer progression. Nat Commun 2022 Nov 26;13(1):7281. PMID: 36435834
  • Pluta R, Aragón E, Prescott NA, Ruiz L et al. Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun 2022 Nov 26;13(1):7279. PMID: 36435807
  • Zhang Z, Yu H, Yao W, Zhu N et al. RRP9 promotes gemcitabine resistance in pancreatic cancer via activating AKT signaling pathway. Cell Commun Signal 2022 Nov 24;20(1):188. PMID: 36434608
  • Zhai Y, Yu H, An X, Zhang Z et al. Profiling the transcriptomic signatures and identifying the patterns of zygotic genome activation - a comparative analysis between early porcine embryos and their counterparts in other three mammalian species. BMC Genomics 2022 Nov 24;23(1):772. PMID: 36434523
  • Koyanagi E, Kakimoto Y, Minamisawa T, Yoshifuji F et al. Global landscape of replicative DNA polymerase usage in the human genome. Nat Commun 2022 Nov 24;13(1):7221. PMID: 36434012
  • DeBarry JD, Nural MV, Pakala SB, Nayak V et al. MaHPIC malaria systems biology data from Plasmodium cynomolgi sporozoite longitudinal infections in macaques. Sci Data 2022 Nov 24;9(1):722. PMID: 36433985
  • Zhang C, Shen H, Yang T, Li T et al. A single-cell analysis reveals tumor heterogeneity and immune environment of acral melanoma. Nat Commun 2022 Nov 25;13(1):7250. PMID: 36433984
  • Sequera C, Grattarola M, Holczbauer A, Dono R et al. MYC and MET cooperatively drive hepatocellular carcinoma with distinct molecular traits and vulnerabilities. Cell Death Dis 2022 Nov 24;13(11):994. PMID: 36433941
  • Kim YW, Zara G, Kang H, Branciamore S et al. Integration of single-cell transcriptomes and biological function reveals distinct behavioral patterns in bone marrow endothelium. Nat Commun 2022 Nov 24;13(1):7235. PMID: 36433940
  • Villarino AV, Laurence AD, Davis FP, Nivelo L et al. A central role for STAT5 in the transcriptional programing of T helper cell metabolism. Sci Immunol 2022 Nov 25;7(77):eabl9467. PMID: 36427325
  • Wang Y, Le BH, Wang J, You C et al. ZMP recruits and excludes Pol IV-mediated DNA methylation in a site-specific manner. Sci Adv 2022 Nov 25;8(47):eadc9454. PMID: 36427317
  • Nah J, Seong RH et al. Krüppel-like factor 4 regulates the cytolytic effector function of exhausted CD8 T cells. Sci Adv 2022 Nov 25;8(47):eadc9346. PMID: 36427304
  • Wang N, Wang Z, Danko CG, Chu T et al. Mapping Transcription Regulation with Run-on and Sequencing Data Using the Web-Based tfTarget Gateway. Methods Mol Biol 2023;2599:215-226. PMID: 36427152
  • Göczi L, Csumita M, Horváth A, Nagy G et al. A Multi-Omics Approach Reveals Features That Permit Robust and Widespread Regulation of IFN-Inducible Antiviral Effectors. J Immunol 2022 Nov 15;209(10):1930-1941. PMID: 36426944
  • Yang S, Tang W, Azizian A, Gaedcke J et al. Dysregulation of HNF1B/Clusterin axis enhances disease progression in a highly aggressive subset of pancreatic cancer patients. Carcinogenesis 2022 Dec 31;43(12):1198-1210. PMID: 36426859
  • Hu F, Li H, Li L, Gale RP et al. Degree of stemness predicts micro-environmental response and clinical outcomes of diffuse large B-cell lymphoma and identifies a potential targeted therapy. Front Immunol 2022;13:1012242. PMID: 36426371
  • Liu XH, Zhou JT, Yan CX, Cheng C et al. Single-cell RNA sequencing reveals a novel inhibitory effect of ApoA4 on NAFL mediated by liver-specific subsets of myeloid cells. Front Immunol 2022;13:1038401. PMID: 36426356
  • Wang J, Hu Z, Liao X, Wang Z et al. Whole-genome resequencing reveals signature of local adaptation and divergence in wild soybean. Evol Appl 2022 Nov;15(11):1820-1833. PMID: 36426120
  • Liu J, Gao H, Li C, Zhu F et al. Expression and regulatory characteristics of peripheral blood immune cells in primary Sjögren's syndrome patients using single-cell transcriptomic. iScience 2022 Dec 22;25(12):105509. PMID: 36425764
  • Surani AA, Spriggs KA, Ufer C, Polytarchou C et al. Implications of differential transcription start site selection on chronic myeloid leukemia and prostate cancer cell protein expression. iScience 2022 Dec 22;25(12):105519. PMID: 36425755
  • Pillai M, Chen Z, Jolly MK, Li C et al. Quantitative landscapes reveal trajectories of cell-state transitions associated with drug resistance in melanoma. iScience 2022 Dec 22;25(12):105499. PMID: 36425754
  • Xiao C, Chen S, Yang C, Liu J et al. Identification of polyunsaturated fatty acids related key modules and genes in metabolic dysfunction-associated fatty liver disease using WGCNA analysis. Front Genet 2022;13:951224. PMID: 36425072
  • Zhang W, Liu T, Jiang L, Chen J et al. Immunogenic cell death-related gene landscape predicts the overall survival and immune infiltration status of ovarian cancer. Front Genet 2022;13:1001239. PMID: 36425071
  • Joubert PM, Krasileva KV et al. The extrachromosomal circular DNAs of the rice blast pathogen Magnaporthe oryzae contain a wide variety of LTR retrotransposons, genes, and effectors. BMC Biol 2022 Nov 23;20(1):260. PMID: 36424609
  • Bhadresha K, Upadhyay V, Brahmbhatt J, Mughal MJ et al. In vitro model of predicting metastatic ability using tumor derived extracellular vesicles; beyond seed soil hypothesis. Sci Rep 2022 Nov 24;12(1):20258. PMID: 36424413
  • Lefaudeux D, Sen S, Jiang K, Hoffmann A et al. Kinetics of mRNA nuclear export regulate innate immune response gene expression. Nat Commun 2022 Nov 23;13(1):7197. PMID: 36424375
  • Ramakrishnan AB, Burby PE, Adiga K, Cadigan KM et al. SOX9 and TCF transcription factors associate to mediate Wnt/β-catenin target gene activation in colorectal cancer. J Biol Chem 2023 Jan;299(1):102735. PMID: 36423688
  • Strecker J, Demircioglu FE, Li D, Faure G et al. RNA-activated protein cleavage with a CRISPR-associated endopeptidase. Science 2022 Nov 25;378(6622):874-881. PMID: 36423276
  • Schubert BD, Ku H, Kabwe M, Nguyen TH et al. Effects of Klebsiella pneumoniae Bacteriophages on IRAK3 Knockdown/Knockout THP-1 Monocyte Cell Lines. Viruses 2022 Nov 21;14(11). PMID: 36423191
  • Ajoge HO, Kohio HP, Paparisto E, Coleman MD et al. G-Quadruplex DNA and Other Non-Canonical B-Form DNA Motifs Influence Productive and Latent HIV-1 Integration and Reactivation Potential. Viruses 2022 Nov 11;14(11). PMID: 36423103
  • Wu C, Li H, Chang W, Zhong L et al. Identification and Validation of UPF1 as a Novel Prognostic Biomarker in Renal Clear Cell Carcinoma. Genes (Basel) 2022 Nov 20;13(11). PMID: 36421841
  • Zuo D, Xiao J, An H, Chen Y et al. Screening for Lipid-Metabolism-Related Genes and Identifying the Diagnostic Potential of ANGPTL6 for HBV-Related Early-Stage Hepatocellular Carcinoma. Biomolecules 2022 Nov 17;12(11). PMID: 36421714
  • Habeos GI, Filippopoulou F, Habeos EE, Kalaitzopoulou E et al. Maternal Calorie Restriction Induces a Transcriptional Cytoprotective Response in Embryonic Liver Partially Dependent on Nrf2. Antioxidants (Basel) 2022 Nov 17;11(11). PMID: 36421460
  • Feng Y, Neme R, Beh LY, Chen X et al. Comparative genomics reveals insight into the evolutionary origin of massively scrambled genomes. Elife 2022 Nov 24;11. PMID: 36421078
  • An Y, Sun JX, Xu MY, Xu JZ et al. Tertiary lymphoid structure patterns aid in identification of tumor microenvironment infiltration and selection of therapeutic agents in bladder cancer. Front Immunol 2022;13:1049884. PMID: 36420257
  • Mahalanabis A, Turinsky AL, Husić M, Christensen E et al. Evaluation of single-cell RNA-seq clustering algorithms on cancer tumor datasets. Comput Struct Biotechnol J 2022;20:6375-6387. PMID: 36420149
  • Costa A, Powell LM, Malaguti M, Soufi A et al. Repurposing the lineage-determining transcription factor Atoh1 without redistributing its genomic binding sites. Front Cell Dev Biol 2022;10:1016367. PMID: 36420143
  • Koh E, Brandis A, Fluhr R et al. Plastid and cytoplasmic origins of (1)O(2)-mediated transcriptomic responses. Front Plant Sci 2022;13:982610. PMID: 36420020
  • Heng H, Liu J, Hu M, Li D et al. WDR43 is a potential diagnostic biomarker and therapeutic target for osteoarthritis complicated with Parkinson's disease. Front Cell Neurosci 2022;16:1013745. PMID: 36419937
  • Han Y, Cai Q, Xie X, Gao S et al. Development and validation of prognostic index based on immunogenic cell death-related genes with melanoma. Front Oncol 2022;12:1011046. PMID: 36419893
  • Ke S, Xie F, Guo Y, Chen J et al. High-level of intratumoral GITR+ CD4 T cells associate with poor prognosis in gastric cancer. iScience 2022 Dec 22;25(12):105529. PMID: 36419848
  • Wu M, Zhang Y et al. Integrated bioinformatics, network pharmacology, and artificial intelligence to predict the mechanism of celastrol against muscle atrophy caused by colorectal cancer. Front Genet 2022;13:1012932. PMID: 36419834
  • Han N, He J, Shi L, Zhang M et al. Identification of biomarkers in nonalcoholic fatty liver disease: A machine learning method and experimental study. Front Genet 2022;13:1020899. PMID: 36419827
  • Liu W, Guo X, Jin L, Hong T et al. Lipocalin-2 participates in sepsis-induced myocardial injury by mediating lipid accumulation and mitochondrial dysfunction. Front Cardiovasc Med 2022;9:1009726. PMID: 36419491
  • Yang W, Cheng B, Chen P, Sun X et al. BTN3A1 promotes tumor progression and radiation resistance in esophageal squamous cell carcinoma by regulating ULK1-mediated autophagy. Cell Death Dis 2022 Nov 22;13(11):984. PMID: 36418890
  • Wang Y, Lee H, Fear JM, Berger I et al. NetREX-CF integrates incomplete transcription factor data with gene expression to reconstruct gene regulatory networks. Commun Biol 2022 Nov 23;5(1):1282. PMID: 36418514
  • Fattore L, Cafaro G, Di Martile M, Campani V et al. Oncosuppressive miRNAs loaded in lipid nanoparticles potentiate targeted therapies in BRAF-mutant melanoma by inhibiting core escape pathways of resistance. Oncogene 2023 Jan;42(4):293-307. PMID: 36418472
  • Daneshafrooz N, Bagherzadeh Cham M, Majidi M, Panahi B et al. Identification of potentially functional modules and diagnostic genes related to amyotrophic lateral sclerosis based on the WGCNA and LASSO algorithms. Sci Rep 2022 Nov 22;12(1):20144. PMID: 36418457
  • Sharifi Z, Talkhabi M, Taleahmad S et al. Identification of potential microRNA diagnostic panels and uncovering regulatory mechanisms in breast cancer pathogenesis. Sci Rep 2022 Nov 22;12(1):20135. PMID: 36418345
  • Pontis J, Pulver C, Playfoot CJ, Planet E et al. Primate-specific transposable elements shape transcriptional networks during human development. Nat Commun 2022 Nov 23;13(1):7178. PMID: 36418324
  • Baker R, Hontecillas R, Tubau-Juni N, Leber AJ et al. Computational modeling of complex bioenergetic mechanisms that modulate CD4+ T cell effector and regulatory functions. NPJ Syst Biol Appl 2022 Nov 22;8(1):45. PMID: 36418318
  • Shohat S, Vol E, Shifman S et al. Gene essentiality in cancer cell lines is modified by the sex chromosomes. Genome Res 2022 Nov-Dec;32(11-12):1993-2002. PMID: 36418059
  • Saraswathy VM, Zhou L, McAdow AR, Burris B et al. Myostatin is a negative regulator of adult neurogenesis after spinal cord injury in zebrafish. Cell Rep 2022 Nov 22;41(8):111705. PMID: 36417881
  • Geng Y, Zhang T, Alonzo IG, Godar SC et al. Top2a promotes the development of social behavior via PRC2 and H3K27me3. Sci Adv 2022 Nov 25;8(47):eabm7069. PMID: 36417527
  • Cheng F, Zheng W, Liu C, Barbuti PA et al. Intronic enhancers of the human SNCA gene predominantly regulate its expression in brain in vivo. Sci Adv 2022 Nov 25;8(47):eabq6324. PMID: 36417521
  • Zhang Y, Tateishi-Karimata H, Endoh T, Jin Q et al. High-temperature adaptation of an OsNRT2.3 allele is thermoregulated by small RNAs. Sci Adv 2022 Nov 25;8(47):eadc9785. PMID: 36417515
  • Chen Q, Dai J, Bian Q et al. Integration of 3D genome topology and local chromatin features uncovers enhancers underlying craniofacial-specific cartilage defects. Sci Adv 2022 Nov 25;8(47):eabo3648. PMID: 36417512
  • Li TD, Murano K, Kitano T, Guo Y et al. TDP-43 safeguards the embryo genome from L1 retrotransposition. Sci Adv 2022 Nov 25;8(47):eabq3806. PMID: 36417507
  • Zhang J, Xie H, Yao J, Jin W et al. TRIM59 promotes steatosis and ferroptosis in non-alcoholic fatty liver disease via enhancing GPX4 ubiquitination. Hum Cell 2023 Jan;36(1):209-222. PMID: 36417114
  • Xu Y, Zhou X, Gao L, Yan S et al. Identification of HAGHL as a novel metabolic oncogene regulating human colorectal cancer progression. Clin Transl Oncol 2023 Apr;25(4):1033-1042. PMID: 36417085
  • Karami N, Aligholi H, Rahimi M, Azari H et al. G Protein Coupled Receptors Potentially Involved in Oligodendrogenesis: A Gene Expression Analysis. Iran J Public Health 2022 Oct;51(10):2325-2333. PMID: 36415811
  • Saheb Sharif-Askari N, Saheb Sharif-Askari F, Hafezi S, Kalaji Z et al. Airways tissue expression of type I interferons and their stimulated genes is higher in children than adults. Heliyon 2022 Nov;8(11):e11724. PMID: 36415751
  • López-Cerdán A, Andreu Z, Hidalgo MR, Grillo-Risco R et al. Unveiling sex-based differences in Parkinson's disease: a comprehensive meta-analysis of transcriptomic studies. Biol Sex Differ 2022 Nov 22;13(1):68. PMID: 36414996
  • Hagihara H, Shoji H, Kuroiwa M, Graef IA et al. Forebrain-specific conditional calcineurin deficiency induces dentate gyrus immaturity and hyper-dopaminergic signaling in mice. Mol Brain 2022 Nov 22;15(1):94. PMID: 36414974
  • Labbé P, Munoz Goyette V, Thorin-Trescases N, Villeneuve L et al. Angiopoietin-like 2 is essential to aortic valve development in mice. Commun Biol 2022 Nov 21;5(1):1277. PMID: 36414704
  • Brownfield DG, de Arce AD, Ghelfi E, Gillich A et al. Alveolar cell fate selection and lifelong maintenance of AT2 cells by FGF signaling. Nat Commun 2022 Nov 21;13(1):7137. PMID: 36414616
  • May AJ, Mattingly AJ, Gaylord EA, Griffin N et al. Neuronal-epithelial cross-talk drives acinar specification via NRG1-ERBB3-mTORC2 signaling. Dev Cell 2022 Nov 21;57(22):2550-2565.e5. PMID: 36413949
  • Matute JD, Duan J, Flak MB, Griebel P et al. Intelectin-1 binds and alters the localization of the mucus barrier-modifying bacterium Akkermansia muciniphila. J Exp Med 2023 Jan 2;220(1). PMID: 36413219
  • Pastore B, Hertz HL, Tang W et al. Comparative analysis of piRNA sequences, targets and functions in nematodes. RNA Biol 2022 Jan;19(1):1276-1292. PMID: 36412988
  • Zhu WZ, Feng DC, Xiong Q, Shi X et al. An autophagy-related gene prognostic index predicting biochemical recurrence, metastasis, and drug resistance for prostate cancer. Asian J Androl 2023 Mar-Apr;25(2):208-216. PMID: 36412461
  • Fang SG, Xia TL, Fu JC, Li T et al. BCL6-SPECC1L: A Novel Fusion Gene in Nasopharyngeal Carcinoma. Technol Cancer Res Treat 2022 Jan-Dec;21:15330338221139981. PMID: 36412101
  • Boot J, Rosser G, Kancheva D, Vinel C et al. Global hypo-methylation in a proportion of glioblastoma enriched for an astrocytic signature is associated with increased invasion and altered immune landscape. Elife 2022 Nov 22;11. PMID: 36412091
  • Steinhäuser S, Silva P, Lenk L, Beder T et al. Isocitrate dehydrogenase 1 mutation drives leukemogenesis by PDGFRA activation due to insulator disruption in acute myeloid leukemia (AML). Leukemia 2023 Jan;37(1):134-142. PMID: 36411356
  • Nishiga Y, Drainas AP, Baron M, Bhattacharya D et al. Radiotherapy in combination with CD47 blockade elicits a macrophage-mediated abscopal effect. Nat Cancer 2022 Nov;3(11):1351-1366. PMID: 36411318
  • Stevens LE, Peluffo G, Qiu X, Temko D et al. JAK-STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States. Cancer Res 2023 Jan 18;83(2):264-284. PMID: 36409824
  • Parker MT, Soanes BK, Kusakina J, Larrieu A et al. m(6)A modification of U6 snRNA modulates usage of two major classes of pre-mRNA 5' splice site. Elife 2022 Nov 21;11. PMID: 36409063
  • Zhao D, Zhang M, Huang S, Liu Q et al. CHD6 promotes broad nucleosome eviction for transcriptional activation in prostate cancer cells. Nucleic Acids Res 2022 Nov 28;50(21):12186-12201. PMID: 36408932
  • Lorenzi JN, Thibessard A, Lioy VS, Boccard F et al. Ribosomal RNA operons define a central functional compartment in the Streptomyces chromosome. Nucleic Acids Res 2022 Nov 11;50(20):11654-11669. PMID: 36408918
  • Schwab N, Taskina D, Leung E, Innes BT et al. Neurons and glial cells acquire a senescent signature after repeated mild traumatic brain injury in a sex-dependent manner. Front Neurosci 2022;16:1027116. PMID: 36408415
  • Li X, Jiang P, Li R, Wu B et al. Analysis of cuproptosis in hepatocellular carcinoma using multi-omics reveals a comprehensive HCC landscape and the immune patterns of cuproptosis. Front Oncol 2022;12:1009036. PMID: 36408192
  • Labaf M, Li M, Ting L, Karno B et al. Increased AR expression in castration-resistant prostate cancer rapidly induces AR signaling reprogramming with the collaboration of EZH2. Front Oncol 2022;12:1021845. PMID: 36408179
  • Lyu X, Qiang Y, Zhang B, Xu W et al. Identification of immuno-infiltrating MAP1A as a prognosis-related biomarker for bladder cancer and its ceRNA network construction. Front Oncol 2022;12:1016542. PMID: 36408130
  • Ma Z, Yang F, Fan J, Li X et al. Identification and immune characteristics of molecular subtypes related to protein glycosylation in Alzheimer's disease. Front Aging Neurosci 2022;14:968190. PMID: 36408104
  • Ferguson LB, Mayfield RD, Messing RO et al. RNA biomarkers for alcohol use disorder. Front Mol Neurosci 2022;15:1032362. PMID: 36407766
  • Dhar YV, Asif MH et al. Genome and transcriptome-wide study of carbamoyltransferase genes in major fleshy fruits: A multi-omics study of evolution and functional significance. Front Plant Sci 2022;13:994159. PMID: 36407603
  • Venugopal P, George M, Kandadai SD, Balakrishnan K et al. Prioritization of microRNA biomarkers for a prospective evaluation in a cohort of myocardial infarction patients based on their mechanistic role using public datasets. Front Cardiovasc Med 2022;9:981335. PMID: 36407428
  • Wu J, Cai H, Lei Z, Li C et al. Expression pattern and diagnostic value of ferroptosis-related genes in acute myocardial infarction. Front Cardiovasc Med 2022;9:993592. PMID: 36407421
  • Wang Y, Wang W, Cheng K, Geng K et al. Polycomb subunit Pcgf2 mediates ovulation and fertility through transcriptional regulation progesterone receptor. Front Cell Dev Biol 2022;10:1010601. PMID: 36407101
  • Lin S, Xian M, Ren T, Mo G et al. Mining of chicken muscle growth genes and the function of important candidate gene RPL3L in muscle development. Front Physiol 2022;13:1033075. PMID: 36407004
  • Chen L, Xia S, Wang S, Zhou Y et al. Naringenin is a Potential Immunomodulator for Inhibiting Liver Fibrosis by Inhibiting the cGAS-STING Pathway. J Clin Transl Hepatol 2023 Feb 28;11(1):26-37. PMID: 36406329
  • Bai L, Gong J, Guo Y, Li Y et al. Construction of a ceRNA network in polycystic ovary syndrome (PCOS) driven by exosomal lncRNA. Front Genet 2022;13:979924. PMID: 36406137
  • Peng G, Chi H, Gao X, Zhang J et al. Identification and validation of neurotrophic factor-related genes signature in HNSCC to predict survival and immune landscapes. Front Genet 2022;13:1010044. PMID: 36406133
  • Zeng J, Tan H, Huang B, Zhou Q et al. Lipid metabolism characterization in gastric cancer identifies signatures to predict prognostic and therapeutic responses. Front Genet 2022;13:959170. PMID: 36406121
  • Xu L, Niu X, Liu Y, Liu L et al. ST3GAL3 Promotes the Inflammatory Response of Fibroblast-Like Synoviocytes in Rheumatoid Arthritis by Activating the TLR9/MyD88 Pathway. Mediators Inflamm 2022;2022:4258742. PMID: 36405992
  • Zhou Y, Gao J et al. Why not try to predict autism spectrum disorder with crucial biomarkers in cuproptosis signaling pathway? Front Psychiatry 2022;13:1037503. PMID: 36405901
  • Zhou Z, Plug LG, Patente TA, de Jonge-Muller ESM et al. Increased stromal PFKFB3-mediated glycolysis in inflammatory bowel disease contributes to intestinal inflammation. Front Immunol 2022;13:966067. PMID: 36405760
  • Chen H, Huang L, Jiang X, Wang Y et al. Establishment and analysis of a disease risk prediction model for the systemic lupus erythematosus with random forest. Front Immunol 2022;13:1025688. PMID: 36405750
  • Wang K, Zheng Q, Liu X, Geng B et al. Identifying hub genes of calcific aortic valve disease and revealing the immune infiltration landscape based on multiple WGCNA and single-cell sequence analysis. Front Immunol 2022;13:1035285. PMID: 36405745
  • Chen Y, Li X, Sun R, Ji J et al. A broad cuproptosis landscape in inflammatory bowel disease. Front Immunol 2022;13:1031539. PMID: 36405733
  • Qin Y, Yang J, Liang C, Liu J et al. Pan-cancer analysis identifies migrasome-related genes as a potential immunotherapeutic target: A bulk omics research and single cell sequencing validation. Front Immunol 2022;13:994828. PMID: 36405728
  • Li J, Zhang Y, Lu T, Liang R et al. Identification of diagnostic genes for both Alzheimer's disease and Metabolic syndrome by the machine learning algorithm. Front Immunol 2022;13:1037318. PMID: 36405716
  • Duo M, Liu Z, Li P, Wang Y et al. Integrative bioinformatics analysis to explore a robust diagnostic signature and landscape of immune cell infiltration in sarcoidosis. Front Med (Lausanne) 2022;9:942177. PMID: 36405616
  • Zheng Y, Sun W, Wang Z, Liu J et al. Activation of Pancreatic Acinar FXR Protects against Pancreatitis via Osgin1-Mediated Restoration of Efficient Autophagy. Research (Wash D C) 2022;2022:9784081. PMID: 36405253
  • Li B, Zhang YW, Cao K, Li C et al. WD repeat domain 48 promotes hepatocellular carcinoma progression by stabilizing c-Myc. J Cell Mol Med 2022 Dec;26(23):5755-5766. PMID: 36403194
  • Dai W, Zhong A, Qiao Q, Wu J et al. Characteristics of lymphocyte subset alterations in COVID-19 patients with different levels of disease severity. Virol J 2022 Nov 19;19(1):192. PMID: 36403042
  • Qumsiyeh E, Showe L, Yousef M et al. GediNET for discovering gene associations across diseases using knowledge based machine learning approach. Sci Rep 2022 Nov 19;12(1):19955. PMID: 36402891
  • Sultana A, Alam MS, Liu X, Sharma R et al. Single-cell RNA-seq analysis to identify potential biomarkers for diagnosis, and prognosis of non-small cell lung cancer by using comprehensive bioinformatics approaches. Transl Oncol 2023 Jan;27:101571. PMID: 36401966
  • Wang L, Zhu Z, Liang Q, Tao Y et al. A novel small molecule glycolysis inhibitor WZ35 exerts anti-cancer effect via metabolic reprogramming. J Transl Med 2022 Nov 18;20(1):530. PMID: 36401321
  • Teng X, Mou DC, Li HF, Jiao L et al. SIGIRR deficiency contributes to CD4 T cell abnormalities by facilitating the IL1/C/EBPβ/TNF-α signaling axis in rheumatoid arthritis. Mol Med 2022 Nov 18;28(1):135. PMID: 36401167
  • Matsumura T, Totani H, Gunji Y, Fukuda M et al. A Myb enhancer-guided analysis of basophil and mast cell differentiation. Nat Commun 2022 Nov 18;13(1):7064. PMID: 36400777
  • Darawshi O, Muz B, Naamat SG, Praveen B et al. An mTORC1 to HRI signaling axis promotes cytotoxicity of proteasome inhibitors in multiple myeloma. Cell Death Dis 2022 Nov 18;13(11):969. PMID: 36400754
  • Burgin J, Ahamed A, Cummins C, Devraj R et al. The European Nucleotide Archive in 2022. Nucleic Acids Res 2023 Jan 6;51(D1):D121-D125. PMID: 36399492
  • Hu L, Sun Y, Liu S, Erb H et al. Discovery of a new class of reversible TEA domain transcription factor inhibitors with a novel binding mode. Elife 2022 Nov 18;11. PMID: 36398861
  • Guan YZ, Liu H, Huang HJ, Liang DY et al. Identification of the Potential Molecular Mechanism of TGFBI Gene in Persistent Atrial Fibrillation. Comput Math Methods Med 2022;2022:1643674. PMID: 36398072
  • Truong AD, Tran HTT, Chu NT, Nguyen HT et al. Genome‑wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection. Anim Biosci 2023 Apr;36(4):570-583. PMID: 36397707
  • Rush CM, Blanchard Z, Polaski JT, Osborne KS et al. Characterization of HCI-EC-23 a novel estrogen- and progesterone-responsive endometrial cancer cell line. Sci Rep 2022 Nov 17;12(1):19731. PMID: 36396974
  • Zhang X, Yin H, Zhang X, Jiang X et al. N6-methyladenosine modification governs liver glycogenesis by stabilizing the glycogen synthase 2 mRNA. Nat Commun 2022 Nov 17;13(1):7038. PMID: 36396934
  • Hong XL, Yu TC, Huang XW, Wang JL et al. Metformin abrogates Fusobacterium nucleatum-induced chemoresistance in colorectal cancer by inhibiting miR-361-5p/sonic hedgehog signaling-regulated stemness. Br J Cancer 2023 Jan;128(2):363-374. PMID: 36396820
  • Saaoud F, Liu L, Xu K, Cueto R et al. Aorta- and liver-generated TMAO enhances trained immunity for increased inflammation via ER stress/mitochondrial ROS/glycolysis pathways. JCI Insight 2023 Jan 10;8(1). PMID: 36394956
  • Lee D, Gimple RC, Wu X, Prager BC et al. Superenhancer activation of KLHDC8A drives glioma ciliation and hedgehog signaling. J Clin Invest 2023 Jan 17;133(2). PMID: 36394953
  • Yao K, Zhou E, Schaafsma E, Zhang B et al. Immune checkpoint gene VSIR predicts patient prognosis in acute myeloid leukemia and myelodysplastic syndromes. Cancer Med 2023 Mar;12(5):5590-5602. PMID: 36394080
  • Jiang Y, Yan Q, Zhang M, Lin X et al. Identification of Molecular Markers Related to Immune Infiltration in Patients with Severe Asthma: A Comprehensive Bioinformatics Analysis Based on the Human Bronchial Epithelial Transcriptome. Dis Markers 2022;2022:8906064. PMID: 36393974
  • Metzner K, Darawsha O, Wang M, Gaur N et al. Age-dependent increase of cytoskeletal components in sensory axons in human skin. Front Cell Dev Biol 2022;10:965382. PMID: 36393849
  • Shi W, Chen Z, Liu H, Miao C et al. COL11A1 as an novel biomarker for breast cancer with machine learning and immunohistochemistry validation. Front Immunol 2022;13:937125. PMID: 36389832
  • Zhang Y, Zeng H, Hu Y, Jiang L et al. Establishment and validation of evaluation models for post-inflammatory pigmentation abnormalities. Front Immunol 2022;13:991594. PMID: 36389813
  • Yan C, Niu Y, Wang X et al. Blood transcriptome analysis revealed the crosstalk between COVID-19 and HIV. Front Immunol 2022;13:1008653. PMID: 36389792
  • Chang Z, Li R, Zhang J, An L et al. Distinct immune and inflammatory response patterns contribute to the identification of poor prognosis and advanced clinical characters in bladder cancer patients. Front Immunol 2022;13:1008865. PMID: 36389789
  • Zheng X, Ma Y, Bai Y, Huang T et al. Identification and validation of immunotherapy for four novel clusters of colorectal cancer based on the tumor microenvironment. Front Immunol 2022;13:984480. PMID: 36389763
  • Li H, Yu L, Zhang X, Shang J et al. Exploring the molecular mechanisms and shared gene signatures between rheumatoid arthritis and diffuse large B cell lymphoma. Front Immunol 2022;13:1036239. PMID: 36389761
  • Li X, Wang R, Wang S, Wang L et al. Construction of a B cell-related gene pairs signature for predicting prognosis and immunotherapeutic response in non-small cell lung cancer. Front Immunol 2022;13:989968. PMID: 36389757
  • Wang L, Chen X, Zhang H, Hong L et al. Comprehensive analysis of transient receptor potential channels-related signature for prognosis, tumor immune microenvironment, and treatment response of colorectal cancer. Front Immunol 2022;13:1014834. PMID: 36389750
  • Han X, Chen Y, Zhang N, Huang C et al. Single-cell mechanistic studies of radiation-mediated bystander effects. Front Immunol 2022;13:849341. PMID: 36389749
  • Jiang Y, Zhang S, Tang L, Li R et al. Single-cell RNA sequencing reveals TCR(+) macrophages in HPV-related head and neck squamous cell carcinoma. Front Immunol 2022;13:1030222. PMID: 36389736
  • Georgoulias G, Zaravinos A et al. Genomic landscape of the immunogenicity regulation in skin melanomas with diverse tumor mutation burden. Front Immunol 2022;13:1006665. PMID: 36389735
  • Khan M, Lin J, Wang B, Chen C et al. A novel necroptosis-related gene index for predicting prognosis and a cold tumor immune microenvironment in stomach adenocarcinoma. Front Immunol 2022;13:968165. PMID: 36389725
  • Chang J, Jiang Z, Ma T, Li J et al. Integrating transcriptomics and network analysis-based multiplexed drug repurposing to screen drug candidates for M2 macrophage-associated castration-resistant prostate cancer bone metastases. Front Immunol 2022;13:989972. PMID: 36389722
  • Huang J, Zhang J, Wang F, Zhang B et al. Comprehensive analysis of cuproptosis-related genes in immune infiltration and diagnosis in ulcerative colitis. Front Immunol 2022;13:1008146. PMID: 36389705
  • He H, Huang T, Guo S, Yu F et al. Identification of a novel sepsis prognosis model and analysis of possible drug application prospects: Based on scRNA-seq and RNA-seq data. Front Immunol 2022;13:888891. PMID: 36389695
  • Wang X, Xu Y, Dai L, Yu Z et al. A novel oxidative stress- and ferroptosis-related gene prognostic signature for distinguishing cold and hot tumors in colorectal cancer. Front Immunol 2022;13:1043738. PMID: 36389694
  • Yuan YS, Jin X, Chen L, Liao JM et al. A novel model based on necroptosis-related genes for predicting immune status and prognosis in glioma. Front Immunol 2022;13:1027794. PMID: 36389690
  • Canaria DA, Clare MG, Yan B, Campbell CB et al. IL-1β promotes IL-9-producing Th cell differentiation in IL-2-limiting conditions through the inhibition of BCL6. Front Immunol 2022;13:1032618. PMID: 36389679
  • He X, Shi Y, Zeng Z, Tang B et al. Intimate intertwining of the pathogenesis of hypoxia and systemic sclerosis: A transcriptome integration analysis. Front Immunol 2022;13:929289. PMID: 36389675
  • Dicker M, Li Y, Giles DA, Verstichel G et al. CD4(+)-mediated colitis in mice is independent of the GPR183 and GPR18 pathways. Front Immunol 2022;13:1034648. PMID: 36389671
  • Zhang Q, Sun X, Sun J, Lu J et al. RNA m(5)C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer. Front Immunol 2022;13:905057. PMID: 36389669
  • Schoenbachler JL, Hughey JJ et al. The seeker R package: simplified fetching and processing of transcriptome data. PeerJ 2022;10:e14372. PMID: 36389425
  • Sangket U, Yodsawat P, Nuanpirom J, Sathapondecha P et al. bestDEG: a web-based application automatically combines various tools to precisely predict differentially expressed genes (DEGs) from RNA-Seq data. PeerJ 2022;10:e14344. PMID: 36389403
  • Zhou H, Gong K, Yang Y, Wu Q et al. MKI67 as a potential diagnostic biomarker in pulmonary hypertension. Front Pediatr 2022;10:1016889. PMID: 36389368
  • Wang L, Duan C, Wang R, Chen L et al. Inflammation-related genes and immune infiltration landscape identified in kainite-induced temporal lobe epilepsy based on integrated bioinformatics analysis. Front Neurosci 2022;16:996368. PMID: 36389252
  • Gong T, Wang Y, Dong S, Ma X et al. Single-cell RNA-seq reveals the communications between extracellular matrix-related components and Schwann cells contributing to the earlobe keloid formation. Front Med (Lausanne) 2022;9:1000324. PMID: 36388926
  • Chang H, Jin L, Xie P, Zhang B et al. Complement C5 is a novel biomarker for liver metastasis of colorectal cancer. J Gastrointest Oncol 2022 Oct;13(5):2351-2365. PMID: 36388659
  • Huang J, Zhang J, Wang F, Zhang B et al. Revealing immune infiltrate characteristics and potential diagnostic value of immune-related genes in ulcerative colitis: An integrative genomic analysis. Front Public Health 2022;10:1003002. PMID: 36388363
  • Wang H, Guo Y, Zhang P, Lin Z et al. Development of an Independent Prognostic Signature Based on Three Hypoxia-Related Genes for Breast Cancer. Comput Math Methods Med 2022;2022:2974126. PMID: 36388159
  • Huang W, Xiao Y, Wang H, Chen G et al. Identification of risk model based on glycolysis-related genes in the metastasis of osteosarcoma. Front Endocrinol (Lausanne) 2022;13:1047433. PMID: 36387908
  • Li W, Liu Z, Cen X, Xu J et al. Integrated analysis of fibroblasts molecular features in papillary thyroid cancer combining single-cell and bulk RNA sequencing technology. Front Endocrinol (Lausanne) 2022;13:1019072. PMID: 36387901
  • Wang Y, Cheng H, Zeng T, Chen S et al. A novel 17 apoptosis-related genes signature could predict overall survival for bladder cancer and its associations with immune infiltration. Heliyon 2022 Nov;8(11):e11343. PMID: 36387445
  • Duca RB, Massillo C, Farré PL, Graña KD et al. Hsa-miR-133a-3p, miR-1-3p, GOLPH3 and JUP combination results in a good biomarker to distinguish between prostate cancer and non-prostate cancer patients. Front Oncol 2022;12:997457. PMID: 36387263
  • Li Z, Zeng T, Zhou C, Chen Y et al. A prognostic signature model for unveiling tumor progression in lung adenocarcinoma. Front Oncol 2022;12:1019442. PMID: 36387251
  • Sui X, Mao X, Wu G, Meng Q et al. DUSP1 promotes muscle atrophy by inhibiting myocyte differentiation in cachectic patients. Front Oncol 2022;12:1040112. PMID: 36387242
  • Wei YB, Liang DM, Zhang ML, Li YJ et al. WFDC21P promotes triple-negative breast cancer proliferation and migration through WFDC21P/miR-628/SMAD3 axis. Front Oncol 2022;12:1032850. PMID: 36387210
  • Sakares W, Wongkhattiya W, Vichayachaipat P, Chaiwut C et al. Accuracy of CCL20 expression level as a liquid biopsy-based diagnostic biomarker for ovarian carcinoma. Front Oncol 2022;12:1038835. PMID: 36387204
  • Jiang HZ, Yang B, Jiang YL, Liu X et al. Development and validation of prognostic models for colon adenocarcinoma based on combined immune-and metabolism-related genes. Front Oncol 2022;12:1025397. PMID: 36387195
  • Jia J, Han Z, Wang X, Zheng X et al. H2B gene family: A prognostic biomarker and correlates with immune infiltration in glioma. Front Oncol 2022;12:966817. PMID: 36387186
  • Li W, Fu H, Fang L, Chai H et al. Shikonin induces ferroptosis in multiple myeloma via GOT1-mediated ferritinophagy. Front Oncol 2022;12:1025067. PMID: 36387145
  • Lin M, Lian NZ, Cao LL, Huang CM et al. Down-regulated expression of CDK5RAP3 and UFM1 suggests a poor prognosis in gastric cancer patients. Front Oncol 2022;12:927751. PMID: 36387125
  • Sun Y, Zhang C et al. The types of tumor infiltrating lymphocytes are valuable for the diagnosis and prognosis of breast cancer. Front Genet 2022;13:1019062. PMID: 36386851
  • Ding Y, Chen Y, Yang X, Xu P et al. An integrative analysis of the lncRNA-miRNA-mRNA competitive endogenous RNA network reveals potential mechanisms in the murine hair follicle cycle. Front Genet 2022;13:931797. PMID: 36386842
  • Ramezankhani R, Ghavidel AA, Rashidi S, Rojhannezhad M et al. Gender-related differentially expressed genes in pancreatic cancer: possible culprits or accomplices? Front Genet 2022;13:966941. PMID: 36386839
  • Tang Z, Wang Q, Chen P, Guo H et al. Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer. Front Genet 2022;13:1002699. PMID: 36386809
  • Zhu B, Wang S, Wang R, Wang X et al. Identification of molecular subtypes and a six-gene risk model related to cuproptosis for triple negative breast cancer. Front Genet 2022;13:1022236. PMID: 36386788
  • Majumdar U, Choudhury TZ, Manivannan S, Ueyama Y et al. Single-cell RNA-sequencing analysis of aortic valve interstitial cells demonstrates the regulation of integrin signaling by nitric oxide. Front Cardiovasc Med 2022;9:742850. PMID: 36386365
  • Zhao Y, Xia A, Li C, Long X et al. Methyltransferase like 3-mediated N6-methylatidin methylation inhibits vascular smooth muscle cells phenotype switching via promoting phosphatidylinositol 3-kinase mRNA decay. Front Cardiovasc Med 2022;9:913039. PMID: 36386358
  • Tu D, Ma C, Zeng Z, Xu Q et al. Identification of hub genes and transcription factor regulatory network for heart failure using RNA-seq data and robust rank aggregation analysis. Front Cardiovasc Med 2022;9:916429. PMID: 36386304
  • Xu Y, Zhang H, Zhang D, Wang Y et al. Identification of a novel peripheral blood signature diagnosing subclinical acute rejection after renal transplantation. Transl Androl Urol 2022 Oct;11(10):1399-1409. PMID: 36386255
  • Xu L, Ye Y, Sun Y, Zhong W et al. Low FNDC5/Irisin expression is associated with aggressive phenotypes in gastric cancer. Front Pharmacol 2022;13:981201. PMID: 36386179
  • Huang RH, Ge ZL, Xu G, Zeng QM et al. Lysosomal-Associated Transmembrane Protein 5 Promotes Proliferation, Migration, and Invasion of Clear Cell Renal Cell Carcinoma. J Oncol 2022;2022:6334546. PMID: 36385959
  • Peng Q, Zhang Y, Xian B, Wu L et al. A synonymous variant contributes to a rare Wiedemann-Rautenstrauch syndrome complicated with mild anemia via affecting pre-mRNA splicing. Front Mol Neurosci 2022;15:1026530. PMID: 36385762
  • Balasubramanian R, Vinod PK et al. Inferring miRNA sponge modules across major neuropsychiatric disorders. Front Mol Neurosci 2022;15:1009662. PMID: 36385761
  • Blanchard JW, Akay LA, Davila-Velderrain J, von Maydell D et al. APOE4 impairs myelination via cholesterol dysregulation in oligodendrocytes. Nature 2022 Nov;611(7937):769-779. PMID: 36385529
  • Zhang X, Liu X, Xiong R, An HX et al. Identification and validation of ubiquitin-proteasome system related genes as a prognostic signature for papillary renal cell carcinoma. Aging (Albany NY) 2022 Nov 16;14(23):9599-9616. PMID: 36385010
  • Lopes N, Galluso J, Escalière B, Carpentier S et al. Tissue-specific transcriptional profiles and heterogeneity of natural killer cells and group 1 innate lymphoid cells. Cell Rep Med 2022 Nov 15;3(11):100812. PMID: 36384102
  • Gupta N, Song H, Wu W, Ponce RK et al. The CIC-ERF co-deletion underlies fusion-independent activation of ETS family member, ETV1, to drive prostate cancer progression. Elife 2022 Nov 16;11. PMID: 36383412
  • Ignatenko O, Malinen S, Rybas S, Vihinen H et al. Mitochondrial dysfunction compromises ciliary homeostasis in astrocytes. J Cell Biol 2023 Jan 2;222(1). PMID: 36383135
  • Sarnataro A, De Riso G, Cocozza S, Pezone A et al. A novel workflow for the qualitative analysis of DNA methylation data. Comput Struct Biotechnol J 2022;20:5925-5934. PMID: 36382198
  • Mikolajewicz N, Khan S, Trifoi M, Skakdoub A et al. Leveraging the CSF proteome toward minimally-invasive diagnostics surveillance of brain malignancies. Neurooncol Adv 2022 Jan-Dec;4(1):vdac161. PMID: 36382110
  • Wu D, Poddar A, Ninou E, Hwang E et al. Dual genome-wide coding and lncRNA screens in neural induction of induced pluripotent stem cells. Cell Genom 2022 Nov 9;2(11). PMID: 36381608
  • Zhang YH, Su XZ, Li J, Shi JJ et al. Multicohort transcriptome analysis of whole blood identifies robust human response signatures in Plasmodium falciparum infections. Malar J 2022 Nov 15;21(1):333. PMID: 36380373
  • Gao Z, Xu J, Fan Y, Zhang Z et al. ARPC1B promotes mesenchymal phenotype maintenance and radiotherapy resistance by blocking TRIM21-mediated degradation of IFI16 and HuR in glioma stem cells. J Exp Clin Cancer Res 2022 Nov 16;41(1):323. PMID: 36380368
  • Jiang ST, Liu YG, Zhang L, Sang XT et al. Systems biology approach reveals a common molecular basis for COVID-19 and non-alcoholic fatty liver disease (NAFLD). Eur J Med Res 2022 Nov 15;27(1):251. PMID: 36380355
  • Veggiani G, Villaseñor R, Martyn GD, Tang JQ et al. High-affinity chromodomains engineered for improved detection of histone methylation and enhanced CRISPR-based gene repression. Nat Commun 2022 Nov 15;13(1):6975. PMID: 36379931
  • Morillo RC, Harris CT, Kennedy K, Henning SR et al. Genome-wide profiling of histone modifications in Plasmodium falciparum using CUT&RUN. Life Sci Alliance 2023 Jan;6(1). PMID: 36379668
  • Cury SS, Oliveira JS, Biagi-Júnior CAO, Silva WA Jr et al. Transcriptional profiles and common genes link lung cancer with the development and severity of COVID-19. Gene 2023 Feb 5;852:147047. PMID: 36379381
  • Wang Z, Shao L, Cai X, Zhou Y et al. The potential function of SP1 and CPPED1 in restenosis after percutaneous coronary intervention. J Card Surg 2022 Dec;37(12):5111-5119. PMID: 36378884
  • Iacucci M, Jeffery L, Acharjee A, Grisan E et al. Computer-Aided Imaging Analysis of Probe-Based Confocal Laser Endomicroscopy With Molecular Labeling and Gene Expression Identifies Markers of Response to Biological Therapy in IBD Patients: The Endo-Omics Study. Inflamm Bowel Dis 2022 Nov 15 PMID: 36378498
  • Einarsson H, Salvatore M, Vaagensø C, Alcaraz N et al. Promoter sequence and architecture determine expression variability and confer robustness to genetic variants. Elife 2022 Nov 15;11. PMID: 36377861
  • Ren X, Peng M, Xing P, Wei Y et al. Blockade of the immunosuppressive KIR2DL5/PVR pathway elicits potent human NK cell-mediated antitumor immunity. J Clin Invest 2022 Nov 15;132(22). PMID: 36377656
  • Hou L, Hou Y, Liang Y, Chen B et al. Anti-tumor effects of P-LPK-CPT, a peptide-camptothecin conjugate, in colorectal cancer. Commun Biol 2022 Nov 14;5(1):1248. PMID: 36376440
  • Fernández-Palanca P, Payo-Serafín T, San-Miguel B, Méndez-Blanco C et al. Hepatocellular carcinoma cells loss lenvatinib efficacy in vitro through autophagy and hypoxia response-derived neuropilin-1 degradation. Acta Pharmacol Sin 2023 May;44(5):1066-1082. PMID: 36376373
  • Zhang Y, Li Z, Liu J, Zhang Y et al. Transposable elements orchestrate subgenome-convergent and -divergent transcription in common wheat. Nat Commun 2022 Nov 14;13(1):6940. PMID: 36376315
  • Wang L, Maletic-Savatic M, Liu Z et al. Region-specific denoising identifies spatial co-expression patterns and intra-tissue heterogeneity in spatially resolved transcriptomics data. Nat Commun 2022 Nov 14;13(1):6912. PMID: 36376296
  • Shi D, Li Y, Shi X, Yao M et al. Transcriptional expression of CXCL10 and STAT1 in lupus nephritis and the intervention effect of triptolide. Clin Rheumatol 2023 Feb;42(2):539-548. PMID: 36374433
  • Zekri Y, Guyot R, Suñer IG, Canaple L et al. Brown adipocytes local response to thyroid hormone is required for adaptive thermogenesis in adult male mice. Elife 2022 Nov 14;11. PMID: 36374165
  • Chen WJ, Huang WK, Pather SR, Chang WF et al. Podocalyxin-Like Protein 1 Regulates Pluripotency through the Cholesterol Biosynthesis Pathway. Adv Sci (Weinh) 2022 Nov 14;10(1):e2205451. PMID: 36373710
  • Chen L, Li SC et al. Incorporating cell hierarchy to decipher the functional diversity of single cells. Nucleic Acids Res 2023 Jan 25;51(2):e9. PMID: 36373664
  • Zheng Y, Luo H, Teng X, Hao X et al. NPInter v5.0: ncRNA interaction database in a new era. Nucleic Acids Res 2023 Jan 6;51(D1):D232-D239. PMID: 36373614
  • Gowdini E, Aleyasin SA, Ramezani N, Nafisi N et al. DOK7 CpG hypermethylation in blood leukocytes as an epigenetic biomarker for acquired tamoxifen resistant in breast cancer. J Hum Genet 2023 Jan;68(1):33-38. PMID: 36372800
  • Li R, Tong R, Zhang Z, Deng M et al. Single-cell sequencing analysis and transcriptome analysis constructed the macrophage related gene-related signature in lung adenocarcinoma and verified by an independent cohort. Genomics 2022 Nov;114(6):110520. PMID: 36372305
  • Ka-Yue Chow L, Lai-Shun Chung D, Tao L, Chan KF et al. Epigenomic landscape study reveals molecular subtypes and EBV-associated regulatory epigenome reprogramming in nasopharyngeal carcinoma. EBioMedicine 2022 Dec;86:104357. PMID: 36371985
  • Wei JR, Hao ZZ, Xu C, Huang M et al. Identification of visual cortex cell types and species differences using single-cell RNA sequencing. Nat Commun 2022 Nov 12;13(1):6902. PMID: 36371428
  • Kubota SUtilizing Public Molecular Biological Databases for CCN Family Research. Methods Mol Biol 2023;2582:169-187. PMID: 36370350
  • Battenberg K, Kelly ST, Ras RA, Hetherington NA et al. A flexible cross-platform single-cell data processing pipeline. Nat Commun 2022 Nov 11;13(1):6847. PMID: 36369450
  • Boix O, Martinez M, Vidal S, Giménez-Alejandre M et al. pTINCR microprotein promotes epithelial differentiation and suppresses tumor growth through CDC42 SUMOylation and activation. Nat Commun 2022 Nov 11;13(1):6840. PMID: 36369429
  • Luan J, Vermunt MW, Syrett CM, Coté A et al. CTCF blocks antisense transcription initiation at divergent promoters. Nat Struct Mol Biol 2022 Nov;29(11):1136-1144. PMID: 36369346
  • Xie K, Fuchs H, Scifo E, Liu D et al. Deep phenotyping and lifetime trajectories reveal limited effects of longevity regulators on the aging process in C57BL/6J mice. Nat Commun 2022 Nov 11;13(1):6830. PMID: 36369285
  • Jia D, Zhou Z, Kwon OJ, Zhang L et al. Stromal FOXF2 suppresses prostate cancer progression and metastasis by enhancing antitumor immunity. Nat Commun 2022 Nov 11;13(1):6828. PMID: 36369237
  • Chakraborty A, Wang JG, Ay F et al. dcHiC detects differential compartments across multiple Hi-C datasets. Nat Commun 2022 Nov 11;13(1):6827. PMID: 36369226
  • Wang Q, Qi Y, Xiong F, Wang D et al. The H2A.Z-KDM1A complex promotes tumorigenesis by localizing in the nucleus to promote SFRP1 promoter methylation in cholangiocarcinoma cells. BMC Cancer 2022 Nov 11;22(1):1166. PMID: 36368958
  • Liu Y, Li H, Luo Z, Yu Y et al. Artesunate, a new antimalarial clinical drug, exhibits potent anti-AML activity by targeting the ROS/Bim and TFRC/Fe(2+) pathways. Br J Pharmacol 2023 Mar;180(6):701-720. PMID: 36368726
  • Nakajima S, Mimura K, Kaneta A, Saito K et al. Radiation-Induced Remodeling of the Tumor Microenvironment Through Tumor Cell-Intrinsic Expression of cGAS-STING in Esophageal Squamous Cell Carcinoma. Int J Radiat Oncol Biol Phys 2023 Mar 15;115(4):957-971. PMID: 36368436
  • Salcher S, Sturm G, Horvath L, Untergasser G et al. High-resolution single-cell atlas reveals diversity and plasticity of tissue-resident neutrophils in non-small cell lung cancer. Cancer Cell 2022 Dec 12;40(12):1503-1520.e8. PMID: 36368318
  • Rinchai D, Deola S, Zoppoli G, Kabeer BSA et al. High-temporal resolution profiling reveals distinct immune trajectories following the first and second doses of COVID-19 mRNA vaccines. Sci Adv 2022 Nov 11;8(45):eabp9961. PMID: 36367935
  • Zhang ZZ, Wen CH, Jia M, Zhang HQ et al. Alkannin exerts antitumor properties in cutaneous squamous cell carcinoma by inducing apoptosis and shifting the M1/M2 polarization of tumor-associated macrophages by upregulating PTEN. Kaohsiung J Med Sci 2023 Jan;39(1):70-79. PMID: 36367154
  • Su M, Zhao W, Li Y, Li H et al. Genome-Wide Transcriptional Profiling Reveals PHACTR1 as a Novel Molecular Target of Resveratrol in Endothelial Homeostasis. Nutrients 2022 Oct 27;14(21). PMID: 36364780
  • Maudsley S, Walter D, Schrauwen C, Van Loon N et al. Intersection of the Orphan G Protein-Coupled Receptor, GPR19, with the Aging Process. Int J Mol Sci 2022 Nov 6;23(21). PMID: 36362387
  • Li Z, Mao J, Huang D, Song B et al. RNADSN: Transfer-Learning 5-Methyluridine (m(5)U) Modification on mRNAs from Common Features of tRNA. Int J Mol Sci 2022 Nov 4;23(21). PMID: 36362279
  • Urh K, Zidar N, Boštjančič E et al. Bioinformatics Analysis of RNA-seq Data Reveals Genes Related to Cancer Stem Cells in Colorectal Cancerogenesis. Int J Mol Sci 2022 Oct 31;23(21). PMID: 36362041
  • Zhu DH, Zhang YH, Ou-Yang XX, Meng XH et al. Expression, Prognostic Value, and Functional Mechanism of Polarity-Related Genes in Hepatocellular Carcinoma. Int J Mol Sci 2022 Oct 24;23(21). PMID: 36361574
  • Le Noci V, Bernardo G, Manenti G, Infante G et al. Live or Heat-Killed Lactobacillus rhamnosus Aerosolization Decreases Adenomatous Lung Cancer Development in a Mouse Carcinogen-Induced Tumor Model. Int J Mol Sci 2022 Oct 22;23(21). PMID: 36361537
  • Jiao Y, Hao L, Xia P, Cheng Y et al. Identification of Potential miRNA-mRNA Regulatory Network Associated with Pig Growth Performance in the Pituitaries of Bama Minipigs and Landrace Pigs. Animals (Basel) 2022 Nov 7;12(21). PMID: 36359184
  • Huseby CJ, Delvaux E, Brokaw DL, Coleman PD et al. Blood Transcript Biomarkers Selected by Machine Learning Algorithm Classify Neurodegenerative Diseases including Alzheimer's Disease. Biomolecules 2022 Oct 29;12(11). PMID: 36358942
  • Garrison Z, Chang M, Hornick N, Yu WY et al. A Novel Potential Role for Monocytes Revealed by Single Cell Analysis of Immunotherapy Induced Immune Related Adverse Events. Cancers (Basel) 2022 Nov 2;14(21). PMID: 36358824
  • Song X, Li R, Liu G, Huang L et al. Nuclear Membrane Protein SUN5 Is Highly Expressed and Promotes Proliferation and Migration in Colorectal Cancer by Regulating the ERK Pathway. Cancers (Basel) 2022 Oct 31;14(21). PMID: 36358787
  • Muzzi JCD, Magno JM, Souza JS, Alvarenga LM et al. Comprehensive Characterization of the Regulatory Landscape of Adrenocortical Carcinoma: Novel Transcription Factors and Targets Associated with Prognosis. Cancers (Basel) 2022 Oct 27;14(21). PMID: 36358698
  • Li C, Wu H, Guo L, Liu D et al. Single-cell transcriptomics reveals cellular heterogeneity and molecular stratification of cervical cancer. Commun Biol 2022 Nov 10;5(1):1208. PMID: 36357663
  • Hodgson R, Xu X, Anzilotti C, Deobagkar-Lele M et al. NDRG1 is induced by antigen-receptor signaling but dispensable for B and T cell self-tolerance. Commun Biol 2022 Nov 10;5(1):1216. PMID: 36357486
  • Liu T, Liu C, Yan M, Zhang L et al. Single cell profiling of primary and paired metastatic lymph node tumors in breast cancer patients. Nat Commun 2022 Nov 10;13(1):6823. PMID: 36357424
  • Vdovin A, Jelinek T, Zihala D, Sevcikova T et al. The deubiquitinase OTUD1 regulates immunoglobulin production and proteasome inhibitor sensitivity in multiple myeloma. Nat Commun 2022 Nov 10;13(1):6820. PMID: 36357400
  • Asrani K, Woo J, Mendes AA, Schaffer E et al. An mTORC1-mediated negative feedback loop constrains amino acid-induced FLCN-Rag activation in renal cells with TSC2 loss. Nat Commun 2022 Nov 10;13(1):6808. PMID: 36357396
  • Sanson R, Lazzara SL, Cune D, Pitasi CL et al. Axin1 Protects Colon Carcinogenesis by an Immune-Mediated Effect. Cell Mol Gastroenterol Hepatol 2023;15(3):689-715. PMID: 36356835
  • Keniry A, Jansz N, Hickey PF, Breslin KA et al. A method for stabilising the XX karyotype in female mESC cultures. Development 2022 Nov 15;149(22). PMID: 36355065
  • Zhang J, Xie S, Chen Y, Zhou X et al. Comprehensive analysis of endoplasmic reticulum stress and immune infiltration in major depressive disorder. Front Psychiatry 2022;13:1008124. PMID: 36353576
  • Lai J, Chen W, Zhao A, Huang J et al. Determination of a DNA repair-related gene signature with potential implications for prognosis and therapeutic response in pancreatic adenocarcinoma. Front Oncol 2022;12:939891. PMID: 36353555
  • Chen Y, Tang L, Huang W, Zhang Y et al. Identification and validation of a novel cuproptosis-related signature as a prognostic model for lung adenocarcinoma. Front Endocrinol (Lausanne) 2022;13:963220. PMID: 36353226
  • Li M, Zhang T, Chen W et al. Development of necroptosis-related gene signature to predict the prognosis of colon adenocarcinoma. Front Genet 2022;13:1051800. PMID: 36353119
  • Li W, Liu J, Zhu W, Jin X et al. Identification of biomarkers for hepatocellular carcinoma based on single cell sequencing and machine learning algorithms. Front Genet 2022;13:873218. PMID: 36353113
  • Yang LK, Lin CX, Li SH, Liang JJ et al. Novel IKZF3 transcriptomic signature correlates with positive outcomes of skin cutaneous melanoma: A pan-cancer analysis. Front Genet 2022;13:1036402. PMID: 36353107
  • Weaver JD, Stack EC, Buggé JA, Hu C et al. Differential expression of CCR8 in tumors versus normal tissue allows specific depletion of tumor-infiltrating T regulatory cells by GS-1811, a novel Fc-optimized anti-CCR8 antibody. Oncoimmunology 2022;11(1):2141007. PMID: 36352891
  • Li X, Guo C, Li Z, Wang G et al. Deciphering the roles of tobacco MYB transcription factors in environmental stress tolerance. Front Plant Sci 2022;13:998606. PMID: 36352868
  • Lu Y, Zhao N, Du Y et al. Comprehensive bioinformatics analysis reveals common potential mechanisms, progression markers, and immune cells of coronary virus disease 2019 and atrial fibrillation. Front Cardiovasc Med 2022;9:1027026. PMID: 36352845
  • Carvalho RF, do Canto LM, Abildgaard C, Aagaard MM et al. Single-cell and bulk RNA sequencing reveal ligands and receptors associated with worse overall survival in serous ovarian cancer. Cell Commun Signal 2022 Nov 9;20(1):176. PMID: 36352420
  • Lesage R, Ferrao Blanco MN, Narcisi R, Welting T et al. An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis. BMC Biol 2022 Nov 9;20(1):253. PMID: 36352408
  • Knaack SA, Conde D, Chakraborty S, Balmant KM et al. Temporal change in chromatin accessibility predicts regulators of nodulation in Medicago truncatula. BMC Biol 2022 Nov 9;20(1):252. PMID: 36352404
  • Tonouo PD, Dina Bell E, Tiofack Zebaze AA, Ndounga E et al. Molecular characterization of early breast cancer onset to understand disease phenotypes in African patients. Med Oncol 2022 Nov 9;40(1):13. PMID: 36352274
  • Lomakin A, Svedlund J, Strell C, Gataric M et al. Spatial genomics maps the structure, nature and evolution of cancer clones. Nature 2022 Nov;611(7936):594-602. PMID: 36352222
  • Li XY, Wu JC, Liu P, Li ZJ et al. Inhibition of USP1 reverses the chemotherapy resistance through destabilization of MAX in the relapsed/refractory B-cell lymphoma. Leukemia 2023 Jan;37(1):164-177. PMID: 36352191
  • Wang S, Liao Y, Zhang H, Jiang Y et al. Tcf12 is required to sustain myogenic genes synergism with MyoD by remodelling the chromatin landscape. Commun Biol 2022 Nov 9;5(1):1201. PMID: 36352000
  • Li M, Liang C et al. LncDC: a machine learning-based tool for long non-coding RNA detection from RNA-Seq data. Sci Rep 2022 Nov 9;12(1):19083. PMID: 36351980
  • Kohjitani H, Koda S, Himeno Y, Makiyama T et al. Gradient-based parameter optimization method to determine membrane ionic current composition in human induced pluripotent stem cell-derived cardiomyocytes. Sci Rep 2022 Nov 9;12(1):19110. PMID: 36351955
  • Ide S, Ide K, Abe K, Kobayashi Y et al. Sex differences in resilience to ferroptosis underlie sexual dimorphism in kidney injury and repair. Cell Rep 2022 Nov 8;41(6):111610. PMID: 36351395
  • Richards L, Lord CL, Benton ML, Capra JA et al. Nucleoporins facilitate ORC loading onto chromatin. Cell Rep 2022 Nov 8;41(6):111590. PMID: 36351393
  • Chen PB, Fiaux PC, Zhang K, Li B et al. Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation. Cell Rep 2022 Nov 8;41(6):111630. PMID: 36351387
  • Burton AR, Guillaume SM, Foster WS, Wheatley AK et al. The memory B cell response to influenza vaccination is impaired in older persons. Cell Rep 2022 Nov 8;41(6):111613. PMID: 36351385
  • Belleau P, Deschênes A, Chambwe N, Tuveson DA et al. Genetic Ancestry Inference from Cancer-Derived Molecular Data across Genomic and Transcriptomic Platforms. Cancer Res 2023 Jan 4;83(1):49-58. PMID: 36351074
  • Spetz JKE, Florido MHC, Fraser CS, Qin X et al. Heightened apoptotic priming of vascular cells across tissues and life span predisposes them to cancer therapy-induced toxicities. Sci Adv 2022 Nov 11;8(45):eabn6579. PMID: 36351019
  • Pan M, Li B et al. T cell receptor convergence is an indicator of antigen-specific T cell response in cancer immunotherapies. Elife 2022 Nov 9;11. PMID: 36350695
  • Zhang Z, Wiencke JK, Kelsey KT, Koestler DC et al. HiTIMED: hierarchical tumor immune microenvironment epigenetic deconvolution for accurate cell type resolution in the tumor microenvironment using tumor-type-specific DNA methylation data. J Transl Med 2022 Nov 8;20(1):516. PMID: 36348337
  • Chen Z, Wang X, Wu H, Fan Y et al. X-box binding protein 1 as a key modulator in "healing endothelial cells", a novel EC phenotype promoting angiogenesis after MCAO. Cell Mol Biol Lett 2022 Nov 8;27(1):97. PMID: 36348288
  • Gulaia V, Shmelev M, Romanishin A, Shved N et al. Single-nucleus transcriptomics of IDH1- and TP53-mutant glioma stem cells displays diversified commitment on invasive cancer progenitors. Sci Rep 2022 Nov 8;12(1):18975. PMID: 36348001
  • Smith KC, Chawla DG, Dhillon BK, Ji Z et al. A curated collection of human vaccination response signatures. Sci Data 2022 Nov 8;9(1):678. PMID: 36347894
  • Endicott JL, Nolte PA, Shen H, Laird PW et al. Cell division drives DNA methylation loss in late-replicating domains in primary human cells. Nat Commun 2022 Nov 8;13(1):6659. PMID: 36347867
  • Chen Y, Wang Y, Chen Y, Cheng Y et al. Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis. Nat Commun 2022 Nov 8;13(1):6735. PMID: 36347853
  • Hu Y, Gao Q, Ma S, Yu P et al. FMR1 promotes the progression of colorectal cancer cell by stabilizing EGFR mRNA in an m(6)A-dependent manner. Cell Death Dis 2022 Nov 8;13(11):941. PMID: 36347844
  • Garcia G Jr, Jeyachandran AV, Wang Y, Irudayam JI et al. Hippo signaling pathway activation during SARS-CoV-2 infection contributes to host antiviral response. PLoS Biol 2022 Nov;20(11):e3001851. PMID: 36346780
  • Alcaraz LB, Mallavialle A, Mollevi C, Boissière-Michot F et al. SPARC in cancer-associated fibroblasts is an independent poor prognostic factor in non-metastatic triple-negative breast cancer and exhibits pro-tumor activity. Int J Cancer 2023 Mar 15;152(6):1243-1258. PMID: 36346290
  • Choi CHJ, Barr W, Zaman S, Model C et al. LRG1 is an adipokine that promotes insulin sensitivity and suppresses inflammation. Elife 2022 Nov 8;11. PMID: 36346018
  • Gaziano I, Corneliussen S, Biglari N, Neuhaus R et al. Dopamine-inhibited POMCDrd2+ neurons in the ARC acutely regulate feeding and body temperature. JCI Insight 2022 Nov 8;7(21). PMID: 36345942
  • Richoz N, Tuong ZK, Loudon KW, Patiño-Martínez E et al. Distinct pathogenic roles for resident and monocyte-derived macrophages in lupus nephritis. JCI Insight 2022 Nov 8;7(21). PMID: 36345939
  • Tanigawa K, Misono S, Mizuno K, Asai S et al. MicroRNA signature of small-cell lung cancer after treatment failure: impact on oncogenic targets by miR-30a-3p control. Mol Oncol 2023 Feb;17(2):328-343. PMID: 36345848
  • Liu Z, Weng S, Dang Q, Xu H et al. Gene interaction perturbation network deciphers a high-resolution taxonomy in colorectal cancer. Elife 2022 Nov 8;11. PMID: 36345721
  • Yang J, Yu L, Man J, Chen H et al. Immune scoring model based on immune cell infiltration to predict prognosis in diffuse large B-cell lymphoma. Cancer 2023 Jan 15;129(2):235-244. PMID: 36345617
  • Contreras-Marciales ADP, López-Guzmán SF, Benítez-Hess ML, Oviedo N et al. Characterization of the promoter region of the murine Catsper2 gene. FEBS Open Bio 2022 Dec;12(12):2236-2249. PMID: 36345591
  • Yi X, Marmontel de Souza B, Sawatani T, Szymczak F et al. Mining the transcriptome of target tissues of autoimmune and degenerative pancreatic β-cell and brain diseases to discover therapies. iScience 2022 Nov 18;25(11):105376. PMID: 36345338
  • Shah JB, Pueschl D, Wubbenhorst B, Fan M et al. Analysis of matched primary and recurrent BRCA1/2 mutation-associated tumors identifies recurrence-specific drivers. Nat Commun 2022 Nov 7;13(1):6728. PMID: 36344544
  • Lian N, Chen Y, Chen S, Xiao T et al. Necroptosis-mediated HMGB1 secretion of keratinocytes as a key step for inflammation development in contact hypersensitivity. Cell Death Discov 2022 Nov 7;8(1):451. PMID: 36344541
  • Jia G, Zhong X, Im HK, Schoettler N et al. Discerning asthma endotypes through comorbidity mapping. Nat Commun 2022 Nov 7;13(1):6712. PMID: 36344522
  • Busso-Lopes AF, Neves LX, Câmara GA, Granato DC et al. Connecting multiple microenvironment proteomes uncovers the biology in head and neck cancer. Nat Commun 2022 Nov 7;13(1):6725. PMID: 36344512
  • Zheng M, Hu Z, Zhou W, Kong Y et al. Single-cell transcriptome reveals immunopathological cell composition of skin lesions in subacute cutaneous lupus erythematosus. Clin Immunol 2022 Dec;245:109172. PMID: 36343898
  • Wu Q, Ying X, Yu W, Li H et al. Identification of ferroptosis-related genes in syncytiotrophoblast-derived extracellular vesicles of preeclampsia. Medicine (Baltimore) 2022 Nov 4;101(44):e31583. PMID: 36343018
  • Somaiya RD, Stebbins K, Gingrich EC, Xie H et al. Sonic hedgehog-dependent recruitment of GABAergic interneurons into the developing visual thalamus. Elife 2022 Nov 7;11. PMID: 36342840
  • Symonds ALJ, Miao T, Busharat Z, Li S et al. Egr2 and 3 maintain anti-tumour responses of exhausted tumour infiltrating CD8 + T cells. Cancer Immunol Immunother 2023 May;72(5):1139-1151. PMID: 36342511
  • Tang G, Sun C, Lv H, Zhang M et al. Identification of novel meQTLs strongly associated with rheumatoid arthritis by large-scale epigenome-wide analysis. FEBS Open Bio 2022 Dec;12(12):2227-2235. PMID: 36342317
  • Das U, Gangisetty O, Chaudhary S, Tarale P et al. Epigenetic insight into effects of prenatal alcohol exposure on stress axis development: Systematic review with meta-analytic approaches. Alcohol (Hanover) 2023 Jan;47(1):18-35. PMID: 36341762
  • Odaira K, Yasuda T, Okada K, Shimooka T et al. Functional inhibition of MEF2 by C/EBP is a possible mechanism of leukemia development by CEBP-IGH fusion gene. Cancer Sci 2023 Mar;114(3):781-792. PMID: 36341510
  • Briggs M, Das A, Firth H, Levine A et al. Recurrent posterior fossa group A (PFA) ependymoma in a young child with constitutional mismatch repair deficiency (CMMRD). Neuropathol Appl Neurobiol 2023 Feb;49(1):e12862. PMID: 36341503
  • Wu J, Tian Y, Liu W, Zheng H et al. A novel twelve-gene signature to predict neoadjuvant chemotherapy response and prognosis in breast cancer. Front Immunol 2022;13:1035667. PMID: 36341435
  • Yin X, Rang X, Hong X, Zhou Y et al. Immune cells transcriptome-based drug repositioning for multiple sclerosis. Front Immunol 2022;13:1020721. PMID: 36341423
  • He B, Zhan Y, Cai C, Yu D et al. Common molecular mechanism and immune infiltration patterns of thoracic and abdominal aortic aneurysms. Front Immunol 2022;13:1030976. PMID: 36341412
  • Wang Y, Huang Z, Xiao Y, Wan W et al. The shared biomarkers and pathways of systemic lupus erythematosus and metabolic syndrome analyzed by bioinformatics combining machine learning algorithm and single-cell sequencing analysis. Front Immunol 2022;13:1015882. PMID: 36341378
  • Zhou Y, Li X, Long G, Tao Y et al. Identification and validation of a tyrosine metabolism-related prognostic prediction model and characterization of the tumor microenvironment infiltration in hepatocellular carcinoma. Front Immunol 2022;13:994259. PMID: 36341373
  • Wu X, Srinivasan P, Basu M, Zhang P et al. Tumor Apolipoprotein E is a key checkpoint blocking anti-tumor immunity in mouse melanoma. Front Immunol 2022;13:991790. PMID: 36341364
  • Sun S, Zhi Z, Su Y, Sun J et al. A CD8(+) T cell-associated immune gene panel for prediction of the prognosis and immunotherapeutic effect of melanoma. Front Immunol 2022;13:1039565. PMID: 36341357
  • Wang T, Ba X, Zhang X, Zhang N et al. Pan-cancer analyses of classical protein tyrosine phosphatases and phosphatase-targeted therapy in cancer. Front Immunol 2022;13:976996. PMID: 36341348
  • Zhou Y, Wu Q, Ni G, Hong Y et al. Immune-associated pivotal biomarkers identification and competing endogenous RNA network construction in post-operative atrial fibrillation by comprehensive bioinformatics and machine learning strategies. Front Immunol 2022;13:974935. PMID: 36341343
  • Song S, Zhang M, Xie P, Wang S et al. Comprehensive analysis of cuproptosis-related genes and tumor microenvironment infiltration characterization in breast cancer. Front Immunol 2022;13:978909. PMID: 36341328
  • Ye Q, Huang Z, Lu W, Yan F et al. Identification of the common differentially expressed genes and pathogenesis between neuropathic pain and aging. Front Neurosci 2022;16:994575. PMID: 36340779
  • Li Q, Wang P, Yuan J, Zhou Y et al. A two-stage hybrid gene selection algorithm combined with machine learning models to predict the rupture status in intracranial aneurysms. Front Neurosci 2022;16:1034971. PMID: 36340761
  • Qi L, Wang J, Chen X, Ding Y et al. Single-cell transcriptomics reveals variable trajectories of CSPCs in the progression of osteoarthritis. Heliyon 2022 Nov;8(11):e11148. PMID: 36339749
  • Liu S, Liu W, Ding Z, Yang X et al. Identification and validation of a novel tumor driver gene signature for diagnosis and prognosis of head and neck squamous cell carcinoma. Front Mol Biosci 2022;9:912620. PMID: 36339718
  • Zhong WJ, Ma L, Yang F, Cao J et al. Matrine, a potential c-Myc inhibitor, suppresses ribosome biogenesis and nucleotide metabolism in myeloid leukemia. Front Pharmacol 2022;13:1027441. PMID: 36339620
  • Guo T, Wang J, Yan S, Meng X et al. A combined signature of glycolysis and immune landscape predicts prognosis and therapeutic response in prostate cancer. Front Endocrinol (Lausanne) 2022;13:1037099. PMID: 36339430
  • Zhang H, Merkus D, Zhang P, Zhang H et al. Predicting protective gene biomarker of acute coronary syndrome by the circRNA-associated competitive endogenous RNA regulatory network. Front Genet 2022;13:1030510. PMID: 36339005
  • Liu J, Chen S, Li Z, Teng W et al. Hsa_circ_0040809 and hsa_circ_0000467 promote colorectal cancer cells progression and construction of a circRNA-miRNA-mRNA network. Front Genet 2022;13:993727. PMID: 36339002
  • Zheng HC, Xue H, Zhang CY, Shi KH et al. The roles of BTG1 mRNA expression in cancers: A bioinformatics analysis. Front Genet 2022;13:1006636. PMID: 36339000
  • Gan K, Zhang K, Li Y, Zhao X et al. Establishment and validation of a polygene prognostic model for clear cell renal cell carcinoma. Front Genet 2022;13:1021163. PMID: 36338999
  • Liu A, Li Y, Shen L, Li N et al. Molecular subtypes based on cuproptosis regulators and immune infiltration in kidney renal clear cell carcinoma. Front Genet 2022;13:983445. PMID: 36338990
  • Gao S, Wu X, Lou X, Cui W et al. Identification of a prognostic risk-scoring model and risk signatures based on glycosylation-associated cluster in breast cancer. Front Genet 2022;13:960567. PMID: 36338982
  • Barrón-Gallardo CA, Garcia-Chagollán M, Morán-Mendoza AJ, Delgadillo-Cristerna R et al. A gene expression signature in HER2+ breast cancer patients related to neoadjuvant chemotherapy resistance, overall survival, and disease-free survival. Front Genet 2022;13:991706. PMID: 36338974
  • Huang R, Wang X, Yin X, Zhou Y et al. Combining bulk RNA-sequencing and single-cell RNA-sequencing data to reveal the immune microenvironment and metabolic pattern of osteosarcoma. Front Genet 2022;13:976990. PMID: 36338972
  • Hu M, Ge MR, Li HX, Zhang B et al. Identification of DAPK1 as an autophagy-related biomarker for myotonic dystrophy type 1. Front Genet 2022;13:1022640. PMID: 36338967
  • Huang B, Zhang P, Zhong YY, Wang K et al. Transcriptional data analysis reveals the association between infantile hemangiomas and venous malformations. Front Genet 2022;13:1045244. PMID: 36338963
  • Kasavi CGene co-expression network analysis revealed novel biomarkers for ovarian cancer. Front Genet 2022;13:971845. PMID: 36338962
  • Islam MB, Chowdhury UN, Nashiry MA, Moni MA et al. Severity of COVID-19 patients with coexistence of asthma and vitamin D deficiency. Inform Med Unlocked 2022;34:101116. PMID: 36338941
  • Liu T, Qi J, Wu H, Wang L et al. Phosphogluconate dehydrogenase is a predictive biomarker for immunotherapy in hepatocellular carcinoma. Front Oncol 2022;12:993503. PMID: 36338768
  • Ye Z, Li Y, Tian X, Wei Y et al. Fatty acid metabolism predicts prognosis and NK cell immunosurveillance of acute myeloid leukemia patients. Front Oncol 2022;12:1018154. PMID: 36338749
  • Ding Q, Li H, Xu Z, Hu K et al. Identification of CFHR4 associated with poor prognosis of hepatocellular carcinoma. Front Oncol 2022;12:812663. PMID: 36338737
  • Lou L, Chen L, Wu Y, Zhang G et al. Identification of hub genes and construction of prognostic nomogram for patients with Wilms tumors. Front Oncol 2022;12:982110. PMID: 36338682
  • Zhang C, Hu H, Huang R, Huang G et al. ACSL3 is a potential prognostic biomarker for immune infiltration in clear cell renal cell carcinoma. Front Surg 2022;9:909854. PMID: 36338658
  • Han X, Long W, Liu Y, Xu J et al. Prognostic value and immunological role of BAIAP2L2 in liver hepatocellular carcinoma: A pan-cancer analysis. Front Surg 2022;9:985034. PMID: 36338652
  • Guo H, Wang Y, Gou L, Wang X et al. A novel prognostic model based on urea cycle-related gene signature for colorectal cancer. Front Surg 2022;9:1027655. PMID: 36338624
  • Zhang Q, Li Y, Wang X, Yin C et al. Sevoflurane exposure causes neuronal apoptosis and cognitive dysfunction by inducing ER stress via activation of the inositol 1, 4, 5-trisphosphate receptor. Front Aging Neurosci 2022;14:990679. PMID: 36337694
  • Xu S, Yang X, Chen Q, Liu Z et al. Leukemia inhibitory factor is a therapeutic target for renal interstitial fibrosis. EBioMedicine 2022 Dec;86:104312. PMID: 36335669
  • Linder J, Koplik SE, Kundaje A, Seelig G et al. Deciphering the impact of genetic variation on human polyadenylation using APARENT2. Genome Biol 2022 Nov 5;23(1):232. PMID: 36335397
  • Shen Z, Halberg A, Fong JY, Guo J et al. Elucidating host cell response pathways and repurposing therapeutics for SARS-CoV-2 and other coronaviruses. Sci Rep 2022 Nov 5;12(1):18811. PMID: 36335206
  • Liao N, Hu Z, Miao J, Hu X et al. Chromosome-level genome assembly of bunching onion illuminates genome evolution and flavor formation in Allium crops. Nat Commun 2022 Nov 5;13(1):6690. PMID: 36335132
  • Okuda H, Miyamoto R, Takahashi S, Kawamura T et al. RNA-binding proteins of KHDRBS and IGF2BP families control the oncogenic activity of MLL-AF4. Nat Commun 2022 Nov 5;13(1):6688. PMID: 36335100
  • Mota A, Berezicki S, Wernersson E, Harbers L et al. FRET-FISH probes chromatin compaction at individual genomic loci in single cells. Nat Commun 2022 Nov 5;13(1):6680. PMID: 36335096
  • Chen X, Shao Y, Wei W, Zhu S et al. Androgen deprivation restores ARHGEF2 to promote neuroendocrine differentiation of prostate cancer. Cell Death Dis 2022 Nov 5;13(11):927. PMID: 36335093
  • Li J, Zheng S, Dong Y, Xu H et al. Histone Methyltransferase SETDB1 Regulates the Development of Cortical Htr3a-Positive Interneurons and Mood Behaviors. Biol Psychiatry 2023 Feb 1;93(3):279-290. PMID: 36335068
  • Dings MPG, van der Zalm AP, Bootsma S, van Maanen TFJ et al. Estrogen-related receptor alpha drives mitochondrial biogenesis and resistance to neoadjuvant chemoradiation in esophageal cancer. Cell Rep Med 2022 Nov 15;3(11):100802. PMID: 36334593
  • Zhang Y, Zhang J, Xia Y, Sun J et al. Bacterial translocation and barrier dysfunction enhance colonic tumorigenesis. Neoplasia 2023 Jan;35:100847. PMID: 36334333
  • Wu X, Wang Z, Shi J, Yu X et al. Macrophage polarization toward M1 phenotype through NF-κB signaling in patients with Behçet's disease. Arthritis Res Ther 2022 Nov 4;24(1):249. PMID: 36333776
  • Fisher ES, Amarante MA, Lowry N, Lotz S et al. Single cell profiling of CD45(+) spinal cord cells reveals microglial and B cell heterogeneity and crosstalk following spinal cord injury. J Neuroinflammation 2022 Nov 4;19(1):266. PMID: 36333772
  • Hwang M, Savarin C, Kim J, Powers J et al. Trem2 deficiency impairs recovery and phagocytosis and dysregulates myeloid gene expression during virus-induced demyelination. J Neuroinflammation 2022 Nov 4;19(1):267. PMID: 36333761
  • Direder M, Wielscher M, Weiss T, Laggner M et al. The transcriptional profile of keloidal Schwann cells. Exp Mol Med 2022 Nov;54(11):1886-1900. PMID: 36333467
  • Moore TM, Cheng L, Wolf DM, Ngo J et al. Parkin regulates adiposity by coordinating mitophagy with mitochondrial biogenesis in white adipocytes. Nat Commun 2022 Nov 4;13(1):6661. PMID: 36333379
  • Wang Y, Elsherbiny A, Kessler L, Cordero J et al. Lamin A/C-dependent chromatin architecture safeguards naïve pluripotency to prevent aberrant cardiovascular cell fate and function. Nat Commun 2022 Nov 4;13(1):6663. PMID: 36333314
  • Shu C, Wang C, Chen S, Huang X et al. ERR-activated GPR35 promotes immune infiltration level of macrophages in gastric cancer tissues. Cell Death Discov 2022 Nov 4;8(1):444. PMID: 36333291
  • Fan Z, Yu B, Pan T, Li F et al. DKK1 as a robust predictor for adjuvant platinum chemotherapy benefit in resectable pStage II-III gastric cancer. Transl Oncol 2023 Jan;27:101577. PMID: 36332599
  • Liu J, Nair V, Zhao YY, Chang DY et al. Multi-Scalar Data Integration Links Glomerular Angiopoietin-Tie Signaling Pathway Activation With Progression of Diabetic Kidney Disease. Diabetes 2022 Dec 1;71(12):2664-2676. PMID: 36331122
  • Zhong Y, Ren X, Cao X, Xu Y et al. Insulin-like growth factor 2 receptor is a key immune-related gene that is correlated with a poor prognosis in patients with triple-negative breast cancer: A bioinformatics analysis. Front Oncol 2022;12:871786. PMID: 36330486
  • Liu Y, Luo G, Yan Y, Peng J et al. A pan-cancer analysis of copper homeostasis-related gene lipoyltransferase 1: Its potential biological functions and prognosis values. Front Genet 2022;13:1038174. PMID: 36330439
  • Gao C, Zhou G, Cheng M, Feng L et al. Identification of senescence-associated long non-coding RNAs to predict prognosis and immune microenvironment in patients with hepatocellular carcinoma. Front Genet 2022;13:956094. PMID: 36330438
  • Min J, Chen Q, Wu W, Zhao J et al. Identification of mRNA expression biomarkers associated with epilepsy and response to valproate with co-expression analysis. Front Neurol 2022;13:1019121. PMID: 36330432
  • Wang Z, Zou Z, Li Q et al. Nicotinic acid supplementation contributes to the amelioration of Alzheimer's disease in mouse models. Ann Transl Med 2022 Oct;10(19):1049. PMID: 36330413
  • Chen S, Yang M, Yang H, Tang Q et al. Identification and validation of a 9-gene signature for the prognosis of ovarian cancer by integrated bioinformatical analysis. Ann Transl Med 2022 Oct;10(19):1059. PMID: 36330389
  • Wu CT, Shen M, Du D, Cheng Z et al. Cosbin: cosine score-based iterative normalization of biologically diverse samples. Bioinform Adv 2022;2(1):vbac076. PMID: 36330358
  • Xu C, Li W, Li T, Yuan J et al. Iron metabolism-related genes reveal predictive value of acute coronary syndrome. Front Pharmacol 2022;13:1040845. PMID: 36330096
  • Li X, Zhong S, Sun Y, Huang X et al. Integration analysis identifies the role of metallothionein in the progression from hepatic steatosis to steatohepatitis. Front Endocrinol (Lausanne) 2022;13:951093. PMID: 36329886
  • Mall R, Bynigeri RR, Karki R, Malireddi RKS et al. Pancancer transcriptomic profiling identifies key PANoptosis markers as therapeutic targets for oncology. NAR Cancer 2022 Dec;4(4):zcac033. PMID: 36329783
  • Chen G, Li X, Ji C, Liu P et al. Early myeloid-derived suppressor cells accelerate epithelial-mesenchymal transition by downregulating ARID1A in luminal A breast cancer. Front Bioeng Biotechnol 2022;10:973731. PMID: 36329699
  • Xu HJ, Bai J, Tian Y, Feng X et al. ESE1/AGR2 axis antagonizes TGF-β-induced epithelial-mesenchymal transition in low-grade pancreatic cancer. Cancer Med 2023 Mar;12(5):5979-5993. PMID: 36329620
  • Wu X, Yun D, Sang M, Liu J et al. Defects of microtubule cytoskeletal organization in NOA human testes. Reprod Biol Endocrinol 2022 Nov 3;20(1):154. PMID: 36329464
  • Geng X, Wang C, Gao X, Chowdhury P et al. GATA-3 is a proto-oncogene in T-cell lymphoproliferative neoplasms. Blood Cancer J 2022 Nov 4;12(11):149. PMID: 36329027
  • Gao M, Qiao C, Huang Y et al. UniTVelo: temporally unified RNA velocity reinforces single-cell trajectory inference. Nat Commun 2022 Nov 3;13(1):6586. PMID: 36329018
  • Satti I, Wittenberg RE, Li S, Harris SA et al. Inflammation and immune activation are associated with risk of Mycobacterium tuberculosis infection in BCG-vaccinated infants. Nat Commun 2022 Nov 3;13(1):6594. PMID: 36329009
  • Garcia-Segura ME, Durainayagam BR, Liggi S, Graça G et al. Pathway-based integration of multi-omics data reveals lipidomics alterations validated in an Alzheimer's disease mouse model and risk loci carriers. J Neurochem 2023 Jan;164(1):57-76. PMID: 36326588
  • Zhang J, Wang S, Wu X, Han L et al. Identification of QTNs, QTN-by-environment interactions and genes for yield-related traits in rice using 3VmrMLM. Front Plant Sci 2022;13:995609. PMID: 36325550
  • Wang Z, Meng Z, Chen C et al. Screening of potential biomarkers in peripheral blood of patients with depression based on weighted gene co-expression network analysis and machine learning algorithms. Front Psychiatry 2022;13:1009911. PMID: 36325528
  • Lee IW, Adhikari D, Carroll J et al. Miro1 depletion disrupts spatial distribution of mitochondria and leads to oocyte maturation defects. Front Cell Dev Biol 2022;10:986454. PMID: 36325364
  • Xuan FL, Yan L, Li Y, Fan F et al. Glial receptor PLXNB2 regulates schizophrenia-related stress perception via the amygdala. Front Immunol 2022;13:1005067. PMID: 36325348
  • Li H, Gu J, Tian Y, Li S et al. A prognostic signature consisting of metabolism-related genes and SLC17A4 serves as a potential biomarker of immunotherapeutic prediction in prostate cancer. Front Immunol 2022;13:982628. PMID: 36325340
  • Loi E, Moi L, Cabras P, Arduino G et al. HLA-C dysregulation as a possible mechanism of immune evasion in SARS-CoV-2 and other RNA-virus infections. Front Immunol 2022;13:1011829. PMID: 36325330
  • Jiang J, Lyu P, Li J, Huang S et al. IReNA: Integrated regulatory network analysis of single-cell transcriptomes and chromatin accessibility profiles. iScience 2022 Nov 18;25(11):105359. PMID: 36325073
  • Bi Y, Wang P et al. Exploring drought-responsive crucial genes in Sorghum. iScience 2022 Nov 18;25(11):105347. PMID: 36325072
  • Pongor LS, Tlemsani C, Elloumi F, Arakawa Y et al. Integrative epigenomic analyses of small cell lung cancer cells demonstrates the clinical translational relevance of gene body methylation. iScience 2022 Nov 18;25(11):105338. PMID: 36325065
  • Shen W, Zhang Y, Shi M, Ye B et al. Profiling and characterization of constitutive chromatin-enriched RNAs. iScience 2022 Nov 18;25(11):105349. PMID: 36325053
  • Wang M, Bi C, Li H, Lu L et al. The emerging double-edged sword role of Sirtuins in the gastric inflammation-carcinoma sequence revealed by bulk and single-cell transcriptomes. Front Oncol 2022;12:1004726. PMID: 36324577
  • Tao Y, Gao C, Qian D, Cao D et al. Regulatory mechanism of fibrosis-related genes in patients with heart failure. Front Genet 2022;13:1032572. PMID: 36324504
  • Sabaie H, Khorami Rouz S, Kouchakali G, Heydarzadeh S et al. Identification of potential regulatory long non-coding RNA-associated competing endogenous RNA axes in periplaque regions in multiple sclerosis. Front Genet 2022;13:1011350. PMID: 36324503
  • Xue S, Rogers LRK, Zheng M, He J et al. Applying differential network analysis to longitudinal gene expression in response to perturbations. Front Genet 2022;13:1026487. PMID: 36324501
  • Zhang N, Liu X, Wu J, Li X et al. Serum proteomics screening intercellular adhesion molecule-2 improves intermediate-risk stratification in acute myeloid leukemia. Ther Adv Hematol 2022;13:20406207221132346. PMID: 36324489
  • Shi X, Day A, Bergom HE, Tape S et al. Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer. NPJ Precis Oncol 2022 Nov 2;6(1):80. PMID: 36323882
  • Gandal MJ, Haney JR, Wamsley B, Yap CX et al. Broad transcriptomic dysregulation occurs across the cerebral cortex in ASD. Nature 2022 Nov;611(7936):532-539. PMID: 36323788
  • Hiroto A, Kim WK, Pineda A, He Y et al. Stromal androgen signaling acts as tumor niches to drive prostatic basal epithelial progenitor-initiated oncogenesis. Nat Commun 2022 Nov 2;13(1):6552. PMID: 36323713
  • Auerbach BJ, FitzGerald GA, Li M et al. Tempo: an unsupervised Bayesian algorithm for circadian phase inference in single-cell transcriptomics. Nat Commun 2022 Nov 2;13(1):6580. PMID: 36323668
  • Castellanos-Rueda R, Di Roberto RB, Bieberich F, Schlatter FS et al. speedingCARs: accelerating the engineering of CAR T cells by signaling domain shuffling and single-cell sequencing. Nat Commun 2022 Nov 2;13(1):6555. PMID: 36323661
  • Czimmerer Z, Halasz L, Daniel B, Varga Z et al. The epigenetic state of IL-4-polarized macrophages enables inflammatory cistromic expansion and extended synergistic response to TLR ligands. Immunity 2022 Nov 8;55(11):2006-2026.e6. PMID: 36323312
  • Wang W, Wu S, Cen Z, Zhang Y et al. Mobilizing phospholipids on tumor plasma membrane implicates phosphatidylserine externalization blockade for cancer immunotherapy. Cell Rep 2022 Nov 1;41(5):111582. PMID: 36323258
  • Cuddleston WH, Fan X, Sloofman L, Liang L et al. Spatiotemporal and genetic regulation of A-to-I editing throughout human brain development. Cell Rep 2022 Nov 1;41(5):111585. PMID: 36323256
  • Zhao H, Yin X, Xu H, Liu K et al. LncTarD 2.0: an updated comprehensive database for experimentally-supported functional lncRNA-target regulations in human diseases. Nucleic Acids Res 2023 Jan 6;51(D1):D199-D207. PMID: 36321659
  • van Neerven SM, Smit WL, van Driel MS, Kakkar V et al. Intestinal Apc-inactivation induces HSP25 dependency. EMBO Mol Med 2022 Dec 7;14(12):e16194. PMID: 36321561
  • Bocci F, Zhou P, Nie Q et al. spliceJAC: transition genes and state-specific gene regulation from single-cell transcriptome data. Mol Syst Biol 2022 Nov;18(11):e11176. PMID: 36321549
  • Yang HI, Huang PY, Chan SC, Tung CW et al. miR-196a enhances polymerization of neuronal microfilaments through suppressing IMP3 and upregulating IGF2 in Huntington's disease. Mol Ther Nucleic Acids 2022 Dec 13;30:286-299. PMID: 36320323
  • Ahn J, Heo S, Ahn SJ, Bang D et al. Differentially hypomethylated cell-free DNA and coronary collateral circulation. Clin Epigenetics 2022 Nov 1;14(1):140. PMID: 36320085
  • Sommerer Y, Ohlei O, Dobricic V, Oakley DH et al. A correlation map of genome-wide DNA methylation patterns between paired human brain and buccal samples. Clin Epigenetics 2022 Nov 1;14(1):139. PMID: 36320053
  • Kitayama S, Ikeda K, Sato W, Takeshita H et al. Testis-expressed gene 11 inhibits cisplatin-induced DNA damage and contributes to chemoresistance in testicular germ cell tumor. Sci Rep 2022 Nov 1;12(1):18423. PMID: 36319719
  • Bernhardt C, Sock E, Fröb F, Hillgärtner S et al. KLF9 and KLF13 transcription factors boost myelin gene expression in oligodendrocytes as partners of SOX10 and MYRF. Nucleic Acids Res 2022 Nov 11;50(20):11509-11528. PMID: 36318265
  • Zhang Y, Zhang Y, Song C, Zhao X et al. CRdb: a comprehensive resource for deciphering chromatin regulators in human. Nucleic Acids Res 2023 Jan 6;51(D1):D88-D100. PMID: 36318256
  • Zhang Y, Wang Y, Valdivia A, Huang H et al. DOT1 L Regulates Ovarian Cancer Stem Cells by Activating β-catenin Signaling. Mol Cancer Res 2023 Feb 1;21(2):140-154. PMID: 36318113
  • Pauli JL, Chen JY, Basiri ML, Park S et al. Molecular and anatomical characterization of parabrachial neurons and their axonal projections. Elife 2022 Nov 1;11. PMID: 36317965
  • Song P, Li Y, Wang F, Pu L et al. Genome-wide screening for differentially methylated long noncoding RNAs identifies LIFR-AS1 as an epigenetically regulated lncRNA that inhibits the progression of colorectal cancer. Clin Epigenetics 2022 Oct 31;14(1):138. PMID: 36316703
  • Hou W, Kong L, Hou Z, Ji H et al. CD44 is a prognostic biomarker and correlated with immune infiltrates in gastric cancer. BMC Med Genomics 2022 Oct 31;15(1):225. PMID: 36316684
  • Telonis AG, Yang Q, Huang HT, Figueroa ME et al. MIR retrotransposons link the epigenome and the transcriptome of coding genes in acute myeloid leukemia. Nat Commun 2022 Oct 31;13(1):6524. PMID: 36316347
  • Woo SY, Lee H, Park SM, Choi HS et al. Role of reactive oxygen species in regulating 27-hydroxycholesterol-induced apoptosis of hematopoietic progenitor cells and myeloid cell lines. Cell Death Dis 2022 Oct 31;13(10):916. PMID: 36316327
  • Han GH, Yun H, Chung JY, Kim JH et al. TMED9 Expression Level as a Biomarker of Epithelial Ovarian Cancer Progression and Prognosis. Cancer Genomics Proteomics 2022 Nov-Dec;19(6):692-702. PMID: 36316042
  • Zhong L, Hao P, Zhang Q, Jiang T et al. Revised International Staging System (R-ISS) stage-dependent analysis uncovers oncogenes and potential immunotherapeutic targets in multiple myeloma (MM). Elife 2022 Oct 31;11. PMID: 36315425
  • Amodeo ME, Mitchell SPC, Pavan V, Kuehner JN et al. RNA polymerase II transcription attenuation at the yeast DNA repair gene DEF1 is biologically significant and dependent on the Hrp1 RNA-recognition motif. G3 (Bethesda) 2023 Jan 12;13(1). PMID: 36315099
  • Xu S, Huang J, Xun Z, Li S et al. IFIT3 Is Increased in Serum from Patients with Chronic Hepatitis B Virus (HBV) Infection and Promotes the Anti-HBV Effect of Interferon Alpha via JAK-STAT2 In Vitro. Microbiol Spectr 2022 Dec 21;10(6):e0155722. PMID: 36314949
  • Domovitz T, Ayoub S, Werbner M, Alter J et al. HCV Infection Increases the Expression of ACE2 Receptor, Leading to Enhanced Entry of Both HCV and SARS-CoV-2 into Hepatocytes and a Coinfection State. Microbiol Spectr 2022 Dec 21;10(6):e0115022. PMID: 36314945
  • Hossen MS, Samad A, Ahammad F, Sasa GBK et al. System biology approaches identified novel biomarkers and their signaling pathways involved in renal cell carcinoma with different human diseases. Biosci Rep 2022 Nov 30;42(11). PMID: 36314741
  • Muto Y, Dixon EE, Yoshimura Y, Wu H et al. Defining cellular complexity in human autosomal dominant polycystic kidney disease by multimodal single cell analysis. Nat Commun 2022 Oct 30;13(1):6497. PMID: 36310237
  • Chen J, Wang X, Ma A, Wang QE et al. Deep transfer learning of cancer drug responses by integrating bulk and single-cell RNA-seq data. Nat Commun 2022 Oct 30;13(1):6494. PMID: 36310235
  • Liao J, Qian J, Fang Y, Chen Z et al. De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution. Nat Commun 2022 Oct 30;13(1):6498. PMID: 36310179
  • Zhao Y, Huang S, Tan X, Long L et al. N(6) -Methyladenosine-Modified CBX1 Regulates Nasopharyngeal Carcinoma Progression Through Heterochromatin Formation and STAT1 Activation. Adv Sci (Weinh) 2022 Dec;9(36):e2205091. PMID: 36310139
  • Chen S, Zhan Y, Chen J, Wu J et al. Identification and validation of genetic signature associated with aging in chronic obstructive pulmonary disease. Aging (Albany NY) 2022 Oct 28;14(20):8568-8580. PMID: 36309899
  • Ebeed HTGenome-wide analysis of polyamine biosynthesis genes in wheat reveals gene expression specificity and involvement of STRE and MYB-elements in regulating polyamines under drought. BMC Genomics 2022 Oct 30;23(1):734. PMID: 36309637
  • Chen S, Petricca J, Ye W, Guan J et al. The cell-free DNA methylome captures distinctions between localized and metastatic prostate tumors. Nat Commun 2022 Oct 29;13(1):6467. PMID: 36309516
  • Bai W, Peng H, Zhang J, Zhao Y et al. LINC00589-dominated ceRNA networks regulate multiple chemoresistance and cancer stem cell-like properties in HER2(+) breast cancer. NPJ Breast Cancer 2022 Oct 29;8(1):115. PMID: 36309503
  • Wang Y, Chen P, Zhao M, Cao H et al. EGFL7 drives the evolution of resistance to EGFR inhibitors in lung cancer by activating NOTCH signaling. Cell Death Dis 2022 Oct 29;13(10):910. PMID: 36309484
  • Han H, Qian C, Zong G, Liu H et al. Systemic pharmacological verification of Salvia miltiorrhiza-Ginseng Chinese herb pair in inhibiting spontaneous breast cancer metastasis. Biomed Pharmacother 2022 Dec;156:113897. PMID: 36308918
  • Tang E, Wiencke JK, Warrier G, Hansen H et al. Evaluation of cross-platform compatibility of a DNA methylation-based glucocorticoid response biomarker. Clin Epigenetics 2022 Oct 28;14(1):136. PMID: 36307860
  • Zhang J, Lu M, Xu H, Ren F et al. Molecular subtypes based on cuproptosis-related genes and tumor microenvironment infiltration characterization in ovarian cancer. Cancer Cell Int 2022 Oct 28;22(1):328. PMID: 36307842
  • Mikolajewicz N, Gacesa R, Aguilera-Uribe M, Brown KR et al. Multi-level cellular and functional annotation of single-cell transcriptomes using scPipeline. Commun Biol 2022 Oct 28;5(1):1142. PMID: 36307536
  • Yoshinaga M, Han K, Morgens DW, Horii T et al. The N(6)-methyladenosine methyltransferase METTL16 enables erythropoiesis through safeguarding genome integrity. Nat Commun 2022 Oct 28;13(1):6435. PMID: 36307435
  • Fernandes LP, Enriquez-Gasca R, Gould PA, Holt JH et al. A satellite DNA array barcodes chromosome 7 and regulates totipotency via ZFP819. Sci Adv 2022 Oct 28;8(43):eabp8085. PMID: 36306355
  • Ha J, Kim BS, Min B, Nam J et al. Intermediate cells of in vitro cellular reprogramming and in vivo tissue regeneration require desmoplakin. Sci Adv 2022 Oct 28;8(43):eabk1239. PMID: 36306352
  • Wischhof L, Lee HM, Tutas J, Overkott C et al. BCL7A-containing SWI/SNF/BAF complexes modulate mitochondrial bioenergetics during neural progenitor differentiation. EMBO J 2022 Dec 1;41(23):e110595. PMID: 36305367
  • Paris A, Tardif N, Baietti FM, Berra C et al. The AhR-SRC axis as a therapeutic vulnerability in BRAFi-resistant melanoma. EMBO Mol Med 2022 Dec 7;14(12):e15677. PMID: 36305167
  • Bao M, Li H, Li J et al. Identification of potential lncRNA-miRNA-mRNA regulatory network contributing to aldosterone-producing adenoma. J Cell Mol Med 2022 Nov;26(22):5614-5623. PMID: 36305047
  • Xiao M, Yang S, Zhou A, Li T et al. MiR-27a-3p and miR-30b-5p inhibited-vitamin D receptor involved in the progression of tuberculosis. Front Microbiol 2022;13:1020542. PMID: 36304947
  • Nath A, Cosgrove PA, Chang JT, Bild AH et al. Predicting clinical response to everolimus in ER+ breast cancers using machine-learning. Front Mol Biosci 2022;9:981962. PMID: 36304922
  • Chen H, Jiang R, Huang W, Chen K et al. Identification of energy metabolism-related biomarkers for risk prediction of heart failure patients using random forest algorithm. Front Cardiovasc Med 2022;9:993142. PMID: 36304554
  • Fan Z, Gao Y, Jiang N, Zhang F et al. Immune-related SERPINA3 as a biomarker involved in diabetic nephropathy renal tubular injury. Front Immunol 2022;13:979995. PMID: 36304455
  • Zhang J, Cui Y et al. Integrative analysis identifies potential ferroptosis-related genes of hypoxia adaptation in yak. Front Vet Sci 2022;9:1022972. PMID: 36304416
  • Neums L, Koestler DC, Xia Q, Hu J et al. Assessing equivalent and inverse change in genes between diverse experiments. Front Bioinform 2022;2:893032. PMID: 36304274
  • Johnson AA, Torosin NS, Shokhirev MN, Cuellar TL et al. A set of common buccal CpGs that predict epigenetic age and associate with lifespan-regulating genes. iScience 2022 Nov 18;25(11):105304. PMID: 36304118
  • Chen Y, Xia L, Peng Y, Wang G et al. Development and validation of a m(6)A -regulated prognostic signature in lung adenocarcinoma. Front Oncol 2022;12:947808. PMID: 36303829
  • Hollander M, Do T, Will T, Helms V et al. Detecting Rewiring Events in Protein-Protein Interaction Networks Based on Transcriptomic Data. Front Bioinform 2021;1:724297. PMID: 36303788
  • Zhang J, Zhang X, Sh Y, Liu B et al. Diagnostic AI Modeling and Pseudo Time Series Profiling of AD and PD Based on Individualized Serum Proteome Data. Front Bioinform 2021;1:764497. PMID: 36303784
  • Nazarieh M, Hoeppner M, Helms V et al. Identification of Biomarkers Controlling Cell Fate In Blood Cell Development. Front Bioinform 2021;1:653054. PMID: 36303754
  • Helmy M, Agrawal R, Ali J, Soudy M et al. GeneCloudOmics: A Data Analytic Cloud Platform for High-Throughput Gene Expression Analysis. Front Bioinform 2021;1:693836. PMID: 36303746
  • Aghaieabiane N, Koutis I et al. A Novel Calibration Step in Gene Co-Expression Network Construction. Front Bioinform 2021;1:704817. PMID: 36303738
  • Xu N, Wang X, Wang L, Song Y et al. Comprehensive analysis of potential cellular communication networks in advanced osteosarcoma using single-cell RNA sequencing data. Front Genet 2022;13:1013737. PMID: 36303551
  • Wu Z, Lei K, Li H, He J et al. Transcriptome-based network analysis related to M2-like tumor-associated macrophage infiltration identified VARS1 as a potential target for improving melanoma immunotherapy efficacy. J Transl Med 2022 Oct 27;20(1):489. PMID: 36303162
  • Blanco DB, Chapman NM, Raynor JL, Xu C et al. PTEN directs developmental and metabolic signaling for innate-like T cell fate and tissue homeostasis. Nat Cell Biol 2022 Nov;24(11):1642-1654. PMID: 36302969
  • Mikaeili Namini A, Jahangir M, Mohseni M, Kolahi AA et al. An in silico comparative transcriptome analysis identifying hub lncRNAs and mRNAs in brain metastatic small cell lung cancer (SCLC). Sci Rep 2022 Oct 27;12(1):18063. PMID: 36302939
  • Jang G, Oh J, Jun E, Lee J et al. Direct cell-to-cell transfer in stressed tumor microenvironment aggravates tumorigenic or metastatic potential in pancreatic cancer. NPJ Genom Med 2022 Oct 27;7(1):63. PMID: 36302783
  • Yan Y, Niu Z, Sun C, Li P et al. Hepatic thyroid hormone signalling modulates glucose homeostasis through the regulation of GLP-1 production via bile acid-mediated FXR antagonism. Nat Commun 2022 Oct 27;13(1):6408. PMID: 36302774
  • Pillon NJ, Sardón Puig L, Altıntaş A, Kamble PG et al. Palmitate impairs circadian transcriptomics in muscle cells through histone modification of enhancers. Life Sci Alliance 2023 Jan;6(1). PMID: 36302651
  • Jahanimoghadam A, Abdolahzadeh H, Rad NK, Zahiri J et al. Discovering Common Pathogenic Mechanisms of COVID-19 and Parkinson Disease: An Integrated Bioinformatics Analysis. J Mol Neurosci 2022 Nov;72(11):2326-2337. PMID: 36301487
  • Song J, Xu J, Yuan W, Li R et al. A potential biomarker of cognitive impairment: The olfactory dysfunction and its genes expression. Ann Clin Transl Neurol 2022 Dec;9(12):1884-1897. PMID: 36300915
  • Hu B, Meng Y, Qu C, Wang BY et al. Combining single-cell sequencing data to construct a prognostic signature to predict survival, immune microenvironment, and immunotherapy response in gastric cancer patients. Front Immunol 2022;13:1018413. PMID: 36300104
  • Pan YQ, Xiao Y, Long T, Liu C et al. Prognostic value of lncRNAs related to fatty acid metabolism in lung adenocarcinoma and their correlation with tumor microenvironment based on bioinformatics analysis. Front Oncol 2022;12:1022097. PMID: 36300102
  • Shen H, Bai X, Liu J, Liu P et al. Screening potential biomarkers of cholangiocarcinoma based on gene chip meta-analysis and small-sample experimental research. Front Oncol 2022;12:1001400. PMID: 36300097
  • Chen P, Quan Z, Song X, Gao Z et al. MDFI is a novel biomarker for poor prognosis in LUAD. Front Oncol 2022;12:1005962. PMID: 36300089
  • Chen D, Liu Z, Wang J, Yang C et al. Integrative genomic analysis facilitates precision strategies for glioblastoma treatment. iScience 2022 Nov 18;25(11):105276. PMID: 36300002
  • Xie W, Xi P, Liu Y, Zhang Z et al. A comprehensive analysis of the prognostic value and immune infiltration of low expression DBT in clear cell renal cell carcinoma. Front Pharmacol 2022;13:1002588. PMID: 36299888
  • Zou C, Huang X, Zhang Y, Pan M et al. Potential biomarkers of Alzheimer's disease and cerebral small vessel disease. Front Mol Neurosci 2022;15:996107. PMID: 36299860
  • Wynn DT, Rodriguez-Blanco J, Long J, Yang F et al. Protein arginine methyltransferase 5 regulates SHH-subgroup medulloblastoma progression. Neurooncol Adv 2022 Jan-Dec;4(1):vdac144. PMID: 36299796
  • Li S, Zhang Q, Weng L, Li J et al. Construction of an immune-related signature for predicting the ischemic events in patients undergoing carotid endarterectomy. Front Genet 2022;13:1014264. PMID: 36299596
  • Ma Z, Chen B, Zhang Y, Zeng J et al. Integration of RNA molecules data with prior-knowledge driven Joint Deep Semi-Negative Matrix Factorization for heart failure study. Front Genet 2022;13:967363. PMID: 36299595
  • Hao L, Chen Q, Chen X, Zhou Q et al. Integrated analysis of bulk and single-cell RNA-seq reveals the role of MYC signaling in lung adenocarcinoma. Front Genet 2022;13:1021978. PMID: 36299592
  • Yang L, Pan X, Zhang Y, Zhao D et al. Bioinformatics analysis to screen for genes related to myocardial infarction. Front Genet 2022;13:990888. PMID: 36299582
  • Jensen TL, Hooper WF, Cherikh SR, Goll JB et al. RP-REP Ribosomal Profiling Reports: an open-source cloud-enabled framework for reproducible ribosomal profiling data processing, analysis, and result reporting. F1000Res 2021;10:143. PMID: 36299497
  • Pérez-Carrillo L, Aragón-Herrera A, Giménez-Escamilla I, Delgado-Arija M et al. Cardiac Sodium/Hydrogen Exchanger (NHE11) as a Novel Potential Target for SGLT2i in Heart Failure: A Preliminary Study. Pharmaceutics 2022 Sep 21;14(10). PMID: 36297433
  • Ahn H, Min K, Lee E, Kim H et al. Whole-Transcriptome Sequencing Reveals Characteristics of Cancer Microbiome in Korean Patients with GI Tract Cancer: Fusobacterium nucleatum as a Therapeutic Target. Microorganisms 2022 Sep 23;10(10). PMID: 36296174
  • Fiscon G, Sibilio P, Funari A, Conte F et al. Identification of Potential Repurposable Drugs in Alzheimer's Disease Exploiting a Bioinformatics Analysis. J Pers Med 2022 Oct 18;12(10). PMID: 36294870
  • Wang Z, Xing K, Zhang B, Zhang Y et al. Identification of Prognostic Gene Signatures by Developing a scRNA-Seq-Based Integration Approach to Predict Recurrence and Chemotherapy Benefit in Stage II-III Colorectal Cancer. Int J Mol Sci 2022 Oct 18;23(20). PMID: 36293319
  • Pu S, Wang Q, Liu Q, Zhao H et al. Nr1d1 Mediated Cell Senescence in Mouse Heart-Derived Sca-1(+)CD31(-) Cells. Int J Mol Sci 2022 Oct 18;23(20). PMID: 36293311
  • Yokoi K, Wakamiya T, Bono H et al. Meta-Analysis of the Public RNA-Seq Data of the Western Honeybee Apis mellifera to Construct Reference Transcriptome Data. Insects 2022 Oct 14;13(10). PMID: 36292879
  • Aqeel M, Ajmal W, Mujahid Q, Murtaza M et al. Genome-Wide Identification of Potential mRNAs in Drought Response in Wheat (Triticum aestivum L.). Genes (Basel) 2022 Oct 20;13(10). PMID: 36292791
  • Gao S, Chen Y, Wu Z, Kajigaya S et al. Time-Varying Gene Expression Network Analysis Reveals Conserved Transition States in Hematopoietic Differentiation between Human and Mouse. Genes (Basel) 2022 Oct 18;13(10). PMID: 36292775
  • Jalal A, Ali Q, Manghwar H, Zhu D et al. Identification, Phylogeny, Divergence, Structure, and Expression Analysis of A20/AN1 Zinc Finger Domain Containing Stress-Associated Proteins (SAPs) Genes in Jatropha curcas L. Genes (Basel) 2022 Sep 30;13(10). PMID: 36292651
  • Chen Y, Zhang S et al. Automatic Cell Type Annotation Using Marker Genes for Single-Cell RNA Sequencing Data. Biomolecules 2022 Oct 21;12(10). PMID: 36291748
  • Kurche JS, Stancil IT, Michalski JE, Yang IV et al. Dysregulated Cell-Cell Communication Characterizes Pulmonary Fibrosis. Cells 2022 Oct 21;11(20). PMID: 36291184
  • Sen Puliparambil B, Tomal JH, Yan Y et al. A Novel Algorithm for Feature Selection Using Penalized Regression with Applications to Single-Cell RNA Sequencing Data. Biology (Basel) 2022 Oct 12;11(10). PMID: 36290397
  • Kravatsky YV, Chechetkin VR, Tchurikov NA, Kravatskaya GI et al. Genome-Wide Study of Colocalization between Genomic Stretches: A Method and Applications to the Regulation of Gene Expression. Biology (Basel) 2022 Sep 29;11(10). PMID: 36290327
  • Hong J, Rhee JK et al. Genomic Effect of DNA Methylation on Gene Expression in Colorectal Cancer. Biology (Basel) 2022 Sep 23;11(10). PMID: 36290295
  • Heimes AS, Almstedt K, Krajnak S, Runkel A et al. Prognostic Impact of LAG-3 mRNA Expression in Early Breast Cancer. Biomedicines 2022 Oct 21;10(10). PMID: 36289918
  • Caliskan A, Crouch SAW, Giddins S, Dandekar T et al. Progeria and Aging-Omics Based Comparative Analysis. Biomedicines 2022 Sep 29;10(10). PMID: 36289702
  • Rosario SR, Smith RJ Jr, Patnaik SK, Liu S et al. Altered acetyl-CoA metabolism presents a new potential immunotherapy target in the obese lung microenvironment. Cancer Metab 2022 Oct 26;10(1):17. PMID: 36289552
  • Cave DD, Buonaiuto S, Sainz B Jr, Fantuz M et al. LAMC2 marks a tumor-initiating cell population with an aggressive signature in pancreatic cancer. J Exp Clin Cancer Res 2022 Oct 26;41(1):315. PMID: 36289544
  • Cousins A, Olivares O, Markert E, Manoharan A et al. Central nervous system involvement in childhood acute lymphoblastic leukemia is linked to upregulation of cholesterol biosynthetic pathways. Leukemia 2022 Dec;36(12):2903-2907. PMID: 36289348
  • Wang W, Bale S, Wei J, Yalavarthi B et al. Fibroblast A20 governs fibrosis susceptibility and its repression by DREAM promotes fibrosis in multiple organs. Nat Commun 2022 Oct 26;13(1):6358. PMID: 36289219
  • Luo M, Ye L, Chang R, Ye Y et al. Multi-omics characterization of autophagy-related molecular features for therapeutic targeting of autophagy. Nat Commun 2022 Oct 26;13(1):6345. PMID: 36289218
  • Yoo D, Park J, Lee C, Song I et al. Little skate genome provides insights into genetic programs essential for limb-based locomotion. Elife 2022 Oct 26;11. PMID: 36288084
  • Li Z, Zhou P, Kwon E, Fitzgerald KA et al. Flnc: Machine Learning Improves the Identification of Novel Long Noncoding RNAs from Stand-Alone RNA-Seq Data. Noncoding RNA 2022 Oct 13;8(5). PMID: 36287122
  • Kaur S, Frørup C, Mirza AH, Fløyel T et al. Pro-Inflammatory Cytokines Promote the Transcription of Circular RNAs in Human Pancreatic β Cells. Noncoding RNA 2022 Oct 12;8(5). PMID: 36287121
  • Choi T, Yoo KH, Kim MS et al. Expression of AKT1 Related with Clinicopathological Parameters in Clear Cell Renal Cell Carcinoma. Curr Issues Mol Biol 2022 Oct 15;44(10):4921-4929. PMID: 36286049
  • Hajdarovic KH, Yu D, Hassell LA, Evans S et al. Single-cell analysis of the aging female mouse hypothalamus. Nat Aging 2022 Jul;2(7):662-678. PMID: 36285248
  • Yu R, Zhang H, Wang R, Xiao L et al. Low expression of MYCN promotes cisplatin resistance by suppressing cisplatin-induced apoptosis in epithelial ovarian cancer. Oncol Lett 2022 Dec;24(6):423. PMID: 36284653
  • Feng F, Zhao Z, Cai X, Heng X et al. Cyclin-dependent kinase subunit2 (CKS2) promotes malignant phenotypes and epithelial-mesenchymal transition-like process in glioma by activating TGFβ/SMAD signaling. Cancer Med 2023 Mar;12(5):5889-5907. PMID: 36284444
  • Du T, Pan L, Zheng C, Chen K et al. Matrix Gla protein (MGP), GATA3, and TRPS1: a novel diagnostic panel to determine breast origin. Breast Cancer Res 2022 Oct 25;24(1):70. PMID: 36284362
  • Galuzzi BG, Vanoni M, Damiani C et al. Combining denoising of RNA-seq data and flux balance analysis for cluster analysis of single cells. BMC Bioinformatics 2022 Oct 25;23(Suppl 6):445. PMID: 36284276
  • Bitaraf M, Mahmanzar M, Zafari N, Mohammadpour H et al. The potential key genes and pathways associated with Wilms tumor in quest of proper candidates for diagnostic and therapeutic purposes. Sci Rep 2022 Oct 25;12(1):17906. PMID: 36284226
  • Cloud AS, Koohestani F, McWilliams MM, Ganeshkumar S et al. Loss of the repressor REST affects progesterone receptor function and promotes uterine leiomyoma pathogenesis. Proc Natl Acad Sci U S A 2022 Nov;119(44):e2205524119. PMID: 36282915
  • Zhao X, Tang L, Le TP, Nguyen BH et al. Yap and Taz promote osteogenesis and prevent chondrogenesis in neural crest cells in vitro and in vivo. Sci Signal 2022 Oct 25;15(757):eabn9009. PMID: 36282910
  • Rise K, Tessem MB, Drabløs F, Rye MB et al. FunHoP analysis reveals upregulation of mitochondrial genes in prostate cancer. PLoS One 2022;17(10):e0275621. PMID: 36282866
  • Jang JY, Hwang I, Pan H, Yao J et al. A FOXO1-dependent transcription network is a targetable vulnerability of mantle cell lymphomas. J Clin Invest 2022 Dec 15;132(24). PMID: 36282572
  • Zhang C, Zhou W, Tan Y, Tian D et al. 5-Hydroxymethylcytosines in circulating cell-free DNA reveal a diagnostic biomarker for glioma. Heliyon 2022 Oct;8(10):e11022. PMID: 36281400
  • Liu F, Gao X, Liu W, Xue W et al. Mining TCGA and GEO databases for the prediction of poor prognosis in lung adenocarcinoma based on up-regulated expression of TNS4. Medicine (Baltimore) 2022 Oct 21;101(42):e31120. PMID: 36281194
  • Kaya T, Mattugini N, Liu L, Ji H et al. CD8(+) T cells induce interferon-responsive oligodendrocytes and microglia in white matter aging. Nat Neurosci 2022 Nov;25(11):1446-1457. PMID: 36280798
  • Katayama M, Fukuda T, Kaneko T, Nakagawa Y et al. Induced pluripotent stem cells of endangered avian species. Commun Biol 2022 Oct 24;5(1):1049. PMID: 36280684
  • Kogut S, Paculova H, Rodriguez P, Boyd J et al. Ikaros Regulates microRNA Networks in Acute Lymphoblastic Leukemia. Epigenomes 2022 Oct 19;6(4). PMID: 36278683
  • Zhang N, Guan C, Liu Z, Li C et al. Calycosin attenuates renal ischemia/reperfusion injury by suppressing NF-κB mediated inflammation via PPARγ/EGR1 pathway. Front Pharmacol 2022;13:970616. PMID: 36278223
  • Xiao Y, Gao C, Wu J, Li J et al. Periplaneta americana extract alleviates steatohepatitis in a mouse model by modulating HMGB1-mediated inflammatory response. Front Pharmacol 2022;13:995523. PMID: 36278177
  • Liu J, Huang Z, Yin S, Jiang Y et al. Protective effect of zinc oxide nanoparticles on spinal cord injury. Front Pharmacol 2022;13:990586. PMID: 36278165
  • Yu CY, Gu Y, Jiang YC, Zhang XW et al. Identification of intrinsic genes across general hypertension, hypertension with left ventricular remodeling, and uncontrolled hypertension. Front Cardiovasc Med 2022;9:992284. PMID: 36277786
  • Chen Y, Wu C, Wang X, Zhou X et al. Weighted gene co-expression network analysis identifies dysregulated B-cell receptor signaling pathway and novel genes in pulmonary arterial hypertension. Front Cardiovasc Med 2022;9:909399. PMID: 36277750
  • Pan HT, Xiong YM, Zhu HD, Shi XL et al. Proteomics and bioinformatics analysis of cardiovascular related proteins in offspring exposed to gestational diabetes mellitus. Front Cardiovasc Med 2022;9:1021112. PMID: 36277748
  • Higgins-Chen AT, Thrush KL, Wang Y, Minteer CJ et al. A computational solution for bolstering reliability of epigenetic clocks: Implications for clinical trials and longitudinal tracking. Nat Aging 2022 Jul;2(7):644-661. PMID: 36277076
  • Zhao S, Sun W, Chen SY, Li Y et al. The exploration of miRNAs and mRNA profiles revealed the molecular mechanisms of cattle-yak male infertility. Front Vet Sci 2022;9:974703. PMID: 36277066
  • Wang S, Liu W, Ye Z, Xia X et al. Development of a joint diagnostic model of thyroid papillary carcinoma with artificial neural network and random forest. Front Genet 2022;13:957718. PMID: 36276977
  • Song Y, Jiang Y, Shi L, He C et al. Comprehensive analysis of key m5C modification-related genes in type 2 diabetes. Front Genet 2022;13:1015879. PMID: 36276976
  • Yuan S, Gao Y, Xia Y, Wang Z et al. DNA methylation regulator-mediated modification pattern defines tumor microenvironment immune infiltration landscape in colon cancer. Front Genet 2022;13:1008644. PMID: 36276973
  • Li Z, Duan Y, Ke Q, Wang M et al. Gene set-based identification of two immune subtypes of diffuse large B cell lymphoma for guiding immune checkpoint blocking therapy. Front Genet 2022;13:1000460. PMID: 36276947
  • Xiao K, Xu Z, Chen Z, Long Q et al. Complement 3a Mediates CCN2/CTGF in Human Retinal Pigment Epithelial Cells. J Ophthalmol 2022;2022:3259453. PMID: 36276919
  • Yang Y, Shen Q, Dong H, Liu T et al. Early Stage Finding of an Immune-Enhanced Genetic Subtype of Nonsmall Cell Lung Cancer Related with T-Cell Depletion. Evid Based Complement Alternat Med 2022;2022:6765997. PMID: 36276870
  • Xie H, Huang G, Zou J, Zhu Q et al. The Pharmacological Mechanism of Curcumin against Drug Resistance in Non-Small Cell Lung Cancer: Findings of Network Pharmacology and Bioinformatics Analysis. Evid Based Complement Alternat Med 2022;2022:5926609. PMID: 36276869
  • Huang Y, Wu C, Wei C, Chen Y et al. The Low Endometrial Expression of Long Non-Coding RNA NORAD Is Associated with Recurrent Pregnancy Losses and Unexplained Infertility. Evid Based Complement Alternat Med 2022;2022:6448666. PMID: 36276868
  • Zhu J, Zhang Y, Ren R, Sanford LD et al. Blood transcriptome analysis: Ferroptosis and potential inflammatory pathways in post-traumatic stress disorder. Front Psychiatry 2022;13:841999. PMID: 36276334
  • Qiu P, Guo Q, Pan K, Chen J et al. A pyroptosis-associated gene risk model for predicting the prognosis of triple-negative breast cancer. Front Oncol 2022;12:890242. PMID: 36276158
  • Wang J, Shi F, Shan A et al. Transcriptome profile and clinical characterization of ICOS expression in gliomas. Front Oncol 2022;12:946967. PMID: 36276141
  • Li W, Zou Z, An N, Wang M et al. A multifaceted and feasible prognostic model of amino acid metabolism-related genes in the immune response and tumor microenvironment of head and neck squamous cell carcinomas. Front Oncol 2022;12:996222. PMID: 36276126
  • Yi Q, Liang Q, Liu Y, Gong Z et al. Application of genomic selection and experimental techniques to predict cell death and immunotherapeutic efficacy of ferroptosis-related CXCL2 in hepatocellular carcinoma. Front Oncol 2022;12:998736. PMID: 36276119
  • Wang Z, Fan G, Zhu H, Yu L et al. PLOD2 high expression associates with immune infiltration and facilitates cancer progression in osteosarcoma. Front Oncol 2022;12:980390. PMID: 36276118
  • Guo Z, Zhang X, Lin C, Huang Y et al. METTL3-IGF2BP3-axis mediates the proliferation and migration of pancreatic cancer by regulating spermine synthase m6A modification. Front Oncol 2022;12:962204. PMID: 36276112
  • Yang W, Wu H, Tong L, Wang Y et al. A cuproptosis-related genes signature associated with prognosis and immune cell infiltration in osteosarcoma. Front Oncol 2022;12:1015094. PMID: 36276092
  • Yu H, Liu S, Wu Z, Gao F et al. GNAI2 Is a Risk Factor for Gastric Cancer: Study of Tumor Microenvironment (TME) and Establishment of Immune Risk Score (IRS). Oxid Med Cell Longev 2022;2022:1254367. PMID: 36275898
  • Banach M, Harley ITW, Getahun A, Cambier JC et al. Comparative analysis of the repertoire of insulin-reactive B cells in type 1 diabetes-prone and resistant mice. Front Immunol 2022;13:961209. PMID: 36275764
  • Jiang Y, Qu X, Zhang M, Zhang L et al. Identification of a six-gene prognostic signature for bladder cancer associated macrophage. Front Immunol 2022;13:930352. PMID: 36275756
  • Zhang L, Jiang B, Lan Z, Yang C et al. Immune infiltration landscape on prognosis and therapeutic response and relevant epigenetic and transcriptomic mechanisms in lung adenocarcinoma. Front Immunol 2022;13:983570. PMID: 36275753
  • Yuan J, Liu Z, Wu Z, Yan L et al. A novel medication decision gene signature predicts response to individualized therapy and prognosis outcomes in hepatocellular carcinoma patients. Front Immunol 2022;13:990571. PMID: 36275751
  • Chen L, Zheng Y, Jiang C, Yang C et al. The established chemokine-related prognostic gene signature in prostate cancer: Implications for anti-androgen and immunotherapies. Front Immunol 2022;13:1009634. PMID: 36275733
  • Xu W, Nie C, Lv H, Chen B et al. Molecular subtypes based on Wnt-signaling gene expression predict prognosis and tumor microenvironment in hepatocellular carcinoma. Front Immunol 2022;13:1010554. PMID: 36275697
  • Yu X, Chen P, Yi W, Ruan W et al. Identification of cell senescence molecular subtypes in prediction of the prognosis and immunotherapy of hepatitis B virus-related hepatocellular carcinoma. Front Immunol 2022;13:1029872. PMID: 36275676
  • Li P, Fei CS, Chen YL, Chen ZS et al. Revealing the novel autophagy-related genes for ligamentum flavum hypertrophy in patients and mice model. Front Immunol 2022;13:973799. PMID: 36275675
  • Song K, Zheng X, Liu X, Sheng Y et al. Genome-wide association study of SNP- and gene-based approaches to identify susceptibility candidates for lupus nephritis in the Han Chinese population. Front Immunol 2022;13:908851. PMID: 36275661
  • Lin L, Lin G, Lin H, Chen L et al. Integrated profiling of endoplasmic reticulum stress-related DERL3 in the prognostic and immune features of lung adenocarcinoma. Front Immunol 2022;13:906420. PMID: 36275646
  • Zhang C, Huang R, Xi X et al. Cuproptosis patterns in papillary renal cell carcinoma are characterized by distinct tumor microenvironment infiltration landscapes. Front Mol Biosci 2022;9:910928. PMID: 36275614
  • Ponnusamy N, Arumugam M et al. Meta-analysis of active tuberculosis gene expression ascertains host directed drug targets. Front Cell Infect Microbiol 2022;12:1010771. PMID: 36275035
  • Chang CW, Wei Z, Durell SR, Ma L et al. A compendium of co-regulated mitoribosomal proteins in pan-cancer uncovers collateral defective events in tumor malignancy. iScience 2022 Oct 21;25(10):105244. PMID: 36274950
  • Toh K, Saunders D, Verd B, Steventon B et al. Zebrafish neuromesodermal progenitors undergo a critical state transition in vivo. iScience 2022 Oct 21;25(10):105216. PMID: 36274939
  • Ge W, Shentu D, Wang Y, Wang Y et al. A novel angiogenesis-based molecular signature related to prognosis and tumor immune interactions of pancreatic cancer. Front Cell Dev Biol 2022;10:1001606. PMID: 36274838
  • Wang G, Lv C, Liu C, Shen W et al. Neutrophil-to-lymphocyte ratio as a potential biomarker in predicting influenza susceptibility. Front Microbiol 2022;13:1003380. PMID: 36274727
  • Raei M, Bagheri M, Aghaabdollahian S, Ghorbani M et al. Ionizing Radiation Promotes Epithelial-Mesenchymal Transition Phenotype and Stem Cell Marker in The Lung adenocarcinoma: In Vitro and Bioinformatic Studiesc. Cell J 2022 Sep 1;24(9):522-530. PMID: 36274205
  • Wang Z, Li B, Li S, Lin W et al. Metabolic control of CD47 expression through LAT2-mediated amino acid uptake promotes tumor immune evasion. Nat Commun 2022 Oct 23;13(1):6308. PMID: 36274066
  • Xu L, Lyu M, Yang S, Zhang J et al. CircRNA expression profiles of breast cancer and construction of a circRNA-miRNA-mRNA network. Sci Rep 2022 Oct 22;12(1):17765. PMID: 36273233
  • Cui H, Zhou Y, Wang F, Cheng C et al. Characterization of somatic structural variations in 528 Chinese individuals with Esophageal squamous cell carcinoma. Nat Commun 2022 Oct 22;13(1):6296. PMID: 36272974
  • Ma Q, Tao H, Li Q, Zhai Z et al. OrganoidDB: a comprehensive organoid database for the multi-perspective exploration of bulk and single-cell transcriptomic profiles of organoids. Nucleic Acids Res 2023 Jan 6;51(D1):D1086-D1093. PMID: 36271792
  • Li R, Ke M, Qi M, Han Z et al. G6PD promotes cell proliferation and dexamethasone resistance in multiple myeloma via increasing anti-oxidant production and activating Wnt/β-catenin pathway. Exp Hematol Oncol 2022 Oct 21;11(1):77. PMID: 36271440
  • Bachanová P, Cheyne A, Broderick C, Newton SM et al. Comparative transcriptomic analysis of whole blood mycobacterial growth assays and tuberculosis patients' blood RNA profiles. Sci Rep 2022 Oct 21;12(1):17684. PMID: 36271270
  • Knizkova D, Pribikova M, Draberova H, Semberova T et al. CMTM4 is a subunit of the IL-17 receptor and mediates autoimmune pathology. Nat Immunol 2022 Nov;23(11):1644-1652. PMID: 36271145
  • Alsagaby SA, Iqbal D, Ahmad I, Patel H et al. In silico investigations identified Butyl Xanalterate to competently target CK2α (CSNK2A1) for therapy of chronic lymphocytic leukemia. Sci Rep 2022 Oct 21;12(1):17648. PMID: 36271116
  • Zethoven M, Martelotto L, Pattison A, Bowen B et al. Single-nuclei and bulk-tissue gene-expression analysis of pheochromocytoma and paraganglioma links disease subtypes with tumor microenvironment. Nat Commun 2022 Oct 21;13(1):6262. PMID: 36271074
  • Lakshmanan I, Marimuthu S, Chaudhary S, Seshacharyulu P et al. Muc16 depletion diminishes KRAS-induced tumorigenesis and metastasis by altering tumor microenvironment factors in pancreatic ductal adenocarcinoma. Oncogene 2022 Nov;41(48):5147-5159. PMID: 36271032
  • Yan C, Yang H, Su P, Li X et al. OTUB1 suppresses Hippo signaling via modulating YAP protein in gastric cancer. Oncogene 2022 Nov;41(48):5186-5198. PMID: 36271031
  • Dehghan A, Pinto RC, Karaman I, Huang J et al. Metabolome-wide association study on ABCA7 indicates a role of ceramide metabolism in Alzheimer's disease. Proc Natl Acad Sci U S A 2022 Oct 25;119(43):e2206083119. PMID: 36269859
  • Valcarcel-Jimenez L, Rogerson C, Yong C, Schmidt C et al. HIRA loss transforms FH-deficient cells. Sci Adv 2022 Oct 21;8(42):eabq8297. PMID: 36269833
  • Irie E, Ishihara R, Mizushima I, Hatai S et al. Enrichment of type I interferon signaling in colonic group 2 innate lymphoid cells in experimental colitis. Front Immunol 2022;13:982827. PMID: 36268010
  • Pyo JJ, Choi Y et al. Key hepatic signatures of human and mouse nonalcoholic steatohepatitis: A transcriptome-proteome data meta-analysis. Front Endocrinol (Lausanne) 2022;13:934847. PMID: 36267572
  • Wang J, Liu J, Luo M, Cui H et al. Rational drug repositioning for coronavirus-associated diseases using directional mapping and side-effect inference. iScience 2022 Nov 18;25(11):105348. PMID: 36267550
  • Cheng Y, Huang N, Yin Q, Cheng C et al. LncRNA TP53TG1 plays an anti-oncogenic role in cervical cancer by synthetically regulating transcriptome profile in HeLa cells. Front Genet 2022;13:981030. PMID: 36267418
  • Li Y, Zhang W, Dai Y, Chen K et al. Identification and verification of IGFBP3 and YTHDC1 as biomarkers associated with immune infiltration and mitophagy in hypertrophic cardiomyopathy. Front Genet 2022;13:986995. PMID: 36267414
  • Ye C, Lu Y, Yuan Z, Mi M et al. Ferroptosis regulator FANCD2 is associated with immune infiltration and predicts worse prognosis in lung adenocarcinoma. Front Genet 2022;13:922914. PMID: 36267413
  • Ge J, Mu S, Xiao E, Tian G et al. Expression, oncological and immunological characterizations of BZW1/2 in pancreatic adenocarcinoma. Front Genet 2022;13:1002673. PMID: 36267402
  • Lautizi M, Baumbach J, Weichert W, Steiger K et al. The limits of molecular signatures for pancreatic ductal adenocarcinoma subtyping. NAR Cancer 2022 Dec;4(4):zcac030. PMID: 36267208
  • Delos Santos NP, Duttke S, Heinz S, Benner C et al. MEPP: more transparent motif enrichment by profiling positional correlations. NAR Genom Bioinform 2022 Dec;4(4):lqac075. PMID: 36267125
  • Shao A, Gearhart MD, Chan SC, Miao Z et al. Multiomics analysis reveals that hepatocyte nuclear factor 1β regulates axon guidance genes in the developing mouse kidney. Sci Rep 2022 Oct 20;12(1):17586. PMID: 36266461
  • Madden SF, Cremona M, Farrelly AM, Low WH et al. Proteomic time course of breast cancer cells highlights enhanced sensitivity to Stat3 and Src inhibitors prior to endocrine resistance development. Cancer Gene Ther 2023 Feb;30(2):324-334. PMID: 36266450
  • Roca-Lema D, Quiroga M, Khare V, Díaz-Díaz A et al. Role of the E3 ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease. Sci Rep 2022 Oct 20;12(1):17571. PMID: 36266428
  • Ozerova AM, Gelfand MS et al. Recapitulation of the embryonic transcriptional program in holometabolous insect pupae. Sci Rep 2022 Oct 20;12(1):17570. PMID: 36266393
  • Georges RO, Sepulveda H, Angel JC, Johnson E et al. Acute deletion of TET enzymes results in aneuploidy in mouse embryonic stem cells through decreased expression of Khdc3. Nat Commun 2022 Oct 20;13(1):6230. PMID: 36266342
  • Li M, Ye J, Xia Y, Li M et al. METTL3 mediates chemoresistance by enhancing AML homing and engraftment via ITGA4. Leukemia 2022 Nov;36(11):2586-2595. PMID: 36266324
  • Kim HJ, Park JH, Kim HC, Kim CW et al. Blood monocyte-derived CD169(+) macrophages contribute to antitumor immunity against glioblastoma. Nat Commun 2022 Oct 20;13(1):6211. PMID: 36266311
  • Diray-Arce J, Miller HER, Henrich E, Gerritsen B et al. The Immune Signatures data resource, a compendium of systems vaccinology datasets. Sci Data 2022 Oct 20;9(1):635. PMID: 36266291
  • Xie K, Zheng C, Gu W, Jiang Z et al. A RASSF8-AS1 based exosomal lncRNAs panel used for diagnostic and prognostic biomarkers for esophageal squamous cell carcinoma. Thorac Cancer 2022 Dec;13(23):3341-3352. PMID: 36266257
  • Morille J, Mandon M, Rodriguez S, Roulois D et al. Multiple Sclerosis CSF Is Enriched With Follicular T Cells Displaying a Th1/Eomes Signature. Neurol Neuroimmunol Neuroinflamm 2022 Nov;9(6). PMID: 36266053
  • Vu Hong A, Bourg N, Sanatine P, Poupiot J et al. Dlk1-Dio3 cluster miRNAs regulate mitochondrial functions in the dystrophic muscle in Duchenne muscular dystrophy. Life Sci Alliance 2023 Jan;6(1). PMID: 36265896
  • Cheng S, Altmeppen G, So C, Welp LM et al. Mammalian oocytes store mRNAs in a mitochondria-associated membraneless compartment. Science 2022 Oct 21;378(6617):eabq4835. PMID: 36264786
  • Liu Z, Shi H, Xu J, Yang Q et al. Single-cell transcriptome analyses reveal microglia types associated with proliferative retinopathy. JCI Insight 2022 Dec 8;7(23). PMID: 36264636
  • Zhang C, Hu MW, Wang XW, Cui X et al. scRNA-sequencing reveals subtype-specific transcriptomic perturbations in DRG neurons of Pirt(EGFPf) mice in neuropathic pain condition. Elife 2022 Oct 20;11. PMID: 36264609
  • Hustmyer CM, Wolfe MB, Welch RA, Landick R et al. RfaH Counter-Silences Inhibition of Transcript Elongation by H-NS-StpA Nucleoprotein Filaments in Pathogenic Escherichia coli. mBio 2022 Dec 20;13(6):e0266222. PMID: 36264101
  • Kumar S, Chaaudhary S, Paul P, Verma YK et al. Exploring STAT3 stimulatory potential of novel wound healing molecules by virtual screening and molecular dynamics simulations. J Biomol Struct Dyn 2022 Oct 20;:1-15. PMID: 36264095
  • Feng Y, Lian X, Guo K, Zhang G et al. A comprehensive analysis of metabolomics and transcriptomics to reveal major metabolic pathways and potential biomarkers of human preeclampsia placenta. Front Genet 2022;13:1010657. PMID: 36263435
  • Zhou C, Liang T, Jiang J, Zhang Z et al. Immune cell infiltration-related clinical diagnostic model for Ankylosing Spondylitis. Front Genet 2022;13:949882. PMID: 36263434
  • Wen H, Chen H, Xie L, Li Z et al. Macrophage-related molecular subtypes in lung adenocarcinoma identify novel tumor microenvironment with prognostic and therapeutic implications. Front Genet 2022;13:1012164. PMID: 36263430
  • Bi Y, Jing Y, Guo L et al. Construction and validation of a prognostic marker and risk model for HCC ultrasound therapy combined with WGCNA identification. Front Genet 2022;13:1017551. PMID: 36263426
  • Xia S, Jia H, Qian Z, Xiu Y et al. Role of copper ionophore-induced death in immune microenvironment and clinical prognosis of ccRCC: An integrated analysis. Front Genet 2022;13:994999. PMID: 36263424
  • Zhang X, Wang Y, Dong B, Jiang Y et al. Expression pattern and clinical value of Key RNA methylation modification regulators in ischemic stroke. Front Genet 2022;13:1009145. PMID: 36263422
  • Li M, Song Q, Bai Y, Hua F et al. Comprehensive analysis of cuproptosis in immune response and prognosis of osteosarcoma. Front Pharmacol 2022;13:992431. PMID: 36263140
  • Cao J, Tu DY, Zhou J, Jiang GQ et al. Comprehensive analysis of the clinical significance, immune infiltration, and biological role of MARCH ligases in HCC. Front Immunol 2022;13:997265. PMID: 36263042
  • Rigamonti A, Castagna A, Viatore M, Colombo FS et al. Distinct responses of newly identified monocyte subsets to advanced gastrointestinal cancer and COVID-19. Front Immunol 2022;13:967737. PMID: 36263038
  • Ye Y, Li L, Dai Q, Liu Y et al. Comprehensive analysis of histone methylation modification regulators for predicting prognosis and drug sensitivity in lung adenocarcinoma. Front Cell Dev Biol 2022;10:991980. PMID: 36263018
  • Kazakova AN, Anufrieva KS, Ivanova OM, Shnaider PV et al. Deeper insights into transcriptional features of cancer-associated fibroblasts: An integrated meta-analysis of single-cell and bulk RNA-sequencing data. Front Cell Dev Biol 2022;10:825014. PMID: 36263012
  • McSweeney D, Gabriel R, Jin K, Pang ZP et al. CASK loss of function differentially regulates neuronal maturation and synaptic function in human induced cortical excitatory neurons. iScience 2022 Oct 21;25(10):105187. PMID: 36262316
  • Lu SY, Hua J, Liu J, Wei MY et al. Turning up the heat on non-immunoreactive tumors: autophagy influences the immune microenvironment in pancreatic cancer. BMC Med Genomics 2022 Oct 19;15(1):218. PMID: 36261830
  • Taguchi YH, Turki T et al. Adapted tensor decomposition and PCA based unsupervised feature extraction select more biologically reasonable differentially expressed genes than conventional methods. Sci Rep 2022 Oct 19;12(1):17438. PMID: 36261574
  • Bowler S, Papoutsoglou G, Karanikas A, Tsamardinos I et al. A machine learning approach utilizing DNA methylation as an accurate classifier of COVID-19 disease severity. Sci Rep 2022 Oct 19;12(1):17480. PMID: 36261477
  • Watterson A, Arneaud SLB, Wajahat N, Wall JM et al. Loss of heat shock factor initiates intracellular lipid surveillance by actin destabilization. Cell Rep 2022 Oct 18;41(3):111493. PMID: 36261024
  • Fan X, Zou X, Liu C, Peng S et al. Identify miRNA-mRNA regulation pairs to explore potential pathogenesis of lung adenocarcinoma. Aging (Albany NY) 2022 Oct 19;14(20):8357-8373. PMID: 36260870
  • Hagemann CA, Legart C, Møllerhøj MB, Madsen MR et al. A liver secretome gene signature-based approach for determining circulating biomarkers of NAFLD severity. PLoS One 2022;17(10):e0275901. PMID: 36260611
  • Nicolet BP, Wolkers MC et al. The relationship of mRNA with protein expression in CD8+ T cells associates with gene class and gene characteristics. PLoS One 2022;17(10):e0276294. PMID: 36260607
  • Kalyakulina A, Yusipov I, Bacalini MG, Franceschi C et al. Disease classification for whole-blood DNA methylation: Meta-analysis, missing values imputation, and XAI. Gigascience 2022 Oct 19;11. PMID: 36259657
  • Lehtiniemi T, Bourgery M, Ma L, Ahmedani A et al. SMG6 localizes to the chromatoid body and shapes the male germ cell transcriptome to drive spermatogenesis. Nucleic Acids Res 2022 Nov 11;50(20):11470-11491. PMID: 36259644
  • Park HJ, Gregory MA, Zaberezhnyy V, Goodspeed A et al. Therapeutic resistance in acute myeloid leukemia cells is mediated by a novel ATM/mTOR pathway regulating oxidative phosphorylation. Elife 2022 Oct 19;11. PMID: 36259537
  • Martin WP, Nair M, Chuah YHD, Malmodin D et al. Dietary restriction and medical therapy drives PPARα-regulated improvements in early diabetic kidney disease in male rats. Clin Sci (Lond) 2022 Nov 11;136(21):1485-1511. PMID: 36259366
  • Peng Y, Hong H, Gao N, Wan A et al. Bioinformatics methods in biomarkers of preeclampsia and associated potential drug applications. BMC Genomics 2022 Oct 19;23(1):711. PMID: 36258174
  • van den Hurk M, Lau S, Marchetto MC, Mertens J et al. Druggable transcriptomic pathways revealed in Parkinson's patient-derived midbrain neurons. NPJ Parkinsons Dis 2022 Oct 18;8(1):134. PMID: 36258029
  • Kwon H, Choi M, Ahn Y, Jang D et al. Flotillin-1 palmitoylation turnover by APT-1 and ZDHHC-19 promotes cervical cancer progression by suppressing IGF-1 receptor desensitization and proteostasis. Cancer Gene Ther 2023 Feb;30(2):302-312. PMID: 36257975
  • Zhang R, Tu YX, Ye D, Gu Z et al. A Germline-Specific Regulator of Mitochondrial Fusion is Required for Maintenance and Differentiation of Germline Stem and Progenitor Cells. Adv Sci (Weinh) 2022 Dec;9(36):e2203631. PMID: 36257818
  • Reitz CJ, Rasouli M, Alibhai FJ, Khatua TN et al. A brief morning rest period benefits cardiac repair in pressure overload hypertrophy and postmyocardial infarction. JCI Insight 2022 Nov 22;7(22). PMID: 36256456
  • Wehling L, Keegan L, Fernández-Palanca P, Hassan R et al. Spatial modeling reveals nuclear phosphorylation and subcellular shuttling of YAP upon drug-induced liver injury. Elife 2022 Oct 18;11. PMID: 36255405
  • Timón-Gómez A, Scharr AL, Wong NY, Ni E et al. Tissue-specific mitochondrial HIGD1C promotes oxygen sensitivity in carotid body chemoreceptors. Elife 2022 Oct 18;11. PMID: 36255054
  • Lin Y, Liu D, Li X, Ma Y et al. TMEM184B promotes proliferation, migration and invasion, and inhibits apoptosis in hypopharyngeal squamous cell carcinoma. J Cell Mol Med 2022 Nov;26(21):5551-5561. PMID: 36254814
  • Monzón-Sandoval J, Burlacu E, Agarwal D, Handel AE et al. Lipopolysaccharide distinctively alters human microglia transcriptomes to resemble microglia from Alzheimer's disease mouse models. Dis Model Mech 2022 Oct 1;15(10). PMID: 36254682
  • Jiang R, He S, Gong H, Wang Y et al. Identification of ATG7 as a Regulator of Proferroptosis and Oxidative Stress in Osteosarcoma. Oxid Med Cell Longev 2022;2022:8441676. PMID: 36254233
  • Jin J, Yu Y, Wang R, Zeng X et al. iDNA-ABF: multi-scale deep biological language learning model for the interpretable prediction of DNA methylations. Genome Biol 2022 Oct 17;23(1):219. PMID: 36253864
  • Zheng Y, Shen S, Keleş S et al. Normalization and de-noising of single-cell Hi-C data with BandNorm and scVI-3D. Genome Biol 2022 Oct 17;23(1):222. PMID: 36253828
  • Liu Z, Sun D, Wang C et al. Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information. Genome Biol 2022 Oct 17;23(1):218. PMID: 36253792
  • Bakhtiar H, Helzer KT, Park Y, Chen Y et al. Identification of phenocopies improves prediction of targeted therapy response over DNA mutations alone. NPJ Genom Med 2022 Oct 17;7(1):58. PMID: 36253482
  • Wang HL, Chen Y, Wang YQ, Tao EW et al. Sirtuin5 protects colorectal cancer from DNA damage by keeping nucleotide availability. Nat Commun 2022 Oct 17;13(1):6121. PMID: 36253417
  • Zhao F, He J, Tang J, Cui N et al. Brain milieu induces early microglial maturation through the BAX-Notch axis. Nat Commun 2022 Oct 17;13(1):6117. PMID: 36253375
  • Zhou RW, Xu J, Martin TC, Zachem AL et al. A local tumor microenvironment acquired super-enhancer induces an oncogenic driver in colorectal carcinoma. Nat Commun 2022 Oct 17;13(1):6041. PMID: 36253360
  • Maghsoudi Z, Nguyen H, Tavakkoli A, Nguyen T et al. A comprehensive survey of the approaches for pathway analysis using multi-omics data integration. Brief Bioinform 2022 Nov 19;23(6). PMID: 36252928
  • Sjöström M, Zhao SG, Levy S, Zhang M et al. The 5-Hydroxymethylcytosine Landscape of Prostate Cancer. Cancer Res 2022 Nov 2;82(21):3888-3902. PMID: 36251389
  • Mannan R, Wang X, Bawa PS, Zhang Y et al. Characterization of Intercalated Cell Markers KIT and LINC01187 in Chromophobe Renal Cell Carcinoma and Other Renal Neoplasms. Int J Surg Pathol 2022 Oct 16;:10668969221125793. PMID: 36250542
  • Fu S, Cheng Y, Wang X, Huang J et al. Identification of diagnostic gene biomarkers and immune infiltration in patients with diabetic kidney disease using machine learning strategies and bioinformatic analysis. Front Med (Lausanne) 2022;9:918657. PMID: 36250071
  • Tian Y, Lu J, Qiao Y et al. A metabolism-associated gene signature for prognosis prediction of hepatocellular carcinoma. Front Mol Biosci 2022;9:988323. PMID: 36250026
  • Miao L, Batty KR, Jackson AN, Pieno HA et al. Genetic and environmental perturbations alter the rhythmic expression pattern of a circadian long non-coding RNA, Per2AS, in mouse liver. F1000Res 2022;11:1073. PMID: 36250003
  • Wang C, Yu S, Qian R, Chen S et al. Prognostic and immunological significance of peroxisome proliferator-activated receptor gamma in hepatocellular carcinoma based on multiple databases. Transl Cancer Res 2022 Jul;11(7):1938-1953. PMID: 36249888
  • Hu X, Li Z, Ji M, Lin Y et al. Identification of cellular heterogeneity and immunogenicity of chondrocytes via single-cell RNA sequencing technique in human osteoarthritis. Front Pharmacol 2022;13:1004766. PMID: 36249797
  • Zhang H, Cao S, Xu Y, Sun X et al. Landscape of immune infiltration in entorhinal cortex of patients with Alzheimer's disease. Front Pharmacol 2022;13:941656. PMID: 36249779
  • Li X, Liang W, Yu C, Meng Q et al. Potential therapeutic strategies for quercetin targeting critical pathological mechanisms associated with colon adenocarcinoma and COVID-19. Front Pharmacol 2022;13:988153. PMID: 36249762
  • Wang G, Wang Z, Lu H, Zhao Z et al. Comprehensive analysis of FRAS1/FREM family as potential biomarkers and therapeutic targets in renal clear cell carcinoma. Front Pharmacol 2022;13:972934. PMID: 36249757
  • Zhou K, Gu X, Tan H, Yu T et al. Identification pyroptosis-related gene signature to predict prognosis and associated regulation axis in colon cancer. Front Pharmacol 2022;13:1004425. PMID: 36249755
  • Xu Y, Sun Y, Yin R, Dong T et al. Differential expression of plasma exosomal microRNA in severe acute pancreatitis. Front Pharmacol 2022;13:980930. PMID: 36249739
  • Zhang LQ, Yang H, Liu JJ, Zhang LR et al. Recognition of driver genes with potential prognostic implications in lung adenocarcinoma based on H3K79me2. Comput Struct Biotechnol J 2022;20:5535-5546. PMID: 36249560
  • Yang X, An Z, Hu Z, Xi J et al. Expression Analysis of Ligand-Receptor Pairs Identifies Cell-to-Cell Crosstalk between Macrophages and Tumor Cells in Lung Adenocarcinoma. J Immunol Res 2022;2022:9589895. PMID: 36249427
  • Li W, Zhou R, Sun B, Jin X et al. Prognostic significance of lncRNA AP004608.1 in prostate cancer. Front Oncol 2022;12:1017635. PMID: 36249054
  • Jian F, Huang F, Zhang YH, Huang T et al. Identifying anal and cervical tumorigenesis-associated methylation signaling with machine learning methods. Front Oncol 2022;12:998032. PMID: 36249027
  • He W, He X, Li E et al. Comprehensive analysis of aerobic glycolysis-related genes for prognosis, immune features and drug treatment strategy in prostate cancer. Front Oncol 2022;12:905888. PMID: 36249009
  • Yao C, Xu R, Li Q, Xiao S et al. Identification and validation of an immunological microenvironment signature and prediction model for epstein-barr virus positive lymphoma: Implications for immunotherapy. Front Oncol 2022;12:970544. PMID: 36249005
  • Liu H, Zhang J, Wei C, Liu Z et al. Prognostic signature construction of energy metabolism-related genes in pancreatic cancer. Front Oncol 2022;12:917897. PMID: 36248974
  • Xue Z, Yang S, Luo Y, He M et al. An immuno-score signature of tumor immune microenvironment predicts clinical outcomes in locally advanced rectal cancer. Front Oncol 2022;12:993726. PMID: 36248969
  • Wang S, Li L, Zuo S, Kong L et al. Metabolic-related gene pairs signature analysis identifies ABCA1 expression levels on tumor-associated macrophages as a prognostic biomarker in primary IDH(WT) glioblastoma. Front Immunol 2022;13:869061. PMID: 36248907
  • SoRelle ED, Reinoso-Vizcaino NM, Horn GQ, Luftig MA et al. Epstein-Barr virus perpetuates B cell germinal center dynamics and generation of autoimmune-associated phenotypes in vitro. Front Immunol 2022;13:1001145. PMID: 36248899
  • Hester MM, Oliveira LVN, Wang R, Mou Z et al. Cross-reactivity between vaccine antigens from the chitin deacetylase protein family improves survival in a mouse model of cryptococcosis. Front Immunol 2022;13:1015586. PMID: 36248898
  • Crinzi EA, Haley EK, Poppenberg KE, Jiang K et al. Analysis of chromatin data supports a role for CD14+ monocytes/macrophages in mediating genetic risk for juvenile idiopathic arthritis. Front Immunol 2022;13:913555. PMID: 36248892
  • Franchon Marques Tejada N, Ziroldo Lopes JV, Duarte Gonçalves LE, Mamede Costa Andrade da Conceição I et al. AIM2 as a putative target in acute kidney graft rejection. Front Immunol 2022;13:839359. PMID: 36248890
  • Liu X, Yan G, Xu B, Yu H et al. Evaluating the role of IDO1 macrophages in immunotherapy using scRNA-seq and bulk-seq in colorectal cancer. Front Immunol 2022;13:1006501. PMID: 36248886
  • Wang D, Chen B, Bai S, Zhao L et al. Screening and identification of tissue-infiltrating immune cells and genes for patients with emphysema phenotype of COPD. Front Immunol 2022;13:967357. PMID: 36248880
  • Ren Y, Li R, Feng H, Xie J et al. Single-cell sequencing reveals effects of chemotherapy on the immune landscape and TCR/BCR clonal expansion in a relapsed ovarian cancer patient. Front Immunol 2022;13:985187. PMID: 36248860
  • Hossain SM, Gimenez G, Stockwell PA, Tsai P et al. Innate immune checkpoint inhibitor resistance is associated with melanoma sub-types exhibiting invasive and de-differentiated gene expression signatures. Front Immunol 2022;13:955063. PMID: 36248850
  • Loeffler-Wirth H, Rade M, Arakelyan A, Kreuz M et al. Transcriptional states of CAR-T infusion relate to neurotoxicity - lessons from high-resolution single-cell SOM expression portraying. Front Immunol 2022;13:994885. PMID: 36248848
  • Zhang L, Tang C, Zhang M, Tong X et al. Single cell meta-analysis of EndMT and EMT state in COVID-19. Front Immunol 2022;13:976512. PMID: 36248845
  • Pietrobon AJ, Andrejew R, Custódio RWA, Oliveira LM et al. Dysfunctional purinergic signaling correlates with disease severity in COVID-19 patients. Front Immunol 2022;13:1012027. PMID: 36248842
  • Feng S, Liang X, Li J, Wang Z et al. Immunogenic cell death related risk model to delineate ferroptosis pathway and predict immunotherapy response of patients with GBM. Front Immunol 2022;13:992855. PMID: 36248827
  • Turhon M, Maimaiti A, Gheyret D, Axier A et al. An immunogenic cell death-related regulators classification patterns and immune microenvironment infiltration characterization in intracranial aneurysm based on machine learning. Front Immunol 2022;13:1001320. PMID: 36248807
  • Tong S, Xia M, Xu Y, Sun Q et al. Identification and validation of a 17-gene signature to improve the survival prediction of gliomas. Front Immunol 2022;13:1000396. PMID: 36248799
  • Qin Y, Pan L, Qin T, Ruan H et al. Pan-cancer analysis of AIM2 inflammasomes with potential implications for immunotherapy in human cancer: A bulk omics research and single cell sequencing validation. Front Immunol 2022;13:998266. PMID: 36248785
  • Jamnongsong S, Kueanjinda P, Buraphat P, Sakornsakolpat P et al. Comprehensive drug response profiling and pan-omic analysis identified therapeutic candidates and prognostic biomarkers for Asian cholangiocarcinoma. iScience 2022 Oct 21;25(10):105182. PMID: 36248745
  • Chen S, Ma B, Li X, Zhang K et al. MYC-mediated silencing of miR-181a-5p promotes pathogenic Th17 responses by modulating AKT3-FOXO3 signaling. iScience 2022 Oct 21;25(10):105176. PMID: 36248732
  • Nordick B, Chae-Yeon Park M, Quaranta V, Hong T et al. Cooperative RNA degradation stabilizes intermediate epithelial-mesenchymal states and supports a phenotypic continuum. iScience 2022 Oct 21;25(10):105224. PMID: 36248730
  • Zheng K, Wang Y, Wang J, Wang C et al. Integrated analysis of Helicobacter pylori-related prognostic gene modification patterns in the tumour microenvironment of gastric cancer. Front Surg 2022;9:964203. PMID: 36248367
  • Sun J, Tian Z, Li X, Li S et al. Systematic analysis of the pectin methylesterase gene family in Nicotiana tabacum and reveal their multiple roles in plant development and abiotic stresses. Front Plant Sci 2022;13:998841. PMID: 36247564
  • Machado JPD, Athie MCP, Matos AHB, Lopes-Cendes I et al. The transcriptome of rat hippocampal subfields. IBRO Neurosci Rep 2022 Dec;13:322-329. PMID: 36247526
  • Wang K, Song Y, Li H, Song J et al. Identification of differentially expressed ferroptosis-related genes in abdominal aortic aneurysm: Bioinformatics analysis. Front Cardiovasc Med 2022;9:991613. PMID: 36247434
  • Xiong X, Duan Z, Zhou H, Niu L et al. The relationship between soluble lymphocyte activation gene-3 and coronary artery disease. Front Cardiovasc Med 2022;9:988582. PMID: 36247429
  • Zhang Y, Liu L, Zhou M, Zhang Y et al. PPIB-regulated alternative splicing of cell cycle genes contributes to the regulation of cell proliferation. Am J Transl Res 2022;14(9):6163-6174. PMID: 36247241
  • Fang G, Wang X et al. Prognosis-related genes participate in immunotherapy of renal clear cell carcinoma possibly by targeting dendritic cells. Front Cell Dev Biol 2022;10:892616. PMID: 36247009
  • Luo Y, Liu X, Li X, Zhong W et al. Identification and validation of a signature involving voltage-gated chloride ion channel genes for prediction of prostate cancer recurrence. Front Endocrinol (Lausanne) 2022;13:1001634. PMID: 36246902
  • Bennett AN, Huang RX, He Q, Lee NP et al. Drug repositioning for esophageal squamous cell carcinoma. Front Genet 2022;13:991842. PMID: 36246638
  • Li X, Song D, Su S, He X et al. Critical role of guanylate binding protein 5 in tumor immune microenvironment and predictive value of immunotherapy response. Front Genet 2022;13:984615. PMID: 36246628
  • Wang W, Liang Q, Zhao J, Pan H et al. Low expression of the metabolism-related gene SLC25A21 predicts unfavourable prognosis in patients with acute myeloid leukaemia. Front Genet 2022;13:970316. PMID: 36246603
  • Yuan M, Yao L, Hu X, Jiang Y et al. Identification of effective diagnostic biomarker and immune cell infiltration characteristics in acute liver failure by integrating bioinformatics analysis and machine-learning strategies. Front Genet 2022;13:1004912. PMID: 36246593
  • Chen X, Wang K, Li D, Zhao M et al. Genetic and immune crosstalk between severe burns and blunt trauma: A study of transcriptomic data. Front Genet 2022;13:1038222. PMID: 36246590
  • Zhao Q, Yu Z, Zhang S, Shen XR et al. Metabolic modeling of single bronchoalveolar macrophages reveals regulators of hyperinflammation in COVID-19. iScience 2022 Nov 18;25(11):105319. PMID: 36246577
  • Shimizu H, Kodama M, Matsumoto M, Orba Y et al. LIGHTHOUSE illuminates therapeutics for a variety of diseases including COVID-19. iScience 2022 Nov 18;25(11):105314. PMID: 36246574
  • Mao X, Li Y, Yang R, Wei J et al. Single-Cell RNA-Sequencing Reveals the Active Involvement of Macrophage Polarizations in Pulmonary Hypertension. Dis Markers 2022;2022:5398157. PMID: 36246557
  • Li Y, Li X, Deng M, Ye C et al. Cancer-Associated Fibroblasts Hinder Lung Squamous Cell Carcinoma Oxidative Stress-Induced Apoptosis via METTL3 Mediated m(6)A Methylation of COL10A1. Oxid Med Cell Longev 2022;2022:4320809. PMID: 36246404
  • He S, He L, Yan F, Li J et al. Identification of hub genes associated with acute kidney injury induced by renal ischemia-reperfusion injury in mice. Front Physiol 2022;13:951855. PMID: 36246123
  • Jiang Y, Huang S, Zhu X, Cheng L et al. Artificial Intelligence Meets Whole Slide Images: Deep Learning Model Shapes an Immune-Hot Tumor and Guides Precision Therapy in Bladder Cancer. J Oncol 2022;2022:8213321. PMID: 36245985
  • Wang W, Wu Q, Mohyeddin A, Liu Y et al. Identification of the Key Genes Involved in the Tumorigenesis and Prognosis of Prostate Cancer. Comput Math Methods Med 2022;2022:5500416. PMID: 36245843
  • Guo Q, Wang P, Liu Q, Hao Y et al. CellTracer: a comprehensive database to dissect the causative multilevel interplay contributing to cell development trajectories. Nucleic Acids Res 2023 Jan 6;51(D1):D861-D869. PMID: 36243976
  • Feng W, Destain H, Smith JJ, Kratsios P et al. Maintenance of neurotransmitter identity by Hox proteins through a homeostatic mechanism. Nat Commun 2022 Oct 15;13(1):6097. PMID: 36243871
  • Sabato C, Noviello TMR, Covre A, Coral S et al. A novel microRNA signature for the detection of melanoma by liquid biopsy. J Transl Med 2022 Oct 15;20(1):469. PMID: 36243798
  • Liu Z, Zhang X, Xu M, Lei H et al. Loss of CASZ1 tumor suppressor linked to oncogenic subversion of neuroblastoma core regulatory circuitry. Cell Death Dis 2022 Oct 15;13(10):871. PMID: 36243768
  • Proaño-Pérez E, Serrano-Candelas E, García-Valverde A, Rosell J et al. The microphthalmia-associated transcription factor is involved in gastrointestinal stromal tumor growth. Cancer Gene Ther 2023 Feb;30(2):245-255. PMID: 36241703
  • Zhang W, Di L, Liu Z, Sun Q et al. TIMELESS is a key gene mediating thrombogenesis in COVID-19 and antiphospholipid syndrome. Sci Rep 2022 Oct 14;12(1):17248. PMID: 36241659
  • Zhou W, Wu WH, Si ZL, Liu HL et al. The gut microbe Bacteroides fragilis ameliorates renal fibrosis in mice. Nat Commun 2022 Oct 14;13(1):6081. PMID: 36241632
  • Kim YS, Ko B, Kim DJ, Tak J et al. Induction of the hepatic aryl hydrocarbon receptor by alcohol dysregulates autophagy and phospholipid metabolism via PPP2R2D. Nat Commun 2022 Oct 14;13(1):6080. PMID: 36241614
  • Radley A, Corujo-Simon E, Nichols J, Smith A et al. Entropy sorting of single-cell RNA sequencing data reveals the inner cell mass in the human pre-implantation embryo. Stem Cell Reports 2023 Jan 10;18(1):47-63. PMID: 36240776
  • Leong YC, Di Foggia V, Pramod H, Bitner-Glindzicz M et al. Molecular pathology of Usher 1B patient-derived retinal organoids at single cell resolution. Stem Cell Reports 2022 Nov 8;17(11):2421-2437. PMID: 36240775
  • Akkermans O, Delloye-Bourgeois C, Peregrina C, Carrasquero-Ordaz M et al. GPC3-Unc5 receptor complex structure and role in cell migration. Cell 2022 Oct 13;185(21):3931-3949.e26. PMID: 36240740
  • Wilmouth JJ Jr, Olabe J, Garcia-Garcia D, Lucas C et al. Sexually dimorphic activation of innate antitumor immunity prevents adrenocortical carcinoma development. Sci Adv 2022 Oct 14;8(41):eadd0422. PMID: 36240276
  • Dey S, Kaur H, Mazumder M, Brodsky E et al. Analysis of gene expression profiles to study malaria vaccine dose efficacy and immune response modulation. Genomics Inform 2022 Sep;20(3):e32. PMID: 36239109
  • Qian C, Wu D, Du J et al. RIPK3 modulates sarcoma through immune checkpoint HAVCR2. Oncol Lett 2022 Nov;24(5):381. PMID: 36238358
  • He L, Jin M, Jian D, Yang B et al. Identification of four immune subtypes in locally advanced rectal cancer treated with neoadjuvant chemotherapy for predicting the efficacy of subsequent immune checkpoint blockade. Front Immunol 2022;13:955187. PMID: 36238279
  • Shi S, Zhang Q, Qu C, Tang Y et al. Identification of pyroptosis-related immune signature and drugs for ischemic stroke. Front Genet 2022;13:909482. PMID: 36238162
  • Leng X, Yang J, Liu T, Zhao C et al. A bioinformatics framework to identify the biomarkers and potential drugs for the treatment of colorectal cancer. Front Genet 2022;13:1017539. PMID: 36238159
  • Ma Y, Yuan Q, He S, Mao X et al. Characterizing the prognostic and therapeutic value of necroptosis in sarcoma based on necroptosis subtypes. Front Genet 2022;13:980209. PMID: 36238158
  • Zeng J, Hua S, Liu J, Mungur R et al. Identification of core genes as potential biomarkers for predicting progression and prognosis in glioblastoma. Front Genet 2022;13:928407. PMID: 36238156
  • Long F, Tian L, Chai Z, Li J et al. Identification of stage-associated exosome miRNAs in colorectal cancer by improved robust and corroborative approach embedded miRNA-target network. Front Med (Lausanne) 2022;9:881788. PMID: 36237545
  • Yang K, Yang T, Yang T, Yuan Y et al. Unraveling tumor microenvironment heterogeneity in malignant pleural mesothelioma identifies biologically distinct immune subtypes enabling prognosis determination. Front Oncol 2022;12:995651. PMID: 36237331
  • Song J, Ni C, Dong X, Sheng C et al. bub1 as a potential oncogene and a prognostic biomarker for neuroblastoma. Front Oncol 2022;12:988415. PMID: 36237324
  • Yu X, Zhang Q, Zhang S, He Y et al. Single-cell sequencing and establishment of an 8-gene prognostic model for pancreatic cancer patients. Front Oncol 2022;12:1000447. PMID: 36237305
  • Li X, Li L, Zhou K, Zhang H et al. Glioma Shapes Blood-Brain Barrier Integrity and Remodels the Tumor Microenvironment: Links with Clinical Features and Prognosis. J Clin Med 2022 Oct 4;11(19). PMID: 36233730
  • Zhu H, Hu X, Feng S, Li Y et al. APOL4, a Novel Immune-Related Prognostic Biomarker for Glioma. J Clin Med 2022 Sep 29;11(19). PMID: 36233633
  • Arenas GA, Santander N, Krause BJ et al. Transcriptional and Epigenomic Markers of the Arterial-Venous and Micro/Macro-Vascular Endothelial Heterogeneity within the Umbilical-Placental Bed. Int J Mol Sci 2022 Oct 6;23(19). PMID: 36233172
  • Yasudome R, Seki N, Asai S, Goto Y et al. Molecular Pathogenesis of Colorectal Cancer: Impact of Oncogenic Targets Regulated by Tumor Suppressive miR-139-3p. Int J Mol Sci 2022 Oct 1;23(19). PMID: 36232922
  • Peng G, Tsukamoto S, Umehara Y, Kishi R et al. Experimental and Clinical Evidence Suggests That Treatment with Betacellulin Can Alleviate Th2-Type Cytokine-Mediated Impairment of Skin Barrier Function. Int J Mol Sci 2022 Sep 29;23(19). PMID: 36232814
  • Zekri Y, Guyot R, Flamant F et al. An Atlas of Thyroid Hormone Receptors' Target Genes in Mouse Tissues. Int J Mol Sci 2022 Sep 28;23(19). PMID: 36232747
  • Rengaraj D, Han JY et al. Female Germ Cell Development in Chickens and Humans: The Chicken Oocyte Enriched Genes Convergent and Divergent with the Human Oocyte. Int J Mol Sci 2022 Sep 27;23(19). PMID: 36232712
  • Yang C, Gu Y, Ge Z, Song C et al. Targeting EZH2 Promotes Chemosensitivity of BCL-2 Inhibitor through Suppressing PI3K and c-KIT Signaling in Acute Myeloid Leukemia. Int J Mol Sci 2022 Sep 27;23(19). PMID: 36232694
  • Barreto P, Koltun A, Nonato J, Yassitepe J et al. Metabolism and Signaling of Plant Mitochondria in Adaptation to Environmental Stresses. Int J Mol Sci 2022 Sep 23;23(19). PMID: 36232478
  • Vidal M, Fraga M, Llerena F, Vera A et al. Analysis of Tumor-Infiltrating T-Cell Transcriptomes Reveal a Unique Genetic Signature across Different Types of Cancer. Int J Mol Sci 2022 Sep 21;23(19). PMID: 36232369
  • Delangre E, Oppliger E, Berkcan S, Gjorgjieva M et al. S100 Proteins in Fatty Liver Disease and Hepatocellular Carcinoma. Int J Mol Sci 2022 Sep 20;23(19). PMID: 36232334
  • Deng X, Lee R, Lim SY, Zhong Z et al. Global Transcriptional and Epigenetic Reconfiguration during Chemical Reprogramming of Human Retinal Pigment Epithelial Cells into Photoreceptor-like Cells. Cells 2022 Oct 6;11(19). PMID: 36231108
  • Chen D, Yu W, Aitken L, Gunn-Moore F et al. Willin/FRMD6 Mediates Mitochondrial Dysfunction Relevant to Neuronal Aβ Toxicity. Cells 2022 Oct 6;11(19). PMID: 36231104
  • Ye S, Yang B, Zhang T, Wei W et al. Identification of an Immune-Related Prognostic Signature for Glioblastoma by Comprehensive Bioinformatics and Experimental Analyses. Cells 2022 Sep 26;11(19). PMID: 36230961
  • Tuomainen T, Naumenko N, Mutikainen M, Shakirzyanova A et al. PGC-1α4 Interacts with REST to Upregulate Neuronal Genes and Augment Energy Consumption in Developing Cardiomyocytes. Cells 2022 Sep 20;11(19). PMID: 36230906
  • Zhang H, Zhang D, Hu X et al. A Potential Fatty Acid Metabolism-Related Gene Signature for Prognosis in Clear Cell Renal Cell Carcinoma. Cancers (Basel) 2022 Oct 9;14(19). PMID: 36230866
  • Lu H, Zhu M, Qu L, Shao H et al. Oncogenic Role of HMGB1 as An Alarming in Robust Prediction of Immunotherapy Response in Colorectal Cancer. Cancers (Basel) 2022 Oct 5;14(19). PMID: 36230798
  • Xing J, Chen W, Chen K, Zhu S et al. TFAP2C Knockdown Sensitizes Bladder Cancer Cells to Cisplatin Treatment via Regulation of EGFR and NF-κB. Cancers (Basel) 2022 Sep 30;14(19). PMID: 36230734
  • Meng Q, Wu F, Li G, Xu F et al. Exploring Precise Medication Strategies for OSCC Based on Single-Cell Transcriptome Analysis from a Dynamic Perspective. Cancers (Basel) 2022 Sep 30;14(19). PMID: 36230722
  • Lee S, Park YS, Kim JH, Lim AR et al. Identification of Biomarkers Associated with Liver Metastasis Progression from Colorectal Cancer Using Exosomal RNA Profiling. Cancers (Basel) 2022 Sep 28;14(19). PMID: 36230645
  • Parappilly MS, Chin Y, Whalen RM, Anderson AN et al. Circulating Neoplastic-Immune Hybrid Cells Predict Metastatic Progression in Uveal Melanoma. Cancers (Basel) 2022 Sep 23;14(19). PMID: 36230539
  • Shen Y, Nussbaum YI, Manjunath Y, Hummel JJ et al. TBX21 Methylation as a Potential Regulator of Immune Suppression in CMS1 Subtype Colorectal Cancer. Cancers (Basel) 2022 Sep 22;14(19). PMID: 36230517
  • Mortazavi A, Ghaderi-Zefrehei M, Muhaghegh Dolatabady M, Golshan M et al. An Integrated Bioinformatics Approach to Identify Network-Derived Hub Genes in Starving Zebrafish. Animals (Basel) 2022 Oct 10;12(19). PMID: 36230465
  • Diniz WJS, Banerjee P, Rodning SP, Dyce PW et al. Machine Learning-Based Co-Expression Network Analysis Unravels Potential Fertility-Related Genes in Beef Cows. Animals (Basel) 2022 Oct 9;12(19). PMID: 36230456
  • Wang S, Chen L, Liu W et al. Matrix stiffness-dependent STEAP3 coordinated with PD-L2 identify tumor responding to sorafenib treatment in hepatocellular carcinoma. Cancer Cell Int 2022 Oct 13;22(1):318. PMID: 36229881
  • Liu H, Yuan M, Mitra R, Zhou X et al. CTpathway: a CrossTalk-based pathway enrichment analysis method for cancer research. Genome Med 2022 Oct 13;14(1):118. PMID: 36229842
  • Hill MA, Gammie SC et al. Alzheimer's disease large-scale gene expression portrait identifies exercise as the top theoretical treatment. Sci Rep 2022 Oct 13;12(1):17189. PMID: 36229643
  • Hazra S, Chaudhuri AG, Tiwary BK, Chakrabarti N et al. Integrated network-based multiple computational analyses for identification of co-expressed candidate genes associated with neurological manifestations of COVID-19. Sci Rep 2022 Oct 13;12(1):17141. PMID: 36229517
  • Shen H, Huang X, Zhao Y, Wu D et al. The Hippo pathway links adipocyte plasticity to adipose tissue fibrosis. Nat Commun 2022 Oct 13;13(1):6030. PMID: 36229481
  • Chiocchio A, Libro P, Martino G, Bisconti R et al. Brain de novo transcriptome assembly of a toad species showing polymorphic anti-predatory behavior. Sci Data 2022 Oct 13;9(1):619. PMID: 36229462
  • Vilallongue N, Schaeffer J, Hesse AM, Delpech C et al. Guidance landscapes unveiled by quantitative proteomics to control reinnervation in adult visual system. Nat Commun 2022 Oct 13;13(1):6040. PMID: 36229455
  • Hör J, Jung J, Ðurica-Mitić S, Barquist L et al. INRI-seq enables global cell-free analysis of translation initiation and off-target effects of antisense inhibitors. Nucleic Acids Res 2022 Dec 9;50(22):e128. PMID: 36229039
  • Hao Y, Xu X, Wang Y, Jin F et al. Comprehensive analysis of immune-related biomarkers and pathways in intracerebral hemorrhage using weighted gene co-expression network analysis and competing endogenous ribonucleic acid. Front Mol Neurosci 2022;15:955818. PMID: 36226317
  • Li J, Wu F, Li C, Sun S et al. The cuproptosis-related signature predicts prognosis and indicates immune microenvironment in breast cancer. Front Genet 2022;13:977322. PMID: 36226193
  • Wang F, Wang X, Liu L, Deng S et al. Comprehensive analysis of PTPN gene family revealing PTPN7 as a novel biomarker for immuno-hot tumors in breast cancer. Front Genet 2022;13:981603. PMID: 36226189
  • Bai F, Yu K, Yang Y, Zhang Y et al. Identification and validation of P4HB as a novel autophagy-related biomarker in diabetic nephropathy. Front Genet 2022;13:965816. PMID: 36226178
  • Ji D, Yang Y, Zhou F, Li C et al. A nine-consensus-prognostic -gene-based prognostic signature, recognizing the dichotomized subgroups of gastric cancer patients with different clinical outcomes and therapeutic strategies. Front Genet 2022;13:909175. PMID: 36226177
  • Gao Y, Hou Q, Guo R, Ying J et al. Effect of Sun exposure-induced ferroptosis mechanisms on pathology and potential biological processes of primary melanoma by microarray data analysis. Front Genet 2022;13:998792. PMID: 36226170
  • He CM, Zhang XD, Zhu SX, Zheng JJ et al. Integrative pan-cancer analysis and clinical characterization of the N7-methylguanosine (m7G) RNA modification regulators in human cancers. Front Genet 2022;13:998147. PMID: 36226166
  • Silvestri R, Ipsiroglu OS et al. Behavioral sleep medicine-The need for harmonization of clinical best practice outcome measures in children and adolescents with intellectual or developmental disabilities and restless sleep. Front Psychiatry 2022;13:1003019. PMID: 36226108
  • Schagdarsurengin U, Breiding V, Loose M, Wagenlehner F et al. Interleukin-1 receptor associated kinase 1 (IRAK1) is epigenetically activated in luminal epithelial cells in prostate cancer. Front Oncol 2022;12:991368. PMID: 36226067
  • Hwang N, Huh Y, Bu S, Seo KJ et al. Single-cell sequencing of PBMC characterizes the altered transcriptomic landscape of classical monocytes in BNT162b2-induced myocarditis. Front Immunol 2022;13:979188. PMID: 36225942
  • Yang J, Zhang J, Na S, Wang Z et al. Integration of single-cell RNA sequencing and bulk RNA sequencing to reveal an immunogenic cell death-related 5-gene panel as a prognostic model for osteosarcoma. Front Immunol 2022;13:994034. PMID: 36225939
  • Wang T, Liu Y, Li Q, Luo Y et al. Cuproptosis-related gene FDX1 expression correlates with the prognosis and tumor immune microenvironment in clear cell renal cell carcinoma. Front Immunol 2022;13:999823. PMID: 36225932
  • Li Q, Chen W, Li Q, Mao J et al. A novel neutrophil extracellular trap signature to predict prognosis and immunotherapy response in head and neck squamous cell carcinoma. Front Immunol 2022;13:1019967. PMID: 36225931
  • Xiao F, Shen J, Zhou L, Fang Z et al. ZNF395 facilitates macrophage polarization and impacts the prognosis of glioma. Am J Cancer Res 2022;12(9):4312-4325. PMID: 36225626
  • Mao Y, Xu J, Xu X, Qiu J et al. Comprehensive analysis for cellular senescence-related immunogenic characteristics and immunotherapy prediction of acute myeloid leukemia. Front Pharmacol 2022;13:987398. PMID: 36225590
  • Cheng X, Li J, Feng L, Feng S et al. The role of hypoxia-related genes in TACE-refractory hepatocellular carcinoma: Exploration of prognosis, immunological characteristics and drug resistance based on onco-multi-OMICS approach. Front Pharmacol 2022;13:1011033. PMID: 36225568
  • Gou Q, Liu Z, Xie Y, Deng Y et al. Systematic evaluation of tumor microenvironment and construction of a machine learning model to predict prognosis and immunotherapy efficacy in triple-negative breast cancer based on data mining and sequencing validation. Front Pharmacol 2022;13:995555. PMID: 36225561
  • Wang Y, Tai YL, Way G, Zeng J et al. RNA binding protein HuR protects against NAFLD by suppressing long noncoding RNA H19 expression. Cell Biosci 2022 Oct 12;12(1):172. PMID: 36224648
  • Di Benedetto C, Oh J, Choudhery Z, Shi W et al. NSMCE2, a novel super-enhancer-regulated gene, is linked to poor prognosis and therapy resistance in breast cancer. BMC Cancer 2022 Oct 12;22(1):1056. PMID: 36224576
  • Urabe M, Matsusaka K, Ushiku T, Fukuyo M et al. Adenocarcinoma of the stomach and esophagogastric junction with low DNA methylation show poor prognoses. Gastric Cancer 2023 Jan;26(1):95-107. PMID: 36224483
  • Ma L, Li G, Yang T, Zhang L et al. An inhibitor of BRD4, GNE987, inhibits the growth of glioblastoma cells by targeting C-Myc and S100A16. Cancer Chemother Pharmacol 2022 Dec;90(6):431-444. PMID: 36224471
  • Chen C, Li Y, Miao P, Xu Y et al. Tumor immune cell infiltration score based model predicts prognosis in multiple myeloma. Sci Rep 2022 Oct 12;12(1):17082. PMID: 36224246
  • Lal JC, Mao C, Zhou Y, Gore-Panter SR et al. Transcriptomics-based network medicine approach identifies metformin as a repurposable drug for atrial fibrillation. Cell Rep Med 2022 Oct 18;3(10):100749. PMID: 36223777
  • Mansour F, Hinze C, Telugu NS, Kresoja J et al. The centrosomal protein 83 (CEP83) regulates human pluripotent stem cell differentiation toward the kidney lineage. Elife 2022 Oct 12;11. PMID: 36222666
  • Zhang Y, Liang Y, Wang Y, Ye F et al. A novel ferroptosis‑related gene signature for overall survival prediction and immune infiltration in patients with breast cancer. Int J Oncol 2022 Dec;61(6). PMID: 36222299
  • Yang HS, Cai HY, Shan SC, Chen TF et al. Methylation of N6 adenosine-related long noncoding RNA: effects on prognosis and treatment in 'driver-gene-negative' lung adenocarcinoma. Mol Oncol 2023 Feb;17(2):365-377. PMID: 36221911
  • Heumos S, Dehn S, Bräutigam K, Codrea MC et al. Multiomics surface receptor profiling of the NCI-60 tumor cell panel uncovers novel theranostics for cancer immunotherapy. Cancer Cell Int 2022 Oct 11;22(1):311. PMID: 36221114
  • Huuhtanen J, Chen L, Jokinen E, Kasanen H et al. Evolution and modulation of antigen-specific T cell responses in melanoma patients. Nat Commun 2022 Oct 11;13(1):5988. PMID: 36220826
  • Zhang H, Lin Y, Zhuang M, Zhu L et al. Screening and identification of CNIH4 gene associated with cell proliferation in gastric cancer based on a large-scale CRISPR-Cas9 screening database DepMap. Gene 2023 Jan 20;850:146961. PMID: 36220450
  • Zheng Z, Hou F, He G, Jiang F et al. Carvedilol Reduces the Neuronal Apoptosis after Ischemic Stroke by Modulating Activator of Transcription 3 Expression in vitro. Dev Neurosci 2023;45(2):94-104. PMID: 36219954
  • Hirata M, Ichiyanagi T, Katoh H, Hashimoto T et al. Sequence divergence and retrotransposon insertion underlie interspecific epigenetic differences in primates. Mol Biol Evol 2022 Oct 11;39(10). PMID: 36219870
  • Liu T, Xiao W, Chen M, Mao R et al. Aberrant amino acid metabolism promotes neurovascular reactivity in rosacea. JCI Insight 2022 Nov 22;7(22). PMID: 36219476
  • Loevenich LP, Tschurtschenthaler M, Rokavec M, Silva MG et al. SMAD4 Loss Induces c-MYC-Mediated NLE1 Upregulation to Support Protein Biosynthesis, Colorectal Cancer Growth, and Metastasis. Cancer Res 2022 Dec 16;82(24):4604-4623. PMID: 36219392
  • Ghosh J, Schultz BM, Chan J, Wultsch C et al. Epigenome-Wide Study Identifies Epigenetic Outliers in Normal Mucosa of Patients with Colorectal Cancer. Cancer Prev Res (Phila) 2022 Nov 1;15(11):755-766. PMID: 36219239
  • Qin R, Mahal LK, Bojar D et al. Deep learning explains the biology of branched glycans from single-cell sequencing data. iScience 2022 Oct 21;25(10):105163. PMID: 36217547
  • Zhou Y, Liu Y, Gupta S, Paramo MI et al. A comprehensive SARS-CoV-2-human protein-protein interactome reveals COVID-19 pathobiology and potential host therapeutic targets. Nat Biotechnol 2023 Jan;41(1):128-139. PMID: 36217030
  • Zuo C, Zhang Y, Cao C, Feng J et al. Elucidating tumor heterogeneity from spatially resolved transcriptomics data by multi-view graph collaborative learning. Nat Commun 2022 Oct 10;13(1):5962. PMID: 36216831
  • Richman S, Lyman C, Nesterova A, Yuryev A et al. Old drugs, new tricks: leveraging known compounds to disrupt coronavirus-induced cytokine storm. NPJ Syst Biol Appl 2022 Oct 10;8(1):38. PMID: 36216820
  • Zhou YJ, Lu XF, Chen H, Wang XY et al. Single-cell Transcriptomics Reveals Early Molecular and Immune Alterations Underlying the Serrated Neoplasia Pathway Toward Colorectal Cancer. Cell Mol Gastroenterol Hepatol 2023;15(2):393-424. PMID: 36216310
  • Mori KM, McElroy JP, Weng DY, Chung S et al. Lung mitochondrial DNA copy number, inflammatory biomarkers, gene transcription and gene methylation in vapers and smokers. EBioMedicine 2022 Nov;85:104301. PMID: 36215783
  • Zeng W, Liu Q, Yin Q, Jiang R et al. HiChIPdb: a comprehensive database of HiChIP regulatory interactions. Nucleic Acids Res 2023 Jan 6;51(D1):D159-D166. PMID: 36215037
  • Merour E, Hmidan H, Marie C, Helou PH et al. Transient regulation of focal adhesion via Tensin3 is required for nascent oligodendrocyte differentiation. Elife 2022 Oct 10;11. PMID: 36214451
  • Gao F, Li C, Smith SM, Peinado N et al. Decoding the IGF1 signaling gene regulatory network behind alveologenesis from a mouse model of bronchopulmonary dysplasia. Elife 2022 Oct 10;11. PMID: 36214448
  • Xia Z, Zhao W, Liu J, Zhang J et al. A Three-Gene Signature for Predicting the Prognosis of Patients Treated with Transarterial Chemoembolization (TACE) and Identification of PD-184352 as a Potential Drug to Reverse Nonresponse to TACE. J Oncol 2022;2022:2704862. PMID: 36213835
  • Li Y, Li Y, Xiang B, Tian X et al. IL-2 Combined with IL-15 Enhanced the Expression of NKG2D Receptor on Patient Autologous NK Cells to Inhibit Wilms' Tumor via MAPK Signaling Pathway. J Oncol 2022;2022:4544773. PMID: 36213822
  • Chen B, Gao C, Wang H, Sun J et al. Molecular Analysis of Prognosis and Immune Infiltration of Ovarian Cancer Based on Homeobox D Genes. Comput Math Methods Med 2022;2022:3268386. PMID: 36213580
  • Zhao Y, Yan J, Zhu Y, Han Z et al. A novel prognostic 6-gene signature for osteoporosis. Front Endocrinol (Lausanne) 2022;13:968397. PMID: 36213260
  • Ye Y, Jiang H, Wu Y, Wang G et al. Role of ARRB1 in prognosis and immunotherapy: A Pan-Cancer analysis. Front Mol Biosci 2022;9:1001225. PMID: 36213111
  • Zhou S, Li M, Ostrow D, Ruble D et al. Potential methylation-regulated genes and pathways in hepatocellular neoplasm, not otherwise specified. Front Oncol 2022;12:952325. PMID: 36212481
  • Chen T, Zhang J, Wang Y, Zhou H et al. Identification of Survival-Related Genes in Acute Myeloid Leukemia (AML) Based on Cytogenetically Normal AML Samples Using Weighted Gene Coexpression Network Analysis. Dis Markers 2022;2022:5423694. PMID: 36212177
  • Caetano MMM, Moreira GA, da Silva MR, Guimarães GR et al. Impaired expression of serine/arginine protein kinase 2 (SRPK2) affects melanoma progression. Front Genet 2022;13:979735. PMID: 36212152
  • Tang X, Tang Q, Yang X, Xiao ZA et al. FN1 promotes prognosis and radioresistance in head and neck squamous cell carcinoma: From radioresistant HNSCC cell line to integrated bioinformatics methods. Front Genet 2022;13:1017762. PMID: 36212151
  • Han M, Chen Z, He P, Li Z et al. YgiM may act as a trigger in the sepsis caused by Klebsiella pneumoniae through the membrane-associated ceRNA network. Front Genet 2022;13:973145. PMID: 36212144
  • Fu W, Ma G et al. Significance of immunogenic cell death-related genes in prognosis prediction and immune microenvironment landscape of patients with cutaneous melanoma. Front Genet 2022;13:988821. PMID: 36212143
  • Li L, Sun B, Sun Y et al. Identification of functional TF-miRNA-hub gene regulatory network associated with ovarian endometriosis. Front Genet 2022;13:998417. PMID: 36212136
  • Huang S, Chen S, Zhang D, Gao J et al. Enhancer-associated regulatory network and gene signature based on transcriptome and methylation data to predict the survival of patients with lung adenocarcinoma. Front Genet 2022;13. PMID: 36212131
  • Wang W, Zhang J, Wang Y, Xu Y et al. Non-coding ribonucleic acid-mediated CAMSAP1 upregulation leads to poor prognosis with suppressed immune infiltration in liver hepatocellular carcinoma. Front Genet 2022;13:916847. PMID: 36212130
  • Wu J, Zhang D, Wu J, Zhang S et al. Construction of ceRNA network and identification of hub genes in aniridia-associated keratopathy using bioinformatics analysis. Front Genet 2022;13:997581. PMID: 36212129
  • Liu X, Qin J, Nie J, Sun H et al. Reclassifying TNM stage I/II colorectal cancer into two subgroups with different overall survival, tumor microenvironment, and response to immune checkpoint blockade treatment. Front Genet 2022;13:948920. PMID: 36212126
  • Ma C, Wu X, Zhang X, Liu X et al. Heme oxygenase-1 modulates ferroptosis by fine-tuning levels of intracellular iron and reactive oxygen species of macrophages in response to Bacillus Calmette-Guerin infection. Front Cell Infect Microbiol 2022;12:1004148. PMID: 36211962
  • Huang Y, Qiu L, Liang X, Zhao J et al. Identifying a 6-Gene Prognostic Signature for Lung Adenocarcinoma Based on Copy Number Variation and Gene Expression Data. Oxid Med Cell Longev 2022;2022:6962163. PMID: 36211815
  • Ren J, Yang J, Na S, Wang Y et al. Comprehensive characterisation of immunogenic cell death in melanoma revealing the association with prognosis and tumor immune microenvironment. Front Immunol 2022;13:998653. PMID: 36211436
  • Fang H, Sun Z, Chen Z, Chen A et al. Bioinformatics and systems-biology analysis to determine the effects of Coronavirus disease 2019 on patients with allergic asthma. Front Immunol 2022;13:988479. PMID: 36211429
  • Tian XM, Xiang B, Yu YH, Li Q et al. A novel cuproptosis-related subtypes and gene signature associates with immunophenotype and predicts prognosis accurately in neuroblastoma. Front Immunol 2022;13:999849. PMID: 36211401
  • Guan Q, Liu W, Mu K, Hu Q et al. Single-cell RNA sequencing of CSF reveals neuroprotective RAC1(+) NK cells in Parkinson's disease. Front Immunol 2022;13:992505. PMID: 36211372
  • Li E, Yan R, Yan K, Zhang R et al. Single-cell RNA sequencing reveals the role of immune-related autophagy in spinal cord injury in rats. Front Immunol 2022;13:987344. PMID: 36211348
  • Fu Y, Guo Z, Wang Y, Zhang H et al. Single-nucleus RNA sequencing reveals the shared mechanisms inducing cognitive impairment between COVID-19 and Alzheimer's disease. Front Immunol 2022;13:967356. PMID: 36211330
  • Trapp A, Kerepesi C, Gladyshev VN et al. Profiling epigenetic age in single cells. Nat Aging 2021 Dec;1(12):1189-1201. PMID: 36211119
  • Luo Z, Zhao T, Yi M, Wang T et al. The exploration of the potential mechanism of oxymatrine-mediated antipruritic effect based on network pharmacology and weighted gene co-expression network analysis. Front Pharmacol 2022;13:946602. PMID: 36210824
  • Gallinat A, Mendieta G, Vilahur G, Padró T et al. DJ-1 administration exerts cardioprotection in a mouse model of acute myocardial infarction. Front Pharmacol 2022;13:1002755. PMID: 36210822
  • Li Y, Yan J, Zhao Q, Zhang Y et al. ATF3 promotes ferroptosis in sorafenib-induced cardiotoxicity by suppressing Slc7a11 expression. Front Pharmacol 2022;13:904314. PMID: 36210815
  • Lin Z, Sui X, Jiao W, Chen C et al. Mechanism investigation and experiment validation of capsaicin on uterine corpus endometrial carcinoma. Front Pharmacol 2022;13:953874. PMID: 36210802
  • Tu J, Zhang H, Yang T, Liu Y et al. Aging-associated REGγ proteasome decline predisposes to tauopathy. J Biol Chem 2022 Nov;298(11):102571. PMID: 36209822
  • Cangelosi D, Brignole C, Bensa V, Tamma R et al. Nucleolin expression has prognostic value in neuroblastoma patients. EBioMedicine 2022 Nov;85:104300. PMID: 36209521
  • Jiao JW, Zhan XH, Wang JJ, He LX et al. LOXL2-dependent deacetylation of aldolase A induces metabolic reprogramming and tumor progression. Redox Biol 2022 Oct 3;57:102496. PMID: 36209516
  • Ji J, Anwar M, Petretto E, Emanueli C et al. PPMS: A framework to Profile Primary MicroRNAs from Single-cell RNA-sequencing datasets. Brief Bioinform 2022 Nov 19;23(6). PMID: 36209413
  • Shen R, Li P, Zhang B, Feng L et al. Decoding the colorectal cancer ecosystem emphasizes the cooperative role of cancer cells, TAMs and CAFsin tumor progression. J Transl Med 2022 Oct 8;20(1):462. PMID: 36209225
  • Huang Q, Wu X, Wang Z, Chen X et al. The primordial differentiation of tumor-specific memory CD8(+) T cells as bona fide responders to PD-1/PD-L1 blockade in draining lymph nodes. Cell 2022 Oct 27;185(22):4049-4066.e25. PMID: 36208623
  • Bai B, Schiffthaler B, van der Horst S, Willems L et al. SeedTransNet: a directional translational network revealing regulatory patterns during seed maturation and germination. J Exp Bot 2023 Apr 9;74(7):2416-2432. PMID: 36208446
  • Conte F, Paci P et al. Alzheimer's disease: insights from a network medicine perspective. Sci Rep 2022 Oct 7;12(1):16846. PMID: 36207441
  • Chakravarthy A, Reddin I, Henderson S, Dong C et al. Integrated analysis of cervical squamous cell carcinoma cohorts from three continents reveals conserved subtypes of prognostic significance. Nat Commun 2022 Oct 7;13(1):5818. PMID: 36207323
  • Marchal C, Singh N, Batz Z, Advani J et al. High-resolution genome topology of human retina uncovers super enhancer-promoter interactions at tissue-specific and multifactorial disease loci. Nat Commun 2022 Oct 7;13(1):5827. PMID: 36207300
  • Ni C, Lou X, Yao X, Wang L et al. ZIP1(+) fibroblasts protect lung cancer against chemotherapy via connexin-43 mediated intercellular Zn(2+) transfer. Nat Commun 2022 Oct 7;13(1):5919. PMID: 36207295
  • Han Y, Tan L, Zhou T, Yang L et al. A human iPSC-array-based GWAS identifies a virus susceptibility locus in the NDUFA4 gene and functional variants. Cell Stem Cell 2022 Oct 6;29(10):1475-1490.e6. PMID: 36206731
  • Ferrari S, Jacob A, Cesana D, Laugel M et al. Choice of template delivery mitigates the genotoxic risk and adverse impact of editing in human hematopoietic stem cells. Cell Stem Cell 2022 Oct 6;29(10):1428-1444.e9. PMID: 36206730
  • Haas-Neil S, Dvorkin-Gheva A, Forsythe P et al. Severe, but not moderate asthmatics share blood transcriptomic changes with post-traumatic stress disorder and depression. PLoS One 2022;17(10):e0275864. PMID: 36206293
  • Koeck RM, Busato F, Tost J, Zandstra H et al. At age 9, the methylome of assisted reproductive technology children that underwent embryo culture in different media is not significantly different on a genome-wide scale. Hum Reprod 2022 Oct 31;37(11):2709-2721. PMID: 36206092
  • Tang M, Chen J, Zeng T, Ye DM et al. Systemic analysis of the DNA replication regulator origin recognition complex in lung adenocarcinomas identifies prognostic and expression significance. Cancer Med 2023 Feb;12(4):5035-5054. PMID: 36205357
  • Hu L, Wu X, Chen D, Cao Z et al. The hypoxia-related signature predicts prognosis, pyroptosis and drug sensitivity of osteosarcoma. Front Cell Dev Biol 2022;10:814722. PMID: 36204682
  • Li G, Wang Z, Chen D, Yin J et al. Comprehensive analysis of a TPX2-related TRHDE-AS1/PKIA ceRNA network involving prognostic signatures in Hepatitis B virus-infected hepatocellular carcinoma. Front Cell Infect Microbiol 2022;12:1025900. PMID: 36204642
  • Heuschkel MA, Babler A, Heyn J, van der Vorst EPC et al. Distinct role of mitochondrial function and protein kinase C in intimal and medial calcification in vitro. Front Cardiovasc Med 2022;9:959457. PMID: 36204585
  • Li J, Sun G, Ma H, Wu X et al. Identification of immune-related hub genes and miRNA-mRNA pairs involved in immune infiltration in human septic cardiomyopathy by bioinformatics analysis. Front Cardiovasc Med 2022;9:971543. PMID: 36204577
  • Morales-Vicente DA, Zhao L, Silveira GO, Tahira AC et al. Single-cell RNA-seq analyses show that long non-coding RNAs are conspicuously expressed in Schistosoma mansoni gamete and tegument progenitor cell populations. Front Genet 2022;13:924877. PMID: 36204320
  • Liu WP, Li P, Zhan X, Qu LH et al. Identification of molecular subtypes of coronary artery disease based on ferroptosis- and necroptosis-related genes. Front Genet 2022;13:870222. PMID: 36204316
  • Hong GH, Guan Q, Peng H, Luo XH et al. Identification and validation of a T-cell-related MIR600HG/hsa-mir-21-5p competing endogenous RNA network in tuberculosis activation based on integrated bioinformatics approaches. Front Genet 2022;13:979213. PMID: 36204312
  • Alam MS, Sultana A, Sun H, Wu J et al. Bioinformatics and network-based screening and discovery of potential molecular targets and small molecular drugs for breast cancer. Front Pharmacol 2022;13:942126. PMID: 36204232
  • Zhao X, Cui L, Zhang Y, Guo C et al. Screening for Potential Therapeutic Agents for Non-Small Cell Lung Cancer by Targeting Ferroptosis. Front Mol Biosci 2022;9:917602. PMID: 36203872
  • Hu D, Zhou Z, Wang J, Zhu K et al. Screening of ferroptosis-related genes with prognostic effect in colorectal cancer by bioinformatic analysis. Front Mol Biosci 2022;9:979854. PMID: 36203871
  • Zhao K, Zeng L, Cai Z, Liu M et al. RNA sequencing-based identification of the regulatory mechanism of microRNAs, transcription factors, and corresponding target genes involved in vascular dementia. Front Neurosci 2022;16:917489. PMID: 36203804
  • Jiang Y, Jiang D, Costabel U, Dai H et al. A transcriptomics-based meta-analysis identifies a cross-tissue signature for sarcoidosis. Front Med (Lausanne) 2022;9:960266. PMID: 36203777
  • Kyi P, Hendee K, Hunyenyiwa T, Matus K et al. Endothelial senescence mediates hypoxia-induced vascular remodeling by modulating PDGFB expression. Front Med (Lausanne) 2022;9:908639. PMID: 36203755
  • Wang YH, Tsai CH, Liu SC, Chen HT et al. miR-150-5p and XIST interaction controls monocyte adherence: Implications for osteoarthritis therapy. Front Immunol 2022;13:1004334. PMID: 36203618
  • Xu L, Yang Z, Zhao Q, Feng H et al. Effect of FOXP2 transcription factor on immune infiltration of thyroid cancer and its potential clinical value. Front Immunol 2022;13:982812. PMID: 36203616
  • Gong T, Liu Y, Tian Z, Zhang M et al. Identification of immune-related endoplasmic reticulum stress genes in sepsis using bioinformatics and machine learning. Front Immunol 2022;13:995974. PMID: 36203606
  • Jin L, Mei W, Liu X, Sun X et al. Identification of cuproptosis -related subtypes, the development of a prognosis model, and characterization of tumor microenvironment infiltration in prostate cancer. Front Immunol 2022;13:974034. PMID: 36203594
  • Davies J, Sirvent S, Vallejo AF, Clayton K et al. Transcriptional programming of immunoregulatory responses in human Langerhans cells. Front Immunol 2022;13:892254. PMID: 36203560
  • Lin J, Luo B, Yu X, Yang Z et al. Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma. Front Oncol 2022;12:959273. PMID: 36203457
  • Kumari P, Kumar S, Sethy M, Bhue S et al. Identification of therapeutically potential targets and their ligands for the treatment of OSCC. Front Oncol 2022;12:910494. PMID: 36203433
  • Rodríguez-Quiroz R, Valdebenito-Maturana B et al. SoloTE for improved analysis of transposable elements in single-cell RNA-Seq data using locus-specific expression. Commun Biol 2022 Oct 6;5(1):1063. PMID: 36202992
  • Wang F, Su Q, Li C et al. Identidication of novel biomarkers in non-small cell lung cancer using machine learning. Sci Rep 2022 Oct 6;12(1):16693. PMID: 36202977
  • Ganuza M, Hall T, Myers J, Nevitt C et al. Murine foetal liver supports limited detectable expansion of life-long haematopoietic progenitors. Nat Cell Biol 2022 Oct;24(10):1475-1486. PMID: 36202972
  • Wang C, Long Q, Fu Q, Xu Q et al. Targeting epiregulin in the treatment-damaged tumor microenvironment restrains therapeutic resistance. Oncogene 2022 Nov;41(45):4941-4959. PMID: 36202915
  • Ratiu JJ, Barclay WE, Lin E, Wang Q et al. Loss of Zfp335 triggers cGAS/STING-dependent apoptosis of post-β selection thymocytes. Nat Commun 2022 Oct 6;13(1):5901. PMID: 36202870
  • Quéméner AM, Bachelot L, Aubry M, Avner S et al. Non-canonical miRNA-RNA base-pairing impedes tumor suppressor activity of miR-16. Life Sci Alliance 2022 Oct 6;5(12). PMID: 36202613
  • Locard-Paulet M, Palasca O, Jensen LJ et al. Identifying the genes impacted by cell proliferation in proteomics and transcriptomics studies. PLoS Comput Biol 2022 Oct;18(10):e1010604. PMID: 36201535
  • Deng P, Wang Z, Chen J, Liu S et al. RAD21 amplification epigenetically suppresses interferon signaling to promote immune evasion in ovarian cancer. J Clin Invest 2022 Nov 15;132(22). PMID: 36201246
  • Murphy MW, Gearhart MD, Wheeler A, Bardwell VJ et al. Genomics of sexual cell fate transdifferentiation in the mouse gonad. G3 (Bethesda) 2022 Dec 1;12(12). PMID: 36200842
  • Zheng M, Okawa S, Bravo M, Chen F et al. ChemPert: mapping between chemical perturbation and transcriptional response for non-cancer cells. Nucleic Acids Res 2023 Jan 6;51(D1):D877-D889. PMID: 36200827
  • Lv W, Jiang W, Luo H, Tong Q et al. Long noncoding RNA lncMREF promotes myogenic differentiation and muscle regeneration by interacting with the Smarca5/p300 complex. Nucleic Acids Res 2022 Oct 14;50(18):10733-10755. PMID: 36200826
  • Amahong K, Zhang W, Zhou Y, Zhang S et al. CovInter: interaction data between coronavirus RNAs and host proteins. Nucleic Acids Res 2023 Jan 6;51(D1):D546-D556. PMID: 36200814
  • Zhao C, Ma B, Yang ZY, Li O et al. Inhibition of XPO1 impairs cholangiocarcinoma cell proliferation by triggering p53 intranuclear accumulation. Cancer Med 2023 Mar;12(5):5751-5763. PMID: 36200270
  • Xu J, Chen K, Wei Z, Wu Z et al. Constructing and Validating a Pyroptosis-Related Genes Prognostic Signature for Stomach Adenocarcinoma and Immune Infiltration: Potential Biomarkers for Predicting the Overall Survival. J Oncol 2022;2022:3102743. PMID: 36199800
  • Chen Y, Qian H, He X, Zhang J et al. Screening of the Key Genes for the Progression of Liver Cirrhosis to Hepatocellular Carcinoma Based on Bioinformatics. J Oncol 2022;2022:2515513. PMID: 36199789
  • Xu W, Sun T, Wang J, Li H et al. LMO3 downregulation in PCa: A prospective biomarker associated with immune infiltration. Front Genet 2022;13:945151. PMID: 36199576
  • Durmaz A, Scott JG et al. Stability of scRNA-Seq Analysis Workflows is Susceptible to Preprocessing and is Mitigated by Regularized or Supervised Approaches. Evol Bioinform Online 2022;18:11769343221123050. PMID: 36199555
  • Sun Y, Zhao J et al. Transcription Elongation Factor A (SII)-Like (TCEAL) Gene Family Member-TCEAL2: A Novel Prognostic Marker in Pan-Cancer. Cancer Inform 2022;21:11769351221126285. PMID: 36199541
  • Ding L, Ning S, Hu W, Xue Y et al. Distinctive Metabolism-Associated Gene Clusters That Are Also Prognostic in Intrahepatic Cholangiocarcinoma and Hepatocellular Carcinoma. Oxid Med Cell Longev 2022;2022:6595989. PMID: 36199423
  • Liang G, Li J, Pu S, He Z et al. Screening of Sepsis Biomarkers Based on Bioinformatics Data Analysis. J Healthc Eng 2022;2022:6788569. PMID: 36199375
  • Cai Z, Hu W, Wu R, Zheng S et al. Bioinformatic analyses of hydroxylated polybrominated diphenyl ethers toxicities on impairment of adrenocortical secretory function. Environ Health Prev Med 2022;27:38. PMID: 36198577
  • Wang Y, Karki R, Mall R, Sharma BR et al. Molecular mechanism of RIPK1 and caspase-8 in homeostatic type I interferon production and regulation. Cell Rep 2022 Oct 4;41(1):111434. PMID: 36198273
  • Shrestha S, Erikson G, Lyon J, Spigelman AF et al. Aging compromises human islet beta cell function and identity by decreasing transcription factor activity and inducing ER stress. Sci Adv 2022 Oct 7;8(40):eabo3932. PMID: 36197983
  • Li L, Zhou A, Wei Y, Liu F et al. Critical role of lncEPAT in coupling dysregulated EGFR pathway and histone H2A deubiquitination during glioblastoma tumorigenesis. Sci Adv 2022 Oct 7;8(40):eabn2571. PMID: 36197973
  • Forst CV, Martin-Sancho L, Tripathi S, Wang G et al. Common and species-specific molecular signatures, networks, and regulators of influenza virus infection in mice, ferrets, and humans. Sci Adv 2022 Oct 7;8(40):eabm5859. PMID: 36197970
  • Lin Y, Loo L, Tran A, Lin DM et al. Scalable workflow for characterization of cell-cell communication in COVID-19 patients. PLoS Comput Biol 2022 Oct;18(10):e1010495. PMID: 36197936
  • Xu S, Chen Z, Ge L, Ma C et al. Identification of potential biomarkers and pathogenesis in neutrophil-predominant severe asthma: A comprehensive bioinformatics analysis. Medicine (Baltimore) 2022 Sep 23;101(38):e30661. PMID: 36197221
  • Crooke PS 3rd, Tossberg JT, Heinrich RM, Porter KP et al. Reduced RNA adenosine-to-inosine editing in hippocampus vasculature associated with Alzheimer's disease. Brain Commun 2022;4(5):fcac238. PMID: 36196083
  • Lin D, Xu W, Hong P, Wu C et al. Decoding the spatial chromatin organization and dynamic epigenetic landscapes of macrophage cells during differentiation and immune activation. Nat Commun 2022 Oct 4;13(1):5857. PMID: 36195603
  • Cai X, Xu M, Zhang H, Zhang M et al. Endometrial stromal PRMT5 plays a crucial role in decidualization by regulating NF-κB signaling in endometriosis. Cell Death Discov 2022 Oct 4;8(1):408. PMID: 36195592
  • Tsubaki M, Takeda T, Matsuda T, Kimura A et al. Hypoxia-inducible factor 1α inhibitor induces cell death via suppression of BCR-ABL1 and Met expression in BCR-ABL1 tyrosine kinase inhibitor sensitive and resistant chronic myeloid leukemia cells. BMB Rep 2023 Feb;56(2):78-83. PMID: 36195570
  • Banaganapalli B, Mallah B, Alghamdi KS, Albaqami WF et al. Integrative weighted molecular network construction from transcriptomics and genome wide association data to identify shared genetic biomarkers for COPD and lung cancer. PLoS One 2022;17(10):e0274629. PMID: 36194576
  • Li S, Ni Y, Li C, Xiang Q et al. Long noncoding RNA SNHG1 alleviates high glucose-induced vascular smooth muscle cells calcification/senescence by post-transcriptionally regulating Bhlhe40 and autophagy via Atg10. J Physiol Biochem 2023 Feb;79(1):83-105. PMID: 36194366
  • Hou Y, Yu T, Wang T, Ding Y et al. Competitive cleavage of SARS-CoV-2 spike protein and epithelial sodium channel by plasmin as a potential mechanism for COVID-19 infection. Am J Physiol Lung Cell Mol Physiol 2022 Nov 1;323(5):L569-L577. PMID: 36193902
  • Xing L, Wu T, Yu L, Zhou N et al. Exploration of Biomarkers of Psoriasis through Combined Multiomics Analysis. Mediators Inflamm 2022;2022:7731082. PMID: 36193416
  • Liu M, Yu X, Xu S, Qu C et al. Establishing a Novel Gene Signature Related to Histone Modifications for Predicting Prognosis in Lung Adenocarcinoma. J Oncol 2022;2022:8802573. PMID: 36193203
  • Peng Q, Huang H, Zhu C, Hou Q et al. CDC20 May Serve as a Potential Biomarker-Based Risk Score System in Predicting the Prognosis of Patients with Hepatocellular Carcinoma. Oxid Med Cell Longev 2022;2022:8421813. PMID: 36193067
  • Galle E, Wong CW, Ghosh A, Desgeorges T et al. H3K18 lactylation marks tissue-specific active enhancers. Genome Biol 2022 Oct 3;23(1):207. PMID: 36192798
  • Pavlidis P, Tsakmaki A, Pantazi E, Li K et al. Interleukin-22 regulates neutrophil recruitment in ulcerative colitis and is associated with resistance to ustekinumab therapy. Nat Commun 2022 Oct 3;13(1):5820. PMID: 36192482
  • Xiao Q, Wang CY, Gao C, Chen JD et al. Regulation of KDM5C stability and enhancer reprogramming in breast cancer. Cell Death Dis 2022 Oct 3;13(10):843. PMID: 36192394
  • Amini AP, Kirkpatrick JD, Wang CS, Jaeger AM et al. Multiscale profiling of protease activity in cancer. Nat Commun 2022 Oct 3;13(1):5745. PMID: 36192379
  • Shi B, Tsou PS, Ma F, Mariani MP et al. Senescent Cells Accumulate in Systemic Sclerosis Skin. J Invest Dermatol 2023 Apr;143(4):661-664.e5. PMID: 36191640
  • Yin L, Chen Y, Fu T, Liu L et al. Identification of candidate blood biomarkers for the diagnosis of septicaemic melioidosis based on WGCNA. Artif Cells Nanomed Biotechnol 2022 Dec;50(1):252-259. PMID: 36191125
  • Gasper W, Rossi F, Ligorio M, Ghersi D et al. Variant calling enhances the identification of cancer cells in single-cell RNA sequencing data. PLoS Comput Biol 2022 Oct;18(10):e1010576. PMID: 36191033
  • Li S, Bern MD, Miao B, Fan C et al. The transcription factor Bach2 negatively regulates murine natural killer cell maturation and function. Elife 2022 Oct 3;11. PMID: 36190189
  • Fernandez KC, Feeney L, Smolkin RM, Yen WF et al. The structure-selective endonucleases GEN1 and MUS81 mediate complementary functions in safeguarding the genome of proliferating B lymphocytes. Elife 2022 Oct 3;11. PMID: 36190107
  • Hutchins EJ, Gandhi S, Chacon J, Piacentino M et al. RNA-binding protein Elavl1/HuR is required for maintenance of cranial neural crest specification. Elife 2022 Oct 3;11. PMID: 36189921
  • Zheng L, Liang P, Long C, Li H et al. EmAtlas: a comprehensive atlas for exploring spatiotemporal activation in mammalian embryogenesis. Nucleic Acids Res 2023 Jan 6;51(D1):D924-D932. PMID: 36189903
  • Wang P, Zhang S, He G, Du M et al. microbioTA: an atlas of the microbiome in multiple disease tissues of Homo sapiens and Mus musculus. Nucleic Acids Res 2023 Jan 6;51(D1):D1345-D1352. PMID: 36189892
  • Tang L, Huang L, Lai Y et al. Network pharmacology and bioinformatics analyses identify the intersection genes and mechanism of Huang Bai for recurrent aphthous stomatitis. Int J Immunopathol Pharmacol 2022 Jan-Dec;36:3946320221129134. PMID: 36189637
  • Zheng Q, Wang D, Lin R, Lv Q et al. IFI44 is an immune evasion biomarker for SARS-CoV-2 and Staphylococcus aureus infection in patients with RA. Front Immunol 2022;13:1013322. PMID: 36189314
  • Pan R, Pan F, Zeng Z, Lei S et al. A novel immune cell signature for predicting osteosarcoma prognosis and guiding therapy. Front Immunol 2022;13:1017120. PMID: 36189307
  • Luan L, Dai Y, Shen T, Yang C et al. Development of a novel hypoxia-immune-related LncRNA risk signature for predicting the prognosis and immunotherapy response of colorectal cancer. Front Immunol 2022;13:951455. PMID: 36189298
  • Zhang X, Wu X, Huang H, Du K et al. Research into the biological differences and targets in lung cancer patients with diverse immunotherapy responses. Front Immunol 2022;13:1014333. PMID: 36189290
  • Luo L, Wei Q, Xu C, Dong M et al. Immune landscape and risk prediction based on pyroptosis-related molecular subtypes in triple-negative breast cancer. Front Immunol 2022;13:933703. PMID: 36189269
  • Dong S, Zhang S, Zhao P, Lin G et al. A combined analysis of bulk and single-cell sequencing data reveals that depleted extracellular matrix and enhanced immune processes co-contribute to fluorouracil beneficial responses in gastric cancer. Front Immunol 2022;13:999551. PMID: 36189263
  • Chen J, Chen S, Dai X, Ma L et al. Exploration of the underlying biological differences and targets in ovarian cancer patients with diverse immunotherapy response. Front Immunol 2022;13:1007326. PMID: 36189254
  • Zhang GRegulatory T-cells-related signature for identifying a prognostic subtype of hepatocellular carcinoma with an exhausted tumor microenvironment. Front Immunol 2022;13:975762. PMID: 36189226
  • Zhou X, Khan S, Huang D, Li L et al. V-Set and immunoglobulin domain containing (VSIG) proteins as emerging immune checkpoint targets for cancer immunotherapy. Front Immunol 2022;13:938470. PMID: 36189222
  • Suur BE, Chemaly M, Lindquist Liljeqvist M, Djordjevic D et al. Therapeutic potential of the Proprotein Convertase Subtilisin/Kexin family in vascular disease. Front Pharmacol 2022;13:988561. PMID: 36188622
  • Liu XS, Liu C, Zeng J, Zeng DB et al. Nucleophosmin 1 is a prognostic marker of gastrointestinal cancer and is associated with m6A and cuproptosis. Front Pharmacol 2022;13:1010879. PMID: 36188614
  • Chen Y, Luo Z, Sun Y, Li F et al. Exercise improves choroid plexus epithelial cells metabolism to prevent glial cell-associated neurodegeneration. Front Pharmacol 2022;13:1010785. PMID: 36188600
  • Wang L, Wang L, Wang H, Zhu T et al. Investigation into the potential mechanism and molecular targets of Fufang Xueshuantong capsule for the treatment of ischemic stroke based on network pharmacology and molecular docking. Front Pharmacol 2022;13:949644. PMID: 36188543
  • Du Z, Wang Y, Liang J, Gao S et al. Association of glioma CD44 expression with glial dynamics in the tumour microenvironment and patient prognosis. Comput Struct Biotechnol J 2022;20:5203-5217. PMID: 36187921
  • Jian X, Zhao G, Chen H, Wang Y et al. Revealing a novel contributing landscape of ferroptosis-related genes in Parkinson's disease. Comput Struct Biotechnol J 2022;20:5218-5225. PMID: 36187920
  • He K, Xie M, Li J, He Y et al. CENPO is Associated with Immune Cell Infiltration and is a Potential Diagnostic and Prognostic Marker for Hepatocellular Carcinoma. Int J Gen Med 2022;15:7493-7510. PMID: 36187159
  • Li J, Tao T, Yu Y, Xu N et al. Expression profiling suggests the involvement of hormone-related, metabolic, and Wnt signaling pathways in pterygium progression. Front Endocrinol (Lausanne) 2022;13:943275. PMID: 36187094
  • Cheng S, Liu Y, Jing Y, Jiang B et al. Identification of key monocytes/macrophages related gene set of the early-stage abdominal aortic aneurysm by integrated bioinformatics analysis and experimental validation. Front Cardiovasc Med 2022;9:950961. PMID: 36186997
  • Xu WB, Kotheeranurak V, Zhang HL, Feng JY et al. Identification of the circRNA-miRNA-mRNA regulatory network in osteoarthritis using bioinformatics analysis. Front Genet 2022;13:994163. PMID: 36186471
  • Li J, Li C, Zhao Y, Wu X et al. Integrated bioinformatics analysis for novel miRNAs markers and ceRNA network in diabetic retinopathy. Front Genet 2022;13:874885. PMID: 36186470
  • Luan M, Zhao M, Wang H, Xu R et al. Role of 5-methylcytosine in determining the prognosis, tumor microenvironment, and applicability of precision medicine in patients with hepatocellular carcinoma. Front Genet 2022;13:984033. PMID: 36186468
  • Huang YM, Wang LQ, Liu Y, Tang FQ et al. Integrated analysis of bulk and single-cell RNA sequencing reveals the interaction of PKP1 and tumor-infiltrating B cells and their therapeutic potential for nasopharyngeal carcinoma. Front Genet 2022;13:935749. PMID: 36186467
  • Liang X, Meng Y, Li C, Liu L et al. Super-Enhancer-Associated nine-gene prognostic score model for prediction of survival in chronic lymphocytic leukemia patients. Front Genet 2022;13:1001364. PMID: 36186463
  • Liu Z, Qi Y, Wang H, Zhang Q et al. Risk model of hepatocellular carcinoma based on cuproptosis-related genes. Front Genet 2022;13:1000652. PMID: 36186455
  • Wang Y, Zhu H, Wang X et al. Prognosis and immune infiltration analysis of endoplasmic reticulum stress-related genes in bladder urothelial carcinoma. Front Genet 2022;13:965100. PMID: 36186448
  • Kang P, Wang Z, Qiao D, Zhang B et al. Dissecting genetic links between Alzheimer's disease and type 2 diabetes mellitus in a systems biology way. Front Genet 2022;13:1019860. PMID: 36186446
  • Wang J, Jin J, Liang Y, Zhang Y et al. miR-21-5p/PRKCE axis implicated in immune infiltration and poor prognosis of kidney renal clear cell carcinoma. Front Genet 2022;13:978840. PMID: 36186442
  • Wang X, Sun R, Chan S, Meng L et al. PANoptosis-based molecular clustering and prognostic signature predicts patient survival and immune landscape in colon cancer. Front Genet 2022;13:955355. PMID: 36186438
  • Chen H, Tian T, Luo H, Jiang Y et al. Identification of differentially expressed genes at the single-cell level and prognosis prediction through bulk RNA sequencing data in breast cancer. Front Genet 2022;13:979829. PMID: 36186437
  • Miao Y, Liu J, Liu X, Yuan Q et al. Machine learning identification of cuproptosis and necroptosis-associated molecular subtypes to aid in prognosis assessment and immunotherapy response prediction in low-grade glioma. Front Genet 2022;13:951239. PMID: 36186436
  • Li F, Song QZ, Zhang YF, Wang XR et al. Identifying the EMT-related signature to stratify prognosis and evaluate the tumor microenvironment in lung adenocarcinoma. Front Genet 2022;13:1008416. PMID: 36186418
  • Liu J, Meng J, Li R, Jiang H et al. Integrated network pharmacology analysis, molecular docking, LC-MS analysis and bioassays revealed the potential active ingredients and underlying mechanism of Scutellariae radix for COVID-19. Front Plant Sci 2022;13:988655. PMID: 36186074
  • Shi M, Du J, Shi J, Huang Y et al. Ferroptosis-related gene ATG5 is a novel prognostic biomarker in nasopharyngeal carcinoma and head and neck squamous cell carcinoma. Front Bioeng Biotechnol 2022;10:1006535. PMID: 36185455
  • Cui Y, Wang X, Zhang L, Liu W et al. A novel epithelial-mesenchymal transition (EMT)-related gene signature of predictive value for the survival outcomes in lung adenocarcinoma. Front Oncol 2022;12:974614. PMID: 36185284
  • Fu Y, Liu H, Long M, Song L et al. Icariin attenuates the tumor growth by targeting miR-1-3p/TNKS2/Wnt/β-catenin signaling axis in ovarian cancer. Front Oncol 2022;12:940926. PMID: 36185280
  • Ding X, Chen L, Xu D, Yu Y et al. Pan-Cancer Analysis of BUB1B/hsa-miR-130a-3p Axis and Identification of Circulating hsa-miR-130a-3p as a Potential Biomarker for Cancer Risk Assessment. Evid Based Complement Alternat Med 2022;2022:3261300. PMID: 36185088
  • Monteran L, Ershaid N, Doron H, Zait Y et al. Chemotherapy-induced complement signaling modulates immunosuppression and metastatic relapse in breast cancer. Nat Commun 2022 Oct 2;13(1):5797. PMID: 36184683
  • Yang P, Qin H, Li Y, Xiao A et al. CD36-mediated metabolic crosstalk between tumor cells and macrophages affects liver metastasis. Nat Commun 2022 Oct 2;13(1):5782. PMID: 36184646
  • Mu H, Cai S, Wang X, Li H et al. RNA binding protein IGF2BP1 meditates oxidative stress-induced granulosa cell dysfunction by regulating MDM2 mRNA stability in an m(6)A-dependent manner. Redox Biol 2022 Sep 24;57:102492. PMID: 36182806
  • Kaokhum N, Pinto-Fernández A, Wilkinson M, Kessler BM et al. The Mechano-Ubiquitinome of Articular Cartilage: Differential Ubiquitination and Activation of a Group of ER-Associated DUBs and ER Stress Regulators. Mol Cell Proteomics 2022 Dec;21(12):100419. PMID: 36182100
  • Whitlock NC, White ME, Capaldo BJ, Ku AT et al. Progression of prostate cancer reprograms MYC-mediated lipid metabolism via lysine methyltransferase 2A. Discov Oncol 2022 Oct 1;13(1):97. PMID: 36181613
  • Zhang X, Wang C, He D, Cheng Y et al. Identification of DNA methylation-regulated genes as potential biomarkers for coronary heart disease via machine learning in the Framingham Heart Study. Clin Epigenetics 2022 Sep 30;14(1):122. PMID: 36180886
  • Strembitska A, Labouèbe G, Picard A, Berney XP et al. Lipid biosynthesis enzyme Agpat5 in AgRP-neurons is required for insulin-induced hypoglycemia sensing and glucagon secretion. Nat Commun 2022 Sep 30;13(1):5761. PMID: 36180454
  • Alchahin AM, Mei S, Tsea I, Hirz T et al. A transcriptional metastatic signature predicts survival in clear cell renal cell carcinoma. Nat Commun 2022 Sep 30;13(1):5747. PMID: 36180422
  • Petrić Howe M, Crerar H, Neeves J, Harley J et al. Physiological intron retaining transcripts in the cytoplasm abound during human motor neurogenesis. Genome Res 2022 Oct;32(10):1808-1825. PMID: 36180233
  • Ringel AR, Szabo Q, Chiariello AM, Chudzik K et al. Repression and 3D-restructuring resolves regulatory conflicts in evolutionarily rearranged genomes. Cell 2022 Sep 29;185(20):3689-3704.e21. PMID: 36179666
  • Tao Z, Cui Y, Xu X, Han T et al. FGFR redundancy limits the efficacy of FGFR4-selective inhibitors in hepatocellular carcinoma. Proc Natl Acad Sci U S A 2022 Oct 4;119(40):e2208844119. PMID: 36179047
  • Zheng X, Lv X, Chai J, Huang Y et al. RTN2, a new member of circadian clock genes identified by database mining and bioinformatics prediction, is highly expressed in ovarian cancer. Mol Med Rep 2022 Nov;26(5). PMID: 36177918
  • Ding L, Li W, Tu J, Cao Z et al. Identification of cuproptosis-related subtypes, cuproptosis-related gene prognostic index in hepatocellular carcinoma. Front Immunol 2022;13:989156. PMID: 36177029
  • Qu X, Zhao X, Lin K, Wang N et al. M2-like tumor-associated macrophage-related biomarkers to construct a novel prognostic signature, reveal the immune landscape, and screen drugs in hepatocellular carcinoma. Front Immunol 2022;13:994019. PMID: 36177006
  • Li Q, Xie D, Yao L, Qiu H et al. Combining autophagy and immune characterizations to predict prognosis and therapeutic response in lung adenocarcinoma. Front Immunol 2022;13:944378. PMID: 36177001
  • Arencibia A, Salazar LA et al. Microarray meta-analysis reveals IL6 and p38β/MAPK11 as potential targets of hsa-miR-124 in endothelial progenitor cells: Implications for stent re-endothelization in diabetic patients. Front Cardiovasc Med 2022;9:964721. PMID: 36176980
  • Lu Z, Wang Z, Song Z, Chen C et al. Single-cell sequencing of brain tissues reveal the central nervous system's susceptibility to SARS-CoV-2 and the drug. Front Pharmacol 2022;13:971017. PMID: 36176453
  • Mengyan X, Kun D, Xinming J, Yutian W et al. Identification and verification of hub genes associated with the progression of non-small cell lung cancer by integrated analysis. Front Pharmacol 2022;13:997842. PMID: 36176446
  • Zhang Q, Ding L, Zhou T, Zhai Q et al. A metabolic reprogramming-related prognostic risk model for clear cell renal cell carcinoma: From construction to preliminary application. Front Oncol 2022;12:982426. PMID: 36176391
  • Cui G, Wang C, Liu J, Shon K et al. Development of an exosome-related and immune microenvironment prognostic signature in colon adenocarcinoma. Front Genet 2022;13:995644. PMID: 36176299
  • Yu X, He L, Chen Y, Lin W et al. Construction of a focal adhesion signaling pathway-related ceRNA network in pelvic organ prolapse by transcriptome analysis. Front Genet 2022;13:996310. PMID: 36176289
  • Cui Y, Chen Z, Pan B, Chen T et al. Neddylation pattern indicates tumor microenvironment characterization and predicts prognosis in lung adenocarcinoma. Front Cell Dev Biol 2022;10:979262. PMID: 36176276
  • Cappozzo A, McCrory C, Robinson O, Freni Sterrantino A et al. A blood DNA methylation biomarker for predicting short-term risk of cardiovascular events. Clin Epigenetics 2022 Sep 29;14(1):121. PMID: 36175966
  • Washington C 3rd, Dapas M, Biddanda A, Magnaye KM et al. African-specific alleles modify risk for asthma at the 17q12-q21 locus in African Americans. Genome Med 2022 Sep 29;14(1):112. PMID: 36175932
  • Xiong M, Li W, Wang L, Chen L et al. Comprehensive analysis of alternative polyadenylation regulators concerning CD276 and immune infiltration in bladder cancer. BMC Cancer 2022 Sep 29;22(1):1026. PMID: 36175880
  • Chervy M, Sivignon A, Dambrine F, Buisson A et al. Epigenetic master regulators HDAC1 and HDAC5 control pathobiont Enterobacteria colonization in ileal mucosa of Crohn's disease patients. Gut Microbes 2022 Jan-Dec;14(1):2127444. PMID: 36175163
  • Ahmadi Badi S, Malek A, Paolini A, Rouhollahi Masoumi M et al. Downregulation of ACE, AGTR1, and ACE2 genes mediating SARS-CoV-2 pathogenesis by gut microbiota members and their postbiotics on Caco-2 cells. Microb Pathog 2022 Dec;173(Pt A):105798. PMID: 36174833
  • Wang T, Zeng F, Li X, Wei Y et al. Identification of key genes and pathways associated with sex differences in rheumatoid arthritis based on bioinformatics analysis. Clin Rheumatol 2023 Feb;42(2):399-406. PMID: 36173499
  • Wang C, Li Y, Li S, Chen M et al. Proteomics Combined with RNA Sequencing to Screen Biomarkers of Sepsis. Infect Drug Resist 2022;15:5575-5587. PMID: 36172619
  • Taubes A, Nova P, Zalocusky KA, Kosti I et al. Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. Nat Aging 2021 Oct;1(10):932-947. PMID: 36172600
  • Lechner SA, Welsch JM, Pahapill NK, Kaldenberg TAR et al. Predictors of prodromal Parkinson's disease in young adult Pink1-/- rats. Front Behav Neurosci 2022;16:867958. PMID: 36172466
  • Lu YW, Chen YJ, Shi N, Yang LH et al. L36G is associated with cutaneous antiviral competence in psoriasis. Front Immunol 2022;13:971071. PMID: 36172384
  • Liu J, Li M, Wu J, Qi Q et al. Identification of ST3GAL5 as a prognostic biomarker correlating with CD8(+) T cell exhaustion in clear cell renal cell carcinoma. Front Immunol 2022;13:979605. PMID: 36172374
  • Tian XM, Xiang B, Jin LM, Mi T et al. Immune-related gene signature associates with immune landscape and predicts prognosis accurately in patients with Wilms tumour. Front Immunol 2022;13:920666. PMID: 36172369
  • Han Y, Zhou Y, Li H, Gong Z et al. Identification of diagnostic mRNA biomarkers in whole blood for ankylosing spondylitis using WGCNA and machine learning feature selection. Front Immunol 2022;13:956027. PMID: 36172367
  • Oh JN, Jeong J, Lee M, Choe GC et al. Characterization of multitype colonies originating from porcine blastocysts produced in vitro. Front Cell Dev Biol 2022;10:918222. PMID: 36172290
  • Wang X, Wen D, You C, Ma L et al. Identification of the key immune-related genes in aneurysmal subarachnoid hemorrhage. Front Mol Neurosci 2022;15:931753. PMID: 36172261
  • Li F, Li B, Liu J, Wei X et al. Anti-asthmatic fraction screening and mechanisms prediction of Schisandrae Sphenantherae Fructus based on a combined approach. Front Pharmacol 2022;13:902324. PMID: 36172200
  • Koch E, Demontis D et al. Drug repurposing candidates to treat core symptoms in autism spectrum disorder. Front Pharmacol 2022;13:995439. PMID: 36172193
  • Fang Y, Zhao J, Guo X, Dai Y et al. Establishment, immunological analysis, and drug prediction of a prognostic signature of ovarian cancer related to histone acetylation. Front Pharmacol 2022;13:947252. PMID: 36172179
  • Zhou T, Gilliam NJ, Li S, Spaudau S et al. Generation and functional analysis of defective viral genomes during SARS-CoV-2 infection. bioRxiv 2022 Sep 23 PMID: 36172120
  • Liu D, Chen YY, Li QQ, Xu M et al. Integrative bioinformatics analysis to identify the effects of circadian rhythm on Crohn's disease. Front Mol Biosci 2022;9:961481. PMID: 36172047
  • Luechtefeld T, Bozada T Jr, Goel R, Wang L et al. Applications for open access normalized synthesis in metastatic prostate cancer trials. Front Artif Intell 2022;5:984836. PMID: 36171797
  • Mendez PL, Obendorf L, Jatzlau J, Burdzinski W et al. Atheroprone fluid shear stress-regulated ALK1-Endoglin-SMAD signaling originates from early endosomes. BMC Biol 2022 Sep 28;20(1):210. PMID: 36171573
  • Liu X, Zhang X, Liu C, Mu W et al. Immune and inflammation: related factor alterations as biomarkers for predicting prognosis and responsiveness to PD-1 monoclonal antibodies in cervical cancer. Discov Oncol 2022 Sep 28;13(1):96. PMID: 36171464
  • Auguste YSS, Ferro A, Kahng JA, Xavier AM et al. Oligodendrocyte precursor cells engulf synapses during circuit remodeling in mice. Nat Neurosci 2022 Oct;25(10):1273-1278. PMID: 36171430
  • Hashimoto M, Araki K, Cardenas MA, Li P et al. PD-1 combination therapy with IL-2 modifies CD8(+) T cell exhaustion program. Nature 2022 Oct;610(7930):173-181. PMID: 36171288
  • Krishnamurty AT, Shyer JA, Thai M, Gandham V et al. LRRC15(+) myofibroblasts dictate the stromal setpoint to suppress tumour immunity. Nature 2022 Nov;611(7934):148-154. PMID: 36171287
  • Hussainy M, Korsching SI, Tresch A et al. Pseudotime analysis reveals novel regulatory factors for multigenic onset and monogenic transition of odorant receptor expression. Sci Rep 2022 Sep 28;12(1):16183. PMID: 36171231
  • O'Shea TM, Ao Y, Wang S, Wollenberg AL et al. Lesion environments direct transplanted neural progenitors towards a wound repair astroglial phenotype in mice. Nat Commun 2022 Sep 28;13(1):5702. PMID: 36171203
  • Lan C, Zhang H, Wang K, Liu X et al. The alternative splicing of intersectin 1 regulated by PTBP1 promotes human glioma progression. Cell Death Dis 2022 Sep 28;13(9):835. PMID: 36171198
  • Zeng T, Huang W, Cui L, Zhu P et al. The landscape of extrachromosomal circular DNA (eccDNA) in the normal hematopoiesis and leukemia evolution. Cell Death Discov 2022 Sep 28;8(1):400. PMID: 36171187
  • Lycas MD, Ejdrup AL, Sørensen AT, Haahr NO et al. Nanoscopic dopamine transporter distribution and conformation are inversely regulated by excitatory drive and D2 autoreceptor activity. Cell Rep 2022 Sep 27;40(13):111431. PMID: 36170827
  • Pariollaud M, Ibrahim LH, Irizarry E, Mello RM et al. Circadian disruption enhances HSF1 signaling and tumorigenesis in Kras-driven lung cancer. Sci Adv 2022 Sep 30;8(39):eabo1123. PMID: 36170373
  • Rossi SH, Newsham I, Pita S, Brennan K et al. Accurate detection of benign and malignant renal tumor subtypes with MethylBoostER: An epigenetic marker-driven learning framework. Sci Adv 2022 Sep 30;8(39):eabn9828. PMID: 36170366
  • Marot-Lassauzaie V, Bouman BJ, Donaghy FD, Demerdash Y et al. Towards reliable quantification of cell state velocities. PLoS Comput Biol 2022 Sep;18(9):e1010031. PMID: 36170235
  • Zhou H, Du Y, Wei X, Song C et al. DDX56 transcriptionally activates MIST1 to facilitate tumorigenesis of HCC through PTEN-AKT signaling. Theranostics 2022;12(14):6069-6087. PMID: 36168636
  • Zhao Y, Wang L, Zhao P, Liu Z et al. Genome-wide identification, characterization and expression analysis of HAK genes and decoding their role in responding to potassium deficiency and abiotic stress in Medicago truncatula. PeerJ 2022;10:e14034. PMID: 36168431
  • Zhang L, Li X, Wan C, Da W et al. Bioinformatics analysis identification of AKT3 and RAC1 as key genes in postmenopausal osteoporosis. Exp Ther Med 2022 Nov;24(5):656. PMID: 36168425
  • Zeng Y, Fan R et al. Identification and verification of CCNB1 as a potential prognostic biomarker by comprehensive analysis. Sci Rep 2022 Sep 27;12(1):16153. PMID: 36167975
  • Chawla S, Rockstroh A, Lehman M, Ratther E et al. Gene expression based inference of cancer drug sensitivity. Nat Commun 2022 Sep 27;13(1):5680. PMID: 36167836
  • Xiong F, Liu W, Wang X, Wu G et al. HOXA5 inhibits the proliferation of extrahepatic cholangiocarcinoma cells by enhancing MXD1 expression and activating the p53 pathway. Cell Death Dis 2022 Sep 27;13(9):829. PMID: 36167790
  • Yuan Y, Zhang X, Du K, Zhu X et al. Circ_CEA promotes the interaction between the p53 and cyclin-dependent kinases 1 as a scaffold to inhibit the apoptosis of gastric cancer. Cell Death Dis 2022 Sep 27;13(9):827. PMID: 36167685
  • Agapito G, Milano M, Cannataro M et al. A statistical network pre-processing method to improve relevance and significance of gene lists in microarray gene expression studies. BMC Bioinformatics 2022 Sep 27;23(Suppl 6):393. PMID: 36167506
  • Han DJ, Aslam R, Misra PS, Chiu F et al. Disruption of adipocyte YAP improves glucose homeostasis in mice and decreases adipose tissue fibrosis. Mol Metab 2022 Dec;66:101594. PMID: 36165813
  • Altendorfer B, Unger MS, Poupardin R, Hoog A et al. Transcriptomic Profiling Identifies CD8(+) T Cells in the Brain of Aged and Alzheimer's Disease Transgenic Mice as Tissue-Resident Memory T Cells. J Immunol 2022 Oct 1;209(7):1272-1285. PMID: 36165202
  • Gosselin MRF, Mournetas V, Borczyk M, Verma S et al. Loss of full-length dystrophin expression results in major cell-autonomous abnormalities in proliferating myoblasts. Elife 2022 Sep 27;11. PMID: 36164827
  • Rong D, Chen X, Xiao J, Liu D et al. Histone methylation modification patterns and relevant M-RiskScore in acute myeloid leukemia. Heliyon 2022 Sep;8(9):e10610. PMID: 36164519
  • Li Y, Niu L et al. Identification of the effects of COVID-19 on patients with pulmonary fibrosis and lung cancer: a bioinformatics analysis and literature review. Sci Rep 2022 Sep 26;12(1):16040. PMID: 36163484
  • Wu B, Li Y, Nie N, Shen X et al. SFRP4(+) stromal cell subpopulation with IGF1 signaling in human endometrial regeneration. Cell Discov 2022 Sep 27;8(1):95. PMID: 36163341
  • Wang Q, Liu Y, Wang H, Jiang P et al. Graphdiyne oxide nanosheets display selective anti-leukemia efficacy against DNMT3A-mutant AML cells. Nat Commun 2022 Sep 26;13(1):5657. PMID: 36163326
  • Clark SJ, Argelaguet R, Lohoff T, Krueger F et al. Single-cell multi-omics profiling links dynamic DNA methylation to cell fate decisions during mouse early organogenesis. Genome Biol 2022 Sep 26;23(1):202. PMID: 36163261
  • East P, Kelly GP, Biswas D, Marani M et al. RAS oncogenic activity predicts response to chemotherapy and outcome in lung adenocarcinoma. Nat Commun 2022 Sep 26;13(1):5632. PMID: 36163168
  • Wu H, Li X, Jian F, Yisimayi A et al. Highly sensitive single-cell chromatin accessibility assay and transcriptome coassay with METATAC. Proc Natl Acad Sci U S A 2022 Oct 4;119(40):e2206450119. PMID: 36161934
  • Wu W, Wu W, Ye Y, Li T et al. mRNA and lncRNA expression profiles of liver tissues in children with biliary atresia. Exp Ther Med 2022 Oct;24(4):634. PMID: 36160912
  • Xie X, Zhang Y, Yu J, Jiang F et al. Significance of m(6)A regulatory factor in gene expression and immune function of osteoarthritis. Front Physiol 2022;13:918270. PMID: 36160850
  • Hu DM, Zhang WD, Shi ZE, Zhang MY et al. FOXP family DNA methylation correlates with immune infiltration and prognostic value in NSCLC. Front Genet 2022;13:937069. PMID: 36160018
  • Luo Q, Li J, Su X, Tan Q et al. COL11A1 serves as a biomarker for poor prognosis and correlates with immune infiltration in breast cancer. Front Genet 2022;13:935860. PMID: 36160004
  • Zheng H, Guo X, Li N, Qin L et al. Increased expression of SYCP2 predicts poor prognosis in patients suffering from breast carcinoma. Front Genet 2022;13:922401. PMID: 36159998
  • Hu C, Cai D, Zhong ME, Fan D et al. Predicting prognosis and immunotherapy response among colorectal cancer patients based on a tumor immune microenvironment-related lncRNA signature. Front Genet 2022;13:993714. PMID: 36159987
  • Tong X, Yang X, Tong X, Zhai D et al. Complement system-related genes in stomach adenocarcinoma: Prognostic signature, immune landscape, and drug resistance. Front Genet 2022;13:903421. PMID: 36159981
  • Wei Q, Miao T, Zhang P, Jiang B et al. Comprehensive analysis to identify GNG7 as a prognostic biomarker in lung adenocarcinoma correlating with immune infiltrates. Front Genet 2022;13:984575. PMID: 36159963
  • Chen KD, Huang YH, Wu WS, Chang LS et al. Comparable bidirectional neutrophil immune dysregulation between Kawasaki disease and severe COVID-19. Front Immunol 2022;13:995886. PMID: 36159873
  • Han X, Ye J, Huang R, Li Y et al. Pan-cancer analysis reveals interleukin-17 family members as biomarkers in the prediction for immune checkpoint inhibitor curative effect. Front Immunol 2022;13:900273. PMID: 36159856
  • Liu P, Zhu Z, Ma J, Wei L et al. Prognostic stratification based on m(5)C regulators acts as a novel biomarker for immunotherapy in hepatocellular carcinoma. Front Immunol 2022;13:951529. PMID: 36159831
  • Tian Q, Gao H, Ma Y, Zhu L et al. The regulatory roles of T helper cells in distinct extracellular matrix characterization in breast cancer. Front Immunol 2022;13:871742. PMID: 36159822
  • Fan Y, Gao Z, Xu J, Wang H et al. Identification and validation of SNHG gene signature to predict malignant behaviors and therapeutic responses in glioblastoma. Front Immunol 2022;13:986615. PMID: 36159816
  • Zeng Z, Hu C, Ruan W, Zhang J et al. A specific immune signature for predicting the prognosis of glioma patients with IDH1-mutation and guiding immune checkpoint blockade therapy. Front Immunol 2022;13:1001381. PMID: 36159801
  • Zhong C, Xie T, Chen L, Zhong X et al. Immune depletion of the methylated phenotype of colon cancer is closely related to resistance to immune checkpoint inhibitors. Front Immunol 2022;13:983636. PMID: 36159794
  • Fan Y, Guo D, Zhao S, Wei Q et al. Human genes with relative synonymous codon usage analogous to that of polyomaviruses are involved in the mechanism of polyomavirus nephropathy. Front Cell Infect Microbiol 2022;12:992201. PMID: 36159639
  • Liu X, Chen W, Qi Y, Zhu Y et al. Evaluation of lncRNA FOXD3-AS1 as a Biomarker for Early-Stage Lung Cancer Diagnosis and Subtype Identification. Evid Based Complement Alternat Med 2022;2022:5702014. PMID: 36159563
  • Ning S, Zhao J, Lombard AP, D'Abronzo LS et al. Activation of neural lineage networks and ARHGEF2 in enzalutamide-resistant and neuroendocrine prostate cancer and association with patient outcomes. Commun Med (Lond) 2022;2:118. PMID: 36159187
  • Yang H, Xiong B, Xiong T, Wang D et al. Identification of key genes and mechanisms of epicardial adipose tissue in patients with diabetes through bioinformatic analysis. Front Cardiovasc Med 2022;9:927397. PMID: 36158806
  • Dai YW, Chen HB, Pan YT, Lv LX et al. Characterization of chromatin regulators identified prognosis and heterogeneity in hepatocellular carcinoma. Front Oncol 2022;12:1002781. PMID: 36158697
  • Wang S, Liang Y, Zhang J, Wang W et al. The angiogenic genes predict prognosis and immune characteristics in esophageal squamous cell carcinoma: Evidence from multi-omics and experimental verification. Front Oncol 2022;12:961634. PMID: 36158681
  • Sun D, Liu J, Wang Y, Dong J et al. Co-administration of MDR1 and BCRP or EGFR/PI3K inhibitors overcomes lenvatinib resistance in hepatocellular carcinoma. Front Oncol 2022;12:944537. PMID: 36158676
  • Zhang M, Zhang J, Liu N, Wang B et al. VISTA is associated with immune infiltration and predicts favorable prognosis in TNBC. Front Oncol 2022;12:961374. PMID: 36158663
  • Cui Y, Feng H, Liu J, Wu J et al. Identification of hexosamine biosynthesis pathway as a novel prognostic signature and its correlation with immune infiltration in bladder cancer. Front Mol Biosci 2022;9:1009168. PMID: 36158580
  • Ganassi M, Figeac N, Reynaud M, Ortuste Quiroga HP et al. Antagonism Between DUX4 and DUX4c Highlights a Pathomechanism Operating Through β-Catenin in Facioscapulohumeral Muscular Dystrophy. Front Cell Dev Biol 2022;10:802573. PMID: 36158201
  • Lu L, Zheng D, Qu J, Zhuang Y et al. METTL16 predicts a favorable outcome and primes antitumor immunity in pancreatic ductal adenocarcinoma. Front Cell Dev Biol 2022;10:759020. PMID: 36158188
  • Li S, Wang Y, Sun R, Franceschi D et al. Single-Cell Transcriptome Analysis Reveals Different Immune Signatures in HPV- and HPV + Driven Human Head and Neck Squamous Cell Carcinoma. J Immunol Res 2022;2022:2079389. PMID: 36157879
  • Hu X, Wu L, Yao Y, Ma J et al. The integrated landscape of eRNA in gastric cancer reveals distinct immune subtypes with prognostic and therapeutic relevance. iScience 2022 Oct 21;25(10):105075. PMID: 36157578
  • Ji T, Wu H, Ma K et al. Constructing a Novel Prognostic Signature Based on TGF-β Signaling for Personalized Treatment in Pancreatic Adenocarcinoma. J Oncol 2022;2022:4419119. PMID: 36157222
  • Zhong C, Liang JH, Chen Z, Zhong LP et al. Analysis of N6-Methyladenosine RNA Methylation Regulators in Diagnosis and Distinct Molecular Subtypes of Ankylosing Spondylitis. Dis Markers 2022;2022:4942599. PMID: 36157216
  • Huang D, Chen K, Song B, Wei Z et al. Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation. Nucleic Acids Res 2022 Oct 14;50(18):10290-10310. PMID: 36155798
  • Dong X, Tang K, Xu Y, Wei H et al. Single-cell gene regulation network inference by large-scale data integration. Nucleic Acids Res 2022 Nov 28;50(21):e126. PMID: 36155797
  • Zhang X, Ding C, Zhao Z et al. Exploring a 7-gene prognostic model based on ferroptosis for efficiently guiding immunotherapy in melanoma patients. Adv Med Sci 2022 Sep;67(2):364-378. PMID: 36155341
  • Cao H, Rao X, Jia J, Yan T et al. Identification of tubulointerstitial genes and ceRNA networks involved in diabetic nephropathy via integrated bioinformatics approaches. Hereditas 2022 Sep 26;159(1):36. PMID: 36154667
  • Sánchez-Baizán N, Ribas L, Piferrer F et al. Improved biomarker discovery through a plot twist in transcriptomic data analysis. BMC Biol 2022 Sep 24;20(1):208. PMID: 36153614
  • Reske JJ, Wilson MR, Armistead B, Harkins S et al. ARID1A-dependent maintenance of H3.3 is required for repressive CHD4-ZMYND8 chromatin interactions at super-enhancers. BMC Biol 2022 Sep 25;20(1):209. PMID: 36153585
  • Meeser A, Bartenhagen C, Werr L, Hellmann AM et al. Reliable assessment of telomere maintenance mechanisms in neuroblastoma. Cell Biosci 2022 Sep 24;12(1):160. PMID: 36153564
  • Chan WF, Coughlan HD, Chen Y, Keenan CR et al. Activation of stably silenced genes by recruitment of a synthetic de-methylating module. Nat Commun 2022 Sep 23;13(1):5582. PMID: 36151095
  • Zhao X, Shen J, Zhao X, Zhang M et al. PIM3-AMPK-HDAC4/5 axis restricts MuERVL-marked 2-cell-like state in embryonic stem cells. Stem Cell Reports 2022 Oct 11;17(10):2256-2271. PMID: 36150380
  • Tang T, Le Q, Castro S, Pardo L et al. Targeting FOLR1 in high-risk CBF2AT3-GLIS2 pediatric AML with STRO-002 FOLR1-antibody-drug conjugate. Blood Adv 2022 Nov 22;6(22):5933-5937. PMID: 36149945
  • Zhou Y, Zhou X, Liu Q, Zhang Z et al. Development of a Costimulatory Molecule Signature to Predict Prognosis, Immune Landscape, and Response to Immune Therapy for Hepatocellular Carcinoma. Dis Markers 2022;2022:8973721. PMID: 36148160
  • He B, Quan LP, Cai CY, Yu DY et al. Dysregulation and imbalance of innate and adaptive immunity are involved in the cardiomyopathy progression. Front Cardiovasc Med 2022;9:973279. PMID: 36148059
  • Wang H, Liu H, Zhou L, Wang D et al. Cytomegalovirus-specific neutralizing antibodies effectively prevent uncontrolled infection after allogeneic hematopoietic stem cell transplantation. iScience 2022 Oct 21;25(10):105065. PMID: 36147955
  • Shi H, Cheng Y, Shi Q, Liu W et al. Myoferlin disturbs redox equilibrium to accelerate gastric cancer migration. Front Oncol 2022;12:905230. PMID: 36147922
  • Gomez RL, Woods LM, Ramachandran R, Abou Tayoun AN et al. Super-enhancer associated core regulatory circuits mediate susceptibility to retinoic acid in neuroblastoma cells. Front Cell Dev Biol 2022;10:943924. PMID: 36147741
  • Chen Y, Li Z, Cao Q, Guan H et al. Ferroptosis-related gene signatures in neuroblastoma associated with prognosis. Front Cell Dev Biol 2022;10:871512. PMID: 36147739
  • Tang Q, Wang S, Di Z, Li H et al. Identification and validation of a prognostic risk model based on caveolin family genes for breast cancer. Front Cell Dev Biol 2022;10:822187. PMID: 36147736
  • Guan Q, Pan J, Ren N, Qiao C et al. Identification of novel lactate metabolism signatures and molecular subtypes for prognosis in hepatocellular carcinoma. Front Cell Dev Biol 2022;10:960277. PMID: 36147735
  • Li Y, Zhang Q, Yan W, Wang X et al. Young plasma reverses anesthesia and surgery-induced cognitive impairment in aged rats by modulating hippocampal synaptic plasticity. Front Aging Neurosci 2022;14:996223. PMID: 36147703
  • Zheng J, Chen X, Huang B, Li J et al. A novel immune-related radioresistant lncRNAs signature based model for risk stratification and prognosis prediction in esophageal squamous cell carcinoma. Front Genet 2022;13:921902. PMID: 36147506
  • Yu S, Zhang J, Ding Y, Kang X et al. Genome-wide identification of alternative splicing associated with histone deacetylase inhibitor in cutaneous T-cell lymphomas. Front Genet 2022;13:937623. PMID: 36147491
  • Shi M, Chen L, Wei Y, Chen R et al. Systematic analysis of prognostic and immunologic characteristics associated with coronavirus disease 2019 regulators in acute myeloid leukemia. Front Genet 2022;13:959109. PMID: 36147489
  • Wang J, Uddin MN, Wang R, Gong YH et al. Comprehensive analysis and validation of novel immune and vascular remodeling related genes signature associated with drug interactions in pulmonary arterial hypertension. Front Genet 2022;13:922213. PMID: 36147486
  • Xu Y, Wang Y, Liang L, Song N et al. Single-cell RNA sequencing analysis to explore immune cell heterogeneity and novel biomarkers for the prognosis of lung adenocarcinoma. Front Genet 2022;13:975542. PMID: 36147484
  • Liu F, Bouznad N, Kaller M, Shi X et al. Csf1r mediates enhancement of intestinal tumorigenesis caused by inactivation of Mir34a. Int J Biol Sci 2022;18(14):5415-5437. PMID: 36147476
  • Wang X, Liu XQ, Jiang L, Huang YB et al. Paeoniflorin directly binds to TNFR1 to regulate podocyte necroptosis in diabetic kidney disease. Front Pharmacol 2022;13:966645. PMID: 36147345
  • Chen M, Nie Z, Gao Y, Cao H et al. m7G regulator-mediated molecular subtypes and tumor microenvironment in kidney renal clear cell carcinoma. Front Pharmacol 2022;13:900006. PMID: 36147333
  • Guo R, Zhou Y, Lin F, Li M et al. A novel gene signature based on the hub genes of COVID-19 predicts the prognosis of idiopathic pulmonary fibrosis. Front Pharmacol 2022;13:981604. PMID: 36147332
  • Adarshan S, Akassh S, Avinash K, Bharathkumar M et al. Transcriptomics, Cheminformatics, and Systems Pharmacology Strategies Unveil the Potential Bioactives to Combat COVID-19. Molecules 2022 Sep 13;27(18). PMID: 36144690
  • Abdelwahed EK, Hussein NA, Moustafa A, Moneib NA et al. Gene Networks and Pathways Involved in Escherichia coli Response to Multiple Stressors. Microorganisms 2022 Sep 6;10(9). PMID: 36144394
  • Bauer S, Eigenmann J, Zhao Y, Fleig J et al. Identification of the Transcription Factor ATF3 as a Direct and Indirect Regulator of the LDLR. Metabolites 2022 Sep 6;12(9). PMID: 36144244
  • Choi TJ, An HE, Kim CB et al. Machine Learning Models for Identification and Prediction of Toxic Organic Compounds Using Daphnia magna Transcriptomic Profiles. Life (Basel) 2022 Sep 16;12(9). PMID: 36143479
  • Parks D, Peterson C, Chang WS et al. Identification and Validation of Reference Genes for Expression Analysis in Nitrogen-Fixing Bacteria under Environmental Stress. Life (Basel) 2022 Sep 5;12(9). PMID: 36143415
  • Avnat E, Shapira G, Gurwitz D, Shomron N et al. Elevated Expression of RGS2 May Underlie Reduced Olfaction in COVID-19 Patients. J Pers Med 2022 Aug 28;12(9). PMID: 36143181
  • Vishnubalaji R, Abdel-Razeq H, Gehani S, Albagha OME et al. Identification of a Gene Panel Predictive of Triple-Negative Breast Cancer Response to Neoadjuvant Chemotherapy Employing Transcriptomic and Functional Validation. Int J Mol Sci 2022 Sep 17;23(18). PMID: 36142814
  • Yao S, Zhou X, Vona B, Fan L et al. Skeletal Class III Malocclusion Is Associated with ADAMTS2 Variants and Reduced Expression in a Familial Case. Int J Mol Sci 2022 Sep 14;23(18). PMID: 36142585
  • Lin YC, Chen BS et al. Identifying Drug Targets of Oral Squamous Cell Carcinoma through a Systems Biology Method and Genome-Wide Microarray Data for Drug Discovery by Deep Learning and Drug Design Specifications. Int J Mol Sci 2022 Sep 8;23(18). PMID: 36142321
  • Gallego A, Fernández-Justel JM, Martín-Vírgala S, Maslon MM et al. Slow RNAPII Transcription Elongation Rate, Low Levels of RNAPII Pausing, and Elevated Histone H1 Content at Promoters Associate with Higher m6A Deposition on Nascent mRNAs. Genes (Basel) 2022 Sep 14;13(9). PMID: 36140819
  • Lee Y, Yoon JW, Kim YA, Choi HJ et al. A Genome-Wide Association Study of Genetic Variants of Apolipoprotein A1 Levels and Their Association with Vitamin D in Korean Cohorts. Genes (Basel) 2022 Aug 29;13(9). PMID: 36140721
  • Shakyawar S, Southekal S, Guda C et al. mintRULS: Prediction of miRNA-mRNA Target Site Interactions Using Regularized Least Square Method. Genes (Basel) 2022 Aug 25;13(9). PMID: 36140696
  • Vicario N, Castrogiovanni P, Imbesi R, Giallongo S et al. GJA1/CX43 High Expression Levels in the Cervical Spinal Cord of ALS Patients Correlate to Microglia-Mediated Neuroinflammatory Profile. Biomedicines 2022 Sep 10;10(9). PMID: 36140348
  • Puente-Santamaria L, Sanchez-Gonzalez L, Pescador N, Martinez-Costa O et al. Formal Meta-Analysis of Hypoxic Gene Expression Profiles Reveals a Universal Gene Signature. Biomedicines 2022 Sep 8;10(9). PMID: 36140330
  • Mazzara PG, Criscuolo E, Rasponi M, Massimino L et al. A Human Stem Cell-Derived Neurosensory-Epithelial Circuitry on a Chip to Model Herpes Simplex Virus Reactivation. Biomedicines 2022 Aug 24;10(9). PMID: 36140168
  • Razpotnik R, Vidmar R, Fonović M, Rozman D et al. Circular RNA hsa_circ_0062682 Binds to YBX1 and Promotes Oncogenesis in Hepatocellular Carcinoma. Cancers (Basel) 2022 Sep 19;14(18). PMID: 36139684
  • Koutsi MA, Pouliou M, Champezou L, Vatsellas G et al. Typical Enhancers, Super-Enhancers, and Cancers. Cancers (Basel) 2022 Sep 8;14(18). PMID: 36139535
  • Lee H, Chun SH, Moon SY, Yoon JS et al. MicroRNA-769-3p Acts as a Prognostic Factor in Oral Squamous Cell Cancer by Modulating Stromal Genes. Cancers (Basel) 2022 Sep 8;14(18). PMID: 36139534
  • Saddozai UAK, Wang F, Khattak S, Akbar MU et al. Define the Two Molecular Subtypes of Epithelioid Malignant Pleural Mesothelioma. Cells 2022 Sep 19;11(18). PMID: 36139498
  • La Manna MP, Shekarkar-Azgomi M, Badami GD, Tamburini B et al. Impact of Mycobacterium tuberculosis Infection on Human B Cell Compartment and Antibody Responses. Cells 2022 Sep 17;11(18). PMID: 36139482
  • Lee T, Hwang S, Seo DM, Shin HC et al. Identification of Cardiovascular Disease-Related Genes Based on the Co-Expression Network Analysis of Genome-Wide Blood Transcriptome. Cells 2022 Sep 14;11(18). PMID: 36139449
  • Gjorgjieva M, Ay AS, Correia de Sousa M, Delangre E et al. MiR-22 Deficiency Fosters Hepatocellular Carcinoma Development in Fatty Liver. Cells 2022 Sep 14;11(18). PMID: 36139435
  • Urista J, Maldonado M, Toscano-Marquez F, Ramírez R et al. Lack of ZNF365 Drives Senescence and Exacerbates Experimental Lung Fibrosis. Cells 2022 Sep 13;11(18). PMID: 36139424
  • Shao Y, Saaoud F, Cornwell W, Xu K et al. Cigarette Smoke and Morphine Promote Treg Plasticity to Th17 via Enhancing Trained Immunity. Cells 2022 Sep 8;11(18). PMID: 36139385
  • Vaganova AN, Katolikova NV, Murtazina RZ, Kuvarzin SR et al. Public Transcriptomic Data Meta-Analysis Demonstrates TAAR6 Expression in the Mental Disorder-Related Brain Areas in Human and Mouse Brain. Biomolecules 2022 Sep 7;12(9). PMID: 36139098
  • Boschiero C, Gao Y, Baldwin RL 6th, Ma L et al. Butyrate Induces Modifications of the CTCF-Binding Landscape in Cattle Cells. Biomolecules 2022 Aug 25;12(9). PMID: 36139015
  • Visentin L, Scarpellino G, Chinigò G, Munaron L et al. BioTEA: Containerized Methods of Analysis for Microarray-Based Transcriptomics Data. Biology (Basel) 2022 Sep 13;11(9). PMID: 36138825
  • Inci N, Akyildiz EO, Bulbul AA, Turanli ET et al. Transcriptomics and Proteomics Analyses Reveal JAK Signaling and Inflammatory Phenotypes during Cellular Senescence in Blind Mole Rats: The Reflections of Superior Biology. Biology (Basel) 2022 Aug 23;11(9). PMID: 36138732
  • Li D, Yu H, Hu J, Li S et al. Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma. J Transl Med 2022 Sep 23;20(1):423. PMID: 36138435
  • Feng D, Chen Y, Dai R, Bian S et al. Chromatin organizer SATB1 controls the cell identity of CD4(+) CD8(+) double-positive thymocytes by regulating the activity of super-enhancers. Nat Commun 2022 Sep 22;13(1):5554. PMID: 36138028
  • Zhang Y, Ye G, Yang Q, Zheng B et al. Landscape of exitrons in gastric cancer. EBioMedicine 2022 Oct;84:104272. PMID: 36137412
  • Corano Scheri K, Liang X, Dalal V, Le Poole IC et al. SARA suppresses myofibroblast precursor transdifferentiation in fibrogenesis in a mouse model of scleroderma. JCI Insight 2022 Nov 8;7(21). PMID: 36136606
  • Sanfilippo C, Castrogiovanni P, Vinciguerra M, Imbesi R et al. A sex-stratified analysis of neuroimmune gene expression signatures in Alzheimer's disease brains. Geroscience 2023 Feb;45(1):523-541. PMID: 36136224
  • Dinarvand M, Koch FC, Al Mouiee D, Vuong K et al. dRNASb: a systems biology approach to decipher dynamics of host-pathogen interactions using temporal dual RNA-seq data. Microb Genom 2022 Sep;8(9). PMID: 36136078
  • Yang Y, Xu X, Jing Z, Ye J et al. Genome-Wide Screening and Stability Verification of the Robust Internal Control Genes for RT-qPCR in Filamentous Fungi. J Fungi (Basel) 2022 Sep 10;8(9). PMID: 36135677
  • Lu W, Rao Y, Li Y, Dai Y et al. The Landscape of Cell Death Processes with Associated Immunogenic and Fibrogenic Effects in Arrhythmogenic Cardiomyopathy. J Cardiovasc Dev Dis 2022 Sep 8;9(9). PMID: 36135446
  • Contreras SM, Zambrano Siri RT, Rivera EM, Cristaldi C et al. Architecture, Chromatin and Gene Organization of Toxoplasma gondii Subtelomeres. Epigenomes 2022 Sep 15;6(3). PMID: 36135316
  • Kong X, Yan K, Deng P, Fu H et al. LncRNA-Smad7 mediates cross-talk between Nodal/TGF-β and BMP signaling to regulate cell fate determination of pluripotent and multipotent cells. Nucleic Acids Res 2022 Oct 14;50(18):10526-10543. PMID: 36134711
  • Robles J, Pintado-Berninches L, Boukich I, Escudero B et al. A prognostic six-gene expression risk-score derived from proteomic profiling of the metastatic colorectal cancer secretome. J Pathol Clin Res 2022 Nov;8(6):495-508. PMID: 36134447
  • Fu X, Yang Y, Zhang X et al. A necroptosis -related signature for predicting prognosis and immunotherapy in hepatocellular carcinoma. Front Genet 2022;13:919599. PMID: 36134033
  • Norouzi M, Bakhtiarizadeh MR, Salehi A et al. Investigation of the transability of dietary small non-coding RNAs to animals. Front Genet 2022;13:933709. PMID: 36134021
  • Talbot CD, Walsh MD, Cutty SJ, Elsayed R et al. Eomes function is conserved between zebrafish and mouse and controls left-right organiser progenitor gene expression via interlocking feedforward loops. Front Cell Dev Biol 2022;10:982477. PMID: 36133924
  • Rodden LN, Rummey C, Dong YN, Lagedrost S et al. A non-synonymous single nucleotide polymorphism in SIRT6 predicts neurological severity in Friedreich ataxia. Front Mol Biosci 2022;9:933788. PMID: 36133907
  • Liang Z, Yang J, Wang J, Tian S et al. Systematic analysis of MCM3 in pediatric medulloblastoma via multi-omics analysis. Front Mol Biosci 2022;9:815260. PMID: 36133906
  • Gao Q, Ma X, Qi Z et al. Comprehensive Analysis of Novel Genes and Pathways Associated with Osteogenic Differentiation of Adipose Stem Cells. Dis Markers 2022;2022:4870981. PMID: 36133435
  • Wen J, Aili A, Yan YX, Lai Y et al. OIT3 serves as a novel biomarker of hepatocellular carcinoma by mediating ferroptosis via regulating the arachidonic acid metabolism. Front Oncol 2022;12:977348. PMID: 36132142
  • Tong W, Wenze G, Libing H, Yuchen C et al. Exploration of shared TF-miRNA‒mRNA and mRNA-RBP-pseudogene networks in type 2 diabetes mellitus and breast cancer. Front Immunol 2022;13:915017. PMID: 36131924
  • Yuan H, Qin X, Wang J, Yang Q et al. The cuproptosis-associated 13 gene signature as a robust predictor for outcome and response to immune- and targeted-therapies in clear cell renal cell carcinoma. Front Immunol 2022;13:971142. PMID: 36131921
  • Zhao X, Zhao Y, Jiang Y, Zhang Q et al. Deciphering the endometrial immune landscape of RIF during the window of implantation from cellular senescence by integrated bioinformatics analysis and machine learning. Front Immunol 2022;13:952708. PMID: 36131919
  • Vadnais D, Middleton M, Oluwadare O et al. ParticleChromo3D: a Particle Swarm Optimization algorithm for chromosome 3D structure prediction from Hi-C data. BioData Min 2022 Sep 21;15(1):19. PMID: 36131326
  • Liang Y, He H, Wang W, Wang H et al. Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming. Mol Cancer 2022 Sep 22;21(1):182. PMID: 36131282
  • Smith KS, Bihannic L, Gudenas BL, Haldipur P et al. Unified rhombic lip origins of group 3 and group 4 medulloblastoma. Nature 2022 Sep;609(7929):1012-1020. PMID: 36131015
  • Hendrikse LD, Haldipur P, Saulnier O, Millman J et al. Failure of human rhombic lip differentiation underlies medulloblastoma formation. Nature 2022 Sep;609(7929):1021-1028. PMID: 36131014
  • Hu SS, Liu L, Li Q, Ma W et al. Intrinsic bias estimation for improved analysis of bulk and single-cell chromatin accessibility profiles using SELMA. Nat Commun 2022 Sep 21;13(1):5533. PMID: 36130957
  • Li HT, Xu L, Weisenberger DJ, Li M et al. Characterizing DNA methylation signatures of retinoblastoma using aqueous humor liquid biopsy. Nat Commun 2022 Sep 21;13(1):5523. PMID: 36130950
  • Lin JP, Kelly HM, Song Y, Kawaguchi R et al. Transcriptomic architecture of nuclei in the marmoset CNS. Nat Commun 2022 Sep 21;13(1):5531. PMID: 36130924
  • Zhang X, Lou HE, Gopalan V, Liu Z et al. Single-cell sequencing reveals activation of core transcription factors in PRC2-deficient malignant peripheral nerve sheath tumor. Cell Rep 2022 Sep 20;40(12):111363. PMID: 36130486
  • Yi L, Qiang J, Yichen P, Chunna Y et al. Identification of a 5-gene-based signature to predict prognosis and correlate immunomodulators for rectal cancer. Transl Oncol 2022 Sep 18;26:101529. PMID: 36130456
  • Li J, Cheng C, Xu J, Zhang T et al. The transcriptional coactivator Eya1 exerts transcriptional repressive activity by interacting with REST corepressors and REST-binding sequences to maintain nephron progenitor identity. Nucleic Acids Res 2022 Oct 14;50(18):10343-10359. PMID: 36130284
  • Tran JR, Zheng X, Adam SA, Goldman RD et al. High quality mapping of chromatin at or near the nuclear lamina from small numbers of cells reveals cell cycle and developmental changes of chromatin at the nuclear periphery. Nucleic Acids Res 2022 Nov 11;50(20):e117. PMID: 36130229
  • García-Cruz C, Aragón J, Lourdel S, Annan A et al. Tissue- and cell-specific whole-transcriptome meta-analysis from brain and retina reveals differential expression of dystrophin complexes and new dystrophin spliced isoforms. Hum Mol Genet 2023 Jan 27;32(4):659-676. PMID: 36130212
  • Zhai YJ, Feng Y, Ma X, Ma F et al. Defensins: defenders of human reproductive health. Hum Reprod Update 2023 Jan 5;29(1):126-154. PMID: 36130055
  • Zhang J, Liu R, Mo L, Liu C et al. miR-4478 Accelerates Nucleus Pulposus Cells Apoptosis Induced by Oxidative Stress by Targeting MTH1. Spine (Phila Pa 1976) 2023 Mar 1;48(5):E54-E69. PMID: 36130054
  • Gao S, Li X, Jiang Q, Liang Q et al. PKM2 promotes pulmonary fibrosis by stabilizing TGF-β1 receptor I and enhancing TGF-β1 signaling. Sci Adv 2022 Sep 23;8(38):eabo0987. PMID: 36129984
  • Sun R, Wei T, Ding D, Zhang J et al. CYCLIN K down-regulation induces androgen receptor gene intronic polyadenylation, variant expression and PARP inhibitor vulnerability in castration-resistant prostate cancer. Proc Natl Acad Sci U S A 2022 Sep 27;119(39):e2205509119. PMID: 36129942
  • Walens A, Van Alsten SC, Olsson LT, Smith MA et al. RNA-Based Classification of Homologous Recombination Deficiency in Racially Diverse Patients with Breast Cancer. Cancer Epidemiol Biomarkers Prev 2022 Dec 5;31(12):2136-2147. PMID: 36129803
  • Ferrer-Bonsoms JA, Gimeno M, Olaverri D, Sacristan P et al. EventPointer 3.0: flexible and accurate splicing analysis that includes studying the differential usage of protein-domains. NAR Genom Bioinform 2022 Sep;4(3):lqac067. PMID: 36128425
  • Wang J, Li S, Chen L, Li SC et al. SPROUT: spectral sparsification helps restore the spatial structure at single-cell resolution. NAR Genom Bioinform 2022 Sep;4(3):lqac069. PMID: 36128423
  • Qian G, Liao Q, Li G, Yin F et al. miR-378 associated with proliferation, migration and apoptosis properties in A549 cells and targeted NPNT in COPD. PeerJ 2022;10:e14062. PMID: 36128198
  • Hayward MK, Allen MD, Gomm JJ, Goulding I et al. Mechanostimulation of breast myoepithelial cells induces functional changes associated with DCIS progression to invasion. NPJ Breast Cancer 2022 Sep 20;8(1):109. PMID: 36127361
  • Huang M, Hong M, Hou X, Zhu C et al. H3K9me1/2 methylation limits the lifespan of daf-2 mutants in C. elegans. Elife 2022 Sep 20;11. PMID: 36125117
  • Wang MX, Yan L, Chen J, Zhao JM et al. Reinforced erythroid differentiation inhibits leukemogenic potential of t(8;21) leukemia. FASEB J 2022 Oct;36(10):e22562. PMID: 36125067
  • Leung RWT, Jiang X, Zong X, Zhang Y et al. CORN-Condition Orientated Regulatory Networks: bridging conditions to gene networks. Brief Bioinform 2022 Nov 19;23(6). PMID: 36124777
  • Lan T, Hutvagner G, Zhang X, Liu T et al. Density-based detection of cell transition states to construct disparate and bifurcating trajectories. Nucleic Acids Res 2022 Nov 28;50(21):e122. PMID: 36124665
  • Showpnil IA, Selich-Anderson J, Taslim C, Boone MA et al. EWS/FLI mediated reprogramming of 3D chromatin promotes an altered transcriptional state in Ewing sarcoma. Nucleic Acids Res 2022 Sep 23;50(17):9814-9837. PMID: 36124657
  • Tan Y, Lu S, Wang B, Duan X et al. Single-cell transcriptome atlas reveals protective characteristics of COVID-19 mRNA vaccine. J Med Virol 2023 Jan;95(1):e28161. PMID: 36124363
  • Kim HJ, Li P, Kim T, Oldfield AJ et al. Integrative analysis reveals histone demethylase LSD1 promotes RNA polymerase II pausing. iScience 2022 Oct 21;25(10):105049. PMID: 36124234
  • Bai R, Li Z, Lv S, Hua W et al. Exploring the biological function of immune cell-related genes in human immunodeficiency virus (HIV)-1 infection based on weighted gene co-expression network analysis (WGCNA). BMC Med Genomics 2022 Sep 19;15(1):200. PMID: 36123690
  • Huang S, Hou Y, Hu M, Hu J et al. Clinical significance and oncogenic function of NR1H4 in clear cell renal cell carcinoma. BMC Cancer 2022 Sep 19;22(1):995. PMID: 36123627
  • Zhang K, Feng W, Wang P et al. Identification of spatially variable genes with graph cuts. Nat Commun 2022 Sep 19;13(1):5488. PMID: 36123336
  • Chhatbar K, Connelly J, Webb S, Kriaucionis S et al. A critique of the hypothesis that CA repeats are primary targets of neuronal MeCP2. Life Sci Alliance 2022 Dec;5(12). PMID: 36122935
  • Tu Y, Ding X, Mao Z et al. Identification and verification of the pyroptosis-related prognostic signature and its associated regulatory axis in bladder cancer. Front Cell Dev Biol 2022;10:912008. PMID: 36120583
  • Kumar P, Khadirnaikar S, Bhandari N, Chatterjee A et al. An epithelial-mesenchymal plasticity signature identifies two novel LncRNAs with the opposite regulation. Front Cell Dev Biol 2022;10:885785. PMID: 36120580
  • Liu W, Liu C, You J, Chen Z et al. Pan-cancer analysis identifies YTHDF2 as an immunotherapeutic and prognostic biomarker. Front Cell Dev Biol 2022;10:954214. PMID: 36120577
  • Wu SP, Wang T, Yao ZC, Peavey MC et al. Myometrial progesterone receptor determines a transcription program for uterine remodeling and contractions during pregnancy. PNAS Nexus 2022 Sep;1(4):pgac155. PMID: 36120506
  • Fan L, Xu L, Tian S, Zheng X et al. Identification of a novel histone phosphorylation prognostic signature in hepatocellular carcinoma based on bulk and single-cell RNA sequencing. Front Endocrinol (Lausanne) 2022;13:965445. PMID: 36120466
  • Li X, Gao X, Yuan J, Wang F et al. The miR-33a-5p/CROT axis mediates ovarian cancer cell behaviors and chemoresistance via the regulation of the TGF-β signal pathway. Front Endocrinol (Lausanne) 2022;13:950345. PMID: 36120434
  • Peng H, Zhu E, Wang J, Du X et al. RAB6B is a potential prognostic marker and correlated with the remolding of tumor immune microenvironment in hepatocellular carcinoma. Front Pharmacol 2022;13:989655. PMID: 36120364
  • Tang M, Guo C, Sun M, Zhou H et al. Effective delivery of osteopontin small interference RNA using exosomes suppresses liver fibrosis via TGF-β1 signaling. Front Pharmacol 2022;13:882243. PMID: 36120332
  • Cheng W, Li M, Zhang L, Zhou C et al. New roles of N6-methyladenosine methylation system regulating the occurrence of non-alcoholic fatty liver disease with N6-methyladenosine-modified MYC. Front Pharmacol 2022;13:973116. PMID: 36120320
  • Wei X, Zhang X, Wang S, Wang Y et al. PYCR1 regulates glutamine metabolism to construct an immunosuppressive microenvironment for the progression of clear cell renal cell carcinoma. Am J Cancer Res 2022;12(8):3780-3798. PMID: 36119844
  • Listopad S, Magnan C, Asghar A, Stolz A et al. Differentiating between liver diseases by applying multiclass machine learning approaches to transcriptomics of liver tissue or blood-based samples. JHEP Rep 2022 Oct;4(10):100560. PMID: 36119721
  • Guo K, Zhao J, Jin Q, Yan H et al. CASP6 predicts poor prognosis in glioma and correlates with tumor immune microenvironment. Front Oncol 2022;12:818283. PMID: 36119521
  • Lu T, Xu HR, Dong W, Dong H et al. Expression and prognosis analysis of PAQR5 in kidney cancer. Front Oncol 2022;12:955510. PMID: 36119517
  • Han B, Fang T, Zhang Y, Zhang Y et al. Association of the TGFβ gene family with microenvironmental features of gastric cancer and prediction of response to immunotherapy. Front Oncol 2022;12:920599. PMID: 36119489
  • Lv K, Ying H, Hu G, Hu J et al. Integrated multi-omics reveals the activated retinal microglia with intracellular metabolic reprogramming contributes to inflammation in STZ-induced early diabetic retinopathy. Front Immunol 2022;13:942768. PMID: 36119084
  • Lu L, Liu LP, Gui R, Dong H et al. Discovering common pathogenetic processes between COVID-19 and sepsis by bioinformatics and system biology approach. Front Immunol 2022;13:975848. PMID: 36119022
  • Wang X, Ye F, Xiong M, Xiu B et al. Cross-talk of four types of RNA modification proteins with adenosine reveals the landscape of multivariate prognostic patterns in breast cancer. Front Genet 2022;13:943378. PMID: 36118888
  • Lu M, Feng R, Liu Y, Qin Y et al. Identifying celiac disease-related chemicals by transcriptome-wide association study and chemical-gene interaction analyses. Front Genet 2022;13:990483. PMID: 36118884
  • Liu Z, He J, Hu X et al. Ferroptosis regulators related scoring system by Gaussian finite mixture model to predict prognosis and immunotherapy efficacy in nasopharyngeal carcinoma. Front Genet 2022;13:975190. PMID: 36118882
  • Huo J, Chen Q, Zhang Y, Li N et al. Molecular subtype identification and predictive power of N6-methyladenosine regulator in unexplained recurrent pregnancy loss. Front Genet 2022;13:925652. PMID: 36118846
  • Wang T, Wu Z, Li S, Chen Z et al. Identification of Gefitinib Resistance-Related lncRNA-miRNA-mRNA Regulatory Networks and Corresponding Prognostic Signature in Patients with Lung Adenocarcinoma. Int J Gen Med 2022;15:7155-7168. PMID: 36118184
  • Zhou R, Tian K, Huang J, Duan W et al. CTCF DNA-binding domain undergoes dynamic and selective protein-protein interactions. iScience 2022 Sep 16;25(9):105011. PMID: 36117989
  • Park SR, Kim SR, Kim SK, Park JR et al. A novel role of follicle-stimulating hormone (FSH) in various regeneration-related functions of endometrial stem cells. Exp Mol Med 2022 Sep;54(9):1524-1535. PMID: 36117220
  • Johnson RM, Qu X, Lin CF, Huw LY et al. ARID1A mutations confer intrinsic and acquired resistance to cetuximab treatment in colorectal cancer. Nat Commun 2022 Sep 19;13(1):5478. PMID: 36117191
  • Di Z, Zhou S, Xu G, Ren L et al. Single-cell and WGCNA uncover a prognostic model and potential oncogenes in colorectal cancer. Biol Proced Online 2022 Sep 19;24(1):13. PMID: 36117173
  • Zhou B, Bie F, Zang R, Zhang M et al. RNA modification writer expression profiles predict clinical outcomes and guide neoadjuvant immunotherapy in non-small cell lung cancer. EBioMedicine 2022 Oct;84:104268. PMID: 36116215
  • Xiao RW, Wang F, Wang TM, Zhang JB et al. Rare POLN mutations confer risk for familial nasopharyngeal carcinoma through weakened Epstein-Barr virus lytic replication. EBioMedicine 2022 Oct;84:104267. PMID: 36116213
  • Potolitsyna E, Hazell Pickering S, Tooming-Klunderud A, Collas P et al. De novo annotation of lncRNA HOTAIR transcripts by long-read RNA capture-seq reveals a differentiation-driven isoform switch. BMC Genomics 2022 Sep 17;23(1):658. PMID: 36115964
  • Yang J, Pei G, Sun X, Xiao Y et al. RhoB affects colitis through modulating cell signaling and intestinal microbiome. Microbiome 2022 Sep 16;10(1):149. PMID: 36114582
  • Braun AE, Mitchel OR, Gonzalez TL, Sun T et al. Sex at the interface: the origin and impact of sex differences in the developing human placenta. Biol Sex Differ 2022 Sep 16;13(1):50. PMID: 36114567
  • Cao H, Zhuo R, Zhang Z, Wang J et al. Super-enhancer-associated INSM2 regulates lipid metabolism by modulating mTOR signaling pathway in neuroblastoma. Cell Biosci 2022 Sep 16;12(1):158. PMID: 36114560
  • Ke B, Huang J, Duan Z, Shen W et al. VEGFA promotes the occurrence of PLA2R-associated idiopathic membranous nephropathy by angiogenesis via the PI3K/AKT signalling pathway. BMC Nephrol 2022 Sep 16;23(1):313. PMID: 36114523
  • Paik H, Lee J, Jeong CS, Park JS et al. Identification of a pleiotropic effect of ADIPOQ on cardiac dysfunction and Alzheimer's disease based on genetic evidence and health care records. Transl Psychiatry 2022 Sep 16;12(1):389. PMID: 36114174
  • Wu AC, Vivori C, Patel H, Sideri T et al. RSC and GRFs confer promoter directionality by restricting divergent noncoding transcription. Life Sci Alliance 2022 Sep 16;5(12). PMID: 36114005
  • Tritschler S, Thomas M, Böttcher A, Ludwig B et al. A transcriptional cross species map of pancreatic islet cells. Mol Metab 2022 Dec;66:101595. PMID: 36113773
  • Wang Z, Liu X, Wang W, Wei J et al. A multi‑omics study of diagnostic markers and the unique inflammatory tumor micro‑environment involved in tuberous sclerosis complex‑related renal angiomyolipoma. Int J Oncol 2022 Nov;61(5). PMID: 36111504
  • Chen Y, Chen X, Wang X et al. Identification of a prognostic model using cuproptosis-related genes in uveal melanoma. Front Cell Dev Biol 2022;10:973073. PMID: 36111345
  • Zhu H, Chen Z, Yu J, Wu J et al. MiR-195-5p suppresses the proliferation, migration, and invasion of gallbladder cancer cells by targeting FOSL1 and regulating the Wnt/β-catenin pathway. Ann Transl Med 2022 Aug;10(16):893. PMID: 36111048
  • Xiao J, Liu Z, Wang J, Zhang S et al. Identification of cuprotosis-mediated subtypes, the development of a prognosis model, and influence immune microenvironment in hepatocellular carcinoma. Front Oncol 2022;12:941211. PMID: 36110946
  • Zhang G, Xiao Y, Zhang X, Fan W et al. Dissecting a hypoxia-related angiogenic gene signature for predicting prognosis and immune status in hepatocellular carcinoma. Front Oncol 2022;12:978050. PMID: 36110938
  • Wang W, Lu Z, Wang M, Liu Z et al. The cuproptosis-related signature associated with the tumor environment and prognosis of patients with glioma. Front Immunol 2022;13:998236. PMID: 36110851
  • Janani B, Vijayakumar M, Priya K, Kim JH et al. A network-based pharmacological investigation to identify the mechanistic regulatory pathway of andrographolide against colorectal cancer. Front Pharmacol 2022;13:967262. PMID: 36110531
  • Liang Q, Peng J, Xu Z, Li Z et al. Pan-cancer analysis of the prognosis and immunological role of AKAP12: A potential biomarker for resistance to anti-VEGF inhibitors. Front Genet 2022;13:943006. PMID: 36110213
  • Zhang M, Wang J, Yue H, Zhang L et al. Identification of prognostic biomarkers in the CMTM family genes of human ovarian cancer through bioinformatics analysis and experimental verification. Front Genet 2022;13:918319. PMID: 36110202
  • Zhang L, Li W, Shi B, Zhang X et al. Expression profiles and functions of ferroptosis-related genes in intimal hyperplasia induced by carotid artery ligation in mice. Front Genet 2022;13:964458. PMID: 36110200
  • Büttner FA, Winter S, Stühler V, Rausch S et al. A novel molecular signature identifies mixed subtypes in renal cell carcinoma with poor prognosis and independent response to immunotherapy. Genome Med 2022 Sep 15;14(1):105. PMID: 36109798
  • C Silva T, Zhang W, Young JI, Gomez L et al. Distinct sex-specific DNA methylation differences in Alzheimer's disease. Alzheimers Res Ther 2022 Sep 15;14(1):133. PMID: 36109771
  • Atla G, Bonàs-Guarch S, Cuenca-Ardura M, Beucher A et al. Genetic regulation of RNA splicing in human pancreatic islets. Genome Biol 2022 Sep 15;23(1):196. PMID: 36109769
  • Zan X, Li W, Wang G, Yuan J et al. Circ-CSNK1G1 promotes cell proliferation, migration, invasion and glycolysis metabolism during triple-negative breast cancer progression by modulating the miR-28-5p/LDHA pathway. Reprod Biol Endocrinol 2022 Sep 15;20(1):138. PMID: 36109751
  • Molania R, Foroutan M, Gagnon-Bartsch JA, Gandolfo LC et al. Removing unwanted variation from large-scale RNA sequencing data with PRPS. Nat Biotechnol 2023 Jan;41(1):82-95. PMID: 36109686
  • Lopes AR, Bunin E, Viana AT, Froufe H et al. In silico prediction of the enzymes involved in the degradation of the herbicide molinate by Gulosibacter molinativorax ON4(T). Sci Rep 2022 Sep 15;12(1):15502. PMID: 36109598
  • Hall TD, Kim H, Dabbah M, Myers JA et al. Murine fetal bone marrow does not support functional hematopoietic stem and progenitor cells until birth. Nat Commun 2022 Sep 15;13(1):5403. PMID: 36109585
  • Patel T, Hammelman J, Aziz S, Jang S et al. Transcriptional dynamics of murine motor neuron maturation in vivo and in vitro. Nat Commun 2022 Sep 15;13(1):5427. PMID: 36109497
  • Lipinski M, Niñerola S, Fuentes-Ramos M, Valor LM et al. CBP Is Required for Establishing Adaptive Gene Programs in the Adult Mouse Brain. J Neurosci 2022 Oct 19;42(42):7984-8001. PMID: 36109165
  • Yu W, Moninger TO, Rector MV, Stoltz DA et al. Pulmonary neuroendocrine cells sense succinate to stimulate myoepithelial cell contraction. Dev Cell 2022 Sep 26;57(18):2221-2236.e5. PMID: 36108628
  • Peng S, Stojkov D, Gao J, Oberson K et al. Nascent RHOH acts as a molecular brake on actomyosin-mediated effector functions of inflammatory neutrophils. PLoS Biol 2022 Sep;20(9):e3001794. PMID: 36108062
  • Friskes A, Koob L, Krenning L, Severson TM et al. Double-strand break toxicity is chromatin context independent. Nucleic Acids Res 2022 Sep 23;50(17):9930-9947. PMID: 36107780
  • Tan T, Tan Y, Wang Y, Yang X et al. Negative supercoils regulate meiotic crossover patterns in budding yeast. Nucleic Acids Res 2022 Oct 14;50(18):10418-10435. PMID: 36107772
  • Lyu R, Tsui V, Crismani W, Liu R et al. sgcocaller and comapr: personalised haplotype assembly and comparative crossover map analysis using single-gamete sequencing data. Nucleic Acids Res 2022 Nov 11;50(20):e118. PMID: 36107768
  • Monterisi S, Michl J, Hulikova A, Koth J et al. Solute exchange through gap junctions lessens the adverse effects of inactivating mutations in metabolite-handling genes. Elife 2022 Sep 15;11. PMID: 36107487
  • Lee J, Kim H, Kim M, Yoon S et al. Role of lymphoid lineage cells aberrantly expressing alarmins S100A8/A9 in determining the severity of COVID-19. Genes Genomics 2023 Mar;45(3):337-346. PMID: 36107397
  • Tu Q, Li Y, Zhu J, Guo L et al. Mitochondrial DNA mediates immunoparalysis of dendritic cells in sepsis via STING signalling. Cell Prolif 2022 Dec;55(12):e13328. PMID: 36106559
  • Tang H, Shan J, Liu J, Wang X et al. Molecular subtypes, clinical significance, and tumor immune landscape of angiogenesis-related genes in ovarian cancer. Front Oncol 2022;12:995929. PMID: 36106103
  • Magnusson R, Rundquist O, Kim MJ, Hellberg S et al. RNA-sequencing and mass-spectrometry proteomic time-series analysis of T-cell differentiation identified multiple splice variants models that predicted validated protein biomarkers in inflammatory diseases. Front Mol Biosci 2022;9:916128. PMID: 36106020
  • Xia L, Gong N et al. Identification and verification of ferroptosis-related genes in the synovial tissue of osteoarthritis using bioinformatics analysis. Front Mol Biosci 2022;9:992044. PMID: 36106017
  • Zhao J, Chen Y et al. Systematic identification of cancer-associated-fibroblast-derived genes in patients with colorectal cancer based on single-cell sequencing and transcriptomics. Front Immunol 2022;13:988246. PMID: 36105798
  • Erlandsson MC, Erdogan S, Wasén C, Andersson KME et al. IGF1R signalling is a guardian of self-tolerance restricting autoantibody production. Front Immunol 2022;13:958206. PMID: 36105797
  • Liu Q, Zhao H, Guo Y, Zhang K et al. Bioinformatics-Based Analysis: Noncoding RNA-Mediated COL10A1 Is Associated with Poor Prognosis and Immune Cell Infiltration in Pancreatic Cancer. J Healthc Eng 2022;2022:7904982. PMID: 36105715
  • Hu Y, Han J, Ding S, Liu S et al. Identification of ferroptosis-associated biomarkers for the potential diagnosis and treatment of postmenopausal osteoporosis. Front Endocrinol (Lausanne) 2022;13:986384. PMID: 36105394
  • Chen X, He Q, Zeng S, Xu Z et al. Upregulation of nuclear division cycle 80 contributes to therapeutic resistance via the promotion of autophagy-related protein-7-dependent autophagy in lung cancer. Front Pharmacol 2022;13:985601. PMID: 36105209
  • Wang X, Almet AA, Nie Q et al. Analyzing network diversity of cell-cell interactions in COVID-19 using single-cell transcriptomics. Front Genet 2022;13:948508. PMID: 36105110
  • Zhang J, Deng J, Feng X, Tan Y et al. Hierarchical identification of a transcriptional panel for the histological diagnosis of lung neuroendocrine tumors. Front Genet 2022;13:944167. PMID: 36105102
  • Huan S, Chen M, Sun S, Zhong Y et al. Identification of a 5-lncRNA-Based Signature for Immune Characteristics and Prognosis of Lung Squamous Cell Carcinoma and Verification of the Function of lncRNA SPATA41. Front Genet 2022;13:905353. PMID: 36105081
  • Zhang Y, Guo K, Zhang P, Zhang M et al. Exploring the mechanism of YangXue QingNao Wan based on network pharmacology in the treatment of Alzheimer's disease. Front Genet 2022;13:942203. PMID: 36105078
  • Tong F, Xu L, Xu S, Zhang M et al. Identification of an autophagy-related 12-lncRNA signature and evaluation of NFYC-AS1 as a pro-cancer factor in lung adenocarcinoma. Front Genet 2022;13:834935. PMID: 36105077
  • Chen Q, Du X et al. FGF/FGFR-related lncRNAs based classification predicts prognosis and guides therapy in gastric cancer. Front Genet 2022;13:948102. PMID: 36105076
  • Ji P, Shan X, Wang J, Zhang P et al. Integrative analysis of CBR1 as a prognostic factor associated with IDH-mutant glioblastoma in the Chinese population. Am J Transl Res 2022;14(8):5394-5408. PMID: 36105052
  • Macchi F, Edsinger E, Sadler KC et al. Epigenetic machinery is functionally conserved in cephalopods. BMC Biol 2022 Sep 14;20(1):202. PMID: 36104784
  • Yokomizo T, Ideue T, Morino-Koga S, Tham CY et al. Independent origins of fetal liver haematopoietic stem and progenitor cells. Nature 2022 Sep;609(7928):779-784. PMID: 36104564
  • Rukhlenko OS, Halasz M, Rauch N, Zhernovkov V et al. Control of cell state transitions. Nature 2022 Sep;609(7929):975-985. PMID: 36104561
  • Zhao X, Bartholdy B, Yamamoto Y, Evans EK et al. PU.1-c-Jun interaction is crucial for PU.1 function in myeloid development. Commun Biol 2022 Sep 14;5(1):961. PMID: 36104445
  • Wang C, Lue W, Kaalia R, Kumar P et al. Network-based integration of multi-omics data for clinical outcome prediction in neuroblastoma. Sci Rep 2022 Sep 14;12(1):15425. PMID: 36104347
  • Chen C, Park B, Ragonnaud E, Bodogai M et al. Cancer co-opts differentiation of B-cell precursors into macrophage-like cells. Nat Commun 2022 Sep 14;13(1):5376. PMID: 36104343
  • López-Martínez C, Martín-Vicente P, Gómez de Oña J, López-Alonso I et al. Transcriptomic clustering of critically ill COVID-19 patients. Eur Respir J 2023 Jan;61(1). PMID: 36104291
  • Yan G, Luna A, Wang H, Bozorgui B et al. BET inhibition induces vulnerability to MCL1 targeting through upregulation of fatty acid synthesis pathway in breast cancer. Cell Rep 2022 Sep 13;40(11):111304. PMID: 36103824
  • Li K, Tan L, Li Y, Lyu Y et al. Cuproptosis identifies respiratory subtype of renal cancer that confers favorable prognosis. Apoptosis 2022 Dec;27(11-12):1004-1014. PMID: 36103026
  • Tang Y, Aryal S, Geng X, Zhou X et al. TBX20 Improves Contractility and Mitochondrial Function During Direct Human Cardiac Reprogramming. Circulation 2022 Nov 15;146(20):1518-1536. PMID: 36102189
  • Jeon M, Xie Z, Evangelista JE, Wojciechowicz ML et al. Transforming L1000 profiles to RNA-seq-like profiles with deep learning. BMC Bioinformatics 2022 Sep 13;23(1):374. PMID: 36100892
  • Bao M, Cornwall-Scoones J, Sanchez-Vasquez E, Cox AL et al. Stem cell-derived synthetic embryos self-assemble by exploiting cadherin codes and cortical tension. Nat Cell Biol 2022 Sep;24(9):1341-1349. PMID: 36100738
  • Rai S, Grockowiak E, Hansen N, Luque Paz D et al. Inhibition of interleukin-1β reduces myelofibrosis and osteosclerosis in mice with JAK2-V617F driven myeloproliferative neoplasm. Nat Commun 2022 Sep 13;13(1):5346. PMID: 36100613
  • Rahman MF, Yang Y, Le BT, Dutta A et al. Interleukin-1 contributes to clonal expansion and progression of bone marrow fibrosis in JAK2V617F-induced myeloproliferative neoplasm. Nat Commun 2022 Sep 13;13(1):5347. PMID: 36100596
  • Lei Q, Yu Z, Li H, Cheng J et al. Fatty acid-binding protein 5 aggravates pulmonary artery fibrosis in pulmonary hypertension secondary to left heart disease via activating wnt/β-catenin pathway. J Adv Res 2022 Sep;40:197-206. PMID: 36100327
  • Wang X, Yu J, Liu X, Luo D et al. PSMG2-controlled proteasome-autophagy balance mediates the tolerance for MEK-targeted therapy in triple-negative breast cancer. Cell Rep Med 2022 Sep 20;3(9):100741. PMID: 36099919
  • Mirlekar B, Wang Y, Li S, Zhou M et al. Balance between immunoregulatory B cells and plasma cells drives pancreatic tumor immunity. Cell Rep Med 2022 Sep 20;3(9):100744. PMID: 36099917
  • Li H, Perino A, Huang Q, Von Alvensleben GVG et al. Integrative systems analysis identifies genetic and dietary modulators of bile acid homeostasis. Cell Metab 2022 Oct 4;34(10):1594-1610.e4. PMID: 36099916
  • Seudre O, Martín-Zamora FM, Rapisarda V, Luqman I et al. The Fox Gene Repertoire in the Annelid Owenia fusiformis Reveals Multiple Expansions of the foxQ2 Class in Spiralia. Genome Biol Evol 2022 Oct 7;14(10). PMID: 36099507
  • Cai Y, Zeng R, Peng J, Liu W et al. The downregulated drug-metabolism related ALDH6A1 serves as predictor for prognosis and therapeutic immune response in gastric cancer. Aging (Albany NY) 2022 Sep 12;14(17):7038-7051. PMID: 36098688
  • Sherlock D, Fogg PCM et al. Loss of the Rhodobacter capsulatus Serine Acetyl Transferase Gene, cysE1, Impairs Gene Transfer by Gene Transfer Agents and Biofilm Phenotypes. Appl Environ Microbiol 2022 Oct 11;88(19):e0094422. PMID: 36098534
  • Kim M, Hui KM, Shi M, Reau N et al. Differential expression of hepatic cancer stemness and hypoxia markers in residual cancer after locoregional therapies for hepatocellular carcinoma. Hepatol Commun 2022 Nov;6(11):3247-3259. PMID: 36097402
  • Figlia G, Müller S, Hagenston AM, Kleber S et al. Brain-enriched RagB isoforms regulate the dynamics of mTORC1 activity through GATOR1 inhibition. Nat Cell Biol 2022 Sep;24(9):1407-1421. PMID: 36097071
  • Muto K, Tsuchiya I, Kim SH, Nagasawa S et al. Semibulk RNA-seq analysis as a convenient method for measuring gene expression statuses in a local cellular environment. Sci Rep 2022 Sep 12;12(1):15309. PMID: 36097044
  • Uddin MDM, Nguyen NQH, Yu B, Brody JA et al. Clonal hematopoiesis of indeterminate potential, DNA methylation, and risk for coronary artery disease. Nat Commun 2022 Sep 12;13(1):5350. PMID: 36097025
  • Poetz F, Lebedeva S, Schott J, Lindner D et al. Control of immediate early gene expression by CPEB4-repressor complex-mediated mRNA degradation. Genome Biol 2022 Sep 12;23(1):193. PMID: 36096941
  • Bao S, Zhou T, Yan C, Bao J et al. A blood-based miRNA signature for early non-invasive diagnosis of preeclampsia. BMC Med 2022 Sep 13;20(1):303. PMID: 36096786
  • Meng X, Li W, Yuan H, Dong W et al. KDELR2-KIF20A axis facilitates bladder cancer growth and metastasis by enhancing Golgi-mediated secretion. Biol Proced Online 2022 Sep 12;24(1):12. PMID: 36096734
  • Devlin MJ, Miller R, Laforets F, Kotantaki P et al. The Tumor Microenvironment of Clear-Cell Ovarian Cancer. Cancer Immunol Res 2022 Nov 2;10(11):1326-1339. PMID: 36095166
  • Anil AT, Choudhary K, Pandian R, Gupta P et al. Splicing of branchpoint-distant exons is promoted by Cactin, Tls1 and the ubiquitin-fold-activated Sde2. Nucleic Acids Res 2022 Sep 23;50(17):10000-10014. PMID: 36095128
  • Hino Y, Nagaoka K, Oki S, Etoh K et al. Mitochondrial stress induces AREG expression and epigenomic remodeling through c-JUN and YAP-mediated enhancer activation. Nucleic Acids Res 2022 Sep 23;50(17):9765-9779. PMID: 36095121
  • Laloum D, Robinson-Rechavi M et al. Rhythmicity is linked to expression cost at the protein level but to expression precision at the mRNA level. PLoS Comput Biol 2022 Sep;18(9):e1010399. PMID: 36095022
  • Yuan Y, Cosme C Jr, Adams TS, Schupp J et al. CINS: Cell Interaction Network inference from Single cell expression data. PLoS Comput Biol 2022 Sep;18(9):e1010468. PMID: 36095011
  • Xu Y, Begoli E, McCord RP et al. sciCAN: single-cell chromatin accessibility and gene expression data integration via cycle-consistent adversarial network. NPJ Syst Biol Appl 2022 Sep 12;8(1):33. PMID: 36089620
  • Wang T, Xiao Y, Zhang J, Jing F et al. Dynamic regulation of HIF-1 signaling in the rhesus monkey heart after ischemic injury. BMC Cardiovasc Disord 2022 Sep 11;22(1):407. PMID: 36089604
  • Woschitz V, Mei I, Hedlund E, Murray LM et al. Mouse models of SMA show divergent patterns of neuronal vulnerability and resilience. Skelet Muscle 2022 Sep 12;12(1):22. PMID: 36089582
  • Han W, Cheng Y, Chen J, Zhong H et al. Self-supervised contrastive learning for integrative single cell RNA-seq data analysis. Brief Bioinform 2022 Sep 20;23(5). PMID: 36089561
  • Siddaway R, Milos S, Coyaud É, Yun HY et al. The in vivo Interaction Landscape of Histones H3.1 and H3.3. Mol Cell Proteomics 2022 Oct;21(10):100411. PMID: 36089195
  • Gable AL, Szklarczyk D, Lyon D, Matias Rodrigues JF et al. Systematic assessment of pathway databases, based on a diverse collection of user-submitted experiments. Brief Bioinform 2022 Sep 20;23(5). PMID: 36088548
  • Bobowski-Gerard M, Boulet C, Zummo FP, Dubois-Chevalier J et al. Functional genomics uncovers the transcription factor BNC2 as required for myofibroblastic activation in fibrosis. Nat Commun 2022 Sep 10;13(1):5324. PMID: 36088459
  • Ratanayotha A, Matsuda M, Kimura Y, Takenaga F et al. Voltage-sensing phosphatase (Vsp) regulates endocytosis-dependent nutrient absorption in chordate enterocytes. Commun Biol 2022 Sep 10;5(1):948. PMID: 36088390
  • Fernández-Torras A, Duran-Frigola M, Bertoni M, Locatelli M et al. Integrating and formatting biomedical data as pre-calculated knowledge graph embeddings in the Bioteque. Nat Commun 2022 Sep 9;13(1):5304. PMID: 36085310
  • Hattori EY, Masuda T, Mineharu Y, Mikami M et al. A RUNX-targeted gene switch-off approach modulates the BIRC5/PIF1-p21 pathway and reduces glioblastoma growth in mice. Commun Biol 2022 Sep 9;5(1):939. PMID: 36085167
  • Hinze C, Kocks C, Leiz J, Karaiskos N et al. Single-cell transcriptomics reveals common epithelial response patterns in human acute kidney injury. Genome Med 2022 Sep 9;14(1):103. PMID: 36085050
  • He X, Wang J, Yu H, Lv W et al. Clinical significance for diagnosis and prognosis of POP1 and its potential role in breast cancer: a comprehensive analysis based on multiple databases. Aging (Albany NY) 2022 Sep 9;14(17):6936-6956. PMID: 36084948
  • He Q, Yuan R, Zhang T, An F et al. Arabidopsis TIE1 and TIE2 transcriptional repressors dampen cytokinin response during root development. Sci Adv 2022 Sep 9;8(36):eabn5057. PMID: 36083905
  • Li Z, Wang Y, Ganan-Gomez I, Colla S et al. A machine learning-based method for automatically identifying novel cells in annotating single-cell RNA-seq data. Bioinformatics 2022 Oct 31;38(21):4885-4892. PMID: 36083008
  • Li Z, Solomonidis EG, Berkeley B, Tang MNH et al. Multi-species meta-analysis identifies transcriptional signatures associated with cardiac endothelial responses in the ischaemic heart. Cardiovasc Res 2023 Mar 17;119(1):136-154. PMID: 36082978
  • Lu Y, Chen X, Liu F, Yu H et al. Systematic pan‑cancer analysis identifies CDC45 as having an oncogenic role in human cancers. Oncol Rep 2022 Oct;48(4). PMID: 36082823
  • Bozukova M, Nikopoulou C, Kleinenkuhnen N, Grbavac D et al. Aging is associated with increased chromatin accessibility and reduced polymerase pausing in liver. Mol Syst Biol 2022 Sep;18(9):e11002. PMID: 36082605
  • Yang J, Fan Y, Liu S et al. ATF3 as a potential diagnostic marker of early-stage osteoarthritis and its correlation with immune infiltration through bioinformatics analysis. Bone Joint Res 2022 Sep;11(9):679-689. PMID: 36082523
  • Schinke H, Shi E, Lin Z, Quadt T et al. A transcriptomic map of EGFR-induced epithelial-to-mesenchymal transition identifies prognostic and therapeutic targets for head and neck cancer. Mol Cancer 2022 Sep 8;21(1):178. PMID: 36076232
  • Huyghe A, Furlan G, Schroeder J, Cascales E et al. Comparative roadmaps of reprogramming and oncogenic transformation identify Bcl11b and Atoh8 as broad regulators of cellular plasticity. Nat Cell Biol 2022 Sep;24(9):1350-1363. PMID: 36075976
  • Wang M, Fu X, Wang W, Zhang Y et al. Comprehensive bioinformatics analysis confirms RBMS3 as the central candidate biological target for ovarian cancer. Med Eng Phys 2022 Dec;110:103883. PMID: 36075788
  • Pourgholamali B, Sohrabi B, Salbi M, Akbari S et al. Bioinformatic Analysis Divulged Novel Prognostic Circulating MicroRNAs and Their Potential Target Genes in Breast Cancer. Appl Biochem Biotechnol 2023 Jan;195(1):283-297. PMID: 36074234
  • Ramdas B, Lakshmi Reddy P, Mali RS, Pasupuleti SK et al. Combined heterozygosity of FLT3 ITD, TET2, and DNMT3A results in aggressive leukemia. JCI Insight 2022 Sep 8;7(17). PMID: 36073548
  • Hong H, Zhu H, Li C, Zang C et al. [FNDC1 is highly expressed in lung adenocarcinoma and closely related with poor prognosis]. Nan Fang Yi Ke Da Xue Xue Bao 2022 Aug 20;42(8):1182-1190. PMID: 36073217
  • Zong WF, Liu C, Zhang Y, Zhang SJ et al. Identification of a Signature for Predicting Prognosis and Immunotherapy Response in Patients with Glioma. J Oncol 2022;2022:8615949. PMID: 36072978
  • He Y, Cong L, He Q, Feng N et al. Development and validation of immune-based biomarkers and deep learning models for Alzheimer's disease. Front Genet 2022;13:968598. PMID: 36072674
  • Yan C, Liu C, Wu Z, Dai Y et al. A Novel Approach: Combining Prognostic Models and Network Pharmacology to Target Breast Cancer Necroptosis-Associated Genes. Front Genet 2022;13:897538. PMID: 36072666
  • Song C, Lin W, Meng H, Li N et al. Integrated Analysis Reveals the Potential Significance of HDAC Family Genes in Lung Adenocarcinoma. Front Genet 2022;13:862977. PMID: 36072664
  • Wei RQ, Zhang WM, Liang Z, Piao C et al. Identification of Signal Pathways and Hub Genes of Pulmonary Arterial Hypertension by Bioinformatic Analysis. Can Respir J 2022;2022:1394088. PMID: 36072642
  • Ran Y, Chen R, Huang D, Qin Y et al. The landscape of circular RNA in preterm birth. Front Immunol 2022;13:879487. PMID: 36072601
  • Zhu Z, Li G, Li Z, Wu Y et al. Core immune cell infiltration signatures identify molecular subtypes and promote precise checkpoint immunotherapy in cutaneous melanoma. Front Immunol 2022;13:914612. PMID: 36072600
  • Lou X, Zhao K, Xu J, Shuai L et al. CCL8 as a promising prognostic factor in diffuse large B-cell lymphoma via M2 macrophage interactions: A bioinformatic analysis of the tumor microenvironment. Front Immunol 2022;13:950213. PMID: 36072582
  • Liu ZY, Zhang DY, Lin XH, Sun JL et al. Nalidixic acid potentiates the antitumor activity in sorafenib-resistant hepatocellular carcinoma via the tumor immune microenvironment analysis. Front Pharmacol 2022;13:952482. PMID: 36071851
  • Yu W, Wang T, Wu F, Zhang Y et al. Identification and validation of key biomarkers for the early diagnosis of diabetic kidney disease. Front Pharmacol 2022;13:931282. PMID: 36071835
  • Deng S, Zhang J, Su J, Zuo Z et al. RNA m(6)A regulates transcription via DNA demethylation and chromatin accessibility. Nat Genet 2022 Sep;54(9):1427-1437. PMID: 36071173
  • Lyu M, Suzuki H, Kang L, Gaspal F et al. ILC3s select microbiota-specific regulatory T cells to establish tolerance in the gut. Nature 2022 Oct;610(7933):744-751. PMID: 36071169
  • Kedmi R, Najar TA, Mesa KR, Grayson A et al. A RORγt(+) cell instructs gut microbiota-specific T(reg) cell differentiation. Nature 2022 Oct;610(7933):737-743. PMID: 36071167
  • Akagbosu B, Tayyebi Z, Shibu G, Paucar Iza YA et al. Novel antigen-presenting cell imparts T(reg)-dependent tolerance to gut microbiota. Nature 2022 Oct;610(7933):752-760. PMID: 36070798
  • García-Rocha R, Monroy-García A, Carrera-Martínez M, Hernández-Montes J et al. Evidence that cervical cancer cells cultured as tumorspheres maintain high CD73 expression and increase their protumor characteristics through TGF-β production. Cell Biochem Funct 2022 Oct;40(7):760-772. PMID: 36070413
  • Siddaway R, Canty L, Pajovic S, Milos S et al. Oncohistone interactome profiling uncovers contrasting oncogenic mechanisms and identifies potential therapeutic targets in high grade glioma. Acta Neuropathol 2022 Nov;144(5):1027-1048. PMID: 36070144
  • Dings MPG, Manoukian P, Waasdorp C, Quik JSE et al. Serum levels of iCAF-derived osteoglycin predict favorable outcome in pancreatic cancer. Int J Cancer 2023 Feb 1;152(3):511-523. PMID: 36069222
  • deAndrés-Galiana EJ, Fernández-Martínez JL, Álvarez-Machancoses Ó, Bea G et al. Analysis of transcriptomic responses to SARS-CoV-2 reveals plausible defective pathways responsible for increased susceptibility to infection and complications and helps to develop fast-track repositioning of drugs against COVID-19. Comput Biol Med 2022 Oct;149:106029. PMID: 36067633
  • Abdelwahab O, Awad N, Elserafy M, Badr E et al. A feature selection-based framework to identify biomarkers for cancer diagnosis: A focus on lung adenocarcinoma. PLoS One 2022;17(9):e0269126. PMID: 36067196
  • Marangoni RG, Datta P, Paine A, Duemmel S et al. Thy-1 plays a pathogenic role and is a potential biomarker for skin fibrosis in scleroderma. JCI Insight 2022 Oct 10;7(19). PMID: 36066980
  • Li J, Han T, Li Z, Han H et al. A Novel circRNA hsa_circRNA_002178 as a Diagnostic Marker in Hepatocellular Carcinoma Enhances Cell Proliferation, Invasion, and Tumor Growth by Stabilizing SRSF1 Expression. J Oncol 2022;2022:4184034. PMID: 36065311
  • Zou J, Li Z, Xie J, Wu Z et al. Methylation Drives SLC2A1 Transcription and Ferroptosis Process Decreasing Autophagy Pressure in Colon Cancer. J Oncol 2022;2022:9077424. PMID: 36065306
  • Wang K, Bao JP, Zhou ZM, Mao L et al. CircRNA-Associated ceRNA Network Reveals Focal Adhesion and Metabolism Pathways in Neuropathic Pain. J Oncol 2022;2022:7246904. PMID: 36065302
  • Todorov H, Prieux M, Laubreton D, Bouvier M et al. CD8 memory precursor cell generation is a continuous process. iScience 2022 Sep 16;25(9):104927. PMID: 36065187
  • Feng T, Zhao X, Gu P, Yang W et al. Adipocyte-derived lactate is a signalling metabolite that potentiates adipose macrophage inflammation via targeting PHD2. Nat Commun 2022 Sep 5;13(1):5208. PMID: 36064857
  • Asthana P, Kumar G, Milanowski LM, Au NPB et al. Cerebellar glutamatergic system impacts spontaneous motor recovery by regulating Gria1 expression. NPJ Regen Med 2022 Sep 5;7(1):45. PMID: 36064798
  • Adhikary S, Singh V, Choudhari R, Yang B et al. ZMYND8 suppresses MAPT213 LncRNA transcription to promote neuronal differentiation. Cell Death Dis 2022 Sep 5;13(9):766. PMID: 36064715
  • Lei K, Luo M, Tu Z, Lv S et al. Comprehensive analysis of the prognostic implications and functional exploration of PAK gene family in human cancer. Cancer Cell Int 2022 Sep 5;22(1):275. PMID: 36064705
  • Ranek JS, Stanley N, Purvis JE et al. Integrating temporal single-cell gene expression modalities for trajectory inference and disease prediction. Genome Biol 2022 Sep 5;23(1):186. PMID: 36064614
  • Voloudakis G, Vicari JM, Venkatesh S, Hoffman GE et al. A translational genomics approach identifies IL10RB as the top candidate gene target for COVID-19 susceptibility. NPJ Genom Med 2022 Sep 5;7(1):52. PMID: 36064543
  • Li Y, Zhao J, Chen R, Chen S et al. Integration of clinical and transcriptomics reveals programming of the lipid metabolism in gastric cancer. BMC Cancer 2022 Sep 6;22(1):955. PMID: 36064336
  • Bondhus L, Wei A, Arboleda VA et al. DMRscaler: a scale-aware method to identify regions of differential DNA methylation spanning basepair to multi-megabase features. BMC Bioinformatics 2022 Sep 5;23(1):364. PMID: 36064314
  • Song B, Wang X, Liang Z, Ma J et al. RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res 2023 Jan 6;51(D1):D1388-D1396. PMID: 36062570
  • Dabin R, Wei C, Liang S, Ke C et al. Astrocytic IGF-1 and IGF-1R Orchestrate Mitophagy in Traumatic Brain Injury via Exosomal miR-let-7e. Oxid Med Cell Longev 2022;2022:3504279. PMID: 36062186
  • Zhao Y, Xie YZ, Liu YS et al. Accelerated aging-related transcriptome alterations in neurovascular unit cells in the brain of Alzheimer's disease. Front Aging Neurosci 2022;14:949074. PMID: 36062157
  • Li D, Liang J, Guo W, Zhang Y et al. Integrative analysis of DNA methylation and gene expression data for the diagnosis and underlying mechanism of Parkinson's disease. Front Aging Neurosci 2022;14:971528. PMID: 36062142
  • Li W, Lu J, Yang C, Xia S et al. Identification of receptor-like proteins induced by Sclerotinia sclerotiorum in Brassica napus. Front Plant Sci 2022;13:944763. PMID: 36061811
  • Imran M, Shafiq S, Ilahi S, Ghahramani A et al. Post-transcriptional regulation of 2-acetyl-1-pyrroline (2-AP) biosynthesis pathway, silicon, and heavy metal transporters in response to Zn in fragrant rice. Front Plant Sci 2022;13:948884. PMID: 36061781
  • Zhang J, Zhang L et al. Bioinformatics approach to identify the influences of SARS-COV2 infections on atherosclerosis. Front Cardiovasc Med 2022;9:907665. PMID: 36061537
  • Yang Z, Yang J, Mao Y, Li MD et al. Investigation of the genetic effect of 56 tobacco-smoking susceptibility genes on DNA methylation and RNA expression in human brain. Front Psychiatry 2022;13:924062. PMID: 36061282
  • Dong L, Zhang R, Huang Q, Shen Y et al. Construction, bioinformatics analysis, and validation of competitive endogenous RNA networks in ulcerative colitis. Front Genet 2022;13:951243. PMID: 36061211
  • Lin Y, Chu S, Xu X, Han X et al. Identification of Nitrogen Starvation-Responsive miRNAs to Reveal the miRNA-Mediated Regulatory Network in Betula luminifera. Front Genet 2022;13:957505. PMID: 36061195
  • Mao Y, Hu Z, Xu X, Xu J et al. Identification of a prognostic model based on costimulatory molecule-related subtypes and characterization of tumor microenvironment infiltration in acute myeloid leukemia. Front Genet 2022;13:973319. PMID: 36061194
  • Ding Y, Yang X, Han X, Shi M et al. Ferroptosis-related gene expression in the pathogenesis of preeclampsia. Front Genet 2022;13:927869. PMID: 36061193
  • Zhang L, Sun F, Lu X, Wang X et al. Molecular characteristics of immunocytes infiltration in primary central nervous system lymphoma. Front Genet 2022;13:921823. PMID: 36061189
  • Yang X, Li Q et al. Pan-Cancer Analysis of the Oncogenic and Immunological Role of Solute Carrier Family 6 Member 8 (SLC6A8). Front Genet 2022;13:916439. PMID: 36061183
  • Zhao Y, Wang D, Liang Y, Xu C et al. Expression profiles analysis identifies specific interferon-stimulated signatures as potential diagnostic and predictive indicators of JAK2V617F (+) myelofibrosis. Front Genet 2022;13:927018. PMID: 36061178
  • Chen L, Gu H, Zhou L, Wu J et al. Integrating cell cycle score for precise risk stratification in ovarian cancer. Front Genet 2022;13:958092. PMID: 36061171
  • Gao Q, Ma C, Meng S, Wang G et al. Exploration of molecular features of PCOS with different androgen levels and immune-related prognostic biomarkers associated with implantation failure. Front Endocrinol (Lausanne) 2022;13:946504. PMID: 36060967
  • Banaras S, Paracha RZ, Nisar M, Arif A et al. System level modeling and analysis of TNF-α mediated sphingolipid signaling pathway in neurological disorders for the prediction of therapeutic targets. Front Physiol 2022;13:872421. PMID: 36060699
  • Zhang X, Li X, Gu J, Guo J et al. Integrative Analyses of Biomarkers Associated with Endoplasmic Reticulum Stress in Ischemic Stroke. Comput Math Methods Med 2022;2022:4212180. PMID: 36060663
  • Braun M, Shoshani S, Tabach Y et al. Transcriptome changes in DM1 patients' tissues are governed by the RNA interference pathway. Front Mol Biosci 2022;9:955753. PMID: 36060259
  • Fan X, Xie F, Zhang L, Tong C et al. Identification of immune-related ferroptosis prognostic marker and in-depth bioinformatics exploration of multi-omics mechanisms in thyroid cancer. Front Mol Biosci 2022;9:961450. PMID: 36060256
  • Zhang H, He Z, Qiu L, Wei J et al. PRR11 promotes cell proliferation by regulating PTTG1 through interacting with E2F1 transcription factor in pan-cancer. Front Mol Biosci 2022;9:877320. PMID: 36060253
  • Olgun G, Gopalan V, Hannenhalli S et al. miRSCAPE - inferring miRNA expression from scRNA-seq data. iScience 2022 Sep 16;25(9):104962. PMID: 36060076
  • Sahoo S, Mishra A, Diehl AM, Jolly MK et al. Dynamics of hepatocyte-cholangiocyte cell-fate decisions during liver development and regeneration. iScience 2022 Sep 16;25(9):104955. PMID: 36060070
  • Wei N, Chao-Yang G, Wen-Ming Z, Ze-Yuan L et al. A ubiquitin-related gene signature for predicting prognosis and constructing molecular subtypes in osteosarcoma. Front Pharmacol 2022;13:904448. PMID: 36060009
  • Lin J, Li SW, Zhang J, Chu FH et al. Qu-Du-San-Jie decoction induces growth inhibition and vascular normalization in NF2-associated vestibular schwannoma. Front Pharmacol 2022;13:941854. PMID: 36059985
  • Cao H, Rao X, Jia J, Yan T et al. Exploring the pathogenesis of diabetic kidney disease by microarray data analysis. Front Pharmacol 2022;13:932205. PMID: 36059966
  • Wang Z, Liu J, Li M, Lian L et al. Integrated bioinformatics analysis uncovers characteristic genes and molecular subtyping system for endometriosis. Front Pharmacol 2022;13:932526. PMID: 36059959
  • Lai Y, Lin X, Lin C, Lin X et al. Identification of endoplasmic reticulum stress-associated genes and subtypes for prediction of Alzheimer's disease based on interpretable machine learning. Front Pharmacol 2022;13:975774. PMID: 36059957
  • Sachdeva R, Kaur N, Kapoor P, Singla P et al. Computational analysis of protein-protein interaction network of differentially expressed genes in benign prostatic hyperplasia. Mol Biol Res Commun 2022 Jun;11(2):85-96. PMID: 36059933
  • Yanwei L, He F, Liu S, Pan Z et al. Systematic Analysis of Molecular Subtypes and Immune Prediction Based on CD8 T Cell Pattern Genes Based on Head and Neck Cancer. J Oncol 2022;2022:1500493. PMID: 36059811
  • Jo Y, Yeo MK, Dao T, Kwon J et al. Machine learning-featured Secretogranin V is a circulating diagnostic biomarker for pancreatic adenocarcinomas associated with adipopenia. Front Oncol 2022;12:942774. PMID: 36059698
  • Song B, Chi H, Peng G, Song Y et al. Characterization of coagulation-related gene signature to predict prognosis and tumor immune microenvironment in skin cutaneous melanoma. Front Oncol 2022;12:975255. PMID: 36059641
  • He F, Guo Q, Jiang GX, Zhou Y et al. Comprehensive analysis of m(6)A circRNAs identified in colorectal cancer by MeRIP sequencing. Front Oncol 2022;12:927810. PMID: 36059637
  • Geng S, Fu Y, Fu S, Wu K et al. A tumor microenvironment-related risk model for predicting the prognosis and tumor immunity of breast cancer patients. Front Immunol 2022;13:927565. PMID: 36059555
  • Meng XW, Cheng ZL, Lu ZY, Tan YN et al. MX2: Identification and systematic mechanistic analysis of a novel immune-related biomarker for systemic lupus erythematosus. Front Immunol 2022;13:978851. PMID: 36059547
  • Xie L, Wu S, He R, Li S et al. Identification of epigenetic dysregulation gene markers and immune landscape in kidney renal clear cell carcinoma by comprehensive genomic analysis. Front Immunol 2022;13:901662. PMID: 36059531
  • Sun Y, Li Z, Wang W, Zhang X et al. Identification and verification of YBX3 and its regulatory gene HEIH as an oncogenic system: A multidimensional analysis in colon cancer. Front Immunol 2022;13:957865. PMID: 36059530
  • Qing J, Hu X, Li C, Song W et al. Fucose as a potential therapeutic molecule against the immune-mediated inflammation in IgA nepharopathy: An unrevealed link. Front Immunol 2022;13:929138. PMID: 36059518
  • Li Z, Zhang H, Wang X, Wang Q et al. Identification of cuproptosis-related subtypes, characterization of tumor microenvironment infiltration, and development of a prognosis model in breast cancer. Front Immunol 2022;13:996836. PMID: 36059516
  • Bai M, Ke S, Yu H, Xu Y et al. Key molecules associated with thyroid carcinoma prognosis: A study based on transcriptome sequencing and GEO datasets. Front Immunol 2022;13:964891. PMID: 36059514
  • Zhang G, Chen X, Fang J, Tai P et al. Cuproptosis status affects treatment options about immunotherapy and targeted therapy for patients with kidney renal clear cell carcinoma. Front Immunol 2022;13:954440. PMID: 36059510
  • Zhou R, Peng N, Li W et al. Constructing a novel gene signature derived from oxidative stress specific subtypes for predicting survival in stomach adenocarcinoma. Front Immunol 2022;13:964919. PMID: 36059494
  • Wen L, Huang Y, Peng L, Zhao K et al. Single-cell RNA-Seq reveals the potential risk of anti-mesothelin CAR T Cell therapy toxicity to different organs in humans. Front Immunol 2022;13:807915. PMID: 36059490
  • Pu S, Zhou Y, Xie P, Gao X et al. Identification of necroptosis-related subtypes and prognosis model in triple negative breast cancer. Front Immunol 2022;13:964118. PMID: 36059470
  • Wang M, Tang S, Yang X, Xie X et al. Identification of key genes and pathways in chronic rhinosinusitis with nasal polyps and asthma comorbidity using bioinformatics approaches. Front Immunol 2022;13:941547. PMID: 36059464
  • Cai G, Zhu J, Ning D, Li G et al. A Novel hepatocellular carcinoma specific hypoxic related signature for predicting prognosis and therapeutic responses. Front Immunol 2022;13:997316. PMID: 36059442
  • Young LEA, Conroy LR, Clarke HA, Hawkinson TR et al. In situ mass spectrometry imaging reveals heterogeneous glycogen stores in human normal and cancerous tissues. EMBO Mol Med 2022 Nov 8;14(11):e16029. PMID: 36059248
  • Knorr J, Kaufmann B, Inzaugarat ME, Holtmann TM et al. Interleukin-18 signaling promotes activation of hepatic stellate cells in mouse liver fibrosis. Hepatology 2023 Jun 1;77(6):1968-1982. PMID: 36059147
  • Luo L, Liu Y, Nizigiyimana P, Ye M et al. DNA 6mA Demethylase ALKBH1 Orchestrates Fatty Acid Metabolism and Suppresses Diet-Induced Hepatic Steatosis. Cell Mol Gastroenterol Hepatol 2022;14(6):1213-1233. PMID: 36058506
  • Jiménez C, Antonelli R, Nadal-Ribelles M, Devis-Jauregui L et al. Structural disruption of BAF chromatin remodeller impairs neuroblastoma metastasis by reverting an invasiveness epigenomic program. Mol Cancer 2022 Sep 3;21(1):175. PMID: 36057593
  • Li H, Wang S, Li X, Weng Y et al. CDCA7 promotes TGF-β-induced epithelial-mesenchymal transition via transcriptionally regulating Smad4/Smad7 in ESCC. Cancer Sci 2023 Jan;114(1):91-104. PMID: 36056599
  • Qi J, Sheng Q, Zhou Y, Hua J et al. scMTD: a statistical multidimensional imputation method for single-cell RNA-seq data leveraging transcriptome dynamic information. Cell Biosci 2022 Sep 2;12(1):142. PMID: 36056412
  • Muñoz JJAM, Dariolli R, da Silva CM, Neri EA et al. Time-regulated transcripts with the potential to modulate human pluripotent stem cell-derived cardiomyocyte differentiation. Stem Cell Res Ther 2022 Sep 2;13(1):437. PMID: 36056380
  • van der Does AM, Mahbub RM, Ninaber DK, Rathnayake SNH et al. Early transcriptional responses of bronchial epithelial cells to whole cigarette smoke mirror those of in-vivo exposed human bronchial mucosa. Respir Res 2022 Sep 2;23(1):227. PMID: 36056356
  • Ding H, Shi L, Chen Z, Lu Y et al. Construction and evaluation of a prognostic risk model of tumor metastasis-related genes in patients with non-small cell lung cancer. BMC Med Genomics 2022 Sep 2;15(1):187. PMID: 36056349
  • Ueno S, Sudo T, Saya H, Sugihara E et al. Pigment epithelium-derived factor promotes peritoneal dissemination of ovarian cancer through induction of immunosuppressive macrophages. Commun Biol 2022 Sep 2;5(1):904. PMID: 36056141
  • Yao H, Ren D, Wang Y, Wu L et al. KCTD9 inhibits the Wnt/β-catenin pathway by decreasing the level of β-catenin in colorectal cancer. Cell Death Dis 2022 Sep 2;13(9):761. PMID: 36055981
  • Jiang Y, Harigaya Y, Zhang Z, Zhang H et al. Nonparametric single-cell multiomic characterization of trio relationships between transcription factors, target genes, and cis-regulatory regions. Cell Syst 2022 Sep 21;13(9):737-751.e4. PMID: 36055233
  • Gempt J, Withake F, Aftahy AK, Meyer HS et al. Methylation subgroup and molecular heterogeneity is a hallmark of glioblastoma: implications for biopsy targeting, classification and therapy. ESMO Open 2022 Oct;7(5):100566. PMID: 36055049
  • Zhang J, Xiao J, Wang Y, Zheng X et al. A universal co-expression gene network and prognostic model for hepatic-biliary-pancreatic cancers identified by integrative analyses. FEBS Open Bio 2022 Nov;12(11):2006-2024. PMID: 36054420
  • Ferrall-Fairbanks MC, Dhawan A, Johnson B, Newman H et al. Progenitor Hierarchy of Chronic Myelomonocytic Leukemia Identifies Inflammatory Monocytic-Biased Trajectory Linked to Worse Outcomes. Blood Cancer Discov 2022 Nov 2;3(6):536-553. PMID: 36053528
  • Shojaee S, Ravash R, Shiran B, Ebrahimie E et al. Meta-analysis highlights the key drought responsive genes in genes: PEPC and TaSAG7 are hubs response networks. J Genet Eng Biotechnol 2022 Sep 2;20(1):127. PMID: 36053361
  • Vilaplana-Lopera N, Cuminetti V, Almaghrabi R, Papatzikas G et al. Crosstalk between AML and stromal cells triggers acetate secretion through the metabolic rewiring of stromal cells. Elife 2022 Sep 2;11. PMID: 36052997
  • Ryu V, Gumerova A, Korkmaz F, Kang SS et al. Brain atlas for glycoprotein hormone receptors at single-transcript level. Elife 2022 Sep 2;11. PMID: 36052994
  • Baggs EL, Tiersma MB, Abramson BW, Michael TP et al. Characterization of defense responses against bacterial pathogens in duckweeds lacking EDS1. New Phytol 2022 Dec;236(5):1838-1855. PMID: 36052715
  • Pradhan SS, Thota SM, Rajaratnam S, Bhagavatham SKS et al. Integrated multi-omics analysis of Huntington disease identifies pathways that modulate protein aggregation. Dis Model Mech 2022 Oct 1;15(10). PMID: 36052548
  • OuYang LY, Deng ZJ, You YF, Fang JM et al. SIRGs score may be a predictor of prognosis and immunotherapy response for esophagogastric junction adenocarcinoma. Front Immunol 2022;13:977894. PMID: 36052090
  • Zhang D, Wu S, Pan S, Wang M et al. Single-cell sequencing reveals heterogeneity between pancreatic adenosquamous carcinoma and pancreatic ductal adenocarcinoma with prognostic value. Front Immunol 2022;13:972298. PMID: 36052088
  • Song S, Zhao R, Qiao J, Liu J et al. Predictive value of drug efficacy by M6A modification patterns in rheumatoid arthritis patients. Front Immunol 2022;13:940918. PMID: 36052084
  • Chen Z, Chen C, Chen F, Lan R et al. Bioinformatics analysis of potential pathogenesis and risk genes of immunoinflammation-promoted renal injury in severe COVID-19. Front Immunol 2022;13:950076. PMID: 36052061
  • Harbison RA, Pandey R, Considine M, Leone RD et al. Interrogation of T Cell-Enriched Tumors Reveals Prognostic and Immunotherapeutic Implications of Polyamine Metabolism. Cancer Res Commun 2022 Jul;2(7):639-652. PMID: 36052016
  • Huang T, Nazir B, Altaf R, Zang B et al. A meta-analysis of genome-wide gene expression differences identifies promising targets for type 2 diabetes mellitus. Front Endocrinol (Lausanne) 2022;13:985857. PMID: 36051390
  • Wang N, Xu Y, Jin L, Wang X et al. Effects of N6-Methyladenosine Regulators on LAG3 and Immune Infiltrates in Lung Adenocarcinoma. Dis Markers 2022;2022:1829528. PMID: 36051357
  • Zhang Y, Xu L, Li X, Chen Z et al. Deciphering the dynamic niches and regeneration-associated transcriptional program of motoneurons following peripheral nerve injury. iScience 2022 Sep 16;25(9):104917. PMID: 36051182
  • Best NB, Dilkes BP et al. Transcriptional responses to gibberellin in the maize tassel and control by DELLA domain proteins. Plant J 2022 Oct;112(2):493-517. PMID: 36050832
  • Kondo M, Suzuki T, Kawano Y, Kojima S et al. Dersimelagon, a novel oral melanocortin 1 receptor agonist, demonstrates disease-modifying effects in preclinical models of systemic sclerosis. Arthritis Res Ther 2022 Sep 1;24(1):210. PMID: 36050717
  • Kolterud Å, Välimäki N, Kuisma H, Patomo J et al. Molecular subclass of uterine fibroids predicts tumor shrinkage in response to ulipristal acetate. Hum Mol Genet 2023 Mar 20;32(7):1063-1071. PMID: 36048862
  • Li J, Liu X, Wu H, Guo P et al. Identification of hub genes related to the innate immune response activated during spinal cord injury. FEBS Open Bio 2022 Oct;12(10):1839-1856. PMID: 36047918
  • Schröder MAM, Sweep FCGJ, van Herwaarden AE, Mitchell RT et al. Transcriptional comparison of testicular adrenal rest tumors with fetal and adult tissues. Eur J Endocrinol 2022 Nov 1;187(5):607-615. PMID: 36047744
  • Srimadh Bhagavatham SK, Pulukool SK, Pradhan SS, R S et al. Systems biology approach delineates critical pathways associated with disease progression in rheumatoid arthritis. J Biomol Struct Dyn 2023 Aug-Sep;41(14):6969-6990. PMID: 36047508
  • Liu J, Li W, Wu L et al. Pan-cancer analysis suggests histocompatibility minor 13 is an unfavorable prognostic biomarker promoting cell proliferation, migration, and invasion in hepatocellular carcinoma. Front Pharmacol 2022;13:950156. PMID: 36046831
  • Guo Q, Zhu Q, Zhang T, Qu Q et al. Integrated bioinformatic analysis reveals immune molecular markers and potential drugs for diabetic cardiomyopathy. Front Endocrinol (Lausanne) 2022;13:933635. PMID: 36046789
  • Deng Y, Wang J, Hu Z, Cai Y et al. Exploration of the immune microenvironment of breast cancer in large population cohorts. Front Endocrinol (Lausanne) 2022;13:955630. PMID: 36046784
  • Liang Z, Nong F, Zhao J, Wei D et al. Heterogeneity in NK Cell Subpopulations May Be Involved in Kidney Cancer Metastasis. J Immunol Res 2022;2022:6378567. PMID: 36046723
  • Zheng J, Feng P, Chen D, Zhang C et al. m(6)A Regulator-Based Exosomal Gene Methylation Modification Patterns Identify Distinct Microenvironment Characterization and Predict Immunotherapeutic Responses in Colon Cancer. Oxid Med Cell Longev 2022;2022:9451480. PMID: 36046691
  • Apelblat D, Roethler O, Bitan L, Keren-Shaul H et al. Meso-seq for in-depth transcriptomics in ultra-low amounts of FACS-purified neuronal nuclei. Cell Rep Methods 2022 Aug 22;2(8):100259. PMID: 36046622
  • Li H, Wang J, He L, Zhang F et al. Construction of a combined hypoxia and EMT index for head and neck squamous cell carcinoma. Front Cell Dev Biol 2022;10:961858. PMID: 36046345
  • Yin TT, Huang MX, Wang F, Jiang YH et al. Lactate score predicts survival, immune cell infiltration and response to immunotherapy in breast cancer. Front Genet 2022;13:943849. PMID: 36046245
  • Liang X, Cheng Z, Chen X, Li J et al. Prognosis analysis of necroptosis-related genes in colorectal cancer based on bioinformatic analysis. Front Genet 2022;13:955424. PMID: 36046241
  • Guo X, Han J, Song Y, Yin Z et al. Using expression quantitative trait loci data and graph-embedded neural networks to uncover genotype-phenotype interactions. Front Genet 2022;13:921775. PMID: 36046233
  • Trinh LT, Osipovich AB, Sampson L, Wong J et al. Differential regulation of alternate promoter regions in Sox17 during endodermal and vascular endothelial development. iScience 2022 Sep 16;25(9):104905. PMID: 36046192
  • Ovejero S, Moreaux J et al. Multi-omics tumor profiling technologies to develop precision medicine in multiple myeloma. Explor Target Antitumor Ther 2021;2(1):65-106. PMID: 36046090
  • Fan TD, Bei DK, Li SW et al. Nomogram Models Based on the Gene Expression in Prediction of Breast Cancer Bone Metastasis. J Healthc Eng 2022;2022:8431946. PMID: 36046013
  • Liu T, Gonzalez De Los Santos F, Rinke AE, Fang C et al. B7H3-dependent myeloid-derived suppressor cell recruitment and activation in pulmonary fibrosis. Front Immunol 2022;13:901349. PMID: 36045668
  • Vallejo J, Saigusa R, Gulati R, Armstrong Suthahar SS et al. Combined protein and transcript single-cell RNA sequencing in human peripheral blood mononuclear cells. BMC Biol 2022 Sep 1;20(1):193. PMID: 36045343
  • Ding L, Fu Y, Zhu N, Zhao M et al. OXTR(High) stroma fibroblasts control the invasion pattern of oral squamous cell carcinoma via ERK5 signaling. Nat Commun 2022 Aug 31;13(1):5124. PMID: 36045118
  • Jowett GM, Read E, Roberts LB, Coman D et al. Organoids capture tissue-specific innate lymphoid cell development in mice and humans. Cell Rep 2022 Aug 30;40(9):111281. PMID: 36044863
  • McKernan CM, Khatri A, Hannigan M, Child J et al. ABL kinases regulate translation in HER2+ cells through Y-box-binding protein 1 to facilitate colonization of the brain. Cell Rep 2022 Aug 30;40(9):111268. PMID: 36044842
  • Carraro C, Bonaguro L, Schulte-Schrepping J, Horne A et al. Decoding mechanism of action and sensitivity to drug candidates from integrated transcriptome and chromatin state. Elife 2022 Aug 31;11. PMID: 36043458
  • Caggiano C, Pieraccioli M, Pitolli C, Babini G et al. The androgen receptor couples promoter recruitment of RNA processing factors to regulation of alternative polyadenylation at the 3' end of transcripts. Nucleic Acids Res 2022 Sep 23;50(17):9780-9796. PMID: 36043441
  • Bian B, Paquet A, Arguel MJ, Meyer M et al. Coupling live-cell imaging and in situ isolation of the same single cell to profile the transient states of predicted drug-tolerant cells. STAR Protoc 2022 Sep 16;3(3):101600. PMID: 36042886
  • Zapata RC, Carretero M, Reis FCG, Chaudry BS et al. Adipocytes control food intake and weight regain via Vacuolar-type H(+) ATPase. Nat Commun 2022 Aug 30;13(1):5092. PMID: 36042358
  • Cai C, Tang YD, Zhai J, Zheng C et al. The RING finger protein family in health and disease. Signal Transduct Target Ther 2022 Aug 30;7(1):300. PMID: 36042206
  • Orliaguet L, Ejlalmanesh T, Humbert A, Ballaire R et al. Early macrophage response to obesity encompasses Interferon Regulatory Factor 5 regulated mitochondrial architecture remodelling. Nat Commun 2022 Aug 30;13(1):5089. PMID: 36042203
  • Tanigawa Y, Dyer ES, Bejerano G et al. WhichTF is functionally important in your open chromatin data? PLoS Comput Biol 2022 Aug;18(8):e1010378. PMID: 36040971
  • García-Puga M, Saenz-Antoñanzas A, Gerenu G, Arrieta-Legorburu A et al. Senescence plays a role in myotonic dystrophy type 1. JCI Insight 2022 Oct 10;7(19). PMID: 36040809
  • Sanna A, Phung B, Mitra S, Lauss M et al. DNA promoter hypermethylation of melanocyte lineage genes determines melanoma phenotype. JCI Insight 2022 Oct 10;7(19). PMID: 36040798
  • Lin SC, Yao CY, Hsu CA, Lin CT et al. Functional association of NR4A3 downregulation with impaired differentiation in myeloid leukemogenesis. Ann Hematol 2022 Oct;101(10):2209-2218. PMID: 36040481
  • Jeong H, Baran NM, Sun D, Chatterjee P et al. Dynamic molecular evolution of a supergene with suppressed recombination in white-throated sparrows. Elife 2022 Aug 30;11. PMID: 36040313
  • Cao Y, Lin Y, Patrick E, Yang P et al. scFeatures: multi-view representations of single-cell and spatial data for disease outcome prediction. Bioinformatics 2022 Oct 14;38(20):4745-4753. PMID: 36040148
  • Cho SW, Kim HK, Sung JH, Kim Y et al. Mitochondrial energy metabolic transcriptome profiles during cardiac differentiation from mouse and human pluripotent stem cells. Korean J Physiol Pharmacol 2022 Sep 1;26(5):357-365. PMID: 36039736
  • Gong Y, Wei ZR et al. MiR-659-3p inhibits osteosarcoma progression and metastasis by inhibiting cell proliferation and invasion via targeting SRPK1. BMC Cancer 2022 Aug 29;22(1):934. PMID: 36038837
  • Feng R, Lu M, Xu J, Zhang F et al. Pulmonary embolism and 529 human blood metabolites: genetic correlation and two-sample Mendelian randomization study. BMC Genom Data 2022 Aug 29;23(1):69. PMID: 36038828
  • Wang F, Huang C, Long J, Zhao ZB et al. Notch signaling mutations increase intra-tumor chemokine expression and predict response to immunotherapy in colorectal cancer. BMC Cancer 2022 Aug 29;22(1):933. PMID: 36038820
  • Mizuta K, Matsubara T, Goto A, Addison WN et al. Plectin promotes tumor formation by B16 mouse melanoma cells via regulation of Rous sarcoma oncogene activity. BMC Cancer 2022 Aug 30;22(1):936. PMID: 36038818
  • Lee H, Yu DM, Bahn MS, Kwon YJ et al. Hepatocyte-specific Prominin-1 protects against liver injury-induced fibrosis by stabilizing SMAD7. Exp Mol Med 2022 Aug;54(8):1277-1289. PMID: 36038590
  • Mahale S, Setia M, Prajapati B, Subhash S et al. HnRNPK maintains single strand RNA through controlling double-strand RNA in mammalian cells. Nat Commun 2022 Aug 29;13(1):4865. PMID: 36038571
  • Kamran M, Bhattacharya U, Omar M, Marchionni L et al. ZNF92, an unexplored transcription factor with remarkably distinct breast cancer over-expression associated with prognosis and cell-of-origin. NPJ Breast Cancer 2022 Aug 29;8(1):99. PMID: 36038558
  • Pal S, Oliver B, Przytycka TM et al. Stochastic Modeling of Gene Expression Evolution Uncovers Tissue- and Sex-Specific Properties of Expression Evolution in the Drosophila Genus. J Comput Biol 2023 Jan;30(1):21-40. PMID: 36037023
  • Barua JD, Omit SBS, Rana HK, Podder NK et al. Bioinformatics and System Biological Approaches for the Identification of Genetic Risk Factors in the Progression of Cardiovascular Disease. Cardiovasc Ther 2022;2022:9034996. PMID: 36035865
  • Wu Y, Guo X, Han T, Feng K et al. Cmarr/miR-540-3p axis promotes cardiomyocyte maturation transition by orchestrating Dtna expression. Mol Ther Nucleic Acids 2022 Sep 13;29:481-497. PMID: 36035750
  • Li Z, Jin C, Lu X, Zhang Y et al. Developing a 5-Gene Signature Related to Pyroptosis for Osteosarcoma Patients. J Oncol 2022;2022:1317990. PMID: 36035315
  • Li M, Xin S, Gu R, Zheng L et al. Novel Diagnostic Biomarkers Related to Oxidative Stress and Macrophage Ferroptosis in Atherosclerosis. Oxid Med Cell Longev 2022;2022:8917947. PMID: 36035208
  • Lai Y, Lin C, Lin X, Wu L et al. Comprehensive Analysis of Molecular Subtypes and Hub Genes of Sepsis by Gene Expression Profiles. Front Genet 2022;13:884762. PMID: 36035194
  • Xiang P, Du Z, Wang M, Liu D et al. RNA sequencing and integrative analysis reveal pathways and hub genes associated with TGFβ1 stimulation on prostatic stromal cells. Front Genet 2022;13:919103. PMID: 36035183
  • Wang D, Peng H, Hu Y, Piao X et al. Distinctive gene expression patterns in pregnancy-associated breast cancer. Front Genet 2022;13:850195. PMID: 36035177
  • Zhang XX, Luo JH, Wu LQ et al. FN1 overexpression is correlated with unfavorable prognosis and immune infiltrates in breast cancer. Front Genet 2022;13:913659. PMID: 36035176
  • Li B, Ye S, Fan Y, Lin Y et al. Identification of novel key genes and potential candidate small molecule drugs in diabetic kidney disease using comprehensive bioinformatics analysis. Front Genet 2022;13:934555. PMID: 36035169
  • Ahmed MM, Shafat Z, Tazyeen S, Ali R et al. Identification of pathogenic genes associated with CKD: An integrated bioinformatics approach. Front Genet 2022;13:891055. PMID: 36035163
  • Xu ZJ, Wen XM, Zhang YC, Jin Y et al. m6A regulator-based methylation modification patterns and characterization of tumor microenvironment in acute myeloid leukemia. Front Genet 2022;13:948079. PMID: 36035161
  • Song Q, Zhang Y, Zhang M, Ma X et al. Identifying gene variants underlying the pathogenesis of diabetic retinopathy based on integrated genomic and transcriptomic analysis of clinical extreme phenotypes. Front Genet 2022;13:929049. PMID: 36035153
  • Chen M, Chen Z, Lin Z, Ding X et al. Utilization of hypoxia-derived gene signatures to predict clinical outcomes and immune checkpoint blockade therapy responses in prostate cancer. Front Genet 2022;13:922074. PMID: 36035150
  • Liu L, Lai Y, Zhan Z, Fu Q et al. Identification of Ferroptosis-Related Molecular Clusters and Immune Characterization in Autism Spectrum Disorder. Front Genet 2022;13:911119. PMID: 36035135
  • Gong Y, Liu X, Sahu A, Reddy AV et al. Exploration of hub genes, lipid metabolism, and the immune microenvironment in stomach carcinoma and cholangiocarcinoma. Ann Transl Med 2022 Aug;10(15):834. PMID: 36034995
  • Li MT, Liu LL, Zhou Q, Huang LX et al. Phyllanthus Niruri L. Exerts Protective Effects Against the Calcium Oxalate-Induced Renal Injury via Ellgic Acid. Front Pharmacol 2022;13:891788. PMID: 36034880
  • Cao H, Fu Y, Zhang Z, Guo W et al. Unbiased transcriptome mapping and modeling identify candidate genes and compounds of osteoarthritis. Front Pharmacol 2022;13:888533. PMID: 36034872
  • Xie P, Liu JY, Yan H, Wang ZB et al. Pan-cancer analyses identify DCBLD2 as an oncogenic, immunological, and prognostic biomarker. Front Pharmacol 2022;13:950831. PMID: 36034778
  • Zhang X, Tian C, Cheng J, Mao W et al. LTBP2 inhibits prostate cancer progression and metastasis via the PI3K/AKT signaling pathway. Exp Ther Med 2022 Sep;24(3):563. PMID: 36034756
  • Zhu W, Zhang F, Lu J, Ma C et al. The analysis of Modified Qing' E Formula on the differential expression of exosomal miRNAs in the femoral head bone tissue of mice with steroid-induced ischemic necrosis of femoral head. Front Endocrinol (Lausanne) 2022;13:954778. PMID: 36034465
  • Tang J, Ma S, Gao Y, Zeng F et al. ANGPTL8 promotes adipogenic differentiation of mesenchymal stem cells: potential role in ectopic lipid deposition. Front Endocrinol (Lausanne) 2022;13:927763. PMID: 36034432
  • Feng S, Li R, Zhou Q, Qu F et al. Bioinformatics analysis to identify potential biomarkers and therapeutic targets for ST-segment-elevation myocardial infarction-related ischemic stroke. Front Neurol 2022;13:894289. PMID: 36034287
  • Yang Y, Xin X, Xu T et al. Identification of Potential miRNA-mRNA Regulatory Network in the Development of Oral Cancer. Dis Markers 2022;2022:9376608. PMID: 36033831
  • Amouzgar M, Glass DR, Baskar R, Averbukh I et al. Supervised dimensionality reduction for exploration of single-cell data by HSS-LDA. Patterns (N Y) 2022 Aug 12;3(8):100536. PMID: 36033591
  • Chen T, Zhang S, Zhou D, Lu P et al. Screening of co-pathogenic genes of non-alcoholic fatty liver disease and hepatocellular carcinoma. Front Oncol 2022;12:911808. PMID: 36033523
  • Song J, Huang F, Chen L, Feng K et al. Identification of methylation signatures associated with CAR T cell in B-cell acute lymphoblastic leukemia and non-hodgkin's lymphoma. Front Oncol 2022;12:976262. PMID: 36033519
  • Qiu J, Xu L, Zeng X, Wu H et al. CCL5 mediates breast cancer metastasis and prognosis through CCR5/Treg cells. Front Oncol 2022;12:972383. PMID: 36033472
  • Lian W, Wang Z, Ma Y, Tong Y et al. FABP6 Expression Correlates with Immune Infiltration and Immunogenicity in Colorectal Cancer Cells. J Immunol Res 2022;2022:3129765. PMID: 36033394
  • Xie Y, Wu H, Hu W, Zhang H et al. Identification of Hub Genes of Lung Adenocarcinoma Based on Weighted Gene Co-Expression Network in Chinese Population. Pathol Oncol Res 2022;28:1610455. PMID: 36032660
  • Zhang Y, Li L, Chu F, Xiao X et al. Identification and Validation of an m6A-Related LncRNA Signature to Predict Progression-Free Survival in Colorectal Cancer. Pathol Oncol Res 2022;28:1610536. PMID: 36032659
  • Wang J, Li B, Yang X, Liang C et al. Integration of RNA-seq and ATAC-seq identifies muscle-regulated hub genes in cattle. Front Vet Sci 2022;9:925590. PMID: 36032309
  • Xu LCrosstalk of three novel types of programmed cell death defines distinct microenvironment characterization and pharmacogenomic landscape in breast cancer. Front Immunol 2022;13:942765. PMID: 36032140
  • Shi D, Zhong W, Liu D, Sun X et al. Computational identification of immune-related lncRNA signature for predicting the prognosis and immune landscape of human glioblastoma multiforme. Front Immunol 2022;13:932938. PMID: 36032137
  • Liu J, Shen H, Gu W, Zheng H et al. Prediction of prognosis, immunogenicity and efficacy of immunotherapy based on glutamine metabolism in lung adenocarcinoma. Front Immunol 2022;13:960738. PMID: 36032135
  • Mao Y, Xu Y, Chang J, Chang W et al. The immune phenotypes and different immune escape mechanisms in colorectal cancer. Front Immunol 2022;13:968089. PMID: 36032084
  • Zou R, Jiang Q, Jin T, Chen M et al. Pan-cancer analyses and molecular subtypes based on the cancer-associated fibroblast landscape and tumor microenvironment infiltration characterization reveal clinical outcome and immunotherapy response in epithelial ovarian cancer. Front Immunol 2022;13:956224. PMID: 36032075
  • Huang J, Li R, Cheng J, Zhen P et al. Transcriptome Analysis of Peripheral Blood Mononuclear Cells Response in Patients with Severe COVID-19 Reveals Crucial Genes Regulating Protein Ubiquitination. Med Sci Monit 2022 Aug 29;28:e937532. PMID: 36031751
  • Song L, Yang YT, Guo Q, ZIB Consortium et al. Cellular transcriptional alterations of peripheral blood in Alzheimer's disease. BMC Med 2022 Aug 29;20(1):266. PMID: 36031604
  • McKowen JK, Avva SVSP, Maharjan M, Duarte FM et al. The Drosophila BEAF insulator protein interacts with the polybromo subunit of the PBAP chromatin remodeling complex. G3 (Bethesda) 2022 Nov 4;12(11). PMID: 36029240
  • Han W, Huang W, Wei T, Ye Y et al. Programmable RNA base editing with a single gRNA-free enzyme. Nucleic Acids Res 2022 Sep 9;50(16):9580-9595. PMID: 36029126
  • Wang X, Ji C et al. Construction of a prognostic risk model based on apoptosis-related genes to assess tumor immune microenvironment and predict prognosis in hepatocellular carcinoma. BMC Gastroenterol 2022 Aug 26;22(1):400. PMID: 36028814
  • Ochi T, Fujiwara T, Ono K, Suzuki C et al. Exploring the mechanistic link between SF3B1 mutation and ring sideroblast formation in myelodysplastic syndrome. Sci Rep 2022 Aug 26;12(1):14562. PMID: 36028755
  • M Ribeiro D, Ziyani C, Delaneau O et al. Shared regulation and functional relevance of local gene co-expression revealed by single cell analysis. Commun Biol 2022 Aug 26;5(1):876. PMID: 36028576
  • Chi X, Jin W, Zhao X, Xie T et al. RORγt expression in mature T(H)17 cells safeguards their lineage specification by inhibiting conversion to T(H)2 cells. Sci Adv 2022 Aug 26;8(34):eabn7774. PMID: 36026450
  • Zhang C, Chen R, Zhang Y et al. Accurate inference of genome-wide spatial expression with iSpatial. Sci Adv 2022 Aug 26;8(34):eabq0990. PMID: 36026447
  • Courvan MCS, Niederer RO, Vock IW, Kiefer L et al. Internally controlled RNA sequencing comparisons using nucleoside recoding chemistry. Nucleic Acids Res 2022 Oct 28;50(19):e110. PMID: 36018791
  • Zhang Y, Sun H, Mandava A, Aevermann BD et al. FastMix: a versatile data integration pipeline for cell type-specific biomarker inference. Bioinformatics 2022 Oct 14;38(20):4735-4744. PMID: 36018232
  • Zhang L, Li D, Gao L, Fu J et al. Promoter Methylation of QKI as a Potential Specific Biomarker for Early Detection of Colorectal Cancer. Front Genet 2022;13:928150. PMID: 36017498
  • Ren J, Lv Y, Wu L, Chen S et al. Key ferroptosis-related genes in abdominal aortic aneurysm formation and rupture as determined by combining bioinformatics techniques. Front Cardiovasc Med 2022;9:875434. PMID: 36017103
  • Wei M, Chen LM, Huang ZY, Zhang GW et al. Expression profile analysis to identify potential gene changes induced by dexamethasone in the trabecular meshwork. Int J Ophthalmol 2022;15(8):1240-1248. PMID: 36017046
  • Liu W, Qiu W, Huang Z, Zhang K et al. Identification of nine signature proteins involved in periodontitis by integrated analysis of TMT proteomics and transcriptomics. Front Immunol 2022;13:963123. PMID: 36016933
  • Ge MX, Yu Q, Li GH, Yang LQ et al. Multiple time-series expression trajectories imply dynamic functional changes during cellular senescence. Comput Struct Biotechnol J 2022;20:4131-4137. PMID: 36016715
  • Meng Z, Yang W, Zhu L, Liu W et al. A novel necroptosis-related LncRNA signature for prediction of prognosis and therapeutic responses of head and neck squamous cell carcinoma. Front Pharmacol 2022;13:963072. PMID: 36016575
  • Zhang X, Li Y, Hu P, Xu L et al. Identification of molecular patterns and prognostic models of epithelial-mesenchymal transition- and immune-combined index in the gastric cancer. Front Pharmacol 2022;13:958070. PMID: 36016566
  • Islam MK, Islam MR, Rahman MH, Islam MZ et al. Bioinformatics Strategies to Identify Shared Molecular Biomarkers That Link Ischemic Stroke and Moyamoya Disease with Glioblastoma. Pharmaceutics 2022 Jul 28;14(8). PMID: 36015199
  • Sun B, Zhang W, Song X, Wu X et al. Gene Correlation Network Analysis to Identify Biomarkers of Peri-Implantitis. Medicina (Kaunas) 2022 Aug 19;58(8). PMID: 36013591
  • Yuan J, Liu Y, Wang Z, Lei T et al. Genome-Wide Analysis of the NAC Family Associated with Two Paleohexaploidization Events in the Tomato. Life (Basel) 2022 Aug 15;12(8). PMID: 36013415
  • Calonga-Solís V, Fabbri-Scallet H, Ott F, Al-Sharkawi M et al. MYRF: A New Regulator of Cardiac and Early Gonadal Development-Insights from Single Cell RNA Sequencing Analysis. J Clin Med 2022 Aug 18;11(16). PMID: 36013096
  • Inoue Y, Liao CW, Tsunakawa Y, Tsai IL et al. Macrophage-Specific, Mafb-Deficient Mice Showed Delayed Skin Wound Healing. Int J Mol Sci 2022 Aug 19;23(16). PMID: 36012611
  • Moatar AI, Chis AR, Marian C, Sirbu IO et al. Gene Network Analysis of the Transcriptome Impact of SARS-CoV-2 Interacting MicroRNAs in COVID-19 Disease. Int J Mol Sci 2022 Aug 17;23(16). PMID: 36012503
  • Santos NJ, Camargo ACL, Carvalho HF, Justulin LA et al. Prostate Cancer Secretome and Membrane Proteome from Pten Conditional Knockout Mice Identify Potential Biomarkers for Disease Progression. Int J Mol Sci 2022 Aug 17;23(16). PMID: 36012492
  • Panov J, Kaphzan H et al. An Association Study of DNA Methylation and Gene Expression in Angelman Syndrome: A Bioinformatics Approach. Int J Mol Sci 2022 Aug 15;23(16). PMID: 36012404
  • Morales-Martínez M, Vega MI et al. Role of MicroRNA-7 (MiR-7) in Cancer Physiopathology. Int J Mol Sci 2022 Aug 13;23(16). PMID: 36012357
  • Zanella L, Facco P, Bezzo F, Cimetta E et al. Feature Selection and Molecular Classification of Cancer Phenotypes: A Comparative Study. Int J Mol Sci 2022 Aug 13;23(16). PMID: 36012350
  • Pongjantarasatian S, Nowwarote N, Rotchanakitamnuai V, Srirodjanakul W et al. A γ-Secretase Inhibitor Attenuates Cell Cycle Progression and Invasion in Human Oral Squamous Cell Carcinoma: An In Vitro Study. Int J Mol Sci 2022 Aug 9;23(16). PMID: 36012128
  • Russo V, Lallo E, Munnia A, Spedicato M et al. Artificial Intelligence Predictive Models of Response to Cytotoxic Chemotherapy Alone or Combined to Targeted Therapy for Metastatic Colorectal Cancer Patients: A Systematic Review and Meta-Analysis. Cancers (Basel) 2022 Aug 19;14(16). PMID: 36011003
  • Wu J, Lin Z, Ji D, Li Z et al. Metabolism-Related Gene Pairs to Predict the Clinical Outcome and Molecular Characteristics of Early Hepatocellular Carcinoma. Cancers (Basel) 2022 Aug 16;14(16). PMID: 36010950
  • Zhou X, Zhang B, Zheng G, Zhang Z et al. Novel Necroptosis-Related Gene Signature for Predicting Early Diagnosis and Prognosis and Immunotherapy of Gastric Cancer. Cancers (Basel) 2022 Aug 11;14(16). PMID: 36010886
  • Hoekzema RS, Marsh L, Sumray O, Carroll TM et al. Multiscale Methods for Signal Selection in Single-Cell Data. Entropy (Basel) 2022 Aug 13;24(8). PMID: 36010781
  • Huang Z, Wu C, Liu X, Lu S et al. Single-Cell and Bulk RNA Sequencing Reveal Malignant Epithelial Cell Heterogeneity and Prognosis Signatures in Gastric Carcinoma. Cells 2022 Aug 17;11(16). PMID: 36010627
  • Gupta SK, Pfeltz RF, Wilkinson BJ, Gustafson JE et al. Transcriptomic and Metabolomic Analysis of a Fusidic Acid-Selected fusA Mutant of Staphylococcus aureus. Antibiotics (Basel) 2022 Aug 3;11(8). PMID: 36009920
  • Lamberti MJ, Montico B, Ravo M, Nigro A et al. Integration of miRNA:mRNA Co-Expression Revealed Crucial Mechanisms Modulated in Immunogenic Cancer Cell Death. Biomedicines 2022 Aug 5;10(8). PMID: 36009442
  • Aleem M, Aleem S, Sharif I, Aleem M et al. Whole-Genome Identification of APX and CAT Gene Families in Cultivated and Wild Soybeans and Their Regulatory Function in Plant Development and Stress Response. Antioxidants (Basel) 2022 Aug 22;11(8). PMID: 36009347
  • Liu L, Matsumoto M, Matsui-Watanabe M, Ochiai K et al. BACH1 Expression Is Promoted by Tank Binding Kinase 1 (TBK1) in Pancreatic Cancer Cells to Increase Iron and Reduce the Expression of E-Cadherin. Antioxidants (Basel) 2022 Jul 27;11(8). PMID: 36009179
  • Zhang YB, Zheng SF, Ma LJ, Lin P et al. Elevated Hexose-6-Phosphate Dehydrogenase Regulated by OSMR-AS1/hsa-miR-516b-5p Axis Correlates with Poor Prognosis and Dendritic Cells Infiltration of Glioblastoma. Brain Sci 2022 Jul 30;12(8). PMID: 36009075
  • Zhang S, Xie L, Cui Y, Carone BR et al. Detecting Fear-Memory-Related Genes from Neuronal scRNA-seq Data by Diverse Distributions and Bhattacharyya Distance. Biomolecules 2022 Aug 17;12(8). PMID: 36009024
  • Kortüm B, Radhakrishnan H, Zincke F, Sachse C et al. Combinatorial treatment with statins and niclosamide prevents CRC dissemination by unhinging the MACC1-β-catenin-S100A4 axis of metastasis. Oncogene 2022 Sep;41(39):4446-4458. PMID: 36008464
  • Martin S, Allan KC, Pinkard O, Sweet T et al. Oligodendrocyte differentiation alters tRNA modifications and codon optimality-mediated mRNA decay. Nat Commun 2022 Aug 25;13(1):5003. PMID: 36008413
  • Thompson M, Hill BL, Rakocz N, Chiang JN et al. Methylation risk scores are associated with a collection of phenotypes within electronic health record systems. NPJ Genom Med 2022 Aug 25;7(1):50. PMID: 36008412
  • Guo Y, Zhu Z, Huang Z, Cui L et al. CK2-induced cooperation of HHEX with the YAP-TEAD4 complex promotes colorectal tumorigenesis. Nat Commun 2022 Aug 25;13(1):4995. PMID: 36008411
  • Shen H, Huang F, Zhang X, Ojo OA et al. Selective suppression of melanoma lacking IFN-γ pathway by JAK inhibition depends on T cells and host TNF signaling. Nat Commun 2022 Aug 25;13(1):5013. PMID: 36008408
  • Chen HY, Durmaz YT, Li Y, Sabet AH et al. Regulation of neuroendocrine plasticity by the RNA-binding protein ZFP36L1. Nat Commun 2022 Aug 25;13(1):4998. PMID: 36008402
  • Stobdan T, Sahoo D, Haddad GG et al. A Boolean approach for novel hypoxia-related gene discovery. PLoS One 2022;17(8):e0273524. PMID: 36006949
  • Wang JH, Wong RCB, Liu GS et al. Retinal Transcriptome and Cellular Landscape in Relation to the Progression of Diabetic Retinopathy. Invest Ophthalmol Vis Sci 2022 Aug 2;63(9):26. PMID: 36006018
  • Banerjee P, Rodning SP, Diniz WJS, Dyce PW et al. Co-Expression Network and Integrative Analysis of Metabolome and Transcriptome Uncovers Biological Pathways for Fertility in Beef Heifers. Metabolites 2022 Jul 29;12(8). PMID: 36005579
  • Akhter F, Kahtani FHA, Sambawa ZM, Alhassan DA et al. Exploring the Novel Computational Drug Target and Associated Key Pathways of Oral Cancer. Curr Issues Mol Biol 2022 Aug 9;44(8):3552-3572. PMID: 36005140
  • Luo W, Lin S, Huang Y, Zhu K et al. Bioinformatic Analysis and In Vitro and In Vivo Experiments Reveal That Fibrillarin Participates in the Promotion of Lung Metastasis in Hepatocellular Carcinoma. Bioengineering (Basel) 2022 Aug 17;9(8). PMID: 36004921
  • Algabri YA, Li L, Liu ZP et al. scGENA: A Single-Cell Gene Coexpression Network Analysis Framework for Clustering Cell Types and Revealing Biological Mechanisms. Bioengineering (Basel) 2022 Jul 30;9(8). PMID: 36004879
  • Verma RN, Malik MZ, Subbarao N, Singh GP et al. Entamoeba histolytica HM-1: IMSS gene expression profiling identifies key hub genes, potential biomarkers, and pathways in Amoebiasis infection: a systematic network meta-analysis. Biosci Rep 2022 Oct 28;42(10). PMID: 36004808
  • Wang T, Zhu J, Gao L, Wei M et al. Identification of circular RNA biomarkers for Pien Tze Huang treatment of CCl4‑induced liver fibrosis using RNA‑sequencing. Mol Med Rep 2022 Oct;26(4). PMID: 36004475
  • Ren J, Tan G, Ren X, Lu W et al. The PNA mouse may be the best animal model of polycystic ovary syndrome. Front Endocrinol (Lausanne) 2022;13:950105. PMID: 36004354
  • Huang F, Chen L, Guo W, Huang T et al. Identification of Human Cell Cycle Phase Markers Based on Single-Cell RNA-Seq Data by Using Machine Learning Methods. Biomed Res Int 2022;2022:2516653. PMID: 36004205
  • Li XZ, Xiong ZC, Zhang SL, Hao QY et al. Potential ferroptosis key genes in calcific aortic valve disease. Front Cardiovasc Med 2022;9:916841. PMID: 36003913
  • Su N, Li Z, Yang J, Fu Y et al. Revealing the intratumoral heterogeneity of non-DS acute megakaryoblastic leukemia in single-cell resolution. Front Oncol 2022;12:915833. PMID: 36003795
  • Pillai M, Rajaram G, Thakur P, Agarwal N et al. Mapping phenotypic heterogeneity in melanoma onto the epithelial-hybrid-mesenchymal axis. Front Oncol 2022;12:913803. PMID: 36003764
  • Jiao M, Liu H, Liu X et al. Transcriptional patterns reveal tumor histologic heterogeneity and immunotherapy response in lung adenocarcinoma. Front Immunol 2022;13:957751. PMID: 36003401
  • Dong H, Xie C, Yao Z, Zhao R et al. PTPRO-related CD8(+) T-cell signatures predict prognosis and immunotherapy response in patients with breast cancer. Front Immunol 2022;13:947841. PMID: 36003382
  • Wang H, Liu J, Yang J, Wang Z et al. A novel tumor mutational burden-based risk model predicts prognosis and correlates with immune infiltration in ovarian cancer. Front Immunol 2022;13:943389. PMID: 36003381
  • Xiao Y, Yang J, Yang M, Len J et al. Comprehensive analysis of 7-methylguanosine and immune microenvironment characteristics in clear cell renal cell carcinomas. Front Genet 2022;13:866819. PMID: 36003341
  • Xue S, Ge W, Wang K, Mao T et al. Association of aging-related genes with prognosis and immune infiltration in pancreatic adenocarcinoma. Front Cell Dev Biol 2022;10:942225. PMID: 36003146
  • Liu F, Tang L, Li Q, Chen L et al. Single-cell transcriptomics uncover the key ferroptosis regulators contribute to cancer progression in head and neck squamous cell carcinoma. Front Mol Biosci 2022;9:962742. PMID: 36003082
  • He D, Chen M, Wang W, Song C et al. Deconvolution of tumor composition using partially available DNA methylation data. BMC Bioinformatics 2022 Aug 24;23(1):355. PMID: 36002797
  • Wu P, Zhang Z, Yang Z, Zhang C et al. Costimulatory molecule expression profile as a biomarker to predict prognosis and chemotherapy response for patients with small cell lung cancer. Cancer Immunol Immunother 2023 Mar;72(3):617-631. PMID: 36002754
  • Musella M, Guarracino A, Manduca N, Galassi C et al. Type I IFNs promote cancer cell stemness by triggering the epigenetic regulator KDM1B. Nat Immunol 2022 Sep;23(9):1379-1392. PMID: 36002648
  • Muñoz NM, Dupuis C, Williams M, Dixon K et al. Immune modulation by molecularly targeted photothermal ablation in a mouse model of advanced hepatocellular carcinoma and cirrhosis. Sci Rep 2022 Aug 24;12(1):14449. PMID: 36002545
  • Zhao X, Shu D, Sun W, Si S et al. PLEK2 promotes cancer stemness and tumorigenesis of head and neck squamous cell carcinoma via the c-Myc-mediated positive feedback loop. Cancer Commun (Lond) 2022 Oct;42(10):987-1007. PMID: 36002342
  • Zhou B, Claflin KE, Flippo KH, Sullivan AI et al. Central FGF21 production regulates memory but not peripheral metabolism. Cell Rep 2022 Aug 23;40(8):111239. PMID: 36001982
  • Yan P, Li Z, Xian S, Wang S et al. Construction of the prognostic enhancer RNA regulatory network in osteosarcoma. Transl Oncol 2022 Nov;25:101499. PMID: 36001923
  • van Solingen C, Cyr Y, Scacalossi KR, de Vries M et al. Long noncoding RNA CHROMR regulates antiviral immunity in humans. Proc Natl Acad Sci U S A 2022 Sep 13;119(37):e2210321119. PMID: 36001732
  • Kerstholt M, van de Schoor FR, Oosting M, Moorlag SJCFM et al. Identifying platelet-derived factors as amplifiers of B. burgdorferi-induced cytokine production. Clin Exp Immunol 2022 Oct 21;210(1):53-67. PMID: 36001729
  • Rao S, Han AL, Zukowski A, Kopin E et al. Transcription factor-nucleosome dynamics from plasma cfDNA identifies ER-driven states in breast cancer. Sci Adv 2022 Aug 26;8(34):eabm4358. PMID: 36001652
  • Federer LMLong-term availability of data associated with articles in PLOS ONE. PLoS One 2022;17(8):e0272845. PMID: 36001577
  • Huggins B, Farris M et al. Vitamin D(3) promotes longevity in Caenorhabditis elegans. Geroscience 2023 Feb;45(1):345-358. PMID: 36001277
  • Jadhav A, Kumar T, Raghavendra M, Loganathan T et al. Predicting cross-tissue hormone-gene relations using balanced word embeddings. Bioinformatics 2022 Oct 14;38(20):4771-4781. PMID: 36000859
  • Dai W, Li Y, Sun W, Ji M et al. Silencing of OGDHL promotes liver cancer metastasis by enhancing hypoxia inducible factor 1 α protein stability. Cancer Sci 2023 Apr;114(4):1309-1323. PMID: 36000493
  • Devall MA, Eaton S, Ali MW, Dampier CH et al. DNA methylation analysis of normal colon organoids from familial adenomatous polyposis patients reveals novel insight into colon cancer development. Clin Epigenetics 2022 Aug 23;14(1):104. PMID: 35999641
  • Yamazaki S, Inohara N, Ohmuraya M, Tsuneoka Y et al. IκBζ controls IL-17-triggered gene expression program in intestinal epithelial cells that restricts colonization of SFB and prevents Th17-associated pathologies. Mucosal Immunol 2022 Jun;15(6):1321-1337. PMID: 35999460
  • Heo H, Kim JH, Lim HJ, Kim JH et al. DNA methylome and single-cell transcriptome analyses reveal CDA as a potential druggable target for ALK inhibitor-resistant lung cancer therapy. Exp Mol Med 2022 Aug;54(8):1236-1249. PMID: 35999456
  • Park S, Cho EA, Chun JN, Lee DY et al. Crizotinib attenuates cancer metastasis by inhibiting TGFβ signaling in non-small cell lung cancer cells. Exp Mol Med 2022 Aug;54(8):1225-1235. PMID: 35999455
  • Kim D, Kiprov DD, Luellen C, Lieb M et al. Old plasma dilution reduces human biological age: a clinical study. Geroscience 2022 Dec;44(6):2701-2720. PMID: 35999337
  • Chen M, Xu C, Xu Z, He W et al. Uncovering the dynamic effects of DEX treatment on lung cancer by integrating bioinformatic inference and multiscale modeling of scRNA-seq and proteomics data. Comput Biol Med 2022 Oct;149:105999. PMID: 35998480
  • Rinaldi A, Lazareth H, Poindessous V, Nemazanyy I et al. Impaired fatty acid metabolism perpetuates lipotoxicity along the transition to chronic kidney injury. JCI Insight 2022 Sep 22;7(18). PMID: 35998043
  • Zachara M, Rainer PY, Hashimi H, Russeil JM et al. Mammalian adipogenesis regulator (Areg) cells use retinoic acid signalling to be non- and anti-adipogenic in age-dependent manner. EMBO J 2022 Sep 15;41(18):e108206. PMID: 35996853
  • Tsytsykova AV, Wiley G, Li C, Pelikan RC et al. Mutated KLF4(K409Q) in meningioma binds STRs and activates FGF3 gene expression. iScience 2022 Aug 19;25(8):104839. PMID: 35996584
  • Baboota RK, Rawshani A, Bonnet L, Li X et al. BMP4 and Gremlin 1 regulate hepatic cell senescence during clinical progression of NAFLD/NASH. Nat Metab 2022 Aug;4(8):1007-1021. PMID: 35995996
  • Ingebriktsen LM, Finne K, Akslen LA, Wik E et al. A novel age-related gene expression signature associates with proliferation and disease progression in breast cancer. Br J Cancer 2022 Nov;127(10):1865-1875. PMID: 35995935
  • Atlasy N, Bujko A, Bækkevold ES, Brazda P et al. Single cell transcriptomic analysis of the immune cell compartment in the human small intestine and in Celiac disease. Nat Commun 2022 Aug 22;13(1):4920. PMID: 35995787
  • Krebs N, Klein L, Wegwitz F, Espinet E et al. Axon guidance receptor ROBO3 modulates subtype identity and prognosis via AXL-associated inflammatory network in pancreatic cancer. JCI Insight 2022 Aug 22;7(16). PMID: 35993361
  • Chang Z, Zhang Y, Fan J, Zhang L et al. The potential effects and mechanisms of breast inflammatory lesions on the occurrence and development of breast cancer. Front Oncol 2022;12:932743. PMID: 35992864
  • Li JH, Tao YF, Shen CH, Li RD et al. Integrated multi-omics analysis identifies ENY2 as a predictor of recurrence and a regulator of telomere maintenance in hepatocellular carcinoma. Front Oncol 2022;12:939948. PMID: 35992857
  • Zhang D, Huang H, Zheng T, Zhang L et al. Polymeric immunoglobulin receptor suppresses colorectal cancer through the AKT-FOXO3/4 axis by downregulating LAMB3 expression. Front Oncol 2022;12:924988. PMID: 35992840
  • Zhang J, Tang Z, Guo X, Wang Y et al. Synergistic effects of nab-PTX and anti-PD-1 antibody combination against lung cancer by regulating the Pi3K/AKT pathway through the Serpinc1 gene. Front Oncol 2022;12:933646. PMID: 35992834
  • Yuan J, Wang Y, Wang X, Zhang W et al. Construction and experimental verification of user-friendly molecular subtypes mediated by immune-associated genes in hepatocellular carcinoma. Front Oncol 2022;12:924059. PMID: 35992798
  • Wei FZ, Mei SW, Wang ZJ, Chen JN et al. HAMP as a Prognostic Biomarker for Colorectal Cancer Based on Tumor Microenvironment Analysis. Front Oncol 2022;12:884474. PMID: 35992796
  • Zhong W, Liu H, Li F, Lin Y et al. Elevated expression of LIF predicts a poor prognosis and promotes cell migration and invasion of clear cell renal cell carcinoma. Front Oncol 2022;12:934128. PMID: 35992780
  • Zhao Y, Dong J, Liao Y, Wang H et al. Identification and validation of four photodynamic therapy related genes inhibiting MAPK and inducing cell cycle alteration in squamous cell carcinoma. Front Oncol 2022;12:946493. PMID: 35992777
  • Yin M, Zhou L, Ji Y, Lu R et al. In silico identification and verification of ferroptosis-related genes in type 2 diabetic islets. Front Endocrinol (Lausanne) 2022;13:946492. PMID: 35992146
  • Feng X, Wang D, Hu L, Lu H et al. Dendrobium officinale polysaccharide ameliorates polycystic ovary syndrome via regulating butyrate dependent gut-brain-ovary axis mechanism. Front Endocrinol (Lausanne) 2022;13:962775. PMID: 35992123
  • Masuda T, Haji S, Nakashima Y, Tsuda M et al. Identification of a drug-response gene in multiple myeloma through longitudinal single-cell transcriptome sequencing. iScience 2022 Aug 19;25(8):104781. PMID: 35992084
  • Huang R, Sun H, Lin R, Zhang J et al. The role of tetraspanins pan-cancer. iScience 2022 Aug 19;25(8):104777. PMID: 35992081
  • Xi X, Li H, Chen S, Lv T et al. Unfolding the genotype-to-phenotype black box of cardiovascular diseases through cross-scale modeling. iScience 2022 Aug 19;25(8):104790. PMID: 35992073
  • Li Y, Li T, Chen J, Zheng H et al. Manpixiao Decoction Halted the Malignant Transformation of Precancerous Lesions of Gastric Cancer: From Network Prediction to In-Vivo Verification. Front Pharmacol 2022;13:927731. PMID: 35991884
  • Luo Q, Huang S, Zhao L, Liu J et al. Chang qing formula ameliorates colitis-associated colorectal cancer via suppressing IL-17/NF-κB/STAT3 pathway in mice as revealed by network pharmacology study. Front Pharmacol 2022;13:893231. PMID: 35991881
  • Dai L, Wang X, Bai T, Liu J et al. Identification of a novel cellular senescence-related signature for the prediction of prognosis and immunotherapy response in colon cancer. Front Genet 2022;13:961554. PMID: 35991564
  • Jing ChuDevelopment of a prognostic model for children with neuroblastoma based on necroptosis-related genes. Front Genet 2022;13:947000. PMID: 35991559
  • Fang D, Zhang W, Cheng X, Hu F et al. Molecular evolutionary analysis of the SHI/STY gene family in land plants: A focus on the Brassica species. Front Plant Sci 2022;13:958964. PMID: 35991428
  • Jedličková V, Mácová K, Štefková M, Butula J et al. Hairy root transformation system as a tool for CRISPR/Cas9-directed genome editing in oilseed rape (Brassica napus). Front Plant Sci 2022;13:919290. PMID: 35991410
  • Chen L, Wang S, Wang Z, Liu Y et al. Construction and analysis of competing endogenous RNA network and patterns of immune infiltration in abdominal aortic aneurysm. Front Cardiovasc Med 2022;9:955838. PMID: 35990982
  • Cao J, Yuan L et al. Identification of key genes for hypertrophic cardiomyopathy using integrated network analysis of differential lncRNA and gene expression. Front Cardiovasc Med 2022;9:946229. PMID: 35990977
  • Tang Y, Li Z, Yang H, Yang Y et al. YB1 dephosphorylation attenuates atherosclerosis by promoting CCL2 mRNA decay. Front Cardiovasc Med 2022;9:945557. PMID: 35990936
  • Hu R, Shi M, Xu H, Wu X et al. Integrated bioinformatics analysis identifies the effects of Sema3A/NRP1 signaling in oligodendrocytes after spinal cord injury in rats. PeerJ 2022;10:e13856. PMID: 35990904
  • Wei Y, Chen Y, Su H, Ling C et al. Identification of miRNA-mRNA Pairs in Relation to TNF-α/IL-1β Induced Inflammatory Response in Intervertebral Disc Degeneration. Evid Based Complement Alternat Med 2022;2022:3374091. PMID: 35990856
  • Wu W, Zheng L et al. Comprehensive Analysis Identifies COL1A1, COL3A1, and POSTN as Key Genes Associated with Brain Metastasis in Patients with Breast Cancer. Evid Based Complement Alternat Med 2022;2022:7812218. PMID: 35990840
  • Liu J, Zhang D, Cao Y, Zhang H et al. Screening of crosstalk and pyroptosis-related genes linking periodontitis and osteoporosis based on bioinformatics and machine learning. Front Immunol 2022;13:955441. PMID: 35990678
  • Wang C, Ma H, Zhang B, Hua T et al. Inhibition of IL1R1 or CASP4 attenuates spinal cord injury through ameliorating NLRP3 inflammasome-induced pyroptosis. Front Immunol 2022;13:963582. PMID: 35990672
  • Li H, Liu H, Hao Q, Liu X et al. Oncogenic signaling pathway-related long non-coding RNAs for predicting prognosis and immunotherapy response in breast cancer. Front Immunol 2022;13:891175. PMID: 35990668
  • Read JF, Serralha M, Mok D, Holt BJ et al. Lipopolysaccharide-induced interferon response networks at birth are predictive of severe viral lower respiratory infections in the first year of life. Front Immunol 2022;13:876654. PMID: 35990635
  • Shih ML, Lawal B, Cheng SY, Olugbodi JO et al. Large-scale transcriptomic analysis of coding and non-coding pathological biomarkers, associated with the tumor immune microenvironment of thyroid cancer and potential target therapy exploration. Front Cell Dev Biol 2022;10:923503. PMID: 35990603
  • Li X, Abdel-Moneim AE, Hu Z, Mesalam NM et al. Effects of chronic hypoxia on the gene expression profile in the embryonic heart in three Chinese indigenous chicken breeds (Gallus gallus). Front Vet Sci 2022;9:942159. PMID: 35990266
  • Liang L, Yan J, Huang X, Zou C et al. Identification of molecular signatures associated with sleep disorder and Alzheimer's disease. Front Psychiatry 2022;13:925012. PMID: 35990086
  • Maimaiti A, Turhon M, Cheng X, Su R et al. m6A regulator-mediated RNA methylation modification patterns and immune microenvironment infiltration characterization in patients with intracranial aneurysms. Front Neurol 2022;13:889141. PMID: 35989938
  • Zhang C, Shi M, Kim W, Arif M et al. Discovery of therapeutic agents targeting PKLR for NAFLD using drug repositioning. EBioMedicine 2022 Sep;83:104214. PMID: 35988463
  • Perron G, Jandaghi P, Moslemi E, Nishimura T et al. Pan-cancer analysis of mRNA stability for decoding tumour post-transcriptional programs. Commun Biol 2022 Aug 20;5(1):851. PMID: 35987939
  • Simó-Riudalbas L, Offner S, Planet E, Duc J et al. Transposon-activated POU5F1B promotes colorectal cancer growth and metastasis. Nat Commun 2022 Aug 20;13(1):4913. PMID: 35987910
  • Page CM, Nøst TH, Djordjilović V, Thoresen M et al. Pre-diagnostic DNA methylation in blood leucocytes in cutaneous melanoma; a nested case-control study within the Norwegian Women and Cancer cohort. Sci Rep 2022 Aug 20;12(1):14200. PMID: 35987900
  • Zhu J, Wu Y, Yu Y, Li Y et al. MYBL1 induces transcriptional activation of ANGPT2 to promote tumor angiogenesis and confer sorafenib resistance in human hepatocellular carcinoma. Cell Death Dis 2022 Aug 20;13(8):727. PMID: 35987690
  • Ou Z, Lin S, Qiu J, Ding W et al. Single-Nucleus RNA Sequencing and Spatial Transcriptomics Reveal the Immunological Microenvironment of Cervical Squamous Cell Carcinoma. Adv Sci (Weinh) 2022 Oct;9(29):e2203040. PMID: 35986392
  • Ghiboub M, Koster J, Craggs PD, Li Yim AYF et al. Modulation of macrophage inflammatory function through selective inhibition of the epigenetic reader protein SP140. BMC Biol 2022 Aug 19;20(1):182. PMID: 35986286
  • Ghandhi SA, Shuryak I, Ponnaiya B, Wu X et al. Cross-platform validation of a mouse blood gene signature for quantitative reconstruction of radiation dose. Sci Rep 2022 Aug 19;12(1):14124. PMID: 35986207
  • He Q, Lu Y, Tian W, Jiang R et al. TOX deficiency facilitates the differentiation of IL-17A-producing γδ T cells to drive autoimmune hepatitis. Cell Mol Immunol 2022 Oct;19(10):1102-1116. PMID: 35986136
  • Sun Q, Wang Y, Ji H, Sun X et al. Lenvatinib for effectively treating antiangiogenic drug-resistant nasopharyngeal carcinoma. Cell Death Dis 2022 Aug 19;13(8):724. PMID: 35985991
  • Huang Y, Su Y, Shen L, Huo Z et al. A novel IFNbeta-induced long non-coding RNA ZAP-IT1 interrupts Zika virus replication in A549 cells. Virol Sin 2022 Dec;37(6):904-912. PMID: 35985476
  • Jahan S, Awaja N, Hess B, Hajjar S et al. The transcription factor Cdx2 regulates inflammasome activity through expression of the NLRP3 suppressor TRIM31 to maintain intestinal homeostasis. J Biol Chem 2022 Oct;298(10):102386. PMID: 35985421
  • Chang WM, Li LJ, Chiu IA, Lai TC et al. The aberrant cancer metabolic gene carbohydrate sulfotransferase 11 promotes non-small cell lung cancer cell metastasis via dysregulation of ceruloplasmin and intracellular iron balance. Transl Oncol 2022 Nov;25:101508. PMID: 35985204
  • Fazio G, Bresolin S, Silvestri D, Quadri M et al. PAX5 fusion genes are frequent in poor risk childhood acute lymphoblastic leukaemia and can be targeted with BIBF1120. EBioMedicine 2022 Sep;83:104224. PMID: 35985167
  • Tachibana N, Chijimatsu R, Okada H, Oichi T et al. RSPO2 defines a distinct undifferentiated progenitor in the tendon/ligament and suppresses ectopic ossification. Sci Adv 2022 Aug 19;8(33):eabn2138. PMID: 35984875
  • Li A, Mueller A, English B, Arena A et al. Novel feature selection methods for construction of accurate epigenetic clocks. PLoS Comput Biol 2022 Aug;18(8):e1009938. PMID: 35984867
  • Tian L, Liao Y et al. Identification of G6PC as a potential prognostic biomarker in hepatocellular carcinoma based on bioinformatics analysis. Medicine (Baltimore) 2022 Aug 19;101(33):e29548. PMID: 35984176
  • Bentsen M, Heger V, Schultheis H, Kuenne C et al. TF-COMB - Discovering grammar of transcription factor binding sites. Comput Struct Biotechnol J 2022;20:4040-4051. PMID: 35983231
  • Zou HX, Qiu BQ, Zhang ZY, Hu T et al. Dysregulated autophagy-related genes in septic cardiomyopathy: Comprehensive bioinformatics analysis based on the human transcriptomes and experimental validation. Front Cardiovasc Med 2022;9:923066. PMID: 35983185
  • Hong G, Luo F, Chen Z, Ma L et al. Predict ovarian cancer by pairing serum miRNAs: Construct of single sample classifiers. Front Med (Lausanne) 2022;9:923275. PMID: 35983098
  • Li XY, Wang JB, An HB, Wen MZ et al. Effect of SARS-CoV-2 infection on asthma patients. Front Med (Lausanne) 2022;9:928637. PMID: 35983093
  • Du W, Gao CY, You X, Li L et al. Increased proportion of follicular helper T cells is associated with B cell activation and disease severity in IgA nephropathy. Front Immunol 2022;13:901465. PMID: 35983053
  • Du Y, Gao Y, Wu G, Li Z et al. Exploration of the relationship between hippocampus and immune system in schizophrenia based on immune infiltration analysis. Front Immunol 2022;13:878997. PMID: 35983039
  • Yu Z, Yang H, Song K, Fu P et al. Construction of an immune-related gene signature for the prognosis and diagnosis of glioblastoma multiforme. Front Oncol 2022;12:938679. PMID: 35982954
  • Ko DS, Kang J, Heo HJ, Kim EK et al. Role of PCK2 in the proliferation of vascular smooth muscle cells in neointimal hyperplasia. Int J Biol Sci 2022;18(13):5154-5167. PMID: 35982907
  • Zhang T, Xia W, Song X, Mao Q et al. Super-enhancer hijacking LINC01977 promotes malignancy of early-stage lung adenocarcinoma addicted to the canonical TGF-β/SMAD3 pathway. J Hematol Oncol 2022 Aug 18;15(1):114. PMID: 35982471
  • Bjørklund SS, Aure MR, Häkkinen J, Vallon-Christersson J et al. Subtype and cell type specific expression of lncRNAs provide insight into breast cancer. Commun Biol 2022 Aug 18;5(1):834. PMID: 35982125
  • C Silva T, Young JI, Zhang L, Gomez L et al. Cross-tissue analysis of blood and brain epigenome-wide association studies in Alzheimer's disease. Nat Commun 2022 Aug 18;13(1):4852. PMID: 35982059
  • Wang T, Ba X, Zhang X, Zhang N et al. Nuclear import of PTPN18 inhibits breast cancer metastasis mediated by MVP and importin β2. Cell Death Dis 2022 Aug 18;13(8):720. PMID: 35982039
  • Liu X, Geng Y, Liang J, Coelho AL et al. HER2 drives lung fibrosis by activating a metastatic cancer signature in invasive lung fibroblasts. J Exp Med 2022 Oct 3;219(10). PMID: 35980387
  • Li Y, Tan R, Chen Y, Liu Z et al. SC2sepsis: sepsis single-cell whole gene expression database. Database (Oxford) 2022 Aug 18;2022. PMID: 35980286
  • Chen YJ, Cheng PL, Huang WN, Chen HH et al. Single-cell RNA sequencing to decipher the immunogenicity of ChAdOx1 nCoV-19/AZD1222 and mRNA-1273 vaccines in patients with autoimmune rheumatic diseases. Front Immunol 2022;13:920865. PMID: 35979368
  • Yang H, Messina-Pacheco J, Corredor ALG, Gregorieff A et al. An integrated model of acinar to ductal metaplasia-related N7-methyladenosine regulators predicts prognosis and immunotherapy in pancreatic carcinoma based on digital spatial profiling. Front Immunol 2022;13:961457. PMID: 35979350
  • Li ZY, Wu G, Qiu C, Zhou ZJ et al. Mechanism and therapeutic strategy of hepatic TM6SF2-deficient non-alcoholic fatty liver diseases via in vivo and in vitro experiments. World J Gastroenterol 2022 Jul 7;28(25):2937-2954. PMID: 35978872
  • You D, Zhang S, Yan S, Ding Y et al. SAMHD1 as a prognostic and predictive biomarker in stage II colorectal cancer: A multicenter cohort study. Front Oncol 2022;12:939982. PMID: 35978833
  • Cai Z, Xu H, Bai G, Hu H et al. ELAVL1 promotes prostate cancer progression by interacting with other m6A regulators. Front Oncol 2022;12:939784. PMID: 35978821
  • Zhang Y, Deng Z, Sun S, Xie S et al. NAT10 acetylates BCL-XL mRNA to promote the proliferation of multiple myeloma cells through PI3K-AKT pathway. Front Oncol 2022;12:967811. PMID: 35978804
  • Grassi M, Tarantino B et al. SEMgsa: topology-based pathway enrichment analysis with structural equation models. BMC Bioinformatics 2022 Aug 17;23(1):344. PMID: 35978279
  • Tsui C, Kretschmer L, Rapelius S, Gabriel SS et al. MYB orchestrates T cell exhaustion and response to checkpoint inhibition. Nature 2022 Sep;609(7926):354-360. PMID: 35978192
  • Deng Y, Bartosovic M, Ma S, Zhang D et al. Spatial profiling of chromatin accessibility in mouse and human tissues. Nature 2022 Sep;609(7926):375-383. PMID: 35978191
  • Al Mehedi Hasan M, Maniruzzaman M, Shin J et al. Identification of key candidate genes for IgA nephropathy using machine learning and statistics based bioinformatics models. Sci Rep 2022 Aug 17;12(1):13963. PMID: 35978028
  • Xu W, Lai Y, Pan Y, Tan M et al. m6A RNA methylation-mediated NDUFA4 promotes cell proliferation and metabolism in gastric cancer. Cell Death Dis 2022 Aug 17;13(8):715. PMID: 35977935
  • Gesuita L, Cavaccini A, Argunsah AÖ, Favuzzi E et al. Microglia contribute to the postnatal development of cortical somatostatin-positive inhibitory cells and to whisker-evoked cortical activity. Cell Rep 2022 Aug 16;40(7):111209. PMID: 35977514
  • Eyres M, Bell JA, Davies ER, Fabre A et al. Spatially resolved deconvolution of the fibrotic niche in lung fibrosis. Cell Rep 2022 Aug 16;40(7):111230. PMID: 35977489
  • Maher MC, Soriaga LB, Gupta A, Chen YP et al. Antibody therapy reverses biological signatures of COVID-19 progression. Cell Rep Med 2022 Aug 16;3(8):100721. PMID: 35977462
  • Schinke C, Poos AM, Bauer M, John L et al. Characterizing the role of the immune microenvironment in multiple myeloma progression at a single-cell level. Blood Adv 2022 Nov 22;6(22):5873-5883. PMID: 35977111
  • Arneaud SLB, McClendon J, Tatge L, Watterson A et al. Reduced bone morphogenic protein signaling along the gut-neuron axis by heat shock factor promotes longevity. Aging Cell 2022 Sep;21(9):e13693. PMID: 35977034
  • Zhang S, Mao M, Lv Y, Yang Y et al. A widespread length-dependent splicing dysregulation in cancer. Sci Adv 2022 Aug 19;8(33):eabn9232. PMID: 35977015
  • Nishi K, Fu W, Kiyama R et al. Novel estrogen-responsive genes (ERGs) for the evaluation of estrogenic activity. PLoS One 2022;17(8):e0273164. PMID: 35976950
  • Yang M, Harrison BR, Promislow DEL et al. In search of a Drosophila core cellular network with single-cell transcriptome data. G3 (Bethesda) 2022 Sep 30;12(10). PMID: 35976114
  • Azadbakht M, Sayadmanesh A, Nazer N, Ahmadi A et al. CRISPRi-mediated knock-down of PRDM1/BLIMP1 programs central memory differentiation in ex vivo-expanded human T cells. Bioimpacts 2022;12(4):337-347. PMID: 35975204
  • Yang J, Zhang MY, Du YM, Ji XL et al. Identification and Validation of CDKN1A and HDAC1 as Senescence-Related Hub Genes in Chronic Obstructive Pulmonary Disease. Int J Chron Obstruct Pulmon Dis 2022;17:1811-1825. PMID: 35975032
  • Song J, Ruze R, Chen Y, Xu R et al. Construction of a novel model based on cell-in-cell-related genes and validation of KRT7 as a biomarker for predicting survival and immune microenvironment in pancreatic cancer. BMC Cancer 2022 Aug 16;22(1):894. PMID: 35974300
  • Hou Y, Wang T, Ding Y, Yu T et al. Expression profiles of respiratory V-ATPase and calprotectin in SARS-CoV-2 infection. Cell Death Discov 2022 Aug 16;8(1):362. PMID: 35974012
  • Dai W, Yang M, Xia P, Xiao C et al. A functional role of meningeal lymphatics in sex difference of stress susceptibility in mice. Nat Commun 2022 Aug 16;13(1):4825. PMID: 35974004
  • Han Y, Bai X, Liu S, Zhu J et al. XAF1 Protects Host against Emerging RNA Viruses by Stabilizing IRF1-Dependent Antiviral Immunity. J Virol 2022 Sep 14;96(17):e0077422. PMID: 35972291
  • Kshirsagar M, Yuan H, Ferres JL, Leslie C et al. BindVAE: Dirichlet variational autoencoders for de novo motif discovery from accessible chromatin. Genome Biol 2022 Aug 15;23(1):174. PMID: 35971180
  • Schulz R, Korkut-Demirbaş M, Venturino A, Colombo G et al. Chimeric GPCRs mimic distinct signaling pathways and modulate microglia responses. Nat Commun 2022 Aug 15;13(1):4728. PMID: 35970889
  • Manivannan S, Mansfield C, Zhang X, Kodigepalli KM et al. Single-cell transcriptomic profiling unveils dysregulation of cardiac progenitor cells and cardiomyocytes in a mouse model of maternal hyperglycemia. Commun Biol 2022 Aug 15;5(1):820. PMID: 35970860
  • Temena MA, Acar A et al. Increased TRIM31 gene expression is positively correlated with SARS-CoV-2 associated genes TMPRSS2 and TMPRSS4 in gastrointestinal cancers. Sci Rep 2022 Aug 15;12(1):11763. PMID: 35970857
  • Gupta A, Martin-Rufino JD, Jones TR, Subramanian V et al. Inferring gene regulation from stochastic transcriptional variation across single cells at steady state. Proc Natl Acad Sci U S A 2022 Aug 23;119(34):e2207392119. PMID: 35969771
  • Perera M, Nissen SB, Proks M, Pozzi S et al. Transcriptional heterogeneity and cell cycle regulation as central determinants of Primitive Endoderm priming. Elife 2022 Aug 15;11. PMID: 35969041
  • Song J, Lin Z, Liu Q, Huang S et al. MiR-192-5p/RB1/NF-κBp65 signaling axis promotes IL-10 secretion during gastric cancer EMT to induce Treg cell differentiation in the tumour microenvironment. Clin Transl Med 2022 Aug;12(8):e992. PMID: 35969010
  • Patel R, Galagali H, Kim JK, Frand AR et al. Feedback between a retinoid-related nuclear receptor and the let-7 microRNAs controls the pace and number of molting cycles in C. elegans. Elife 2022 Aug 15;11. PMID: 35968765
  • Song F, Zhou J, Quan M, Xiao L et al. Transcriptome and association mapping revealed functional genes respond to drought stress in Populus. Front Plant Sci 2022;13:829888. PMID: 35968119
  • Heidari M, Pakdel A, Bakhtiarizadeh MR, Dehghanian F et al. A framework for non-preserved consensus gene module detection in Johne's disease. Front Vet Sci 2022;9:974444. PMID: 35968017
  • Jin Y, Zhao Q, Zhu W, Feng Y et al. Identification of TAZ as the essential molecular switch in orchestrating SCLC phenotypic transition and metastasis. Natl Sci Rev 2022 Jul;9(7):nwab232. PMID: 35967587
  • Wang X, Liang B, Li J, Pi X et al. Identification and characterization of four immune-related signatures in keloid. Front Immunol 2022;13:942446. PMID: 35967426
  • Pan H, Pan J, Wu J et al. Development and validation of a cancer-associated fibroblast-derived lncRNA signature for predicting clinical outcomes in colorectal cancer. Front Immunol 2022;13:934221. PMID: 35967425
  • Huang ZD, Fu YC, Liu SY, Mao YJ et al. m6A-related metabolism molecular classification with distinct prognosis and immunotherapy response in soft tissue sarcoma. Front Immunol 2022;13:895465. PMID: 35967408
  • Yang M, Zheng H, Xu K, Yuan Q et al. A novel signature to guide osteosarcoma prognosis and immune microenvironment: Cuproptosis-related lncRNA. Front Immunol 2022;13:919231. PMID: 35967366
  • Liu Y, Lu T, Liu Z, Ning W et al. Six macrophage-associated genes in synovium constitute a novel diagnostic signature for osteoarthritis. Front Immunol 2022;13:936606. PMID: 35967352
  • Roels J, Van Hulle J, Lavaert M, Kuchmiy A et al. Transcriptional dynamics and epigenetic regulation of E and ID protein encoding genes during human T cell development. Front Immunol 2022;13:960918. PMID: 35967340
  • Mak TK, Li X, Huang H, Wu K et al. The cancer-associated fibroblast-related signature predicts prognosis and indicates immune microenvironment infiltration in gastric cancer. Front Immunol 2022;13:951214. PMID: 35967313
  • Xu J, Ma J, Zeng Y, Si H et al. A Cross-Tissue Transcriptome-Wide Association Study Identifies Novel Susceptibility Genes for Juvenile Idiopathic Arthritis in Asia and Europe. Front Immunol 2022;13:941398. PMID: 35967305
  • Yang F, Wang T, Yan P, Li W et al. Identification of pyroptosis-related subtypes and establishment of prognostic model and immune characteristics in asthma. Front Immunol 2022;13:937832. PMID: 35967302
  • Tian Y, Lu Y, Cao Y, Dang C et al. Identification of diagnostic signatures associated with immune infiltration in Alzheimer's disease by integrating bioinformatic analysis and machine-learning strategies. Front Aging Neurosci 2022;14:919614. PMID: 35966794
  • Lai Y, Lin C, Lin X, Wu L et al. Identification and immunological characterization of cuproptosis-related molecular clusters in Alzheimer's disease. Front Aging Neurosci 2022;14:932676. PMID: 35966780
  • Jin ML, Yang L, Jeong KW et al. SETD1A-SOX2 axis is involved in tamoxifen resistance in estrogen receptor α-positive breast cancer cells. Theranostics 2022;12(13):5761-5775. PMID: 35966598
  • Lin L, Zhang W et al. Development and validation of endoplasmic reticulum stress-related eight-gene signature for predicting the overall survival of lung adenocarcinoma. Transl Cancer Res 2022 Jul;11(7):1909-1924. PMID: 35966313
  • Chu JL, Bi SH, He Y, Ma RY et al. 5-Hydroxymethylcytosine profiles in plasma cell-free DNA reflect molecular characteristics of diabetic kidney disease. Front Endocrinol (Lausanne) 2022;13:910907. PMID: 35966076
  • Sufriyana H, Salim HM, Muhammad AR, Wu YW et al. Blood biomarkers representing maternal-fetal interface tissues used to predict early-and late-onset preeclampsia but not COVID-19 infection. Comput Struct Biotechnol J 2022;20:4206-4224. PMID: 35966044
  • Chen K, Liang B, Ma W, Wan G et al. Immunological and prognostic analysis of PSENEN in low-grade gliomas: An immune infiltration-related prognostic biomarker. Front Mol Neurosci 2022;15:933855. PMID: 35966015
  • Li J, Zhang X, Liu B, Shi C et al. The expression landscape of FOXP3 and its prognostic value in breast cancer. Ann Transl Med 2022 Jul;10(14):801. PMID: 35965804
  • Ming W, Zhu Y, Bai Y, Gu W et al. Radiogenomics analysis reveals the associations of dynamic contrast-enhanced-MRI features with gene expression characteristics, PAM50 subtypes, and prognosis of breast cancer. Front Oncol 2022;12:943326. PMID: 35965527
  • Wang Y, Liu L, Lin M et al. Psychiatric risk gene transcription factor 4 preferentially regulates cortical interneuron neurogenesis during early brain development. J Biomed Res 2022 Jul 28;36(4):242-254. PMID: 35965434
  • Zhang R, Xu X, Chen X, Hao C et al. Upregulation of key genes Eln and Tgfb3 were associated with the severity of cardiac hypertrophy. BMC Genomics 2022 Aug 14;23(1):592. PMID: 35964009
  • Lee SY, Yun SH, Lee H, Lee YG et al. Serum proteomics of severe fever with thrombocytopenia syndrome patients. Clin Proteomics 2022 Aug 13;19(1):32. PMID: 35964007
  • Bilous M, Tran L, Cianciaruso C, Gabriel A et al. Metacells untangle large and complex single-cell transcriptome networks. BMC Bioinformatics 2022 Aug 13;23(1):336. PMID: 35963997
  • Sanchez-Lopez JA, Twena S, Apel I, Kornhaeuser SC et al. Male-female communication enhances release of extracellular vesicles leading to high fertility in Drosophila. Commun Biol 2022 Aug 13;5(1):815. PMID: 35963938
  • Liu BW, Wang XY, Cao JL, Chen LL et al. TDP-43 upregulates lipid metabolism modulator ABHD2 to suppress apoptosis in hepatocellular carcinoma. Commun Biol 2022 Aug 13;5(1):816. PMID: 35963893
  • Al-Nakouzi N, Wang CK, Oo HZ, Nelepcu I et al. Reformation of the chondroitin sulfate glycocalyx enables progression of AR-independent prostate cancer. Nat Commun 2022 Aug 13;13(1):4760. PMID: 35963852
  • Ishikawa K, Sugimoto S, Oda M, Fujii M et al. Identification of Quiescent LGR5(+) Stem Cells in the Human Colon. Gastroenterology 2022 Nov;163(5):1391-1406.e24. PMID: 35963362
  • Li Y, He XL, Zhou LP, Huang XZ et al. Asiatic acid alleviates liver fibrosis via multiple signaling pathways based on integrated network pharmacology and lipidomics. Eur J Pharmacol 2022 Sep 15;931:175193. PMID: 35963324
  • Zhang D, Li Y, Du C, Sang L et al. Evidence of pyroptosis and ferroptosis extensively involved in autoimmune diseases at the single-cell transcriptome level. J Transl Med 2022 Aug 12;20(1):363. PMID: 35962439
  • Wang N, Gu Y, Li L, Chi J et al. Identification of novel prognostic risk signature of breast cancer based on ferroptosis-related genes. Sci Rep 2022 Aug 12;12(1):13766. PMID: 35962042
  • Manes NP, Calzola JM, Kaplan PR, Fraser IDC et al. Absolute protein quantitation of the mouse macrophage Toll-like receptor and chemotaxis pathways. Sci Data 2022 Aug 12;9(1):491. PMID: 35961990
  • Malik V, Zang R, Fuentes-Iglesias A, Huang X et al. Comparative functional genomics identifies unique molecular features of EPSCs. Life Sci Alliance 2022 Nov;5(11). PMID: 35961778
  • de Hoon M, Bonetti A, Plessy C, Ando Y et al. Deep sequencing of short capped RNAs reveals novel families of noncoding RNAs. Genome Res 2022 Aug 12;32(9):1727-35. PMID: 35961773
  • David M, Olender T, Mizrahi O, Weingarten-Gabbay S et al. DAP5 drives translation of specific mRNA targets with upstream ORFs in human embryonic stem cells. RNA 2022 Oct;28(10):1325-1336. PMID: 35961752
  • Hine E, Runcie DE, Allen SL, Wang Y et al. Maintenance of quantitative genetic variance in complex, multitrait phenotypes: the contribution of rare, large effect variants in 2 Drosophila species. Genetics 2022 Sep 30;222(2). PMID: 35961029
  • Liang Y, Heyman J, Xiang Y, Vandendriessche W et al. The wound-activated ERF15 transcription factor drives Marchantia polymorpha regeneration by activating an oxylipin biosynthesis feedback loop. Sci Adv 2022 Aug 12;8(32):eabo7737. PMID: 35960801
  • Fowler JWM, Zhang R, Tao B, Boutagy NE et al. Inflammatory stress signaling via NF-kB alters accessible cholesterol to upregulate SREBP2 transcriptional activity in endothelial cells. Elife 2022 Aug 12;11. PMID: 35959888
  • Bruch PM, Giles HA, Kolb C, Herbst SA et al. Drug-microenvironment perturbations reveal resistance mechanisms and prognostic subgroups in CLL. Mol Syst Biol 2022 Aug;18(8):e10855. PMID: 35959629
  • Bhave S, Guyer RA, Picard N, Omer M et al. Ednrb (-/-) mice with hirschsprung disease are missing Gad2-expressing enteric neurons in the ganglionated small intestine. Front Cell Dev Biol 2022;10:917243. PMID: 35959491
  • Bu M, Cao X, Zhou B et al. Identification of Potential Biomarkers and Immune Infiltration Characteristics in Ulcerative Colitis by Combining Results from Two Machine Learning Algorithms. Comput Math Methods Med 2022;2022:5412627. PMID: 35959356
  • Kumari A, Rahaman A, Zeng XA, Farooq MA et al. Temporal Cortex Microarray Analysis Revealed Impaired Ribosomal Biogenesis and Hyperactivity of the Glutamatergic System: An Early Signature of Asymptomatic Alzheimer's Disease. Front Neurosci 2022;16:966877. PMID: 35958988
  • Luo H, Zhou X et al. Bioinformatics analysis of potential common pathogenic mechanisms for COVID-19 infection and primary Sjogren's syndrome. Front Immunol 2022;13:938837. PMID: 35958619
  • Su Y, Qi R, Li L, Wang X et al. An immune-related gene prognostic risk index for pancreatic adenocarcinoma. Front Immunol 2022;13:945878. PMID: 35958614
  • Chen Q, Tang P, Huang H, Qiu X et al. Establishment of a circular RNA regulatory stemness-related gene pair signature for predicting prognosis and therapeutic response in colorectal cancer. Front Immunol 2022;13:934124. PMID: 35958575
  • Liu Y, Zhang L, Ju X, Wang S et al. Single-Cell Transcriptomic Analysis Reveals Macrophage-Tumor Crosstalk in Hepatocellular Carcinoma. Front Immunol 2022;13:955390. PMID: 35958556
  • Li W, Yuan P, Liu W, Xiao L et al. Hypoxia-Immune-Related Gene SLC19A1 Serves as a Potential Biomarker for Prognosis in Multiple Myeloma. Front Immunol 2022;13:843369. PMID: 35958555
  • Wang Y, Ju Y, Wang J, Sun N et al. Identification of immune hub genes participating in the pathogenesis and progression of Vogt-Koyanagi-Harada disease. Front Immunol 2022;13:936707. PMID: 35958546
  • Zhang Q, Guo Y, Zhang B, Liu H et al. Identification of hub biomarkers of myocardial infarction by single-cell sequencing, bioinformatics, and machine learning. Front Cardiovasc Med 2022;9:939972. PMID: 35958412
  • Xu W, Deng M, Meng X, Sun X et al. The alterations in molecular markers and signaling pathways in chronic thromboembolic pulmonary hypertension, a study with transcriptome sequencing and bioinformatic analysis. Front Cardiovasc Med 2022;9:961305. PMID: 35958401
  • Moraghebi M, Negahi AA, Bazireh H, Abbasi H et al. The Analysis of SNPs' Function in miR-21 and miR146a/b in Multiple Sclerosis and Active Lesions: An In Silico Study. Bioinform Biol Insights 2022;16:11779322221116322. PMID: 35958297
  • Yadav B, Kaur V, Narayan OP, Yadav SK et al. Integrated omics approaches for flax improvement under abiotic and biotic stress: Current status and future prospects. Front Plant Sci 2022;13:931275. PMID: 35958216
  • Min Soe K, Ogawa T, Moriyama K et al. Molecular mechanism of hyperactive tooth root formation in oculo-facio-cardio-dental syndrome. Front Physiol 2022;13:946282. PMID: 35957990
  • Montero-Calle A, Gómez de Cedrón M, Quijada-Freire A, Solís-Fernández G et al. Metabolic Reprogramming Helps to Define Different Metastatic Tropisms in Colorectal Cancer. Front Oncol 2022;12:903033. PMID: 35957902
  • Li Y, Xu C, Sun B, Zhong F et al. Sema3d Restrained Hepatocellular Carcinoma Progression Through Inactivating Pi3k/Akt Signaling via Interaction With FLNA. Front Oncol 2022;12:913498. PMID: 35957887
  • Si J, Guo R, Xiu B, Chi W et al. Stabilization of CCDC102B by Loss of RACK1 Through the CMA Pathway Promotes Breast Cancer Metastasis via Activation of the NF-κB Pathway. Front Oncol 2022;12:927358. PMID: 35957886
  • Gu C, Lin C, Zhu Z, Hu L et al. The IFN-γ-related long non-coding RNA signature predicts prognosis and indicates immune microenvironment infiltration in uterine corpus endometrial carcinoma. Front Oncol 2022;12:955979. PMID: 35957871
  • Yang D, Li H, Chen Y, Ren W et al. Immunomodulatory mechanisms of abatacept: A therapeutic strategy for COVID-19. Front Med (Lausanne) 2022;9:951115. PMID: 35957855
  • Wang N, Ding L, Liu D, Zhang Q et al. Molecular investigation of candidate genes for pyroptosis-induced inflammation in diabetic retinopathy. Front Endocrinol (Lausanne) 2022;13:918605. PMID: 35957838
  • Liang L, Mai S, Mai G, Chen Y et al. DNA damage repair-related gene signature predicts prognosis and indicates immune cell infiltration landscape in skin cutaneous melanoma. Front Endocrinol (Lausanne) 2022;13:882431. PMID: 35957812
  • Li X, Li Y, Zhao Z, Miao N et al. Immunogenicity of small-cell lung cancer associates with STING pathway activation and is enhanced by ATR and TOP1 inhibition. Cancer Med 2023 Feb;12(4):4864-4881. PMID: 35957613
  • Tsurushima K, Tsubaki M, Takeda T, Matsuda T et al. Dimethyl Fumarate Induces Apoptosis via Inhibition of NF-κB and Enhances the Effect of Paclitaxel and Adriamycin in Human TNBC Cells. Int J Mol Sci 2022 Aug 4;23(15). PMID: 35955813
  • Li R, Okada H, Yamashita T, Nio K et al. FOXM1 Is a Novel Molecular Target of AFP-Positive Hepatocellular Carcinoma Abrogated by Proteasome Inhibition. Int J Mol Sci 2022 Jul 27;23(15). PMID: 35955438
  • Gu L, Chen Y, Li X, Mei Y et al. Integrated Analysis and Identification of Critical RNA-Binding Proteins in Bladder Cancer. Cancers (Basel) 2022 Jul 31;14(15). PMID: 35954405
  • van den Bosch QCC, Nguyen JQN, Brands T, van den Bosch TPP et al. FOXD1 Is a Transcription Factor Important for Uveal Melanocyte Development and Associated with High-Risk Uveal Melanoma. Cancers (Basel) 2022 Jul 28;14(15). PMID: 35954332
  • Santolla MF, Talia M, Cirillo F, Scordamaglia D et al. The AGEs/RAGE Transduction Signaling Prompts IL-8/CXCR1/2-Mediated Interaction between Cancer-Associated Fibroblasts (CAFs) and Breast Cancer Cells. Cells 2022 Aug 4;11(15). PMID: 35954247
  • Saldanha PA, Bolanle IO, Palmer TM, Nikitenko LL et al. Complex Transcriptional Profiles of the PPP1R12A Gene in Cells of the Circulatory System as Revealed by In Silico Analysis and Reverse Transcription PCR. Cells 2022 Jul 27;11(15). PMID: 35954160
  • Tabusam J, Shi Q, Feng D, Zulfiqar S et al. HSP70 Gene Family in Brassica rapa: Genome-Wide Identification, Characterization, and Expression Patterns in Response to Heat and Cold Stress. Cells 2022 Jul 27;11(15). PMID: 35954158
  • Caruso FP, D'Andrea MR, Coppola L, Landriscina M et al. Lymphocyte antigen 6G6D-mediated modulation through p38α MAPK and DNA methylation in colorectal cancer. Cancer Cell Int 2022 Aug 11;22(1):253. PMID: 35953834
  • Li W, Xing C, Bao L, Han S et al. Comprehensive analysis of RNA m6A methylation in pressure overload-induced cardiac hypertrophy. BMC Genomics 2022 Aug 11;23(1):576. PMID: 35953789
  • Nadeu F, Royo R, Massoni-Badosa R, Playa-Albinyana H et al. Detection of early seeding of Richter transformation in chronic lymphocytic leukemia. Nat Med 2022 Aug;28(8):1662-1671. PMID: 35953718
  • Oya S, Takahashi M, Takashima K, Kakutani T et al. Transcription-coupled and epigenome-encoded mechanisms direct H3K4 methylation. Nat Commun 2022 Aug 11;13(1):4521. PMID: 35953471
  • Escudero-Lourdes C, Alvarado-Morales I, Tokar EJ et al. Stem Cells as Target for Prostate cancer Therapy: Opportunities and Challenges. Stem Cell Rev Rep 2022 Dec;18(8):2833-2851. PMID: 35951166
  • Park M, Moon B, Kim JH, Park SJ et al. Downregulation of SETD5 Suppresses the Tumorigenicity of Hepatocellular Carcinoma Cells. Mol Cells 2022 Aug 31;45(8):550-563. PMID: 35950456
  • Song JComparison of Cerebral Cortex Transcriptome Profiles in Ischemic Stroke and Alzheimer's Disease Models. Clin Nutr Res 2022 Jul;11(3):159-170. PMID: 35949563
  • Cui Y, Wang L, Huang Y, Li Y et al. Identification of Key Genes in Atherosclerosis by Combined DNA Methylation and miRNA Expression Analyses. Anatol J Cardiol 2022 Nov;26(11):818-826. PMID: 35949126
  • Alnoumas L, van den Driest L, Apczynski Z, Lannigan A et al. Evaluation of the role of KPNA2 mutations in breast cancer prognosis using bioinformatics datasets. BMC Cancer 2022 Aug 10;22(1):874. PMID: 35948941
  • Erickson A, He M, Berglund E, Marklund M et al. Spatially resolved clonal copy number alterations in benign and malignant tissue. Nature 2022 Aug;608(7922):360-367. PMID: 35948708
  • Bartonicek N, Rouet R, Warren J, Loetsch C et al. The retroelement Lx9 puts a brake on the immune response to virus infection. Nature 2022 Aug;608(7924):757-765. PMID: 35948641
  • Kratofil RM, Shim HB, Shim R, Lee WY et al. A monocyte-leptin-angiogenesis pathway critical for repair post-infection. Nature 2022 Sep;609(7925):166-173. PMID: 35948634
  • Dai L, Mugaanyi J, Cai X, Dong M et al. Comprehensive bioinformatic analysis of MMP1 in hepatocellular carcinoma and establishment of relevant prognostic model. Sci Rep 2022 Aug 10;12(1):13639. PMID: 35948625
  • Ahn S, Kwon A, Huh YH, Rhee S et al. Tumor-derived miR-130b-3p induces cancer-associated fibroblast activation by targeting SPIN90 in luminal A breast cancer. Oncogenesis 2022 Aug 10;11(1):47. PMID: 35948548
  • Nagaraj M, Höring M, Ahonen MA, Nguyen VD et al. GOLM1 depletion modifies cellular sphingolipid metabolism and adversely affects cell growth. J Lipid Res 2022 Sep;63(9):100259. PMID: 35948172
  • Ocsenas O, Reimand J et al. Chromatin accessibility of primary human cancers ties regional mutational processes and signatures with tissues of origin. PLoS Comput Biol 2022 Aug;18(8):e1010393. PMID: 35947558
  • Li Y, Zhang G, Zhao C, Zhang C et al. Gene expression and transcriptomic profiles of invasive behavior in extra-mammary Paget's disease. Chin Med J (Engl) 2022 Nov 5;135(21):2620-2622. PMID: 35946815
  • Ma J, Wu JY, Zhu L et al. Detection of orthologous exons and isoforms using EGIO. Bioinformatics 2022 Sep 30;38(19):4474-4480. PMID: 35946527
  • Wei Y, Huang X, Ma Y, Dai L et al. FOXC1‑mediated TRIM22 regulates the excessive proliferation and inflammation of fibroblast‑like synoviocytes in rheumatoid arthritis via NF‑κB signaling pathway. Mol Med Rep 2022 Oct;26(4). PMID: 35946462
  • Cao MC, Scotter EL et al. Transcriptional targets of amyotrophic lateral sclerosis/frontotemporal dementia protein TDP-43 - meta-analysis and interactive graphical database. Dis Model Mech 2022 Sep 1;15(9). PMID: 35946434
  • Xing Z, Mai H, Liu X, Fu X et al. Single-cell diploid Hi-C reveals the role of spatial aggregations in complex rearrangements and KMT2A fusions in leukemia. Genome Biol 2022 Aug 9;23(1):173. PMID: 35945623
  • Zeng S, Lan B, Ren X, Zhang S et al. CDK7 inhibition augments response to multidrug chemotherapy in pancreatic cancer. J Exp Clin Cancer Res 2022 Aug 10;41(1):241. PMID: 35945614
  • Soto I, Couvillion M, Hansen KG, McShane E et al. Balanced mitochondrial and cytosolic translatomes underlie the biogenesis of human respiratory complexes. Genome Biol 2022 Aug 9;23(1):170. PMID: 35945592
  • Bar N, Nikparvar B, Jayavelu ND, Roessler FK et al. Constrained Fourier estimation of short-term time-series gene expression data reduces noise and improves clustering and gene regulatory network predictions. BMC Bioinformatics 2022 Aug 9;23(1):330. PMID: 35945515
  • Gadd DA, Hillary RF, McCartney DL, Shi L et al. Integrated methylome and phenome study of the circulating proteome reveals markers pertinent to brain health. Nat Commun 2022 Aug 9;13(1):4670. PMID: 35945220
  • Bartolomé A, Ravussin Y, Yu J, Ferrante AW et al. An Overfeeding-Induced Obesity Mouse Model Reveals Necessity for Sin3a in Postnatal Peak β-Cell Mass Acquisition. Diabetes 2022 Nov 1;71(11):2395-2401. PMID: 35944274
  • Chandiran K, Suarez-Ramirez JE, Hu Y, Jellison ER et al. SMAD4 and TGFβ are architects of inverse genetic programs during fate determination of antiviral CTLs. Elife 2022 Aug 9;11. PMID: 35942952
  • Ramirez M, Badayeva Y, Yeung J, Wu J et al. Temporal analysis of enhancers during mouse cerebellar development reveals dynamic and novel regulatory functions. Elife 2022 Aug 9;11. PMID: 35942939
  • Jin P, Zhang H, Zhu X, Sun K et al. Bioinformatics analysis of mRNA profiles and identification of microRNA-mRNA network in CD4(+) T cells in seasonal allergic rhinitis. J Int Med Res 2022 Aug;50(8):3000605221113918. PMID: 35942560
  • Lin Y, Wu S, Xiao X, Zhao J et al. Protocol to estimate cell type proportions from bulk RNA-seq using DAISM-DNN(XMBD). STAR Protoc 2022 Sep 16;3(3):101587. PMID: 35942344
  • Li YJ, Li HY, Zhang Q, Wei SL et al. The prognostic value and immune landscape of a cuproptosis-related lncRNA signature in head and neck squamous cell carcinoma. Front Genet 2022;13:942785. PMID: 35942287
  • Ilieva M, Tschaikowski M, Vandin A, Uchida S et al. The current status of gene expression profilings in COVID-19 patients. Clin Transl Discov 2022 Sep;2(3):e104. PMID: 35942159
  • Zhong Y, Zhang W, Yu H, Lin L et al. Multi-platform-based characterization of ferroptosis in human colorectal cancer. iScience 2022 Aug 19;25(8):104750. PMID: 35942097
  • Zhao J, Liang J, Yang Y, Sun G et al. Integrated multi-omics analyses reveal that BCAM is associated with epigenetic modification and tumor microenvironment subtypes of clear cell renal cell carcinoma. Clin Epigenetics 2022 Aug 8;14(1):99. PMID: 35941663
  • Brumwell A, Aubourg G, Hussain J, Parker E et al. Identification of TMEM129, encoding a ubiquitin-protein ligase, as an effector gene of osteoarthritis genetic risk. Arthritis Res Ther 2022 Aug 8;24(1):189. PMID: 35941660
  • Tang Y, Zhang S, Li J, Wu C et al. ID1 marks the tumorigenesis of pancreatic ductal adenocarcinoma in mouse and human. Sci Rep 2022 Aug 8;12(1):13555. PMID: 35941362
  • Koren E, Feldman A, Yusupova M, Kadosh A et al. Thy1 marks a distinct population of slow-cycling stem cells in the mouse epidermis. Nat Commun 2022 Aug 8;13(1):4628. PMID: 35941116
  • Ni Q, Sun J, Wang Y, Wang Y et al. mTORC1 is required for epigenetic silencing during β-cell functional maturation. Mol Metab 2022 Oct;64:101559. PMID: 35940555
  • Lin Z, Huang Q, Liu J, Wang H et al. Interleukin-17D promotes lung cancer progression by inducing tumor-associated macrophage infiltration via the p38 MAPK signaling pathway. Aging (Albany NY) 2022 Aug 5;14(15):6149-6168. PMID: 35939336
  • Yu L, Liu X, Wang X, Yan H et al. Glycometabolism-related gene signature of hepatocellular carcinoma predicts prognosis and guides immunotherapy. Front Cell Dev Biol 2022;10:940551. PMID: 35938165
  • Yu Z, Liang C, Tu H, Qiu S et al. Common Core Genes Play Vital Roles in Gastric Cancer With Different Stages. Front Genet 2022;13:881948. PMID: 35938042
  • Dodlapati S, Jiang Z, Sun J et al. Completing Single-Cell DNA Methylome Profiles via Transfer Learning Together With KL-Divergence. Front Genet 2022;13:910439. PMID: 35938031
  • Li R, Lu C, Li X, Chen X et al. A Four-MicroRNA Panel in Serum as a Potential Biomarker for Screening Renal Cell Carcinoma. Front Genet 2022;13:897827. PMID: 35938021
  • Xie C, Yin Z, Liu Y et al. Analysis of characteristic genes and ceRNA regulation mechanism of endometriosis based on full transcriptional sequencing. Front Genet 2022;13:902329. PMID: 35938015
  • Lai D, Wang L, Li JR, Chen C et al. Transcriptional progressive patterns from mild to severe renal ischemia/reperfusion-induced kidney injury in mice. Front Genet 2022;13:874189. PMID: 35938014
  • Ahn J, Lee J, Kim DH, Hwang IS et al. Loss of Monoallelic Expression of IGF2 in the Adult Liver Via Alternative Promoter Usage and Chromatin Reorganization. Front Genet 2022;13:920641. PMID: 35938007
  • Zhang S, Zhang W, Zhang J et al. 8-Gene signature related to CD8(+) T cell infiltration by integrating single-cell and bulk RNA-sequencing in head and neck squamous cell carcinoma. Front Genet 2022;13:938611. PMID: 35938006
  • Yue SR, Tan YY, Zhang L, Zhang BJ et al. Gynostemma pentaphyllum polysaccharides ameliorate non-alcoholic steatohepatitis in mice associated with gut microbiota and the TLR2/NLRP3 pathway. Front Endocrinol (Lausanne) 2022;13:885039. PMID: 35937847
  • Huang J, Zhou Q et al. CD8+T Cell-Related Gene Biomarkers in Macular Edema of Diabetic Retinopathy. Front Endocrinol (Lausanne) 2022;13:907396. PMID: 35937822
  • Mo L, Ma C, Wang Z, Li J et al. Integrated Bioinformatic Analysis of the Shared Molecular Mechanisms Between Osteoporosis and Atherosclerosis. Front Endocrinol (Lausanne) 2022;13:950030. PMID: 35937806
  • Albaradei S, Albaradei A, Alsaedi A, Uludag M et al. MetastaSite: Predicting metastasis to different sites using deep learning with gene expression data. Front Mol Biosci 2022;9:913602. PMID: 35936793
  • Mo X, Hu D, Yang P, Li Y et al. A novel cuproptosis-related prognostic lncRNA signature and lncRNA MIR31HG/miR-193a-3p/TNFRSF21 regulatory axis in lung adenocarcinoma. Front Oncol 2022;12:927706. PMID: 35936736
  • Mao M, Chu Q, Lou Y, Lv P et al. RNA N1-methyladenosine regulator-mediated methylation modification patterns and heterogeneous signatures in glioma. Front Immunol 2022;13:948630. PMID: 35936006
  • Zhao ZY, Chen ZY, Yu B, Xiao B et al. Characterization of the immune cell infiltration landscape in myxofibrosarcoma to aid immunotherapy. Front Immunol 2022;13:916915. PMID: 35936000
  • Chen J, Hao L, Qian X, Lin L et al. Machine learning models based on immunological genes to predict the response to neoadjuvant therapy in breast cancer patients. Front Immunol 2022;13:948601. PMID: 35935976
  • Cao ZX, Weng X, Huang JS, Long X et al. Receptor-ligand pair typing and prognostic risk model for papillary thyroid carcinoma based on single-cell sequencing. Front Immunol 2022;13:902550. PMID: 35935973
  • Jiang M, Wu X, Bao S, Wang X et al. Immunometabolism characteristics and a potential prognostic risk model associated with TP53 mutations in breast cancer. Front Immunol 2022;13:946468. PMID: 35935965
  • Wang Y, Su W, Li Y, Yuan J et al. Analyzing the pathogenesis of systemic lupus erythematosus complicated by atherosclerosis using transcriptome data. Front Immunol 2022;13:935545. PMID: 35935949
  • Wang S, Fu Y, Kuerban K, Liu J et al. Discoidin domain receptor 1 is a potential target correlated with tumor invasion and immune infiltration in gastric cancer. Front Immunol 2022;13:933165. PMID: 35935941
  • Li J, Wu J, Huang J, Cheng Y et al. Uncovering the Effect and Mechanism of Rhizoma Corydalis on Myocardial Infarction Through an Integrated Network Pharmacology Approach and Experimental Verification. Front Pharmacol 2022;13:927488. PMID: 35935870
  • Tian X, Zheng J, Mou W, Lu G et al. Development and validation of a hypoxia-stemness-based prognostic signature in pancreatic adenocarcinoma. Front Pharmacol 2022;13:939542. PMID: 35935823
  • Li X, Wang Z, Zhou W, Fu X et al. Interferon-alpha responsible EPN3 regulates hepatitis B virus replication. Front Med (Lausanne) 2022;9:944489. PMID: 35935763
  • Wu C, Liu Y, Wan K, Lan Y et al. Long Non-Coding RNA and mRNA Profiles in the Spinal Cord of Rats with Resiniferatoxin-Induced Neuropathic Pain. J Pain Res 2022;15:2149-2160. PMID: 35935680
  • Bai Z, Luo Y, Tian L et al. ERCC5, HES6 and RORA are potential diagnostic markers of coronary artery disease. FEBS Open Bio 2022 Oct;12(10):1814-1827. PMID: 35934844
  • Barturen G, Carnero-Montoro E, Martínez-Bueno M, Rojo-Rello S et al. Whole blood DNA methylation analysis reveals respiratory environmental traits involved in COVID-19 severity following SARS-CoV-2 infection. Nat Commun 2022 Aug 6;13(1):4597. PMID: 35933486
  • Papanicolaou M, Parker AL, Yam M, Filipe EC et al. Temporal profiling of the breast tumour microenvironment reveals collagen XII as a driver of metastasis. Nat Commun 2022 Aug 6;13(1):4587. PMID: 35933466
  • Antoranz A, Ortiz M, Pey J et al. ELIMINATOR: essentiality analysis using multisystem networks and integer programming. BMC Bioinformatics 2022 Aug 6;23(1):324. PMID: 35933325
  • Bergholtz H, Lien T, Lingaas F, Sørlie T et al. Comparative analysis of the molecular subtype landscape in canine and human mammary gland tumors. J Mammary Gland Biol Neoplasia 2022 Jun;27(2):171-183. PMID: 35932380
  • Park SR, Kim SK, Kim SR, Yu WJ et al. Effects of smoking on the tissue regeneration-associated functions of human endometrial stem cells via a novel target gene SERPINB2. Stem Cell Res Ther 2022 Aug 5;13(1):404. PMID: 35932085
  • Zhu J, Zhong Z et al. The expression and clinical significance of miR-30b-3p and miR-125b-1-3p in patients with periodontitis. BMC Oral Health 2022 Aug 5;22(1):325. PMID: 35931990
  • Prasad B, Li X et al. Fused inverse-normal method for integrated differential expression analysis of RNA-seq data. BMC Bioinformatics 2022 Aug 5;23(1):320. PMID: 35931958
  • Choi SK, Kim M, Lee H, Kwon Y et al. Activation of the HSP27-AKT axis contributes to gefitinib resistance in non-small cell lung cancer cells independent of EGFR mutations. Cell Oncol (Dordr) 2022 Oct;45(5):913-930. PMID: 35931945
  • Chen Y, Toth R, Chocarro S, Weichenhan D et al. Club cells employ regeneration mechanisms during lung tumorigenesis. Nat Commun 2022 Aug 5;13(1):4557. PMID: 35931677
  • Silvin A, Uderhardt S, Piot C, Da Mesquita S et al. Dual ontogeny of disease-associated microglia and disease inflammatory macrophages in aging and neurodegeneration. Immunity 2022 Aug 9;55(8):1448-1465.e6. PMID: 35931085
  • Vasquez EG, Nasreddin N, Valbuena GN, Mulholland EJ et al. Dynamic and adaptive cancer stem cell population admixture in colorectal neoplasia. Cell Stem Cell 2022 Aug 4;29(8):1213-1228.e8. PMID: 35931031
  • Kikuchi J, Kodama N, Takeshita M, Ikeda S et al. EMD originates from hyaluronan-induced homophilic interactions of CD44 variant-expressing MM cells under shear stress. Blood Adv 2023 Feb 28;7(4):508-524. PMID: 35930695
  • Zhou X, Franklin RA, Adler M, Carter TS et al. Microenvironmental sensing by fibroblasts controls macrophage population size. Proc Natl Acad Sci U S A 2022 Aug 9;119(32):e2205360119. PMID: 35930670
  • Bannister S, Kim B, Domínguez-Andrés J, Kilic G et al. Neonatal BCG vaccination is associated with a long-term DNA methylation signature in circulating monocytes. Sci Adv 2022 Aug 5;8(31):eabn4002. PMID: 35930640
  • Ge X, Yao T, Zhang C, Wang Q et al. Human microRNA-4433 (hsa-miR-4443) Targets 18 Genes to be a Risk Factor of Neurodegenerative Diseases. Curr Alzheimer Res 2022;19(7):511-522. PMID: 35929619
  • Cury SS, Kuasne H, Souza JDS, Muñoz JJM et al. Interplay Between Immune and Cancer-Associated Fibroblasts: A Path to Target Metalloproteinases in Penile Cancer. Front Oncol 2022;12:935093. PMID: 35928876
  • Tang Y, Zhang P, Liu Q, Cao L et al. Pyroptotic Patterns in Blood Leukocytes Predict Disease Severity and Outcome in COVID-19 Patients. Front Immunol 2022;13:888661. PMID: 35928821
  • Zhu H, Hu X, Feng S, Gu L et al. Predictive value of PIMREG in the prognosis and response to immune checkpoint blockade of glioma patients. Front Immunol 2022;13:946692. PMID: 35928818
  • Jiang F, Chen X, Shen Y, Shen X et al. Identification and Validation of an m6A Modification of JAK-STAT Signaling Pathway-Related Prognostic Prediction Model in Gastric Cancer. Front Genet 2022;13:891744. PMID: 35928449
  • Ning L, Huo Q, Xie N et al. Comprehensive Analysis of the Expression and Prognosis for Tripartite Motif-Containing Genes in Breast Cancer. Front Genet 2022;13:876325. PMID: 35928444
  • Xie R, Xie M, Zhu L, Chiu JWY et al. The Relationship of Pyroptosis-Related Genes, Patient Outcomes, and Tumor-Infiltrating Cells in Bladder Urothelial Carcinoma (BLCA). Front Pharmacol 2022;13:930951. PMID: 35928267
  • Li X, Shi X, Mesalam NM, Liu L et al. Mechanism of Lysoforte in Improving Jejuna Morphology and Health in Broiler Chickens. Front Vet Sci 2022;9:946148. PMID: 35928108
  • Callahan SC, Kochat V, Liu Z, Raman AT et al. High enhancer activity is an epigenetic feature of HPV negative atypical head and neck squamous cell carcinoma. Front Cell Dev Biol 2022;10:936168. PMID: 35927986
  • Bürger A, Dugas M et al. Cogito: automated and generic comparison of annotated genomic intervals. BMC Bioinformatics 2022 Aug 4;23(1):315. PMID: 35927614
  • Yue Y, Ye C, Peng PY, Zhai HX et al. A deep learning framework for identifying essential proteins based on multiple biological information. BMC Bioinformatics 2022 Aug 4;23(1):318. PMID: 35927611
  • Knisbacher BA, Lin Z, Hahn CK, Nadeu F et al. Molecular map of chronic lymphocytic leukemia and its impact on outcome. Nat Genet 2022 Nov;54(11):1664-1674. PMID: 35927489
  • Castonguay CE, Liao C, Khayachi A, Liu Y et al. Transcriptomic effects of propranolol and primidone converge on molecular pathways relevant to essential tremor. NPJ Genom Med 2022 Aug 4;7(1):46. PMID: 35927430
  • Thongthip S, Carlson A, Crossley MP, Schwer B et al. Relationships between genome-wide R-loop distribution and classes of recurrent DNA breaks in neural stem/progenitor cells. Sci Rep 2022 Aug 4;12(1):13373. PMID: 35927309
  • Lenos KJ, Bach S, Ferreira Moreno L, Ten Hoorn S et al. Molecular characterization of colorectal cancer related peritoneal metastatic disease. Nat Commun 2022 Aug 4;13(1):4443. PMID: 35927254
  • Bakhti M, Bastidas-Ponce A, Tritschler S, Czarnecki O et al. Synaptotagmin-13 orchestrates pancreatic endocrine cell egression and islet morphogenesis. Nat Commun 2022 Aug 4;13(1):4540. PMID: 35927244
  • Sutormin D, Galivondzhyan A, Musharova O, Travin D et al. Interaction between transcribing RNA polymerase and topoisomerase I prevents R-loop formation in E. coli. Nat Commun 2022 Aug 4;13(1):4524. PMID: 35927234
  • Williamson D, Schwalbe EC, Hicks D, Aldinger KA et al. Medulloblastoma group 3 and 4 tumors comprise a clinically and biologically significant expression continuum reflecting human cerebellar development. Cell Rep 2022 Aug 2;40(5):111162. PMID: 35926460
  • Iida K, Kondo J, Wibisana JN, Inoue M et al. ASURAT: functional annotation-driven unsupervised clustering of single-cell transcriptomes. Bioinformatics 2022 Sep 15;38(18):4330-4336. PMID: 35924984
  • Jia J, Ga L, Liu Y, Yang Z et al. Serine Protease Inhibitor Kazal Type 1, A Potential Biomarker for the Early Detection, Targeting, and Prediction of Response to Immune Checkpoint Blockade Therapies in Hepatocellular Carcinoma. Front Immunol 2022;13:923031. PMID: 35924241
  • Sun Q, Wang H, Xiao B, Xue D et al. Development and Validation of a 6-Gene Hypoxia-Related Prognostic Signature For Cholangiocarcinoma. Front Oncol 2022;12:954366. PMID: 35924146
  • Meng Y, Zhou R, Lin Z, Peng Q et al. Identification and Validation of a Novel Prognostic Gene Model for Colorectal Cancer. Comput Math Methods Med 2022;2022:9774219. PMID: 35924107
  • Nozawa K, Masuda S, Saze H, Ikeda Y et al. Epigenetic regulation of ecotype-specific expression of the heat-activated transposon ONSEN. Front Plant Sci 2022;13:899105. PMID: 35923888
  • Li Z, Feng J, Zhong J, Lu M et al. Screening of the Key Genes and Signalling Pathways for Diabetic Nephropathy Using Bioinformatics Analysis. Front Endocrinol (Lausanne) 2022;13:864407. PMID: 35923621
  • Zheng X, Wang X, He Y, Ge H et al. Systematic analysis of expression profiles of HMGB family members for prognostic application in non-small cell lung cancer. Front Mol Biosci 2022;9:844618. PMID: 35923467
  • Naik A, Dalpatraj N, Thakur N et al. Global Gene Expression Regulation Mediated by TGFβ Through H3K9me3 Mark. Cancer Inform 2022;21:11769351221115135. PMID: 35923287
  • Liu M, Sun W, Ma Z, Guo C et al. Integrated network analyses identify MYB4R1 neofunctionalization in the UV-B adaptation of Tartary buckwheat. Plant Commun 2022 Nov 14;3(6):100414. PMID: 35923114
  • Ouyang L, Qiu D, Fu X, Wu A et al. Overexpressing HPGDS in adipose-derived mesenchymal stem cells reduces inflammatory state and improves wound healing in type 2 diabetic mice. Stem Cell Res Ther 2022 Aug 3;13(1):395. PMID: 35922870
  • Liu Y, Wang T, Li R et al. A prognostic Risk Score model for oral squamous cell carcinoma constructed by 6 glycolysis-immune-related genes. BMC Oral Health 2022 Aug 3;22(1):324. PMID: 35922788
  • Maleknia S, Tavassolifar MJ, Mottaghitalab F, Zali MR et al. Identifying novel host-based diagnostic biomarker panels for COVID-19: a whole-blood/nasopharyngeal transcriptome meta-analysis. Mol Med 2022 Aug 3;28(1):86. PMID: 35922752
  • Zhu C, Lee JY, Woo JZ, Xu L et al. An intranasal ASO therapeutic targeting SARS-CoV-2. Nat Commun 2022 Aug 3;13(1):4503. PMID: 35922434
  • Francis CM, Futschik ME, Huang J, Bai W et al. Genome-wide associations of aortic distensibility suggest causality for aortic aneurysms and brain white matter hyperintensities. Nat Commun 2022 Aug 3;13(1):4505. PMID: 35922433
  • Vasavda C, Xu R, Liew J, Kothari R et al. Identification of the NRF2 transcriptional network as a therapeutic target for trigeminal neuropathic pain. Sci Adv 2022 Aug 5;8(31):eabo5633. PMID: 35921423
  • Benedetti V, Banfi F, Zaghi M, Moll-Diaz R et al. A SOX2-engineered epigenetic silencer factor represses the glioblastoma genetic program and restrains tumor development. Sci Adv 2022 Aug 5;8(31):eabn3986. PMID: 35921410
  • Chen D, Nemazanyy I, Peulen O, Shostak K et al. Elp3-mediated codon-dependent translation promotes mTORC2 activation and regulates macrophage polarization. EMBO J 2022 Sep 15;41(18):e109353. PMID: 35920020
  • Acurzio B, Cecere F, Giaccari C, Verma A et al. The mismatch-repair proteins MSH2 and MSH6 interact with the imprinting control regions through the ZFP57-KAP1 complex. Epigenetics Chromatin 2022 Aug 2;15(1):27. PMID: 35918739
  • Ki BS, Shim SH, Park C, Yoo H et al. Epigenetic regulator Cfp1 safeguards male meiotic progression by regulating meiotic gene expression. Exp Mol Med 2022 Aug;54(8):1098-1108. PMID: 35918532
  • Takihara Y, Higaki T, Yokomizo T, Umemoto T et al. Bone marrow imaging reveals the migration dynamics of neonatal hematopoietic stem cells. Commun Biol 2022 Aug 2;5(1):776. PMID: 35918480
  • González BJ, Zhao H, Niu J, Williams DJ et al. Reduced calcium levels and accumulation of abnormal insulin granules in stem cell models of HNF1A deficiency. Commun Biol 2022 Aug 2;5(1):779. PMID: 35918471
  • Zhang S, Pang K, Feng X, Zeng Y et al. Transcriptomic data exploration of consensus genes and molecular mechanisms between chronic obstructive pulmonary disease and lung adenocarcinoma. Sci Rep 2022 Aug 2;12(1):13214. PMID: 35918384
  • Secher T, Couturier A, Huot L, Bouscayrol H et al. A Protective Role of NOD2 on Oxazolone-induced Intestinal Inflammation Through IL-1β-mediated Signalling Pathway. J Crohns Colitis 2023 Jan 27;17(1):111-122. PMID: 35917251
  • Boulinguiez A, Duhem C, Mayeuf-Louchart A, Pourcet B et al. NR1D1 controls skeletal muscle calcium homeostasis through myoregulin repression. JCI Insight 2022 Sep 8;7(17). PMID: 35917173
  • Brown JA, Sanidad KZ, Lucotti S, Lieber CM et al. Gut microbiota-derived metabolites confer protection against SARS-CoV-2 infection. Gut Microbes 2022 Jan-Dec;14(1):2105609. PMID: 35915556
  • Feng P, Chen D, Wang X, Li Y et al. Inhibition of the m(6)A reader IGF2BP2 as a strategy against T-cell acute lymphoblastic leukemia. Leukemia 2022 Sep;36(9):2180-2188. PMID: 35915142
  • Song J, Nabeel-Shah S, Pu S, Lee H et al. Regulation of alternative polyadenylation by the C2H2-zinc-finger protein Sp1. Mol Cell 2022 Sep 1;82(17):3135-3150.e9. PMID: 35914531
  • Ou H, Wang L, Xi Z, Shen H et al. MYO10 contributes to the malignant phenotypes of colorectal cancer via RACK1 by activating integrin/Src/FAK signaling. Cancer Sci 2022 Nov;113(11):3838-3851. PMID: 35912545
  • Chen Z, Han Z, Nan H, Fan J et al. A Novel Pyroptosis-Related Gene Signature for Predicting the Prognosis and the Associated Immune Infiltration in Colon Adenocarcinoma. Front Oncol 2022;12:904464. PMID: 35912258
  • Jin Y, Wang Z, Tang W, Liao M et al. An Integrated Analysis of Prognostic Signature and Immune Microenvironment in Tongue Squamous Cell Carcinoma. Front Oncol 2022;12:891716. PMID: 35912229
  • Wei J, Hou S, Li M, Yao X et al. Necroptosis-Related Genes Signatures Identified Molecular Subtypes and Underlying Mechanisms in Hepatocellular Carcinoma. Front Oncol 2022;12:875264. PMID: 35912224
  • Zhu Y, Chen B, Yan J, Zhao W et al. BNIP3 Upregulation Characterizes Cancer Cell Subpopulation With Increased Fitness and Proliferation. Front Oncol 2022;12:923890. PMID: 35912211
  • Xue S, Zheng T, Yan J, Ma J et al. Identification of a 3-Gene Model as Prognostic Biomarker in Patients With Gastric Cancer. Front Oncol 2022;12:930586. PMID: 35912206
  • Han D, Li B, Zhao Q, Sun H et al. The Key Clinical Questions of Neoadjuvant Chemoradiotherapy for Resectable Esophageal Cancer-A Review. Front Oncol 2022;12:890688. PMID: 35912182
  • Pokorna Z, Hrabal V, Tichy V, Vojtesek B et al. DNA Demethylation Switches Oncogenic ΔNp63 to Tumor Suppressive TAp63 in Squamous Cell Carcinoma. Front Oncol 2022;12:924354. PMID: 35912167
  • Chai K, Zhang X, Chen S, Gu H et al. Application of weighted co-expression network analysis and machine learning to identify the pathological mechanism of Alzheimer's disease. Front Aging Neurosci 2022;14:837770. PMID: 35912089
  • Xu Y, Zhong L, Wei H, Li Y et al. Brain Region- and Age-Dependent 5-Hydroxymethylcytosine Activity in the Non-Human Primate. Front Aging Neurosci 2022;14:934224. PMID: 35912074
  • Li Z, Wang D, Guo W, Zhang S et al. Identification of cortical interneuron cell markers in mouse embryos based on machine learning analysis of single-cell transcriptomics. Front Neurosci 2022;16:841145. PMID: 35911980
  • Li C, Lu Y, Han X et al. Identification of Effective Diagnostic Biomarkers and Immune Cell Infiltration in Atopic Dermatitis by Comprehensive Bioinformatics Analysis. Front Mol Biosci 2022;9:917077. PMID: 35911963
  • Regev O, Kizner M, Roncato F, Dadiani M et al. ICAM-1 on Breast Cancer Cells Suppresses Lung Metastasis but Is Dispensable for Tumor Growth and Killing by Cytotoxic T Cells. Front Immunol 2022;13:849701. PMID: 35911772
  • Zhang C, Correia C, Weiskittel TM, Tan SH et al. A Knowledge-Based Discovery Approach Couples Artificial Neural Networks With Weight Engineering to Uncover Immune-Related Processes Underpinning Clinical Traits of Breast Cancer. Front Immunol 2022;13:920669. PMID: 35911770
  • Wei R, Qin Z, Huang Q, Liu L et al. A Landscape Study on COVID-19 Immunity at the Single-Cell Level. Front Immunol 2022;13:918383. PMID: 35911765
  • Liu J, Lei B, Yu X, Li Y et al. Combining Immune-Related Genes For Delineating the Extracellular Matrix and Predicting Hormone Therapy and Neoadjuvant Chemotherapy Benefits In Breast Cancer. Front Immunol 2022;13:888339. PMID: 35911730
  • Cai J, Wu S, Zhang F, Dai Z et al. Construction and Validation of an Epigenetic Regulator Signature as A Novel Biomarker For Prognosis, Immunotherapy, And Chemotherapy In Hepatocellular Carcinoma. Front Immunol 2022;13:952413. PMID: 35911718
  • Yang L, Chen Y, Huang W et al. Hub Genes Identification, Small Molecule Compounds Prediction for Atrial Fibrillation and Diagnostic Model Construction Based on XGBoost Algorithm. Front Cardiovasc Med 2022;9:920399. PMID: 35911532
  • Liang ZQ, He RQ, Luo JY, Huang ZG et al. Downregulated Dual-Specificity Protein Phosphatase 1 in Ovarian Carcinoma: A Comprehensive Study With Multiple Methods. Pathol Oncol Res 2022;28:1610404. PMID: 35911442
  • Yang S, Zeng L, Jin X, Lin H et al. Feature Genes in Neuroblastoma Distinguishing High-Risk and Non-high-Risk Neuroblastoma Patients: Development and Validation Combining Random Forest With Artificial Neural Network. Front Med (Lausanne) 2022;9:882348. PMID: 35911385
  • Ning N, Zhang S, Wu Q, Li X et al. Inhibition of acylglycerol kinase sensitizes DLBCL to venetoclax via upregulation of FOXO1-mediated BCL-2 expression. Theranostics 2022;12(12):5537-5550. PMID: 35910796
  • Li H, Li J, Xiao T, Hu Y et al. Nintedanib Alleviates Experimental Colitis by Inhibiting CEBPB/PCK1 and CEBPB/EFNA1 Pathways. Front Pharmacol 2022;13:904420. PMID: 35910380
  • Sun C, Chen Y, Kim NH, Lowe S et al. Identification and Verification of Potential Biomarkers in Gastric Cancer By Integrated Bioinformatic Analysis. Front Genet 2022;13:911740. PMID: 35910202
  • Zhao Z, Li W, Zhu L, Xu B et al. Construction and Verification of a Fibroblast-Related Prognostic Signature Model for Colon Cancer. Front Genet 2022;13:908957. PMID: 35910200
  • Wang S, Chen A, Zhu W, Feng D et al. Characterization of Fatty Acid Metabolism in Lung Adenocarcinoma. Front Genet 2022;13:905508. PMID: 35910199
  • Zhu J, Sanford LD, Ren R, Zhang Y et al. Multiple Machine Learning Methods Reveal Key Biomarkers of Obstructive Sleep Apnea and Continuous Positive Airway Pressure Treatment. Front Genet 2022;13:927545. PMID: 35910196
  • Song Q, Zhu X, Jin L, Chen M et al. SMGR: a joint statistical method for integrative analysis of single-cell multi-omics data. NAR Genom Bioinform 2022 Sep;4(3):lqac056. PMID: 35910046
  • Deng N, Zhang Y, Ma Z, Lin R et al. DSIF modulates RNA polymerase II occupancy according to template G + C content. NAR Genom Bioinform 2022 Sep;4(3):lqac054. PMID: 35910045
  • Watanabe M, Otagaki S, Matsumoto S, Shiratake K et al. Genome-Wide Analysis of Multidrug and Toxic Compound Extruction Transporters in Grape. Front Plant Sci 2022;13:892638. PMID: 35909729
  • Xu D, Ma R, Ju Y, Song X et al. Cholesterol sulfate alleviates ulcerative colitis by promoting cholesterol biosynthesis in colonic epithelial cells. Nat Commun 2022 Jul 30;13(1):4428. PMID: 35908039
  • Shao X, Li C, Yang H, Lu X et al. Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data with SpaTalk. Nat Commun 2022 Jul 30;13(1):4429. PMID: 35908020
  • Cai B, Liu Y, Chong Y, Mori SF et al. A truncated derivative of FGFR1 kinase cooperates with FLT3 and KIT to transform hematopoietic stem cells in syndromic and de novo AML. Mol Cancer 2022 Jul 29;21(1):156. PMID: 35906694
  • Li J, Nie P, Turck CW, Wang GZ et al. Gene networks under circadian control exhibit diurnal organization in primate organs. Commun Biol 2022 Jul 29;5(1):764. PMID: 35906476
  • Schierding W, Horsfield JA, O'Sullivan J et al. Genetic variation as a long-distance modulator of RAD21 expression in humans. Sci Rep 2022 Jul 29;12(1):13035. PMID: 35906355
  • Katashima CK, de Oliveira Micheletti T, Braga RR, Gaspar RS et al. Evidence for a neuromuscular circuit involving hypothalamic interleukin-6 in the control of skeletal muscle metabolism. Sci Adv 2022 Jul 29;8(30):eabm7355. PMID: 35905178
  • Zhou D, Wu Z, Park JG, Fiches GN et al. FACT subunit SUPT16H associates with BRD4 and contributes to silencing of interferon signaling. Nucleic Acids Res 2022 Aug 26;50(15):8700-8718. PMID: 35904816
  • Ko EA, Zhou T et al. GPCR genes as a predictor of glioma severity and clinical outcome. J Int Med Res 2022 Jul;50(7):3000605221113911. PMID: 35903880
  • Mao W, Yu Q, Wang K, Ma Q et al. Comprehensive Analysis of the Transcriptome-wide m6A Methylome in Lung Adenocarcinoma by MeRIP Sequencing. Front Oncol 2022;12:791332. PMID: 35903698
  • Wang X, Wang Y, Sun F, Xu Y et al. Novel LncRNA ZFHX4-AS1 as a Potential Prognostic Biomarker That Affects the Immune Microenvironment in Ovarian Cancer. Front Oncol 2022;12:945518. PMID: 35903691
  • Nie M, Liu Q, Yan C et al. Skeletal Muscle Transcriptomic Comparison Between Men and Women in Response to Acute Sprint Exercise. Front Genet 2022;13:860815. PMID: 35903364
  • Xiao J, Zheng L, Liu J et al. Comprehensive Analysis of the Aberrance and Functional Significance of Ferroptosis in Gastric Cancer. Front Pharmacol 2022;13:919490. PMID: 35903347
  • Malmström E, Khan HN, Veer CV', Stunnenberg M et al. The Long Non-Coding Antisense RNA JHDM1D-AS1 Regulates Inflammatory Responses in Human Monocytes. Front Cell Infect Microbiol 2022;12:934313. PMID: 35903199
  • Liu Y, Dong Y, Wu X, Wang X et al. Identification of Immune Microenvironment Changes and the Expression of Immune-Related Genes in Liver Cirrhosis. Front Immunol 2022;13:918445. PMID: 35903097
  • Zhu J, Yan M, Yan H, Xu L et al. Single-Cell Transcriptomic Analysis Reveals the Crosstalk Propensity Between the Tumor Intermediate State and the CD8+ T Exhausted State to be Associated with Clinical Benefits in Melanoma. Front Immunol 2022;13:766852. PMID: 35903095
  • Kan M, Sun M, Jiang X, Diwadkar AR et al. CEBPD modulates the airway smooth muscle transcriptomic response to glucocorticoids. Respir Res 2022 Jul 28;23(1):193. PMID: 35902923
  • Hogg SJ, Motorna O, Kearney CJ, Derrick EB et al. Distinct modulation of IFNγ-induced transcription by BET bromodomain and catalytic P300/CBP inhibition in breast cancer. Clin Epigenetics 2022 Jul 28;14(1):96. PMID: 35902886
  • Pang Y, Bai G, Zhao J, Wei X et al. The BRD4 inhibitor JQ1 suppresses tumor growth by reducing c-Myc expression in endometrial cancer. J Transl Med 2022 Jul 28;20(1):336. PMID: 35902869
  • Shao L, Pelayo A, Shi R, Ma J et al. Identification of genomic determinants contributing to cytokine release in immunotherapies and human diseases. J Transl Med 2022 Jul 28;20(1):338. PMID: 35902861
  • Wen J, Wan L, Dong X et al. The prognostic value of autophagy related genes with potential protective function in Ewing sarcoma. BMC Bioinformatics 2022 Jul 28;23(1):306. PMID: 35902797
  • Woods ML, Weiss A, Sokol AM, Graumann J et al. Epigenetically silenced apoptosis-associated tyrosine kinase (AATK) facilitates a decreased expression of Cyclin D1 and WEE1, phosphorylates TP53 and reduces cell proliferation in a kinase-dependent manner. Cancer Gene Ther 2022 Dec;29(12):1975-1987. PMID: 35902728
  • van den Ende NS, Smid M, Timmermans A, van Brakel JB et al. HER2-low breast cancer shows a lower immune response compared to HER2-negative cases. Sci Rep 2022 Jul 28;12(1):12974. PMID: 35902644
  • Kim WK, Olson AW, Mi J, Wang J et al. Aberrant androgen action in prostatic progenitor cells induces oncogenesis and tumor development through IGF1 and Wnt axes. Nat Commun 2022 Jul 28;13(1):4364. PMID: 35902588
  • Fujiwara N, Shigemoto M, Hirayama M, Fujita KI et al. MPP6 stimulates both RRP6 and DIS3 to degrade a specified subset of MTR4-sensitive substrates in the human nucleus. Nucleic Acids Res 2022 Aug 26;50(15):8779-8806. PMID: 35902094
  • Gao Y, Silva LND, Hurley JD, Fan X et al. Gene module regulation in dilated cardiomyopathy and the role of Na/K-ATPase. PLoS One 2022;17(7):e0272117. PMID: 35901050
  • Forouzandeh A, Rutar A, Kalmady SV, Greiner R et al. Analyzing biomarker discovery: Estimating the reproducibility of biomarker sets. PLoS One 2022;17(7):e0252697. PMID: 35901020
  • Merleev AA, Le ST, Alexanian C, Toussi A et al. Biogeographic and disease-specific alterations in epidermal lipid composition and single-cell analysis of acral keratinocytes. JCI Insight 2022 Aug 22;7(16). PMID: 35900871
  • Mei Y, Ren K, Liu Y, Ma A et al. Bone marrow-confined IL-6 signaling mediates the progression of myelodysplastic syndromes to acute myeloid leukemia. J Clin Invest 2022 Sep 1;132(17). PMID: 35900794
  • Badonyi M, Marsh JA et al. Large protein complex interfaces have evolved to promote cotranslational assembly. Elife 2022 Jul 28;11. PMID: 35899946
  • Mercadal J, Betegón-Putze I, Bosch N, Caño-Delgado AI et al. BRAVO self-confined expression through WOX5 in the Arabidopsis root stem-cell niche. Development 2022 Aug 1;149(15). PMID: 35899779
  • Schaefer M, Nabih A, Spies D, Hermes V et al. Global and precise identification of functional miRNA targets in mESCs by integrative analysis. EMBO Rep 2022 Sep 5;23(9):e54762. PMID: 35899551
  • Wang Y, Wang Z, Li K, Xiang W et al. lncRNAs Functioned as ceRNA to Sponge miR-15a-5p Affects the Prognosis of Pancreatic Adenocarcinoma and Correlates With Tumor Immune Infiltration. Front Genet 2022;13:874667. PMID: 35899199
  • Song B, Wu P, Liang Z, Wang J et al. A Novel Necroptosis-Related Gene Signature in Skin Cutaneous Melanoma Prognosis and Tumor Microenvironment. Front Genet 2022;13:917007. PMID: 35899194
  • Wang J, Lin W, Li R, Cheng H et al. The Deubiquitinase USP13 Maintains Cancer Cell Stemness by Promoting FASN Stability in Small Cell Lung Cancer. Front Oncol 2022;12:899987. PMID: 35898882
  • Lu L, Wang H, Fang J, Zheng J et al. Overexpression of OAS1 Is Correlated With Poor Prognosis in Pancreatic Cancer. Front Oncol 2022;12:944194. PMID: 35898870
  • Martinucci B, Cucielo MS, Minatel BC, Cury SS et al. Fibronectin Modulates the Expression of miRNAs in Prostate Cancer Cell Lines. Front Vet Sci 2022;9:879997. PMID: 35898539
  • Wang G, Yang L, Wang Y, Hu R et al. Characterization of Immune-Related Molecular Subtypes and a Prognostic Signature Correlating With the Response to Immunotherapy in Patients With Gastric Cancer. Front Immunol 2022;13:939836. PMID: 35898512
  • Xu W, Tang HJ, Anwaier A, Liu W et al. Immunogenomic Characteristics of Cell-Death-Associated Genes with Prognostic Implications in Bladder Cancer. Front Immunol 2022;13:909324. PMID: 35898507
  • Liang X, Zhang H, Wang Z, Zhang X et al. JMJD8 Is an M2 Macrophage Biomarker, and It Associates With DNA Damage Repair to Facilitate Stemness Maintenance, Chemoresistance, and Immunosuppression in Pan-Cancer. Front Immunol 2022;13:875786. PMID: 35898493
  • Sun JX, Liu CQ, Xu JZ, An Y et al. A Four-Cell-Senescence-Regulator-Gene Prognostic Index Verified by Genome-Wide CRISPR Can Depict the Tumor Microenvironment and Guide Clinical Treatment of Bladder Cancer. Front Immunol 2022;13:908068. PMID: 35898492
  • Iborra-Egea O, Aimo A, Martini N, Galvez-Monton C et al. The Potential Anti-remodeling Effect of Paroxetine After Myocardial Infarction May Be Blunted by Beta-Blockers. Front Cardiovasc Med 2022;9:887248. PMID: 35898267
  • Liu Y, Li D, Zhang S, Zhang L et al. Integrated Analysis of Microarray, Small RNA, and Degradome Datasets Uncovers the Role of MicroRNAs in Temperature-Sensitive Genic Male Sterility in Wheat. Int J Mol Sci 2022 Jul 22;23(15). PMID: 35897633
  • Tan YD, Guda C et al. NBBt-test: a versatile method for differential analysis of multiple types of RNA-seq data. Sci Rep 2022 Jul 27;12(1):12833. PMID: 35896555
  • Robles-Rebollo I, Cuartero S, Canellas-Socias A, Wells S et al. Cohesin couples transcriptional bursting probabilities of inducible enhancers and promoters. Nat Commun 2022 Jul 27;13(1):4342. PMID: 35896525
  • Zhu Y, Liu W, Wang Z, Wang Y et al. ARHGEF2/EDN1 pathway participates in ER stress-related drug resistance of hepatocellular carcinoma by promoting angiogenesis and malignant proliferation. Cell Death Dis 2022 Jul 27;13(7):652. PMID: 35896520
  • Liu Y, Yao Y, Sun H, Zhao J et al. Lipid metabolism-related genes as biomarkers and therapeutic targets reveal endometrial receptivity and immune microenvironment in women with reproductive dysfunction. J Assist Reprod Genet 2022 Sep;39(9):2179-2190. PMID: 35895215
  • Braems E, Bercier V, Van Schoor E, Heeren K et al. HNRNPK alleviates RNA toxicity by counteracting DNA damage in C9orf72 ALS. Acta Neuropathol 2022 Sep;144(3):465-488. PMID: 35895140
  • Gong L, Zhang Y, Yang Y, Yan Q et al. Inhibition of lysyl oxidase-like 2 overcomes adhesion-dependent drug resistance in the collagen-enriched liver cancer microenvironment. Hepatol Commun 2022 Nov;6(11):3194-3211. PMID: 35894804
  • He Z, Xin Z, Yang Q, Wang C et al. Mapping the single-cell landscape of acral melanoma and analysis of the molecular regulatory network of the tumor microenvironments. Elife 2022 Jul 27;11. PMID: 35894206
  • Chuang HC, Hsueh CH, Hsu PM, Huang RH et al. SARS-CoV-2 spike protein enhances MAP4K3/GLK-induced ACE2 stability in COVID-19. EMBO Mol Med 2022 Sep 7;14(9):e15904. PMID: 35894122
  • Ko YK, Gim JA et al. New Drug Development and Clinical Trial Design by Applying Genomic Information Management. Pharmaceutics 2022 Jul 24;14(8). PMID: 35893795
  • Wang M, Liu M, Huang Y, Wang Z et al. Differential Gene Expression and Methylation Analysis of Melanoma in TCGA Database to Further Study the Expression Pattern of KYNU in Melanoma. J Pers Med 2022 Jul 25;12(8). PMID: 35893303
  • Ilieva M, Dao J, Miller HE, Madsen JH et al. Systematic Analysis of Long Non-Coding RNA Genes in Nonalcoholic Fatty Liver Disease. Noncoding RNA 2022 Jul 22;8(4). PMID: 35893239
  • Wang KR, McGeachie MJ et al. DisiMiR: Predicting Pathogenic miRNAs Using Network Influence and miRNA Conservation. Noncoding RNA 2022 Jun 23;8(4). PMID: 35893228
  • Sundqvist B, Kilpinen S, Böhling T, Koljonen V et al. Activation of Oncogenic and Immune-Response Pathways Is Linked to Disease-Specific Survival in Merkel Cell Carcinoma. Cancers (Basel) 2022 Jul 23;14(15). PMID: 35892849
  • Müller L, Kschischo M, Vokuhl C, Stahl D et al. Stemness Correlates Inversely with MHC Class I Expression in Pediatric Small Round Blue Cell Tumors. Cancers (Basel) 2022 Jul 22;14(15). PMID: 35892842
  • Dubois-Pot-Schneider H, Aninat C, Kattler K, Fekir K et al. Transcriptional and Epigenetic Consequences of DMSO Treatment on HepaRG Cells. Cells 2022 Jul 26;11(15). PMID: 35892596
  • George B, Gui B, Raguraman R, Paul AM et al. AKT1 Transcriptomic Landscape in Breast Cancer Cells. Cells 2022 Jul 25;11(15). PMID: 35892586
  • Güven EGene Expression Characteristics of Tumor and Adjacent Non-Tumor Tissues of Pancreatic Ductal Adenocarcinoma (PDAC) In-Silico. Iran J Biotechnol 2022 Jan;20(1):e3092. PMID: 35891953
  • Gao S, Rehman J, Dai Y et al. Assessing comparative importance of DNA sequence and epigenetic modifications on gene expression using a deep convolutional neural network. Comput Struct Biotechnol J 2022;20:3814-3823. PMID: 35891778
  • Zhang M, Zhang Y, Jiao X, Lai L et al. Identification and validation of immune related core transcription factors GTF2I in NAFLD. PeerJ 2022;10:e13735. PMID: 35891648
  • Curty G, Iniguez LP, Soares MA, Nixon DF et al. Off-Target Effect of Activation of NF-κB by HIV Latency Reversal Agents on Transposable Elements Expression. Viruses 2022 Jul 20;14(7). PMID: 35891551
  • Ripon Rouf ASM, Amin MA, Islam MK, Haque F et al. Statistical Bioinformatics to Uncover the Underlying Biological Mechanisms That Linked Smoking with Type 2 Diabetes Patients Using Transcritpomic and GWAS Analysis. Molecules 2022 Jul 8;27(14). PMID: 35889263
  • Wang J, Jin J, Chen T, Zhou Q et al. Curcumol Synergizes with Cisplatin in Osteosarcoma by Inhibiting M2-like Polarization of Tumor-Associated Macrophages. Molecules 2022 Jul 6;27(14). PMID: 35889217
  • Tamura K, Bono H et al. Meta-Analysis of RNA Sequencing Data of Arabidopsis and Rice under Hypoxia. Life (Basel) 2022 Jul 19;12(7). PMID: 35888167
  • Alfaro R, Lorente S, Jimenez-Coll V, Martínez-Banaclocha H et al. Evaluating the Link between BAFF System Gene Expression and Acute Rejection Development in Kidney Transplantation. J Clin Med 2022 Jul 7;11(14). PMID: 35887720
  • D'Aurizio R, Catona O, Pitasi M, Li YE et al. Bridging between Mouse and Human Enhancer-Promoter Long-Range Interactions in Neural Stem Cells, to Understand Enhancer Function in Neurodevelopmental Disease. Int J Mol Sci 2022 Jul 19;23(14). PMID: 35887306
  • Smith MD, Leemaqz SY, Jankovic-Karasoulos T, McAninch D et al. Haemolysis Detection in MicroRNA-Seq from Clinical Plasma Samples. Genes (Basel) 2022 Jul 21;13(7). PMID: 35886071
  • Alanis-Funes GJ, Lira-Albarrán S, Hernández-Pérez J, Garza-Elizondo MA et al. Genomic Characterization by Whole-Exome Sequencing of Hypermobility Spectrum Disorder. Genes (Basel) 2022 Jul 18;13(7). PMID: 35886052
  • Do AR, Ko DY, Kim J, Bak SH et al. Genome-Wide Association Study of Airway Wall Thickening in a Korean Chronic Obstructive Pulmonary Disease Cohort. Genes (Basel) 2022 Jul 15;13(7). PMID: 35886039
  • Moore J, Hekman R, Blum BC, Lawton M et al. Pilot Study Showing Feasibility of Phosphoproteomic Profiling of Pathway-Level Molecular Alterations in Barrett's Esophagus. Genes (Basel) 2022 Jul 7;13(7). PMID: 35885999
  • Shafat Z, Ahmed MM, Almajhdi FN, Hussain T et al. Identification of the Key miRNAs and Genes Associated with the Regulation of Non-Small Cell Lung Cancer: A Network-Based Approach. Genes (Basel) 2022 Jun 29;13(7). PMID: 35885958
  • Zheng D, Zhang W et al. Characterization of Expression and Epigenetic Features of Core Genes in Common Wheat. Genes (Basel) 2022 Jun 21;13(7). PMID: 35885895
  • Kryczka J, Boncela J et al. Integrated Bioinformatics Analysis of the Hub Genes Involved in Irinotecan Resistance in Colorectal Cancer. Biomedicines 2022 Jul 16;10(7). PMID: 35885025
  • Germain A, Perotin JM, Delepine G, Polette M et al. Whole-Exome Sequencing of Bronchial Epithelial Cells Reveals a Genetic Print of Airway Remodelling in COPD. Biomedicines 2022 Jul 15;10(7). PMID: 35885019
  • Maza RM, Barreda-Manso MA, Reigada D, Silván Á et al. MicroRNA-138-5p Targets Pro-Apoptotic Factors and Favors Neural Cell Survival: Analysis in the Injured Spinal Cord. Biomedicines 2022 Jun 30;10(7). PMID: 35884864
  • Tsao CC, Wu HH, Wang YF, Shen PC et al. Novel Inflammasome-Based Risk Score for Predicting Survival and Efficacy to Immunotherapy in Early-Stage Non-Small Cell Lung Cancer. Biomedicines 2022 Jun 28;10(7). PMID: 35884843
  • Bakr MN, Takahashi H, Kikuchi Y et al. Analysis of Melanoma Gene Expression Signatures at the Single-Cell Level Uncovers 45-Gene Signature Related to Prognosis. Biomedicines 2022 Jun 22;10(7). PMID: 35884783
  • Zhang Q, Zhang C, Liu C, Zhan H et al. Identification and Validation of Novel Potential Pathogenesis and Biomarkers to Predict the Neurological Outcome after Cardiac Arrest. Brain Sci 2022 Jul 15;12(7). PMID: 35884735
  • Giannos P, Prokopidis K, Forbes SC, Celoch K et al. Gene Expression Changes of Murine Cortex Homeostasis in Response to Sleep Deprivation Hint Dysregulated Aging-like Transcriptional Responses. Brain Sci 2022 Jun 24;12(7). PMID: 35884632
  • Leonardi L, Siberil S, Alifano M, Cremer I et al. Autophagy-Related Gene Signature Highlights Metabolic and Immunogenic Status of Malignant Cells in Non-Small Cell Lung Cancer Adenocarcinoma. Cancers (Basel) 2022 Jul 16;14(14). PMID: 35884522
  • Łuczkowska K, Taryma-Leśniak O, Bińkowski J, Sokołowska KE et al. Long-Term Treatment with Bortezomib Induces Specific Methylation Changes in Differentiated Neuronal Cells. Cancers (Basel) 2022 Jul 13;14(14). PMID: 35884461
  • Sarafidis M, Lambrou GI, Zoumpourlis V, Koutsouris D et al. An Integrated Bioinformatics Analysis towards the Identification of Diagnostic, Prognostic, and Predictive Key Biomarkers for Urinary Bladder Cancer. Cancers (Basel) 2022 Jul 10;14(14). PMID: 35884419
  • Ando R, Sakai A, Iida T, Kataoka K et al. Good and Bad Stroma in Pancreatic Cancer: Relevance of Functional States of Cancer-Associated Fibroblasts. Cancers (Basel) 2022 Jul 7;14(14). PMID: 35884375
  • Auwercx J, Kischel P, Lefebvre T, Jonckheere N et al. TRPM7 Modulates Human Pancreatic Stellate Cell Activation. Cells 2022 Jul 21;11(14). PMID: 35883700
  • Zhang N, Wu Y, Wu Y, Wang L et al. Ferroptosis-Related Genes Are Potential Therapeutic Targets and the Model of These Genes Influences Overall Survival of NSCLC Patients. Cells 2022 Jul 15;11(14). PMID: 35883650
  • Chen L, Wei K, Li J, Li Y et al. Integrated Analysis of LncRNA-Mediated ceRNA Network in Calcific Aortic Valve Disease. Cells 2022 Jul 14;11(14). PMID: 35883646
  • Wang C, Aikemu B, Shao Y, Zhang S et al. Genomic signature of MTOR could be an immunogenicity marker in human colorectal cancer. BMC Cancer 2022 Jul 26;22(1):818. PMID: 35883111
  • Gull N, Jones MR, Peng PC, Coetzee SG et al. DNA methylation and transcriptomic features are preserved throughout disease recurrence and chemoresistance in high grade serous ovarian cancers. J Exp Clin Cancer Res 2022 Jul 27;41(1):232. PMID: 35883104
  • Takayanagi-Hara R, Sawada Y, Sugino H, Minokawa Y et al. STING expression is an independent prognostic factor in patients with mycosis fungoides. Sci Rep 2022 Jul 26;12(1):12739. PMID: 35882970
  • Went M, Hoang PH, Law PJ, Kaiser MF et al. Exploiting gene dependency to inform drug development for multiple myeloma. Sci Rep 2022 Jul 26;12(1):12696. PMID: 35882937
  • Shan Q, Zhu S, Chen X, Liu J et al. Tcf1-CTCF cooperativity shapes genomic architecture to promote CD8(+) T cell homeostasis. Nat Immunol 2022 Aug;23(8):1222-1235. PMID: 35882936
  • Ly PT, Xu S, Wirawan M, Luo D et al. ZAP isoforms regulate unfolded protein response and epithelial- mesenchymal transition. Proc Natl Acad Sci U S A 2022 Aug 2;119(31):e2121453119. PMID: 35881805
  • Zwack EE, Chen Z, Devlin JC, Li Z et al. Staphylococcus aureus induces a muted host response in human blood that blunts the recruitment of neutrophils. Proc Natl Acad Sci U S A 2022 Aug 2;119(31):e2123017119. PMID: 35881802
  • Sazegari S, Niazi A, Zinati Z, Eskandari MH et al. Mining transcriptomic data to identify Saccharomyces cerevisiae signatures related to improved and repressed ethanol production under fermentation. PLoS One 2022;17(7):e0259476. PMID: 35881609
  • Du J, Shao MM, Yi FS, Huang ZY et al. Interleukin 32 as a Potential Marker for Diagnosis of Tuberculous Pleural Effusion. Microbiol Spectr 2022 Aug 31;10(4):e0255321. PMID: 35880892
  • Junttila S, Smolander J, Elo LL et al. Benchmarking methods for detecting differential states between conditions from multi-subject single-cell RNA-seq data. Brief Bioinform 2022 Sep 20;23(5). PMID: 35880426
  • Zhao F, Li Z, Dong Z, Wang Z et al. Exploring the Potential of Exosome-Related LncRNA Pairs as Predictors for Immune Microenvironment, Survival Outcome, and Microbiotain Landscape in Esophageal Squamous Cell Carcinoma. Front Immunol 2022;13:918154. PMID: 35880180
  • Wang Y, Li B, Zhao Y et al. Inflammation in Preeclampsia: Genetic Biomarkers, Mechanisms, and Therapeutic Strategies. Front Immunol 2022;13:883404. PMID: 35880174
  • Li Q, Li Y, Sun X, Zhang X et al. Genomic Analysis of Abnormal DNAM Methylation in Parathyroid Tumors. Int J Endocrinol 2022;2022:4995196. PMID: 35879975
  • Armaka M, Konstantopoulos D, Tzaferis C, Lavigne MD et al. Single-cell multimodal analysis identifies common regulatory programs in synovial fibroblasts of rheumatoid arthritis patients and modeled TNF-driven arthritis. Genome Med 2022 Jul 26;14(1):78. PMID: 35879783
  • Agnetti J, Bou Malham V, Desterke C, Benzoubir N et al. PI3Kδ activity controls plasticity and discriminates between EMT and stemness based on distinct TGFβ signaling. Commun Biol 2022 Jul 25;5(1):740. PMID: 35879421
  • Zhan Y, Zhou X, Peuget S, Singh M et al. Decreased DNA Damage and Improved p53 Specificity of RITA Analogs. Mol Cancer Ther 2022 Oct 7;21(10):1524-1534. PMID: 35877475
  • Jin P, Jin Q, Wang X, Zhao M et al. Large-Scale In Vitro and In Vivo CRISPR-Cas9 Knockout Screens Identify a 16-Gene Fitness Score for Improved Risk Assessment in Acute Myeloid Leukemia. Clin Cancer Res 2022 Sep 15;28(18):4033-4044. PMID: 35877119
  • Seale C, Tepeli Y, Gonçalves JP et al. Overcoming selection bias in synthetic lethality prediction. Bioinformatics 2022 Sep 15;38(18):4360-4368. PMID: 35876858
  • Xie Z, Kropiwnicki E, Wojciechowicz ML, Jagodnik KM et al. Getting Started with LINCS Datasets and Tools. Curr Protoc 2022 Jul;2(7):e487. PMID: 35876555
  • Wang J, Fan H, Xia S, Shao J et al. Microbiome, Transcriptome, and Metabolomic Analyses Revealed the Mechanism of Immune Response to Diarrhea in Rabbits Fed Antibiotic-Free Diets. Front Microbiol 2022;13:888984. PMID: 35875568
  • Cai HJ, Shi J, Yin LB, Zheng JF et al. Downregulation of TCF1 in HIV Infection Impairs T-cell Proliferative Capacity by Disrupting Mitochondrial Function. Front Microbiol 2022;13:880873. PMID: 35875558
  • Liao K, Hu J, Huang Y, Yu S et al. m(6)A Regulator-Based Methylation Modification Patterns Characterized by Distinct Tumor Microenvironment Immune Profiles in Rectal Cancer. Front Oncol 2022;12:879405. PMID: 35875124
  • Zhang H, Zhang X, Wang X, Sun H et al. Comprehensive Analysis of TRP Channel-Related Genes in Patients With Triple-Negative Breast Cancer for Guiding Prognostic Prediction. Front Oncol 2022;12:941283. PMID: 35875096
  • Sui Z, Wu X, Du L, Wang H et al. Characterization of the Immune Cell Infiltration Landscape in Esophageal Squamous Cell Carcinoma. Front Oncol 2022;12:879326. PMID: 35875070
  • Li L, Gao Q, Wang J, Gu L et al. Induction of Ferroptosis by Ophiopogonin-B Through Regulating the Gene Signature AURKA in NSCLC. Front Oncol 2022;12:833814. PMID: 35875069
  • Zhou Y, Che Y, Fu Z, Zhang H et al. Triple-Negative Breast Cancer Analysis Based on Metabolic Gene Classification and Immunotherapy. Front Public Health 2022;10:902378. PMID: 35875026
  • Liu D, Wan Y, Qu N, Fu Q et al. LncRNA-FAM66C Was Identified as a Key Regulator for Modulating Tumor Microenvironment and Hypoxia-Related Pathways in Glioblastoma. Front Public Health 2022;10:898270. PMID: 35874989
  • Qian B, Wu K, Lou X, Li K et al. Ferroptosis Associates With Diagnosis and Prognosis by Promoting Antitumor Immune Response in Melanoma. Front Cell Dev Biol 2022;10:915198. PMID: 35874826
  • Wang Y, Huang Y, Li C, Wang X et al. Establishment of a Necroptosis Related Genes Signature to Predict Prognosis and Therapeutic Response in Colon Cancer. Front Cell Dev Biol 2022;10:921320. PMID: 35874811
  • Tang X, Li R, Wu D, Wang Y et al. Development and Validation of an ADME-Related Gene Signature for Survival, Treatment Outcome and Immune Cell Infiltration in Head and Neck Squamous Cell Carcinoma. Front Immunol 2022;13:905635. PMID: 35874705
  • You W, Ouyang J, Cai Z, Chen Y et al. Comprehensive Analyses of Immune Subtypes of Stomach Adenocarcinoma for mRNA Vaccination. Front Immunol 2022;13:827506. PMID: 35874675
  • Teng B, Xie C, Zhao Y, Zeng Q et al. Identification of MEDAG and SERPINE1 Related to Hypoxia in Abdominal Aortic Aneurysm Based on Weighted Gene Coexpression Network Analysis. Front Physiol 2022;13:926508. PMID: 35874515
  • Vidović T, Ewald CY et al. Longevity-Promoting Pathways and Transcription Factors Respond to and Control Extracellular Matrix Dynamics During Aging and Disease. Front Aging 2022;3:935220. PMID: 35874275
  • Xu E, Tikkanen M, Seyednasrollah F, Kangasjärvi S et al. Simultaneous Ozone and High Light Treatments Reveal an Important Role for the Chloroplast in Co-ordination of Defense Signaling. Front Plant Sci 2022;13:883002. PMID: 35873979
  • Zhou W, Hinoue T, Barnes B, Mitchell O et al. DNA methylation dynamics and dysregulation delineated by high-throughput profiling in the mouse. Cell Genom 2022 Jul 13;2(7). PMID: 35873672
  • Wang C, Qu Z, Chen L, Pan Y et al. Characterization of Lactate Metabolism Score in Breast and Thyroid Cancers to Assist Immunotherapy via Large-Scale Transcriptomic Data Analysis. Front Pharmacol 2022;13:928419. PMID: 35873566
  • Hu X, Yang Y, Wang Y, Ren S et al. Identifying an Immune-Related Gene ST8SIA1 as a Novel Target in Patients With Clear-Cell Renal Cell Carcinoma. Front Pharmacol 2022;13:901518. PMID: 35873547
  • Li Z, Ma Z, Xue H, Shen R et al. Chromatin Separation Regulators Predict the Prognosis and Immune Microenvironment Estimation in Lung Adenocarcinoma. Front Genet 2022;13:917150. PMID: 35873497
  • Zeng L, Wang X, Wang F, Zhao X et al. Identification of a Gene Signature of Cancer-Associated Fibroblasts to Predict Prognosis in Ovarian Cancer. Front Genet 2022;13:925231. PMID: 35873482
  • Wei Z, Cheng G, Ye Y, Le C et al. A Fatty Acid Metabolism Signature Associated With Clinical Therapy in Clear Cell Renal Cell Carcinoma. Front Genet 2022;13:894736. PMID: 35873479
  • Zhang Q, Zhao H, Luo M, Cheng X et al. The Classification and Prediction of Ferroptosis-Related Genes in ALS: A Pilot Study. Front Genet 2022;13:919188. PMID: 35873477
  • Rao X, Cao H, Yu Q, Ou X et al. NEAT1/MALAT1/XIST/PKD--Hsa-Mir-101-3p--DLGAP5 Axis as a Novel Diagnostic and Prognostic Biomarker Associated With Immune Cell Infiltration in Bladder Cancer. Front Genet 2022;13:892535. PMID: 35873473
  • Kan Z, Yan W, Wang N, Fang Y et al. Identification of circRNA-miRNA-mRNA Regulatory Network and Crucial Signaling Pathway Axis Involved in Tetralogy of Fallot. Front Genet 2022;13:917454. PMID: 35873466
  • Hu W, Liu D, Li R, Qian H et al. Comprehensive Analysis of TRIM Family Genes in Hepatitis Virus B-Related Hepatoma Carcinoma. Front Genet 2022;13:913743. PMID: 35873464
  • Huang S, Luo Q, Huang J, Wei J et al. A Cluster of Metabolic-Related Genes Serve as Potential Prognostic Biomarkers for Renal Cell Carcinoma. Front Genet 2022;13:902064. PMID: 35873461
  • Wang Y, Lv S, Zhou X, Niu X et al. Identification of TLR2 as a Key Target in Neuroinflammation in Vascular Dementia. Front Genet 2022;13:860122. PMID: 35873459
  • Wang XZ, Li S, Liu Y, Cui GY et al. Construction of circRNA-Mediated Immune-Related ceRNA Network and Identification of Circulating circRNAs as Diagnostic Biomarkers in Acute Ischemic Stroke. J Inflamm Res 2022;15:4087-4104. PMID: 35873383
  • Song D, He H, Indukuri R, Huang Z et al. ERα and ERβ Homodimers in the Same Cellular Context Regulate Distinct Transcriptomes and Functions. Front Endocrinol (Lausanne) 2022;13:930227. PMID: 35872983
  • Dong Y, Miao Q, Li D et al. Screening of Prognostic Markers for Hepatocellular Carcinoma Patients Based on Multichip Combined Analysis. Comput Math Methods Med 2022;2022:6881600. PMID: 35872941
  • Wu J, Li C, Lei Z, Cai H et al. Comprehensive Analysis of circRNA-miRNA-mRNA Regulatory Network and Novel Potential Biomarkers in Acute Myocardial Infarction. Front Cardiovasc Med 2022;9:850991. PMID: 35872921
  • Prosty C, Gabrielli S, Ben-Shoshan M, Le M et al. In silico Identification of Immune Cell-Types and Pathways Involved in Chronic Spontaneous Urticaria. Front Med (Lausanne) 2022;9:926753. PMID: 35872776
  • Yang J, Lu J, Yin N, Sun J et al. miR-622 Counteracts the NUAK1-Induced Gastric Cancer Cell Proliferation and the Antioxidative Stress. Dis Markers 2022;2022:9616764. PMID: 35872695
  • Huang J, Zhou M, Zhang H, Fang Y et al. Characterization of the mechanism of Scutellaria baicalensis on reversing radio-resistance in colorectal cancer. Transl Oncol 2022 Oct;24:101488. PMID: 35872478
  • D'Ambrosio E, Pergola G, Pardiñas AF, Dahoun T et al. A polygenic score indexing a DRD2-related co-expression network is associated with striatal dopamine function. Sci Rep 2022 Jul 23;12(1):12610. PMID: 35871219
  • Kim M, Lu RJ, Benayoun BA et al. Single-cell RNA-seq of primary bone marrow neutrophils from female and male adult mice. Sci Data 2022 Jul 23;9(1):442. PMID: 35871169
  • Liu X, Jin Y, Wan X, Liang X et al. SALIS transcriptionally represses IGFBP3/Caspase-7-mediated apoptosis by associating with STAT5A to promote hepatocellular carcinoma. Cell Death Dis 2022 Jul 23;13(7):642. PMID: 35871161
  • Sinha S, Castillo V, Espinoza CR, Tindle C et al. COVID-19 lung disease shares driver AT2 cytopathic features with Idiopathic pulmonary fibrosis. EBioMedicine 2022 Aug;82:104185. PMID: 35870428
  • Carbajosa G, Ali AT, Hodgkinson A et al. Identification of human mitochondrial RNA cleavage sites and candidate RNA processing factors. BMC Biol 2022 Jul 22;20(1):168. PMID: 35869520
  • Joo J, Mak ACY, Xiao S, Sleiman PM et al. Genome-wide association study in minority children with asthma implicates DNAH5 in bronchodilator responsiveness. Sci Rep 2022 Jul 22;12(1):12514. PMID: 35869121
  • Yu B, Li P, Zhang QC, Hou L et al. Differential analysis of RNA structure probing experiments at nucleotide resolution: uncovering regulatory functions of RNA structure. Nat Commun 2022 Jul 22;13(1):4227. PMID: 35869080
  • Kelly MR, Wisniewska K, Regner MJ, Lewis MW et al. A multi-omic dissection of super-enhancer driven oncogenic gene expression programs in ovarian cancer. Nat Commun 2022 Jul 22;13(1):4247. PMID: 35869079
  • Bu G, Zhu W, Liu X, Zhang J et al. Coordination of zygotic genome activation entry and exit by H3K4me3 and H3K27me3 in porcine early embryos. Genome Res 2022 Jul 22;32(8):1487-501. PMID: 35868641
  • Jin Y, Anbarchian T, Wu P, Sarkar A et al. Wnt signaling regulates hepatocyte cell division by a transcriptional repressor cascade. Proc Natl Acad Sci U S A 2022 Jul 26;119(30):e2203849119. PMID: 35867815
  • Li S, Yang Q, Jiao R, Xu P et al. m6A Topological Transition Coupled to Developmental Regulation of Gene Expression During Mammalian Tissue Development. Front Cell Dev Biol 2022;10:916423. PMID: 35865625
  • Zhou Y, Shi W, Zhao D, Xiao S et al. Identification of Immune-Associated Genes in Diagnosing Aortic Valve Calcification With Metabolic Syndrome by Integrated Bioinformatics Analysis and Machine Learning. Front Immunol 2022;13:937886. PMID: 35865542
  • Gao G, Deng A, Liang S, Liu S et al. Integration of Bulk RNA Sequencing and Single-Cell RNA Sequencing to Reveal Uveal Melanoma Tumor Heterogeneity and Cells Related to Survival. Front Immunol 2022;13:898925. PMID: 35865532
  • Yuan X, Zhou J, Zhou L, Huang Z et al. Apoptosis-Related Gene-Mediated Cell Death Pattern Induces Immunosuppression and Immunotherapy Resistance in Gastric Cancer. Front Genet 2022;13:921163. PMID: 35865012
  • Zhang Y, Tang M, Huang M, Xie J et al. Dynamic enhancer transcription associates with reprogramming of immune genes during pattern triggered immunity in Arabidopsis. BMC Biol 2022 Jul 21;20(1):165. PMID: 35864475
  • Wang Z, Qi Y, Feng Y, Xu H et al. The N6-methyladenosine writer WTAP contributes to the induction of immune tolerance post kidney transplantation by targeting regulatory T cells. Lab Invest 2022 Nov;102(11):1268-1279. PMID: 35864150
  • Ye Z, Yang Y, Wei Y, Li L et al. PCDH1 promotes progression of pancreatic ductal adenocarcinoma via activation of NF-κB signalling by interacting with KPNB1. Cell Death Dis 2022 Jul 21;13(7):633. PMID: 35864095
  • Farooq Z, Kusuma F, Burke P, Dufour CR et al. The amino acid sensor GCN2 suppresses terminal oligopyrimidine (TOP) mRNA translation via La-related protein 1 (LARP1). J Biol Chem 2022 Sep;298(9):102277. PMID: 35863436
  • Oishi K, Horiuchi S, Minkoff JM, tenOever BR et al. The Host Response to Influenza A Virus Interferes with SARS-CoV-2 Replication during Coinfection. J Virol 2022 Aug 10;96(15):e0076522. PMID: 35862681
  • Yu H, Chen C, Han F, Tang J et al. Long Noncoding RNA MIR4435-2HG Suppresses Colorectal Cancer Initiation and Progression By Reprogramming Neutrophils. Cancer Immunol Res 2022 Sep 1;10(9):1095-1110. PMID: 35862232
  • Richards M, Nwadozi E, Pal S, Martinsson P et al. Claudin5 protects the peripheral endothelial barrier in an organ and vessel-type-specific manner. Elife 2022 Jul 21;11. PMID: 35861713
  • Peng Y, Zhu G, Ma Y, Huang K et al. Network Pharmacology-Based Prediction and Pharmacological Validation of Effects of Astragali Radix on Acetaminophen-Induced Liver Injury. Front Med (Lausanne) 2022;9:697644. PMID: 35860733
  • Bao X, Wang K, Liu M, Li B et al. Characterization of Genomic Alterations in Colorectal Liver Metastasis and Their Prognostic Value. Front Cell Dev Biol 2021;9:760618. PMID: 35860598
  • Zhang Y, Wang X, Wang H, Jiang Y et al. Elevated Small Nuclear Ribonucleoprotein Polypeptide an Expression Correlated With Poor Prognosis and Immune Infiltrates in Patients With Hepatocellular Carcinoma. Front Oncol 2022;12:893107. PMID: 35860579
  • Wang XJ, Gao J, Yu Q, Zhang M et al. Multi-Omics Integration-Based Prioritisation of Competing Endogenous RNA Regulation Networks in Small Cell Lung Cancer: Molecular Characteristics and Drug Candidates. Front Oncol 2022;12:904865. PMID: 35860558
  • Yang R, Zhan Y, Li Y, Dai SY et al. The Cellular and Molecular Landscape of Synchronous Pediatric Sialoblastoma and Hepatoblastoma. Front Oncol 2022;12:893206. PMID: 35860547
  • Wo Q, Liu Z, Hu L et al. Identification of Ferroptosis-Associated Genes in Prostate Cancer by Bioinformatics Analysis. Front Genet 2022;13:852565. PMID: 35860472
  • Liu K, Li Z, Ruan D, Wang H et al. Systematic Investigation of Immune-Related lncRNA Landscape Reveals a Potential Long Non-Coding RNA Signature for Predicting Prognosis in Renal Cell Carcinoma. Front Genet 2022;13:890641. PMID: 35860468
  • Huijser E, van Helden-Meeuwsen CG, Grashof DGB, Tarn JR et al. Trained Immunity in Primary Sjögren's Syndrome: Linking Type I Interferons to a Pro-Atherogenic Phenotype. Front Immunol 2022;13:840751. PMID: 35860283
  • Qi L, Zhang W, Ren X, Xu R et al. Cross-Talk of Multiple Types of RNA Modification Regulators Uncovers the Tumor Microenvironment and Immune Infiltrates in Soft Tissue Sarcoma. Front Immunol 2022;13:921223. PMID: 35860263
  • Wei M, Dong Q, Chen S, Wang J et al. Identification of Key Biomarkers in Systemic Lupus Erythematosus by a Multi-Cohort Analysis. Front Immunol 2022;13:928623. PMID: 35860258
  • Huang D, Tang E, Zhang T, Xu G et al. Characteristics of Fatty Acid Metabolism in Lung Adenocarcinoma to Guide Clinical Treatment. Front Immunol 2022;13:916284. PMID: 35860256
  • Liu D, Xu S, Chang T, Ma S et al. Predicting Prognosis and Distinguishing Cold and Hot Tumors in Bladder Urothelial Carcinoma Based on Necroptosis-Associated lncRNAs. Front Immunol 2022;13:916800. PMID: 35860239
  • Ren W, Zhao F, Han Y, Liu Z et al. Muscone improves hypoxia/reoxygenation (H/R)-induced neuronal injury by blocking HMGB1/TLR4/NF-κB pathway via modulating microRNA-142. PeerJ 2022;10:e13523. PMID: 35860039
  • Luo N, Fu M, Zhang Y, Li X et al. Prognostic Role of M6A-Associated Immune Genes and Cluster-Related Tumor Microenvironment Analysis: A Multi-Omics Practice in Stomach Adenocarcinoma. Front Cell Dev Biol 2022;10:935135. PMID: 35859893
  • Mao S, Chen Z, Wu Y, Xiong H et al. Crosstalk of Eight Types of RNA Modification Regulators Defines Tumor Microenvironments, Cancer Hallmarks, and Prognosis of Lung Adenocarcinoma. J Oncol 2022;2022:1285632. PMID: 35859664
  • Georgieva AM, Guo X, Bartkuhn M, Günther S et al. Inactivation of Sirt6 ameliorates muscular dystrophy in mdx mice by releasing suppression of utrophin expression. Nat Commun 2022 Jul 20;13(1):4184. PMID: 35859073
  • Tian S, Zhou X, Zhang M, Cui L et al. Mesenchymal stem cell-derived exosomes protect against liver fibrosis via delivering miR-148a to target KLF6/STAT3 pathway in macrophages. Stem Cell Res Ther 2022 Jul 20;13(1):330. PMID: 35858897
  • Ng JWK, Ong EHQ, Tucker-Kellogg L, Tucker-Kellogg G et al. Deep learning for de-convolution of Smad2 versus Smad3 binding sites. BMC Genomics 2022 Jul 20;23(Suppl 1):525. PMID: 35858839
  • Buen Abad Najar CF, Burra P, Yosef N, Lareau LF et al. Identifying cell state-associated alternative splicing events and their coregulation. Genome Res 2022 Jul 20;32(7):1385-97. PMID: 35858747
  • Kothalawala WJ, Győrffy B et al. Transcriptomic and Cellular Content Analysis of Colorectal Cancer by Combining Multiple Independent Cohorts. Clin Transl Gastroenterol 2023 Feb 1;14(2):e00517. PMID: 35858620
  • Sim EZ, Enomoto T, Shiraki N, Furuta N et al. Methionine metabolism regulates pluripotent stem cell pluripotency and differentiation through zinc mobilization. Cell Rep 2022 Jul 19;40(3):111120. PMID: 35858556
  • Elbaz B, Yang L, Vardy M, Isaac S et al. Sensory neurons display cell-type-specific vulnerability to loss of neuron-glia interactions. Cell Rep 2022 Jul 19;40(3):111130. PMID: 35858549
  • Reggiardo RE, Maroli SV, Halasz H, Ozen M et al. Mutant KRAS regulates transposable element RNA and innate immunity via KRAB zinc-finger genes. Cell Rep 2022 Jul 19;40(3):111104. PMID: 35858545
  • Hensel JA, Nicholas SE, Kimble AL, Nagpal AS et al. Splice factor polypyrimidine tract-binding protein 1 (Ptbp1) primes endothelial inflammation in atherogenic disturbed flow conditions. Proc Natl Acad Sci U S A 2022 Jul 26;119(30):e2122227119. PMID: 35858420
  • Stancil IT, Michalski JE, Hennessy CE, Hatakka KL et al. Interleukin-6-dependent epithelial fluidization initiates fibrotic lung remodeling. Sci Transl Med 2022 Jul 20;14(654):eabo5254. PMID: 35857823
  • Huang H, Liu J, Li M, Guo H et al. Cis-regulatory chromatin loops analysis identifies GRHL3 as a master regulator of surface epithelium commitment. Sci Adv 2022 Jul 15;8(28):eabo5668. PMID: 35857527
  • Guo Z, Yang H, Zhang JR, Zeng W et al. Leptin receptor signaling sustains metabolic fitness of alveolar macrophages to attenuate pulmonary inflammation. Sci Adv 2022 Jul 15;8(28):eabo3064. PMID: 35857512
  • Nunes C, Depestel L, Mus L, Keller KM et al. RRM2 enhances MYCN-driven neuroblastoma formation and acts as a synergistic target with CHK1 inhibition. Sci Adv 2022 Jul 15;8(28):eabn1382. PMID: 35857500
  • Ni X, Wu W, Sun X, Ma J et al. Interrogating glioma-M2 macrophage interactions identifies Gal-9/Tim-3 as a viable target against PTEN-null glioblastoma. Sci Adv 2022 Jul 8;8(27):eabl5165. PMID: 35857445
  • Mo H, Magaki S, Deisch JK, Raghavan R et al. Isocitrate Dehydrogenase Mutations Are Associated with Different Expression and DNA Methylation Patterns of OLIG2 in Adult Gliomas. J Neuropathol Exp Neurol 2022 Aug 16;81(9):707-716. PMID: 35856894
  • Liu H, Zhao R, Qin R, Sun H et al. Panoramic comparison between NK cells in healthy and cancerous liver through single-cell RNA sequencing. Cancer Biol Med 2022 Jul 21;19(9):1334-51. PMID: 35856557
  • Larrieu A, Brunoud G, Guérault A, Lainé S et al. Transcriptional reprogramming during floral fate acquisition. iScience 2022 Jul 15;25(7):104683. PMID: 35856019
  • Senra D, Guisoni N, Diambra L et al. ORIGINS: A protein network-based approach to quantify cell pluripotency from scRNA-seq data. MethodsX 2022;9:101778. PMID: 35855951
  • Zhang H, Wang Y, Zhao Y, Liu T et al. PTX3 mediates the infiltration, migration, and inflammation-resolving-polarization of macrophages in glioblastoma. CNS Neurosci Ther 2022 Nov;28(11):1748-1766. PMID: 35855654
  • Doherty J, Mandati V, González Rodriguez MA, Troutman S et al. Validation of Bromodomain and Extraterminal proteins as therapeutic targets in neurofibromatosis type 2. Neurooncol Adv 2022 Jan-Dec;4(1):vdac072. PMID: 35855490
  • Wang H, Shu L, Niu N, Zhao C et al. Novel lncRNAs with diagnostic or prognostic value screened out from breast cancer via bioinformatics analyses. PeerJ 2022;10:e13641. PMID: 35855425
  • Wang J, Qi W, Shi H, Huang L et al. MiR-4763-3p targeting RASD2as a Potential Biomarker and Therapeutic Target for Schizophrenia. Aging Dis 2022 Jul 11;13(4):1278-1292. PMID: 35855328
  • Andreani T, Slot LM, Gabillard S, Strübing C et al. Benchmarking computational methods for B-cell receptor reconstruction from single-cell RNA-seq data. NAR Genom Bioinform 2022 Sep;4(3):lqac049. PMID: 35855325
  • He Y, Pan Z, Shi Q, Zhang X et al. Bioinformatics Profiling and Experimental Validation of 4 Differentially-Expressed LIM Genes in the Course of Colorectal-Adenoma-Carcinoma. Med Sci Monit 2022 Jul 20;28:e937081. PMID: 35854639
  • Alblihy A, Ali R, Algethami M, Shoqafi A et al. Targeting Mre11 overcomes platinum resistance and induces synthetic lethality in XRCC1 deficient epithelial ovarian cancers. NPJ Precis Oncol 2022 Jul 19;6(1):51. PMID: 35853939
  • Hamed AA, Kunz DJ, El-Hamamy I, Trinh QM et al. A brain precursor atlas reveals the acquisition of developmental-like states in adult cerebral tumours. Nat Commun 2022 Jul 19;13(1):4178. PMID: 35853870
  • Li Z, Wang H, Zhu J, Nan N et al. Inhibition of TWEAK/Tnfrsf12a axis protects against acute liver failure by suppressing RIPK1-dependent apoptosis. Cell Death Discov 2022 Jul 19;8(1):328. PMID: 35853848
  • So KKH, Huang Y, Zhang S, Qiao Y et al. seRNA PAM controls skeletal muscle satellite cell proliferation and aging through trans regulation of Timp2 expression synergistically with Ddx5. Aging Cell 2022 Aug;21(8):e13673. PMID: 35851988
  • Dye CK, Corley MJ, Ing C, Lum-Jones A et al. Shifts in the immunoepigenomic landscape of monocytes in response to a diabetes-specific social support intervention: a pilot study among Native Hawaiian adults with diabetes. Clin Epigenetics 2022 Jul 18;14(1):91. PMID: 35851422
  • Tang HM, Talbot CC Jr, Fung MC, Tang HL et al. Transcriptomic study of anastasis for reversal of ethanol-induced apoptosis in mouse primary liver cells. Sci Data 2022 Jul 18;9(1):418. PMID: 35851273
  • Sainero-Alcolado L, Mushtaq M, Liaño-Pons J, Rodriguez-Garcia A et al. Expression and activation of nuclear hormone receptors result in neuronal differentiation and favorable prognosis in neuroblastoma. J Exp Clin Cancer Res 2022 Jul 19;41(1):226. PMID: 35850708
  • Vegliante MC, Mazzara S, Zaccaria GM, De Summa S et al. NR1H3 (LXRα) is associated with pro-inflammatory macrophages, predicts survival and suggests potential therapeutic rationales in diffuse large b-cell lymphoma. Hematol Oncol 2022 Dec;40(5):864-875. PMID: 35850118
  • Mishra GP, Jha A, Ahad A, Sen K et al. Epigenomics of conventional type-I dendritic cells depicted preferential control of TLR9 versus TLR3 response by NCoR1 through differential IRF3 activation. Cell Mol Life Sci 2022 Jul 18;79(8):429. PMID: 35849243
  • Friedrich T, Ferrante F, Pioger L, Nist A et al. Notch-dependent and -independent functions of transcription factor RBPJ. Nucleic Acids Res 2022 Aug 12;50(14):7925-7937. PMID: 35848919
  • Zhou JJ, Pham PD, Han H, Wang W et al. Engagement of Foxh1 in chromatin regulation revealed by protein interactome analyses. Dev Growth Differ 2022 Aug;64(6):297-305. PMID: 35848281
  • Zhang B, Zhao J, Liu B, Shang Y et al. Development and Validation of a Novel Ferroptosis-Related Gene Signature for Prognosis and Immunotherapy in Hepatocellular Carcinoma. Front Mol Biosci 2022;9:940575. PMID: 35847985
  • Zhou C, Wang Z, Yang S, Li H et al. Hymeglusin Enhances the Pro-Apoptotic Effects of Venetoclax in Acute Myeloid Leukemia. Front Oncol 2022;12:864430. PMID: 35847946
  • Wang Z, Chen X, Zhou L, Zhao X et al. FBXO9 Mediates the Cancer-Promoting Effects of ZNF143 by Degrading FBXW7 and Facilitates Drug Resistance in Hepatocellular Carcinoma. Front Oncol 2022;12:930220. PMID: 35847937
  • Guo H, Qian Y, Yu Y, Bi Y et al. An Immunity-Related Gene Model Predicts Prognosis in Cholangiocarcinoma. Front Oncol 2022;12:791867. PMID: 35847907
  • Wang L, Shi J, Liu S, Huang Y et al. RAC3 Inhibition Induces Autophagy to Impair Metastasis in Bladder Cancer Cells via the PI3K/AKT/mTOR Pathway. Front Oncol 2022;12:915240. PMID: 35847878
  • Zhou JD, Xu ZJ, Jin Y, Zhang XL et al. Whole-Genome DNA Methylation Sequencing Reveals Epigenetic Changes in Myelodysplastic Syndromes. Front Oncol 2022;12:897898. PMID: 35847864
  • Kreitmann L, Bodinier M, Fleurie A, Imhoff K et al. Mortality Prediction in Sepsis With an Immune-Related Transcriptomics Signature: A Multi-Cohort Analysis. Front Med (Lausanne) 2022;9:930043. PMID: 35847809
  • Sun D, Peng H, Wu Z et al. Establishment and Analysis of a Combined Diagnostic Model of Alzheimer's Disease With Random Forest and Artificial Neural Network. Front Aging Neurosci 2022;14:921906. PMID: 35847663
  • Faber MN, Smith D, Price DRG, Steele P et al. Development of Bovine Gastric Organoids as a Novel In Vitro Model to Study Host-Parasite Interactions in Gastrointestinal Nematode Infections. Front Cell Infect Microbiol 2022;12:904606. PMID: 35846775
  • Dai H, Zheng W, Luo J, Yu G et al. Inhibiting uptake of extracellular vesicles derived from senescent bone marrow mesenchymal stem cells by muscle satellite cells attenuates sarcopenia. J Orthop Translat 2022 Jul;35:23-36. PMID: 35846725
  • Zhang S, Li S, Wei Y, Xiong Y et al. Identification of Potential Antigens for Developing mRNA Vaccine for Immunologically Cold Mesothelioma. Front Cell Dev Biol 2022;10:879278. PMID: 35846349
  • Xing J, Ren L, Xu H, Zhao L et al. Single-Cell RNA Sequencing Reveals Cellular and Transcriptional Changes Associated With Traumatic Brain Injury. Front Genet 2022;13:861428. PMID: 35846152
  • Qiu WR, Qi BB, Lin WZ, Zhang SH et al. Predicting the Lung Adenocarcinoma and Its Biomarkers by Integrating Gene Expression and DNA Methylation Data. Front Genet 2022;13:926927. PMID: 35846148
  • Zhou X, He YZ, Liu D, Lin CR et al. An Autophagy-Related Gene Signature can Better Predict Prognosis and Resistance in Diffuse Large B-Cell Lymphoma. Front Genet 2022;13:862179. PMID: 35846146
  • Zhong M, Wang X, Zhu E, Gong L et al. Analysis of Pyroptosis-Related Immune Signatures and Identification of Pyroptosis-Related LncRNA Prognostic Signature in Clear Cell Renal Cell Carcinoma. Front Genet 2022;13:905051. PMID: 35846134
  • Shen T, Yang T, Yao M, Zheng Z et al. BTC as a Novel Biomarker Contributing to EMT via the PI3K-AKT Pathway in OSCC. Front Genet 2022;13:875617. PMID: 35846125
  • Gong H, Li H, Yang Q, Zhang G et al. A Ferroptosis Molecular Subtype-Related Signature for Predicting Prognosis and Response to Chemotherapy in Patients with Chronic Lymphocytic Leukemia. Biomed Res Int 2022;2022:5646275. PMID: 35845961
  • Yao Z, Pan X, Chen W, Pei Y et al. Bioinformatics Analysis of Prognosis-Related Genes and Expression of CXCL8 in Colorectal Cancer. Biomed Res Int 2022;2022:3149887. PMID: 35845924
  • Skolastika S, Hanif N, Ikawati M, Hermawan A et al. Comprehensive Computational Analysis of Honokiol Targets for Cell Cycle Inhibition and Immunotherapy in Metastatic Breast Cancer Stem Cells. Evid Based Complement Alternat Med 2022;2022:4172531. PMID: 35845599
  • Galiègue-Zouitina S, Fu Q, Carton-Latreche C, Poret N et al. Bimodal expression of RHOH during myelomonocytic differentiation: Implications for the expansion of AML differentiation therapy. EJHaem 2021 May;2(2):196-210. PMID: 35845268
  • Riding AM, Loudon KW, Guo A, Ferdinand JR et al. Group 3 innate lymphocytes make a distinct contribution to type 17 immunity in bladder defence. iScience 2022 Jul 15;25(7):104660. PMID: 35845169
  • Wei F, Zhang X, Kuang X, Gao X et al. Integrated Analysis of circRNA-miRNA-mRNA-Mediated Network and Its Potential Function in Atrial Fibrillation. Front Cardiovasc Med 2022;9:883205. PMID: 35845080
  • Lu W, Li Y, Dai Y, Chen K et al. Dominant Myocardial Fibrosis and Complex Immune Microenvironment Jointly Shape the Pathogenesis of Arrhythmogenic Right Ventricular Cardiomyopathy. Front Cardiovasc Med 2022;9:900810. PMID: 35845067
  • Zheng Y, Gao W, Zhang Q, Cheng X et al. Ferroptosis and Autophagy-Related Genes in the Pathogenesis of Ischemic Cardiomyopathy. Front Cardiovasc Med 2022;9:906753. PMID: 35845045
  • Wang X, Liu M, Chu Y, Liu Y et al. O-GlcNAcylation of ZEB1 facilitated mesenchymal pancreatic cancer cell ferroptosis. Int J Biol Sci 2022;18(10):4135-4150. PMID: 35844792
  • Ming T, Dong M, Song X, Li X et al. Integrated Analysis of Gene Co-Expression Network and Prediction Model Indicates Immune-Related Roles of the Identified Biomarkers in Sepsis and Sepsis-Induced Acute Respiratory Distress Syndrome. Front Immunol 2022;13:897390. PMID: 35844622
  • Chen B, Ye B, Li M, Wang S et al. TIGIT Deficiency Protects Mice From DSS-Induced Colitis by Regulating IL-17A-Producing CD4(+) Tissue-Resident Memory T Cells. Front Immunol 2022;13:931761. PMID: 35844584
  • Wu H, Fu R, Zhang YH, Liu Z et al. Single-Cell RNA Sequencing Unravels Upregulation of Immune Cell Crosstalk in Relapsed Pediatric Ependymoma. Front Immunol 2022;13:903246. PMID: 35844565
  • Jiang F, Zhou H, Shen H et al. Identification of Critical Biomarkers and Immune Infiltration in Rheumatoid Arthritis Based on WGCNA and LASSO Algorithm. Front Immunol 2022;13:925695. PMID: 35844557
  • Duan C, Ma R, Zeng X, Chen B et al. SARS-CoV-2 Achieves Immune Escape by Destroying Mitochondrial Quality: Comprehensive Analysis of the Cellular Landscapes of Lung and Blood Specimens From Patients With COVID-19. Front Immunol 2022;13:946731. PMID: 35844544
  • Chen Y, Zhang B, Liu T, Chen X et al. T Cells With Activated STAT4 Drive the High-Risk Rejection State to Renal Allograft Failure After Kidney Transplantation. Front Immunol 2022;13:895762. PMID: 35844542
  • Yao Y, Wang J, Yang F, Gao W et al. Exploration of Novel Immunological Terms in Lung Cancer With Large Populations: Implications for Immunotherapy. Front Immunol 2022;13:924498. PMID: 35844536
  • Du K, Zou J, Wang B, Liu C et al. A Metabolism-Related Gene Prognostic Index Bridging Metabolic Signatures and Antitumor Immune Cycling in Head and Neck Squamous Cell Carcinoma. Front Immunol 2022;13:857934. PMID: 35844514
  • Ning W, Acharya A, Li S, Schmalz G et al. Identification of Key Pyroptosis-Related Genes and Distinct Pyroptosis-Related Clusters in Periodontitis. Front Immunol 2022;13:862049. PMID: 35844512
  • Li Z, Zhang C, Liu Y, Wang F et al. Diagnostic and Predictive Values of Ferroptosis-Related Genes in Child Sepsis. Front Immunol 2022;13:881914. PMID: 35844488
  • Xu C, Ma D, Ding Q, Zhou Y et al. PlantPhoneDB: A manually curated pan-plant database of ligand-receptor pairs infers cell-cell communication. Plant Biotechnol J 2022 Nov;20(11):2123-2134. PMID: 35842742
  • Fang F, Lu J, Sang X, Tao YF et al. Super-enhancer profiling identifies novel critical and targetable cancer survival gene LYL1 in pediatric acute myeloid leukemia. J Exp Clin Cancer Res 2022 Jul 16;41(1):225. PMID: 35842703
  • Lv Y, Lv Y, Wang Z, Yuan K et al. Noncoding RNAs as sensors of tumor microenvironmental stress. J Exp Clin Cancer Res 2022 Jul 16;41(1):224. PMID: 35842651
  • Sun Z, Zhang R, Zhang X, Sun Y et al. LINE-1 promotes tumorigenicity and exacerbates tumor progression via stimulating metabolism reprogramming in non-small cell lung cancer. Mol Cancer 2022 Jul 16;21(1):147. PMID: 35842613
  • Long K, Su D, Li X, Li H et al. Identification of enhancers responsible for the coordinated expression of myosin heavy chain isoforms in skeletal muscle. BMC Genomics 2022 Jul 17;23(1):519. PMID: 35842589
  • Jiang B, Zhao X, Chen W, Diao W et al. Lysosomal protein transmembrane 5 promotes lung-specific metastasis by regulating BMPR1A lysosomal degradation. Nat Commun 2022 Jul 16;13(1):4141. PMID: 35842443
  • Focchi E, Cambria C, Pizzamiglio L, Murru L et al. ATM rules neurodevelopment and glutamatergic transmission in the hippocampus but not in the cortex. Cell Death Dis 2022 Jul 16;13(7):616. PMID: 35842432
  • Lawal B, Kuo YC, Rachmawati Sumitra M, Wu ATH et al. Identification of a novel immune-inflammatory signature of COVID-19 infections, and evaluation of pharmacokinetics and therapeutic potential of RXn-02, a novel small-molecule derivative of quinolone. Comput Biol Med 2022 Sep;148:105814. PMID: 35841781
  • Katsman E, Orlanski S, Martignano F, Fox-Fisher I et al. Detecting cell-of-origin and cancer-specific methylation features of cell-free DNA from Nanopore sequencing. Genome Biol 2022 Jul 15;23(1):158. PMID: 35841107
  • Zhang WC, Skiados N, Aftab F, Moreno C et al. MicroRNA-21 guide and passenger strand regulation of adenylosuccinate lyase-mediated purine metabolism promotes transition to an EGFR-TKI-tolerant persister state. Cancer Gene Ther 2022 Dec;29(12):1878-1894. PMID: 35840668
  • Ferguson ID, Patiño-Escobar B, Tuomivaara ST, Lin YT et al. The surfaceome of multiple myeloma cells suggests potential immunotherapeutic strategies and protein markers of drug resistance. Nat Commun 2022 Jul 15;13(1):4121. PMID: 35840578
  • Miryala SK, Anbarasu A, Ramaiah S et al. Organ-specific host differential gene expression analysis in systemic candidiasis: A systems biology approach. Microb Pathog 2022 Aug;169:105677. PMID: 35839997
  • Tan YC, Kumar AU, Wong YP, Ling APK et al. Bioinformatics approaches and applications in plant biotechnology. J Genet Eng Biotechnol 2022 Jul 15;20(1):106. PMID: 35838847
  • Huebner K, Erlenbach-Wuensch K, Prochazka J, Sheraj I et al. ATF2 loss promotes tumor invasion in colorectal cancer cells via upregulation of cancer driver TROP2. Cell Mol Life Sci 2022 Jul 15;79(8):423. PMID: 35838828
  • Sepulveda-Falla D, Sanchez JS, Almeida MC, Boassa D et al. Distinct tau neuropathology and cellular profiles of an APOE3 Christchurch homozygote protected against autosomal dominant Alzheimer's dementia. Acta Neuropathol 2022 Sep;144(3):589-601. PMID: 35838824
  • Han JH, Kim YK, Kim H, Lee J et al. Snail acetylation by autophagy-derived acetyl-coenzyme A promotes invasion and metastasis of KRAS-LKB1 co-mutated lung cancer cells. Cancer Commun (Lond) 2022 Aug;42(8):716-749. PMID: 35838183
  • Belchior-Bezerra M, Lima RS, Medeiros NI, Gomes JAS et al. COVID-19, obesity, and immune response 2 years after the pandemic: A timeline of scientific advances. Obes Rev 2022 Oct;23(10):e13496. PMID: 35837843
  • Sriram K, Luo Y, Yuan D, Malhi NK et al. Vascular Regulation by Super Enhancer-Derived LINC00607. Front Cardiovasc Med 2022;9:881916. PMID: 35837599
  • Wang YW, Wang L, Yuan SJ, Zhang Y et al. Postoperative Cognitive Dysfunction and Alzheimer's Disease: A Transcriptome-Based Comparison of Animal Models. Front Aging Neurosci 2022;14:900350. PMID: 35837480
  • Ni X, Chen C, Cui G, Ding W et al. Crosstalk of RNA Adenosine Modification-Related Subtypes, Establishment of a Prognostic Model, and Immune Infiltration Characteristics in Ovarian Cancer. Front Immunol 2022;13:932876. PMID: 35837397
  • Zhang X, Min S, Yang Y, Ding D et al. A TP53 Related Immune Prognostic Model for the Prediction of Clinical Outcomes and Therapeutic Responses in Lung Adenocarcinoma. Front Immunol 2022;13:876355. PMID: 35837383
  • Xu XH, Yang QW, Yue CL, Zhu YY et al. Tex264 Binding to SNX27 Regulates Itgα5 Receptor Membrane Recycling and Affects Cell Migration. Biomed Res Int 2022;2022:4304419. PMID: 35837377
  • Lv H, Liu X, Zeng X, Liu Y et al. Comprehensive Analysis of Cuproptosis-Related Genes in Immune Infiltration and Prognosis in Melanoma. Front Pharmacol 2022;13:930041. PMID: 35837286
  • de Silva KK, Dunwell JM, Wickramasuriya AM et al. Weighted Gene Correlation Network Analysis (WGCNA) of Arabidopsis Somatic Embryogenesis (SE) and Identification of Key Gene Modules to Uncover SE-Associated Hub Genes. Int J Genomics 2022;2022:7471063. PMID: 35837132
  • Gloor Y, Matthey A, Sobo K, Mouterde M et al. Uncovering a Genetic Polymorphism Located in Huntingtin Associated Protein 1 in Modulation of Central Pain Sensitization Signaling Pathways. Front Neurosci 2022;16:807773. PMID: 35837121
  • Xia M, Liu D, Liu H, Peng L et al. Identification of Hub Genes and Therapeutic Agents for IgA Nephropathy Through Bioinformatics Analysis and Experimental Validation. Front Med (Lausanne) 2022;9:881322. PMID: 35836957
  • Zheng F, Chen G, Deng H et al. Identifying the focuses of hereditary gingival fibromatosis with bioinformatics strategies. Am J Transl Res 2022;14(6):3741-3749. PMID: 35836867
  • Chong W, Zhu X, Ren H, Ye C et al. Integrated multi-omics characterization of KRAS mutant colorectal cancer. Theranostics 2022;12(11):5138-5154. PMID: 35836817
  • Ma Z, Zhang W, Dong B, Xin Z et al. Docetaxel remodels prostate cancer immune microenvironment and enhances checkpoint inhibitor-based immunotherapy. Theranostics 2022;12(11):4965-4979. PMID: 35836810
  • Zhang F, Hou T, Chen L, Xiong M et al. Comprehensive analysis of lower mitochondrial complex I expression is associated with cell metastasis of clear cell renal cell carcinoma. Transl Cancer Res 2022 Jun;11(6):1488-1502. PMID: 35836523
  • Mou W, Zhu L, Yang T, Lin A et al. Relationship between ATOH1 and tumor microenvironment in colon adenocarcinoma patients with different microsatellite instability status. Cancer Cell Int 2022 Jul 14;22(1):229. PMID: 35836254
  • Sprang M, Andrade-Navarro MA, Fontaine JF et al. Batch effect detection and correction in RNA-seq data using machine-learning-based automated assessment of quality. BMC Bioinformatics 2022 Jul 14;23(Suppl 6):279. PMID: 35836114
  • Ingram SP, Warmenhoven JW, Henthorn NT, Chadiwck AL et al. A computational approach to quantifying miscounting of radiation-induced double-strand break immunofluorescent foci. Commun Biol 2022 Jul 14;5(1):700. PMID: 35835982
  • Zagozewski J, Borlase S, Guppy BJ, Coudière-Morrison L et al. Combined MEK and JAK/STAT3 pathway inhibition effectively decreases SHH medulloblastoma tumor progression. Commun Biol 2022 Jul 14;5(1):697. PMID: 35835937
  • Hanna J, Beke F, O'Brien LM, Kapeni C et al. Cell-autonomous Hedgehog signaling controls Th17 polarization and pathogenicity. Nat Commun 2022 Jul 14;13(1):4075. PMID: 35835905
  • Ren H, Walker BL, Cang Z, Nie Q et al. Identifying multicellular spatiotemporal organization of cells with SpaceFlow. Nat Commun 2022 Jul 14;13(1):4076. PMID: 35835774
  • Cho YK, Yoon YC, Im H, Son Y et al. Adipocyte lysoplasmalogenase TMEM86A regulates plasmalogen homeostasis and protein kinase A-dependent energy metabolism. Nat Commun 2022 Jul 14;13(1):4084. PMID: 35835749
  • Chen Y, Ye B, Wang C, Nie Y et al. PLOD3 contributes to HER-2 therapy resistance in gastric cancer through FoxO3/Survivin pathway. Cell Death Discov 2022 Jul 14;8(1):321. PMID: 35835735
  • Martínez-Pizarro A, Leal F, Holm LL, Doktor TK et al. Antisense Oligonucleotide Rescue of Deep-Intronic Variants Activating Pseudoexons in the 6-Pyruvoyl-Tetrahydropterin Synthase Gene. Nucleic Acid Ther 2022 Oct;32(5):378-390. PMID: 35833796
  • Chen T, Wang Y, Tian L, Guo X et al. Aberrant Gene Expression Profiling in Men With Sertoli Cell-Only Syndrome. Front Immunol 2022;13:821010. PMID: 35833143
  • Li W, Zhang S, Zhao Y, Wang D et al. Revealing the Key MSCs Niches and Pathogenic Genes in Influencing CEP Homeostasis: A Conjoint Analysis of Single-Cell and WGCNA. Front Immunol 2022;13:933721. PMID: 35833124
  • Chen M, Wang X, Wang W, Gui X et al. Immune- and Stemness-Related Genes Revealed by Comprehensive Analysis and Validation for Cancer Immunity and Prognosis and Its Nomogram in Lung Adenocarcinoma. Front Immunol 2022;13:829057. PMID: 35833114
  • Peng M, Zhou X, Yao F, Li H et al. (-)-Epicatechin Provides Neuroprotection in Sodium Iodate-Induced Retinal Degeneration. Front Med (Lausanne) 2022;9:879901. PMID: 35833100
  • Ochsner SA, Pillich RT, Rawool D, Grethe JS et al. Transcriptional regulatory networks of circulating immune cells in type 1 diabetes: A community knowledgebase. iScience 2022 Jul 15;25(7):104581. PMID: 35832893
  • Ung CY, Levee TM, Zhang C, Correia C et al. Gene utility recapitulates chromosomal aberrancies in advanced stage neuroblastoma. Comput Struct Biotechnol J 2022;20:3291-3303. PMID: 35832612
  • Li LTumor Microenvironment Characterization in Breast Cancer and an Immune Cell Infiltration Score Development, Validation, and Application. Front Oncol 2022;12:844082. PMID: 35832543
  • Tan S, Spear R, Zhao J, Sun X et al. Comprehensive Characterization of a Novel E3-Related Gene Signature With Implications in Prognosis and Immunotherapy of Low-Grade Gliomas. Front Genet 2022;13:905047. PMID: 35832194
  • Yao RQ, Li ZX, Wang LX, Li YX et al. Single-cell transcriptome profiling of the immune space-time landscape reveals dendritic cell regulatory program in polymicrobial sepsis. Theranostics 2022;12(10):4606-4628. PMID: 35832091
  • Liu C, Kuang J, Wang Y, Duan T et al. A functional reference map of the RNF8 interactome in cancer. Biol Direct 2022 Jul 13;17(1):17. PMID: 35831895
  • Nozawa K, Fujihara Y, Devlin DJ, Deras RE et al. The testis-specific E3 ubiquitin ligase RNF133 is required for fecundity in mice. BMC Biol 2022 Jul 13;20(1):161. PMID: 35831855
  • Mohsin M, Singh P, Khan S, Verma AK et al. Integrated transcriptomic and regulatory network analyses uncovers the role of let-7b-5p, SPIB, and HLA-DPB1 in sepsis. Sci Rep 2022 Jul 13;12(1):11963. PMID: 35831411
  • Vetrivel P, Nachimuthu S, Abuyaseer A, Bhosale PB et al. Investigation on the cellular mechanism of Prunetin evidenced through next generation sequencing and bioinformatic approaches against gastric cancer. Sci Rep 2022 Jul 13;12(1):11852. PMID: 35831348
  • Samy A, Maher MA, Abdelsalam NA, Badr E et al. SARS-CoV-2 potential drugs, drug targets, and biomarkers: a viral-host interaction network-based analysis. Sci Rep 2022 Jul 13;12(1):11934. PMID: 35831333
  • Kubota Y, Fujioka Y, Patil A, Takagi Y et al. Qualitative differences in disease-associated MEK mutants reveal molecular signatures and aberrant signaling-crosstalk in cancer. Nat Commun 2022 Jul 13;13(1):4063. PMID: 35831322
  • Conte M, Irani E, Chiariello AM, Abraham A et al. Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding. Nat Commun 2022 Jul 13;13(1):4070. PMID: 35831310
  • Park SR, Kim SK, Kim SR, Park JR et al. Novel roles of luteinizing hormone (LH) in tissue regeneration-associated functions in endometrial stem cells. Cell Death Dis 2022 Jul 13;13(7):605. PMID: 35831270
  • Wang Z, Liu Y, Zhan X, Wang X et al. A novel prognostic signature of metastasis-associated genes and personalized therapeutic strategy for lung adenocarcinoma patients. Aging (Albany NY) 2022 Jul 12;14(13):5571-5589. PMID: 35830566
  • Andreatta M, Tjitropranoto A, Sherman Z, Kelly MC et al. A CD4(+) T cell reference map delineates subtype-specific adaptation during acute and chronic viral infections. Elife 2022 Jul 13;11. PMID: 35829695
  • Galkin F, Kochetov K, Mamoshina P, Zhavoronkov A et al. Adapting Blood DNA Methylation Aging Clocks for Use in Saliva Samples With Cell-type Deconvolution. Front Aging 2021;2:697254. PMID: 35822029
  • Chen KY, De Angulo A, Guo X, More A et al. Adipocyte-Specific Ablation of PU.1 Promotes Energy Expenditure and Ameliorates Metabolic Syndrome in Aging Mice. Front Aging 2021;2:803482. PMID: 35822007
  • Callender LA, Carroll EC, Garrod-Ketchley C, Schroth J et al. Altered Nutrient Uptake Causes Mitochondrial Dysfunction in Senescent CD8(+) EMRA T Cells During Type 2 Diabetes. Front Aging 2021;2:681428. PMID: 35821991
  • Nguyen LC, Renner DM, Silva D, Yang D et al. SARS-CoV-2 diverges from other betacoronaviruses in only partially activating the IRE1α/XBP1 ER stress pathway in human lung-derived cells. bioRxiv 2022 Jun 13 PMID: 35821981
  • Kohler KT, Goldhammer N, Demharter S, Pfisterer U et al. Ductal keratin 15(+) luminal progenitors in normal breast exhibit a basal-like breast cancer transcriptomic signature. NPJ Breast Cancer 2022 Jul 12;8(1):81. PMID: 35821504
  • Park SW, Kim J, Oh S, Lee J et al. PHF20 is crucial for epigenetic control of starvation-induced autophagy through enhancer activation. Nucleic Acids Res 2022 Aug 12;50(14):7856-7872. PMID: 35821310
  • Li L, Freitag J, Asbrand C, Munteanu B et al. Multi-omics profiling of collagen-induced arthritis mouse model reveals early metabolic dysregulation via SIRT1 axis. Sci Rep 2022 Jul 12;12(1):11830. PMID: 35821263
  • Wang D, Li Z, Li X, Yan C et al. DUB1 suppresses Hippo signaling by modulating TAZ protein expression in gastric cancer. J Exp Clin Cancer Res 2022 Jul 12;41(1):219. PMID: 35820928
  • Yang Y, Zhao J, Zhang Y, Feng T et al. MYCN protein stability is a better prognostic indicator in neuroblastoma. BMC Pediatr 2022 Jul 11;22(1):404. PMID: 35820898
  • Wang X, Rosikiewicz W, Sedkov Y, Mondal B et al. The MLL3/4 complexes and MiDAC co-regulate H4K20ac to control a specific gene expression program. Life Sci Alliance 2022 Nov;5(11). PMID: 35820704
  • Singh K, Rustagi Y, Abouhashem AS, Tabasum S et al. Genome-wide DNA hypermethylation opposes healing in patients with chronic wounds by impairing epithelial-mesenchymal transition. J Clin Invest 2022 Sep 1;132(17). PMID: 35819852
  • Dirice E, Basile G, Kahraman S, Diegisser D et al. Single-nucleus RNA-Seq reveals singular gene signatures of human ductal cells during adaptation to insulin resistance. JCI Insight 2022 Aug 22;7(16). PMID: 35819843
  • Matis S, Grazia Recchia A, Colombo M, Cardillo M et al. MiR-146b-5p regulates IL-23 receptor complex expression in chronic lymphocytic leukemia cells. Blood Adv 2022 Oct 25;6(20):5593-5612. PMID: 35819446
  • Sie C, Kant R, Peter C, Muschaweckh A et al. IL-24 intrinsically regulates Th17 cell pathogenicity in mice. J Exp Med 2022 Aug 1;219(8). PMID: 35819408
  • Wild AR, Hogg PW, Flibotte S, Nasseri GG et al. Exploring the expression patterns of palmitoylating and de-palmitoylating enzymes in the mouse brain using the curated RNA-seq database BrainPalmSeq. Elife 2022 Jul 12;11. PMID: 35819139
  • Al-Mustanjid M, Mahmud SMH, Akter F, Rahman MS et al. Systems biology models to identify the influence of SARS-CoV-2 infections to the progression of human autoimmune diseases. Inform Med Unlocked 2022;32:101003. PMID: 35818398
  • Lin X, Swedlund B, Ton MN, Ghazanfar S et al. Mesp1 controls the chromatin and enhancer landscapes essential for spatiotemporal patterning of early cardiovascular progenitors. Nat Cell Biol 2022 Jul;24(7):1114-1128. PMID: 35817961
  • Awotoye W, Mossey PA, Hetmanski JB, Gowans LJJ et al. Whole-genome sequencing reveals de-novo mutations associated with nonsyndromic cleft lip/palate. Sci Rep 2022 Jul 11;12(1):11743. PMID: 35817949
  • Skopnik CM, Riedel R, Addo RK, Heinz GA et al. Questioning whether IgM Fc receptor (FcµR) is expressed by innate immune cells. Nat Commun 2022 Jul 11;13(1):3951. PMID: 35817797
  • Hirata Y, Oda AH, Motono C, Shiro M et al. Imputation-free reconstructions of three-dimensional chromosome architectures in human diploid single-cells using allele-specified contacts. Sci Rep 2022 Jul 11;12(1):11757. PMID: 35817790
  • Ávila-González D, Portillo W, Barragán-Álvarez CP, Hernandez-Montes G et al. The human amniotic epithelium confers a bias to differentiate toward the neuroectoderm lineage in human embryonic stem cells. Elife 2022 Jul 11;11. PMID: 35815953
  • Horie C, Zhu C, Yamaguchi K, Nakagawa S et al. Motile sperm domain containing 1 is upregulated by the Wnt/β-catenin signaling pathway in colorectal cancer. Oncol Lett 2022 Aug;24(2):282. PMID: 35814826
  • Liu P, Zhou Q, Li J et al. Integrated Multi-Omics Data Analysis Reveals Associations Between Glycosylation and Stemness in Hepatocellular Carcinoma. Front Oncol 2022;12:913432. PMID: 35814473
  • Peng W, Chen J, Xiao Y, Su G et al. Cancer-Testis Antigen LDH-C4 in Tissue, Serum, and Serum-Derived Exosomes Serves as a Promising Biomarker in Lung Adenocarcinoma. Front Oncol 2022;12:912624. PMID: 35814471
  • Yu P, Liang P, Pang S, Yuan W et al. The Function, Role and Process of DDX58 in Heart Failure and Human Cancers. Front Oncol 2022;12:911309. PMID: 35814394
  • Moura AA, Bezerra MJB, Martins AMA, Borges DP et al. Global Proteomics Analysis of Bone Marrow: Establishing Talin-1 and Centrosomal Protein of 55 kDa as Potential Molecular Signatures for Myelodysplastic Syndromes. Front Oncol 2022;12:833068. PMID: 35814389
  • Jiang F, Huang X, Yang X, Zhou H et al. NUF2 Expression Promotes Lung Adenocarcinoma Progression and Is Associated With Poor Prognosis. Front Oncol 2022;12:795971. PMID: 35814368
  • Zhao ZH, Xu M, Fu C, Huang Y et al. A Mechanistic Exploratory Study on the Therapeutic Efficacy of Astragaloside IV Against Diabetic Retinopathy Revealed by Network Pharmacology. Front Pharmacol 2022;13:903485. PMID: 35814228
  • Bravo-Solarte DC, Stelzig KE, Cuervo-Pardo L, Berdnikovs S et al. Genomic evidence for dysregulated glutamine metabolism in the asthmatic airway epithelium. Clin Transl Allergy 2022 Jul;12(7):e12178. PMID: 35813976
  • Liu C, Liu Y, Yu Y, Zhao Y et al. Identification of Up-Regulated ANXA3 Resulting in Fracture Non-Union in Patients With T2DM. Front Endocrinol (Lausanne) 2022;13:890941. PMID: 35813617
  • Li Y, Zhang Q, Wu M, Zhang P et al. Suppressing MDSC Infiltration in Tumor Microenvironment Serves as an Option for Treating Ovarian Cancer Metastasis. Int J Biol Sci 2022;18(9):3697-3713. PMID: 35813475
  • Dibus N, Korinek V, Cermak L et al. FBXO38 Ubiquitin Ligase Controls Centromere Integrity via ZXDA/B Stability. Front Cell Dev Biol 2022;10:929288. PMID: 35813202
  • Meijing Z, Tianhang L, Biao Y et al. N6-Methyladenosine Modification Patterns and Tumor Microenvironment Immune Characteristics Associated With Clinical Prognosis Analysis in Stomach Adenocarcinoma. Front Cell Dev Biol 2022;10:913307. PMID: 35813200
  • Yu S, Gao J, Wang H, Liu L et al. Significance of Liver Zonation in Hepatocellular Carcinoma. Front Cell Dev Biol 2022;10:806408. PMID: 35813194
  • Zheng C, Yu Y, Deng G, Li H et al. Network and Evolutionary Analysis Reveals Candidate Genes of Membrane Trafficking Involved in Maize Seed Development and Immune Response. Front Plant Sci 2022;13:883961. PMID: 35812963
  • Duan Y, Yu C, Yan M, Ouyang Y et al. m6A Regulator-Mediated RNA Methylation Modification Patterns Regulate the Immune Microenvironment in Osteoarthritis. Front Genet 2022;13:921256. PMID: 35812736
  • Sun Y, Zhang Q, Yang Q, Yao M et al. Screening of Gene Expression Markers for Corona Virus Disease 2019 Through Boruta_MCFS Feature Selection. Front Public Health 2022;10:901602. PMID: 35812497
  • Schnoegl D, Hochgerner M, Gotthardt D, Marsh LM et al. Fra-2 Is a Dominant Negative Regulator of Natural Killer Cell Development. Front Immunol 2022;13:909270. PMID: 35812461
  • Ju M, Fan J, Zou Y, Yu M et al. Computational Recognition of a Regulatory T-cell-specific Signature With Potential Implications in Prognosis, Immunotherapy, and Therapeutic Resistance of Prostate Cancer. Front Immunol 2022;13:807840. PMID: 35812443
  • Li Y, Wang H, Chen M, Ma X et al. The Immune Subtype Contributes to Distinct Overall Survival for Ovarian Cancer Patients With Platinum-Based Adjuvant Therapy. Front Immunol 2022;13:872991. PMID: 35812434
  • Chang X, Pan J, Zhao R, Yan T et al. DDOST Correlated with Malignancies and Immune Microenvironment in Gliomas. Front Immunol 2022;13:917014. PMID: 35812432
  • van Unen V, Ouboter LF, Li N, Schreurs M et al. Identification of a Disease-Associated Network of Intestinal Immune Cells in Treatment-Naive Inflammatory Bowel Disease. Front Immunol 2022;13:893803. PMID: 35812429
  • Peng SL, Wang R, Zhou YL, Wei W et al. Insight of a Metabolic Prognostic Model to Identify Tumor Environment and Drug Vulnerability for Lung Adenocarcinoma. Front Immunol 2022;13:872910. PMID: 35812404
  • Wang Z, Chen G, Dai F, Liu S et al. Identification and Verification of Necroptosis-Related Gene Signature With Prognosis and Tumor Immune Microenvironment in Ovarian Cancer. Front Immunol 2022;13:894718. PMID: 35812403
  • Cui K, Gong L, Wang K, Wang Y et al. Ferroptosis-Associated Molecular Features to Aid Patient Clinical Prognosis and Therapy Across Human Cancers. Front Immunol 2022;13:888757. PMID: 35812384
  • Liu J, Xu J, Zhang T, Xu K et al. Decoding the Immune Microenvironment of Clear Cell Renal Cell Carcinoma by Single-Cell Profiling to Aid Immunotherapy. Front Immunol 2022;13:791158. PMID: 35812372
  • Yi X, Zheng X, Xu H, Li J et al. IGFBP7 and the Tumor Immune Landscape: A Novel Target for Immunotherapy in Bladder Cancer. Front Immunol 2022;13:898493. PMID: 35812369
  • Chen Q, Wang Y, Liu Y, Xi B et al. ESRRG, ATP4A, and ATP4B as Diagnostic Biomarkers for Gastric Cancer: A Bioinformatic Analysis Based on Machine Learning. Front Physiol 2022;13:905523. PMID: 35812327
  • Cai XY, Wang ZF, Ge SW, Xu G et al. Identification of Hub Genes and Immune-Related Pathways for Membranous Nephropathy by Bioinformatics Analysis. Front Physiol 2022;13:914382. PMID: 35812314
  • Jin X, Hu Z, Sui Q, Zhao M et al. A Novel Prognostic Signature Revealed the Interaction of Immune Cells in Tumor Microenvironment Based on Single-Cell RNA Sequencing for Lung Adenocarcinoma. J Immunol Res 2022;2022:6555810. PMID: 35812244
  • Ali F, Khan A, Muhammad SA, Abbas SQ et al. Genome-wide Meta-analysis Reveals New Gene Signatures and Potential Drug Targets of Hypertension. ACS Omega 2022 Jul 5;7(26):22754-22772. PMID: 35811894
  • Narita S, Unno K, Kato K, Okuno Y et al. Direct reprogramming of adult adipose-derived regenerative cells toward cardiomyocytes using six transcriptional factors. iScience 2022 Jul 15;25(7):104651. PMID: 35811849
  • Xu J, Chen C, Yang Y et al. Identification and Validation of Candidate Gene Module Along With Immune Cells Infiltration Patterns in Atherosclerosis Progression to Plaque Rupture via Transcriptome Analysis. Front Cardiovasc Med 2022;9:894879. PMID: 35811739
  • Gao L, Zhou W, Xie N, Qiu J et al. Yin Yang 1 promotes aggressive cell growth in high-grade breast cancer by directly transactivating kinectin 1. MedComm (2020) 2022 Sep;3(3):e133. PMID: 35811688
  • Che L, Du ZB, Wang WH, Wu JS et al. Intracellular antibody targeting HBx suppresses invasion and metastasis in hepatitis B virus-related hepatocarcinogenesis via protein phosphatase 2A-B56γ-mediated dephosphorylation of protein kinase B. Cell Prolif 2022 Nov;55(11):e13304. PMID: 35811356
  • Yang B, Luo W, Wang M, Tang Y et al. Macrophage-specific MyD88 deletion and pharmacological inhibition prevents liver damage in non-alcoholic fatty liver disease via reducing inflammatory response. Biochim Biophys Acta Mol Basis Dis 2022 Oct 1;1868(10):166480. PMID: 35811033
  • Antel M, Raj R, Masoud MYG, Pan Z et al. Interchromosomal interaction of homologous Stat92E alleles regulates transcriptional switch during stem-cell differentiation. Nat Commun 2022 Jul 9;13(1):3981. PMID: 35810185
  • Fu H, Wang T, Kong X, Yan K et al. A Nodal enhanced micropeptide NEMEP regulates glucose uptake during mesendoderm differentiation of embryonic stem cells. Nat Commun 2022 Jul 9;13(1):3984. PMID: 35810171
  • Chakraborty R, Bhattacharje G, Baral J, Manna B et al. In-silico screening and in-vitro assay show the antiviral effect of Indomethacin against SARS-CoV-2. Comput Biol Med 2022 Aug;147:105788. PMID: 35809412
  • Wolff J, Backofen R, Grüning B et al. Loop detection using Hi-C data with HiCExplorer. Gigascience 2022 Jul 9;11. PMID: 35809047
  • Marco AThe Chromosomal Distribution of Sex-Biased MicroRNAs in Drosophila is Nonadaptive. Genome Biol Evol 2022 Jul 2;14(7). PMID: 35809037
  • Hao L, Ma J, Wu F, Ma X et al. WDR62 variants contribute to congenital heart disease by inhibiting cardiomyocyte proliferation. Clin Transl Med 2022 Jul;12(7):e941. PMID: 35808830
  • Verreault M, Segoviano Vilchis I, Rosenberg S, Lemaire N et al. Identification of growth hormone receptor as a relevant target for precision medicine in low-EGFR expressing glioblastoma. Clin Transl Med 2022 Jul;12(7):e939. PMID: 35808822
  • Ameka MK, Beavers WN, Shaver CM, Ware LB et al. An Iron Refractory Phenotype in Obese Adipose Tissue Macrophages Leads to Adipocyte Iron Overload. Int J Mol Sci 2022 Jul 3;23(13). PMID: 35806422
  • Keppner A, Maric D, Orlando IMC, Falquet L et al. Analysis of the Hypoxic Response in a Mouse Cortical Collecting Duct-Derived Cell Line Suggests That Esrra Is Partially Involved in Hif1α-Mediated Hypoxia-Inducible Gene Expression in mCCD(cl1) Cells. Int J Mol Sci 2022 Jun 30;23(13). PMID: 35806266
  • Tchurikov NA, Alembekov IR, Klushevskaya ES, Kretova AN et al. Genes Possessing the Most Frequent DNA DSBs Are Highly Associated with Development and Cancers, and Essentially Overlap with the rDNA-Contacting Genes. Int J Mol Sci 2022 Jun 28;23(13). PMID: 35806206
  • Weng PW, Pikatan NW, Setiawan SA, Yadav VK et al. Role of GDF15/MAPK14 Axis in Chondrocyte Senescence as a Novel Senomorphic Agent in Osteoarthritis. Int J Mol Sci 2022 Jun 24;23(13). PMID: 35806043
  • Stefanini I, Di Paola M, Liti G, Marranci A et al. Resistance to Arsenite and Arsenate in Saccharomyces cerevisiae Arises through the Subtelomeric Expansion of a Cluster of Yeast Genes. Int J Environ Res Public Health 2022 Jul 1;19(13). PMID: 35805774
  • Rachinger N, Mittag N, Böhme-Schäfer I, Xiang W et al. Alpha-Synuclein and Its Role in Melanocytes. Cells 2022 Jun 30;11(13). PMID: 35805172
  • Min S, Kwon SM, Hong J, Lee YK et al. Mitoribosomal Deregulation Drives Senescence via TPP1-Mediated Telomere Deprotection. Cells 2022 Jun 30;11(13). PMID: 35805162
  • Wei Z, Gordon P, Hao C, Huangfu J et al. Aged Lens Epithelial Cells Suppress Proliferation and Epithelial-Mesenchymal Transition-Relevance for Posterior Capsule Opacification. Cells 2022 Jun 22;11(13). PMID: 35805085
  • Xiao Y, Zhang B, Cloyd JM, Alaimo L et al. Novel Drug Candidate Prediction for Intrahepatic Cholangiocarcinoma via Hub Gene Network Analysis and Connectivity Mapping. Cancers (Basel) 2022 Jul 5;14(13). PMID: 35805055
  • Geng H, Dong Z, Zhang L, Yang C et al. An Immune Signature for Risk Stratification and Therapeutic Prediction in Helicobacter pylori-Infected Gastric Cancer. Cancers (Basel) 2022 Jul 4;14(13). PMID: 35805047
  • Ye Q, Guo NL et al. Single B Cell Gene Co-Expression Networks Implicated in Prognosis, Proliferation, and Therapeutic Responses in Non-Small Cell Lung Cancer Bulk Tumors. Cancers (Basel) 2022 Jun 25;14(13). PMID: 35804895
  • Dabbish AM, Abdelzaher HM, Abohawya M, Shamma S et al. Prognostic MicroRNA Panel for HCV-Associated HCC: Integrating Computational Biology and Clinical Validation. Cancers (Basel) 2022 Jun 21;14(13). PMID: 35804809
  • Wang X, Zhang X, Cao K, Zeng M et al. Cardiac disruption of SDHAF4-mediated mitochondrial complex II assembly promotes dilated cardiomyopathy. Nat Commun 2022 Jul 8;13(1):3947. PMID: 35803927
  • Aubin RG, Troisi EC, Montelongo J, Alghalith AN et al. Pro-inflammatory cytokines mediate the epithelial-to-mesenchymal-like transition of pediatric posterior fossa ependymoma. Nat Commun 2022 Jul 8;13(1):3936. PMID: 35803925
  • Trad R, Warda W, Alcazer V, Neto da Rocha M et al. Chimeric antigen receptor T-cells targeting IL-1RAP: a promising new cellular immunotherapy to treat acute myeloid leukemia. J Immunother Cancer 2022 Jul;10(7). PMID: 35803613
  • Dolivo D, Rodrigues A, Sun L, Galiano R et al. Reduced hydration regulates pro-inflammatory cytokines via CD14 in barrier function-impaired skin. Biochim Biophys Acta Mol Basis Dis 2022 Oct 1;1868(10):166482. PMID: 35803527
  • Povedano JM, Li V, Lake KE, Bai X et al. TK216 targets microtubules in Ewing sarcoma cells. Cell Chem Biol 2022 Aug 18;29(8):1325-1332.e4. PMID: 35803262
  • Kim HJ, Moon SJ, Hong S, Won HH et al. DBC1 is a key positive regulator of enhancer epigenomic writers KMT2D and p300. Nucleic Acids Res 2022 Aug 12;50(14):7873-7888. PMID: 35801925
  • Chen L, Wang WJ, Liu Q, Wu YK et al. NAT10-mediated N4-acetylcytidine modification is required for meiosis entry and progression in male germ cells. Nucleic Acids Res 2022 Oct 28;50(19):10896-10913. PMID: 35801907
  • Crouchet E, Li S, Sojoodi M, Bandiera S et al. Hepatocellular carcinoma chemoprevention by targeting the angiotensin-converting enzyme and EGFR transactivation. JCI Insight 2022 Jul 8;7(13). PMID: 35801591
  • Liu C, Wang Y et al. Identification of Two Subtypes and Prognostic Characteristics of Lung Adenocarcinoma Based on Pentose Phosphate Metabolic Pathway-Related Long Non-coding RNAs. Front Public Health 2022;10:902445. PMID: 35801241
  • Wang K, He H, Feng X et al. Construction of Metabolic Molecular Classification and Immune Characteristics for the Prognosis Prediction of Ovarian Cancer. J Immunol Res 2022;2022:2359349. PMID: 35800989
  • Jiang J, Li Y, Sun Z, Gong L et al. LncNSPL facilitates influenza A viral immune escape by restricting TRIM25-mediated K63-linked RIG-I ubiquitination. iScience 2022 Jul 15;25(7):104607. PMID: 35800772
  • Li S, Lu C, Zhang Y, Zhao X et al. Genetic association and single-cell transcriptome analyses reveal distinct features connecting autoimmunity with cancers. iScience 2022 Jul 15;25(7):104631. PMID: 35800769
  • Masilamani AP, Schulzki R, Yuan S, Haase IV et al. Calpain-mediated cleavage generates a ZBTB18 N-terminal product that regulates HIF1A signaling and glioblastoma metabolism. iScience 2022 Jul 15;25(7):104625. PMID: 35800763
  • Chung KM, Chen YT, Hong CC, Chang IC et al. CA10 is associated with HBV-related hepatocarcinogenesis. Biochem Biophys Rep 2022 Sep;31:101303. PMID: 35800619
  • Jiang L, Fan T, Li X, Xu J et al. Functional Heterogeneity of the Young and Old Duplicate Genes in Tung Tree (Vernicia fordii). Front Plant Sci 2022;13:902649. PMID: 35800614
  • Huang W, Li J, Zhou S, Li Y et al. Discovering a Four-Gene Prognostic Model Based on Single-Cell Data and Gene Expression Data of Pancreatic Adenocarcinoma. Front Endocrinol (Lausanne) 2022;13:883548. PMID: 35800432
  • Lu Y, Shao Y et al. Multicellular biomarkers of drug resistance as promising targets for glioma precision medicine and predictors of patient survival. Cancer Drug Resist 2022;5(2):511-533. PMID: 35800363
  • Song L, Mao R, Ding L, Tian Z et al. hnRNP E1 Regulates HPV16 Oncogene Expression and Inhibits Cervical Cancerization. Front Oncol 2022;12:905900. PMID: 35800060
  • Ning ZK, Hu CG, Liu J, Tian HK et al. The Hypoxic Landscape Stratifies Gastric Cancer Into 3 Subtypes With Distinct M6a Methylation and Tumor Microenvironment Infiltration Characteristics. Front Immunol 2022;13:860041. PMID: 35799793
  • Feng P, Li Z, Li Y, Zhang Y et al. Characterization of Different Subtypes of Immune Cell Infiltration in Glioblastoma to Aid Immunotherapy. Front Immunol 2022;13:799509. PMID: 35799789
  • Zhao S, Wu Y, Wei Y, Xu X et al. Identification of Biomarkers Associated With CD8+ T Cells in Coronary Artery Disease and Their Pan-Cancer Analysis. Front Immunol 2022;13:876616. PMID: 35799780
  • Alberts R, Chan SC, Meng QF, He S et al. Integration and Reanalysis of Four RNA-Seq Datasets Including BALF, Nasopharyngeal Swabs, Lung Biopsy, and Mouse Models Reveals Common Immune Features of COVID-19. Immune Netw 2022 Jun;22(3):e22. PMID: 35799708
  • Su Q, Dai B, Zhang H, Zhang S et al. Discovering Gene Signature Shared by Prostate Cancer and Neurodegenerative Diseases Based on the Bioinformatics Approach. Comput Math Methods Med 2022;2022:8430485. PMID: 35799671
  • Guo Z, Zhang Y, Ming Z, Hao Z et al. Identification of Key Genes in Severe Burns by Using Weighted Gene Coexpression Network Analysis. Comput Math Methods Med 2022;2022:5220403. PMID: 35799661
  • Song Q, Wang J, Bar-Joseph Z et al. scSTEM: clustering pseudotime ordered single-cell data. Genome Biol 2022 Jul 7;23(1):150. PMID: 35799304
  • Yang M, Lin C, Wang Y, Chen K et al. Identification of a cytokine-dominated immunosuppressive class in squamous cell lung carcinoma with implications for immunotherapy resistance. Genome Med 2022 Jul 8;14(1):72. PMID: 35799269
  • Hernandez-Corchado A, Najafabadi HS et al. Toward a base-resolution panorama of the in vivo impact of cytosine methylation on transcription factor binding. Genome Biol 2022 Jul 7;23(1):151. PMID: 35799193
  • Wan H, Gao W, Zhang W, Tao Z et al. Network-based inference of master regulators in epithelial membrane protein 2-treated human RPE cells. BMC Genom Data 2022 Jul 7;23(1):52. PMID: 35799115
  • Pérez-Schindler J, Vargas-Fernández E, Karrer-Cardel B, Ritz D et al. Characterization of regulatory transcriptional mechanisms in hepatocyte lipotoxicity. Sci Rep 2022 Jul 7;12(1):11477. PMID: 35798791
  • Li J, Wu X, Ke J, Lee M et al. TET1 dioxygenase is required for FOXA2-associated chromatin remodeling in pancreatic beta-cell differentiation. Nat Commun 2022 Jul 7;13(1):3907. PMID: 35798741
  • Xia Y, Inoue K, Du Y, Baker SJ et al. TGFβ reprograms TNF stimulation of macrophages towards a non-canonical pathway driving inflammatory osteoclastogenesis. Nat Commun 2022 Jul 7;13(1):3920. PMID: 35798734
  • Zhang Y, Ye S, Lu W, Zhong J et al. RNA helicase DEAD-box protein 5 alleviates nonalcoholic steatohepatitis progression via tethering TSC complex and suppressing mTORC1 signaling. Hepatology 2023 May 1;77(5):1670-1687. PMID: 35796622
  • Das S, Santos L, Failla AV, Ignatova Z et al. mRNAs sequestered in stress granules recover nearly completely for translation. RNA Biol 2022 Jan;19(1):877-884. PMID: 35796440
  • Navalkar A, Paul A, Sakunthala A, Pandey S et al. Oncogenic gain of function due to p53 amyloids occurs through aberrant alteration of cell cycle and proliferation. J Cell Sci 2022 Aug 1;135(15). PMID: 35796018
  • Li X, Abdel-Moneim AE, Mesalam NM, Yang B et al. Effects of Lysophosphatidylcholine on Jejuna Morphology and Its Potential Mechanism. Front Vet Sci 2022;9:911496. PMID: 35795789
  • He C, Yang Y, Chen Z, Liu S et al. EZH2 Promotes T Follicular Helper Cell Differentiation Through Enhancing STAT3 Phosphorylation in Patients With Primary Sjögren's Syndrome. Front Immunol 2022;13:922871. PMID: 35795677
  • Yin M, Zhang Y, Liu S, Huang J et al. Gene Expression Signatures Reveal Common Virus Infection Pathways in Target Tissues of Type 1 Diabetes, Hashimoto's Thyroiditis, and Celiac Disease. Front Immunol 2022;13:891698. PMID: 35795668
  • Zhou Y, Tian Q, Gao H, Zhu L et al. Immunity and Extracellular Matrix Characteristics of Breast Cancer Subtypes Based on Identification by T Helper Cells Profiling. Front Immunol 2022;13:859581. PMID: 35795662
  • Chen R, Wang X, Deng X, Chen L et al. CPDR: An R Package of Recommending Personalized Drugs for Cancer Patients by Reversing the Individual's Disease-Related Signature. Front Pharmacol 2022;13:904909. PMID: 35795573
  • Tan P, Li M, Liu Z, Li T et al. Glycolysis-Related LINC02432/Hsa-miR-98-5p/HK2 Axis Inhibits Ferroptosis and Predicts Immune Infiltration, Tumor Mutation Burden, and Drug Sensitivity in Pancreatic Adenocarcinoma. Front Pharmacol 2022;13:937413. PMID: 35795552
  • Xiao F, Wang K, Chen Y, Zhang Y et al. Identification of Differentially Expressed Long Noncoding RNAs as Functional Biomarkers and Construction of Function Enrichment Network in Oral Squamous Cell Carcinoma. Evid Based Complement Alternat Med 2022;2022:1572249. PMID: 35795287
  • Ye XW, Wang HL, Cheng SQ, Xia LJ et al. Network Pharmacology-Based Strategy to Investigate the Pharmacologic Mechanisms of Coptidis Rhizoma for the Treatment of Alzheimer's Disease. Front Aging Neurosci 2022;14:890046. PMID: 35795239
  • Yusufujiang A, Zeng S, Yang C, Jing S et al. PCBP-1 Regulates the Transcription and Alternative Splicing of Inflammation and Ubiquitination-Related Genes in PC12 Cell. Front Aging Neurosci 2022;14:884837. PMID: 35795237
  • Zhuo H, Xia J, Zhang J, Tang J et al. CircASPH Promotes Hepatocellular Carcinoma Progression Through Methylation and Expression of HAO2. Front Oncol 2022;12:911715. PMID: 35795047
  • Wang YJ, Liu M, Jiang HY, Yu YW et al. Downregulation of LRRC19 Is Associated with Poor Prognosis in Colorectal Cancer. J Oncol 2022;2022:5848823. PMID: 35794979
  • Lambert N, Kengne-Ouafo JA, Rissy WM, Diane U et al. Transcriptional Profiles Analysis of COVID-19 and Malaria Patients Reveals Potential Biomarkers in Children. bioRxiv 2022 Dec 20 PMID: 35794887
  • Jeong Y, de Andrade E Sousa LB, Thalmeier D, Toth R et al. Systematic evaluation of cell-type deconvolution pipelines for sequencing-based bulk DNA methylomes. Brief Bioinform 2022 Jul 18;23(4). PMID: 35794707
  • Chen HY, Chan SJ, Liu X, Wei AC et al. Long noncoding RNA Smyca coactivates TGF-β/Smad and Myc pathways to drive tumor progression. J Hematol Oncol 2022 Jul 6;15(1):85. PMID: 35794621
  • Li Z, Chen J, Zhu D, Wang X et al. Identification of prognostic stemness biomarkers in colon adenocarcinoma drug resistance. BMC Genom Data 2022 Jul 6;23(1):51. PMID: 35794546
  • Garcia-Alonso L, Lorenzi V, Mazzeo CI, Alves-Lopes JP et al. Single-cell roadmap of human gonadal development. Nature 2022 Jul;607(7919):540-547. PMID: 35794482
  • Bal E, Kumar R, Hadigol M, Holmes AB et al. Super-enhancer hypermutation alters oncogene expression in B cell lymphoma. Nature 2022 Jul;607(7920):808-815. PMID: 35794478
  • Oh J, Hwa C, Jang D, Shin S et al. Augmentation of the RNA m6A reader signature is associated with poor survival by enhancing cell proliferation and EMT across cancer types. Exp Mol Med 2022 Jul;54(7):906-921. PMID: 35794212
  • Yao X, Lu Z, Feng Z, Gao L et al. Comparison of chromatin accessibility landscapes during early development of prefrontal cortex between rhesus macaque and human. Nat Commun 2022 Jul 6;13(1):3883. PMID: 35794099
  • Woodard KJ, Doerfler PA, Mayberry KD, Sharma A et al. Limitations of mouse models for sickle cell disease conferred by their human globin transgene configurations. Dis Model Mech 2022 Jun 1;15(6). PMID: 35793591
  • Wahlen S, Matthijssens F, Van Loocke W, Taveirne S et al. The transcription factor RUNX2 drives the generation of human NK cells and promotes tissue residency. Elife 2022 Jul 6;11. PMID: 35793229
  • Fisher NC, Byrne RM, Leslie H, Wood C et al. Biological Misinterpretation of Transcriptional Signatures in Tumor Samples Can Unknowingly Undermine Mechanistic Understanding and Faithful Alignment with Preclinical Data. Clin Cancer Res 2022 Sep 15;28(18):4056-4069. PMID: 35792866
  • Lei X, Ketelut-Carneiro N, Shmuel-Galia L, Xu W et al. Epithelial HNF4A shapes the intraepithelial lymphocyte compartment via direct regulation of immune signaling molecules. J Exp Med 2022 Aug 1;219(8). PMID: 35792863
  • Yu J, Luo X et al. Identification of cell-type-specific spatially variable genes accounting for excess zeros. Bioinformatics 2022 Sep 2;38(17):4135-4144. PMID: 35792822
  • Wilson TL, Kim H, Chou CH, Langfitt D et al. Common Trajectories of Highly Effective CD19-Specific CAR T Cells Identified by Endogenous T-cell Receptor Lineages. Cancer Discov 2022 Sep 2;12(9):2098-2119. PMID: 35792801
  • Fu H, Nicolet D, Mrózek K, Stone RM et al. Controlled variable selection in Weibull mixture cure models for high-dimensional data. Stat Med 2022 Sep 30;41(22):4340-4366. PMID: 35792553
  • Siller A, Hofer NT, Tomagra G, Burkert N et al. β2-subunit alternative splicing stabilizes Cav2.3 Ca(2+) channel activity during continuous midbrain dopamine neuron-like activity. Elife 2022 Jul 6;11. PMID: 35792082
  • Li H, Chai L, Ding Z, He H et al. CircCOL1A2 Sponges MiR-1286 to Promote Cell Invasion and Migration of Gastric Cancer by Elevating Expression of USP10 to Downregulate RFC2 Ubiquitination Level. J Microbiol Biotechnol 2022 Jul 28;32(7):938-948. PMID: 35791074
  • Chen Y, Tang M, Xiong J, Gao Q et al. GRB10 is a novel oncogene associated with cell proliferation and prognosis in glioma. Cancer Cell Int 2022 Jul 5;22(1):223. PMID: 35790975
  • Chu Y, Yu F, Wu Y, Yang J et al. Identification of genes and key pathways underlying the pathophysiological association between nonalcoholic fatty liver disease and atrial fibrillation. BMC Med Genomics 2022 Jul 5;15(1):150. PMID: 35790963
  • Fang J, Jiang J, Leichter SM, Liu J et al. Mechanistic basis for maintenance of CHG DNA methylation in plants. Nat Commun 2022 Jul 5;13(1):3877. PMID: 35790763
  • Lee U, Stuelsatz P, Karaz S, McKellar DW et al. A Tead1-Apelin axis directs paracrine communication from myogenic to endothelial cells in skeletal muscle. iScience 2022 Jul 15;25(7):104589. PMID: 35789856
  • Acharya A, Nemade H, Papadopoulos S, Hescheler J et al. Microgravity-induced stress mechanisms in human stem cell-derived cardiomyocytes. iScience 2022 Jul 15;25(7):104577. PMID: 35789849
  • Wang L, Dong C, Lu C, Li S et al. A study of strong nucleosomes in the human genome. iScience 2022 Jul 15;25(7):104593. PMID: 35789840
  • Wang Z, Wang T, Hong D, Dong B et al. Single-cell transcriptional regulation and genetic evolution of neuroendocrine prostate cancer. iScience 2022 Jul 15;25(7):104576. PMID: 35789834
  • Qin S, Yuan Y, Liu H, Pu Y et al. Identification and characterization of sex-dependent gene expression profile in glioblastoma. Neuropathology 2023 Feb;43(1):72-83. PMID: 35789505
  • Miao R, Dang Q, Cai J, Huang HH et al. Sparse principal component analysis based on genome network for correcting cell type heterogeneity in epigenome-wide association studies. Med Biol Eng Comput 2022 Sep;60(9):2601-2618. PMID: 35789457
  • Walsh CJ, Batt J, Herridge MS, Mathur S et al. Comprehensive multi-cohort transcriptional meta-analysis of muscle diseases identifies a signature of disease severity. Sci Rep 2022 Jul 4;12(1):11260. PMID: 35789175
  • Wang KYX, Pupo GM, Tembe V, Patrick E et al. Cross-Platform Omics Prediction procedure: a statistical machine learning framework for wider implementation of precision medicine. NPJ Digit Med 2022 Jul 4;5(1):85. PMID: 35788693
  • Giannos P, Prokopidis K, Raleigh SM, Kelaiditi E et al. Altered mitochondrial microenvironment at the spotlight of musculoskeletal aging and Alzheimer's disease. Sci Rep 2022 Jul 4;12(1):11290. PMID: 35788655
  • Chen H, Liu C, Wang Q, Xiong M et al. Renal UTX-PHGDH-serine axis regulates metabolic disorders in the kidney and liver. Nat Commun 2022 Jul 4;13(1):3835. PMID: 35788583
  • Wu X, Li C, Wang Z, Zhang Y et al. A bioinformatic analysis study of m(7)G regulator-mediated methylation modification patterns and tumor microenvironment infiltration in glioblastoma. BMC Cancer 2022 Jul 4;22(1):729. PMID: 35788194
  • Huang B, Zhang X, Cao Q, Chen J et al. Construction and validation of a prognostic risk model for breast cancer based on protein expression. BMC Med Genomics 2022 Jul 4;15(1):148. PMID: 35787690
  • Hierholzer A, Chureau C, Liverziani A, Ruiz NB et al. A long noncoding RNA influences the choice of the X chromosome to be inactivated. Proc Natl Acad Sci U S A 2022 Jul 12;119(28):e2118182119. PMID: 35787055
  • Kim YC, Jeong BH et al. Transcriptomic analysis identifies novel potential biomarkers and highlights cilium-related biological processes in the early stages of prion disease in mice. Prion 2022 Dec;16(1):84-90. PMID: 35786398
  • Zhao F, Yang G, Qiu J, Liu Y et al. HIF-1α-regulated stanniocalcin-1 mediates gemcitabine resistance in pancreatic ductal adenocarcinoma via PI3K/AKT signaling pathway. Mol Carcinog 2022 Sep;61(9):839-850. PMID: 35785493
  • Zhang J, You X, Kang D, Zhou G et al. Exploring the Potential of Pyroptosis-Related Genes in Predicting Prognosis and Immunological Characteristics of Pancreatic Cancer From the Perspective of Genome and Transcriptome. Front Oncol 2022;12:932786. PMID: 35785176
  • Xuan G, Zhang X, Zhang M, Yu M et al. NTF2 Upregulation in HNSCC: a Predictive Marker and Potential Therapeutic Target Associated With Immune Infiltration. Front Oncol 2022;12:783919. PMID: 35785175
  • Xie Z, Li J, Huang P, Zhang Y et al. Applications and Achievements of Single-Cell Sequencing in Gastrointestinal Cancer. Front Oncol 2022;12:905571. PMID: 35785171
  • Wei C, Ding L, Luo Q, Li X et al. Development and Validation of an Individualized Metabolism-Related Prognostic Model for Adult Acute Myeloid Leukemia Patients. Front Oncol 2022;12:829007. PMID: 35785164
  • Meng N, Li Y, Jiang P, Bu X et al. A Comprehensive Pan-Cancer Analysis of the Tumorigenic Role of Matrix Metallopeptidase 7 (MMP7) Across Human Cancers. Front Oncol 2022;12:916907. PMID: 35785154
  • Frankino PA, Siddiqi TF, Bolas T, Bar-Ziv R et al. SKN-1 regulates stress resistance downstream of amino catabolism pathways. iScience 2022 Jul 15;25(7):104571. PMID: 35784796
  • Tan Z, Si Y, Yu Y, Ding J et al. Yi-Shen-Hua-Shi Granule Alleviates Adriamycin-Induced Glomerular Fibrosis by Suppressing the BMP2/Smad Signaling Pathway. Front Pharmacol 2022;13:917428. PMID: 35784691
  • Chen Y, Shen M, Ji C, Huang Y et al. Genome-Wide Identification of N6-Methyladenosine Associated SNPs as Potential Functional Variants for Type 1 Diabetes. Front Endocrinol (Lausanne) 2022;13:913345. PMID: 35784577
  • Xie D, Chen Y, Wan X, Li J et al. The Potential Role of CDH1 as an Oncogene Combined With Related miRNAs and Their Diagnostic Value in Breast Cancer. Front Endocrinol (Lausanne) 2022;13:916469. PMID: 35784532
  • Yang G, Shan D, Zhao R, Li G et al. Metabolism-Associated DNA Methylation Signature Stratifies Lower-Grade Glioma Patients and Predicts Response to Immunotherapy. Front Cell Dev Biol 2022;10:902298. PMID: 35784470
  • Bezzecchi E, Pagani G, Forte B, Percio S et al. MIR205HG/LEADR Long Noncoding RNA Binds to Primed Proximal Regulatory Regions in Prostate Basal Cells Through a Triplex- and Alu-Mediated Mechanism. Front Cell Dev Biol 2022;10:909097. PMID: 35784469
  • Chen MY, Zeng YC, Zhao XH et al. Chemotherapy- and Immune-Related Gene Panel in Prognosis Prediction and Immune Microenvironment of SCLC. Front Cell Dev Biol 2022;10:893490. PMID: 35784467
  • Wang C, Wan H, Zhang H, Yang B et al. Characterization of Ligand-Receptor Pair in Bladder Cancer Develops a Validated Scoring Model for Prognosis and Treatment Response. Front Cell Dev Biol 2022;10:915798. PMID: 35784457
  • Yu M, Liu X, Xu H, Shen S et al. Comprehensive Evaluation of the m(6)A Regulator Prognostic Risk Score in the Prediction of Immunotherapy Response in Clear Cell Renal Cell Carcinoma. Front Immunol 2022;13:818120. PMID: 35784363
  • Tong X, Ru Y, Fu J, Wang Y et al. Fucosylation Promotes Cytolytic Function and Accumulation of NK Cells in B Cell Lymphoma. Front Immunol 2022;13:904693. PMID: 35784355
  • Huang X, Ke K, Jin W, Zhu Q et al. Identification of Genes Related to 5-Fluorouracil Based Chemotherapy for Colorectal Cancer. Front Immunol 2022;13:887048. PMID: 35784334
  • Xue J, Hu W, Wu S, Wang J et al. Development of a Risk Nomogram Model for Identifying Interstitial Lung Disease in Patients With Rheumatoid Arthritis. Front Immunol 2022;13:823669. PMID: 35784288
  • Dong ML, Wen X, He X, Ren JH et al. HBx Mediated Increase of DDX17 Contributes to HBV-Related Hepatocellular Carcinoma Tumorigenesis. Front Immunol 2022;13:871558. PMID: 35784274
  • Shi Y, Guo R, Zeng Y, Fang Q et al. SNHG5/miR-299-5p/ATF2 Axis as a Biomarker in Immune Microenvironment of Intervertebral Disc Degeneration. Mediators Inflamm 2022;2022:2558275. PMID: 35784175
  • Li X, Guo C, Wang Q, Li Z et al. Systematic Analysis of Tobacco CrRLK1L Family Genes and Functional Identification of NtCrRLK1L47 in Environmental Stresses. Front Plant Sci 2022;13:838857. PMID: 35783983
  • Schmidt A, Fuchs M, Stojanović SD, Liang C et al. Deciphering Pro-angiogenic Transcription Factor Profiles in Hypoxic Human Endothelial Cells by Combined Bioinformatics and in vitro Modeling. Front Cardiovasc Med 2022;9:877450. PMID: 35783871
  • Ribieras AJ, Ortiz YY, Li Y, Huerta CT et al. E-Selectin/AAV2/2 Gene Therapy Alters Angiogenesis and Inflammatory Gene Profiles in Mouse Gangrene Model. Front Cardiovasc Med 2022;9:929466. PMID: 35783833
  • Achudhan D, Li-Yun Chang S, Liu SC, Lin YY et al. Antcin K inhibits VCAM-1-dependent monocyte adhesion in human rheumatoid arthritis synovial fibroblasts. Food Nutr Res 2022;66. PMID: 35783555
  • Gao R, Lv Y et al. Characterizing the Antitumor Effect of Coptis chinensis and Mume Fructus against Colorectal Cancer Based on Pharmacological Analysis. Evid Based Complement Alternat Med 2022;2022:9061752. PMID: 35783510
  • Luo D, Liao S, Liu Y, Lin Y et al. Holliday Cross-Recognition Protein HJURP: Association With the Tumor Microenvironment in Hepatocellular Carcinoma and With Patient Prognosis. Pathol Oncol Res 2022;28:1610506. PMID: 35783358
  • Wang C, Tang Y, Ma H, Wei S et al. Identification of Hypoxia-Related Subtypes, Establishment of Prognostic Models, and Characteristics of Tumor Microenvironment Infiltration in Colon Cancer. Front Genet 2022;13:919389. PMID: 35783281
  • Yuan L, Lai J, Zhao J, Sun T et al. Path-ATT-CNN: A Novel Deep Neural Network Method for Key Pathway Identification of Lung Cancer. Front Genet 2022;13:896884. PMID: 35783280
  • Li Z, Chen Z, Wang X, Li Z et al. Integrated Analysis of miRNAs and Gene Expression Profiles Reveals Potential Biomarkers for Osteoarthritis. Front Genet 2022;13:814645. PMID: 35783271
  • Qian C, Xiufu W, Jianxun T, Zihao C et al. A Novel Extracellular Matrix Gene-Based Prognostic Model to Predict Overall Survive in Patients With Glioblastoma. Front Genet 2022;13:851427. PMID: 35783254
  • Chen S, An G, Wang H, Wu X et al. Human obstructive (postvasectomy) and nonobstructive azoospermia - Insights from scRNA-Seq and transcriptome analysis. Genes Dis 2022 May;9(3):766-776. PMID: 35782978
  • Zhao J, Yi Q, Li K, Chen L et al. A multi-omics deep learning model for hypoxia phenotype to predict tumor aggressiveness and prognosis in uveal melanoma for rationalized hypoxia-targeted therapy. Comput Struct Biotechnol J 2022;20:3182-3194. PMID: 35782742
  • Zhang WN, Li XP, Wang PF, Zhu L et al. Comprehensive analysis of the novel omicron receptor AXL in cancers. Comput Struct Biotechnol J 2022;20:3304-3312. PMID: 35782741
  • Kim H, Lee J, Kang K, Yoon S et al. MarkerCount: A stable, count-based cell type identifier for single-cell RNA-seq experiments. Comput Struct Biotechnol J 2022;20:3120-3132. PMID: 35782735
  • Zuo JF, Ikram M, Liu JY, Han CY et al. Domestication and improvement genes reveal the differences of seed size- and oil-related traits in soybean domestication and improvement. Comput Struct Biotechnol J 2022;20:2951-2964. PMID: 35782726
  • Liu L, Vujovic A, Deshpande NP, Sathe S et al. The splicing factor RBM17 drives leukemic stem cell maintenance by evading nonsense-mediated decay of pro-leukemic factors. Nat Commun 2022 Jul 4;13(1):3833. PMID: 35781533
  • Chen Y, Huang X, Chen L, Weng G et al. Characterization of the Immune Infiltration Landscape and Identification of Prognostic Biomarkers for Esophageal Cancer. Mol Biotechnol 2023 Mar;65(3):361-383. PMID: 35780460
  • Chen X, Wu Y, Wang X, Xu C et al. CDK6 is upregulated and may be a potential therapeutic target in enzalutamide-resistant castration-resistant prostate cancer. Eur J Med Res 2022 Jul 2;27(1):105. PMID: 35780240
  • Shi J, Jin X, Wang Y, Zhu T et al. LIN28B inhibition sensitizes cells to p53-restoring PPI therapy through unleashed translational suppression. Oncogenesis 2022 Jul 2;11(1):37. PMID: 35780125
  • Zang X, Jiang J, Gu J, Chen Y et al. Circular RNA EIF4G3 suppresses gastric cancer progression through inhibition of β-catenin by promoting δ-catenin ubiquitin degradation and upregulating SIK1. Mol Cancer 2022 Jul 2;21(1):141. PMID: 35780119
  • Mokhtari K, Mahdevar M, Hajipour M, Esmaeili M et al. Title: Involvement of unsaturated fatty acid biosynthesis in CRC progression based on in vitro and in silico studies. Biomed Pharmacother 2022 Sep;153:113338. PMID: 35779418
  • Huang W, Zhang C, Xiong S, Zhou X et al. miR-1307-5p suppresses proliferation and tumorigenesis of bladder cancer via targeting MDM4 and the Hippo signaling pathway. Discov Oncol 2022 Jul 1;13(1):57. PMID: 35778656
  • Krach F, Wheeler EC, Regensburger M, Boerstler T et al. Aberrant NOVA1 function disrupts alternative splicing in early stages of amyotrophic lateral sclerosis. Acta Neuropathol 2022 Sep;144(3):413-435. PMID: 35778567
  • Fortino V, Kinaret PAS, Fratello M, Serra A et al. Biomarkers of nanomaterials hazard from multi-layer data. Nat Commun 2022 Jul 1;13(1):3798. PMID: 35778420
  • Fu Y, Pajulas A, Wang J, Zhou B et al. Mouse pulmonary interstitial macrophages mediate the pro-tumorigenic effects of IL-9. Nat Commun 2022 Jul 1;13(1):3811. PMID: 35778404
  • Wong LL, Bruxvoort CG, Cejda NI, Delaney MR et al. Intestine-enriched apolipoprotein b orthologs are required for stem cell progeny differentiation and regeneration in planarians. Nat Commun 2022 Jul 1;13(1):3803. PMID: 35778403
  • Guo J, Fang X, Liu G, Zhou J et al. Tribbles Pseudokinase 2 Promotes the Proliferation, Migration, and Invasion of Osteosarcoma through Modulating AP4/p21 Pathway. Ann Clin Lab Sci 2022 May;52(3):406-415. PMID: 35777810
  • Albrecht S, Andreani T, Andrade-Navarro MA, Fontaine JF et al. Single-cell specific and interpretable machine learning models for sparse scChIP-seq data imputation. PLoS One 2022;17(7):e0270043. PMID: 35776722
  • Kim J, Kim C et al. A beginner's guide to assembling a draft genome and analyzing structural variants with long-read sequencing technologies. STAR Protoc 2022 Sep 16;3(3):101506. PMID: 35776635
  • Liu HY, Wang FH, Liang JM, Xiang YY et al. Targeting NAD metabolism regulates extracellular adenosine levels to improve the cytotoxicity of CD8+ effector T cells in the tumor microenvironment of gastric cancer. J Cancer Res Clin Oncol 2023 Jul;149(7):2743-2756. PMID: 35776198
  • Warrier T, El Farran C, Zeng Y, Ho BSQ et al. SETDB1 acts as a topological accessory to Cohesin via an H3K9me3-independent, genomic shunt for regulating cell fates. Nucleic Acids Res 2022 Jul 22;50(13):7326-7349. PMID: 35776115
  • Slominski AT, Brożyna AA, Kim TK, Elsayed MM et al. CYP11A1‑derived vitamin D hydroxyderivatives as candidates for therapy of basal and squamous cell carcinomas. Int J Oncol 2022 Aug;61(2). PMID: 35775377
  • Sommer D, Rajkumar S, Seidel M, Aly A et al. Aging-Dependent Altered Transcriptional Programs Underlie Activity Impairments in Human C9orf72-Mutant Motor Neurons. Front Mol Neurosci 2022;15:894230. PMID: 35774867
  • Mishra S, Kinoshita C, Axtman AD, Young JE et al. Evaluation of a Selective Chemical Probe Validates That CK2 Mediates Neuroinflammation in a Human Induced Pluripotent Stem Cell-Derived Mircroglial Model. Front Mol Neurosci 2022;15:824956. PMID: 35774866
  • Wu L, Sun S, Qu F, Liu X et al. ASCL2 Affects the Efficacy of Immunotherapy in Colon Adenocarcinoma Based on Single-Cell RNA Sequencing Analysis. Front Immunol 2022;13:829640. PMID: 35774798
  • Gao H, Tian Q, Zhou Y, Zhu L et al. 3D Collagen Fiber Concentration Regulates Treg Cell Infiltration in Triple Negative Breast Cancer. Front Immunol 2022;13:904418. PMID: 35774776
  • Tong Y, Yang Y, Feng Q et al. Characterization of lncRNA-Based ceRNA Network and Potential Prognostic Hub Genes for Sepsis. Evid Based Complement Alternat Med 2022;2022:1485033. PMID: 35774747
  • Luo K, Song Y, Guan Z, Ou S et al. A KRAS-Associated Signature for Prognostic, Immune and Chemical Anti-Cancer Drug-Response Prediction in Colon Cancer. Front Pharmacol 2022;13:899725. PMID: 35774610
  • Wu B, Tian X, Wang W, Zhu J et al. Upregulation of cadherin-11 contributes to cholestatic liver fibrosis. Pediatr Investig 2022 Jun;6(2):100-110. PMID: 35774522
  • Castellana S, Biagini T, Petrizzelli F, Cabibbo A et al. RhythmicDB: A Database of Predicted Multi-Frequency Rhythmic Transcripts. Front Genet 2022;13:882044. PMID: 35774515
  • Xu H, Li Y, Jiang Y, Wang J et al. A Novel Defined Super-Enhancer Associated Gene Signature to Predict Prognosis in Patients With Diffuse Large B-Cell Lymphoma. Front Genet 2022;13:827840. PMID: 35774514
  • Liu Y, Lu X, Zhang Y, Liu M et al. Identification and Validation of a Five-Gene Diagnostic Signature for Preeclampsia. Front Genet 2022;13:910556. PMID: 35774506
  • Chen SGlioma Subtypes Based on the Activity Changes of Immunologic and Hallmark Gene Sets in Cancer. Front Endocrinol (Lausanne) 2022;13:879233. PMID: 35774141
  • Yao B, Zhang Q, Yang Z, An F et al. CircEZH2/miR-133b/IGF2BP2 aggravates colorectal cancer progression via enhancing the stability of m(6)A-modified CREB1 mRNA. Mol Cancer 2022 Jun 30;21(1):140. PMID: 35773744
  • Sonn I, Honda-Ozaki F, Yoshimatsu S, Morimoto S et al. Single transcription factor efficiently leads human induced pluripotent stem cells to functional microglia. Inflamm Regen 2022 Jul 1;42(1):20. PMID: 35773727
  • Shen J, Huang Q, Jia W, Feng S et al. YAP1 induces invadopodia formation by transcriptionally activating TIAM1 through enhancer in breast cancer. Oncogene 2022 Jul;41(31):3830-3845. PMID: 35773411
  • Dashti M, Nizam R, Hebbar P, Jacob S et al. Differentially methylated and expressed genes in familial type 1 diabetes. Sci Rep 2022 Jun 30;12(1):11045. PMID: 35773317
  • Tatekawa S, Tamari K, Chijimatsu R, Konno M et al. N(6)-methyladenosine methylation-regulated polo-like kinase 1 cell cycle homeostasis as a potential target of radiotherapy in pancreatic adenocarcinoma. Sci Rep 2022 Jun 30;12(1):11074. PMID: 35773310
  • Bhardwaj A, Josse C, Van Daele D, Poulet C et al. Deeper insights into long-term survival heterogeneity of pancreatic ductal adenocarcinoma (PDAC) patients using integrative individual- and group-level transcriptome network analyses. Sci Rep 2022 Jun 30;12(1):11027. PMID: 35773268
  • Wang Y, Gorrie-Stone TJ, Grant OA, Andrayas AD et al. InterpolatedXY: a two-step strategy to normalize DNA methylation microarray data avoiding sex bias. Bioinformatics 2022 Aug 10;38(16):3950-3957. PMID: 35771651
  • Chauhan JS, Hölzel M, Lambert JP, Buffa FM et al. The MITF regulatory network in melanoma. Pigment Cell Melanoma Res 2022 Sep;35(5):517-533. PMID: 35771179
  • Chen TM, Huang CM, Hsieh MS, Lin CS et al. TRPM7 via calcineurin/NFAT pathway mediates metastasis and chemotherapeutic resistance in head and neck squamous cell carcinoma. Aging (Albany NY) 2022 Jun 29;14(12):5250-5270. PMID: 35771152
  • Mika K, Whittington CM, McAllan BM, Lynch VJ et al. Gene expression phylogenies and ancestral transcriptome reconstruction resolves major transitions in the origins of pregnancy. Elife 2022 Jun 30;11. PMID: 35770963
  • Cheng Y, Heng X, Feng F et al. G-protein Coupled Receptor 34 Promotes Gliomagenesis by Inducing Proliferation and Malignant Phenotype via TGF-Beta/Smad Signaling Pathway. Technol Cancer Res Treat 2022 Jan-Dec;21:15330338221105733. PMID: 35770303
  • Lu J, Zhen S, Tuo X, Chang S et al. Downregulation of DNMT3A Attenuates the Warburg Effect, Proliferation, and Invasion via Promoting the Inhibition of miR-603 on HK2 in Ovarian Cancer. Technol Cancer Res Treat 2022 Jan-Dec;21:15330338221110668. PMID: 35770296
  • Yuan B, Miao L, Mei D, Li L et al. Value of a Signature of Immune-Related Genes in Predicting the Prognosis of Melanoma and Its Responses to Immune Checkpoint Blocker Therapies. Comput Math Methods Med 2022;2022:9633416. PMID: 35770115
  • Liu L, Pu D, Wang D, Zhang M et al. Proteomic Analysis of Potential Targets for Non-Response to Infliximab in Patients With Ulcerative Colitis. Front Pharmacol 2022;13:905133. PMID: 35770079
  • Li ZM, Liu XX, Li C, Wei ZC et al. Decreased synapse-associated proteins are associated with the onset of epileptic memory impairment in endothelial CDK5-deficient mice. MedComm (2020) 2022 Sep;3(3):e128. PMID: 35770064
  • Wen X, Yang G, Dong Y, Luo L et al. Selection and Validation of Reference Genes for Pan-Cancer in Platelets Based on RNA-Sequence Data. Front Genet 2022;13:913886. PMID: 35770000
  • Yao J, Liu Y, Yang J, Li M et al. Single-Cell Sequencing Reveals that DBI is the Key Gene and Potential Therapeutic Target in Quiescent Bladder Cancer Stem Cells. Front Genet 2022;13:904536. PMID: 35769986
  • Ma J, Jin J, Lu H, Zhang J et al. Exonuclease 1 is a Potential Diagnostic and Prognostic Biomarker in Hepatocellular Carcinoma. Front Mol Biosci 2022;9:889414. PMID: 35769911
  • An Y, Duan H et al. The Comprehensive Analysis of Interferon-Related Prognostic Signature with regard to Immune Features in Ovarian Cancer. Dis Markers 2022;2022:7900785. PMID: 35769811
  • Li M, Duan X, Xiao Y, Yuan M et al. BUB1 Is Identified as a Potential Therapeutic Target for Pancreatic Cancer Treatment. Front Public Health 2022;10:900853. PMID: 35769782
  • Xu SJ, Jin B, Zhao WJ, Chen XX et al. The Specifically Androgen-Regulated Gene (SARG) Promotes Papillary Thyroid Carcinoma (PTC) Lymphatic Metastasis Through Vascular Endothelial Growth Factor C (VEGF-C) and VEGF Receptor 3 (VEGFR-3) Axis. Front Oncol 2022;12:817660. PMID: 35769717
  • Xiao PP, Luo BQ, Fan W, Chen XY et al. Simultaneous Presentation of Multiple Myeloma and Lung Cancer: Case Report and Gene Bioinformatics Analysis. Front Oncol 2022;12:859735. PMID: 35769716
  • Li C, Lin C, Xie X et al. Pan-Cancer Pyroptosis Analyses Identified Novel Immunology and Chemotherapy-Related Prognostic Signatures in Cancer Subtypes. J Oncol 2022;2022:6609297. PMID: 35769504
  • Xiong T, Lv XS, Wu GJ, Guo YX et al. Single-Cell Sequencing Analysis and Multiple Machine Learning Methods Identified G0S2 and HPSE as Novel Biomarkers for Abdominal Aortic Aneurysm. Front Immunol 2022;13:907309. PMID: 35769488
  • Song J, Wei R, Huo S, Gao J et al. Metastasis Related Epithelial-Mesenchymal Transition Signature Predicts Prognosis and Response to Immunotherapy in Gastric Cancer. Front Immunol 2022;13:920512. PMID: 35769483
  • Meng L, Chen S, Shi G, He S et al. Use of Single Cell Transcriptomic Techniques to Study the Role of High-Risk Human Papillomavirus Infection in Cervical Cancer. Front Immunol 2022;13:907599. PMID: 35769468
  • Qing J, Li C, Hu X, Song W et al. Differentiation of T Helper 17 Cells May Mediate the Abnormal Humoral Immunity in IgA Nephropathy and Inflammatory Bowel Disease Based on Shared Genetic Effects. Front Immunol 2022;13:916934. PMID: 35769467
  • Ottone OK, Kim CJ, Collins JA, Risbud MV et al. The cGAS-STING Pathway Affects Vertebral Bone but Does Not Promote Intervertebral Disc Cell Senescence or Degeneration. Front Immunol 2022;13:882407. PMID: 35769461
  • Dibus N, Zobalova E, Monleon MAM, Korinek V et al. FBXO38 Ubiquitin Ligase Controls Sertoli Cell Maturation. Front Cell Dev Biol 2022;10:914053. PMID: 35769260
  • Dai D, Li Q, Zhou P, Huang J et al. Analysis of Omics Data Reveals Nucleotide Excision Repair-Related Genes Signature in Highly-Grade Serous Ovarian Cancer to Predict Prognosis. Front Cell Dev Biol 2022;10:874588. PMID: 35769257
  • Zou R, Zhao W, Xiao S, Lu Y et al. A Signature of Three Apoptosis-Related Genes Predicts Overall Survival in Breast Cancer. Front Surg 2022;9:863035. PMID: 35769153
  • Kim BK, Kim DM, Park H, Kim SK et al. Synaptotagmin 11 scaffolds MKK7-JNK signaling process to promote stem-like molecular subtype gastric cancer oncogenesis. J Exp Clin Cancer Res 2022 Jun 29;41(1):212. PMID: 35768842
  • Liu L, Liu J, Deng X, Tu L et al. A nomogram based on A-to-I RNA editing predicting overall survival of patients with lung squamous carcinoma. BMC Cancer 2022 Jun 29;22(1):715. PMID: 35768804
  • Chen X, Ma J, Xu C, Wang L et al. Identification of hub genes predicting the development of prostate cancer from benign prostate hyperplasia and analyzing their clinical value in prostate cancer by bioinformatic analysis. Discov Oncol 2022 Jun 30;13(1):54. PMID: 35768705
  • Xia ZN, Wu JG, Yao WH, Meng YY et al. Identification of a differentiation-related prognostic nomogram based on single-cell RNA sequencing in clear cell renal cell carcinoma. Sci Rep 2022 Jun 29;12(1):10973. PMID: 35768519
  • Lan L, Evan T, Li H, Hussain A et al. GREM1 is required to maintain cellular heterogeneity in pancreatic cancer. Nature 2022 Jul;607(7917):163-168. PMID: 35768509
  • Sladitschek-Martens HL, Guarnieri A, Brumana G, Zanconato F et al. YAP/TAZ activity in stromal cells prevents ageing by controlling cGAS-STING. Nature 2022 Jul;607(7920):790-798. PMID: 35768505
  • Wei C, Jia L, Huang X, Tan J et al. CTCF organizes inter-A compartment interactions through RYBP-dependent phase separation. Cell Res 2022 Aug;32(8):744-760. PMID: 35768498
  • Koeck RM, Busato F, Tost J, Consten D et al. Methylome-wide analysis of IVF neonates that underwent embryo culture in different media revealed no significant differences. NPJ Genom Med 2022 Jun 29;7(1):39. PMID: 35768464
  • Vittoria MA, Kingston N, Kotynkova K, Xia E et al. Inactivation of the Hippo tumor suppressor pathway promotes melanoma. Nat Commun 2022 Jun 29;13(1):3732. PMID: 35768444
  • Zencir S, Dilg D, Shore D, Albert B et al. Pitfalls in using phenanthroline to study the causal relationship between promoter nucleosome acetylation and transcription. Nat Commun 2022 Jun 29;13(1):3726. PMID: 35768402
  • Bose S, Huang Q, Ma Y, Wang L et al. G6PD inhibition sensitizes ovarian cancer cells to oxidative stress in the metastatic omental microenvironment. Cell Rep 2022 Jun 28;39(13):111012. PMID: 35767962
  • Tabanelli V, Melle F, Motta G, Mazzara S et al. The identification of TCF1+ progenitor exhausted T cells in THRLBCL may predict a better response to PD-1/PD-L1 blockade. Blood Adv 2022 Aug 9;6(15):4634-4644. PMID: 35767735
  • Laffey KG, Stiles RJ, Ludescher MJ, Davis TR et al. Early expression of mature αβ TCR in CD4(-)CD8(-) T cell progenitors enables MHC to drive development of T-ALL bearing NOTCH mutations. Proc Natl Acad Sci U S A 2022 Jul 5;119(27):e2118529119. PMID: 35767640
  • Shao GPharmacological analysis of Empagliflozin: Acting through the CaMKII pathway in type 2 diabetes and acute cardiovascular events. PLoS One 2022;17(6):e0270152. PMID: 35767566
  • Wizenty J, Müllerke S, Kolesnichenko M, Heuberger J et al. Gastric stem cells promote inflammation and gland remodeling in response to Helicobacter pylori via Rspo3-Lgr4 axis. EMBO J 2022 Jul 4;41(13):e109996. PMID: 35767364
  • Hai B, Song Q, Du C, Mao T et al. Comprehensive bioinformatics analyses reveal immune genes responsible for altered immune microenvironment in intervertebral disc degeneration. Mol Genet Genomics 2022 Sep;297(5):1229-1242. PMID: 35767190
  • Wang S, Zhang S et al. Systematic analyses of a novel circRNA-related miRNAs prognostic signature for Cervical Cancer. Genet Mol Biol 2022;45(2):e20210405. PMID: 35766420
  • Gu J, Xu S, Chen X, Luo H et al. ORM 1 as a biomarker of increased vascular invasion and decreased sorafenib sensitivity in hepatocellular carcinoma. Bosn J Basic Med Sci 2022 Oct 23;22(6):949-958. PMID: 35765957
  • Luo A, Liu H, Huang C et al. KLF5-induced miR-487a augments the progression of osteosarcoma cells by targeting NKX3-1 in vitro. Oncol Lett 2022 Aug;24(2):258. PMID: 35765275
  • Chen B, Wang M, Qiu J, Liao K et al. Cleavage of tropomodulin-3 by asparagine endopeptidase promotes cancer malignancy by actin remodeling and SND1/RhoA signaling. J Exp Clin Cancer Res 2022 Jun 28;41(1):209. PMID: 35765111
  • Wang H, Wang X, Xu L, Zhang J et al. Prognostic analysis of E2F transcription factors E2F1 and E2F3 in four independent pediatric neuroblastoma cohorts. BMC Pediatr 2022 Jun 29;22(1):376. PMID: 35764946
  • Kong J, Ha D, Lee J, Kim I et al. Network-based machine learning approach to predict immunotherapy response in cancer patients. Nat Commun 2022 Jun 28;13(1):3703. PMID: 35764641
  • Wagner S, Baldow C, Calabria A, Rudilosso L et al. Clonal reconstruction from co-occurrence of vector integration sites accurately quantifies expanding clones in vivo. Nat Commun 2022 Jun 28;13(1):3712. PMID: 35764632
  • Dsouza KB, Maslova A, Al-Jibury E, Merkenschlager M et al. Learning representations of chromatin contacts using a recurrent neural network identifies genomic drivers of conformation. Nat Commun 2022 Jun 28;13(1):3704. PMID: 35764630
  • Liu Y, Song R, Zhao L, Lu Z et al. m(6)A demethylase ALKBH5 is required for antibacterial innate defense by intrinsic motivation of neutrophil migration. Signal Transduct Target Ther 2022 Jun 29;7(1):194. PMID: 35764614
  • Zois CE, Hendriks AM, Haider S, Pires E et al. Liver glycogen phosphorylase is upregulated in glioblastoma and provides a metabolic vulnerability to high dose radiation. Cell Death Dis 2022 Jun 28;13(6):573. PMID: 35764612
  • Lin Z, Xu H, Chen Y, Zhang X et al. Identification of potential biomarkers and immune-related pathways related to immune infiltration in patients with acute myocardial infarction. Transpl Immunol 2022 Oct;74:101652. PMID: 35764238
  • Liu MN, Chen L, Xu TM, Zhang K et al. Potential clinical implications of iron metabolism in ovarian endometriosis. J Trace Elem Med Biol 2022 Sep;73:127017. PMID: 35763972
  • Chhabra A, Song HG, Grzelak KA, Polacheck WJ et al. A vascularized model of the human liver mimics regenerative responses. Proc Natl Acad Sci U S A 2022 Jul 12;119(28):e2115867119. PMID: 35763565
  • Li T, Cheng D, Guo J, Chen H et al. SOX9 and IL1A as the Potential Gene Biomarkers of the Oral Cancer. Comb Chem High Throughput Screen 2023;26(8):1461-1479. PMID: 35762542
  • Jiang L, Liu S, Deng T, Yang Y et al. Analysis of the expression, function and signaling of glycogen phosphorylase isoforms in hepatocellular carcinoma. Oncol Lett 2022 Aug;24(2):244. PMID: 35761940
  • Zhang Z, Yang C, Zhang X et al. scDART: integrating unmatched scRNA-seq and scATAC-seq data and learning cross-modality relationship simultaneously. Genome Biol 2022 Jun 27;23(1):139. PMID: 35761403
  • Crowl JT, Heeg M, Ferry A, Milner JJ et al. Tissue-resident memory CD8(+) T cells possess unique transcriptional, epigenetic and functional adaptations to different tissue environments. Nat Immunol 2022 Jul;23(7):1121-1131. PMID: 35761084
  • Salmen F, De Jonghe J, Kaminski TS, Alemany A et al. High-throughput total RNA sequencing in single cells using VASA-seq. Nat Biotechnol 2022 Dec;40(12):1780-1793. PMID: 35760914
  • Kay EJ, Paterson K, Riera-Domingo C, Sumpton D et al. Cancer-associated fibroblasts require proline synthesis by PYCR1 for the deposition of pro-tumorigenic extracellular matrix. Nat Metab 2022 Jun;4(6):693-710. PMID: 35760868
  • Armingol E, Baghdassarian HM, Martino C, Perez-Lopez A et al. Context-aware deconvolution of cell-cell communication with Tensor-cell2cell. Nat Commun 2022 Jun 27;13(1):3665. PMID: 35760817
  • Oh S, Geistlinger L, Ramos M, Blankenberg D et al. GenomicSuperSignature facilitates interpretation of RNA-seq experiments through robust, efficient comparison to public databases. Nat Commun 2022 Jun 27;13(1):3695. PMID: 35760813
  • Lee JV, Housley F, Yau C, Nakagawa R et al. Combinatorial immunotherapies overcome MYC-driven immune evasion in triple negative breast cancer. Nat Commun 2022 Jun 27;13(1):3671. PMID: 35760778
  • Li Y, Yang S, Liu Y, Yang S et al. Mice with Trp53 and Rb1 deficiency in chondrocytes spontaneously develop chondrosarcoma via overactivation of YAP signaling. Cell Death Dis 2022 Jun 27;13(6):570. PMID: 35760773
  • Muskovic W, Slavich E, Maslen B, Kaczorowski DC et al. High temporal resolution RNA-seq time course data reveals widespread synchronous activation between mammalian lncRNAs and neighboring protein-coding genes. Genome Res 2022 Jun 27;32(8):1463-73. PMID: 35760562
  • Alcazer V, Bonaventura P, Tonon L, Michel E et al. HERVs characterize normal and leukemia stem cells and represent a source of shared epitopes for cancer immunotherapy. Am J Hematol 2022 Sep;97(9):1200-1214. PMID: 35759575
  • Lei H, Guo XA, Tao Y, Ding K et al. Semi-deconvolution of bulk and single-cell RNA-seq data with application to metastatic progression in breast cancer. Bioinformatics 2022 Jun 24;38(Suppl 1):i386-i394. PMID: 35758822
  • Zhang X, Wang X et al. MeConcord: a new metric to quantitatively characterize DNA methylation heterogeneity across reads and CpG sites. Bioinformatics 2022 Jun 24;38(Suppl 1):i307-i315. PMID: 35758820
  • Cheng M, Li Z, Costa IG et al. MOJITOO: a fast and universal method for integration of multimodal single-cell data. Bioinformatics 2022 Jun 24;38(Suppl 1):i282-i289. PMID: 35758807
  • Miller HE, Montemayor D, Abdul J, Vines A et al. Quality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions. Nucleic Acids Res 2022 Jul 22;50(13):7260-7286. PMID: 35758606
  • Lin G, Xinhe Z, Haoyu T, Yiling L et al. Aberrantly methylated-differentially expressed genes and related pathways in cholangiocarcinoma. Medicine (Baltimore) 2022 Jun 24;101(25):e29379. PMID: 35758372
  • Bi W, Yang M, Xing P, Huang T et al. MicroRNA miR-331-3p suppresses osteosarcoma progression via the Bcl-2/Bax and Wnt/β-Catenin signaling pathways and the epithelial-mesenchymal transition by targeting N-acetylglucosaminyltransferase I (MGAT1). Bioengineered 2022 Jun;13(6):14159-14174. PMID: 35758024
  • Park YJ, Kang BH, Kim HJ, Oh JE et al. A Microbiota-Dependent Subset of Skin Macrophages Protects Against Cutaneous Bacterial Infection. Front Immunol 2022;13:799598. PMID: 35757750
  • Song P, Li W, Guo L, Ying J et al. Identification and Validation of a Novel Signature Based on NK Cell Marker Genes to Predict Prognosis and Immunotherapy Response in Lung Adenocarcinoma by Integrated Analysis of Single-Cell and Bulk RNA-Sequencing. Front Immunol 2022;13:850745. PMID: 35757748
  • Yu G, Bao J, Zhan M, Wang J et al. Comprehensive Analysis of m5C Methylation Regulatory Genes and Tumor Microenvironment in Prostate Cancer. Front Immunol 2022;13:914577. PMID: 35757739
  • Sun Z, Zeng Y, Yuan T, Chen X et al. Comprehensive Analysis and Reinforcement Learning of Hypoxic Genes Based on Four Machine Learning Algorithms for Estimating the Immune Landscape, Clinical Outcomes, and Therapeutic Implications in Patients With Lung Adenocarcinoma. Front Immunol 2022;13:906889. PMID: 35757722
  • Zhong Y, Zhang W, Hong X, Zeng Z et al. Screening Biomarkers for Systemic Lupus Erythematosus Based on Machine Learning and Exploring Their Expression Correlations With the Ratios of Various Immune Cells. Front Immunol 2022;13:873787. PMID: 35757721
  • Chen P, Yao F, Lu Y, Peng Y et al. Single-Cell Landscape of Mouse Islet Allograft and Syngeneic Graft. Front Immunol 2022;13:853349. PMID: 35757709
  • Xiao L, Zhan F, Lin S et al. Clinical Values of the Identified Hub Genes in Systemic Lupus Erythematosus. Front Immunol 2022;13:844025. PMID: 35757684
  • Liu X, Chen Z, Tang Q, Hu P et al. Phylogenetic signature and prevalence of natural resistance-associated substitutions for hepatitis C virus genotypes 3a and 3b in southwestern China. J Virus Erad 2022 Jun;8(2):100071. PMID: 35757658
  • Song Z, Gao P, Zhong X, Li M et al. Identification of Five Hub Genes Based on Single-Cell RNA Sequencing Data and Network Pharmacology in Patients With Acute Myocardial Infarction. Front Public Health 2022;10:894129. PMID: 35757636
  • Fuellen G, Jünemann A et al. Gene Expression Data for Investigating Glaucoma Treatment Options and Pharmacology in the Anterior Segment, State-of-the-Art and Future Directions. Front Neurosci 2022;16:912043. PMID: 35757536
  • Li L, Ayiding X, Han R et al. miRNA-Gene Interaction Network Construction Strategy to Discern Promising Traditional Chinese Medicine against Osteoporosis. Biomed Res Int 2022;2022:9093614. PMID: 35757478
  • Dong Q, Han Z, Tian L et al. Identification of Serum Exosome-Derived circRNA-miRNA-TF-mRNA Regulatory Network in Postmenopausal Osteoporosis Using Bioinformatics Analysis and Validation in Peripheral Blood-Derived Mononuclear Cells. Front Endocrinol (Lausanne) 2022;13:899503. PMID: 35757392
  • Vlummens P, Verhulst S, De Veirman K, Maes A et al. Inhibition of the Protein Arginine Methyltransferase PRMT5 in High-Risk Multiple Myeloma as a Novel Treatment Approach. Front Cell Dev Biol 2022;10:879057. PMID: 35757005
  • Xu Z, Peng B, Kang F, Zhang W et al. The Roles of Drug Metabolism-Related ADH1B in Immune Regulation and Therapeutic Response of Ovarian Cancer. Front Cell Dev Biol 2022;10:877254. PMID: 35756990
  • Gu Y, Tang S, Wang Z, Cai L et al. Identification of key miRNAs and targeted genes involved in the progression of oral squamous cell carcinoma. J Dent Sci 2022 Apr;17(2):666-676. PMID: 35756810
  • Xu T, Wang Z, Liu J, Wang G et al. Cyclin-Dependent Kinase Inhibitors Function as Potential Immune Regulators via Inducing Pyroptosis in Triple Negative Breast Cancer. Front Oncol 2022;12:820696. PMID: 35756622
  • Xu X, Qi J, Yang J, Pan T et al. Up-Regulation of TRIM32 Associated With the Poor Prognosis of Acute Myeloid Leukemia by Integrated Bioinformatics Analysis With External Validation. Front Oncol 2022;12:848395. PMID: 35756612
  • Liu Z, Ou C, Xiang S, Xie Q et al. Expression and Regulatory Network Analysis of BICC1 for Aged Sca-1-Positive Bone Narrow Mesenchymal Stem Cells. Dis Markers 2022;2022:4759172. PMID: 35756494
  • Ding C, Zhang Q, Jiang X, Wei D et al. The Analysis of Potential Diagnostic and Therapeutic Targets for the Occurrence and Development of Gastric Cancer Based on Bioinformatics. Comput Math Methods Med 2022;2022:4321466. PMID: 35756405
  • Hong Z, Pan J, Chen M, Deng X et al. Long Intergenic Noncoding RNA 00641 Promotes Growth and Invasion of Colorectal Cancer through Regulating miR-450b-5p/GOLPH3 Axis. J Oncol 2022;2022:8259135. PMID: 35756081
  • Zhou Q, Zhang X, Tong X, Tang C et al. Single Cell Meta-Analysis of Endothelial to Mesenchymal Transition (EndMT) in Glucose Metabolism of the Digestive Diseases. Front Mol Biosci 2022;9:866408. PMID: 35755820
  • Visscher MO, Carr AN, Narendran V et al. Epidermal Immunity and Function: Origin in Neonatal Skin. Front Mol Biosci 2022;9:894496. PMID: 35755808
  • Rhodes BM, Siddiqui H, Khan S, Devlin PF et al. Dual Role for FHY3 in Light Input to the Clock. Front Plant Sci 2022;13:862387. PMID: 35755710
  • Sano N, Lounifi I, Cueff G, Collet B et al. Multi-Omics Approaches Unravel Specific Features of Embryo and Endosperm in Rice Seed Germination. Front Plant Sci 2022;13:867263. PMID: 35755645
  • Yang B, Shi D, Chen Y, Zhu Y et al. The Potential Diagnostic Value of Immune-Related Genes in Interstitial Fibrosis and Tubular Atrophy after Kidney Transplantation. J Immunol Res 2022;2022:7212852. PMID: 35755170
  • Kang X, Sun Y, Yi B, Jiang C et al. Based on Network Pharmacology and Molecular Dynamics Simulations, Baicalein, an Active Ingredient of Yiqi Qingre Ziyin Method, Potentially Protects Patients With Atrophic Rhinitis From Cognitive Impairment. Front Aging Neurosci 2022;14:880794. PMID: 35754951
  • Huang J, Huo H, Lu R et al. A Novel Signature of Necroptosis-Associated Genes as a Potential Prognostic Tool for Head and Neck Squamous Cell Carcinoma. Front Genet 2022;13:907985. PMID: 35754840
  • Zhou Y, Tian Q, Gao H, Zhu L et al. Correlation Between Immune-Related Genes and Tumor-Infiltrating Immune Cells With the Efficacy of Neoadjuvant Chemotherapy for Breast Cancer. Front Genet 2022;13:905617. PMID: 35754838
  • Li F, Wen H, Bukhari I, Liu B et al. Relationship Between CNVs and Immune Cells Infiltration in Gastric Tumor Microenvironment. Front Genet 2022;13:869967. PMID: 35754804
  • Huang T, He WY et al. Construction and Validation of a Novel Prognostic Signature of Idiopathic Pulmonary Fibrosis by Identifying Subtypes Based on Genes Related to 7-Methylguanosine Modification. Front Genet 2022;13:890530. PMID: 35754799
  • Tang HD, Wang Y, Xie P, Tan SY et al. The Crosstalk Between Immune Infiltration, Circulating Tumor Cells, and Metastasis in Pancreatic Cancer: Identification of HMGB3 From a Multiple Omics Analysis. Front Genet 2022;13:892177. PMID: 35754798
  • Narayan S, Raza A, Mahmud I, Koo N et al. Sensitization of FOLFOX-resistant colorectal cancer cells via the modulation of a novel pathway involving protein phosphatase 2A. iScience 2022 Jul 15;25(7):104518. PMID: 35754740
  • Wang Q, Gao B, Yue X, Cui Y et al. Weighted Gene Co-expression Network Analysis Identifies Specific Modules and Hub Genes Related to Subacute Ruminal Acidosis. Front Vet Sci 2022;9:897714. PMID: 35754546
  • Song L, Wu J, Fu H, Wu C et al. Abnormally Expressed Ferroptosis-Associated FANCD2 in Mediating the Temozolomide Resistance and Immune Response in Glioblastoma. Front Pharmacol 2022;13:921963. PMID: 35754466
  • Privitera GF, Alaimo S, Ferro A, Pulvirenti A et al. Virus finding tools: current solutions and limitations. Brief Bioinform 2022 Jul 18;23(4). PMID: 35753694
  • Ofori JK, Karagiannopoulos A, Barghouth M, Nagao M et al. The highly expressed calcium-insensitive synaptotagmin-11 and synaptotagmin-13 modulate insulin secretion. Acta Physiol (Oxf) 2022 Sep;236(1):e13857. PMID: 35753051
  • Wu Z, Feng Z, Zhu X, Dai Z et al. Identification of a novel splicing mutation and genotype-phenotype correlations in rare PLS3-related childhood-onset osteoporosis. Orphanet J Rare Dis 2022 Jun 25;17(1):247. PMID: 35752817
  • Chen P, Wang W, Wong SW, Li J et al. RUNDC3A regulates SNAP25-mediated chemotherapy resistance by binding AKT in gastric neuroendocrine carcinoma (GNEC). Cell Death Discov 2022 Jun 25;8(1):296. PMID: 35752613
  • Hawkins S, Namboori SC, Tariq A, Blaker C et al. Upregulation of β-catenin due to loss of miR-139 contributes to motor neuron death in amyotrophic lateral sclerosis. Stem Cell Reports 2022 Jul 12;17(7):1650-1665. PMID: 35750046
  • Yang L, Xu X, Xu R, Chen C et al. Aberrant nucleosome organization in mouse SCNT embryos revealed by ULI-MNase-seq. Stem Cell Reports 2022 Jul 12;17(7):1730-1742. PMID: 35750045
  • Jenkins L, Jungwirth U, Avgustinova A, Iravani M et al. Cancer-Associated Fibroblasts Suppress CD8+ T-cell Infiltration and Confer Resistance to Immune-Checkpoint Blockade. Cancer Res 2022 Aug 16;82(16):2904-2917. PMID: 35749591
  • Patel PS, Pérez-Baos S, Walters B, Orlen M et al. Translational regulation of TFH cell differentiation and autoimmune pathogenesis. Sci Adv 2022 Jun 24;8(25):eabo1782. PMID: 35749506
  • Zhang F, Yu C, Xu W, Li X et al. Identification of critical genes and molecular pathways in COVID-19 myocarditis and constructing gene regulatory networks by bioinformatic analysis. PLoS One 2022;17(6):e0269386. PMID: 35749386
  • Ishihara T, Hickford D, Fenelon JC, Griffith OW et al. Evolution of the Short Form of DNMT3A, DNMT3A2, Occurred in the Common Ancestor of Mammals. Genome Biol Evol 2022 Jul 2;14(7). PMID: 35749276
  • Wiltbank AT, Steinson ER, Criswell SJ, Piller M et al. Cd59 and inflammation regulate Schwann cell development. Elife 2022 Jun 24;11. PMID: 35748863
  • Cao L, Ba Y, Yang J, Zhang H et al. Exploring immune-related signatures for predicting immunotherapeutic responsiveness, prognosis, and diagnosis of patients with colon cancer. Aging (Albany NY) 2022 Jun 20;14(12):5131-5152. PMID: 35748788
  • Sun W, Shen J, Liu J, Han K et al. Gene Signature and Prognostic Value of Ubiquitin-Specific Proteases Members in Hepatocellular Carcinoma and Explored the Immunological Role of USP36. Front Biosci (Landmark Ed) 2022 Jun 15;27(6):190. PMID: 35748266
  • Ouyang S, Ma J, Sun Q, Li J et al. Comprehensive Bioinformatics Analysis to Reveal Key RNA Targets and Hub Competitive Endogenous RNA Network of Keratoconus. Front Genet 2022;13:896780. PMID: 35747602
  • Pandey N, Vinod PK et al. Model scenarios for cell cycle re-entry in Alzheimer's disease. iScience 2022 Jul 15;25(7):104543. PMID: 35747391
  • Guo X, Xiong H, Dong S, Wei X et al. Identification and Validation of a Novel Immune Infiltration-Based Diagnostic Score for Early Detection of Hepatocellular Carcinoma by Machine-Learning Strategies. Gastroenterol Res Pract 2022;2022:5403423. PMID: 35747248
  • Garske KM, Comenho C, Pan DZ, Alvarez M et al. Long-range chromosomal interactions increase and mark repressed gene expression during adipogenesis. Epigenetics 2022 Dec;17(13):1849-1862. PMID: 35746833
  • Vo DHT, McGleave G, Overton IM et al. Immune Cell Networks Uncover Candidate Biomarkers of Melanoma Immunotherapy Response. J Pers Med 2022 Jun 11;12(6). PMID: 35743743
  • Tang Q, Song M, Zhao R, Han X et al. Comprehensive RNA Expression Analysis Revealed Biological Functions of Key Gene Sets and Identified Disease-Associated Cell Types Involved in Rat Traumatic Brain Injury. J Clin Med 2022 Jun 15;11(12). PMID: 35743506
  • Wu TJ, Chang SL, Lin CY, Lai CY et al. IL-17 Facilitates VCAM-1 Production and Monocyte Adhesion in Osteoarthritis Synovial Fibroblasts by Suppressing miR-5701 Synthesis. Int J Mol Sci 2022 Jun 18;23(12). PMID: 35743247
  • Yeh SJ, Yeh TY, Chen BS et al. Systems Drug Discovery for Diffuse Large B Cell Lymphoma Based on Pathogenic Molecular Mechanism via Big Data Mining and Deep Learning Method. Int J Mol Sci 2022 Jun 16;23(12). PMID: 35743172
  • Podstawski P, Ropka-Molik K, Semik-Gurgul E, Samiec M et al. Tracking the Molecular Scenarios for Tumorigenic Remodeling of Extracellular Matrix Based on Gene Expression Profiling in Equine Skin Neoplasia Models. Int J Mol Sci 2022 Jun 10;23(12). PMID: 35742950
  • Mirón Mombiela R, Arildskov AR, Bruun FJ, Hasselbalch LH et al. What Genetics Can Do for Oncological Imaging: A Systematic Review of the Genetic Validation Data Used in Radiomics Studies. Int J Mol Sci 2022 Jun 10;23(12). PMID: 35742947
  • Clausen AR, Durand S, Petersen RL, Staunstrup NH et al. Circulating miRNAs as Potential Biomarkers for Patient Stratification in Bipolar Disorder: A Combined Review and Data Mining Approach. Genes (Basel) 2022 Jun 10;13(6). PMID: 35741801
  • Feng S, Sun P, Qu C, Wu X et al. Exploring the Core Genes of Schizophrenia Based on Bioinformatics Analysis. Genes (Basel) 2022 May 27;13(6). PMID: 35741729
  • Huang P, Xu L, Jin M, Li L et al. Construction and Validation of a Tumor Microenvironment-Based Scoring System to Evaluate Prognosis and Response to Immune Checkpoint Inhibitor Therapy in Lung Adenocarcinoma Patients. Genes (Basel) 2022 May 26;13(6). PMID: 35741714
  • Zhao D, Zhang Z, Wang Z, Du Z et al. Diagnosis and Prediction of Endometrial Carcinoma Using Machine Learning and Artificial Neural Networks Based on Public Databases. Genes (Basel) 2022 May 24;13(6). PMID: 35741697
  • Zheng H, Qian X, Tian W, Cao L et al. Exploration of the Common Gene Characteristics and Molecular Mechanism of Parkinson's Disease and Crohn's Disease from Transcriptome Data. Brain Sci 2022 Jun 13;12(6). PMID: 35741659
  • Okada D, Okamoto Y, Io T, Oka M et al. Comparative Study of Transcriptome in the Hearts Isolated from Mice, Rats, and Humans. Biomolecules 2022 Jun 20;12(6). PMID: 35740984
  • Moriwaki M, Le TT, Sung SY, Jotatsu Y et al. Relevance of A Disintegrin and Metalloproteinase Domain-Containing (ADAM)9 Protein Expression to Bladder Cancer Malignancy. Biomolecules 2022 Jun 6;12(6). PMID: 35740916
  • Garland LL, Guillen-Rodriguez J, Hsu CH, Davis LE et al. Clinical Study of Aspirin and Zileuton on Biomarkers of Tobacco-Related Carcinogenesis in Current Smokers. Cancers (Basel) 2022 Jun 11;14(12). PMID: 35740559
  • Smart E, Semina SE, Alejo LH, Kansara NS et al. Estrogen Receptor-Regulated Gene Signatures in Invasive Breast Cancer Cells and Aggressive Breast Tumors. Cancers (Basel) 2022 Jun 9;14(12). PMID: 35740514
  • Fabre ML, Canzoneri R, Gurruchaga A, Lee J et al. MALINC1 an Immune-Related Long Non-Coding RNA Associated with Early-Stage Breast Cancer Progression. Cancers (Basel) 2022 Jun 7;14(12). PMID: 35740485
  • Zhang JX, Xu WH, Xing XH, Chen LL et al. ARG1 as a promising biomarker for sepsis diagnosis and prognosis: evidence from WGCNA and PPI network. Hereditas 2022 Jun 23;159(1):27. PMID: 35739592
  • Li M, Wang Y, Li K, Lan H et al. Characterization of highly expressed novel hub genes in hepatitis E virus chronicity in rabbits: a bioinformatics and experimental analysis. BMC Vet Res 2022 Jun 23;18(1):239. PMID: 35739587
  • Ucaryilmaz Metin C, Ozcan G et al. Comprehensive bioinformatic analysis reveals a cancer-associated fibroblast gene signature as a poor prognostic factor and potential therapeutic target in gastric cancer. BMC Cancer 2022 Jun 23;22(1):692. PMID: 35739492
  • Zeng Z, Xu S, Wang F, Peng X et al. HAO1-mediated oxalate metabolism promotes lung pre-metastatic niche formation by inducing neutrophil extracellular traps. Oncogene 2022 Jul;41(29):3719-3731. PMID: 35739335
  • Pannaraj PS, da Costa-Martins AG, Cerini C, Li F et al. Molecular alterations in human milk in simulated maternal nasal mucosal infection with live attenuated influenza vaccination. Mucosal Immunol 2022 May;15(5):1040-1047. PMID: 35739193
  • Talukder A, Zhang W, Li X, Hu H et al. A deep learning method for miRNA/isomiR target detection. Sci Rep 2022 Jun 23;12(1):10618. PMID: 35739186
  • Yin J, Zeng H, Fan K, Xie H et al. Pentraxin 3 regulated by miR-224-5p modulates macrophage reprogramming and exacerbates osteoarthritis associated synovitis by targeting CD32. Cell Death Dis 2022 Jun 24;13(6):567. PMID: 35739102
  • Tavares Pereira M, Martin I, Rehrauer H, Kowalewski MP et al. Effects of ACTH-Induced Long-Term Hypercortisolism on the Transcriptome of Canine Visceral Adipose Tissue. Vet Sci 2022 May 25;9(6). PMID: 35737302
  • Ishibashi O, Hayashi M, Horikawa A, Owada H et al. The Role of miR-217-5p in the Puromycin Aminonucleoside-Induced Morphological Change of Podocytes. Noncoding RNA 2022 Jun 8;8(3). PMID: 35736640
  • Gallardo CM, Nguyen AT, Routh AL, Torbett BE et al. Selective ablation of 3' RNA ends and processive RTs facilitate direct cDNA sequencing of full-length host cell and viral transcripts. Nucleic Acids Res 2022 Sep 23;50(17):e98. PMID: 35736235
  • Hamed O, Joshi R, Mostafa MM, Giembycz MA et al. α and β catalytic subunits of cAMP-dependent protein kinase regulate formoterol-induced inflammatory gene expression changes in human bronchial epithelial cells. Br J Pharmacol 2022 Sep;179(18):4593-4614. PMID: 35735057
  • Tanzir Mehedi S, Ahmed K, Bui FM, Rahaman M et al. MLBioIGE: integration and interplay of machine learning and bioinformatics approach to identify the genetic effect of SARS-COV-2 on idiopathic pulmonary fibrosis patients. Biol Methods Protoc 2022;7(1):bpac013. PMID: 35734766
  • Kim Y, Rebman AW, Johnson TP, Wang H et al. Peptidylarginine Deiminase 2 Autoantibodies Are Linked to Less Severe Disease in Multiple Sclerosis and Post-treatment Lyme Disease. Front Neurol 2022;13:874211. PMID: 35734473
  • Xu Y, Cao C, Zhu Z, Wang Y et al. Novel Hypoxia-Associated Gene Signature Depicts Tumor Immune Microenvironment and Predicts Prognosis of Colon Cancer Patients. Front Genet 2022;13:901734. PMID: 35734431
  • Jin Z, Wu J, Lin J, Wang J et al. Identification of the Transcription Co-Factor-Related Gene Signature and Risk Score Model for Osteosarcoma. Front Genet 2022;13:862803. PMID: 35734428
  • Thompson KJ, Leon-Ferre RA, Sinnwell JP, Zahrieh DM et al. Luminal androgen receptor breast cancer subtype and investigation of the microenvironment and neoadjuvant chemotherapy response. NAR Cancer 2022 Jun;4(2):zcac018. PMID: 35734391
  • Fu J, Lei X et al. Identification of the Immune Subtype of Hepatocellular Carcinoma for the Prediction of Disease-Free Survival Time and Prevention of Recurrence by Integrated Analysis of Bulk- and Single-Cell RNA Sequencing Data. Front Immunol 2022;13:868325. PMID: 35734185
  • Hu X, Ni S, Zhao K, Qian J et al. Bioinformatics-Led Discovery of Osteoarthritis Biomarkers and Inflammatory Infiltrates. Front Immunol 2022;13:871008. PMID: 35734177
  • Liu F, Wang P, Sun W, Jiang Y et al. Identification of Ligand-Receptor Pairs Associated With Tumour Characteristics in Clear Cell Renal Cell Carcinoma. Front Immunol 2022;13:874056. PMID: 35734169
  • Iwasaki T, Watanabe R, Ito H, Fujii T et al. Dynamics of Type I and Type II Interferon Signature Determines Responsiveness to Anti-TNF Therapy in Rheumatoid Arthritis. Front Immunol 2022;13:901437. PMID: 35734167
  • Cutler AA, Pawlikowski B, Wheeler JR, Dalla Betta N et al. The regenerating skeletal muscle niche drives satellite cell return to quiescence. iScience 2022 Jun 17;25(6):104444. PMID: 35733848
  • Dong W, Xie Y, Huang H et al. Prognostic Value of Cancer-Associated Fibroblast-Related Gene Signatures in Hepatocellular Carcinoma. Front Endocrinol (Lausanne) 2022;13:884777. PMID: 35733776
  • Dong Z, Sun X et al. Inferring disease progression and gene regulatory networks from clinical transcriptomic data using PROB_R. STAR Protoc 2022 Sep 16;3(3):101467. PMID: 35733604
  • Liao J, Liu Q, Chen J, Lu Z et al. A risk score model based on TGF-β pathway-related genes predicts survival, tumor microenvironment and immunotherapy for liver hepatocellular carcinoma. Proteome Sci 2022 Jun 22;20(1):11. PMID: 35733217
  • Rong G, Zhang T, Xu Y, Zhang Z et al. High levels of TDO2 in relation to pro-inflammatory cytokines in synovium and synovial fluid of patients with osteoarthritis. BMC Musculoskelet Disord 2022 Jun 22;23(1):604. PMID: 35733134
  • Ding L, Long F, An D, Liu J et al. Construction and validation of molecular subtypes of coronary artery disease based on ferroptosis-related genes. BMC Cardiovasc Disord 2022 Jun 22;22(1):283. PMID: 35733129
  • Huang Y, Zhang X, PengWang, Li Y et al. Identification of hub genes and pathways in colitis-associated colon cancer by integrated bioinformatic analysis. BMC Genom Data 2022 Jun 22;23(1):48. PMID: 35733095
  • Freydenzon A, Nabais MF, Lin T, Williams KL et al. Association between DNA methylation variability and self-reported exposure to heavy metals. Sci Rep 2022 Jun 22;12(1):10582. PMID: 35732753
  • Pawelka D, Laczmanska I, Karpinski P, Supplitt S et al. Machine-learning-based Analysis Identifies miRNA Expression Profile for Diagnosis and Prediction of Colorectal Cancer: A Preliminary Study. Cancer Genomics Proteomics 2022 Jul-Aug;19(4):503-511. PMID: 35732322
  • Sharpe BP, Hayden A, Manousopoulou A, Cowie A et al. Phosphodiesterase type 5 inhibitors enhance chemotherapy in preclinical models of esophageal adenocarcinoma by targeting cancer-associated fibroblasts. Cell Rep Med 2022 Jun 21;3(6):100541. PMID: 35732148
  • Poh AR, Love CG, Chisanga D, Steer JH et al. Therapeutic inhibition of the SRC-kinase HCK facilitates T cell tumor infiltration and improves response to immunotherapy. Sci Adv 2022 Jun 24;8(25):eabl7882. PMID: 35731867
  • Bao J, Chang W, Zhao Y et al. Diagnosis and Drug Prediction of Parkinson's Disease Based on Immune-Related Genes. J Mol Neurosci 2022 Sep;72(9):1809-1819. PMID: 35731466
  • Zeng X, Xu W, Tong J, Liu J et al. SPAG5 as a novel biomarker and potential therapeutic target via regulating AKT pathway in multiple myeloma. Leuk Lymphoma 2022 Nov;63(11):2565-2572. PMID: 35730922
  • Münch MM, van de Wiel MA, van der Vaart AW, Peeters CFW et al. Semi-supervised empirical Bayes group-regularized factor regression. Biom J 2022 Oct;64(7):1289-1306. PMID: 35730912
  • McLendon JM, Zhang X, Matasic DS, Kumar M et al. Knockout of Sorbin And SH3 Domain Containing 2 (Sorbs2) in Cardiomyocytes Leads to Dilated Cardiomyopathy in Mice. J Am Heart Assoc 2022 Jul 5;11(13):e025687. PMID: 35730644
  • Fang Y, Liu J, Zhang Q, She C et al. Overexpressed VDAC1 in breast cancer as a novel prognostic biomarker and correlates with immune infiltrates. World J Surg Oncol 2022 Jun 22;20(1):211. PMID: 35729567
  • Park S, Yang HD, Seo JW, Nam JW et al. hnRNPC induces isoform shifts in miR-21-5p leading to cancer development. Exp Mol Med 2022 Jun;54(6):812-824. PMID: 35729324
  • Song J, Kim D, Lee S, Jung J et al. Integrative transcriptome-wide analysis of atopic dermatitis for drug repositioning. Commun Biol 2022 Jun 22;5(1):615. PMID: 35729261
  • Delpero M, Arends D, Freiberg A, Brockmann GA et al. QTL-mapping in the obese Berlin Fat Mouse identifies additional candidate genes for obesity and fatty liver disease. Sci Rep 2022 Jun 21;12(1):10471. PMID: 35729251
  • Taklifi P, Palizban F, Mehrmohamadi M et al. Integrating chromatin accessibility states in the design of targeted sequencing panels for liquid biopsy. Sci Rep 2022 Jun 21;12(1):10447. PMID: 35729208
  • Yu W, Wang Z, Yu X, Zhao Y et al. Kir2.1-mediated membrane potential promotes nutrient acquisition and inflammation through regulation of nutrient transporters. Nat Commun 2022 Jun 21;13(1):3544. PMID: 35729093
  • Hu Y, Yang Y, Tan P, Zhang Y et al. Induction of mouse totipotent stem cells by a defined chemical cocktail. Nature 2023 May;617(7962):792-797. PMID: 35728625
  • Li H, Liu S, Lin Y, Shi X et al. Identification and Verification of Ubiquitin D as a Gene Associated with Hepatitis C Virus-Induced Hepatocellular Carcinoma. Intervirology 2022;65(4):195-205. PMID: 35728518
  • Lee E, Ahn H, Park S, Kim G et al. Staphylococcus epidermidis WF2R11 Suppresses PM(2.5)-Mediated Activation of the Aryl Hydrocarbon Receptor in HaCaT Keratinocytes. Probiotics Antimicrob Proteins 2022 Oct;14(5):915-933. PMID: 35727505
  • Murphy A, Vyavahare S, Kumar S, Lee TJ et al. Dietary interventions and molecular mechanisms for healthy musculoskeletal aging. Biogerontology 2022 Dec;23(6):681-698. PMID: 35727468
  • Li Y, Luo Y, Tian Q, Lai Y et al. Integrated Bioinformatics Analysis for Identifying the Significant Genes as Poor Prognostic Markers in Gastric Adenocarcinoma. J Oncol 2022;2022:9080460. PMID: 35726219
  • Trutschel D, Bost P, Mariette X, Bondet V et al. Variability of Primary Sjögren's Syndrome Is Driven by Interferon-α and Interferon-α Blood Levels Are Associated With the Class II HLA-DQ Locus. Arthritis Rheumatol 2022 Dec;74(12):1991-2002. PMID: 35726083
  • Karginov TA, Ménoret A, Vella AT et al. Optimal CD8(+) T cell effector function requires costimulation-induced RNA-binding proteins that reprogram the transcript isoform landscape. Nat Commun 2022 Jun 20;13(1):3540. PMID: 35725727
  • Bhatia S, Nguyen D, Darragh LB, Van Court B et al. EphB4 and ephrinB2 act in opposition in the head and neck tumor microenvironment. Nat Commun 2022 Jun 20;13(1):3535. PMID: 35725568
  • Fancello L, Burger T et al. An analysis of proteogenomics and how and when transcriptome-informed reduction of protein databases can enhance eukaryotic proteomics. Genome Biol 2022 Jun 20;23(1):132. PMID: 35725496
  • Liu Y, Xiao X, Wang J, Wang Y et al. Silencing CircEIF3I/miR-526b-5p Axis Epigenetically Targets HGF/c-Met Signal to Hinder the Malignant Growth, Metastasis and Angiogenesis of Hepatocellular Carcinoma. Biochem Genet 2023 Feb;61(1):48-68. PMID: 35723810
  • Naserkheil M, Ghafouri F, Zakizadeh S, Pirany N et al. Multi-Omics Integration and Network Analysis Reveal Potential Hub Genes and Genetic Mechanisms Regulating Bovine Mastitis. Curr Issues Mol Biol 2022 Jan 11;44(1):309-328. PMID: 35723402
  • Gong X, Wang S et al. New Insights into Evolution of the ABC Transporter Family in Mesostigma viride, a Unicellular Charophyte Algae. Curr Issues Mol Biol 2022 Apr 11;44(4):1646-1660. PMID: 35723370
  • Liu H, Zhou Q, Xu X, Du Y et al. ASPM and TROAP gene expression as potential malignant tumor markers. Ann Transl Med 2022 May;10(10):586. PMID: 35722431
  • Fu C, Feng L, Zhang J, Sun D et al. Bioinformatic analyses of the role of m6A RNA methylation regulators in abdominal aortic aneurysm. Ann Transl Med 2022 May;10(10):547. PMID: 35722410
  • Lin S, Fan R, Li W, Hou W et al. A ceRNA regulatory network in systemic lupus erythematosus and its molecular interplay with cancer. Ann Transl Med 2022 May;10(10):563. PMID: 35722400
  • Wu J, Li XY, Liang J, Xie J et al. Network pharmacological analysis of active components of Tongqiao Huoxue Decoction in the treatment of intracerebral hemorrhage. Ann Transl Med 2022 May;10(10):567. PMID: 35722393
  • Yi Y, Sheng J, Nie J et al. Screening of prognostic immune genes and establishment of prognostic model of cervical adenocarcinoma based on bioinformatics analysis. Ann Transl Med 2022 May;10(10):548. PMID: 35722389
  • Ban Q, Ling X, Ding H, Meng J et al. Screening of periodontitis-related genes and immune cells based on an integrated bioinformatics analysis. Ann Transl Med 2022 May;10(10):558. PMID: 35722384
  • Xu W, Chen Q, Zhang X, Zhao Y et al. Genipin protects against mitochondrial damage of the retinal pigment epithelium under hyperglycemia through the AKT pathway mediated by the miR-4429/JAK2 signaling axis. Ann Transl Med 2022 May;10(10):587. PMID: 35722358
  • Guo X, Tang P, Hou C, Chong L et al. Integrated Microbiome and Host Transcriptome Profiles Link Parkinson's Disease to Blautia Genus: Evidence From Feces, Blood, and Brain. Front Microbiol 2022;13:875101. PMID: 35722294
  • Li Y, Lin X, Wang W, Wang W et al. The Proinflammatory Role of Guanylate-Binding Protein 5 in Inflammatory Bowel Diseases. Front Microbiol 2022;13:926915. PMID: 35722277
  • Maurya DK, Bandekar M, Sandur SK et al. Soluble factors secreted by human Wharton's jelly mesenchymal stromal/stem cells exhibit therapeutic radioprotection: A mechanistic study with integrating network biology. World J Stem Cells 2022 May 26;14(5):347-361. PMID: 35722198
  • Zhai H, Huang L, Gong Y, Liu Y et al. Human Plasma Transcriptome Implicates Dysregulated S100A12 Expression: A Strong, Early-Stage Prognostic Factor in ST-Segment Elevated Myocardial Infarction: Bioinformatics Analysis and Experimental Verification. Front Cardiovasc Med 2022;9:874436. PMID: 35722095
  • Huang K, Wu L, Gao Y, Li Q et al. Transcriptome Sequencing Data Reveal LncRNA-miRNA-mRNA Regulatory Network in Calcified Aortic Valve Disease. Front Cardiovasc Med 2022;9:886995. PMID: 35722091
  • Li Z, Pan X, Cai YD et al. Identification of Type 2 Diabetes Biomarkers From Mixed Single-Cell Sequencing Data With Feature Selection Methods. Front Bioeng Biotechnol 2022;10:890901. PMID: 35721855
  • Wei R, Qiao J, Cui D, Pan Q et al. Screening and Identification of Hub Genes in the Development of Early Diabetic Kidney Disease Based on Weighted Gene Co-Expression Network Analysis. Front Endocrinol (Lausanne) 2022;13:883658. PMID: 35721731
  • Perez-Correa JF, Tharmapalan V, Geiger H, Wagner W et al. Epigenetic Clocks for Mice Based on Age-Associated Regions That are Conserved Between Mouse Strains and Human. Front Cell Dev Biol 2022;10:902857. PMID: 35721486
  • Zheng P, Ren D, Yu C, Zhang X et al. DNA Methylation-Related circRNA_0116449 Is Involved in Lipid Peroxidation in Traumatic Brain Injury. Front Mol Neurosci 2022;15:904913. PMID: 35721315
  • Liu Z, Guan C, Li C, Zhang N et al. Tilianin Reduces Apoptosis via the ERK/EGR1/BCL2L1 Pathway in Ischemia/Reperfusion-Induced Acute Kidney Injury Mice. Front Pharmacol 2022;13:862584. PMID: 35721209
  • Du F, Zheng F, Han Y, Zhao J et al. Novel Immune-Related Gene Signature for Risk Stratification and Prognosis of Survival in ER (+) and/or PR (+) and HER2 (-) Breast Cancer. Front Pharmacol 2022;13:820437. PMID: 35721151
  • Zhuang Z, Zhong X, Chen Q, Chen H et al. Bioinformatics and System Biology Approach to Reveal the Interaction Network and the Therapeutic Implications for Non-Small Cell Lung Cancer Patients With COVID-19. Front Pharmacol 2022;13:857730. PMID: 35721149
  • Lin Y, Huang K, Cai Z, Chen Y et al. A Novel Exosome-Relevant Molecular Classification Uncovers Distinct Immune Escape Mechanisms and Genomic Alterations in Gastric Cancer. Front Pharmacol 2022;13:884090. PMID: 35721114
  • Zhao Z, He S, Tang S, Lai X et al. CLP1 is a Prognosis-Related Biomarker and Correlates With Immune Infiltrates in Rheumatoid Arthritis. Front Pharmacol 2022;13:827215. PMID: 35721104
  • Dai JJ, Fu YY, Zhong XQ, Cen W et al. Identification of Senescence-Related Subtypes, the Development of a Prognosis Model, and Characterization of Immune Infiltration and Gut Microbiota in Colorectal Cancer. Front Med (Lausanne) 2022;9:916565. PMID: 35721059
  • Liu P, Han B, Zhang Y, Wang X et al. Network Pharmacology-Based Strategy to Investigate the Mechanisms of Lenvatinib in the Treatment of Hepatocellular Carcinoma. Comput Intell Neurosci 2022;2022:7102500. PMID: 35720901
  • Han X, Han J, Wang N, Ji G et al. Identification of Auxiliary Biomarkers and Description of the Immune Microenvironmental Characteristics in Duchenne Muscular Dystrophy by Bioinformatical Analysis and Experiment. Front Neurosci 2022;16:891670. PMID: 35720684
  • Liu X, Song Q, Wang D, Liu Y et al. LIMK1: A promising prognostic and immune infiltration indicator in colorectal cancer. Oncol Lett 2022 Jul;24(1):234. PMID: 35720504
  • Wang F, Gao X, Wang P, He H et al. Immune Subtypes in LUAD Identify Novel Tumor Microenvironment Profiles With Prognostic and Therapeutic Implications. Front Immunol 2022;13:877896. PMID: 35720373
  • Tian Y, Liu H, Zhang C, Liu W et al. Comprehensive Analyses of Ferroptosis-Related Alterations and Their Prognostic Significance in Glioblastoma. Front Mol Biosci 2022;9:904098. PMID: 35720126
  • Wei E, Reisinger A, Li J, French LE et al. Integration of scRNA-Seq and TCGA RNA-Seq to Analyze the Heterogeneity of HPV+ and HPV- Cervical Cancer Immune Cells and Establish Molecular Risk Models. Front Oncol 2022;12:860900. PMID: 35719936
  • Wu C, Liu Y, Wei D, Tao L et al. Gene Coexpression Network Characterizing Microenvironmental Heterogeneity and Intercellular Communication in Pancreatic Ductal Adenocarcinoma: Implications of Prognostic Significance and Therapeutic Target. Front Oncol 2022;12:840474. PMID: 35719923
  • Chen S, Zhang J, Li Q, Xiao L et al. A Novel Secreted Protein-Related Gene Signature Predicts Overall Survival and Is Associated With Tumor Immunity in Patients With Lung Adenocarcinoma. Front Oncol 2022;12:870328. PMID: 35719915
  • Guo H, Tang H, Zhao Y, Zhao Q et al. Molecular Typing of Gastric Cancer Based on Invasion-Related Genes and Prognosis-Related Features. Front Oncol 2022;12:848163. PMID: 35719914
  • Xiang L, Lan C et al. Significance of a Tumor Mutation Burden Gene Signature with Prognosis and Immune Feature of Gastric Cancer Patients. Int J Genomics 2022;2022:7684606. PMID: 35719415
  • Zhang Y, Hua S, Jiang Q, Xie Z et al. Identification of Feature Genes of a Novel Neural Network Model for Bladder Cancer. Front Genet 2022;13:912171. PMID: 35719407
  • Liu J, Liu L, Antwi PA, Luo Y et al. Identification and Validation of the Diagnostic Characteristic Genes of Ovarian Cancer by Bioinformatics and Machine Learning. Front Genet 2022;13:858466. PMID: 35719392
  • Hu W, Fang T, Chen X et al. Identification of Differentially Expressed Genes and miRNAs for Ulcerative Colitis Using Bioinformatics Analysis. Front Genet 2022;13:914384. PMID: 35719390
  • Wang P, Zhao W, Cao H et al. Development of a Platelet-Related Prognostic Model for Colorectal Cancer. Front Genet 2022;13:904168. PMID: 35719389
  • Pang APS, Higgins-Chen AT, Comite F, Raica I et al. Longitudinal Study of DNA Methylation and Epigenetic Clocks Prior to and Following Test-Confirmed COVID-19 and mRNA Vaccination. Front Genet 2022;13:819749. PMID: 35719387
  • Hu J, Ge S, Sun B, Ren J et al. Comprehensive Analysis of Potential ceRNA Network and Different Degrees of Immune Cell Infiltration in Acute Respiratory Distress Syndrome. Front Genet 2022;13:895629. PMID: 35719385
  • Dai L, Wang X, Bai T, Liu J et al. Cellular Senescence-Related Genes: Predicting Prognosis in Gastric Cancer. Front Genet 2022;13:909546. PMID: 35719376
  • Yin X, Bu W, Fang F, Ren K et al. Keloid Biomarkers and Their Correlation With Immune Infiltration. Front Genet 2022;13:784073. PMID: 35719372
  • Wu W, Wang M, Li C, Zhu Z et al. LncRNA Snhg1 Plays an Important Role via Sequestering rno-miR-139-5p to Function as a ceRNA in Acute Rejection After Rat Liver Transplantation Based on the Bioinformatics Analysis. Front Genet 2022;13:827193. PMID: 35719364
  • Tang W, Wang X, Chen L, Lu Y et al. Identification of potential gene markers in gestational diabetes mellitus. J Clin Lab Anal 2022 Jul;36(7):e24515. PMID: 35718998
  • Motlagh FM, Soleimanpour-Lichaei HR, Emami A, Kadkhoda S et al. Bcl11a and the Correlated Key Genes Ascribable to Globin Switching: An In-silico Study. Cardiovasc Hematol Disord Drug Targets 2022;22(2):128-142. PMID: 35718959
  • Mallick B, Kumari M, Pradhan SK, C P et al. Genome-wide analysis and characterization of heat shock transcription factors (Hsfs) in common bean (Phaseolus vulgaris L.). Funct Integr Genomics 2022 Oct;22(5):743-756. PMID: 35718806
  • Mirmohammadi S, Kianmehr A, Sabbaghian A, Mohebbi A et al. In silico drug repurposing against SARS-CoV-2 using an integrative transcriptomic profiling approach: Hydrocortisone and Benzhydrocodone as potential drug candidates against COVID-19. Infect Genet Evol 2022 Sep;103:105318. PMID: 35718334
  • Dos Reis R, Kornobis E, Pereira A, Tores F et al. Complex regulation of Gephyrin splicing is a determinant of inhibitory postsynaptic diversity. Nat Commun 2022 Jun 18;13(1):3507. PMID: 35717442
  • Xie M, Li Z, Li X, Ai L et al. Identifying crucial biomarkers in peripheral blood of schizophrenia and screening therapeutic agents by comprehensive bioinformatics analysis. J Psychiatr Res 2022 Aug;152:86-96. PMID: 35716513
  • Miao S, Song J, Liu Q, Lai J et al. Integrated bioinformatics analysis to identify the key gene associated with metastatic clear cell renal cell carcinoma. Med Oncol 2022 Jun 18;39(9):128. PMID: 35716215
  • Sun Z, Wang X, Vedell P, Kocher JP et al. DNA methylation signature predicts cancer response to demethylation agents from profiling diverse cancer cell lines. Cancer Commun (Lond) 2022 Aug;42(8):789-792. PMID: 35716010
  • Zhai G, Jia J, Bereketoglu C, Yin Z et al. Sex-specific differences in zebrafish brains. Biol Sex Differ 2022 Jun 17;13(1):31. PMID: 35715828
  • Ahonen MA, Höring M, Nguyen VD, Qadri S et al. Insulin-inducible THRSP maintains mitochondrial function and regulates sphingolipid metabolism in human adipocytes. Mol Med 2022 Jun 17;28(1):68. PMID: 35715726
  • Tran B, Tran D, Nguyen H, Ro S et al. scCAN: single-cell clustering using autoencoder and network fusion. Sci Rep 2022 Jun 17;12(1):10267. PMID: 35715568
  • Wang Y, Ma B, Liu X, Gao G et al. ZFP281-BRCA2 prevents R-loop accumulation during DNA replication. Nat Commun 2022 Jun 17;13(1):3493. PMID: 35715464
  • Bolt CC, Lopez-Delisle L, Hintermann A, Mascrez B et al. Context-dependent enhancer function revealed by targeted inter-TAD relocation. Nat Commun 2022 Jun 17;13(1):3488. PMID: 35715427
  • Derakhshan M, Kessler NJ, Ishida M, Demetriou C et al. Tissue- and ethnicity-independent hypervariable DNA methylation states show evidence of establishment in the early human embryo. Nucleic Acids Res 2022 Jul 8;50(12):6735-6752. PMID: 35713545
  • Portuguez AS, Grbesa I, Tal M, Deitch R et al. Ep300 sequestration to functionally distinct glucocorticoid receptor binding loci underlie rapid gene activation and repression. Nucleic Acids Res 2022 Jul 8;50(12):6702-6714. PMID: 35713523
  • Bai J, Pu X, Zhang Y, Dai E et al. Renal tubular gen e biomarkers identification based on immune infiltrates in focal segmental glomerulosclerosis. Ren Fail 2022 Dec;44(1):966-986. PMID: 35713363
  • Chen L, Luo Z, Zhao C, Li Q et al. Dynamic Chromatin States Coupling with Key Transcription Factors in Colitis-Associated Colorectal Cancer. Adv Sci (Weinh) 2022 Aug;9(23):e2200536. PMID: 35712778
  • Liu Y, Shi JZ, Jiang R, Liu SF et al. Regulatory T Cell-Related Gene Indicators in Pulmonary Hypertension. Front Pharmacol 2022;13:908783. PMID: 35712711
  • Wu ZH, Wu B, Li C, Zhang YJ et al. Pyroptosis-Related Signature and Tumor Microenvironment Infiltration Characterization in Head and Neck Squamous Cell Carcinoma. Front Cell Dev Biol 2022;10:702224. PMID: 35712671
  • Sun D, Cai X, Shen F, Fan L et al. Transcriptome-Wide m6A Methylome and m6A-Modified Gene Analysis in Asthma. Front Cell Dev Biol 2022;10:799459. PMID: 35712670
  • Yu Y, Xu J, Wang C, Pang Y et al. Genome-wide analysis of the strigolactone biosynthetic and signaling genes in grapevine and their response to salt and drought stresses. PeerJ 2022;10:e13551. PMID: 35712547
  • Bao G, Guan X, Liang J, Yao Y et al. A Germline Mutation in ATR Is Associated With Lung Adenocarcinoma in Asian Patients. Front Oncol 2022;12:855305. PMID: 35712480
  • Glathar AR, Oyelakin A, Gluck C, Bard J et al. p63 Directs Subtype-Specific Gene Expression in HPV+ Head and Neck Squamous Cell Carcinoma. Front Oncol 2022;12:879054. PMID: 35712470
  • Fan X, Zou X, Liu C, Liu J et al. Construction of the miRNA-mRNA Regulatory Networks and Explore Their Role in the Development of Lung Squamous Cell Carcinoma. Front Mol Biosci 2022;9:888020. PMID: 35712349
  • Ren Y, He S, Feng S, Yang W et al. A Prognostic Model for Colon Adenocarcinoma Patients Based on Ten Amino Acid Metabolism Related Genes. Front Public Health 2022;10:916364. PMID: 35712285
  • Zhang B, Yuan L, Chen G, Chen X et al. Deciphering Obesity-Related Gene Clusters Unearths SOCS3 Immune Infiltrates and 5mC/m6A Modifiers in Ossification of Ligamentum Flavum Pathogenesis. Front Endocrinol (Lausanne) 2022;13:861567. PMID: 35712246
  • Hou F, Zhou X, Zhou S, Liu H et al. DNA methylation dynamics associated with long-term isolation of simulated space travel. iScience 2022 Jun 17;25(6):104493. PMID: 35712082
  • Tan HY, Yong YK, Xue YC, Liu H et al. cGAS and DDX41-STING mediated intrinsic immunity spreads intercellularly to promote neuroinflammation in SOD1 ALS model. iScience 2022 Jun 17;25(6):104404. PMID: 35712074
  • Yang Y, Sun Q, Guo J, Liu Z et al. Identification of a lncRNA AC011511.5- Mediated Competitive Endogenous RNA Network Involved in the Pathogenesis of Allergic Rhinitis. Front Genet 2022;13:811679. PMID: 35711945
  • Hegde M, Daimary UD, Jose S, Sajeev A et al. Differential Expression of Genes Regulating Store-operated Calcium Entry in Conjunction With Mitochondrial Dynamics as Potential Biomarkers for Cancer: A Single-Cell RNA Analysis. Front Genet 2022;13:866473. PMID: 35711942
  • Li L, Chen D, Luo X, Wang Z et al. Identification of CD8(+) T Cell Related Biomarkers in Ovarian Cancer. Front Genet 2022;13:860161. PMID: 35711935
  • Li J, Yu C, Ni S, Duan Y et al. Identification of Core Genes and Screening of Potential Targets in Intervertebral Disc Degeneration Using Integrated Bioinformatics Analysis. Front Genet 2022;13:864100. PMID: 35711934
  • Zhang D, Wang W, Zhou H, Su L et al. ANXA1: An Important Independent Prognostic Factor and Molecular Target in Glioma. Front Genet 2022;13:851505. PMID: 35711921
  • Gutierrez J, Davis BA, Nevonen KA, Ward S et al. DNA Methylation Analysis of Turner Syndrome BAV. Front Genet 2022;13:872750. PMID: 35711915
  • Zhang C, Cheng M, Dong N, Sun D et al. General Transcription Factor IIF Polypeptide 2: A Novel Therapeutic Target for Depression Identified Using an Integrated Bioinformatic Analysis. Front Aging Neurosci 2022;14:918217. PMID: 35711908
  • Ko MJ, Seo YR, Seo D, Park SY et al. RPL17 Promotes Colorectal Cancer Proliferation and Stemness through ERK and NEK2/β-catenin Signaling Pathways. J Cancer 2022;13(8):2570-2583. PMID: 35711835
  • Huang H, Zhu G, Shi R, Li Y et al. Development and Validation of a Combined Hypoxia and Immune Prognostic Classifier for Lung Adenocarcinoma. J Cancer 2022;13(8):2631-2643. PMID: 35711827
  • Chen P, Liu Y, Lin X, Yu B et al. The Underlying Molecular Basis and Mechanisms of Venous Thrombosis in Patients with Osteomyelitis: A Data-Driven Analysis. Genet Res (Camb) 2022;2022:5672384. PMID: 35711689
  • Zhang J, Li B, Zhao B, Qi Y et al. Immune Cell Infiltration Characteristics of Pigmented Villous Nodular Synovitis and Prediction of Potential Diagnostic Markers Based on Bioinformatics. Biomed Res Int 2022;2022:8708692. PMID: 35711523
  • Huang P, Tang L, Zhang L, Ren Y et al. Identification of Biomarkers Associated With CD4(+) T-Cell Infiltration With Gene Coexpression Network in Dermatomyositis. Front Immunol 2022;13:854848. PMID: 35711463
  • Lu T, Liu Z, Guo D, Ma C et al. Transcriptome-Based Dissection of Intracranial Aneurysms Unveils an "Immuno-Thermal" Microenvironment and Defines a Pathological Feature-Derived Gene Signature for Risk Estimation. Front Immunol 2022;13:878195. PMID: 35711443
  • Hou Y, Zhang R, Zong J, Wang W et al. Comprehensive Analysis of a Cancer-Immunity Cycle-Based Signature for Predicting Prognosis and Immunotherapy Response in Patients With Colorectal Cancer. Front Immunol 2022;13:892512. PMID: 35711437
  • Bai S, Chen L, Yan Y, Li R et al. Exploration of Different Hypoxia Patterns and Construction of a Hypoxia-Related Gene Prognostic Index in Colorectal Cancer. Front Immunol 2022;13:853352. PMID: 35711425
  • Cox G, Gonzalez AJ, Ijezie EC, Rodriguez A et al. Priming With Rhinovirus Protects Mice Against a Lethal Pulmonary Coronavirus Infection. Front Immunol 2022;13:886611. PMID: 35711419
  • Jerome AD, Atkinson JR, McVey Moffatt AL, Sepeda JA et al. Characterization of Zymosan-Modulated Neutrophils With Neuroregenerative Properties. Front Immunol 2022;13:912193. PMID: 35711408
  • Song W, Lu F, Ding Z, Huang L et al. Identification of Heparan Sulfate in Dilated Cardiomyopathy by Integrated Bioinformatics Analysis. Front Cardiovasc Med 2022;9:900428. PMID: 35711374
  • Lo Tartaro D, Neroni A, Paolini A, Borella R et al. Molecular and cellular immune features of aged patients with severe COVID-19 pneumonia. Commun Biol 2022 Jun 16;5(1):590. PMID: 35710943
  • Chen J, Hu S, Wang H, Zhao T et al. Integrated analysis reveals the pivotal interactions between immune cells in the melanoma tumor microenvironment. Sci Rep 2022 Jun 16;12(1):10040. PMID: 35710862
  • Arpi MNT, Simpson TI et al. SFARI genes and where to find them; modelling Autism Spectrum Disorder specific gene expression dysregulation with RNA-seq data. Sci Rep 2022 Jun 16;12(1):10158. PMID: 35710789
  • Neff SL, Hampton TH, Puerner C, Cengher L et al. CF-Seq, an accessible web application for rapid re-analysis of cystic fibrosis pathogen RNA sequencing studies. Sci Data 2022 Jun 16;9(1):343. PMID: 35710652
  • Gao T, Zhao L, Zhang F, Cao C et al. Evaluate the diagnostic and prognostic value of NUSAP1 in papillary thyroid carcinoma and identify the relationship with genes, proteins, and immune factors. World J Surg Oncol 2022 Jun 16;20(1):207. PMID: 35710427
  • Zhu S, Bao H, Zhang MC, Liu H et al. KAZN as a diagnostic marker in ovarian cancer: a comprehensive analysis based on microarray, mRNA-sequencing, and methylation data. BMC Cancer 2022 Jun 16;22(1):662. PMID: 35710397
  • Hirsch N, Dahan I, D'haene E, Avni M et al. HDAC9 structural variants disrupting TWIST1 transcriptional regulation lead to craniofacial and limb malformations. Genome Res 2022 Jul;32(7):1242-1253. PMID: 35710300
  • Bergmann S, Penfold CA, Slatery E, Siriwardena D et al. Spatial profiling of early primate gastrulation in utero. Nature 2022 Sep;609(7925):136-143. PMID: 35709828
  • Eagle K, Harada T, Kalfon J, Perez MW et al. Transcriptional Plasticity Drives Leukemia Immune Escape. Blood Cancer Discov 2022 Sep 6;3(5):394-409. PMID: 35709529
  • Rifat MH, Ahmed J, Ahmed M, Ahmed F et al. Prediction and expression analysis of deleterious nonsynonymous SNPs of Arabidopsis ACD11 gene by combining computational algorithms and molecular docking approach. PLoS Comput Biol 2022 Jun;18(6):e1009539. PMID: 35709304
  • Konieczny P, Xing Y, Sidhu I, Subudhi I et al. Interleukin-17 governs hypoxic adaptation of injured epithelium. Science 2022 Jul 8;377(6602):eabg9302. PMID: 35709248
  • Hung FY, Shih YH, Lin PY, Feng YR et al. WRKY63 transcriptional activation of COOLAIR and COLDAIR regulates vernalization-induced flowering. Plant Physiol 2022 Aug 29;190(1):532-547. PMID: 35708655
  • Metzenmacher M, Hegedüs B, Forster J, Schramm A et al. The clinical utility of cfRNA for disease detection and surveillance: A proof of concept study in non-small cell lung cancer. Thorac Cancer 2022 Aug;13(15):2180-2191. PMID: 35708207
  • Han J, Zheng Q, Cheng Y, Liu Y et al. Toll-like receptor 9 (TLR9) gene deletion-mediated fracture healing in type II diabetic osteoporosis associates with inhibition of the nuclear factor-kappa B (NF-κB) signaling pathway. Bioengineered 2022 May;13(5):13689-13702. PMID: 35707851
  • Sun J, Liu B, Wang R, Yuan Y et al. Computation-Based Discovery of Potential Targets for Rheumatoid Arthritis and Related Molecular Screening and Mechanism Analysis of Traditional Chinese Medicine. Dis Markers 2022;2022:1905077. PMID: 35707715
  • Yu Y, Wang Y, Zou Y, Yu Y et al. CYP26A1 Is a Novel Cancer Biomarker of Pancreatic Carcinoma: Evidence from Integration Analysis and In Vitro Experiments. Dis Markers 2022;2022:5286820. PMID: 35707714
  • Martínez-Camblor P, Pérez-Fernández S, Díaz-Coto S et al. The role of the p-value in the multitesting problem. J Appl Stat 2020;47(9):1529-1542. PMID: 35707580
  • Peng X, Yang R, Song J, Wang X et al. Calpain2 Upregulation Regulates EMT-Mediated Pancreatic Cancer Metastasis via the Wnt/β-Catenin Signaling Pathway. Front Med (Lausanne) 2022;9:783592. PMID: 35707527
  • Liu G, Fu Y, Zhang J, Pu X et al. EM-test for homogeneity in a two-sample problem with a mixture structure. J Appl Stat 2020;47(4):724-738. PMID: 35707486
  • Li X, Chen X, Yuan Y, Zhai R et al. Identifying Immune Cell Infiltration and Effective Diagnostic Biomarkers in Lung Adenocarcinoma by Comprehensive Bioinformatics Analysis and In Vitro Study. Front Oncol 2022;12:916947. PMID: 35707363
  • Huang ZL, Xu B, Li TT, Xu YH et al. Integrative Analysis Identifies Cell-Type-Specific Genes Within Tumor Microenvironment as Prognostic Indicators in Hepatocellular Carcinoma. Front Oncol 2022;12:878923. PMID: 35707353
  • Parker AC, Quinteros BI, Piccolo SR et al. The DNA methylation landscape of five pediatric-tumor types. PeerJ 2022;10:e13516. PMID: 35707123
  • Wang M, Miao Z, Cen H, He J et al. Long non-coding RNA (LncRNA) CHROMR promotes the expression of the CNNM1 gene by adsorbing hsa-miR-1299 to obtain drug resistance in diffuse large B lymphoma cells. Transl Cancer Res 2022 May;11(5):1362-1371. PMID: 35706822
  • Zhao L, Zhang P, Nan Y, Ren B et al. Bioinformatics analysis of potential glioblastoma circular RNA sponge network. Transl Cancer Res 2022 May;11(5):1017-1032. PMID: 35706804
  • Xia Z, Gao P, Chen Y, Shu L et al. Analysis of the key prognostic genes and potential traditional Chinese medicine therapeutic targets in glioblastoma based on bioinformatics and network pharmacology methods. Transl Cancer Res 2022 May;11(5):1386-1405. PMID: 35706800
  • Zheng W, Zhao Y, Wang T, Zhao X et al. Identification of hub genes associated with bladder cancer using bioinformatic analyses. Transl Cancer Res 2022 May;11(5):1330-1343. PMID: 35706790
  • Li Z, Huang F, Chen L, Huang T et al. Identifying In Vitro Cultured Human Hepatocytes Markers with Machine Learning Methods Based on Single-Cell RNA-Seq Data. Front Bioeng Biotechnol 2022;10:916309. PMID: 35706505
  • Tang D, Park S, Zhao H et al. SCADIE: simultaneous estimation of cell type proportions and cell type-specific gene expressions using SCAD-based iterative estimating procedure. Genome Biol 2022 Jun 15;23(1):129. PMID: 35706040
  • Jäntti H, Sitnikova V, Ishchenko Y, Shakirzyanova A et al. Microglial amyloid beta clearance is driven by PIEZO1 channels. J Neuroinflammation 2022 Jun 15;19(1):147. PMID: 35706029
  • Zhao JZ, Li QY, Lin JJ, Yang LY et al. Integrated analysis of tRNA-derived small RNAs in proliferative human aortic smooth muscle cells. Cell Mol Biol Lett 2022 Jun 15;27(1):47. PMID: 35705912
  • Zhang Y, Chang X, Xia J, Huang Y et al. Identifying network biomarkers of cancer by sample-specific differential network. BMC Bioinformatics 2022 Jun 15;23(1):230. PMID: 35705908
  • Figueiredo RQ, Del Ser SD, Raschka T, Hofmann-Apitius M et al. Elucidating gene expression patterns across multiple biological contexts through a large-scale investigation of transcriptomic datasets. BMC Bioinformatics 2022 Jun 15;23(1):231. PMID: 35705903
  • Nishimura S, Yamamoto Y, Sugimoto A, Kushiyama S et al. Lipocalin-2 negatively regulates epithelial-mesenchymal transition through matrix metalloprotease-2 downregulation in gastric cancer. Gastric Cancer 2022 Sep;25(5):850-861. PMID: 35705840
  • Rocks D, Shukla M, Ouldibbat L, Finnemann SC et al. Sex-specific multi-level 3D genome dynamics in the mouse brain. Nat Commun 2022 Jun 15;13(1):3438. PMID: 35705546
  • Siahpirani AF, Knaack S, Chasman D, Seirup M et al. Dynamic regulatory module networks for inference of cell type-specific transcriptional networks. Genome Res 2022 Jul;32(7):1367-1384. PMID: 35705328
  • Zhu Y, Tang Y, Peng Y, Hu P et al. Identification of Hub Gene and Transcription Factor Related to Chronic Allograft Nephropathy Based on WGCNA Analysis. Kidney Blood Press Res 2022;47(10):631-642. PMID: 35705063
  • Deng Q, Natesan R, Cidre-Aranaz F, Arif S et al. Oncofusion-driven de novo enhancer assembly promotes malignancy in Ewing sarcoma via aberrant expression of the stereociliary protein LOXHD1. Cell Rep 2022 Jun 14;39(11):110971. PMID: 35705030
  • Gargaro M, Scalisi G, Manni G, Briseño CG et al. Indoleamine 2,3-dioxygenase 1 activation in mature cDC1 promotes tolerogenic education of inflammatory cDC2 via metabolic communication. Immunity 2022 Jun 14;55(6):1032-1050.e14. PMID: 35704993
  • Tseng PY, Hoon MA et al. GPR15L is an epithelial inflammation-derived pruritogen. Sci Adv 2022 Jun 17;8(24):eabm7342. PMID: 35704588
  • Baessler A, Novis CL, Shen Z, Perovanovic J et al. Tet2 coordinates with Foxo1 and Runx1 to balance T follicular helper cell and T helper 1 cell differentiation. Sci Adv 2022 Jun 17;8(24):eabm4982. PMID: 35704571
  • Uetaki M, Onishi N, Oki Y, Shimizu T et al. Regulatory roles of fibronectin and integrin α5 in reorganization of the actin cytoskeleton and completion of adipogenesis. Mol Biol Cell 2022 Aug 1;33(9):ar78. PMID: 35704469
  • Teo YX, Haw WY, Vallejo A, McGuire C et al. Potential Biomarker Identification by RNA-Seq Analysis in Antibiotic-Related Drug Reaction with Eosinophilia and Systemic Symptoms (DRESS): A Pilot Study. Toxicol Sci 2022 Aug 25;189(1):20-31. PMID: 35703984
  • Tang B, Zhang Q, Liu K, Huang Y et al. Exosomal circRNA FNDC3B promotes the progression of esophageal squamous cell carcinoma by sponging miR-490-5p and regulating thioredoxin reductase 1 expression. Bioengineered 2022 May;13(5):13829-13848. PMID: 35703190
  • Fang Z, Lin L, Tu Z, Zhu X et al. Development and validation of a leukocyte-associated immunoglobulin-like receptor-1 prognostic signature for lower-grade gliomas. Cancer Med 2023 Jan;12(1):712-732. PMID: 35702880
  • Fu Y, Sun S, Bi J, Kong C et al. An RNA-binding protein-related risk signature can predict the prognosis and tumor immunity of patients with testicular germ cell tumors. Am J Transl Res 2022;14(5):2825-2843. PMID: 35702133
  • Huang S, Liao M, Chen S, Zhang P et al. Immune signatures of CD4 and CD68 predicts disease progression in cutaneous T cell lymphoma. Am J Transl Res 2022;14(5):3037-3051. PMID: 35702080
  • Sun J, Guo F, Tang Q, Chen G et al. Identification of a novel immune gene panel in tongue squamous cell carcinoma. Am J Transl Res 2022;14(5):2801-2824. PMID: 35702068
  • Bartlett TE, Evans I, Jones A, Barrett JE et al. Antiprogestins reduce epigenetic field cancerization in breast tissue of young healthy women. Genome Med 2022 Jun 15;14(1):64. PMID: 35701800
  • Chen D, Chen H, Dai G, Zhang H et al. Genome-wide identification of R2R3-MYB gene family and association with anthocyanin biosynthesis in Brassica species. BMC Genomics 2022 Jun 14;23(1):441. PMID: 35701743
  • Ferreyra Vega S, Wenger A, Kling T, Olsson Bontell T et al. Spatial heterogeneity in DNA methylation and chromosomal alterations in diffuse gliomas and meningiomas. Mod Pathol 2022 Nov;35(11):1551-1561. PMID: 35701666
  • Lee S, Benvie AM, Park HG, Spektor R et al. Remodeling of gene regulatory networks underlying thermogenic stimuli-induced adipose beiging. Commun Biol 2022 Jun 14;5(1):584. PMID: 35701601
  • Fu LY, Zhu T, Zhou X, Yu R et al. ChIP-Hub provides an integrative platform for exploring plant regulome. Nat Commun 2022 Jun 14;13(1):3413. PMID: 35701419
  • Wang WX, Lefebvre JL et al. Morphological pseudotime ordering and fate mapping reveal diversification of cerebellar inhibitory interneurons. Nat Commun 2022 Jun 14;13(1):3433. PMID: 35701402
  • Luan J, Zhou Y, Wang X, Ming A et al. Single-cell RNA sequencing analysis of liver reveals the enhanced entry and release abilities of human adenovirus F41, partially explaining acute hepatitis in children. J Infect 2022 Sep;85(3):334-363. PMID: 35700865
  • van der Veeken J, Campbell C, Pritykin Y, Schizas M et al. Genetic tracing reveals transcription factor Foxp3-dependent and Foxp3-independent functionality of peripherally induced Treg cells. Immunity 2022 Jul 12;55(7):1173-1184.e7. PMID: 35700740
  • Ghosal S, Banerjee S et al. Investigating the potential molecular players and therapeutic drug molecules in carfilzomib resistant multiple myeloma by comprehensive bioinformatics analysis. Leuk Lymphoma 2022 Nov;63(11):2545-2556. PMID: 35700001
  • Laporte E, Hermans F, De Vriendt S, Vennekens A et al. Decoding the activated stem cell phenotype of the neonatally maturing pituitary. Elife 2022 Jun 14;11. PMID: 35699412
  • Peng R, Dong Y, Kang H, Guo Q et al. Identification of Genes with Altered Methylation in Osteoclast Differentiation and Its Roles in Osteoporosis. DNA Cell Biol 2022 Jun;41(6):575-589. PMID: 35699379
  • Lundgren S, Kuitunen S, Pietiläinen KH, Hurme M et al. BMI is positively associated with accelerated epigenetic aging in twin pairs discordant for body mass index. J Intern Med 2022 Oct;292(4):627-640. PMID: 35699258
  • Takada H, Mandell ZF, Yakhnin H, Glazyrina A et al. Expression of Bacillus subtilis ABCF antibiotic resistance factor VmlR is regulated by RNA polymerase pausing, transcription attenuation, translation attenuation and (p)ppGpp. Nucleic Acids Res 2022 Jun 24;50(11):6174-6189. PMID: 35699226
  • Zhang Y, Fang S, Wang J, Chen S et al. Hsa_circ_0008726 regulates the proliferation, migration, and invasion of trophoblast cells in preeclampsia through modulating the miR-1290-LHX6 signaling pathway. J Clin Lab Anal 2022 Jul;36(7):e24540. PMID: 35698314
  • Gore S, Azad RK et al. CancerNet: a unified deep learning network for pan-cancer diagnostics. BMC Bioinformatics 2022 Jun 13;23(1):229. PMID: 35698059
  • Movassagh M, Morton SU, Hehnly C, Smith J et al. mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis. BMC Genomics 2022 Jun 13;23(1):439. PMID: 35698050
  • Cruz-Pulido D, Ouma WZ, Kenney SP et al. Differing coronavirus genres alter shared host signaling pathways upon viral infection. Sci Rep 2022 Jun 13;12(1):9744. PMID: 35697915
  • Kim HS, Na HW, Jang Y, Kim SJ et al. Integrative analysis to explore the biological association between environmental skin diseases and ambient particulate matter. Sci Rep 2022 Jun 13;12(1):9750. PMID: 35697899
  • Cao S, Wang JR, Ji S, Yang P et al. Estimation of tumor cell total mRNA expression in 15 cancer types predicts disease progression. Nat Biotechnol 2022 Nov;40(11):1624-1633. PMID: 35697807
  • Zijlmans DW, Talon I, Verhelst S, Bendall A et al. Integrated multi-omics reveal polycomb repressive complex 2 restricts human trophoblast induction. Nat Cell Biol 2022 Jun;24(6):858-871. PMID: 35697783
  • Mitra R, Adams CM, Eischen CM et al. Systematic lncRNA mapping to genome-wide co-essential modules uncovers cancer dependency on uncharacterized lncRNAs. Elife 2022 Jun 13;11. PMID: 35695878
  • Wheeler JR, Whitney ON, Vogler TO, Nguyen ED et al. RNA-binding proteins direct myogenic cell fate decisions. Elife 2022 Jun 13;11. PMID: 35695839
  • Cesur MF, Çakır T, Pir P et al. Genome-Wide Analysis of Yeast Metabolic Cycle through Metabolic Network Models Reveals Superiority of Integrated ATAC-seq Data over RNA-seq Data. mSystems 2022 Jun 28;7(3):e0134721. PMID: 35695574
  • Park JC, Barahona-Torres N, Jang SY, Mok KY et al. Multi-Omics-Based Autophagy-Related Untypical Subtypes in Patients with Cerebral Amyloid Pathology. Adv Sci (Weinh) 2022 Aug;9(23):e2201212. PMID: 35694866
  • Li A, Ye B, Lin F, Wang Y et al. A novel immunogenomic signature to predict prognosis and reveal immune infiltration characteristics in pancreatic ductal adenocarcinoma. Precis Clin Med 2022 Jun;5(2):pbac010. PMID: 35694712
  • Wu Y, Chen H, Li L, Zhang L et al. Construction of Novel Gene Signature-Based Predictive Model for the Diagnosis of Acute Myocardial Infarction by Combining Random Forest With Artificial Neural Network. Front Cardiovasc Med 2022;9:876543. PMID: 35694667
  • Yang Y, Li Z, Zhong Q, Zhao L et al. Identification and validation of a novel prognostic signature based on transcription factors in breast cancer by bioinformatics analysis. Gland Surg 2022 May;11(5):892-912. PMID: 35694087
  • Yuan J, Lan H, Huang D, Guo X et al. Multi-Omics Analysis of MCM2 as a Promising Biomarker in Pan-Cancer. Front Cell Dev Biol 2022;10:852135. PMID: 35693940
  • Wang T, Dai L, Shen S, Yang Y et al. Comprehensive Molecular Analyses of a Macrophage-Related Gene Signature With Regard to Prognosis, Immune Features, and Biomarkers for Immunotherapy in Hepatocellular Carcinoma Based on WGCNA and the LASSO Algorithm. Front Immunol 2022;13:843408. PMID: 35693827
  • Park YJ, Kim YH, Lee ES, Kim YC et al. Comparative Analysis of Single-Cell Transcriptome Data Reveals a Novel Role of Keratinocyte-Derived IL-23 in Psoriasis. Front Immunol 2022;13:905239. PMID: 35693818
  • Zhao Z, Yin W, Peng X, Cai Q et al. A Machine-Learning Approach to Developing a Predictive Signature Based on Transcriptome Profiling of Ground-Glass Opacities for Accurate Classification and Exploring the Immune Microenvironment of Early-Stage LUAD. Front Immunol 2022;13:872387. PMID: 35693786
  • Zhang Y, Wang D, Zhao Z, Liu L et al. Nephronectin promotes cardiac repair post myocardial infarction via activating EGFR/JAK2/STAT3 pathway. Int J Med Sci 2022;19(5):878-892. PMID: 35693734
  • Chen Y, Wang K, Yang J, Zhang A et al. Mechanism of ferroptosis in hypertensive nephropathy. Transl Androl Urol 2022 May;11(5):617-626. PMID: 35693711
  • Mu L, Hu S, Li G, Wu P et al. Characterization of the Prognostic Values of CXCL Family in Epstein-Barr Virus Associated Gastric Cancer. Oxid Med Cell Longev 2022;2022:2218140. PMID: 35693706
  • Gao L, Chen G, Liang ZQ, Li JD et al. Expression Profile and Molecular Basis of Cyclin-Dependent Kinases Regulatory Subunit 2 in Endometrial Carcinoma Detected by Diversified Methods. Pathol Oncol Res 2022;28:1610307. PMID: 35693634
  • Xing B, Shi L, Bao Z, Liang Y et al. Molecular clustering based on gene set expression and its relationship with prognosis in patients with lung adenocarcinoma. J Thorac Dis 2022 May;14(5):1638-1650. PMID: 35693605
  • Yi X, Wan Y, Cao W, Peng K et al. Identification of Four Novel Prognostic Biomarkers and Construction of Two Nomograms in Adrenocortical Carcinoma: A Multi-Omics Data Study via Bioinformatics and Machine Learning Methods. Front Mol Biosci 2022;9:878073. PMID: 35693556
  • Chen Y, Ma L, Ge Z, Pan Y et al. Key Genes Associated With Non-Alcoholic Fatty Liver Disease and Polycystic Ovary Syndrome. Front Mol Biosci 2022;9:888194. PMID: 35693550
  • Gu H, Deng W, Zhang Y, Chang Y et al. NLRP3 activation in tumor-associated macrophages enhances lung metastasis of pancreatic ductal adenocarcinoma. Transl Lung Cancer Res 2022 May;11(5):858-868. PMID: 35693281
  • Zhu X, Tang L, Mao J, Hameed Y et al. Decoding the Mechanism behind the Pathogenesis of the Focal Segmental Glomerulosclerosis. Comput Math Methods Med 2022;2022:1941038. PMID: 35693262
  • Wang H, Yang C, Jiang Y, Hu H et al. A novel ferroptosis-related gene signature for clinically predicting recurrence after hepatectomy of hepatocellular carcinoma patients. Am J Cancer Res 2022;12(5):1995-2011. PMID: 35693077
  • Takahashi H, Oshi M, Yan L, Endo I et al. Gastric cancer with enhanced apical junction pathway has increased metastatic potential and worse clinical outcomes. Am J Cancer Res 2022;12(5):2146-2159. PMID: 35693068
  • Zhu X, Yin T, Zhang T, Zhu Q et al. Identification of Immune-Related Genes in Patients with Acute Myocardial Infarction Using Machine Learning Methods. J Inflamm Res 2022;15:3305-3321. PMID: 35692951
  • Wang QS, Shi QQ, Meng Y, Chen MP et al. Identification of Immune-Related Genes for Risk Stratification in Multiple Myeloma Based on Whole Bone Marrow Gene Expression Profiling. Front Genet 2022;13:897886. PMID: 35692836
  • Qi P, Huang M, Li T et al. Screening the Potential Biomarkers of COVID-19-Related Thrombosis Through Bioinformatics Analysis. Front Genet 2022;13:889348. PMID: 35692833
  • Liu L, Liu B, Li K, Wang C et al. Identification of Biomarkers for Predicting Ovarian Reserve of Primordial Follicle via Transcriptomic Analysis. Front Genet 2022;13:879974. PMID: 35692832
  • Huang Y, Liu H, Liu X, Li N et al. The Chemokines Initiating and Maintaining Immune Hot Phenotype Are Prognostic in ICB of HNSCC. Front Genet 2022;13:820065. PMID: 35692828
  • Zhao R, Ding D, Ding Y, Han R et al. Predicting Differences in Treatment Response and Survival Time of Lung Adenocarcinoma Patients Based on a Prognostic Risk Model of Glycolysis-Related Genes. Front Genet 2022;13:828543. PMID: 35692818
  • Liu D, Xu Y, Fang Y, Hu K et al. Development of a Novel Immune-Related Gene Signature to Predict Prognosis and Immunotherapeutic Efficiency in Gastric Cancer. Front Genet 2022;13:885553. PMID: 35692814
  • Li Y, Tian W, Zhang H, Zhang Z et al. MSLN Correlates With Immune Infiltration and Chemoresistance as a Prognostic Biomarker in Ovarian Cancer. Front Oncol 2022;12:830570. PMID: 35692779
  • Giannos P, Prokopidis K et al. Gene Expression Profiles of the Aging Rat Hippocampus Imply Altered Immunoglobulin Dynamics. Front Neurosci 2022;16:915907. PMID: 35692421
  • Meng Z, Chen Y, Wu W, Yan B et al. Exploring the Immune Infiltration Landscape and M2 Macrophage-Related Biomarkers of Proliferative Diabetic Retinopathy. Front Endocrinol (Lausanne) 2022;13:841813. PMID: 35692390
  • Wang T, Cheng MY, Shan MY, Tang CY et al. Construction of a Competitive Endogenous RNA Network Related to Exosomes in Diabetic Retinopathy. Comb Chem High Throughput Screen 2023;26(3):576-588. PMID: 35692142
  • Kajikawa T, Mastellos DC, Hasturk H, Kotsakis GA et al. C3-targeted host-modulation approaches to oral inflammatory conditions. Semin Immunol 2022 Jan;59:101608. PMID: 35691883
  • Wu H, Jia B, Zhao X, Zhang H et al. Pathophysiology and system biology of rat c-BSA induced immune complex glomerulonephritis and pathway comparison with human gene sequencing data. Int Immunopharmacol 2022 Aug;109:108891. PMID: 35691274
  • Khalaji A, Haddad S, Yazdani Y, Moslemi M et al. A bioinformatics-based study on the Cisplatin-resistant lung cancer cells; what are the orchestrators of this phenom? Gene 2022 Aug 5;834:146668. PMID: 35690284
  • Roux AE, Zhang C, Paw J, Zavala-Solorio J et al. Diverse partial reprogramming strategies restore youthful gene expression and transiently suppress cell identity. Cell Syst 2022 Jul 20;13(7):574-587.e11. PMID: 35690067
  • Csizmarik A, Keresztes D, Nagy N, Bracht T et al. Proteome profiling of enzalutamide-resistant cell lines and serum analysis identified ALCAM as marker of resistance in castration-resistant prostate cancer. Int J Cancer 2022 Oct 15;151(8):1405-1419. PMID: 35689436
  • Ma W, Zhu M, Wang B, Gong Z et al. Vandetanib drives growth arrest and promotes sensitivity to imatinib in chronic myeloid leukemia by targeting ephrin type-B receptor 4. Mol Oncol 2022 Jul;16(14):2747-2765. PMID: 35689424
  • Lall S, Ray S, Bandyopadhyay S et al. LSH-GAN enables in-silico generation of cells for small sample high dimensional scRNA-seq data. Commun Biol 2022 Jun 10;5(1):577. PMID: 35688990
  • Morimoto Y, Fushimi A, Yamashita N, Hagiwara M et al. Addiction of Merkel cell carcinoma to MUC1-C identifies a potential new target for treatment. Oncogene 2022 Jul;41(27):3511-3523. PMID: 35688945
  • Lenárt S, Lenárt P, Knopfová L, Kotasová H et al. TACSTD2 upregulation is an early reaction to lung infection. Sci Rep 2022 Jun 10;12(1):9583. PMID: 35688908
  • Font-Clos F, Zapperi S, La Porta CAM et al. Classification of triple negative breast cancer by epithelial mesenchymal transition and the tumor immune microenvironment. Sci Rep 2022 Jun 10;12(1):9651. PMID: 35688895
  • Wu W, Zhang J, Cao X, Cai Z et al. Exploring the cellular landscape of circular RNAs using full-length single-cell RNA sequencing. Nat Commun 2022 Jun 10;13(1):3242. PMID: 35688820
  • Zhang Y, Guo L, Dai Q, Shang B et al. A signature for pan-cancer prognosis based on neutrophil extracellular traps. J Immunother Cancer 2022 Jun;10(6). PMID: 35688556
  • Hsieh CY, Tu CC, Hung JH et al. Estimating intraclonal heterogeneity and subpopulation changes from bulk expression profiles in CMap. Life Sci Alliance 2022 Oct;5(10). PMID: 35688486
  • Shin J, Toyoda S, Nishitani S, Onodera T et al. SARS-CoV-2 infection impairs the insulin/IGF signaling pathway in the lung, liver, adipose tissue, and pancreatic cells via IRF1. Metabolism 2022 Aug;133:155236. PMID: 35688210
  • Verhoeven BM, Mei S, Olsen TK, Gustafsson K et al. The immune cell atlas of human neuroblastoma. Cell Rep Med 2022 Jun 21;3(6):100657. PMID: 35688160
  • Iqbal N, Kumar P et al. Integrated COVID-19 Predictor: Differential expression analysis to reveal potential biomarkers and prediction of coronavirus using RNA-Seq profile data. Comput Biol Med 2022 Aug;147:105684. PMID: 35687925
  • Hillje R, Luzi L, Amatori S, Persico G et al. Time makes histone H3 modifications drift in mouse liver. Aging (Albany NY) 2022 Jun 10;14(12):4959-4975. PMID: 35687897
  • Yang H, Ting X, Geng YH, Xie Y et al. The risk variant rs11836367 contributes to breast cancer onset and metastasis by attenuating Wnt signaling via regulating NTN4 expression. Sci Adv 2022 Jun 10;8(23):eabn3509. PMID: 35687692
  • Liu A, Han N, Munoz-Muriedas J, Bender A et al. Deriving time-concordant event cascades from gene expression data: A case study for Drug-Induced Liver Injury (DILI). PLoS Comput Biol 2022 Jun;18(6):e1010148. PMID: 35687583
  • Himanen SV, Puustinen MC, Da Silva AJ, Vihervaara A et al. HSFs drive transcription of distinct genes and enhancers during oxidative stress and heat shock. Nucleic Acids Res 2022 Jun 24;50(11):6102-6115. PMID: 35687139
  • Chen Y, Wang XK, Wang Y, Zong JW et al. Bioinformatics Analysis Screened and Identified Key Genes as Potential Biomarkers for Progression of Lung Cancer. J Coll Physicians Surg Pak 2022 Jun;32(6):712-721. PMID: 35686401
  • Xu T, Zhang Z, Chen H, Cai R et al. Carboxypeptidase N2 as a Novel Diagnostic and Prognostic Biomarker for Lung Adenocarcinoma. Front Oncol 2022;12:843325. PMID: 35686102
  • Zhang K, Wang J, Zhu Y, Liu X et al. Identification of Hub Genes Associated With the Development of Stomach Adenocarcinoma by Integrated Bioinformatics Analysis. Front Oncol 2022;12:844990. PMID: 35686089
  • Wang H, Yu L, Cui Y, Huang J et al. G Protein Subunit Gamma 5 Is a Prognostic Biomarker and Correlated with Immune Infiltrates in Hepatocellular Carcinoma. Dis Markers 2022;2022:1313359. PMID: 35686033
  • Yang Y, Yu J, Xiong Y, Xiao J et al. Prognostic Analysis of Differentially Expressed DNA Damage Repair Genes in Bladder Cancer. Pathol Oncol Res 2022;28:1610267. PMID: 35685866
  • Peng D, Feng L, Li H et al. Identification of Novel circRNA-Based ceRNA Network Involved in the Pathogenesis of Gastric Cancer. Int J Genomics 2022;2022:5281846. PMID: 35685832
  • Fu B, Lu L, Huang H et al. Constructing a Prognostic Gene Signature for Lung Adenocarcinoma Based on Weighted Gene Co-Expression Network Analysis and Single-Cell Analysis. Int J Gen Med 2022;15:5441-5454. PMID: 35685695
  • Fan X, Chen H, Xu C, Wang Y et al. S1PR3, as a Core Protein Related to Ischemic Stroke, is Involved in the Regulation of Blood-Brain Barrier Damage. Front Pharmacol 2022;13:834948. PMID: 35685645
  • Lan C, Ni B, Zhao T, Li Z et al. An Integrative Pan-Cancer Analysis Revealing MLN4924 (Pevonedistat) as a Potential Therapeutic Agent Targeting Skp2 in YAP-Driven Cancers. Front Genet 2022;13:866702. PMID: 35685435
  • Ding W, Zhou X, Jiang G, Xu W et al. Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells. J Oncol 2022;2022:3909030. PMID: 35685428
  • Chen Z, Chen R, Ou Y, Lu J et al. Construction of an HLA Classifier for Early Diagnosis, Prognosis, and Recognition of Immunosuppression in Sepsis by Multiple Transcriptome Datasets. Front Physiol 2022;13:870657. PMID: 35685286
  • Jin Z, Wang J, Cao X, Wei C et al. Peach fruit PpNAC1 activates PpFAD3-1 transcription to provide ω-3 fatty acids for the synthesis of short-chain flavor volatiles. Hortic Res 2022;9:uhac085. PMID: 35685221
  • Che Y, Shi Y et al. Screening of differentially expressed genes in children with cerebral palsy and the construction of a network of the effective components of traditional Chinese medicine. Transl Pediatr 2022 May;11(5):757-765. PMID: 35685065
  • Amadio S, Conte F, Esposito G, Fiscon G et al. Repurposing Histaminergic Drugs in Multiple Sclerosis. Int J Mol Sci 2022 Jun 6;23(11). PMID: 35683024
  • Xie W, Li X, Yang C, Li J et al. The Pyroptosis-Related Gene Prognostic Index Associated with Tumor Immune Infiltration for Pancreatic Cancer. Int J Mol Sci 2022 May 31;23(11). PMID: 35682857
  • Ho HY, Chen PJ, Chuang YC, Lo YS et al. Picrasidine I Triggers Heme Oxygenase-1-Induced Apoptosis in Nasopharyngeal Carcinoma Cells via ERK and Akt Signaling Pathways. Int J Mol Sci 2022 May 29;23(11). PMID: 35682782
  • Pålsson SA, Sekar V, Kutter C, Friedländer MR et al. Inhibition of Respiratory Syncytial Virus Infection by Small Non-Coding RNA Fragments. Int J Mol Sci 2022 May 26;23(11). PMID: 35682669
  • Chu LH, Liao CC, Liew PL, Chen CW et al. Epigenomic Analysis Reveals the KCNK9 Potassium Channel as a Potential Therapeutic Target for Adenomyosis. Int J Mol Sci 2022 May 26;23(11). PMID: 35682653
  • Gim JAA Genomic Information Management System for Maintaining Healthy Genomic States and Application of Genomic Big Data in Clinical Research. Int J Mol Sci 2022 May 25;23(11). PMID: 35682641
  • Binder H, Schmidt M, Hopp L, Davitavyan S et al. Integrated Multi-Omics Maps of Lower-Grade Gliomas. Cancers (Basel) 2022 Jun 4;14(11). PMID: 35681780
  • Zhang X, Zhang H, Fan C, Hildesjö C et al. Loss of CHGA Protein as a Potential Biomarker for Colon Cancer Diagnosis: A Study on Biomarker Discovery by Machine Learning and Confirmation by Immunohistochemistry in Colorectal Cancer Tissue Microarrays. Cancers (Basel) 2022 May 27;14(11). PMID: 35681650
  • Malanga D, Laudanna C, Mirante T, Colelli F et al. The AKT1E17K Allele Promotes Breast Cancer in Mice. Cancers (Basel) 2022 May 26;14(11). PMID: 35681625
  • Basseville A, Violet PC, Safari M, Sourbier C et al. A Histone Deacetylase Inhibitor Induces Acetyl-CoA Depletion Leading to Lethal Metabolic Stress in RAS-Pathway Activated Cells. Cancers (Basel) 2022 May 26;14(11). PMID: 35681624
  • Alessandrini I, Percio S, Naghshineh E, Zuco V et al. Telomere as a Therapeutic Target in Dedifferentiated Liposarcoma. Cancers (Basel) 2022 May 25;14(11). PMID: 35681604
  • Yamashita N, Fushimi A, Morimoto Y, Bhattacharya A et al. Targeting MUC1-C Suppresses Chronic Activation of Cytosolic Nucleotide Receptors and STING in Triple-Negative Breast Cancer. Cancers (Basel) 2022 May 24;14(11). PMID: 35681561
  • Khan P, Roux J, Blumer S, Knudsen L et al. Alveolar Basal Cells Differentiate towards Secretory Epithelial- and Aberrant Basaloid-like Cells In Vitro. Cells 2022 Jun 2;11(11). PMID: 35681516
  • Katolikova NV, Vaganova AN, Efimova EV, Gainetdinov RR et al. Expression of Trace Amine-Associated Receptors in the Murine and Human Hippocampus Based on Public Transcriptomic Data. Cells 2022 Jun 1;11(11). PMID: 35681508
  • Cosacak MI, Bhattarai P, De Jager PL, Menon V et al. Single Cell/Nucleus Transcriptomics Comparison in Zebrafish and Humans Reveals Common and Distinct Molecular Responses to Alzheimer's Disease. Cells 2022 May 31;11(11). PMID: 35681503
  • Hickey K, Wood M, Sexton T, Sahin Y et al. Drought Tolerance Strategies and Autophagy in Resilient Wheat Genotypes. Cells 2022 May 27;11(11). PMID: 35681460
  • Hewitt SC, Wu SP, Wang T, Young SL et al. Progesterone Signaling in Endometrial Epithelial Organoids. Cells 2022 May 27;11(11). PMID: 35681455
  • Wang X, Lv Z, Xia H, Guo X et al. Biochemical recurrence related metabolic novel signature associates with immunity and ADT treatment responses in prostate cancer. Cancer Med 2023 Jan;12(1):862-878. PMID: 35681277
  • Wang Y, Fang T, Wang Y, Yin X et al. Impact of AADAC gene expression on prognosis in patients with Borrmann type III advanced gastric cancer. BMC Cancer 2022 Jun 9;22(1):635. PMID: 35681154
  • Lin YC, Wang YC, Lee YC, Lin HH et al. CircVIS: a platform for circRNA visual presentation. BMC Genomics 2022 Jun 9;22(Suppl 5):921. PMID: 35681126
  • Li H, Wang C, Jin Y, Cai Y et al. The integrative analysis of competitive endogenous RNA regulatory networks in osteoporosis. Sci Rep 2022 Jun 9;12(1):9549. PMID: 35680981
  • Zhang Y, Fang Y, Tang Y, Han S et al. SMYD5 catalyzes histone H3 lysine 36 trimethylation at promoters. Nat Commun 2022 Jun 9;13(1):3190. PMID: 35680905
  • Dimitrov D, Türei D, Garrido-Rodriguez M, Burmedi PL et al. Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data. Nat Commun 2022 Jun 9;13(1):3224. PMID: 35680885
  • Wang J, Bando M, Shirahige K, Nakato R et al. Large-scale multi-omics analysis suggests specific roles for intragenic cohesin in transcriptional regulation. Nat Commun 2022 Jun 9;13(1):3218. PMID: 35680859
  • Wang Y, Wang YS, Hu NB, Teng GS et al. [Bioinformatics Analysis of Core Genes and Key Pathways in Myelodysplastic Syndrome]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2022 Jun;30(3):804-812. PMID: 35680809
  • Xia PH, Xu ZJ, Jin Y, Ma JC et al. [Clinical Significance of Low Expression of LncRNA CASC15 in Acute Myeloid Leukemia with NPM1 Mutations]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2022 Jun;30(3):659-670. PMID: 35680788
  • Cooles FAH, Tarn J, Lendrem DW, Naamane N et al. Interferon-α-mediated therapeutic resistance in early rheumatoid arthritis implicates epigenetic reprogramming. Ann Rheum Dis 2022 Jun 9;81(9):1214-23. PMID: 35680389
  • Wei X, Zhang QM, Liu C, Wu S et al. Microrna-1224-5p Is a Potential Prognostic and Therapeutic Biomarker in Glioblastoma: Integrating Bioinformatics and Clinical Analyses. Curr Med Sci 2022 Jun;42(3):584-596. PMID: 35678909
  • Ruan H, Wang Z, Sun Z, Wei J et al. Single-cell RNA sequencing reveals the characteristics of cerebrospinal fluid tumour environment in breast cancer and lung cancer leptomeningeal metastases. Clin Transl Med 2022 Jun;12(6):e885. PMID: 35678121
  • Yu J, Xie X, Zhang Y, Jiang F et al. Construction and Analysis of a Joint Diagnosis Model of Random Forest and Artificial Neural Network for Obesity. Front Med (Lausanne) 2022;9:906001. PMID: 35677823
  • Wu T, Zhang X, Xing L, Pan D et al. Abnormal Expression of N6-Methyladenosine RNA Methylation Regulator IGF2BP3 in Colon Cancer Predicts a Poor Prognosis. Dis Markers 2022;2022:5883101. PMID: 35677634
  • Li L, Chen T, Wang J, Li M et al. Identification of an Autophagy-Related Signature Based on Whole Bone Marrow Sequencing for the Prognosis and Immune Microenvironment Characterization of Multiple Myeloma. J Immunol Res 2022;2022:3922739. PMID: 35677537
  • Liang W, Li X, Yao Y, Meng Q et al. Puerarin: A Potential Therapeutic for Colon Adenocarcinoma (COAD) Patients Suffering From SARS-CoV-2 Infection. Front Pharmacol 2022;13:921517. PMID: 35677450
  • Deng Z, Liu J, He S, Gao W et al. The Pyroptosis-Related Signature Predicts Diagnosis and Indicates Immune Characteristic in Major Depressive Disorder. Front Pharmacol 2022;13:848939. PMID: 35677442
  • Zhang C, Zhang Y, Tan G, Mi W et al. Prognostic Features of the Tumor Immune Microenvironment in Glioma and Their Clinical Applications: Analysis of Multiple Cohorts. Front Immunol 2022;13:853074. PMID: 35677045
  • Yuan B, Jiang C, Chen L, Wen L et al. A Novel DNA Repair Gene Signature for Immune Checkpoint Inhibitor-Based Therapy in Gastric Cancer. Front Cell Dev Biol 2022;10:893546. PMID: 35676932
  • Yang C, Xing H, Tan B, Zhang M et al. Immune Characteristics in Biliary Atresia Based on Immune Genes and Immune Cell Infiltration. Front Pediatr 2022;10:902571. PMID: 35676907
  • Song Y, Qu H et al. Identification and validation of a seven m6A-related lncRNAs signature predicting prognosis of ovarian cancer. BMC Cancer 2022 Jun 8;22(1):633. PMID: 35676619
  • Liu Y, Senatore A, Sorce S, Nuvolone M et al. Brain aging is faithfully modelled in organotypic brain slices and accelerated by prions. Commun Biol 2022 Jun 8;5(1):557. PMID: 35676449
  • MotieGhader H, Tabrizi-Nezhadi P, Deldar Abad Paskeh M, Baradaran B et al. Drug repositioning in non-small cell lung cancer (NSCLC) using gene co-expression and drug-gene interaction networks analysis. Sci Rep 2022 Jun 8;12(1):9417. PMID: 35676421
  • Kumegawa K, Takahashi Y, Saeki S, Yang L et al. GRHL2 motif is associated with intratumor heterogeneity of cis-regulatory elements in luminal breast cancer. NPJ Breast Cancer 2022 Jun 8;8(1):70. PMID: 35676392
  • Theulot B, Lacroix L, Arbona JM, Millot GA et al. Genome-wide mapping of individual replication fork velocities using nanopore sequencing. Nat Commun 2022 Jun 8;13(1):3295. PMID: 35676270
  • Lin S, Zhang A, Yuan L, Wang Y et al. Targeting parvalbumin promotes M2 macrophage polarization and energy expenditure in mice. Nat Commun 2022 Jun 8;13(1):3301. PMID: 35676256
  • Luchtel RA, Zhao Y, Aggarwal RK, Pradhan K et al. ETS1 is a novel transcriptional regulator of adult T-cell leukemia/lymphoma of North American descent. Blood Adv 2022 Oct 25;6(20):5613-5624. PMID: 35675522
  • Hansen J, Sealfon R, Menon R, Eadon MT et al. A reference tissue atlas for the human kidney. Sci Adv 2022 Jun 10;8(23):eabn4965. PMID: 35675394
  • Donnard E, Shu H, Garber M et al. Single cell transcriptomics reveals dysregulated cellular and molecular networks in a fragile X syndrome model. PLoS Genet 2022 Jun;18(6):e1010221. PMID: 35675353
  • Sánchez-Ovando S, Pavlidis S, Kermani NZ, Baines KJ et al. Pathways linked to unresolved inflammation and airway remodelling characterize the transcriptome in two independent severe asthma cohorts. Respirology 2022 Sep;27(9):730-738. PMID: 35673765
  • Lu Z, Hou J, Li X, Zhou J et al. Exosome-Derived miRNAs as Potential Biomarkers for Prostate Bone Metastasis. Int J Gen Med 2022;15:5369-5383. PMID: 35673634
  • Lu Y, Wu CT, Parker SJ, Cheng Z et al. COT: an efficient and accurate method for detecting marker genes among many subtypes. Bioinform Adv 2022;2(1):vbac037. PMID: 35673616
  • Guo MH, Sama P, LaBarre BA, Lokhande H et al. Dissection of multiple sclerosis genetics identifies B and CD4+ T cells as driver cell subsets. Genome Biol 2022 Jun 7;23(1):127. PMID: 35672799
  • Zhu H, Zhao H, Wang J, Zhao S et al. Potential prognosis index for m(6)A-related mRNA in cholangiocarcinoma. BMC Cancer 2022 Jun 7;22(1):620. PMID: 35672673
  • Chaudhary N, Jayaraman A, Reinhardt C, Campbell JD et al. A single-cell lung atlas of complement genes identifies the mesothelium and epithelium as prominent sources of extrahepatic complement proteins. Mucosal Immunol 2022 May;15(5):927-939. PMID: 35672453
  • Li T, Liu Q, Chen Z, Fang K et al. Dynamic nucleosome landscape elicits a noncanonical GATA2 pioneer model. Nat Commun 2022 Jun 7;13(1):3145. PMID: 35672415
  • Ko T, Nomura S, Yamada S, Fujita K et al. Cardiac fibroblasts regulate the development of heart failure via Htra3-TGF-β-IGFBP7 axis. Nat Commun 2022 Jun 7;13(1):3275. PMID: 35672400
  • Oelen R, de Vries DH, Brugge H, Gordon MG et al. Single-cell RNA-sequencing of peripheral blood mononuclear cells reveals widespread, context-specific gene expression regulation upon pathogenic exposure. Nat Commun 2022 Jun 7;13(1):3267. PMID: 35672358
  • Bi Y, Tu Z, Zhou J, Zhu X et al. Cell fate roadmap of human primed-to-naive transition reveals preimplantation cell lineage signatures. Nat Commun 2022 Jun 7;13(1):3147. PMID: 35672317
  • Vicioso-Mantis M, Fueyo R, Navarro C, Cruz-Molina S et al. JMJD3 intrinsically disordered region links the 3D-genome structure to TGFβ-dependent transcription activation. Nat Commun 2022 Jun 7;13(1):3263. PMID: 35672304
  • Sipilä K, Rognoni E, Jokinen J, Tewary M et al. Embigin is a fibronectin receptor that affects sebaceous gland differentiation and metabolism. Dev Cell 2022 Jun 20;57(12):1453-1465.e7. PMID: 35671757
  • Nath A, Cohen AL, Bild AH et al. ENDORSE: a prognostic model for endocrine therapy in estrogen-receptor-positive breast cancers. Mol Syst Biol 2022 Jun;18(6):e10558. PMID: 35671075
  • Liu S, Yuan X, Su H, Liu F et al. ZNF384: A Potential Therapeutic Target for Psoriasis and Alzheimer's Disease Through Inflammation and Metabolism. Front Immunol 2022;13:892368. PMID: 35669784
  • Guo J, Wang S, Jiang Z, Tang L et al. Long Non-Coding RNA RFPL3S Functions as a Biomarker of Prognostic and Immunotherapeutic Prediction in Testicular Germ Cell Tumor. Front Immunol 2022;13:859730. PMID: 35669771
  • Liu A, Zhou L, Zhu H, Li Y et al. Systemic Lupus Erythematosus and Hereditary Coproporphyria: Two Different Entities Diagnosed by WES in the Same Patient. Biomed Res Int 2022;2022:9096999. PMID: 35669728
  • Xia Y, Wang Y, Xiao Y, Shan M et al. Identification of a Diagnostic Signature and Immune Cell Infiltration Characteristics in Keloids. Front Mol Biosci 2022;9:879461. PMID: 35669563
  • Stoyko D, Genzor P, Haase AD et al. Hierarchical length and sequence preferences establish a single major piRNA 3'-end. iScience 2022 Jun 17;25(6):104427. PMID: 35669519
  • Wen X, Lin Z, Wu H, Cao L et al. Zfp281 Inhibits the Pluripotent-to-Totipotent State Transition in Mouse Embryonic Stem Cells. Front Cell Dev Biol 2022;10:879428. PMID: 35669510
  • Liu H, Chen L, Lei X, Ren H et al. Identification of Hub Genes Associated with Nonspecific Orbital Inflammation by Weighted Gene Coexpression Network Analysis. Dis Markers 2022;2022:7588084. PMID: 35669499
  • Li C, Zhu J, Du H, Liang C et al. Identification of Novel Pyroptosis-Related Gene Signatures to Predict Prostate Cancer Recurrence. Front Oncol 2022;12:814912. PMID: 35669428
  • Xiong Y, Li Q, Chen X, Zhu T et al. Identification of the Active Compound of Liu Wei Di Huang Wan for Treatment of Gestational Diabetes Mellitus via Network Pharmacology and Molecular Docking. J Diabetes Res 2022;2022:4808303. PMID: 35669396
  • Qin S, Yi L, Liang Y, Chen Y et al. Biological and Clinicopathological Characteristics of OPN in Cervical Cancers. Front Genet 2022;13:836509. PMID: 35669197
  • Tang XJ, Xiao QH, Wang XL, He Y et al. Single-Cell Transcriptomics-Based Study of Transcriptional Regulatory Features in the Non-Obstructive Azoospermia Testis. Front Genet 2022;13:875762. PMID: 35669193
  • Fang Y, Wu Y, Liu L, Wang H et al. The Four Key Genes Participated in and Maintained Atrial Fibrillation Process via Reprogramming Lipid Metabolism in AF Patients. Front Genet 2022;13:821754. PMID: 35669184
  • Lin KH, Rutter JC, Xie A, Killarney ST et al. P2RY2-AKT activation is a therapeutically actionable consequence of XPO1 inhibition in acute myeloid leukemia. Nat Cancer 2022 Jul;3(7):837-851. PMID: 35668193
  • Thomas GE, Egan G, García-Prat L, Botham A et al. The metabolic enzyme hexokinase 2 localizes to the nucleus in AML and normal haematopoietic stem and progenitor cells to maintain stemness. Nat Cell Biol 2022 Jun;24(6):872-884. PMID: 35668135
  • Damsky W, Wang A, Kim DJ, Young BD et al. Inhibition of type 1 immunity with tofacitinib is associated with marked improvement in longstanding sarcoidosis. Nat Commun 2022 Jun 6;13(1):3140. PMID: 35668129
  • Kang Y, Jung WJ, Brent MR et al. Predicting which genes will respond to transcription factor perturbations. G3 (Bethesda) 2022 Jul 29;12(8). PMID: 35666184
  • Palos K, Nelson Dittrich AC, Yu L, Brock JR et al. Identification and functional annotation of long intergenic non-coding RNAs in Brassicaceae. Plant Cell 2022 Aug 25;34(9):3233-3260. PMID: 35666179
  • Fan Z, Wang Y, Niu R et al. Identification of the three subtypes and the prognostic characteristics of stomach adenocarcinoma: analysis of the hypoxia-related long non-coding RNAs. Funct Integr Genomics 2022 Oct;22(5):919-936. PMID: 35665866
  • Baek SW, Mun JY, Jang IH, Yang GE et al. YAP1 activation is associated with the progression and response to immunotherapy of non-muscle invasive bladder cancer. EBioMedicine 2022 Jul;81:104092. PMID: 35665684
  • Yu S, Wang G, Yao B, Xiao L et al. Arc and Homer1 are involved in comorbid epilepsy and depression: A microarray data analysis. Epilepsy Behav 2022 Jul;132:108738. PMID: 35665606
  • Sahu A, Clemens ZJ, Shinde SN, Sivakumar S et al. Regulation of aged skeletal muscle regeneration by circulating extracellular vesicles. Nat Aging 2021 Dec;1(12):1148-1161. PMID: 35665306
  • Hazra T, Tapryal N, Chakraborty A, Rayavara K et al. The DNA glycosylase NEIL2 plays a vital role in combating SARS-CoV-2 infection. Res Sq 2022 May 27 PMID: 35665009
  • Guo X, Rahman JA, Wessels HH, Méndez-Mancilla A et al. Transcriptome-wide Cas13 guide RNA design for model organisms and viral RNA pathogens. Cell Genom 2021 Oct 13;1(1). PMID: 35664829
  • Parikh R, Wilson B, Marrah L, Su Z et al. tRForest: a novel random forest-based algorithm for tRNA-derived fragment target prediction. NAR Genom Bioinform 2022 Jun;4(2):lqac037. PMID: 35664803
  • Lou X, Gao H, Xu X, Ye Z et al. The Interplay of Four Main Pathways Recomposes Immune Landscape in Primary and Metastatic Gastroenteropancreatic Neuroendocrine Tumors. Front Oncol 2022;12:808448. PMID: 35664743
  • Ebadi A, Momenifar N, Yazdani S, Gholizadeh O et al. Identification of hub genes and molecular pathways in human T-lymphotropic virus type 1 associated diseases using protein-protein interactions networks. Iran J Microbiol 2022 Feb;14(1):125-132. PMID: 35664724
  • Oyelakin A, Nayak KB, Glathar AR, Gluck C et al. EHF is a novel regulator of cellular redox metabolism and predicts patient prognosis in HNSCC. NAR Cancer 2022 Jun;4(2):zcac017. PMID: 35664541
  • Wu Z, Wang Y, Li J, Wang H et al. MCM10 is a Prognostic Biomarker and Correlated With Immune Checkpoints in Ovarian Cancer. Front Genet 2022;13:864578. PMID: 35664337
  • Yu T, Li D, Zeng Z, Xu X et al. INSC Is Down-Regulated in Colon Cancer and Correlated to Immune Infiltration. Front Genet 2022;13:821826. PMID: 35664320
  • Papanikolaou NA, Hytiroglou P, Pantelidou P, Papavassiliou AG et al. Systems-Level Mapping of Cancer Testis Antigen 1b/a to Sarcoma Pathways Identifies Activated Ran Binding-2 E3 SUMO-Protein Ligase and Transducin-Like Enhancer Protein 1. Front Genet 2022;13:834445. PMID: 35664317
  • Pan S, Meng H, Fan T, Hao B et al. Comprehensive Analysis of Programmed Cell Death Signature in the Prognosis, Tumor Microenvironment and Drug Sensitivity in Lung Adenocarcinoma. Front Genet 2022;13:900159. PMID: 35664309
  • Li W, Li X, Xia Y, Wang J et al. Pyroptosis-Related Gene Signature Predicts the Prognosis and Immune Infiltration in Neuroblastoma. Front Genet 2022;13:809587. PMID: 35664308
  • Xie LY, Huang HY, Fang T, Liang JY et al. A Prognostic Survival Model of Pancreatic Adenocarcinoma Based on Metabolism-Related Gene Expression. Front Genet 2022;13:804190. PMID: 35664305
  • Zhang M, Liu Y, Liu Y, Hou S et al. A Potential Indicator ARRDC2 Has Feasibility to Evaluate Prognosis and Immune Microenvironment in Ovarian Cancer. Front Genet 2022;13:815082. PMID: 35664304
  • Tang Q, Hu X, Guo Q, Shi Y et al. Discovery and Validation of a Novel Metastasis-Related lncRNA Prognostic Signature for Colorectal Cancer. Front Genet 2022;13:704988. PMID: 35664303
  • Mao P, Shen Y, Xu X, Zhong J et al. Comprehensive Analysis of the Immune Cell Infiltration Landscape and Immune-Related Methylation in Retinoblastoma. Front Genet 2022;13:864473. PMID: 35664300
  • Li Y, Zang Y, Fan T, Li Z et al. Transcriptomic signatures associated with autoimmune thyroiditis in papillary thyroid carcinoma and cancer immunotherapy-induced thyroid dysfunction. Comput Struct Biotechnol J 2022;20:2391-2401. PMID: 35664236
  • Chen CJ, Kajita H, Takaya K, Aramaki-Hattori N et al. Single-Cell RNA-seq Analysis Reveals Cellular Functional Heterogeneity in Dermis Between Fibrotic and Regenerative Wound Healing Fates. Front Immunol 2022;13:875407. PMID: 35664010
  • Tu J, Jin J, Chen X, Sun L et al. Altered Cellular Immunity and Differentially Expressed Immune-Related Genes in Patients With Systemic Sclerosis-Associated Pulmonary Arterial Hypertension. Front Immunol 2022;13:868983. PMID: 35663995
  • Liang W, Li X, Wang H, Nie K et al. Puerarin: A Potential Therapeutic for SARS-CoV-2 and Hantavirus Co-Infection. Front Immunol 2022;13:892350. PMID: 35663983
  • Ye Z, Wang XK, Lv YH, Wang X et al. The Integrated Analysis Identifies Three Critical Genes as Novel Diagnostic Biomarkers Involved in Immune Infiltration in Atherosclerosis. Front Immunol 2022;13:905921. PMID: 35663954
  • Han H, Chen Y, Yang H, Cheng W et al. Identification and Verification of Diagnostic Biomarkers for Glomerular Injury in Diabetic Nephropathy Based on Machine Learning Algorithms. Front Endocrinol (Lausanne) 2022;13:876960. PMID: 35663304
  • Liu C, Gao J, Yang D, Yu Q et al. Title: Multi-Omics and Immune Landscape of Proliferative LncRNA Signatures: Implications for Risk Stratification and Immunotherapy in Hepatocellular Carcinoma. Front Pharmacol 2022;13:907433. PMID: 35662721
  • Liu H, Zhang X, Zhao Z, Zhu H et al. CNST is Characteristic of Leukemia Stem Cells and is Associated With Poor Prognosis in AML. Front Pharmacol 2022;13:888243. PMID: 35662693
  • Kim SM, Song GY, Shim A, Lee JH et al. Hyaluronan synthase 2, a target of miR-200c, promotes carbon tetrachloride-induced acute and chronic liver inflammation via regulation of CCL3 and CCL4. Exp Mol Med 2022 Jun;54(6):739-752. PMID: 35662287
  • Jiang X, Chen X, Huang X, Wang C et al. DNA methylation-regulated YTHDF2 correlates with cell migration and immune cell infiltration in glioma. Aging (Albany NY) 2022 Jun 2;14(19):7774-7793. PMID: 35661004
  • Li Z, Li X, Jin M, Liu Y et al. Identification of potential biomarkers and their correlation with immune infiltration cells in schizophrenia using combinative bioinformatics strategy. Psychiatry Res 2022 Aug;314:114658. PMID: 35660966
  • Saitoski K, Ryaboshapkina M, Hamza GM, Jarnuczak AF et al. Proprotein convertase PCSK9 affects expression of key surface proteins in human pancreatic beta cells via intracellular and extracellular regulatory circuits. J Biol Chem 2022 Jul;298(7):102096. PMID: 35660019
  • Wang B, Fu J, Lu A, Yang J et al. Suitability assessment of CD24 targeted-therapy in the cancer patients with COVID-19: Preliminary results from pan-cancer. J Infect 2022 Sep;85(3):334-363. PMID: 35659914
  • Wu H, Liu F, Shangguan Y, Yang Y et al. Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney. Cell Biosci 2022 Jun 3;12(1):80. PMID: 35659756
  • Nishiuchi S, Yagi K, Saito H, Zamami Y et al. Investigation of drugs for the prevention of doxorubicin-induced cardiac events using big data analysis. Eur J Pharmacol 2022 Aug 5;928:175083. PMID: 35659512
  • Andreassen SN, Toft-Bertelsen TL, Wardman JH, Villadsen R et al. Transcriptional profiling of transport mechanisms and regulatory pathways in rat choroid plexus. Fluids Barriers CNS 2022 Jun 4;19(1):44. PMID: 35659263
  • Han J, Lee C et al. Antagonistic regulatory effects of a single cis-acting expression quantitative trait locus between transcription and translation of the MRPL43 gene. BMC Genom Data 2022 Jun 4;23(1):42. PMID: 35659240
  • Dai Y, Chen W, Huang J, Xie L et al. Identification of key pathways and genes in nasopharyngeal carcinoma based on WGCNA. Auris Nasus Larynx 2023 Feb;50(1):126-133. PMID: 35659152
  • You R, Heyang Z, Ma Y, Xia P et al. Identification of biomarkers, immune infiltration landscape, and treatment targets of ischemia-reperfusion acute kidney injury at an early stage by bioinformatics methods. Hereditas 2022 Jun 4;159(1):24. PMID: 35658960
  • Feng D, Li D, Shi X, Xiong Q et al. A gene prognostic index from cellular senescence predicting metastasis and radioresistance for prostate cancer. J Transl Med 2022 Jun 3;20(1):252. PMID: 35658892
  • Jin SG, Meng Y, Johnson J, Szabó PE et al. Concordance of hydrogen peroxide-induced 8-oxo-guanine patterns with two cancer mutation signatures of upper GI tract tumors. Sci Adv 2022 Jun 3;8(22):eabn3815. PMID: 35658030
  • Nie C, Qin H, Zhang L et al. Identification and validation of a prognostic signature related to hypoxic tumor microenvironment in cervical cancer. PLoS One 2022;17(6):e0269462. PMID: 35657977
  • Li Z, Gurung M, Rodrigues RR, Padiadpu J et al. Microbiota and adipocyte mitochondrial damage in type 2 diabetes are linked by Mmp12+ macrophages. J Exp Med 2022 Jul 4;219(7). PMID: 35657352
  • Serna Garcia G, Leone M, Bernasconi A, Carman MJ et al. GeMI: interactive interface for transformer-based Genomic Metadata Integration. Database (Oxford) 2022 Jun 3;2022. PMID: 35657113
  • Samad M, Agostinelli F, Sato T, Shimaji K et al. CircadiOmics: circadian omic web portal. Nucleic Acids Res 2022 Jul 5;50(W1):W183-W190. PMID: 35657089
  • Zhao L, Li Y, Yi W, Yan K et al. The clinical and bioinformatics analysis for the role of antihypertension drugs on mortality among patients with hypertension hospitalized with COVID-19. J Med Virol 2022 Oct;94(10):4727-4734. PMID: 35656698
  • Wu J, He J, Zhang J, Ji H et al. Identification of EMT-Related Genes and Prognostic Signature With Significant Implications on Biological Properties and Oncology Treatment of Lower Grade Gliomas. Front Cell Dev Biol 2022;10:887693. PMID: 35656554
  • Feng P, Zhang J, Zhang J, Liu X et al. Deacetylation of YAP1 Promotes the Resistance to Chemo- and Targeted Therapy in FLT3-ITD(+) AML Cells. Front Cell Dev Biol 2022;10:842214. PMID: 35656547
  • Wang L, Lu J, Song Y, Bai J et al. Analysis of DNA Repair-Related Prognostic Function and Mechanism in Gastric Cancer. Front Cell Dev Biol 2022;10:897096. PMID: 35656545
  • Garige M, Ghosh S, Norris A, Li G et al. PD-L1 Mediates IFNγ-Regulation of Glucose but Not of Tryptophan Metabolism in Clear Cell Renal Cell Carcinoma. Front Oncol 2022;12:858379. PMID: 35656514
  • Wang GJ, Huangfu LT, Gao XY, Gan XJ et al. A Novel Classification and Scoring Method Based on Immune-Related Transcription Factor Regulation Patterns in Gastric Cancer. Front Oncol 2022;12:887244. PMID: 35656510
  • Lv X, Wang F, Sun M, Sun C et al. Differential Gene Expression and Immune Cell Infiltration in Carotid Intraplaque Hemorrhage Identified Using Integrated Bioinformatics Analysis. Front Cardiovasc Med 2022;9:818585. PMID: 35656397
  • Cui Z, Fu Y, Yang Z, Gao Z et al. Comprehensive Analysis of a Ferroptosis Pattern and Associated Prognostic Signature in Acute Myeloid Leukemia. Front Pharmacol 2022;13:866325. PMID: 35656299
  • Chunyan-Zou, Yanpeng-He, Changshun-Xie, Fulai-Gao et al. Potential Value of Circular RNA circTBC1D4 in Gastrointestinal Stromal Tumors. J Immunol Res 2022;2022:9019097. PMID: 35655923
  • Yan L, Hu C, Ji Y, Zou L et al. Identification of Significant Secreted or Membrane-Located Proteins in Laryngeal Squamous Cell Carcinoma. J Immunol Res 2022;2022:9089397. PMID: 35655921
  • Qu G, Wang H, Tang C, Yang G et al. Bioinformatics Study Identified EGF as a Crucial Gene in Papillary Renal Cell Cancer. Dis Markers 2022;2022:4761803. PMID: 35655917
  • Mao F, Wang E, Xu J, Lu J et al. Transcriptome Analysis of Multiple Metabolic Tissues in High-Salt Diet-Fed Mice. Front Endocrinol (Lausanne) 2022;13:887843. PMID: 35655797
  • Zhao P, Huang X, Wu A, Yang X et al. Bioinformatics Analysis of the Characteristics and Correlation of m6A Methylation in Breast Cancer Progression. Contrast Media Mol Imaging 2022;2022:4416439. PMID: 35655723
  • Li Y, Zhang Z, Liu D et al. Intracranial Aneurysms Induced by RUNX1 Through Regulation of NFKB1 in Patients With Hypertension-An Integrated Analysis Based on Multiple Datasets and Algorithms. Front Neurol 2022;13:877801. PMID: 35655614
  • Nong W, Huang F, Mao F, Lao D et al. DCAF12 and HSPA1A May Serve as Potential Diagnostic Biomarkers for Myasthenia Gravis. Biomed Res Int 2022;2022:8587273. PMID: 35655486
  • Qing X, Chen Q, Wang K et al. m6A Regulator-Mediated Methylation Modification Patterns and Characteristics in COVID-19 Patients. Front Public Health 2022;10:914193. PMID: 35655464
  • Kurokawa S, Yoneda M, Ogawa Y, Honda Y et al. Two differentially methylated region networks in nonalcoholic fatty liver disease, viral hepatitis, and hepatocellular carcinoma. BMC Gastroenterol 2022 Jun 2;22(1):278. PMID: 35655171
  • Li X, Zhuo S, Zhuang T, Cho YS et al. YAP inhibits ERα and ER(+) breast cancer growth by disrupting a TEAD-ERα signaling axis. Nat Commun 2022 Jun 2;13(1):3075. PMID: 35654829
  • Katzir R, Rudberg N, Yizhak K et al. Estimating tumor mutational burden from RNA-sequencing without a matched-normal sample. Nat Commun 2022 Jun 2;13(1):3092. PMID: 35654823
  • Shi L, Guo R, Chen Z, Jiao R et al. Analysis of immune related gene expression profiles and immune cell components in patients with Barrett esophagus. Sci Rep 2022 Jun 2;12(1):9209. PMID: 35654816
  • Kumar A, Mishra S, Kumar A, Raut AA et al. Essential role of Rnd1 in innate immunity during viral and bacterial infections. Cell Death Dis 2022 Jun 2;13(6):520. PMID: 35654795
  • Kobayashi N, Okae H, Hiura H, Kubota N et al. The microRNA cluster C19MC confers differentiation potential into trophoblast lineages upon human pluripotent stem cells. Nat Commun 2022 Jun 2;13(1):3071. PMID: 35654791
  • Johnson B, Panek P, Yu A, Fischer E et al. Interferon gamma upregulates the cytokine receptors IFNGR1 and TNFRSF1A in HT-29-MTX E12 cells. Cytokine 2022 Aug;156:155892. PMID: 35653895
  • Song H, Liu Y, Tan Y, Zhang Y et al. Recurrent noncoding somatic and germline WT1 variants converge to disrupt MYB binding in acute promyelocytic leukemia. Blood 2022 Sep 8;140(10):1132-1144. PMID: 35653587
  • Jin Z, Zhang X, Dai X, Huang J et al. InterCellDB: A User-Defined Database for Inferring Intercellular Networks. Adv Sci (Weinh) 2022 Aug;9(22):e2200045. PMID: 35652265
  • Zhang T, Song X, Qiao J, Zhu R et al. A Novel Predictive Model for Adrenocortical Carcinoma Based on Hypoxia- and Ferroptosis-Related Gene Expression. Front Med (Lausanne) 2022;9:856606. PMID: 35652069
  • Toyama K, Spin JM, Deng AC, Abe Y et al. Role of MicroRNAs in acceleration of vascular endothelial senescence. Biochem Biophys Rep 2022 Jul;30:101281. PMID: 35651952
  • Liu Z, Liu H, Li D, Ma L et al. Evaluation of Biomarkers and Immune Microenvironment of Osteoarthritis: Evidence From Omics Data and Machine Learning. Front Genet 2022;13:905027. PMID: 35651940
  • Svoboda M, Frost HR, Bosco G et al. Internal oligo(dT) priming introduces systematic bias in bulk and single-cell RNA sequencing count data. NAR Genom Bioinform 2022 Jun;4(2):lqac035. PMID: 35651651
  • Duttke SH, Montilla-Perez P, Chang MW, Li H et al. Glucocorticoid Receptor-Regulated Enhancers Play a Central Role in the Gene Regulatory Networks Underlying Drug Addiction. Front Neurosci 2022;16:858427. PMID: 35651629
  • Huang J, Zhou Q et al. Gene Biomarkers Related to Th17 Cells in Macular Edema of Diabetic Retinopathy: Cutting-Edge Comprehensive Bioinformatics Analysis and In Vivo Validation. Front Immunol 2022;13:858972. PMID: 35651615
  • Neumayr C, Haberle V, Serebreni L, Karner K et al. Differential cofactor dependencies define distinct types of human enhancers. Nature 2022 Jun;606(7913):406-413. PMID: 35650434
  • Pujar M, Vastrad B, Kavatagimath S, Vastrad C et al. Identification of candidate biomarkers and pathways associated with type 1 diabetes mellitus using bioinformatics analysis. Sci Rep 2022 Jun 1;12(1):9157. PMID: 35650387
  • Liu C, Peng Q, Wei L, Li Z et al. Deficiency of Lactoferrin aggravates lipopolysaccharide-induced acute inflammation via recruitment macrophage in mice. Biometals 2023 Jun;36(3):549-562. PMID: 35650365
  • Polkoff KM, Gupta NK, Green AJ, Murphy Y et al. LGR5 is a conserved marker of hair follicle stem cells in multiple species and is present early and throughout follicle morphogenesis. Sci Rep 2022 Jun 1;12(1):9104. PMID: 35650234
  • Lamhamedi-Cherradi SE, Maitituoheti M, Menegaz BA, Krishnan S et al. The androgen receptor is a therapeutic target in desmoplastic small round cell sarcoma. Nat Commun 2022 Jun 1;13(1):3057. PMID: 35650195
  • Lee HJ, Hou Y, Maeng JH, Shah NM et al. Epigenomic analysis reveals prevalent contribution of transposable elements to cis-regulatory elements, tissue-specific expression, and alternative promoters in zebrafish. Genome Res 2022 Jul;32(7):1424-1436. PMID: 35649578
  • Korsunsky I, Wei K, Pohin M, Kim EY et al. Cross-tissue, single-cell stromal atlas identifies shared pathological fibroblast phenotypes in four chronic inflammatory diseases. Med 2022 Jul 8;3(7):481-518.e14. PMID: 35649411
  • Sinha T, Lammerts van Bueren K, Dickel DE, Zlatanova I et al. Differential Etv2 threshold requirement for endothelial and erythropoietic development. Cell Rep 2022 May 31;39(9):110881. PMID: 35649376
  • Zhang L, Zhang J, Nie Q et al. DIRECT-NET: An efficient method to discover cis-regulatory elements and construct regulatory networks from single-cell multiomics data. Sci Adv 2022 Jun 3;8(22):eabl7393. PMID: 35648859
  • Fava VM, Bourgey M, Nawarathna PM, Orlova M et al. A systems biology approach identifies candidate drugs to reduce mortality in severely ill patients with COVID-19. Sci Adv 2022 Jun 3;8(22):eabm2510. PMID: 35648852
  • Yuan J, Wang Z, Wang YP et al. Identification of common key genes associated with Crohn's Disease and IgA nephropathy. Eur Rev Med Pharmacol Sci 2022 May;26(10):3607-3620. PMID: 35647843
  • Ji D, Zhong R, Fan S et al. Prognosis and Therapeutic Efficacy Prediction of Adrenocortical Carcinoma Based on a Necroptosis-Associated Gene Signature. Biomed Res Int 2022;2022:8740408. PMID: 35647181
  • Zhang S, Xu H, Jiang E, Akhatayeva Z et al. Screening of Bovine Tissue-Specific Expressed Genes and Identification of Genetic Variation Within an Adipose Tissue-Specific lncRNA Gene. Front Vet Sci 2022;9:887520. PMID: 35647086
  • Xu L, Li W, Yang T, Hu S et al. Immune-Related RNA-Binding Protein-Based Signature With Predictive and Prognostic Implications in Patients With Lung Adenocarcinoma. Front Mol Biosci 2022;9:807622. PMID: 35647031
  • Yan S, Sui M, Tian H, Fu J et al. Transcriptomic Analysis Revealed an Important Role of Peroxisome-Proliferator-Activated Receptor Alpha Signaling in Src Homology Region 2 Domain-Containing Phosphatase-1 Insufficiency Leading to the Development of Renal Ischemia-Reperfusion Injury. Front Med (Lausanne) 2022;9:847512. PMID: 35646989
  • Lin W, Tang Y, Zhang M, Liang B et al. Integrated Bioinformatic Analysis Reveals TXNRD1 as a Novel Biomarker and Potential Therapeutic Target in Idiopathic Pulmonary Arterial Hypertension. Front Med (Lausanne) 2022;9:894584. PMID: 35646965
  • Han S, Zhao W, Wang C, Wang Y et al. Preliminary Investigation of the Biomarkers of Acute Renal Transplant Rejection Using Integrated Proteomics Studies, Gene Expression Omnibus Datasets, and RNA Sequencing. Front Med (Lausanne) 2022;9:905464. PMID: 35646951
  • Chu L, Yi Q, Yan Y, Peng J et al. A Prognostic Signature Consisting of Pyroptosis-Related Genes and SCAF11 for Predicting Immune Response in Breast Cancer. Front Med (Lausanne) 2022;9:882763. PMID: 35646948
  • Jiang Y, Zeng Z, Xiong S, Jiang M et al. New Prognostic Gene Signature and Immune Escape Mechanisms of Bladder Cancer. Front Cell Dev Biol 2022;10:775417. PMID: 35646934
  • Kawase M, Ichiyanagi K et al. The Expression Dynamics of piRNAs Derived From Male Germline piRNA Clusters and Retrotransposons. Front Cell Dev Biol 2022;10:868746. PMID: 35646920
  • Mukherjee S, Kar A, Paul P, Dey S et al. In Silico Integration of Transcriptome and Interactome Predicts an ETP-ALL-Specific Transcriptional Footprint that Decodes its Developmental Propensity. Front Cell Dev Biol 2022;10:899752. PMID: 35646901
  • Wang S, Zhang J, Ding Y, Zhang H et al. Dynamic Transcriptome Profiling Reveals LncRNA-Centred Regulatory Networks in the Modulation of Pluripotency. Front Cell Dev Biol 2022;10:880674. PMID: 35646895
  • Kang Z, Wang J, Huang W, Liu J et al. Identification of Transcriptional Heterogeneity and Construction of a Prognostic Model for Melanoma Based on Single-Cell and Bulk Transcriptome Analysis. Front Cell Dev Biol 2022;10:874429. PMID: 35646893
  • Zhao F, Li Y, Dong Z, Zhang D et al. Identification of A Risk Signature Based on Lactic Acid Metabolism-Related LncRNAs in Patients With Esophageal Squamous Cell Carcinoma. Front Cell Dev Biol 2022;10:845293. PMID: 35646892
  • Zhang W, Chen K, Tian W, Zhang Q et al. A Novel and Robust Prognostic Model for Hepatocellular Carcinoma Based on Enhancer RNAs-Regulated Genes. Front Oncol 2022;12:849242. PMID: 35646665
  • Lan T, Ge Q, Zheng K, Huang L et al. FAT1 Upregulates in Oral Squamous Cell Carcinoma and Promotes Cell Proliferation via Cell Cycle and DNA Repair. Front Oncol 2022;12:870055. PMID: 35646625
  • Yang Y, Liu HL, Liu YJ et al. A Novel Five-Gene Signature Related to Clinical Outcome and Immune Microenvironment in Breast Cancer. Front Genet 2022;13:912125. PMID: 35646102
  • Cao L, Zheng K, Liu Y, Song P et al. Identification of Novel Imatinib-Resistant Genes in Gastrointestinal Stromal Tumors. Front Genet 2022;13:878145. PMID: 35646090
  • Zhang J, Wang D, Chen X, Ji L et al. Upregulation of Ferroptosis-Related Fanconi Anemia Group D2 is a Poor Prognostic Factor and an Indicator of Tumor Immune Cell Infiltration in Lung Adenocarcinoma. Front Genet 2022;13:825685. PMID: 35646059
  • Wang H, Zhang Z, Ma Y, Jia Y et al. Construction of Severe Eosinophilic Asthma Related Competing Endogenous RNA Network by Weighted Gene Co-Expression Network Analysis. Front Pharmacol 2022;13:852536. PMID: 35645813
  • Huang BZ, Jing-Jing Y, Dong XM, Zhuan Zhong et al. Analysis of the lncRNA-Associated Competing Endogenous RNA (ceRNA) Network for Tendinopathy. Genet Res (Camb) 2022;2022:9792913. PMID: 35645614
  • Ma M, Zeng G, Li J, Liang J et al. Expressional and prognostic value of HPCAL1 in cholangiocarcinoma via integrated bioinformatics analyses and experiments. Cancer Med 2023 Jan;12(1):824-836. PMID: 35645147
  • Hoskinson C, Zheng K, Gabel J, Kump A et al. Composition and Functional Potential of the Human Mammary Microbiota Prior to and Following Breast Tumor Diagnosis. mSystems 2022 Jun 28;7(3):e0148921. PMID: 35642922
  • Wiedemeyer WR, Gavrilyuk J, Schammel A, Zhao X et al. ABBV-011, A Novel, Calicheamicin-Based Antibody-Drug Conjugate, Targets SEZ6 to Eradicate Small Cell Lung Cancer Tumors. Mol Cancer Ther 2022 Jun 1;21(6):986-998. PMID: 35642431
  • Xu ZJ, Jin Y, Zhang XL, Xia PH et al. Pan-cancer analysis identifies CD300 molecules as potential immune regulators and promising therapeutic targets in acute myeloid leukemia. Cancer Med 2023 Jan;12(1):789-807. PMID: 35642341
  • Zhang Z, Zhao W, Li Y, Li Y et al. YOD1 serves as a potential prognostic biomarker for pancreatic cancer. Cancer Cell Int 2022 May 31;22(1):203. PMID: 35642058
  • Liu X, Quan J, Shen Z, Zhang Z et al. Metallothionein 2A (MT2A) controls cell proliferation and liver metastasis by controlling the MST1/LATS2/YAP1 signaling pathway in colorectal cancer. Cancer Cell Int 2022 May 31;22(1):205. PMID: 35642057
  • Kovács SA, Győrffy B et al. Transcriptomic datasets of cancer patients treated with immune-checkpoint inhibitors: a systematic review. J Transl Med 2022 May 31;20(1):249. PMID: 35641998
  • Liu XX, Chen XH, Zheng ZW, Jiang Q et al. BOD1 regulates the cerebellar IV/V lobe-fastigial nucleus circuit associated with motor coordination. Signal Transduct Target Ther 2022 Jun 1;7(1):170. PMID: 35641478
  • Louwen F, Kreis NN, Ritter A, Friemel A et al. BCL6, a key oncogene, in the placenta, pre-eclampsia and endometriosis. Hum Reprod Update 2022 Nov 2;28(6):890-909. PMID: 35640966
  • Rong Y, Zhu YZ, Yu JL, Wu YW et al. USP16-mediated histone H2A lysine-119 deubiquitination during oocyte maturation is a prerequisite for zygotic genome activation. Nucleic Acids Res 2022 Jun 10;50(10):5599-5616. PMID: 35640597
  • Liu X, Xu K, Tao X, Yin R et al. ExpressVis: a biologist-oriented interactive web server for exploring multi-omics data. Nucleic Acids Res 2022 Jul 5;50(W1):W312-W321. PMID: 35639516
  • International Nucleome Consortium3DGenBench: a web-server to benchmark computational models for 3D Genomics. Nucleic Acids Res 2022 Jul 5;50(W1):W4-W12. PMID: 35639501
  • Pandey K, Zafar H et al. Inference of cell state transitions and cell fate plasticity from single-cell with MARGARET. Nucleic Acids Res 2022 Aug 26;50(15):e86. PMID: 35639499
  • Pang QY, Tan TZ, Sundararajan V, Chiu YC et al. 3D genome organization in the epithelial-mesenchymal transition spectrum. Genome Biol 2022 May 30;23(1):121. PMID: 35637517
  • Shen MH, Huang CJ, Ho TF, Liu CY et al. Colorectal cancer concurrent gene signature based on coherent patterns between genomic and transcriptional alterations. BMC Cancer 2022 May 30;22(1):590. PMID: 35637462
  • Li X, Guo S, Cui Y, Zhang Z et al. NT-seq: a chemical-based sequencing method for genomic methylome profiling. Genome Biol 2022 May 30;23(1):122. PMID: 35637459
  • Zhen Y, Cullen CL, Ricci R, Summers BS et al. Protocadherin 15 suppresses oligodendrocyte progenitor cell proliferation and promotes motility through distinct signalling pathways. Commun Biol 2022 May 30;5(1):511. PMID: 35637313
  • Xiong Y, Li Y, Cui X, Zhang L et al. ADAP restraint of STAT1 signaling regulates macrophage phagocytosis in immune thrombocytopenia. Cell Mol Immunol 2022 Aug;19(8):898-912. PMID: 35637282
  • Kowalski TW, Lord VO, Sgarioni E, Gomes JDA et al. Transcriptome meta-analysis of valproic acid exposure in human embryonic stem cells. Eur Neuropsychopharmacol 2022 Jul;60:76-88. PMID: 35635998
  • Chen Q, Liu Z, Tan Y, Pan S et al. Characterization of RNA modifications in gastric cancer to identify prognosis-relevant gene signatures. Cancer Med 2023 Jan;12(1):879-897. PMID: 35635121
  • Mosharaf MP, Reza MS, Gov E, Mahumud RA et al. Disclosing Potential Key Genes, Therapeutic Targets and Agents for Non-Small Cell Lung Cancer: Evidence from Integrative Bioinformatics Analysis. Vaccines (Basel) 2022 May 12;10(5). PMID: 35632527
  • Johansen AZ, Carretta M, Thorseth ML, Khan S et al. Chitooligosaccharides Improve the Efficacy of Checkpoint Inhibitors in a Mouse Model of Lung Cancer. Pharmaceutics 2022 May 12;14(5). PMID: 35631632
  • Bos MK, Deger T, Sleijfer S, Martens JWM et al. ESR1 Methylation Measured in Cell-Free DNA to Evaluate Endocrine Resistance in Metastatic Breast Cancer Patients. Int J Mol Sci 2022 May 18;23(10). PMID: 35628441
  • Moreno C, Bybee E, Tellez Freitas CM, Pickett BE et al. Meta-Analysis of Two Human RNA-seq Datasets to Determine Periodontitis Diagnostic Biomarkers and Drug Target Candidates. Int J Mol Sci 2022 May 17;23(10). PMID: 35628390
  • Ma Y, Zou H et al. Identification of the circRNA-miRNA-mRNA Prognostic Regulatory Network in Lung Adenocarcinoma. Genes (Basel) 2022 May 16;13(5). PMID: 35627270
  • Bagherabadi A, Hooshmand A, Shekari N, Singh P et al. Correlation of NTRK1 Downregulation with Low Levels of Tumor-Infiltrating Immune Cells and Poor Prognosis of Prostate Cancer Revealed by Gene Network Analysis. Genes (Basel) 2022 May 8;13(5). PMID: 35627227
  • Liu C, Zhang Y, Jian X, Tan X et al. ProGeo-Neo v2.0: A One-Stop Software for Neoantigen Prediction and Filtering Based on the Proteogenomics Strategy. Genes (Basel) 2022 Apr 28;13(5). PMID: 35627168
  • Mendoza-Ramírez P, López-Olaiz MA, Morales-Fernández AL, Flores-Echiveste MI et al. Class I MHC Polymorphisms Associated with Type 2 Diabetes in the Mexican Population. Genes (Basel) 2022 Apr 27;13(5). PMID: 35627158
  • Okamura T, Hamaguchi M, Tominaga H, Kitagawa N et al. Characterization of Peripheral Blood TCR in Patients with Type 1 Diabetes Mellitus by BD Rhapsody(TM) VDJ CDR3 Assay. Cells 2022 May 12;11(10). PMID: 35626661
  • Li S, Zhang S, Huang M, Hu H et al. U1RNP/lncRNA/Transcription Cycle Axis Promotes Tumorigenesis of Hepatocellular Carcinoma. Diagnostics (Basel) 2022 May 3;12(5). PMID: 35626291
  • Belotti Y, Tolomeo S, Yu R, Lim WT et al. Prognostic Neurotransmitter Receptors Genes Are Associated with Immune Response, Inflammation and Cancer Hallmarks in Brain Tumors. Cancers (Basel) 2022 May 21;14(10). PMID: 35626148
  • Stroggilos R, Frantzi M, Zoidakis J, Mokou M et al. Gene Expression Monotonicity across Bladder Cancer Stages Informs on the Molecular Pathogenesis and Identifies a Prognostic Eight-Gene Signature. Cancers (Basel) 2022 May 21;14(10). PMID: 35626146
  • Jee B, Seo E, Park K, Kim YR et al. Molecular Subtypes Based on Genomic and Transcriptomic Features Correlate with the Responsiveness to Immune Checkpoint Inhibitors in Metastatic Clear Cell Renal Cell Carcinoma. Cancers (Basel) 2022 May 10;14(10). PMID: 35625960
  • De Kleijn KMA, Straasheijm KR, Zuure WA, Martens GJM et al. Molecular Signature of Neuroinflammation Induced in Cytokine-Stimulated Human Cortical Spheroids. Biomedicines 2022 Apr 29;10(5). PMID: 35625761
  • Guiro J, Fagbemi M, Tellier M, Zaborowska J et al. CAPTURE of the Human U2 snRNA Genes Expands the Repertoire of Associated Factors. Biomolecules 2022 May 14;12(5). PMID: 35625631
  • Sittiju P, Chaiyawat P, Pruksakorn D, Klangjorhor J et al. Osteosarcoma-Specific Genes as a Diagnostic Tool and Clinical Predictor of Tumor Progression. Biology (Basel) 2022 May 1;11(5). PMID: 35625426
  • Galindo CL, Nguyen VT, Hill B, Easterday E et al. Neuregulin (NRG-1β) Is Pro-Myogenic and Anti-Cachectic in Respiratory Muscles of Post-Myocardial Infarcted Swine. Biology (Basel) 2022 Apr 29;11(5). PMID: 35625411
  • Yang X, Zhang Y, Li S, Ye L et al. SspH, a Novel HATPase Family Regulator, Controls Antibiotic Biosynthesis in Streptomyces. Antibiotics (Basel) 2022 Apr 19;11(5). PMID: 35625182
  • Mortazavi A, Rashidi A, Ghaderi-Zefrehei M, Moradi P et al. Constraint-Based, Score-Based and Hybrid Algorithms to Construct Bayesian Gene Networks in the Bovine Transcriptome. Animals (Basel) 2022 May 19;12(10). PMID: 35625151
  • Ni Z, Prasad A, Chen S, Halberg RB et al. SpotClean adjusts for spot swapping in spatial transcriptomics data. Nat Commun 2022 May 27;13(1):2971. PMID: 35624112
  • Kersten K, Hu KH, Combes AJ, Samad B et al. Spatiotemporal co-dependency between macrophages and exhausted CD8(+) T cells in cancer. Cancer Cell 2022 Jun 13;40(6):624-638.e9. PMID: 35623342
  • Li J, Zhang X, Yao L, Hu K et al. The bioinformatics and experimental analysis of the novel roles of virus infection-associated gene CDC20 for prognosis and immune infiltration in hepatocellular carcinoma. Aging (Albany NY) 2022 May 27;14(10):4513-4529. PMID: 35622386
  • Salazar-Gonzalez H, Gutierrez-Mercado YK, Munguia-Galaviz FJ, Echavarria R et al. Signaling Pathways Involved in Myocardial Ischemia-Reperfusion Injury and Cardioprotection: A Systematic Review of Transcriptomic Studies in Sus scrofa. J Cardiovasc Dev Dis 2022 Apr 26;9(5). PMID: 35621843
  • Jiang S, Feng W, Chang C, Li G et al. Modeling Human Heart Development and Congenital Defects Using Organoids: How Close Are We? J Cardiovasc Dev Dis 2022 Apr 21;9(5). PMID: 35621836
  • Waring AL, Hill J, Allen BM, Bretz NM et al. Meta-Analysis of Immune Induced Gene Expression Changes in Diverse Drosophila melanogaster Innate Immune Responses. Insects 2022 May 23;13(5). PMID: 35621824
  • Xiong L, Tolen EA, Choi J, Velychko S et al. Oct4 differentially regulates chromatin opening and enhancer transcription in pluripotent stem cells. Elife 2022 May 27;11. PMID: 35621159
  • Feng Z, Li B, Chen Q, Zhang H et al. Identification and Validation of a GPX4-Related Immune Prognostic Signature for Lung Adenocarcinoma. J Oncol 2022;2022:9054983. PMID: 35620733
  • Wu Y, Jiang D, Zhang H, Yin F et al. N1-Methyladenosine (m1A) Regulation Associated With the Pathogenesis of Abdominal Aortic Aneurysm Through YTHDF3 Modulating Macrophage Polarization. Front Cardiovasc Med 2022;9:883155. PMID: 35620523
  • Li Z, Mei Z, Ding S, Chen L et al. Identifying Methylation Signatures and Rules for COVID-19 With Machine Learning Methods. Front Mol Biosci 2022;9:908080. PMID: 35620480
  • Han B, Fang T, Wang Y, Zhang Y et al. TGFβ2 is a Prognostic Biomarker for Gastric Cancer and is Associated With Methylation and Immunotherapy Responses. Front Genet 2022;13:808041. PMID: 35620459
  • Maheshwari D, Saini K, Singh P, Singla M et al. Contrasting behavior between the three human monocyte subsets in dengue pathophysiology. iScience 2022 Jun 17;25(6):104384. PMID: 35620424
  • Guan P, Cai W, Wu K, Jiang F et al. Intercellular Communication-Related Molecular Subtypes and a Gene Signature Identified by the Single-Cell RNA Sequencing Combined with a Transcriptomic Analysis. Dis Markers 2022;2022:6837849. PMID: 35620271
  • Lu X, Li L, Suo L, Huang P et al. Single-Cell RNA Sequencing Profiles Identify Important Pathophysiologic Factors in the Progression of Diabetic Nephropathy. Front Cell Dev Biol 2022;10:798316. PMID: 35620059
  • Zhang H, Xu C, Jiang F, Feng J et al. A Three-Genes Signature Predicting Colorectal Cancer Relapse Reveals LEMD1 Promoting CRC Cells Migration by RhoA/ROCK1 Signaling Pathway. Front Oncol 2022;12:823696. PMID: 35619906
  • Chen G, Song H, Yang Z, Du T et al. AQP5 Is a Novel Prognostic Biomarker in Pancreatic Adenocarcinoma. Front Oncol 2022;12:890193. PMID: 35619903
  • van Baardwijk M, Cristoferi I, Ju J, Varol H et al. A Decentralized Kidney Transplant Biopsy Classifier for Transplant Rejection Developed Using Genes of the Banff-Human Organ Transplant Panel. Front Immunol 2022;13:841519. PMID: 35619722
  • Li X, Li S, Wu B, Xu Q et al. Landscape of Immune Cells Heterogeneity in Liver Transplantation by Single-Cell RNA Sequencing Analysis. Front Immunol 2022;13:890019. PMID: 35619708
  • Yang F, Kong J, Zong Y, Li Z et al. Autophagy-Related Genes Are Involved in the Progression and Prognosis of Asthma and Regulate the Immune Microenvironment. Front Immunol 2022;13:897835. PMID: 35619697
  • Feng R, Lu M, Liu L, Xu K et al. Transcriptome-Wide Association Studies and Integration Analysis of mRNA Expression Profiles Identify Candidate Genes and Pathways Associated With Ankylosing Spondylitis. Front Immunol 2022;13:814303. PMID: 35619696
  • Zhang Y, Yang M, Zhang S, Yang Z et al. BHLHE40 promotes osteoclastogenesis and abnormal bone resorption via c-Fos/NFATc1. Cell Biosci 2022 May 26;12(1):70. PMID: 35619122
  • Wang XS, Lee S, Zhang H, Tang G et al. An integral genomic signature approach for tailored cancer therapy using genome-wide sequencing data. Nat Commun 2022 May 26;13(1):2936. PMID: 35618721
  • Smith RJ, Zhang H, Hu SS, Yung T et al. Single-cell chromatin profiling of the primitive gut tube reveals regulatory dynamics underlying lineage fate decisions. Nat Commun 2022 May 26;13(1):2965. PMID: 35618699
  • Gray GK, Li CM, Rosenbluth JM, Selfors LM et al. A human breast atlas integrating single-cell proteomics and transcriptomics. Dev Cell 2022 Jun 6;57(11):1400-1420.e7. PMID: 35617956
  • Alam MS, Sultana A, Reza MS, Amanullah M et al. Integrated bioinformatics and statistical approaches to explore molecular biomarkers for breast cancer diagnosis, prognosis and therapies. PLoS One 2022;17(5):e0268967. PMID: 35617355
  • Tower RJ, Busse E, Jaramillo J, Lacey M et al. Spatial transcriptomics reveals metabolic changes underly age-dependent declines in digit regeneration. Elife 2022 May 26;11. PMID: 35616636
  • Yao J, Dai Y, Liu Z, Hu W et al. miR-342-3p Suppresses glioblastoma development via targeting CDK6. Acta Biochim Pol 2022 May 25;69(2):393-397. PMID: 35616621
  • Chen F, Wang N, He X et al. Identification of Differential Genes of DNA Methylation Associated With Alzheimer's Disease Based on Integrated Bioinformatics and Its Diagnostic Significance. Front Aging Neurosci 2022;14:884367. PMID: 35615586
  • Srivastava P, Bamba C, Pilania RK, Kumari A et al. Exploration of Potential Biomarker Genes and Pathways in Kawasaki Disease: An Integrated in-Silico Approach. Front Genet 2022;13:849834. PMID: 35615376
  • Zhang L, Ke W, Hu P, Li Z et al. N6-Methyladenosine-Related lncRNAs Are Novel Prognostic Markers and Predict the Immune Landscape in Acute Myeloid Leukemia. Front Genet 2022;13:804614. PMID: 35615374
  • Peng Y, Wu Q, Zhou Q, Yang Z et al. Identification of Immune-Related Genes Concurrently Involved in Critical Illnesses Across Different Etiologies: A Data-Driven Analysis. Front Immunol 2022;13:858864. PMID: 35615364
  • Zhang Q, Li J, Weng L et al. Identification and Validation of Aging-Related Genes in Alzheimer's Disease. Front Neurosci 2022;16:905722. PMID: 35615282
  • Xu T, Jiang Y, Yuan S, Zhang L et al. Andrographolide Inhibits ER-Positive Breast Cancer Growth and Enhances Fulvestrant Efficacy via ROS-FOXM1-ER-α Axis. Front Oncol 2022;12:899402. PMID: 35615146
  • Chen Z, Zhang Z, Ding W, Zhang JH et al. Expression and Potential Biomarkers of Regulators for M7G RNA Modification in Gliomas. Front Neurol 2022;13:886246. PMID: 35614925
  • Pan T, Gao Y, Xu G, Zhou P et al. Pan-cancer analyses reveal the genetic and pharmacogenomic landscape of transient receptor potential channels. NPJ Genom Med 2022 May 25;7(1):32. PMID: 35614079
  • Lai S, Higuchi T, Tsuda M, Sugiyama Y et al. NF90-NF45 is essential for β cell compensation under obesity-inducing metabolic stress through suppression of p53 signaling pathway. Sci Rep 2022 May 25;12(1):8837. PMID: 35614067
  • Bedi YS, Wang H, Thomas KN, Basel A et al. Alcohol induced increases in sperm Histone H3 lysine 4 trimethylation correlate with increased placental CTCF occupancy and altered developmental programming. Sci Rep 2022 May 25;12(1):8839. PMID: 35614060
  • Nam HJ, Kim YJ, Kang JH, Lee SJ et al. GPR110 promotes progression and metastasis of triple-negative breast cancer. Cell Death Discov 2022 May 26;8(1):271. PMID: 35614051
  • Kameneva P, Melnikova VI, Kastriti ME, Kurtova A et al. Serotonin limits generation of chromaffin cells during adrenal organ development. Nat Commun 2022 May 25;13(1):2901. PMID: 35614045
  • Zhang XB, Xu SQ, Hui YG, Zhou HY et al. Lactotransferrin promotes intervertebral disc degeneration by regulating Fas and inhibiting human nucleus pulposus cell apoptosis. Aging (Albany NY) 2022 May 25;14(10):4572-4585. PMID: 35613904
  • Marchi E, Ramamurthy N, Ansari MA, Harrer CE et al. Defining the key intrahepatic gene networks in HCV infection driven by sex. Gut 2023 May;72(5):984-994. PMID: 35613843
  • Su S, Katopodi XL, Pita-Juarez YH, Maverakis E et al. Serine and arginine rich splicing factor 1 deficiency alters pathways involved in IL-17A expression and is implicated in human psoriasis. Clin Immunol 2022 Jul;240:109041. PMID: 35613697
  • Fushimi A, Morimoto Y, Ishikawa S, Yamashita N et al. Dependence on the MUC1-C Oncoprotein in Classic, Variant, and Non-neuroendocrine Small Cell Lung Cancer. Mol Cancer Res 2022 Sep 2;20(9):1379-1390. PMID: 35612556
  • Chen F, Gong E, Ma J, Lin J et al. Prognostic score model based on six m6A-related autophagy genes for predicting survival in esophageal squamous cell carcinoma. J Clin Lab Anal 2022 Jul;36(7):e24507. PMID: 35611939
  • Nakayama J, Matsunaga H, Arikawa K, Yoda T et al. Identification of two cancer stem cell-like populations in triple-negative breast cancer xenografts. Dis Model Mech 2022 Jun 1;15(6). PMID: 35611554
  • Cai Z, Tang B, Chen L, Lei W et al. Mast cell marker gene signature in head and neck squamous cell carcinoma. BMC Cancer 2022 May 24;22(1):577. PMID: 35610596
  • Jiang YH, Long J, Zhao ZB, Li L et al. Gene co-expression network based on part mutual information for gene-to-gene relationship and gene-cancer correlation analysis. BMC Bioinformatics 2022 May 24;23(1):194. PMID: 35610556
  • Song S, Shu P et al. Expression of ferroptosis-related gene correlates with immune microenvironment and predicts prognosis in gastric cancer. Sci Rep 2022 May 24;12(1):8785. PMID: 35610340
  • Watzky M, Huard S, Juricek L, Dairou J et al. Hexokinase 2 is a transcriptional target and a positive modulator of AHR signalling. Nucleic Acids Res 2022 Jun 10;50(10):5545-5564. PMID: 35609998
  • Hunt GP, Grassi L, Henkin R, Smeraldi F et al. GEOexplorer: a webserver for gene expression analysis and visualisation. Nucleic Acids Res 2022 Jul 5;50(W1):W367-W374. PMID: 35609980
  • Draycott AS, Schaening-Burgos C, Rojas-Duran MF, Wilson L et al. Transcriptome-wide mapping reveals a diverse dihydrouridine landscape including mRNA. PLoS Biol 2022 May;20(5):e3001622. PMID: 35609439
  • Huang H, Chang YH, Xu J, Ni HY et al. Aucubin as a natural potential anti-acute hepatitis candidate: Inhibitory potency and hepatoprotective mechanism. Phytomedicine 2022 Jul 20;102:154170. PMID: 35609387
  • Chen S, Li H, Zhan H, Zeng X et al. Identification of hub biomarkers and immune cell infiltration in polymyositis and dermatomyositis. Aging (Albany NY) 2022 May 24;14(10):4530-4555. PMID: 35609018
  • Kotas ME, Moore CM, Gurrola JG 2nd, Pletcher SD et al. IL-13-programmed airway tuft cells produce PGE2, which promotes CFTR-dependent mucociliary function. JCI Insight 2022 Jul 8;7(13). PMID: 35608904
  • Liu R, Cao Z, Pan M, Wu M et al. A novel prognostic model for papillary thyroid cancer based on epithelial-mesenchymal transition-related genes. Cancer Med 2022 Dec;11(23):4703-4720. PMID: 35608185
  • Bao S, He G et al. Identification of Key Genes and Key Pathways in Breast Cancer Based on Machine Learning. Med Sci Monit 2022 May 24;28:e935515. PMID: 35607268
  • Cao X, Ding L, Mersha TB et al. Development and validation of an RNA-seq-based transcriptomic risk score for asthma. Sci Rep 2022 May 23;12(1):8643. PMID: 35606385
  • Solé L, Lobo-Jarne T, Álvarez-Villanueva D, Alonso-Marañón J et al. p53 wild-type colorectal cancer cells that express a fetal gene signature are associated with metastasis and poor prognosis. Nat Commun 2022 May 23;13(1):2866. PMID: 35606354
  • Varga BV, Faiz M, Pivonkova H, Khelifi G et al. Signal requirement for cortical potential of transplantable human neuroepithelial stem cells. Nat Commun 2022 May 23;13(1):2844. PMID: 35606347
  • Yin A, Chen W, Tang L, Zhong M et al. Pseudogene CLEC4GP1 modulates trophoblast cell apoptosis and invasion via IL-15 inhibition. Exp Cell Res 2022 Sep 1;418(1):113215. PMID: 35605650
  • Zheng X, Lan J, Yu H, Zhang J et al. Arabidopsis transcription factor TCP4 represses chlorophyll biosynthesis to prevent petal greening. Plant Commun 2022 Jul 11;3(4):100309. PMID: 35605201
  • Tu X, Marand AP, Schmitz RJ, Zhong S et al. A combinatorial indexing strategy for low-cost epigenomic profiling of plant single cells. Plant Commun 2022 Jul 11;3(4):100308. PMID: 35605196
  • Liu W, Zhang Y, Fang X, Tran S et al. Transcriptional landscapes of de novo root regeneration from detached Arabidopsis leaves revealed by time-lapse and single-cell RNA sequencing analyses. Plant Commun 2022 Jul 11;3(4):100306. PMID: 35605192
  • Xiang C, Wu J, Yu L et al. Construction of three-gene-based prognostic signature and analysis of immune cells infiltration in children and young adults with B-acute lymphoblastic leukemia. Mol Genet Genomic Med 2022 Jul;10(7):e1964. PMID: 35603962
  • Emfinger CH, de Klerk E, Schueler KL, Rabaglia ME et al. β Cell-specific deletion of Zfp148 improves nutrient-stimulated β cell Ca2+ responses. JCI Insight 2022 May 23;7(10). PMID: 35603790
  • Young C, Russell JR, Van De Lagemaat LN, Lawson H et al. Intrinsic function of the peptidylarginine deiminase PADI4 is dispensable for normal haematopoiesis. Biol Open 2022 Jun 15;11(6). PMID: 35603697
  • Huang D, Yan H et al. Methyltransferase like 7B is upregulated in sepsis and modulates lipopolysaccharide-induced inflammatory response and macrophage polarization. Bioengineered 2022 May;13(5):11753-11766. PMID: 35603523
  • Li Y, Xu S, Xu D, Pan T et al. Pediatric Pan-Central Nervous System Tumor Methylome Analyses Reveal Immune-Related LncRNAs. Front Immunol 2022;13:853904. PMID: 35603200
  • Ning S, Wu J, Pan Y, Qiao K et al. Identification of CD4(+) Conventional T Cells-Related lncRNA Signature to Improve the Prediction of Prognosis and Immunotherapy Response in Breast Cancer. Front Immunol 2022;13:880769. PMID: 35603183
  • Qian L, Lai X, Gu B, Sun X et al. An Immune-Related Gene Signature for Predicting Neoadjuvant Chemoradiotherapy Efficacy in Rectal Carcinoma. Front Immunol 2022;13:784479. PMID: 35603163
  • Hu C, Dai Z, Xu J, Zhao L et al. Proteome Profiling Identifies Serum Biomarkers in Rheumatoid Arthritis. Front Immunol 2022;13:865425. PMID: 35603148
  • Chen S, Luo Y, Gao H, Li F et al. hECA: The cell-centric assembly of a cell atlas. iScience 2022 May 20;25(5):104318. PMID: 35602947
  • Tao D, Wang Y, Zhang X, Wang C et al. Identification of Angiogenesis-Related Prognostic Biomarkers Associated With Immune Cell Infiltration in Breast Cancer. Front Cell Dev Biol 2022;10:853324. PMID: 35602610
  • Xu B, Peng Z, An Y, Yan G et al. Identification of Energy Metabolism-Related Gene Signatures From scRNA-Seq Data to Predict the Prognosis of Liver Cancer Patients. Front Cell Dev Biol 2022;10:858336. PMID: 35602603
  • Zhang R, Jin Y, Chang C, Xu L et al. RNA-seq and Network Analysis Reveal Unique Chemokine Activity Signatures in the Synovial Tissue of Patients With Rheumatoid Arthritis. Front Med (Lausanne) 2022;9:799440. PMID: 35602512
  • Qi W, Zhang Q et al. Identification and Validation of Immune Molecular Subtypes and Immune Landscape Based on Colon Cancer Cohort. Front Med (Lausanne) 2022;9:827695. PMID: 35602471
  • Solmi L, Rosli HG, Pombo MA, Stalder S et al. Inferring the Significance of the Polyamine Metabolism in the Phytopathogenic Bacteria Pseudomonas syringae: A Meta-Analysis Approach. Front Microbiol 2022;13:893626. PMID: 35602047
  • Li B, Li S, Fan Y, Diao H et al. Computational Analysis Reveals the Characteristics of Immune Cells in Glomerular and Tubulointerstitial Compartments in IgA Nephropathy Patients. Front Genet 2022;13:838863. PMID: 35601494
  • Zhang Z, Shang J, Dai Z, Yao Y et al. Transmembrane Protein 170B is a Prognostic Biomarker and Associated With Immune Infiltrates in Pancreatic Adenocarcinoma. Front Genet 2022;13:848391. PMID: 35601487
  • Jin Y, Yang S, Gao X, Chen D et al. DEAD-Box Helicase 27 Triggers Epithelial to Mesenchymal Transition by Regulating Alternative Splicing of Lipoma-Preferred Partner in Gastric Cancer Metastasis. Front Genet 2022;13:836199. PMID: 35601484
  • Wu D, Zhang R, Datta S et al. Unraveling T Cell Responses for Long Term Protection of SARS-CoV-2 Infection. Front Genet 2022;13:871164. PMID: 35601483
  • Huang J, Liu L, Qin L, Huang H et al. Single-Cell Transcriptomics Uncovers Cellular Heterogeneity, Mechanisms, and Therapeutic Targets for Parkinson's Disease. Front Genet 2022;13:686739. PMID: 35601482
  • Yuan C, Zhang J, Deng C, Xia Y et al. Crosstalk of Histone and RNA Modifications Identified a Stromal-Activated Subtype with Poor Survival and Resistance to Immunotherapy in Gastric Cancer. Front Pharmacol 2022;13:868830. PMID: 35600848
  • Swaminathan J, Maegawa S, Shaik S, Sharma A et al. Cross-Talk Between Histone Methyltransferases and Demethylases Regulate REST Transcription During Neurogenesis. Front Oncol 2022;12:855167. PMID: 35600406
  • Smith MD, Chamling X, Gill AJ, Martinez H et al. Reactive Astrocytes Derived From Human Induced Pluripotent Stem Cells Suppress Oligodendrocyte Precursor Cell Differentiation. Front Mol Neurosci 2022;15:874299. PMID: 35600072
  • Grant-Grant S, Schaffhauser M, Baeza-Gonzalez P, Gao F et al. B3 Transcription Factors Determine Iron Distribution and FERRITIN Gene Expression in Embryo but Do Not Control Total Seed Iron Content. Front Plant Sci 2022;13:870078. PMID: 35599858
  • Konishi D, Umeda Y, Yoshida K, Shigeyasu K et al. Regulatory T cells induce a suppressive immune milieu and promote lymph node metastasis in intrahepatic cholangiocarcinoma. Br J Cancer 2022 Sep;127(4):757-765. PMID: 35597869
  • Mann ON, Kong CS, Lucas ES, Brosens JJ et al. Expression and function of the luteinizing hormone choriogonadotropin receptor in human endometrial stromal cells. Sci Rep 2022 May 21;12(1):8624. PMID: 35597810
  • Sun Y, Li D, Liu H, Huang Y et al. PHF13 epigenetically activates TGFβ driven epithelial to mesenchymal transition. Cell Death Dis 2022 May 21;13(5):487. PMID: 35597793
  • Zhang J, Yin Y, Gao Y, Zhang M et al. Bioinformatics-based screening of key genes between maternal preeclampsia and offspring schizophrenia. Biochem Biophys Res Commun 2022 Jul 30;615:1-8. PMID: 35597180
  • Paranjapye A, Leir SH, Huang F, Kerschner JL et al. Cell function and identity revealed by comparative scRNA-seq analysis in human nasal, bronchial and epididymis epithelia. Eur J Cell Biol 2022 Jun-Aug;101(3):151231. PMID: 35597096
  • Neumann M, Xu X, Smaczniak C, Schumacher J et al. A 3D gene expression atlas of the floral meristem based on spatial reconstruction of single nucleus RNA sequencing data. Nat Commun 2022 May 20;13(1):2838. PMID: 35595749
  • Liu B, Jin Y, Yang J, Han Y et al. Extracellular vesicles from lung tissue drive bone marrow neutrophil recruitment in inflammation. J Extracell Vesicles 2022 May;11(5):e12223. PMID: 35595717
  • Martinez-Ara M, Comoglio F, van Arensbergen J, van Steensel B et al. Systematic analysis of intrinsic enhancer-promoter compatibility in the mouse genome. Mol Cell 2022 Jul 7;82(13):2519-2531.e6. PMID: 35594855
  • Wang Z, Chen N, Liu C, Cao G et al. UBE2T is a prognostic biomarker and correlated with Th2 cell infiltrates in retinoblastoma. Biochem Biophys Res Commun 2022 Jul 23;614:138-144. PMID: 35594577
  • Burel JG, Chawla A, Greenbaum JA, Peters B et al. Distinguishing cell-cell complexes from dual lineage cells using single-cell transcriptomics is not trivial. Cytometry A 2022 Jul;101(7):547-551. PMID: 35594038
  • Zhu K, Wang Y, Sarlus H, Geng K et al. Myeloid cell-specific topoisomerase 1 inhibition using DNA origami mitigates neuroinflammation. EMBO Rep 2022 Jul 5;23(7):e54499. PMID: 35593064
  • Chen Y, Sun Y, Luo Z, Chen X et al. Exercise Modifies the Transcriptional Regulatory Features of Monocytes in Alzheimer's Patients: A Multi-Omics Integration Analysis Based on Single Cell Technology. Front Aging Neurosci 2022;14:881488. PMID: 35592698
  • Ma M, Liao Y, Huang X, Zou C et al. Identification of Alzheimer's Disease Molecular Subtypes Based on Parallel Large-Scale Sequencing. Front Aging Neurosci 2022;14:770136. PMID: 35592696
  • Li J, Sun M, Liu Y, Sun X et al. Genome-Wide Identification of Wild Soybean Mitochondrial Calcium Uniporter Family Genes and Their Responses to Cold and Carbonate Alkaline Stresses. Front Plant Sci 2022;13:867503. PMID: 35592573
  • Battram T, Yousefi P, Crawford G, Prince C et al. The EWAS Catalog: a database of epigenome-wide association studies. Wellcome Open Res 2022;7:41. PMID: 35592546
  • Wu X, Li P, Yimiti M, Ye Z et al. Identification and Characterization of Extrachromosomal Circular DNA in Plasma of Lung Adenocarcinoma Patients. Int J Gen Med 2022;15:4781-4791. PMID: 35592538
  • Zhang X, Wu Z, Hao Y, Yu T et al. Aberrantly Activated APOBEC3B Is Associated With Mutant p53-Driven Refractory/Relapsed Diffuse Large B-Cell Lymphoma. Front Immunol 2022;13:888250. PMID: 35592333
  • Chen Q, Su L, Liu C, Gao F et al. PRKAR1A and SDCBP Serve as Potential Predictors of Heart Failure Following Acute Myocardial Infarction. Front Immunol 2022;13:878876. PMID: 35592331
  • Bhowmik BK, Kumar A, Gangaiah D et al. Transcriptome Analyses of Chicken Primary Macrophages Infected With Attenuated Salmonella Typhimurium Mutants. Front Microbiol 2022;13:857378. PMID: 35591991
  • Hu W, Shi Y, Han T, Liu C et al. A Panel of E2F Target Gene Signature Predicting the Prognosis of Hepatocellular Carcinoma. Front Genet 2022;13:879299. PMID: 35591857
  • Chen R, Yang Z, Liu J, Cai X et al. Functional genomic analysis delineates regulatory mechanisms of GWAS-identified bipolar disorder risk variants. Genome Med 2022 May 20;14(1):53. PMID: 35590387
  • Chellini L, Pieraccioli M, Sette C, Paronetto MP et al. The DNA/RNA helicase DHX9 contributes to the transcriptional program of the androgen receptor in prostate cancer. J Exp Clin Cancer Res 2022 May 19;41(1):178. PMID: 35590370
  • Yang D, Yang L, Cai J, Li H et al. Phosphoinositide 3-kinase/Akt and its related signaling pathways in the regulation of tumor-associated macrophages polarization. Mol Cell Biochem 2022 Oct;477(10):2469-2480. PMID: 35590082
  • El-Sayed Moustafa JS, Jackson AU, Brotman SM, Guan L et al. ACE2 expression in adipose tissue is associated with cardio-metabolic risk factors and cell type composition-implications for COVID-19. Int J Obes (Lond) 2022 Aug;46(8):1478-1486. PMID: 35589964
  • Ocañas SR, Ansere VA, Tooley KB, Hadad N et al. Differential Regulation of Mouse Hippocampal Gene Expression Sex Differences by Chromosomal Content and Gonadal Sex. Mol Neurobiol 2022 Aug;59(8):4669-4702. PMID: 35589920
  • Chen X, Xu Y, Chen Q, Zhang H et al. The phosphatase PTEN links platelets with immune regulatory functions of mouse T follicular helper cells. Nat Commun 2022 May 19;13(1):2762. PMID: 35589797
  • Kumar B, Field NS, Kim DD, Dar AA et al. The ubiquitin ligase Cul5 regulates CD4(+) T cell fate choice and allergic inflammation. Nat Commun 2022 May 19;13(1):2786. PMID: 35589717
  • Hassin O, Nataraj NB, Shreberk-Shaked M, Aylon Y et al. Different hotspot p53 mutants exert distinct phenotypes and predict outcome of colorectal cancer patients. Nat Commun 2022 May 19;13(1):2800. PMID: 35589715
  • Baran N, Lodi A, Dhungana Y, Herbrich S et al. Inhibition of mitochondrial complex I reverses NOTCH1-driven metabolic reprogramming in T-cell acute lymphoblastic leukemia. Nat Commun 2022 May 19;13(1):2801. PMID: 35589701
  • Eltobgy MM, Zani A, Kenney AD, Estfanous S et al. Caspase-4/11 exacerbates disease severity in SARS-CoV-2 infection by promoting inflammation and immunothrombosis. Proc Natl Acad Sci U S A 2022 May 24;119(21):e2202012119. PMID: 35588457
  • Gong X, Yu P, Wu T, He Y et al. Controversial molecular functions of CBS versus non-CBS domain variants of PRKAG2 in arrhythmia and cardiomyopathy: A case report and literature review. Mol Genet Genomic Med 2022 Jul;10(7):e1962. PMID: 35588295
  • Wang W, Lin Z, Feng J, Liang Q et al. Identification of ferroptosis-related molecular markers in glomeruli and tubulointerstitium of lupus nephritis. Lupus 2022 Jul;31(8):985-997. PMID: 35588147
  • Baranovsky A, Ivanov T, Granovskaya M, Papatsenko D et al. Transcriptome analysis reveals high tumor heterogeneity with respect to re-activation of stemness and proliferation programs. PLoS One 2022;17(5):e0268626. PMID: 35587924
  • Yu X, Li Z, Bai R, Tang F et al. Transcriptional factor 3 binds to sirtuin 1 to activate the Wnt/β-catenin signaling in cervical cancer. Bioengineered 2022 May;13(5):12516-12531. PMID: 35587604
  • Ding YF, Lin YW, Chiu WK, Lin CW et al. Combined impacts of histamine receptor H1 gene polymorphisms and an environmental carcinogen on the susceptibility to and progression of oral squamous cell carcinoma. Aging (Albany NY) 2022 May 19;14(10):4500-4512. PMID: 35587368
  • Zheng L, Guan Z, Xue M et al. TGF-β Signaling Pathway-Based Model to Predict the Subtype and Prognosis of Head and Neck Squamous Cell Carcinoma. Front Genet 2022;13:862860. PMID: 35586572
  • Zhu C, Wu Q, Yang N, Zheng Z et al. Immune Infiltration Characteristics and a Gene Prognostic Signature Associated With the Immune Infiltration in Head and Neck Squamous Cell Carcinoma. Front Genet 2022;13:848841. PMID: 35586567
  • Yin X, Yang Z, Zhu M, Chen C et al. ILF2 Contributes to Hyperproliferation of Keratinocytes and Skin Inflammation in a KLHDC7B-DT-Dependent Manner in Psoriasis. Front Genet 2022;13:890624. PMID: 35586566
  • Dong X, Zhang X, Liu P, Tian Y et al. Lipolysis-Stimulated Lipoprotein Receptor Impairs Hepatocellular Carcinoma and Inhibits the Oncogenic Activity of YAP1 via PPPY Motif. Front Oncol 2022;12:896412. PMID: 35586495
  • Zhou L, Fu Z, Wang S, Jia J et al. ACYP1 Is a Pancancer Prognostic Indicator and Affects the Immune Microenvironment in LIHC. Front Oncol 2022;12:875097. PMID: 35586489
  • He Y, Wang Z, Wei J, Yang Z et al. Exploring Key Genes and Mechanisms in Respiratory Syncytial Virus-Infected BALB/c Mice via Multi-Organ Expression Profiles. Front Cell Infect Microbiol 2022;12:858305. PMID: 35586251
  • Guo H, Li R, Wang M, Hou Y et al. Multiomics Analysis Identifies SOCS1 as Restraining T Cell Activation and Preventing Graft-Versus-Host Disease. Adv Sci (Weinh) 2022 Jul;9(21):e2200978. PMID: 35585676
  • Xie C, Lu C, Liu Y, Liu Z et al. Diagnostic gene biomarkers for predicting immune infiltration in endometriosis. BMC Womens Health 2022 May 18;22(1):184. PMID: 35585523
  • Kaufman T, Nitzan E, Firestein N, Ginzberg MB et al. Visual barcodes for clonal-multiplexing of live microscopy-based assays. Nat Commun 2022 May 18;13(1):2725. PMID: 35585055
  • Zinnall U, Milek M, Minia I, Vieira-Vieira CH et al. HDLBP binds ER-targeted mRNAs by multivalent interactions to promote protein synthesis of transmembrane and secreted proteins. Nat Commun 2022 May 18;13(1):2727. PMID: 35585045
  • Rodríguez-Molina JB, O'Reilly FJ, Fagarasan H, Sheekey E et al. Mpe1 senses the binding of pre-mRNA and controls 3' end processing by CPF. Mol Cell 2022 Jul 7;82(13):2490-2504.e12. PMID: 35584695
  • West HC, Davies J, Henderson S, Adegun OK et al. Loss of T cell tolerance in the skin following immunopathology is linked to failed restoration of the dermal niche by recruited macrophages. Cell Rep 2022 May 17;39(7):110819. PMID: 35584681
  • Mei Z, Yang T, Liu Y, Gao Y et al. Management of prostate cancer by targeting 3βHSD1 after enzalutamide and abiraterone treatment. Cell Rep Med 2022 May 17;3(5):100608. PMID: 35584629
  • Tierrafría VH, Rioualen C, Salgado H, Lara P et al. RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-12. Microb Genom 2022 May;8(5). PMID: 35584008
  • Yang Y, Dufault-Thompson K, Salgado Fontenele R, Jiang X et al. Putative Host-Derived Insertions in the Genomes of Circulating SARS-CoV-2 Variants. mSystems 2022 Jun 28;7(3):e0017922. PMID: 35582907
  • Zhang JH, Tasaki T, Tsukamoto M, Wang KY et al. Deficiency of Wnt10a causes female infertility via the β-catenin/Cyp19a1 pathway in mice. Int J Med Sci 2022;19(4):701-710. PMID: 35582421
  • Fultang N, Chakraborty M, Peethambaran B et al. Regulation of cancer stem cells in triple negative breast cancer. Cancer Drug Resist 2021;4(2):321-342. PMID: 35582030
  • Issa II, Brøndum RF, Due H, Schmidt L et al. A bendamustine resistance gene signature in diffuse large B-cell lymphoma and multiple myeloma. Cancer Drug Resist 2021;4(1):208-222. PMID: 35582014
  • Alvarez M, Benhammou JN, Darci-Maher N, French SW et al. Human liver single nucleus and single cell RNA sequencing identify a hepatocellular carcinoma-associated cell-type affecting survival. Genome Med 2022 May 17;14(1):50. PMID: 35581624
  • Tsai YL, Mu YC, Manley JL et al. Nuclear RNA transcript levels modulate nucleocytoplasmic distribution of ALS/FTD-associated protein FUS. Sci Rep 2022 May 17;12(1):8180. PMID: 35581240
  • Luo Z, Zhang J, Fei J, Ke S et al. Deep learning modeling m(6)A deposition reveals the importance of downstream cis-element sequences. Nat Commun 2022 May 17;13(1):2720. PMID: 35581216
  • Martin ET, Sarkar K, McCarthy A, Rangan P et al. Oo-site: A dashboard to visualize gene expression during Drosophila oogenesis suggests meiotic entry is regulated post-transcriptionally. Biol Open 2022 May 15;11(5). PMID: 35579517
  • Ball CB, Li M, Parida M, Hu Q et al. Human Cytomegalovirus IE2 Both Activates and Represses Initiation and Modulates Elongation in a Context-Dependent Manner. mBio 2022 Jun 28;13(3):e0033722. PMID: 35579393
  • Hadadi N, Spiljar M, Steinbach K, Çolakoğlu M et al. Comparative multi-tissue profiling reveals extensive tissue-specificity in transcriptome reprogramming during thermal adaptation. Elife 2022 May 17;11. PMID: 35578890
  • Wang N, Liu X, Fang X, Chen S et al. Identification of SMIM1 and SEZ6L2 as Potential Biomarkers for Genes Associated with Intervertebral Disc Degeneration in Pyroptosis. Dis Markers 2022;2022:9515571. PMID: 35578687
  • Huge N, Reinkens T, Buurman R, Sandbothe M et al. MiR-129-5p exerts Wnt signaling-dependent tumor-suppressive functions in hepatocellular carcinoma by directly targeting hepatoma-derived growth factor HDGF. Cancer Cell Int 2022 May 16;22(1):192. PMID: 35578240
  • Ghosh P, Katkar GD, Shimizu C, Kim J et al. An Artificial Intelligence-guided signature reveals the shared host immune response in MIS-C and Kawasaki disease. Nat Commun 2022 May 16;13(1):2687. PMID: 35577777
  • Zhang QY, Ho DW, Tsui YM, Ng IO et al. Single-Cell Transcriptomics of Liver Cancer: Hype or Insights? Cell Mol Gastroenterol Hepatol 2022;14(3):513-525. PMID: 35577269
  • Julià A, Gómez A, López-Lasanta M, Blanco F et al. Longitudinal analysis of blood DNA methylation identifies mechanisms of response to tumor necrosis factor inhibitor therapy in rheumatoid arthritis. EBioMedicine 2022 Jun;80:104053. PMID: 35576644
  • Lawler AJ, Ramamurthy E, Brown AR, Shin N et al. Machine learning sequence prioritization for cell type-specific enhancer design. Elife 2022 May 16;11. PMID: 35576146
  • Couvillion M, Harlen KM, Lachance KC, Trotta KL et al. Transcription elongation is finely tuned by dozens of regulatory factors. Elife 2022 May 16;11. PMID: 35575476
  • Zhang W, Shang X, Yang F, Han W et al. CDC25C as a Predictive Biomarker for Immune Checkpoint Inhibitors in Patients With Lung Adenocarcinoma. Front Oncol 2022;12:867788. PMID: 35574406
  • Tian J, Liang X, Wang D, Tian J et al. TBC1D2 Promotes Ovarian Cancer Metastasis via Inducing E-Cadherin Degradation. Front Oncol 2022;12:766077. PMID: 35574392
  • Chen R, Zhao M, An Y, Liu D et al. A Prognostic Gene Signature for Hepatocellular Carcinoma. Front Oncol 2022;12:841530. PMID: 35574316
  • Longhitano L, Vicario N, Tibullo D, Giallongo C et al. Lactate Induces the Expressions of MCT1 and HCAR1 to Promote Tumor Growth and Progression in Glioblastoma. Front Oncol 2022;12:871798. PMID: 35574309
  • Mpangase PT, Frost J, Tikly M, Ramsay M et al. nf-rnaSeqCount: A Nextflow pipeline for obtaining raw read counts from RNA-seq data. S Afr Comput J 2021 Dec;33(2). PMID: 35574063
  • Wang N, Wei L, Liu D, Zhang Q et al. Identification and Validation of Autophagy-Related Genes in Diabetic Retinopathy. Front Endocrinol (Lausanne) 2022;13:867600. PMID: 35574010
  • Burja B, Paul D, Tastanova A, Edalat SG et al. An Optimized Tissue Dissociation Protocol for Single-Cell RNA Sequencing Analysis of Fresh and Cultured Human Skin Biopsies. Front Cell Dev Biol 2022;10:872688. PMID: 35573685
  • Georgakopoulos-Soares I, Victorino J, Parada GE, Agarwal V et al. High-throughput characterization of the role of non-B DNA motifs on promoter function. Cell Genom 2022 Apr 13;2(4). PMID: 35573091
  • Jiang Y, Zhang Y, Zhao C et al. Integrated gene expression profiling analysis reveals SERPINA3, FCN3, FREM1, MNS1 as candidate biomarkers in heart failure and their correlation with immune infiltration. J Thorac Dis 2022 Apr;14(4):1106-1119. PMID: 35572891
  • Wang X, Zhu X, Peng L, Zhao Y et al. Identification of lncRNA Biomarkers and LINC01198 Promotes Progression of Chronic Rhinosinusitis with Nasal Polyps through Sponge miR-6776-5p. Biomed Res Int 2022;2022:9469207. PMID: 35572732
  • Wang Z, Song J, Azami NLB, Sun M et al. Identification of a Novel Immune Landscape Signature for Predicting Prognosis and Response of Colon Cancer to Immunotherapy. Front Immunol 2022;13:802665. PMID: 35572595
  • Ding L, Wu H, Wang Y, Li Y et al. m6A Reader Igf2bp1 Regulates the Inflammatory Responses of Microglia by Stabilizing Gbp11 and Cp mRNAs. Front Immunol 2022;13:872252. PMID: 35572575
  • Qijiao W, Zhihan C, Makota P, Qing Y et al. Glomerular Expression of S100A8 in Lupus Nephritis: An Integrated Bioinformatics Analysis. Front Immunol 2022;13:843576. PMID: 35572531
  • Hong WF, Liu MY, Liang L, Zhang Y et al. Molecular Characteristics of T Cell-Mediated Tumor Killing in Hepatocellular Carcinoma. Front Immunol 2022;13:868480. PMID: 35572523
  • Chen Y, Sun Z, Wan L, Chen H et al. Tumor Microenvironment Characterization for Assessment of Recurrence and Survival Outcome in Gastric Cancer to Predict Chemotherapy and Immunotherapy Response. Front Immunol 2022;13:890922. PMID: 35572498
  • Kao WC, Hsu SH, Lin CL, Lin CY et al. Role of high ubiquitin-conjugating enzyme E2 expression as a prognostic factor in nasopharyngeal carcinoma. Oncol Lett 2022 Jun;23(6):194. PMID: 35572494
  • Fang J, Zhang P, Zhou Y, Chiang CW et al. Endophenotype-based in silico network medicine discovery combined with insurance record data mining identifies sildenafil as a candidate drug for Alzheimer's disease. Nat Aging 2021 Dec;1(12):1175-1188. PMID: 35572351
  • Liu J, Jiao L, Zhong X, Yao W et al. Platelet Activating Factor Receptor Exaggerates Microglia-Mediated Microenvironment by IL10-STAT3 Signaling: A Novel Potential Biomarker and Target for Diagnosis and Treatment of Alzheimer's Disease. Front Aging Neurosci 2022;14:856628. PMID: 35572136
  • Belonwu SA, Li Y, Bunis DG, Rao AA et al. Bioinformatics Analysis of Publicly Available Single-Nuclei Transcriptomics Alzheimer's Disease Datasets Reveals APOE Genotype-Specific Changes Across Cell Types in Two Brain Regions. Front Aging Neurosci 2022;14:749991. PMID: 35572130
  • Yang Y, Ren L, Li S, Zheng X et al. GABRP is a potential prognostic biomarker and correlated with immune infiltration and tumor microenvironment in pancreatic cancer. Transl Cancer Res 2022 Apr;11(4):649-668. PMID: 35571651
  • Wang J, Yang J et al. Identification of significant genes with a poor prognosis in skin cutaneous malignant melanoma based on a bioinformatics analysis. Ann Transl Med 2022 Apr;10(8):448. PMID: 35571409
  • Kang K, Bai J, Zhong S, Zhang R et al. Down-Regulation of Insulin Like Growth Factor 1 Involved in Alzheimer's Disease via MAPK, Ras, and FoxO Signaling Pathways. Oxid Med Cell Longev 2022;2022:8169981. PMID: 35571248
  • Zheng P, Shu L, Ren D, Kuang Z et al. circHtra1/miR-3960/GRB10 Axis Promotes Neuronal Loss and Immune Deficiency in Traumatic Brain Injury. Oxid Med Cell Longev 2022;2022:3522492. PMID: 35571247
  • Zheng Y, Liu Z, Yang X, Weng S et al. Exploring Key Genes to Construct a Diagnosis Model of Dilated Cardiomyopathy. Front Cardiovasc Med 2022;9:865096. PMID: 35571180
  • Cyranka M, Monfeuga T, Vedovato N, Larabee CM et al. NMDA Receptor Antagonists Increase the Release of GLP-1 From Gut Endocrine Cells. Front Pharmacol 2022;13:861311. PMID: 35571112
  • Du Y, Gu Z, Li Z, Yuan Z et al. Dynamic Interplay between Structural Variations and 3D Genome Organization in Pancreatic Cancer. Adv Sci (Weinh) 2022 Jun;9(18):e2200818. PMID: 35570408
  • Grant OA, Wang Y, Kumari M, Zabet NR et al. Characterising sex differences of autosomal DNA methylation in whole blood using the Illumina EPIC array. Clin Epigenetics 2022 May 14;14(1):62. PMID: 35568878
  • Luo Y, Yang H, Wan Y, Yang S et al. Endothelial ETS1 inhibition exacerbate blood-brain barrier dysfunction in multiple sclerosis through inducing endothelial-to-mesenchymal transition. Cell Death Dis 2022 May 14;13(5):462. PMID: 35568723
  • McCluskey D, Benzian-Olsson N, Mahil SK, Hassi NK et al. Single-cell analysis implicates T(H)17-to-T(H)2 cell plasticity in the pathogenesis of palmoplantar pustulosis. J Allergy Clin Immunol 2022 Oct;150(4):882-893. PMID: 35568077
  • Chang Y, Syahirah R, Oprescu SN, Wang X et al. Chemically-defined generation of human hemogenic endothelium and definitive hematopoietic progenitor cells. Biomaterials 2022 Jun;285:121569. PMID: 35567999
  • Schaffner SL, Wassouf Z, Lazaro DF, Xylaki M et al. Alpha-synuclein overexpression induces epigenomic dysregulation of glutamate signaling and locomotor pathways. Hum Mol Genet 2022 Oct 28;31(21):3694-3714. PMID: 35567546
  • Lee KY, Seah C, Li C, Chen YF et al. Mice lacking MBNL1 and MBNL2 exhibit sudden cardiac death and molecular signatures recapitulating myotonic dystrophy. Hum Mol Genet 2022 Sep 10;31(18):3144-3160. PMID: 35567413
  • Wu B, Chen Y, Chen Y, Xie X et al. Circ_0001273 downregulation inhibits the growth, migration and glutamine metabolism of esophageal cancer cells via targeting the miR-622/SLC1A5 signaling axis. Thorac Cancer 2022 Jun;13(12):1795-1805. PMID: 35567340
  • Adams AC, Borden ES, Macy AM, Thomson N et al. High GILT Expression Is Associated with Improved Survival in Metastatic Melanoma Patients Treated with Immune Checkpoint Inhibition. Cancers (Basel) 2022 Apr 28;14(9). PMID: 35565329
  • Sesé B, Íñiguez-Muñoz S, Ensenyat-Mendez M, Llinàs-Arias P et al. Glioblastoma Embryonic-like Stem Cells Exhibit Immune-Evasive Phenotype. Cancers (Basel) 2022 Apr 21;14(9). PMID: 35565200
  • Xie D, Hu J, Wu T, Cao K et al. Potential Biomarkers and Drugs for Nanoparticle-Induced Cytotoxicity in the Retina: Based on Regulation of Inflammatory and Apoptotic Genes. Int J Environ Res Public Health 2022 May 6;19(9). PMID: 35565057
  • Wan P, Huang S, Luo Y, Deng C et al. Reciprocal Regulation between lncRNA ANRIL and p15 in Steroid-Induced Glaucoma. Cells 2022 Apr 27;11(9). PMID: 35563774
  • Chiricosta L, D'Angiolini S, Gugliandolo A, Mazzon E et al. Artificial Intelligence Predictor for Alzheimer's Disease Trained on Blood Transcriptome: The Role of Oxidative Stress. Int J Mol Sci 2022 May 7;23(9). PMID: 35563628
  • Monticelli M, Liguori L, Allocca M, Bosso A et al. Drug Repositioning for Fabry Disease: Acetylsalicylic Acid Potentiates the Stabilization of Lysosomal Alpha-Galactosidase by Pharmacological Chaperones. Int J Mol Sci 2022 May 4;23(9). PMID: 35563496
  • Meyer MJ, Falk S, Römer S, Prinzinger C et al. Cloning and Functional Characterization of Dog OCT1 and OCT2: Another Step in Exploring Species Differences in Organic Cation Transporters. Int J Mol Sci 2022 May 4;23(9). PMID: 35563491
  • Park A, Choi SJ, Park S, Kim SM et al. Plasma Aldo-Keto Reductase Family 1 Member B10 as a Biomarker Performs Well in the Diagnosis of Nonalcoholic Steatohepatitis and Fibrosis. Int J Mol Sci 2022 May 1;23(9). PMID: 35563425
  • Ha SE, Jorgensen BG, Wei L, Jin B et al. Metalloendopeptidase ADAM-like Decysin 1 (ADAMDEC1) in Colonic Subepithelial PDGFRα(+) Cells Is a New Marker for Inflammatory Bowel Disease. Int J Mol Sci 2022 Apr 30;23(9). PMID: 35563399
  • Le Boiteux E, Guichet PO, Masliantsev K, Montibus B et al. The Long Non-Coding RNA HOXA-AS2 Promotes Proliferation of Glioma Stem Cells and Modulates Their Inflammation Pathway Mainly through Post-Transcriptional Regulation. Int J Mol Sci 2022 Apr 25;23(9). PMID: 35563134
  • Jamil MA, Singh S, El-Maarri O, Oldenburg J et al. Exploring Diverse Coagulation Factor XIII Subunit Expression Datasets: A Bioinformatic Analysis. Int J Mol Sci 2022 Apr 25;23(9). PMID: 35563115
  • Liu Y, Deguchi Y, Wei D, Liu F et al. Rapid acceleration of KRAS-mutant pancreatic carcinogenesis via remodeling of tumor immune microenvironment by PPARδ. Nat Commun 2022 May 13;13(1):2665. PMID: 35562376
  • Qiu X, Boufaied N, Hallal T, Feit A et al. MYC drives aggressive prostate cancer by disrupting transcriptional pause release at androgen receptor targets. Nat Commun 2022 May 13;13(1):2559. PMID: 35562350
  • Zhang Y, Chen F, Chandrashekar DS, Varambally S et al. Proteogenomic characterization of 2002 human cancers reveals pan-cancer molecular subtypes and associated pathways. Nat Commun 2022 May 13;13(1):2669. PMID: 35562349
  • Zou Y, Zheng S, Xie X, Ye F et al. N6-methyladenosine regulated FGFR4 attenuates ferroptotic cell death in recalcitrant HER2-positive breast cancer. Nat Commun 2022 May 13;13(1):2672. PMID: 35562334
  • Zhang L, Luo H, Ni HM, Liu S et al. Ripk3 signaling regulates HSCs during stress and represses radiation-induced leukemia in mice. Stem Cell Reports 2022 Jun 14;17(6):1428-1441. PMID: 35561683
  • Sato N, Tamada Y, Yu G, Okuno Y et al. CBNplot: Bayesian network plots for enrichment analysis. Bioinformatics 2022 May 13;38(10):2959-2960. PMID: 35561164
  • Kaushal A, Dorier J, Wang B, Mohana G et al. Essential role of Cp190 in physical and regulatory boundary formation. Sci Adv 2022 May 13;8(19):eabl8834. PMID: 35559678
  • Fiorucci S, Rapacciuolo P, Fiorillo B, Roselli R et al. Discovery of a Potent and Orally Active Dual GPBAR1/CysLT(1)R Modulator for the Treatment of Metabolic Fatty Liver Disease. Front Pharmacol 2022;13:858137. PMID: 35559268
  • Hason M, Jovicic J, Vonkova I, Bojic M et al. Bioluminescent Zebrafish Transplantation Model for Drug Discovery. Front Pharmacol 2022;13:893655. PMID: 35559262
  • Yang Y, Yi X, Cai Y, Zhang Y et al. Immune-Associated Gene Signatures and Subtypes to Predict the Progression of Atherosclerotic Plaques Based on Machine Learning. Front Pharmacol 2022;13:865624. PMID: 35559253
  • Wu J, Li T, Ji H, Chen Z et al. VRK1 Predicts Poor Prognosis and Promotes Bladder Cancer Growth and Metastasis In Vitro and In Vivo. Front Pharmacol 2022;13:874235. PMID: 35559251
  • Meng Q, Li X, Xiong X et al. Identification of Hub Genes Associated With Non-alcoholic Steatohepatitis Using Integrated Bioinformatics Analysis. Front Genet 2022;13:872518. PMID: 35559030
  • Zheng J, Dong H, Zhang T, Ning J et al. Development and Validation of a Novel Gene Signature for Predicting the Prognosis of Idiopathic Pulmonary Fibrosis Based on Three Epithelial-Mesenchymal Transition and Immune-Related Genes. Front Genet 2022;13:865052. PMID: 35559024
  • Sun Y, Li J, Wang L, Cong T et al. Identification of Potential Diagnoses Based on Immune Infiltration and Autophagy Characteristics in Major Depressive Disorder. Front Genet 2022;13:702366. PMID: 35559009
  • Yan Y, Cao X, Wang Z, Huang Z et al. Pyroptosis-Related Patterns Predict Tumor Immune Landscape and Immunotherapy Response in Bladder Cancer. Front Mol Biosci 2022;9:815290. PMID: 35558555
  • Sun BY, Zhou C, Guan RY, Liu G et al. Dissecting Intra-Tumoral Changes Following Immune Checkpoint Blockades in Intrahepatic Cholangiocarcinoma via Single-Cell Analysis. Front Immunol 2022;13:871769. PMID: 35558087
  • Yao Y, Kong X, Liu R, Xu F et al. Development of a Novel Immune-Related Gene Prognostic Index for Breast Cancer. Front Immunol 2022;13:845093. PMID: 35558081
  • Jiang Y, Han D, Zhao Y, Zhang C et al. Multi-Omics Analysis of the Prognosis and Biological Function for TRPV Channel Family in Clear Cell Renal Cell Carcinoma. Front Immunol 2022;13:872170. PMID: 35558077
  • Xiao L, Li Q, Huang Y, Fan Z et al. Integrative Analysis Constructs an Extracellular Matrix-Associated Gene Signature for the Prediction of Survival and Tumor Immunity in Lung Adenocarcinoma. Front Cell Dev Biol 2022;10:835043. PMID: 35557945
  • Abudula M, Fan X, Zhang J, Li J et al. Ectopic Endometrial Cell-Derived Exosomal Moesin Induces Eutopic Endometrial Cell Migration, Enhances Angiogenesis and Cytosolic Inflammation in Lesions Contributes to Endometriosis Progression. Front Cell Dev Biol 2022;10:824075. PMID: 35557941
  • Xiong T, Xiao B, Wu Y, Liu Y et al. Upregulation of the Long Non-coding RNA LINC01480 Is Associated With Immune Infiltration in Coronary Artery Disease Based on an Immune-Related lncRNA-mRNA Co-expression Network. Front Cardiovasc Med 2022;9:724262. PMID: 35557532
  • Goldberg D, Charni-Natan M, Buchshtab N, Bar-Shimon M et al. Hormone-controlled cooperative binding of transcription factors drives synergistic induction of fasting-regulated genes. Nucleic Acids Res 2022 Jun 10;50(10):5528-5544. PMID: 35556130
  • Malhan D, Basti A, Relógio A et al. Transcriptome analysis of clock disrupted cancer cells reveals differential alternative splicing of cancer hallmarks genes. NPJ Syst Biol Appl 2022 May 12;8(1):17. PMID: 35552415
  • Campitelli LF, Yellan I, Albu M, Barazandeh M et al. Reconstruction of full-length LINE-1 progenitors from ancestral genomes. Genetics 2022 Jul 4;221(3). PMID: 35552404
  • Ramazzotti D, Angaroni F, Maspero D, Ascolani G et al. Variant calling from scRNA-seq data allows the assessment of cellular identity in patient-derived cell lines. Nat Commun 2022 May 12;13(1):2718. PMID: 35551450
  • Bam M, Yang X, Ginsberg JP, Aiello AE et al. Long non-coding RNA LINC00926 regulates WNT10B signaling pathway thereby altering inflammatory gene expression in PTSD. Transl Psychiatry 2022 May 12;12(1):200. PMID: 35551428
  • Jen HI, Singh S, Tao L, Maunsell HR et al. GFI1 regulates hair cell differentiation by acting as an off-DNA transcriptional co-activator of ATOH1, and a DNA-binding repressor. Sci Rep 2022 May 12;12(1):7793. PMID: 35551236
  • Blassberg R, Patel H, Watson T, Gouti M et al. Sox2 levels regulate the chromatin occupancy of WNT mediators in epiblast progenitors responsible for vertebrate body formation. Nat Cell Biol 2022 May;24(5):633-644. PMID: 35550614
  • Purushothaman D, Bianchi LF, Penkov D, Poli A et al. The transcription factor PREP1(PKNOX1) regulates nuclear stiffness, the expression of LINC complex proteins and mechanotransduction. Commun Biol 2022 May 12;5(1):456. PMID: 35550602
  • Wang D, Jiang Y, Wang T, Wang Z et al. Identification of a novel autophagy-related prognostic signature and small molecule drugs for glioblastoma by bioinformatics. BMC Med Genomics 2022 May 12;15(1):111. PMID: 35550147
  • Hu S, Molina L, Tao J, Liu S et al. NOTCH-YAP1/TEAD-DNMT1 Axis Drives Hepatocyte Reprogramming Into Intrahepatic Cholangiocarcinoma. Gastroenterology 2022 Aug;163(2):449-465. PMID: 35550144
  • Osmani Z, Sabet MS, Nakahara KS et al. Aspartic protease inhibitor enhances resistance to potato virus Y and A in transgenic potato plants. BMC Plant Biol 2022 May 12;22(1):241. PMID: 35549883
  • Jiang Q, Wang H, Yuan D, Qian X et al. Circular_0086414 induces SPARC like 1 (SPARCL1) production to inhibit esophageal cancer cell proliferation, invasion and glycolysis and induce cell apoptosis by sponging miR-1290. Bioengineered 2022 May;13(5):12099-12114. PMID: 35549806
  • Chen TH, Winefield C et al. Comprehensive analysis of both long and short read transcriptomes of a clonal and a seed-propagated model species reveal the prerequisites for transcriptional activation of autonomous and non-autonomous transposons in plants. Mob DNA 2022 May 12;13(1):16. PMID: 35549762
  • Fang Z, Zhang N, Yuan X, Xing X et al. GABPA-activated TGFBR2 transcription inhibits aggressiveness but is epigenetically erased by oncometabolites in renal cell carcinoma. J Exp Clin Cancer Res 2022 May 12;41(1):173. PMID: 35549739
  • Liang YX, Liang YK, Zou ZH, Zhuo YJ et al. Tumor Suppressor Role and Clinical Significance of the FEV Gene in Prostate Cancer. Dis Markers 2022;2022:8724035. PMID: 35548776
  • Jing F, Chen X, Xue J, Huang K et al. An Herbal Product Alleviates Bleomycin-Induced Pulmonary Fibrosis in Mice via Regulating NF-κB/TNF-α Signaling in Macrophages. Front Pharmacol 2022;13:805432. PMID: 35548340
  • Wang Q, Zhong Y, Li Z, Zhu D et al. Multitranscriptome analyses of keloid fibroblasts reveal the role of the HIF-1α/HOXC6/ERK axis in keloid development. Burns Trauma 2022;10:tkac013. PMID: 35547861
  • Hou Y, Chen Z, Wang L, Deng Y et al. Characterization of Immune-Related Genes and Immune Infiltration Features in Epilepsy by Multi-Transcriptome Data. J Inflamm Res 2022;15:2855-2876. PMID: 35547834
  • Yang H, Sun B, Fan L, Ma W et al. Multi-scale integrative analyses identify THBS2(+) cancer-associated fibroblasts as a key orchestrator promoting aggressiveness in early-stage lung adenocarcinoma. Theranostics 2022;12(7):3104-3130. PMID: 35547750
  • Gao H, Liu Y, Hu Y, Ge M et al. Establishment and Application of a Prognostic Risk Score Model Based on Characteristics of Different Immunophenotypes for Lung Adenocarcinoma. Front Genet 2022;13:850101. PMID: 35547263
  • Li J, Wei S, Zhang Y, Lu S et al. Comprehensive Analyses of Mutation-Derived Long-Chain Noncoding RNA Signatures of Genome Instability in Kidney Renal Papillary Cell Carcinoma. Front Genet 2022;13:874673. PMID: 35547247
  • Yu M, Tang J, Huang Y, Guo C et al. HOXA10 Regulates the Synthesis of Cholesterol in Endometrial Stromal Cells. Front Endocrinol (Lausanne) 2022;13:852671. PMID: 35546998
  • Choi HI, An GY, Yoo E, Baek M et al. The bromodomain inhibitor JQ1 up-regulates the long non-coding RNA MALAT1 in cultured human hepatic carcinoma cells. Sci Rep 2022 May 11;12(1):7779. PMID: 35546353
  • Álvarez-González L, Burden F, Doddamani D, Malinverni R et al. 3D chromatin remodelling in the germ line modulates genome evolutionary plasticity. Nat Commun 2022 May 11;13(1):2608. PMID: 35546158
  • Liu A, Manuel AM, Dai Y, Zhao Z et al. Prioritization of risk genes in multiple sclerosis by a refined Bayesian framework followed by tissue-specificity and cell type feature assessment. BMC Genomics 2022 May 11;23(Suppl 4):362. PMID: 35545758
  • Nathan A, Asgari S, Ishigaki K, Valencia C et al. Single-cell eQTL models reveal dynamic T cell state dependence of disease loci. Nature 2022 Jun;606(7912):120-128. PMID: 35545678
  • Samanta MK, Gayen S, Harris C, Maclary E et al. Activation of Xist by an evolutionarily conserved function of KDM5C demethylase. Nat Commun 2022 May 11;13(1):2602. PMID: 35545632
  • Serra-Cardona A, Duan S, Yu C, Zhang Z et al. H3K4me3 recognition by the COMPASS complex facilitates the restoration of this histone mark following DNA replication. Sci Adv 2022 May 6;8(18):eabm6246. PMID: 35544640
  • Costallat M, Batsché E, Rachez C, Muchardt C et al. The 'Alu-ome' shapes the epigenetic environment of regulatory elements controlling cellular defense. Nucleic Acids Res 2022 May 20;50(9):5095-5110. PMID: 35544277
  • Liu P, Zhong Q, Song Y, Guo D et al. Long noncoding RNA Linc01612 represses hepatocellular carcinoma progression by regulating miR-494/ATF3/p53 axis and promoting ubiquitination of YBX1. Int J Biol Sci 2022;18(7):2932-2948. PMID: 35541917
  • Timms K, Guo H, Arkwright P, Pennock J et al. Keratinocyte EGF signalling dominates in atopic dermatitis lesions: A comparative RNAseq analysis. Exp Dermatol 2022 Sep;31(9):1373-1384. PMID: 35538596
  • Chen X, Zou Z, Wang Q, Gao W et al. Inhibition of NOS1 promotes the interferon response of melanoma cells. J Transl Med 2022 May 10;20(1):205. PMID: 35538490
  • Zhijun Z, Peiyao Y, Bing H, Ruifang M et al. Genome-wide identification and expression characterization of the DoG gene family of moso bamboo (Phyllostachys edulis). BMC Genomics 2022 May 10;23(1):357. PMID: 35538420
  • Zhang J, Zhang G, Zhang W, Bai L et al. Loss of RBMS1 promotes anti-tumor immunity through enabling PD-L1 checkpoint blockade in triple-negative breast cancer. Cell Death Differ 2022 Nov;29(11):2247-2261. PMID: 35538152
  • Ben Amar D, Thoinet K, Villalard B, Imbaud O et al. Environmental cues from neural crest derivatives act as metastatic triggers in an embryonic neuroblastoma model. Nat Commun 2022 May 10;13(1):2549. PMID: 35538114
  • Dong C, Fu S, Karvas RM, Chew B et al. A genome-wide CRISPR-Cas9 knockout screen identifies essential and growth-restricting genes in human trophoblast stem cells. Nat Commun 2022 May 10;13(1):2548. PMID: 35538076
  • Zhao X, Chen H, Qiu Y, Cui L et al. FAM64A promotes HNSCC tumorigenesis by mediating transcriptional autoregulation of FOXM1. Int J Oral Sci 2022 May 10;14(1):25. PMID: 35538067
  • Jaiswal A, Verma A, Dannenfelser R, Melssen M et al. An activation to memory differentiation trajectory of tumor-infiltrating lymphocytes informs metastatic melanoma outcomes. Cancer Cell 2022 May 9;40(5):524-544.e5. PMID: 35537413
  • Jia Y, Gao MD, Liu YF, Lu L et al. Genetic dissection of glutathione S-transferase omega-1: identification of novel downstream targets and Alzheimer's disease pathways. Neural Regen Res 2022 Nov;17(11):2452-2458. PMID: 35535896
  • Kim H, Gao EB, Draper A, Berens NC et al. Rescue of behavioral and electrophysiological phenotypes in a Pitt-Hopkins syndrome mouse model by genetic restoration of Tcf4 expression. Elife 2022 May 10;11. PMID: 35535852
  • Zhang X, Zhang X, Liu K, Li W et al. HIVEP3 cooperates with ferroptosis gene signatures to confer adverse prognosis in acute myeloid leukemia. Cancer Med 2022 Dec;11(24):5050-5065. PMID: 35535739
  • Ohki D, Yamamichi N, Sakaguchi Y, Takahashi Y et al. Transcriptome of sessile serrated adenoma/polyps is associated with MSI-high colorectal cancer and decreased expression of CDX2. Cancer Med 2022 Dec;11(24):5066-5078. PMID: 35535692
  • Narumi S, Opitz R, Nagasaki K, Muroya K et al. GWAS of thyroid dysgenesis identifies a risk locus at 2q33.3 linked to regulation of Wnt signaling. Hum Mol Genet 2022 Nov 28;31(23):3967-3974. PMID: 35535691
  • Smit MJ, Martini TEI, Armandari I, Bočkaj I et al. The developmental stage of the medulloblastoma cell-of-origin restricts Sonic hedgehog pathway usage and drug sensitivity. J Cell Sci 2022 Jun 1;135(11). PMID: 35535520
  • Song J, Song L, Lv Z, Liu J et al. Identification and Validation of Inflammatory Response-Related Gene Signatures to Predict the Prognosis of Neuroblastoma. Int J Genomics 2022;2022:2417351. PMID: 35535346
  • Liu Y, Zhao Y, Han C, Ren C et al. Expression of CDK6 in Stomach Cancer and the Effect of CDK4/6 Inhibitor PD-0332991 on the Function of Stomach Cancer Cells. Comput Math Methods Med 2022;2022:2402567. PMID: 35535229
  • Ajucarmelprecilla A, Pandi J, Dhandapani R, Ramanathan S et al. In Silico Identification of Hub Genes as Observing Biomarkers for Gastric Cancer Metastasis. Evid Based Complement Alternat Med 2022;2022:6316158. PMID: 35535159
  • Wood MJ, Marshall JN, Hartley VL, Liu TC et al. HOIL1 regulates group 2 innate lymphoid cell numbers and type 2 inflammation in the small intestine. Mucosal Immunol 2022 Apr;15(4):642-655. PMID: 35534698
  • Yin X, Teng X, Ma T, Yang T et al. RUNX2 recruits the NuRD(MTA1)/CRL4B complex to promote breast cancer progression and bone metastasis. Cell Death Differ 2022 Nov;29(11):2203-2217. PMID: 35534547
  • Yoo H, Kim HJ, Yang SH, Son GH et al. Gene Expression Profiling of the Habenula in Rats Exposed to Chronic Restraint Stress. Mol Cells 2022 May 31;45(5):306-316. PMID: 35534192
  • Noor F, Saleem MH, Javed MR, Chen JT et al. Comprehensive computational analysis reveals H5N1 influenza virus-encoded miRNAs and host-specific targets associated with antiviral immune responses and protein binding. PLoS One 2022;17(5):e0263901. PMID: 35533150
  • Wang C, Wang Y, Fu Z, Huang W et al. MiR-29b-3p Inhibits Migration and Invasion of Papillary Thyroid Carcinoma by Downregulating COL1A1 and COL5A1. Front Oncol 2022;12:837581. PMID: 35530352
  • Mi T, Jin L, Zhang Z, Wang J et al. DNA Hypermethylation-Regulated CX3CL1 Reducing T Cell Infiltration Indicates Poor Prognosis in Wilms Tumour. Front Oncol 2022;12:882714. PMID: 35530333
  • Li X, Dai Z, Wu X, Zhang N et al. The Comprehensive Analysis Identified an Autophagy Signature for the Prognosis and the Immunotherapy Efficiency Prediction in Lung Adenocarcinoma. Front Immunol 2022;13:749241. PMID: 35529878
  • Ye C, Zhu S, Yuan J et al. Characterization of Two TNF-Related Subtypes Predicting Infliximab Therapy Responses in Crohn's Disease. Front Immunol 2022;13:871312. PMID: 35529850
  • Subbarayan K, Massa C, Leisz S, Steven A et al. Biglycan as a potential regulator of tumorgenicity and immunogenicity in K-RAS-transformed cells. Oncoimmunology 2022;11(1):2069214. PMID: 35529675
  • Xu X, Zou R, Liu X, Liu J et al. Epithelial-mesenchymal transition-related genes in coronary artery disease. Open Med (Wars) 2022;17(1):781-800. PMID: 35529472
  • Feng Y, Sun X, Yang T, Han J et al. Comprehensive Analysis of Subtypes and Identification of Key lncRNAs Based on Glutamine Metabolism-Related Long Noncoding RNAs. Comput Math Methods Med 2022;2022:2807354. PMID: 35529265
  • Li Z, Guo W, Ding S, Chen L et al. Identifying Key MicroRNA Signatures for Neurodegenerative Diseases With Machine Learning Methods. Front Genet 2022;13:880997. PMID: 35528544
  • Ma T, Wang J, Liu X, Zhang W et al. m6A Methylation Patterns and Tumor Microenvironment Infiltration Characterization in Clear-Cell Renal Cell Carcinoma. Front Genet 2022;13:864549. PMID: 35528542
  • Chen L, Mei Z, Guo W, Ding S et al. Recognition of Immune Cell Markers of COVID-19 Severity with Machine Learning Methods. Biomed Res Int 2022;2022:6089242. PMID: 35528178
  • Hasan MT, Abdulrazak LF, Alam MK, Islam MR et al. Discovering Common Pathophysiological Processes between COVID-19 and Cystic Fibrosis by Differential Gene Expression Pattern Analysis. Biomed Res Int 2022;2022:8078259. PMID: 35528173
  • James NE, Valenzuela AD, Emerson JB, Woodman M et al. Intratumoral expression analysis reveals that OX40 and TIM-3 are prominently expressed and have variable associations with clinical outcomes in high grade serous ovarian cancer. Oncol Lett 2022 Jun;23(6):188. PMID: 35527785
  • Dong W, Wang B, Zhang R, Cao J et al. Therapeutic effects of acupuncture in rheumatoid arthritis are associated with centromere protein F expression. Allergol Immunopathol (Madr) 2022;50(3):47-54. PMID: 35527655
  • Fouani Y, Kirchhof L, Stanicek L, Luxán G et al. The splicing-regulatory lncRNA NTRAS sustains vascular integrity. EMBO Rep 2022 Jun 7;23(6):e54157. PMID: 35527520
  • Li F, Du Y, Hong L, Liu Z et al. Single-cell transcriptional profiling of human carotid plaques reveals a subpopulation of endothelial cells associated with stroke incidences. J Cell Mol Med 2022 Jun;26(12):3446-3459. PMID: 35527426
  • Van Loon E, Lamarthée B, de Loor H, Van Craenenbroeck AH et al. Biological pathways and comparison with biopsy signals and cellular origin of peripheral blood transcriptomic profiles during kidney allograft pathology. Kidney Int 2022 Jul;102(1):183-195. PMID: 35526671
  • Tang XX, Shimada H, Ikegaki N et al. Macrophage-mediated anti-tumor immunity against high-risk neuroblastoma. Genes Immun 2022 Jun;23(3-4):129-140. PMID: 35525858
  • Lin H, Wang L, Liu Z, Long K et al. Hepatic MDM2 Causes Metabolic Associated Fatty Liver Disease by Blocking Triglyceride-VLDL Secretion via ApoB Degradation. Adv Sci (Weinh) 2022 Jul;9(20):e2200742. PMID: 35524581
  • Evangelista JE, Clarke DJB, Xie Z, Lachmann A et al. SigCom LINCS: data and metadata search engine for a million gene expression signatures. Nucleic Acids Res 2022 Jul 5;50(W1):W697-W709. PMID: 35524556
  • Shao S, Piao L, Guo L, Wang J et al. Tetraspanin 7 promotes osteosarcoma cell invasion and metastasis by inducing EMT and activating the FAK-Src-Ras-ERK1/2 signaling pathway. Cancer Cell Int 2022 May 6;22(1):183. PMID: 35524311
  • Sun Z, Zhang S, Zhang N, Wang J et al. Circ_0005231 promotes the progression of esophageal squamous cell carcinoma via sponging miR-383-5p and regulating KIAA0101. Thorac Cancer 2022 Jun;13(12):1751-1762. PMID: 35524161
  • Videla Rodriguez EA, Mitchell JBO, Smith VA et al. A Bayesian network structure learning approach to identify genes associated with stress in spleens of chickens. Sci Rep 2022 May 6;12(1):7482. PMID: 35523843
  • Hoogstraat M, Lips EH, Mayayo-Peralta I, Mulder L et al. Comprehensive characterization of pre- and post-treatment samples of breast cancer reveal potential mechanisms of chemotherapy resistance. NPJ Breast Cancer 2022 May 6;8(1):60. PMID: 35523804
  • La HM, Liao J, Legrand JMD, Rossello FJ et al. Distinctive molecular features of regenerative stem cells in the damaged male germline. Nat Commun 2022 May 6;13(1):2500. PMID: 35523793
  • Wu C, Yang J, Xiao W, Jiang Z et al. Single-cell characterization of malignant phenotypes and microenvironment alteration in retinoblastoma. Cell Death Dis 2022 May 6;13(5):438. PMID: 35523772
  • Tang FS, Yuan HL, Liu JB, Zhang G et al. Glutamate Transporters EAAT2 and EAAT5 Differentially Shape Synaptic Transmission from Rod Bipolar Cell Terminals. eNeuro 2022 May-Jun;9(3). PMID: 35523583
  • Wei X, Wu J, Li J, Yang Q et al. PLK2 targets GSK3β to protect against cisplatin-induced acute kidney injury. Exp Cell Res 2022 Aug 1;417(1):113181. PMID: 35523306
  • Lee JH, Kim S, Han S, Min J et al. p57(Kip2) imposes the reserve stem cell state of gastric chief cells. Cell Stem Cell 2022 May 5;29(5):826-839.e9. PMID: 35523142
  • Zhong G, Ahimaz P, Edwards NA, Hagen JJ et al. Identification and validation of candidate risk genes in endocytic vesicular trafficking associated with esophageal atresia and tracheoesophageal fistulas. HGG Adv 2022 Jul 14;3(3):100107. PMID: 35519826
  • Zhen Z, Shen Z, Sun P et al. Dissecting the Role of Immune Checkpoint Regulation Patterns in Tumor Microenvironment and Prognosis of Gastric Cancer. Front Genet 2022;13:853648. PMID: 35518357
  • Liu B, Zhai J, Wang W, Liu T et al. Identification of Tumor Microenvironment and DNA Methylation-Related Prognostic Signature for Predicting Clinical Outcomes and Therapeutic Responses in Cervical Cancer. Front Mol Biosci 2022;9:872932. PMID: 35517856
  • Kong W, Mao Z, Han C, Ding Z et al. A Novel Epithelial-Mesenchymal Transition Gene Signature Correlated With Prognosis, and Immune Infiltration in Hepatocellular Carcinoma. Front Pharmacol 2022;13:863750. PMID: 35517787
  • Zhou J, Zhao L, Xiao Y, Xie S et al. The Expression of Cytokine Profiles and Related Receptors in Idiopathic Inflammatory Myopathies. Front Pharmacol 2022;13:852055. PMID: 35517781
  • Liao Y, Wu M, Jia Y, Mou R et al. EpCAM as a Novel Biomarker for Survivals in Prostate Cancer Patients. Front Cell Dev Biol 2022;10:843604. PMID: 35517503
  • Peng B, Peng J, Kang F, Zhang W et al. Ferroptosis-Related Gene MT1G as a Novel Biomarker Correlated With Prognosis and Immune Infiltration in Colorectal Cancer. Front Cell Dev Biol 2022;10:881447. PMID: 35517502
  • Xie YH, Ran LQ, Wu ZY, Sun C et al. Role of Integrin β1 in the progression and chemo-resistance of esophageal squamous cell carcinoma. J Cancer 2022;13(7):2074-2085. PMID: 35517416
  • Everett LJ, Mav D, Phadke DP, Balik-Meisner MR et al. Impact of Aligner, Normalization Method, and Sequencing Depth on TempO-seq Accuracy. Bioinform Biol Insights 2022;16:11779322221095216. PMID: 35515009
  • Ma Y, Chen J, Wang T, Zhang L et al. Accurate Machine Learning Model to Diagnose Chronic Autoimmune Diseases Utilizing Information From B Cells and Monocytes. Front Immunol 2022;13:870531. PMID: 35515003
  • Wang W, Liu X, Wei P, Ye F et al. SPP1 and CXCL9 Promote Non-alcoholic Steatohepatitis Progression Based on Bioinformatics Analysis and Experimental Studies. Front Med (Lausanne) 2022;9:862278. PMID: 35514751
  • Woodman MF, Ozcan MCH, Gura MA, De La Cruz P et al. The requirement of ubiquitin C-terminal hydrolase L1 in mouse ovarian development and fertility†. Biol Reprod 2022 Aug 9;107(2):500-513. PMID: 35512140
  • Shetty A, Tripathi SK, Junttila S, Buchacher T et al. A systematic comparison of FOSL1, FOSL2 and BATF-mediated transcriptional regulation during early human Th17 differentiation. Nucleic Acids Res 2022 May 20;50(9):4938-4958. PMID: 35511484
  • Zhang L, Gao S, White Z, Dai Y et al. Single-cell transcriptomic profiling of lung endothelial cells identifies dynamic inflammatory and regenerative subpopulations. JCI Insight 2022 Jun 8;7(11). PMID: 35511435
  • Ren B, Xia H, Liao Y, Zhou H et al. Endothelial SIRPα signaling controls VE-cadherin endocytosis for thymic homing of progenitor cells. Elife 2022 May 5;11. PMID: 35511221
  • Bao K, Liu W, Song Z, Feng J et al. Crotamiton derivative JM03 extends lifespan and improves oxidative and hypertonic stress resistance in Caenorhabditis elegans via inhibiting OSM-9. Elife 2022 May 5;11. PMID: 35510610
  • Chen H, Zhao L, Liu J, Zhou H et al. Bioinformatic Analyzes of the Association Between Upregulated Expression of JUN Gene via APOBEC-Induced FLG Gene Mutation and Prognosis of Cervical Cancer. Front Med (Lausanne) 2022;9:815450. PMID: 35510248
  • Bouzid A, Chelly A, Tekari A, Singh N et al. Genetic Association of rs1021188 and DNA Methylation Signatures of TNFSF11 in the Risk of Conductive Hearing Loss. Front Med (Lausanne) 2022;9:870244. PMID: 35510247
  • Dong C, Liu W, Zhang Y, Song Y et al. Identification of Common Hub Genes in Human Dermal Fibroblasts Stimulated by Mechanical Stretch at Both the Early and Late Stages. Front Surg 2022;9:846161. PMID: 35510126
  • Yang Y, Kang W, Yuan Y, Duan C et al. circ-0007707/miR-429/PDGFD Pathway Regulates the Progression of Gastric Cancer by Modulating the Immune-Gene Signature. J Oncol 2022;2022:2214686. PMID: 35509844
  • Nie H, Yan C, Zhou W, Li TS et al. Analysis of Immune and Inflammation Characteristics of Atherosclerosis from Different Sample Sources. Oxid Med Cell Longev 2022;2022:5491038. PMID: 35509837
  • Lin J, Chen S, Xiao L, Wang Z et al. Identifying Molecular Subtypes and 6-Gene Prognostic Signature Based on Hypoxia for Optimizing Targeted Therapies in Non-Small Cell Lung Cancer. Int J Gen Med 2022;15:4417-4432. PMID: 35509605
  • Samos A, McGaughey V, Rieger S, Lisse TS et al. Reawakening GDNF's regenerative past in mice and humans. Regen Ther 2022 Jun;20:78-85. PMID: 35509264
  • Levo M, Raimundo J, Bing XY, Sisco Z et al. Transcriptional coupling of distant regulatory genes in living embryos. Nature 2022 May;605(7911):754-760. PMID: 35508662
  • Gegenhuber B, Wu MV, Bronstein R, Tollkuhn J et al. Gene regulation by gonadal hormone receptors underlies brain sex differences. Nature 2022 Jun;606(7912):153-159. PMID: 35508660
  • Oliveira G, Stromhaug K, Cieri N, Iorgulescu JB et al. Landscape of helper and regulatory antitumour CD4(+) T cells in melanoma. Nature 2022 May;605(7910):532-538. PMID: 35508657
  • Gorbovytska V, Kim SK, Kuybu F, Götze M et al. Enhancer RNAs stimulate Pol II pause release by harnessing multivalent interactions to NELF. Nat Commun 2022 May 4;13(1):2429. PMID: 35508485
  • Kellman BP, Richelle A, Yang JY, Chapla D et al. Elucidating Human Milk Oligosaccharide biosynthetic genes through network-based multi-omics integration. Nat Commun 2022 May 4;13(1):2455. PMID: 35508452
  • He RZ, Zheng JH, Yao HF, Xu DP et al. ADAMTS12 promotes migration and epithelial-mesenchymal transition and predicts poor prognosis for pancreatic cancer. Hepatobiliary Pancreat Dis Int 2023 Apr;22(2):169-178. PMID: 35508435
  • Gilbertson SE, Walter HC, Gardner K, Wren SN et al. Topologically associating domains are disrupted by evolutionary genome rearrangements forming species-specific enhancer connections in mice and humans. Cell Rep 2022 May 3;39(5):110769. PMID: 35508135
  • Grenov A, Hezroni H, Lasman L, Hanna JH et al. YTHDF2 suppresses the plasmablast genetic program and promotes germinal center formation. Cell Rep 2022 May 3;39(5):110778. PMID: 35508130
  • Sobel Naveh NS, Traxler EM, Duffy KA, Kalish JM et al. Molecular networks of hepatoblastoma predisposition and oncogenesis in Beckwith-Wiedemann syndrome. Hepatol Commun 2022 Aug;6(8):2132-2146. PMID: 35507738
  • Yanai H, Dunn C, Park B, Coletta C et al. Male rat leukocyte population dynamics predict a window for intervention in aging. Elife 2022 May 4;11. PMID: 35507394
  • Sun XY, Ju XC, Li Y, Zeng PM et al. Generation of vascularized brain organoids to study neurovascular interactions. Elife 2022 May 4;11. PMID: 35506651
  • Wang CZ, Ma BB, Xu ZJ, Zhou JD et al. Reduced expression of lncRNA DLEU7-AS1 is a novel favorable prognostic factor in acute myeloid leukemia. Biosci Rep 2022 May 27;42(5). PMID: 35506368
  • Wang M, Feng R, Chen Z, Shi W et al. Identification of Cancer-Associated Fibroblast Subtype of Triple-Negative Breast Cancer. J Oncol 2022;2022:6452636. PMID: 35505821
  • Du R, Bai Y, Li L et al. Biological networks in gestational diabetes mellitus: insights into the mechanism of crosstalk between long non-coding RNA and N(6)-methyladenine modification. BMC Pregnancy Childbirth 2022 May 3;22(1):384. PMID: 35505296
  • Amanda S, Tan TK, Ong JZL, Theardy MS et al. IRF4 drives clonal evolution and lineage choice in a zebrafish model of T-cell lymphoma. Nat Commun 2022 May 3;13(1):2420. PMID: 35504924
  • Georgakopoulos-Soares I, Parada GE, Wong HY, Medhi R et al. Alternative splicing modulation by G-quadruplexes. Nat Commun 2022 May 3;13(1):2404. PMID: 35504902
  • Wang Y, Chen C, Chen J, Sang T et al. Overexpression of NAG-1/GDF15 prevents hepatic steatosis through inhibiting oxidative stress-mediated dsDNA release and AIM2 inflammasome activation. Redox Biol 2022 Jun;52:102322. PMID: 35504134
  • Maekawa K, Yamada S, Sharma R, Chaudhuri J et al. Triple-helix potential of the mouse genome. Proc Natl Acad Sci U S A 2022 May 10;119(19):e2203967119. PMID: 35503911
  • Liu Y, Feng J, Yuan K, Wu Z et al. The oncoprotein BCL6 enables solid tumor cells to evade genotoxic stress. Elife 2022 May 3;11. PMID: 35503721
  • Li E, Xia M, Du Y, Long K et al. METTL3 promotes homologous recombination repair and modulates chemotherapeutic response in breast cancer by regulating the EGF/RAD51 axis. Elife 2022 May 3;11. PMID: 35502895
  • Boycott C, Beetch M, Yang T, Lubecka K et al. Epigenetic aberrations of gene expression in a rat model of hepatocellular carcinoma. Epigenetics 2022 Nov;17(11):1513-1534. PMID: 35502615
  • Xie Y, Chen Y, Li Z, Zhu J et al. Enhancer transcription detected in the nascent transcriptomic landscape of bread wheat. Genome Biol 2022 Apr 30;23(1):109. PMID: 35501845
  • Guo C, Wu M, Huang B, Zhao R et al. Single-cell transcriptomics reveal a unique memory-like NK cell subset that accumulates with ageing and correlates with disease severity in COVID-19. Genome Med 2022 May 3;14(1):46. PMID: 35501841
  • Gao Y, Li J, Cai G, Wang Y et al. Single-cell transcriptomic and chromatin accessibility analyses of dairy cattle peripheral blood mononuclear cells and their responses to lipopolysaccharide. BMC Genomics 2022 Apr 30;23(1):338. PMID: 35501711
  • Wang J, Xie D, Wu H, Li Y et al. Ferroptosis-related local immune cytolytic activity in tumor microenvironment of basal cell and squamous cell carcinoma. Aging (Albany NY) 2022 May 2;14(9):3956-3972. PMID: 35501667
  • Saito Y, Matsuda S, Ohnishi N, Endo K et al. Polarity protein SCRIB interacts with SLC3A2 to regulate proliferation and tamoxifen resistance in ER+ breast cancer. Commun Biol 2022 May 2;5(1):403. PMID: 35501367
  • Reiff SB, Schroeder AJ, Kırlı K, Cosolo A et al. The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data. Nat Commun 2022 May 2;13(1):2365. PMID: 35501320
  • Fu JF, Wen CJ, Yen TH, Shih LY et al. Hoxa11-mediated reduction of cell migration contributes to myeloid sarcoma formation induced by cooperation of MLL/AF10 with activating KRAS mutation in a mouse transplantation model: Hoxa11 in myeloid sarcoma formation. Neoplasia 2022 Jul;29:100802. PMID: 35500545
  • Demel UM, Böger M, Yousefian S, Grunert C et al. Activated SUMOylation restricts MHC class I antigen presentation to confer immune evasion in cancer. J Clin Invest 2022 May 2;132(9). PMID: 35499080
  • Yan J, Yuan W, Zhang J, Li L et al. Identification and Validation of a Prognostic Prediction Model in Diffuse Large B-Cell Lymphoma. Front Endocrinol (Lausanne) 2022;13:846357. PMID: 35498426
  • Li G, Sun J, Zhang J, Lv Y et al. Identification of Inflammation-Related Biomarkers in Diabetes of the Exocrine Pancreas With the Use of Weighted Gene Co-Expression Network Analysis. Front Endocrinol (Lausanne) 2022;13:839865. PMID: 35498402
  • Tan X, Dai Q, Sun H, Jiang W et al. Systematic Bioinformatics Analysis Based on Public and Second-Generation Sequencing Transcriptome Data: A Study on the Diagnostic Value and Potential Mechanisms of Immune-Related Genes in Acute Myocardial Infarction. Front Cardiovasc Med 2022;9:863248. PMID: 35498008
  • Sun YC, Qiu ZZ, Wen FL, Yin JQ et al. Revealing Potential Diagnostic Gene Biomarkers Associated with Immune Infiltration in Patients with Renal Fibrosis Based on Machine Learning Analysis. J Immunol Res 2022;2022:3027200. PMID: 35497880
  • Hamzeiy H, Ferretti D, Robles MS, Cox J et al. Perseus plugin "Metis" for metabolic-pathway-centered quantitative multi-omics data analysis for static and time-series experimental designs. Cell Rep Methods 2022 Apr 25;2(4):100198. PMID: 35497496
  • Jones MG, Rosen Y, Yosef N et al. Interactive, integrated analysis of single-cell transcriptomic and phylogenetic data with PhyloVision. Cell Rep Methods 2022 Apr 25;2(4):100200. PMID: 35497495
  • Chen Y, Huang M, Zhu J, Xu L et al. Identification of a DNA Damage Response and Repair-Related Gene-Pair Signature for Prognosis Stratification Analysis in Hepatocellular Carcinoma. Front Pharmacol 2022;13:857060. PMID: 35496321
  • Fu Y, Sun H et al. Systematic Construction and Validation of an Immune-Related Gene-Based Model to Predict Prognosis for Ovarian Cancer. Biomed Res Int 2022;2022:7356992. PMID: 35496047
  • Yang Y, Li M, Ma Y, Ye W et al. LncRNA NEAT1 Potentiates SREBP2 Activity to Promote Inflammatory Macrophage Activation and Limit Hantaan Virus Propagation. Front Microbiol 2022;13:849020. PMID: 35495674
  • Jiang Z, Shao M, Dai X, Pan Z et al. Identification of Diagnostic Biomarkers in Systemic Lupus Erythematosus Based on Bioinformatics Analysis and Machine Learning. Front Genet 2022;13:865559. PMID: 35495164
  • Upadhyay P, Ray S et al. A Regularized Multi-Task Learning Approach for Cell Type Detection in Single-Cell RNA Sequencing Data. Front Genet 2022;13:788832. PMID: 35495159
  • Weiner J, Obermayer B, Beule D et al. Venn Diagrams May Indicate Erroneous Statistical Reasoning in Transcriptomics. Front Genet 2022;13:818683. PMID: 35495143
  • Yousef M, Goy G, Bakir-Gungor B et al. miRModuleNet: Detecting miRNA-mRNA Regulatory Modules. Front Genet 2022;13:767455. PMID: 35495139
  • Farooq A, Trøen G, Delabie J, Wang J et al. Integrating whole genome sequencing, methylation, gene expression, topological associated domain information in regulatory mutation prediction: A study of follicular lymphoma. Comput Struct Biotechnol J 2022;20:1726-1742. PMID: 35495111
  • Song J, Zhang L, Li C, Maimaiti M et al. m(6)A-mediated modulation coupled with transcriptional regulation shapes long noncoding RNA repertoire of the cGAS-STING signaling. Comput Struct Biotechnol J 2022;20:1785-1797. PMID: 35495108
  • Sun Q, Liu Z, Xu X, Yang Y et al. Identification of a circRNA/miRNA/mRNA ceRNA Network as a Cell Cycle-Related Regulator for Chronic Sinusitis with Nasal Polyps. J Inflamm Res 2022;15:2601-2615. PMID: 35494315
  • Ye J, Calvo IA, Cenzano I, Vilas A et al. Deconvolution of the hematopoietic stem cell microenvironment reveals a high degree of specialization and conservation. iScience 2022 May 20;25(5):104225. PMID: 35494238
  • Nishijima H, Zunitch MJ, Yoshida M, Kondo K et al. Rapid fluorescent vital imaging of olfactory epithelium. iScience 2022 May 20;25(5):104222. PMID: 35494237
  • Rytkönen KT, Faux T, Mahmoudian M, Heinosalo T et al. Histone H3K4me3 breadth in hypoxia reveals endometrial core functions and stress adaptation linked to endometriosis. iScience 2022 May 20;25(5):104235. PMID: 35494227
  • Yang L, Zeng Q, Deng Y, Qiu Y et al. Glycosylated Cathepsin V Serves as a Prognostic Marker in Lung Cancer. Front Oncol 2022;12:876245. PMID: 35494076
  • Mu T, Li H, Li X et al. Prognostic Implication of Energy Metabolism-Related Gene Signatures in Lung Adenocarcinoma. Front Oncol 2022;12:867470. PMID: 35494074
  • Tan C, Xia P, Zhang H, Xu K et al. YY1-Targeted RBM15B Promotes Hepatocellular Carcinoma Cell Proliferation and Sorafenib Resistance by Promoting TRAM2 Expression in an m6A-Dependent Manner. Front Oncol 2022;12:873020. PMID: 35494016
  • Zhou J, Li Q, Wu W, Zhang X et al. Discovery of Novel Drug Candidates for Alzheimer's Disease by Molecular Network Modeling. Front Aging Neurosci 2022;14:850217. PMID: 35493947
  • Tang Y, Guo C, Yang Z, Wang Y et al. Identification of a Tumor Immunological Phenotype-Related Gene Signature for Predicting Prognosis, Immunotherapy Efficacy, and Drug Candidates in Hepatocellular Carcinoma. Front Immunol 2022;13:862527. PMID: 35493471
  • Wu G, He M, Yin X, Wang W et al. The Pan-Cancer Landscape of Crosstalk Between TRP Family and Tumour Microenvironment Relevant to Prognosis and Immunotherapy Response. Front Immunol 2022;13:837665. PMID: 35493463
  • Zeng Y, Kong Y, Liao L, Zhu H et al. Involvement of RUVBL1 in WNT/β-Catenin Signaling in Oral Squamous Cell Carcinoma. Dis Markers 2022;2022:3398492. PMID: 35493294
  • Zhang L, Lin W, Zhou Y, Shao F et al. A Complement-Related Gene Signature for Predicting Overall Survival and Immunotherapy Efficacy in Sarcoma Patients. Front Cell Dev Biol 2022;10:765062. PMID: 35493104
  • Zhao B, Huang Z, Zhu X, Cai H et al. Clinical Significance of the Expression of Co-Stimulatory Molecule B7-H3 in Papillary Thyroid Carcinoma. Front Cell Dev Biol 2022;10:819236. PMID: 35493085
  • Liu Y, Zhang J, Wang Z, Zhang X et al. Identify the Prognostic and Immune Profile of VSIR in the Tumor Microenvironment: A Pan-Cancer Analysis. Front Cell Dev Biol 2022;10:821649. PMID: 35493077
  • Kim DH, Ahn J, Suh Y, Ziouzenkova O et al. Retinol Binding Protein 7 Promotes Adipogenesis in vitro and Regulates Expression of Genes Involved in Retinol Metabolism. Front Cell Dev Biol 2022;10:876031. PMID: 35493071
  • Feng C, Li T, Xiao J, Wang J et al. Tumor Microenvironment Profiling Identifies Prognostic Signatures and Suggests Immunotherapeutic Benefits in Neuroblastoma. Front Cell Dev Biol 2022;10:814836. PMID: 35493068
  • Mortlock S, Corona RI, Kho PF, Pharoah P et al. A multi-level investigation of the genetic relationship between endometriosis and ovarian cancer histotypes. Cell Rep Med 2022 Mar 15;3(3):100542. PMID: 35492879
  • Garelli CJ, Wong NB, Piedra-Mora C, Wrijil LM et al. Shared inflammatory and skin-specific gene signatures reveal common drivers of discoid lupus erythematosus in canines, humans and mice. Curr Res Immunol 2021;2:41-51. PMID: 35492392
  • Xu Y, Chen Y, Niu Z, Xing J et al. A Novel Pyroptotic and Inflammatory Gene Signature Predicts the Prognosis of Cutaneous Melanoma and the Effect of Anticancer Therapies. Front Med (Lausanne) 2022;9:841568. PMID: 35492358
  • Yang S, Jia L, Xiang J, Yang G et al. KLF10 promotes nonalcoholic steatohepatitis progression through transcriptional activation of zDHHC7. EMBO Rep 2022 Jun 7;23(6):e54229. PMID: 35492028
  • Forquet R, Jiang X, Nasser W, Hommais F et al. Mapping the Complex Transcriptional Landscape of the Phytopathogenic Bacterium Dickeya dadantii. mBio 2022 Jun 28;13(3):e0052422. PMID: 35491820
  • Song Z, Wang X, He L, Chen L et al. Suppression of lysosomal-associated protein transmembrane 5 ameliorates cardiac function and inflammatory response by inhibiting the nuclear factor-kappa B (NF-κB) pathway after myocardial infarction in mice. Exp Anim 2022 Nov 10;71(4):415-425. PMID: 35491099
  • Lampis S, Raieli S, Montemurro L, Bartolucci D et al. The MYCN inhibitor BGA002 restores the retinoic acid response leading to differentiation or apoptosis by the mTOR block in MYCN-amplified neuroblastoma. J Exp Clin Cancer Res 2022 Apr 30;41(1):160. PMID: 35490242
  • Ross JP, van Dijk S, Phang M, Skilton MR et al. Batch-effect detection, correction and characterisation in Illumina HumanMethylation450 and MethylationEPIC BeadChip array data. Clin Epigenetics 2022 Apr 29;14(1):58. PMID: 35488315
  • Zhang Z, Wang ZX, Chen YX, Wu HX et al. Integrated analysis of single-cell and bulk RNA sequencing data reveals a pan-cancer stemness signature predicting immunotherapy response. Genome Med 2022 Apr 29;14(1):45. PMID: 35488273
  • Feng W, Schriever H, Jiang S, Bais A et al. Computational profiling of hiPSC-derived heart organoids reveals chamber defects associated with NKX2-5 deficiency. Commun Biol 2022 Apr 29;5(1):399. PMID: 35488063
  • Lim EJ, Kang JH, Kim YJ, Kim S et al. ICAM-1 promotes cancer progression by regulating SRC activity as an adapter protein in colorectal cancer. Cell Death Dis 2022 Apr 29;13(4):417. PMID: 35487888
  • Moy RH, Nguyen A, Loo JM, Yamaguchi N et al. Functional genetic screen identifies ITPR3/calcium/RELB axis as a driver of colorectal cancer metastatic liver colonization. Dev Cell 2022 May 9;57(9):1146-1159.e7. PMID: 35487218
  • Ke X, Wu H, Chen YX, Guo Y et al. Individualized pathway activity algorithm identifies oncogenic pathways in pan-cancer analysis. EBioMedicine 2022 May;79:104014. PMID: 35487057
  • Fiches GN, Wu Z, Zhou D, Biswas A et al. Polyamine biosynthesis and eIF5A hypusination are modulated by the DNA tumor virus KSHV and promote KSHV viral infection. PLoS Pathog 2022 Apr;18(4):e1010503. PMID: 35486659
  • Brunsdon H, Brombin A, Peterson S, Postlethwait JH et al. Aldh2 is a lineage-specific metabolic gatekeeper in melanocyte stem cells. Development 2022 May 15;149(10). PMID: 35485397
  • Zhang M, Liu Y, Hou S, Wang Y et al. KDM4B, a potential prognostic biomarker revealed by large-scale public databases and clinical samples in uterine corpus endometrial carcinoma. Mol Omics 2022 Jul 11;18(6):506-519. PMID: 35485290
  • Gao F, Zhao Y, Zhang B, Xiao C et al. Suppression of lncRNA Gm47283 attenuates myocardial infarction via miR-706/ Ptgs2/ferroptosis axis. Bioengineered 2022 Apr;13(4):10786-10802. PMID: 35485136
  • Li X, Liu L, Whitehead C, Li J et al. Identifying preeclampsia-associated genes using a control theory method. Brief Funct Genomics 2022 Jul 27;21(4):296-309. PMID: 35484822
  • Yan Z, Ao X, Liang X, Chen Z et al. Transcriptional inhibition of miR-486-3p by BCL6 upregulates Snail and induces epithelial-mesenchymal transition during radiation-induced pulmonary fibrosis. Respir Res 2022 Apr 28;23(1):104. PMID: 35484551
  • Alborzinia H, Flórez AF, Kreth S, Brückner LM et al. MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis. Nat Cancer 2022 Apr;3(4):471-485. PMID: 35484422
  • Brooks-Warburton J, Modos D, Sudhakar P, Madgwick M et al. A systems genomics approach to uncover patient-specific pathogenic pathways and proteins in ulcerative colitis. Nat Commun 2022 Apr 28;13(1):2299. PMID: 35484353
  • Hoge ACH, Getz M, Zimmer A, Ko M et al. DNA-based copy number analysis confirms genomic evolution of PDX models. NPJ Precis Oncol 2022 Apr 28;6(1):30. PMID: 35484194
  • Koh JH, Pataky MW, Dasari S, Klaus KA et al. Enhancement of anaerobic glycolysis - a role of PGC-1α4 in resistance exercise. Nat Commun 2022 Apr 28;13(1):2324. PMID: 35484130
  • Gnan S, Josephides JM, Wu X, Spagnuolo M et al. Kronos scRT: a uniform framework for single-cell replication timing analysis. Nat Commun 2022 Apr 28;13(1):2329. PMID: 35484127
  • Wang L, Liu D, Liu S, Liao T et al. Identification of IMPA2 as the hub gene associated with colorectal cancer and liver metastasis by integrated bioinformatics analysis. Transl Oncol 2022 Jul;21:101435. PMID: 35483170
  • Zhou M, Zhu X et al. Construction and validation of a robust ferroptosis-associated gene signature predictive of prognosis in lung adenocarcinoma. Medicine (Baltimore) 2022 Apr 22;101(16):e29068. PMID: 35482981
  • Liu Q, Hsu CY, Li J, Shyr Y et al. Dysregulated ligand-receptor interactions from single-cell transcriptomics. Bioinformatics 2022 Jun 13;38(12):3216-3221. PMID: 35482476
  • Ibadurrahman W, Hanif N, Hermawan A et al. Functional network analysis of p85 and PI3K as potential gene targets and mechanism of oleanolic acid in overcoming breast cancer resistance to tamoxifen. J Genet Eng Biotechnol 2022 Apr 28;20(1):66. PMID: 35482141
  • Zhao B, Jiang X et al. hsa-miR-518-5p/hsa-miR-3135b Regulates the REL/SOD2 Pathway in Ischemic Cerebral Infarction. Front Neurol 2022;13:852013. PMID: 35481271
  • Chen X, Gao K, Xiang Z, Zhang Y et al. Identification and Validation of an Endoplasmic Reticulum Stress-Related lncRNA Signature for Colon Adenocarcinoma Patients. Int J Gen Med 2022;15:4303-4319. PMID: 35480990
  • Zheng P, Zhang H, Jiang W, Wang L et al. Establishment of a Prognostic Model of Lung Adenocarcinoma Based on Tumor Heterogeneity. Front Mol Biosci 2022;9:807497. PMID: 35480896
  • Chen S, Zhao Z, Wang X, Zhang Q et al. The Predictive Competing Endogenous RNA Regulatory Networks and Potential Prognostic and Immunological Roles of Cyclin A2 in Pan-Cancer Analysis. Front Mol Biosci 2022;9:809509. PMID: 35480884
  • Chen C, Chen Y, Jin X, Ding Y et al. Identification of Tumor Mutation Burden, Microsatellite Instability, and Somatic Copy Number Alteration Derived Nine Gene Signatures to Predict Clinical Outcomes in STAD. Front Mol Biosci 2022;9:793403. PMID: 35480879
  • Liu F, Wei T, Liu L, Hou F et al. Role of Necroptosis and Immune Infiltration in Human Stanford Type A Aortic Dissection: Novel Insights from Bioinformatics Analyses. Oxid Med Cell Longev 2022;2022:6184802. PMID: 35480868
  • Sun X, Zhang Y, Chen Y, Xin S et al. In Silico Establishment and Validation of Novel Lipid Metabolism-Related Gene Signature in Bladder Cancer. Oxid Med Cell Longev 2022;2022:3170950. PMID: 35480865
  • Yin J, Zheng Z, Zeng X, Zhao Y et al. lncRNA MALAT1 mediates osteogenic differentiation of bone mesenchymal stem cells by sponging miR-129-5p. PeerJ 2022;10:e13355. PMID: 35480561
  • Wang Z, Zhang J, Feng T, Zhang D et al. Construction of lncRNA-Mediated Competing Endogenous RNA Networks Correlated With T2 Asthma. Front Genet 2022;13:872499. PMID: 35480331
  • Han Q, Zhang X, Ren X, Hang Z et al. Biological Characteristics and Predictive Model of Biopsy-Proven Acute Rejection (BPAR) After Kidney Transplantation: Evidences of Multi-Omics Analysis. Front Genet 2022;13:844709. PMID: 35480323
  • Ding J, Zhao S, Chen X, Luo C et al. Prognostic and Diagnostic Values of Semaphorin 5B and Its Correlation With Tumor-Infiltrating Immune Cells in Kidney Renal Clear-Cell Carcinoma. Front Genet 2022;13:835355. PMID: 35480320
  • Jabeen A, Ahmad N, Raza K et al. Global Gene Expression and Docking Profiling of COVID-19 Infection. Front Genet 2022;13:870836. PMID: 35480316
  • Yao Y, Li Z, Gao W et al. Identification of Hub Genes in Idiopathic Pulmonary Fibrosis and NSCLC Progression:Evidence From Bioinformatics Analysis. Front Genet 2022;13:855789. PMID: 35480306
  • Han Y, Ding Z, Chen B, Liu Y et al. A Novel Inflammatory Response-Related Gene Signature Improves High-Risk Survival Prediction in Patients With Head and Neck Squamous Cell Carcinoma. Front Genet 2022;13:767166. PMID: 35480305
  • Moubarak RS, Koetz-Ploch L, Mullokandov G, Gaziel A et al. In Vivo miRNA Decoy Screen Reveals miR-124a as a Suppressor of Melanoma Metastasis. Front Oncol 2022;12:852952. PMID: 35480113
  • He R, Zhang M, He L, Huang J et al. Integrated Analysis of Necroptosis-Related Genes for Prognosis, Immune Microenvironment Infiltration, and Drug Sensitivity in Colon Cancer. Front Med (Lausanne) 2022;9:845271. PMID: 35479956
  • Jiang S, Jiao Y, Zou G, Gao H et al. Activation of Complement Pathways in Kidney Tissue May Mediate Tubulointerstitial Injury in Diabetic Nephropathy. Front Med (Lausanne) 2022;9:845679. PMID: 35479942
  • Tian L, Long F, Hao Y, Li B et al. A Cancer Associated Fibroblasts-Related Six-Gene Panel for Anti-PD-1 Therapy in Melanoma Driven by Weighted Correlation Network Analysis and Supervised Machine Learning. Front Med (Lausanne) 2022;9:880326. PMID: 35479936
  • Wu Q, Zhang Z, Ji M, Yan T et al. The Establishment and Experimental Verification of an lncRNA-Derived CD8+ T Cell Infiltration ceRNA Network in Colorectal Cancer. Clin Med Insights Oncol 2022;16:11795549221092218. PMID: 35479766
  • Wang C, Lashua LP, Carter CE, Johnson SK et al. Sex disparities in influenza: A multiscale network analysis. iScience 2022 May 20;25(5):104192. PMID: 35479404
  • Aibara D, Takahashi S, Yagai T, Kim D et al. Gene repression through epigenetic modulation by PPARA enhances hepatocellular proliferation. iScience 2022 May 20;25(5):104196. PMID: 35479397
  • Zhang J, Fan F, Liu A, Zhang C et al. Icariin: A Potential Molecule for Treatment of Knee Osteoarthritis. Front Pharmacol 2022;13:811808. PMID: 35479319
  • Chen Q, Li H, Liu Y, Zhao M et al. Epigenetic Regulation of Immune and Inflammatory Responses in Rheumatoid Arthritis. Front Immunol 2022;13:881191. PMID: 35479077
  • Pacini ESA, Satori NA, Jackson EK, Godinho RO et al. Extracellular cAMP-Adenosine Pathway Signaling: A Potential Therapeutic Target in Chronic Inflammatory Airway Diseases. Front Immunol 2022;13:866097. PMID: 35479074
  • Hasib FMYEsophageal squamous cell carcinoma: Integrated bioinformatics analysis for differential gene expression with identification of hub genes and lncRNA. Biochem Biophys Rep 2022 Jul;30:101262. PMID: 35479061
  • Wang Y, Wu H, Jiang X, Jia L et al. LMNA Determines Nuclear Morphology During Syncytialization of Human Trophoblast Stem Cells. Front Cell Dev Biol 2022;10:836390. PMID: 35478970
  • Sun Y, Zhang XX, Huang S, Pan H et al. Diet-Induced Obesity Promotes Liver Metastasis of Pancreatic Ductal Adenocarcinoma via CX3CL1/CX3CR1 Axis. J Immunol Res 2022;2022:5665964. PMID: 35478937
  • Lopacinska-Joergensen J, Oliveira DVNP, Hoegdall CK, Hoegdall EV et al. Identification of Stably Expressed Reference microRNAs in Epithelial Ovarian Cancer. In Vivo 2022 May-Jun;36(3):1059-1066. PMID: 35478140
  • Garma LD, Deng H, Goldschmidt E et al. Integrated analysis of transcriptomic data reveals the platelet response in COVID-19 disease. Sci Rep 2022 Apr 27;12(1):6851. PMID: 35477940
  • Rastegarpanah M, Azadmanesh K, Negahdari B, Asgari Y et al. Screening of candidate genes associated with high titer production of oncolytic measles virus based on systems biology approach. Virus Genes 2022 Aug;58(4):270-283. PMID: 35477822
  • Nouruzi S, Ganguli D, Tabrizian N, Kobelev M et al. ASCL1 activates neuronal stem cell-like lineage programming through remodeling of the chromatin landscape in prostate cancer. Nat Commun 2022 Apr 27;13(1):2282. PMID: 35477723
  • Sethi S, Zhang D, Guelfi S, Chen Z et al. Leveraging omic features with F3UTER enables identification of unannotated 3'UTRs for synaptic genes. Nat Commun 2022 Apr 27;13(1):2270. PMID: 35477703
  • Chen Y, Yu Y, Wen Y, Chen J et al. A high-resolution route map reveals distinct stages of chondrocyte dedifferentiation for cartilage regeneration. Bone Res 2022 Apr 27;10(1):38. PMID: 35477573
  • Fischer T, Hartmann O, Reissland M, Prieto-Garcia C et al. PTEN mutant non-small cell lung cancer require ATM to suppress pro-apoptotic signalling and evade radiotherapy. Cell Biosci 2022 Apr 27;12(1):50. PMID: 35477555
  • Corry SM, McCorry AM, Lannagan TR, Leonard NA et al. Activation of innate-adaptive immune machinery by poly(I:C) exposes a therapeutic vulnerability to prevent relapse in stroma-rich colon cancer. Gut 2022 Dec;71(12):2502-2517. PMID: 35477539
  • Shen Y, Lin H, Chen K, Ge W et al. High expression of RIPK2 is associated with Taxol resistance in serous ovarian cancer. J Ovarian Res 2022 Apr 27;15(1):48. PMID: 35477477
  • Luan H, He Y, Zhang T, Su Y et al. The identification of liver metastasis- and prognosis-associated genes in pancreatic ductal adenocarcinoma. BMC Cancer 2022 Apr 27;22(1):463. PMID: 35477379
  • Ge M, Zhong R, Sadeghnezhad E, Hakeem A et al. Genome-wide identification and expression analysis of magnesium transporter gene family in grape (Vitis vinifera). BMC Plant Biol 2022 Apr 28;22(1):217. PMID: 35477360
  • Morris V, Wang D, Li Z, Marion W et al. Hypoxic, glycolytic metabolism is a vulnerability of B-acute lymphoblastic leukemia-initiating cells. Cell Rep 2022 Apr 26;39(4):110752. PMID: 35476984
  • Xiao FH, Yu Q, Deng ZL, Yang K et al. ETS1 acts as a regulator of human healthy aging via decreasing ribosomal activity. Sci Adv 2022 Apr 29;8(17):eabf2017. PMID: 35476452
  • Liang Y, Wang W, Huang Q, Chen H et al. Integrated Multichip Analysis and WGCNA Identify Potential Diagnostic Markers in the Pathogenesis of ST-Elevation Myocardial Infarction. Contrast Media Mol Imaging 2022;2022:7343412. PMID: 35475279
  • Ashuach T, Reidenbach DA, Gayoso A, Yosef N et al. PeakVI: A deep generative model for single-cell chromatin accessibility analysis. Cell Rep Methods 2022 Mar 28;2(3):100182. PMID: 35475224
  • Delker RK, Munce RH, Hu M, Mann RS et al. Fluorescent labeling of genomic loci in Drosophila imaginal discs with heterologous DNA-binding proteins. Cell Rep Methods 2022 Mar 28;2(3):100175. PMID: 35475221
  • Kyriakopoulos C, Nordström K, Kramer PL, Gottfreund JY et al. A comprehensive approach for genome-wide efficiency profiling of DNA modifying enzymes. Cell Rep Methods 2022 Mar 28;2(3):100187. PMID: 35475220
  • Li L, Dugan HL, Stamper CT, Lan LY et al. Improved integration of single-cell transcriptome and surface protein expression by LinQ-View. Cell Rep Methods 2021 Aug 23;1(4):100056. PMID: 35475142
  • Ding J, Alavi A, Ebrahimkhani MR, Bar-Joseph Z et al. Computational tools for analyzing single-cell data in pluripotent cell differentiation studies. Cell Rep Methods 2021 Oct 25;1(6):100087. PMID: 35474899
  • Kramme C, Plesa AM, Wang HH, Wolf B et al. An integrated pipeline for mammalian genetic screening. Cell Rep Methods 2021 Oct 25;1(6):100082. PMID: 35474898
  • Zhang Z, Zhang X et al. Inference of high-resolution trajectories in single-cell RNA-seq data by using RNA velocity. Cell Rep Methods 2021 Oct 25;1(6):100095. PMID: 35474895
  • Minoura K, Abe K, Nam H, Nishikawa H et al. A mixture-of-experts deep generative model for integrated analysis of single-cell multiomics data. Cell Rep Methods 2021 Sep 27;1(5):100071. PMID: 35474667
  • Ma J, Chen C, Liu S, Ji J et al. Identification of a five genes prognosis signature for triple-negative breast cancer using multi-omics methods and bioinformatics analysis. Cancer Gene Ther 2022 Nov;29(11):1578-1589. PMID: 35474355
  • Hoch M, Smita S, Cesnulevicius K, Lescheid D et al. Network- and enrichment-based inference of phenotypes and targets from large-scale disease maps. NPJ Syst Biol Appl 2022 Apr 26;8(1):13. PMID: 35473910
  • Lu C, Liao W, Huang Y, Huang Y et al. Increased expression of NOP14 is associated with improved prognosis due to immune regulation in colorectal cancer. BMC Gastroenterol 2022 Apr 26;22(1):207. PMID: 35473611
  • Qin T, Lee C, Li S, Cavalcante RG et al. Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data. Genome Biol 2022 Apr 26;23(1):105. PMID: 35473573
  • Guo Q, Zhang T, Gong Y, Tao Y et al. Aldehyde dehydrogenase 6 family member A1 negatively regulates cell growth and to cisplatin sensitivity in bladder cancer. Mol Carcinog 2022 Jul;61(7):690-701. PMID: 35472711
  • Li Z, Tuong ZK, Dean I, Willis C et al. In vivo labeling reveals continuous trafficking of TCF-1+ T cells between tumor and lymphoid tissue. J Exp Med 2022 Jun 6;219(6). PMID: 35472220
  • Saeki N, Inoue K, Ideta-Otsuka M, Watamori K et al. Epigenetic regulator UHRF1 orchestrates proinflammatory gene expression in rheumatoid arthritis in a suppressive manner. J Clin Invest 2022 Jun 1;132(11). PMID: 35472067
  • Calderon L, Weiss FD, Beagan JA, Oliveira MS et al. Cohesin-dependence of neuronal gene expression relates to chromatin loop length. Elife 2022 Apr 26;11. PMID: 35471149
  • Zhang XL, Spencer WC, Tabuchi N, Kitt MM et al. Reorganization of postmitotic neuronal chromatin accessibility for maturation of serotonergic identity. Elife 2022 Apr 26;11. PMID: 35471146
  • Israeli M, Finkel Y, Yahalom-Ronen Y, Paran N et al. Genome-wide CRISPR screens identify GATA6 as a proviral host factor for SARS-CoV-2 via modulation of ACE2. Nat Commun 2022 Apr 25;13(1):2237. PMID: 35469023
  • Hongu T, Pein M, Insua-Rodríguez J, Gutjahr E et al. Perivascular tenascin C triggers sequential activation of macrophages and endothelial cells to generate a pro-metastatic vascular niche in the lungs. Nat Cancer 2022 Apr;3(4):486-504. PMID: 35469015
  • van den Ameele J, Krautz R, Cheetham SW, Donovan APA et al. Reduced chromatin accessibility correlates with resistance to Notch activation. Nat Commun 2022 Apr 25;13(1):2210. PMID: 35468895
  • Chen S, Gao Y, Wang Y, Daemen T et al. The combined signatures of hypoxia and cellular landscape provides a prognostic and therapeutic biomarker in hepatitis B virus-related hepatocellular carcinoma. Int J Cancer 2022 Sep 1;151(5):809-824. PMID: 35467769
  • Pitera AP, Szaruga M, Peak-Chew SY, Wingett SW et al. Cellular responses to halofuginone reveal a vulnerability of the GCN2 branch of the integrated stress response. EMBO J 2022 Jun 1;41(11):e109985. PMID: 35466425
  • Liang S, Liu Y, He J, Gao T et al. Family with sequence similarity 46 member a confers chemo-resistance to ovarian carcinoma via TGF-β/Smad2 signaling. Bioengineered 2022 Apr;13(4):10629-10639. PMID: 35465837
  • Chen B, Zhou H, Zhou X, Yang L et al. Comprehensive Analysis of Endoplasmic Reticulum Stress in Intracranial Aneurysm. Front Cell Neurosci 2022;16:865005. PMID: 35465608
  • Rengaraj D, Cha DG, Lee HJ, Lee KY et al. Dissecting chicken germ cell dynamics by combining a germ cell tracing transgenic chicken model with single-cell RNA sequencing. Comput Struct Biotechnol J 2022;20:1654-1669. PMID: 35465157
  • Knabl L, Lee HK, Wieser M, Mur A et al. BNT162b2 vaccination enhances interferon-JAK-STAT-regulated antiviral programs in COVID-19 patients infected with the SARS-CoV-2 Beta variant. Commun Med (Lond) 2022;2(1). PMID: 35465056
  • Hou Y, Li Y, Li W, Xiao Z et al. Screening of Medications for Idiopathic Membranous Nephropathy Using Glomerular Whole-Genome Sequencing. Comput Math Methods Med 2022;2022:9337088. PMID: 35465008
  • Hou S, Xu H, Liu S, Yang B et al. Integrated Bioinformatics Analysis Identifies a New Stemness Index-Related Survival Model for Prognostic Prediction in Lung Adenocarcinoma. Front Genet 2022;13:860268. PMID: 35464867
  • Kang J, Li N, Wang F, Wei Y et al. Exploration of Reduced Mitochondrial Content-Associated Gene Signature and Immunocyte Infiltration in Colon Adenocarcinoma by an Integrated Bioinformatic Analysis. Front Genet 2022;13:832331. PMID: 35464857
  • Wang Y, Zhang L, Shi G, Liu M et al. Effects of Inflammatory Response Genes on the Immune Microenvironment in Colorectal Cancer. Front Genet 2022;13:886949. PMID: 35464849
  • Fang X, Wang J, Chen J, Zhuang M et al. Identification and Validation of Chromobox Family Members as Potential Prognostic Biomarkers and Therapeutic Targets for Human Esophageal Cancer. Front Genet 2022;13:851390. PMID: 35464847
  • Patel NM, Yamada N, Oliveira FRMB, Stiehler L et al. Inhibition of Macrophage Migration Inhibitory Factor Activity Attenuates Haemorrhagic Shock-Induced Multiple Organ Dysfunction in Rats. Front Immunol 2022;13:886421. PMID: 35464452
  • Hu H, Tang N, Zhang F, Li L et al. Bioinformatics and System Biology Approach to Identify the Influences of COVID-19 on Rheumatoid Arthritis. Front Immunol 2022;13:860676. PMID: 35464423
  • Gu HY, Qu WQ, Peng HH, Yu YF et al. Stemness Subtypes and Scoring System Predict Prognosis and Efficacy of Immunotherapy in Soft Tissue Sarcoma. Front Immunol 2022;13:796606. PMID: 35464409
  • Zhou X, Wang N, Zhang Y, Yu P et al. Expression of CCL2, FOS, and JUN May Help to Distinguish Patients With IgA Nephropathy From Healthy Controls. Front Physiol 2022;13:840890. PMID: 35464092
  • Zhao GD, Gao R, Hou XT, Zhang H et al. Endoplasmic Reticulum Stress Mediates Renal Tubular Vacuolation in BK Polyomavirus-Associated Nephropathy. Front Endocrinol (Lausanne) 2022;13:834187. PMID: 35464062
  • Li J, Pan C, Tang C, Tan W et al. The Reaction Pathway of miR-30c-5p Activates Lipopolysaccharide Promoting the Course of Traumatic and Hemorrhagic Shock Acute Lung Injury. Biomed Res Int 2022;2022:3330552. PMID: 35463979
  • Zhang X, Xiao J, Fu X, Qin G et al. Construction of a Two-Gene Immunogenomic-Related Prognostic Signature in Lung Squamous Cell Carcinoma. Front Mol Biosci 2022;9:867494. PMID: 35463955
  • Hesaraki M, Bora U, Pahlavan S, Salehi N et al. A Novel Missense Variant in Actin Binding Domain of MYH7 Is Associated With Left Ventricular Noncompaction. Front Cardiovasc Med 2022;9:839862. PMID: 35463789
  • Wang Q, Guo X, Huo B, Feng X et al. Integrating Bulk Transcriptome and Single-Cell RNA Sequencing Data Reveals the Landscape of the Immune Microenvironment in Thoracic Aortic Aneurysms. Front Cardiovasc Med 2022;9:846421. PMID: 35463756
  • Wu Y, Jiang T, Hua J, Xiong Z et al. Integrated Bioinformatics-Based Analysis of Hub Genes and the Mechanism of Immune Infiltration Associated With Acute Myocardial Infarction. Front Cardiovasc Med 2022;9:831605. PMID: 35463752
  • Wang L, Liu F, Ju L, Xue B et al. Genome Structures and Evolution Analysis of Hsp90 Gene Family in Brassica napus Reveal the Possible Roles of Members in Response to Salt Stress and the Infection of Sclerotinia sclerotiorum. Front Plant Sci 2022;13:854034. PMID: 35463405
  • Feng D, Shi X, Zhang F, Xiong Q et al. Mitochondria Dysfunction-Mediated Molecular Subtypes and Gene Prognostic Index for Prostate Cancer Patients Undergoing Radical Prostatectomy or Radiotherapy. Front Oncol 2022;12:858479. PMID: 35463369
  • Ruan X, Li W, Du P, Wang Y et al. Mechanism of Phellodendron and Anemarrhena Drug Pair on the Treatment of Liver Cancer Based on Network Pharmacology and Bioinformatics. Front Oncol 2022;12:838152. PMID: 35463358
  • Lin H, Lin WH, Lin F, Liu CY et al. Potential Pleiotropic Genes and Shared Biological Pathways in Epilepsy and Depression Based on GWAS Summary Statistics. Comput Intell Neurosci 2022;2022:6799285. PMID: 35463244
  • Peng L, Li N, Huang Z, Qiu C et al. Prognostic Gene Expression Signature for Age-Related Hearing Loss. Front Med (Lausanne) 2022;9:814851. PMID: 35463035
  • Halloran PF, Böhmig GA, Bromberg J, Einecke G et al. Archetypal Analysis of Injury in Kidney Transplant Biopsies Identifies Two Classes of Early AKI. Front Med (Lausanne) 2022;9:817324. PMID: 35463013
  • Xie L, Huang R, Huang H, Liu X et al. Transcriptomics and Metabolomics Identify Drug Resistance of Dormant Cell in Colorectal Cancer. Front Pharmacol 2022;13:879751. PMID: 35462906
  • Sobhani NC, Mernoff R, Abraha M, Okorie CN et al. Integrated analysis of transcriptomic datasets to identify placental biomarkers of spontaneous preterm birth. Placenta 2022 May;122:66-73. PMID: 35462239
  • Luo P, Fang J, Chen H, He F et al. c-Myb-mediated inhibition of miR-601 in facilitating malignance of osteosarcoma via augmentation of PKMYT1. Sci Rep 2022 Apr 23;12(1):6692. PMID: 35461324
  • Li C, Wang R, Wu A, Yuan T et al. SARS-COV-2 as potential microRNA sponge in COVID-19 patients. BMC Med Genomics 2022 Apr 23;15(Suppl 2):94. PMID: 35461273
  • Zhang X, He D, Xiang Y, Wang C et al. DYSF promotes monocyte activation in atherosclerotic cardiovascular disease as a DNA methylation-driven gene. Transl Res 2022 Sep;247:19-38. PMID: 35460889
  • Nalbandian M, Zhao M, Kato H, Jonouchi T et al. Single-cell RNA-seq reveals heterogeneity in hiPSC-derived muscle progenitors and E2F family as a key regulator of proliferation. Life Sci Alliance 2022 Aug;5(8). PMID: 35459735
  • Alothman SJ, Kang K, Liu X, Krawczyk E et al. Characterization of transcriptome diversity and in vitro behavior of primary human high-risk breast cells. Sci Rep 2022 Apr 22;12(1):6159. PMID: 35459280
  • Farrelly LA, Zheng S, Schrode N, Topol A et al. Chromatin profiling in human neurons reveals aberrant roles for histone acetylation and BET family proteins in schizophrenia. Nat Commun 2022 Apr 22;13(1):2195. PMID: 35459277
  • Chen ZW, Hu JF, Wang ZW, Liao CY et al. Circular RNA circ-MTHFD1L induces HR repair to promote gemcitabine resistance via the miR-615-3p/RPN6 axis in pancreatic ductal adenocarcinoma. J Exp Clin Cancer Res 2022 Apr 23;41(1):153. PMID: 35459186
  • Bobrovskikh AV, Zubairova US, Bondar EI, Lavrekha VV et al. Transcriptomic Data Meta-Analysis Sheds Light on High Light Response in Arabidopsis thaliana L. Int J Mol Sci 2022 Apr 18;23(8). PMID: 35457273
  • Liu M, Wang Z, Wang C, Pan X et al. Identification of the Wheat (Triticum aestivum) IQD Gene Family and an Expression Analysis of Candidate Genes Associated with Seed Dormancy and Germination. Int J Mol Sci 2022 Apr 7;23(8). PMID: 35456910
  • Duan L, Liu X, Luo Z, Zhang C et al. G-Protein Subunit Gamma 4 as a Potential Biomarker for Predicting the Response of Chemotherapy and Immunotherapy in Bladder Cancer. Genes (Basel) 2022 Apr 14;13(4). PMID: 35456499
  • Khan MM, Mohsen MT, Malik MZ, Bagabir SA et al. Identification of Potential Key Genes in Prostate Cancer with Gene Expression, Pivotal Pathways and Regulatory Networks Analysis Using Integrated Bioinformatics Methods. Genes (Basel) 2022 Apr 8;13(4). PMID: 35456461
  • Rodríguez-Ortiz A, Montoya-Villegas JC, García-Vallejo F, Mina-Paz Y et al. Integrated Quantitative Neuro-Transcriptome Analysis of Several Brain Areas in Human Trisomy 21. Genes (Basel) 2022 Apr 1;13(4). PMID: 35456434
  • Eun JW, Jang JW, Yang HD, Kim J et al. Serum Proteins, HMMR, NXPH4, PITX1 and THBS4; A Panel of Biomarkers for Early Diagnosis of Hepatocellular Carcinoma. J Clin Med 2022 Apr 11;11(8). PMID: 35456219
  • Alfonso Perez G, Caballero Villarraso J et al. Neural Network Aided Detection of Huntington Disease. J Clin Med 2022 Apr 10;11(8). PMID: 35456203
  • Alfert A, Walter C, Moreno N, Melcher V et al. Smarcb1 Loss Results in a Deregulation of esBAF Binding and Impacts the Expression of Neurodevelopmental Genes. Cells 2022 Apr 15;11(8). PMID: 35456033
  • Preisendörfer S, Ishikawa Y, Hennen E, Winklmeier S et al. FK506-Binding Protein 11 Is a Novel Plasma Cell-Specific Antibody Folding Catalyst with Increased Expression in Idiopathic Pulmonary Fibrosis. Cells 2022 Apr 14;11(8). PMID: 35456020
  • Kenn M, Karch R, Cacsire Castillo-Tong D, Singer CF et al. Decision Theory versus Conventional Statistics for Personalized Therapy of Breast Cancer. J Pers Med 2022 Apr 2;12(4). PMID: 35455687
  • Swindell WR, Bojanowski K, Chaudhuri RK et al. Transcriptomic Analysis of Fumarate Compounds Identifies Unique Effects of Isosorbide Di-(Methyl Fumarate) on NRF2, NF-kappaB and IRF1 Pathway Genes. Pharmaceuticals (Basel) 2022 Apr 11;15(4). PMID: 35455458
  • Lee JH, Choi N, Kim S, Jin MS et al. Eltrombopag as an Allosteric Inhibitor of the METTL3-14 Complex Affecting the m(6)A Methylation of RNA in Acute Myeloid Leukemia Cells. Pharmaceuticals (Basel) 2022 Apr 1;15(4). PMID: 35455436
  • Chen T, Kim KY, Oh Y, Jeung HC et al. Implication of COPB2 Expression on Cutaneous Squamous Cell Carcinoma Pathogenesis. Cancers (Basel) 2022 Apr 18;14(8). PMID: 35454945
  • Minna E, Romeo P, Dugo M, De Cecco L et al. Medullary Thyroid Carcinoma Mutational Spectrum Update and Signaling-Type Inference by Transcriptional Profiles: Literature Meta-Analysis and Study of Tumor Samples. Cancers (Basel) 2022 Apr 13;14(8). PMID: 35454858
  • D'Angiolini S, Chiricosta L, Mazzon E et al. Sphingolipid Metabolism as a New Predictive Target Correlated with Aging and AD: A Transcriptomic Analysis. Medicina (Kaunas) 2022 Mar 30;58(4). PMID: 35454332
  • Hu X, Zhu H, Chen B, He X et al. Tubulin Alpha 1b Is Associated with the Immune Cell Infiltration and the Response of HCC Patients to Immunotherapy. Diagnostics (Basel) 2022 Mar 30;12(4). PMID: 35453905
  • Li Z, Guo W, Ding S, Feng K et al. Detecting Blood Methylation Signatures in Response to Childhood Cancer Radiotherapy via Machine Learning Methods. Biology (Basel) 2022 Apr 15;11(4). PMID: 35453806
  • Scalavino V, Piccinno E, Lacalamita A, Tafaro A et al. miR-195-5p Regulates Tight Junctions Expression via Claudin-2 Downregulation in Ulcerative Colitis. Biomedicines 2022 Apr 16;10(4). PMID: 35453669
  • Cavalcante GC, Brito LM, Schaan AP, Ribeiro-Dos-Santos  et al. Mitochondrial Genetics Reinforces Multiple Layers of Interaction in Alzheimer's Disease. Biomedicines 2022 Apr 12;10(4). PMID: 35453630
  • Lv Y, Lv X, Zhang J, Cao G et al. BRD4 Targets the KEAP1-Nrf2-G6PD Axis and Suppresses Redox Metabolism in Small Cell Lung Cancer. Antioxidants (Basel) 2022 Mar 29;11(4). PMID: 35453346
  • Roth M, Jaquet V, Lemeille S, Bonetti EJ et al. Transcriptomic Analysis of E. coli after Exposure to a Sublethal Concentration of Hydrogen Peroxide Revealed a Coordinated Up-Regulation of the Cysteine Biosynthesis Pathway. Antioxidants (Basel) 2022 Mar 28;11(4). PMID: 35453340
  • Tong X, Li WX, Liang J, Zheng Y et al. Two different aging paths in human blood revealed by integrated analysis of gene Expression, mutation and alternative splicing. Gene 2022 Jun 30;829:146501. PMID: 35452709
  • Zhao J, Chen S, Yang C, Zhou M et al. Activation of CXCL13/CXCR5 axis aggravates experimental autoimmune cystitis and interstitial cystitis/bladder pain syndrome. Biochem Pharmacol 2022 Jun;200:115047. PMID: 35452631
  • Muhl L, He L, Sun Y, Andaloussi Mäe M et al. The SARS-CoV-2 receptor ACE2 is expressed in mouse pericytes but not endothelial cells: Implications for COVID-19 vascular research. Stem Cell Reports 2022 May 10;17(5):1089-1104. PMID: 35452595
  • Nguyen TB, Do DN, Nguyen TTP, Nguyen TL et al. Immune-related biomarkers shared by inflammatory bowel disease and liver cancer. PLoS One 2022;17(4):e0267358. PMID: 35452485
  • Su H, Yu S, Sun F, Lin D et al. LINC00342 induces metastasis of lung adenocarcinoma by targeting miR-15b/TPBG. Acta Biochim Pol 2022 Apr 22;69(2):291-297. PMID: 35452205
  • Fan L, Lei H, Lin Y, Zhou Z et al. Hotair promotes the migration and proliferation in ovarian cancer by miR-222-3p/CDK19 axis. Cell Mol Life Sci 2022 Apr 22;79(5):254. PMID: 35451651
  • Zhang T, Zheng R, Li M, Yan C et al. Active endogenous retroviral elements in human pluripotent stem cells play a role in regulating host gene expression. Nucleic Acids Res 2022 May 20;50(9):4959-4973. PMID: 35451484
  • Huang M, Xiao L, Sun Y, Hu D et al. Multivariable prognostic model for heart failure in Chinese Han population-based setting. ESC Heart Fail 2022 Aug;9(4):2388-2398. PMID: 35451240
  • Wang T, Xia P, Su P et al. High-Dimensional DNA Methylation Mediates the Effect of Smoking on Crohn's Disease. Front Genet 2022;13:831885. PMID: 35450213
  • Yan B, Ren F, Shang W, Gong X et al. Transcriptomic Analysis Reveals Genetic Cross-Talk between Periodontitis and Hypothyroidism. Dis Markers 2022;2022:5736394. PMID: 35450027
  • Liu YJ, Han M, Li JP, Zeng SH et al. An Analysis Regarding the Association Between Connexins and Colorectal Cancer (CRC) Tumor Microenvironment. J Inflamm Res 2022;15:2461-2476. PMID: 35449599
  • Wan S, He Y, Zhang B, Yang Z et al. Overexpression of CDCA8 Predicts Poor Prognosis and Promotes Tumor Cell Growth in Prostate Cancer. Front Oncol 2022;12:784183. PMID: 35449575
  • Ming R, Li X, Wang E, Wei J et al. The Prognostic Signature of Head and Neck Squamous Cell Carcinoma Constructed by Immune-Related RNA-Binding Proteins. Front Oncol 2022;12:795781. PMID: 35449571
  • Gonzalo L, Tossolini I, Gulanicz T, Cambiagno DA et al. R-loops at microRNA encoding loci promote co-transcriptional processing of pri-miRNAs in plants. Nat Plants 2022 Apr;8(4):402-418. PMID: 35449404
  • Lu F, Ma Q, Xie W, Liou CL et al. CMYA5 establishes cardiac dyad architecture and positioning. Nat Commun 2022 Apr 21;13(1):2185. PMID: 35449169
  • Yu J, Yang K, Zheng J, Zhao P et al. Activation of FXR and inhibition of EZH2 synergistically inhibit colorectal cancer through cooperatively accelerating FXR nuclear location and upregulating CDX2 expression. Cell Death Dis 2022 Apr 21;13(4):388. PMID: 35449124
  • Ghobadi MZ, Emamzadeh R, Afsaneh E et al. Exploration of mRNAs and miRNA classifiers for various ATLL cancer subtypes using machine learning. BMC Cancer 2022 Apr 21;22(1):433. PMID: 35449091
  • Li X, Li J, Xu L, Wei W et al. CDK16 promotes the progression and metastasis of triple-negative breast cancer by phosphorylating PRC1. J Exp Clin Cancer Res 2022 Apr 21;41(1):149. PMID: 35449080
  • Ghosh AJ, Hobbs BD, Yun JH, Saferali A et al. Lung tissue shows divergent gene expression between chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis. Respir Res 2022 Apr 21;23(1):97. PMID: 35449067
  • Rahiminejad S, Maurya MR, Mukund K, Subramaniam S et al. Modular and mechanistic changes across stages of colorectal cancer. BMC Cancer 2022 Apr 21;22(1):436. PMID: 35448980
  • Zipper L, Batchu S, Kaya NH, Antonello ZA et al. The MicroRNA miR-277 Controls Physiology and Pathology of the Adult Drosophila Midgut by Regulating the Expression of Fatty Acid β-Oxidation-Related Genes in Intestinal Stem Cells. Metabolites 2022 Mar 31;12(4). PMID: 35448502
  • Chaudhry ZL, Gamal M, Ferhati I, Warda M et al. ER Stress in COVID-19 and Parkinson's Disease: In Vitro and In Silico Evidences. Brain Sci 2022 Apr 16;12(4). PMID: 35448038
  • Hong L, Xu L, Jin L, Xu K et al. Exosomal circular RNA hsa_circ_0006220, and hsa_circ_0001666 as biomarkers in the diagnosis of pancreatic cancer. J Clin Lab Anal 2022 Jun;36(6):e24447. PMID: 35446993
  • Dérian N, Pham HP, Nehar-Belaid D, Tchitchek N et al. The Tsallis generalized entropy enhances the interpretation of transcriptomics datasets. PLoS One 2022;17(4):e0266618. PMID: 35446844
  • Milicic L, Vacher M, Porter T, Doré V et al. Comprehensive analysis of epigenetic clocks reveals associations between disproportionate biological ageing and hippocampal volume. Geroscience 2022 Jun;44(3):1807-1823. PMID: 35445885
  • Wu X, Dong S, Xu Y, Zhu G et al. Evaluation of JUN, FN1 and LAMB1 polymorphisms in pterygium in a Chinese Han population. Ophthalmic Genet 2022 Aug;43(4):488-495. PMID: 35445627
  • Deng Y, Chen X, Huang C, Song J et al. Screening and Validation of Significant Genes with Poor Prognosis in Pathologic Stage-I Lung Adenocarcinoma. J Oncol 2022;2022:3794021. PMID: 35444699
  • Lv W, Yu H, Han M, Tan Y et al. Analysis of Tumor Glycosylation Characteristics and Implications for Immune Checkpoint Inhibitor's Efficacy for Breast Cancer. Front Immunol 2022;13:830158. PMID: 35444644
  • Khokhar M, Tomo S, Gadwal A, Purohit P et al. Multi-omics integration and interactomics reveals molecular networks and regulators of the beneficial effect of yoga and exercise. Int J Yoga 2022 Jan-Apr;15(1):25-39. PMID: 35444372
  • He X, Sun X, Shao Y et al. Network-based survival analysis to discover target genes for developing cancer immunotherapies and predicting patient survival. J Appl Stat 2021;48(8):1352-1373. PMID: 35444359
  • Chou C, Zhang X, Krishna C, Nixon BG et al. Programme of self-reactive innate-like T cell-mediated cancer immunity. Nature 2022 May;605(7908):139-145. PMID: 35444279
  • Wu B, Zhang X, Chiang HC, Pan H et al. RNA polymerase II pausing factor NELF in CD8(+) T cells promotes antitumor immunity. Nat Commun 2022 Apr 20;13(1):2155. PMID: 35444206
  • Eichler M, Distler U, Nasrullah U, Krishnan A et al. The caspase-2 substrate p54nrb exhibits a multifaceted role in tumor cell death susceptibility via gene regulatory functions. Cell Death Dis 2022 Apr 20;13(4):386. PMID: 35444189
  • Hu X, Zhang J, Bu J, Yang K et al. MiR-4733-5p promotes gallbladder carcinoma progression via directly targeting kruppel like factor 7. Bioengineered 2022 Apr;13(4):10691-10706. PMID: 35443866
  • Hamilton LK, Moquin-Beaudry G, Mangahas CL, Pratesi F et al. Stearoyl-CoA Desaturase inhibition reverses immune, synaptic and cognitive impairments in an Alzheimer's disease mouse model. Nat Commun 2022 Apr 20;13(1):2061. PMID: 35443751
  • Wang CX, Zhang L, Wang B et al. One Cell At a Time (OCAT): a unified framework to integrate and analyze single-cell RNA-seq data. Genome Biol 2022 Apr 20;23(1):102. PMID: 35443717
  • Firoozbakht F, Rezaeian I, Rueda L, Ngom A et al. Computationally repurposing drugs for breast cancer subtypes using a network-based approach. BMC Bioinformatics 2022 Apr 20;23(1):143. PMID: 35443626
  • Hunter AL, Poolman TM, Kim D, Gonzalez FJ et al. HNF4A modulates glucocorticoid action in the liver. Cell Rep 2022 Apr 19;39(3):110697. PMID: 35443180
  • Cortes JR, Filip I, Albero R, Patiño-Galindo JA et al. Oncogenic Vav1-Myo1f induces therapeutically targetable macrophage-rich tumor microenvironment in peripheral T cell lymphoma. Cell Rep 2022 Apr 19;39(3):110695. PMID: 35443168
  • Timmerman DM, Eleveld TF, Sriram S, Dorssers LCJ et al. Chromosome 3p25.3 Gain Is Associated With Cisplatin Resistance and Is an Independent Predictor of Poor Outcome in Male Malignant Germ Cell Tumors. J Clin Oncol 2022 Sep 10;40(26):3077-3087. PMID: 35442716
  • Bhawe K, Das JK, Yoo C, Felty Q et al. Nuclear respiratory factor 1 transcriptomic signatures as prognostic indicators of recurring aggressive mesenchymal glioblastoma and resistance to therapy in White American females. J Cancer Res Clin Oncol 2022 Jul;148(7):1641-1682. PMID: 35441887
  • Garcia G Jr, Wang Y, Ignatius Irudayam J, Jeyachandran AV et al. Hippo Signaling Pathway Activation during SARS-CoV-2 Infection Contributes to Host Antiviral Response. bioRxiv 2022 Apr 8 PMID: 35441167
  • Fleig S, Kapanadze T, Bernier-Latmani J, Lill JK et al. Loss of vascular endothelial notch signaling promotes spontaneous formation of tertiary lymphoid structures. Nat Commun 2022 Apr 19;13(1):2022. PMID: 35440634
  • Wonkam A, Adadey SM, Schrauwen I, Aboagye ET et al. Exome sequencing of families from Ghana reveals known and candidate hearing impairment genes. Commun Biol 2022 Apr 19;5(1):369. PMID: 35440622
  • Aljahani A, Hua P, Karpinska MA, Quililan K et al. Analysis of sub-kilobase chromatin topology reveals nano-scale regulatory interactions with variable dependence on cohesin and CTCF. Nat Commun 2022 Apr 19;13(1):2139. PMID: 35440598
  • Lehman NL, Spassky N, Sak M, Webb A et al. Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes. Nat Commun 2022 Apr 19;13(1):2083. PMID: 35440587
  • Cao X, Li W, Wang T, Ran D et al. Accelerated biological aging in COVID-19 patients. Nat Commun 2022 Apr 19;13(1):2135. PMID: 35440567
  • Bell CR, Pelly VS, Moeini A, Chiang SC et al. Chemotherapy-induced COX-2 upregulation by cancer cells defines their inflammatory properties and limits the efficacy of chemoimmunotherapy combinations. Nat Commun 2022 Apr 19;13(1):2063. PMID: 35440553
  • Bornelöv S, Czech B, Hannon GJ et al. An evolutionarily conserved stop codon enrichment at the 5' ends of mammalian piRNAs. Nat Commun 2022 Apr 19;13(1):2118. PMID: 35440552
  • Ham DJ, Börsch A, Chojnowska K, Lin S et al. Distinct and additive effects of calorie restriction and rapamycin in aging skeletal muscle. Nat Commun 2022 Apr 19;13(1):2025. PMID: 35440545
  • Mohammadi Ghahhari N, Sznurkowska MK, Hulo N, Bernasconi L et al. Cooperative interaction between ERα and the EMT-inducer ZEB1 reprograms breast cancer cells for bone metastasis. Nat Commun 2022 Apr 19;13(1):2104. PMID: 35440541
  • Sork VL, Cokus SJ, Fitz-Gibbon ST, Zimin AV et al. High-quality genome and methylomes illustrate features underlying evolutionary success of oaks. Nat Commun 2022 Apr 19;13(1):2047. PMID: 35440538
  • Li Z, McGinn O, Wu Y, Bahreini A et al. ESR1 mutant breast cancers show elevated basal cytokeratins and immune activation. Nat Commun 2022 Apr 19;13(1):2011. PMID: 35440136
  • Chen B, Hu J, Hu X, Chen H et al. DENR controls JAK2 translation to induce PD-L1 expression for tumor immune evasion. Nat Commun 2022 Apr 19;13(1):2059. PMID: 35440133
  • Wang G, Wen B, Deng Z, Zhang Y et al. Endothelial progenitor cells stimulate neonatal lung angiogenesis through FOXF1-mediated activation of BMP9/ACVRL1 signaling. Nat Commun 2022 Apr 19;13(1):2080. PMID: 35440116
  • Erdogmus S, Concepcion AR, Yamashita M, Sidhu I et al. Cavβ1 regulates T cell expansion and apoptosis independently of voltage-gated Ca(2+) channel function. Nat Commun 2022 Apr 19;13(1):2033. PMID: 35440113
  • Daoud EV, Zhu K, Mickey B, Mohamed H et al. Epigenetic and genomic profiling of chordoid meningioma: implications for clinical management. Acta Neuropathol Commun 2022 Apr 19;10(1):56. PMID: 35440040
  • Grinman DY, Boras-Granic K, Takyar FM, Dann P et al. PTHrP induces STAT5 activation, secretory differentiation and accelerates mammary tumor development. Breast Cancer Res 2022 Apr 19;24(1):30. PMID: 35440032
  • Moon H, Park H, Chae MJ, Choi HJ et al. Activated TAZ induces liver cancer in collaboration with EGFR/HER2 signaling pathways. BMC Cancer 2022 Apr 19;22(1):423. PMID: 35439973
  • Zheng Z, Xie W, Chen X, Wang F et al. Subclass-Specific Prognosis and Treatment Efficacy Inference in Head and Neck Squamous Carcinoma. IEEE J Biomed Health Inform 2022 Aug;26(8):4303-4313. PMID: 35439152
  • Gao R, Tang J, Dong Y, Ming B et al. The aberrant levels of decorin induce damages of human salivary gland epithelial cells and polarization of macrophages. Mod Rheumatol 2023 Apr 13;33(3):557-565. PMID: 35438773
  • Hertweck A, Vila de Mucha M, Barber PR, Dagil R et al. The TH1 cell lineage-determining transcription factor T-bet suppresses TH2 gene expression by redistributing GATA3 away from TH2 genes. Nucleic Acids Res 2022 May 6;50(8):4557-4573. PMID: 35438764
  • Fang Y, Wang Q, Huang K, Zhang M et al. Human cytomegalovirus-induced immune regulation is correlated with poor prognosis in patients with colorectal cancer. Clin Exp Med 2023 Jun;23(2):427-436. PMID: 35437646
  • Liu DB, He YF, Chen GJ, Huang H et al. Construction of a circRNA-Mediated ceRNA Network Reveals Novel Biomarkers for Aortic Dissection. Int J Gen Med 2022;15:3951-3964. PMID: 35437351
  • Zhang H, Sun H, Zhang W, Xu Y et al. Identification of Key Genes and Potential Mechanisms Based on the Autophagy Regulatory Network in Osteoclasts Using a Murine Osteoarthritis Model. J Inflamm Res 2022;15:2333-2347. PMID: 35437349
  • Fan ZL, Yang LY, Zhang N, Feng D et al. NEFL promotes invasion and migration of esophageal squamous carcinoma cells via the EGFR/AKT/S6 pathway. Yi Chuan 2022 Apr 20;44(4):322-334. PMID: 35437240
  • Li Q, Yang H, Wang P, Liu X et al. XGBoost-based and tumor-immune characterized gene signature for the prediction of metastatic status in breast cancer. J Transl Med 2022 Apr 18;20(1):177. PMID: 35436939
  • Saghi M, InanlooRahatloo K, Alavi A, Kahrizi K et al. Intellectual disability associated with craniofacial dysmorphism due to POLR3B mutation and defect in spliceosomal machinery. BMC Med Genomics 2022 Apr 18;15(1):89. PMID: 35436926
  • Yin X, Wu Q, Hao Z, Chen L et al. Identification of novel prognostic targets in glioblastoma using bioinformatics analysis. Biomed Eng Online 2022 Apr 18;21(1):26. PMID: 35436915
  • Lai H, Liu X, Xin S, Zheng J et al. Identification of two novel pathogenic variants of the NR1H4 gene in intrahepatic cholestasis of pregnancy patients. BMC Med Genomics 2022 Apr 18;15(1):90. PMID: 35436901
  • El Kharbili M, Aviszus K, Sasse SK, Zhao X et al. Macrophage programming is regulated by a cooperative interaction between fatty acid binding protein 5 and peroxisome proliferator-activated receptor γ. FASEB J 2022 May;36(5):e22300. PMID: 35436029
  • Zhou X, Liu G, Lin M, Li L et al. Identification of LHFPL3-AS2 as a prognostic biomarker in lung adenocarcinoma. Indian J Pathol Microbiol 2022 Apr-Jun;65(2):288-295. PMID: 35435361
  • Velásquez-Zapata V, Elmore JM, Fuerst G, Wise RP et al. An interolog-based barley interactome as an integration framework for immune signaling. Genetics 2022 May 31;221(2). PMID: 35435213
  • Xu Q, Yang Y, Zhang X, Cai JJ et al. Association of pyroptosis and severeness of COVID-19 as revealed by integrated single-cell transcriptome data analysis. Immunoinformatics (Amst) 2022 Jun;6:100013. PMID: 35434695
  • Duong TE, Wu Y, Sos BC, Dong W et al. A single-cell regulatory map of postnatal lung alveologenesis in humans and mice. Cell Genom 2022 Mar 9;2(3). PMID: 35434692
  • Ghazizadeh Z, Zhu J, Fattahi F, Tang A et al. A dual SHOX2:GFP; MYH6:mCherry knockin hESC reporter line for derivation of human SAN-like cells. iScience 2022 Apr 15;25(4):104153. PMID: 35434558
  • Yang J, Pan Y, Peng L, Zhang L et al. Upregulation of Synuclein-γ and Snai1 Contributes to Poor Clinical Prognosis in Oral Squamous Cell Carcinoma Patients. Biomed Res Int 2022;2022:6534626. PMID: 35434126
  • Bian Y, Huang J, Zeng Z, Yao H et al. Construction of survival-related co-expression modules and identification of potential prognostic biomarkers of osteosarcoma using WGCNA. Ann Transl Med 2022 Mar;10(6):296. PMID: 35434042
  • Wang YY, Shi LY, Zhu ZT, Wang QJ et al. A new pyroptosis model can predict the immunotherapy response and immune microenvironment characteristics and prognosis of patients with cutaneous melanoma based on TCGA and GEO databases. Ann Transl Med 2022 Mar;10(6):353. PMID: 35434038
  • Lin Z, Xu Y, Guan L, Qin L et al. Seven ferroptosis-specific expressed genes are considered as potential biomarkers for the diagnosis and treatment of cigarette smoke-induced chronic obstructive pulmonary disease. Ann Transl Med 2022 Mar;10(6):331. PMID: 35433978
  • Fu Y, Mao Y, Chen R, Yu A et al. Integrative analysis of key microRNA-mRNA complexes and pathways in aortic aneurysm. Ann Transl Med 2022 Mar;10(6):358. PMID: 35433971
  • Yang Y, Liu P, Teng R, Liu F et al. Integrative bioinformatics analysis of potential therapeutic targets and immune infiltration characteristics in dilated cardiomyopathy. Ann Transl Med 2022 Mar;10(6):348. PMID: 35433958
  • Xu M, Guo YY, Li D, Cen XF et al. Screening of Lipid Metabolism-Related Gene Diagnostic Signature for Patients With Dilated Cardiomyopathy. Front Cardiovasc Med 2022;9:853468. PMID: 35433888
  • Yao Z, Zhang B, Niu G, Yan Z et al. Subunits of C1Q Are Associated With the Progression of Intermittent Claudication to Chronic Limb-Threatening Ischemia. Front Cardiovasc Med 2022;9:864461. PMID: 35433866
  • Zhang Q, Fan M, Cao X, Geng H et al. Integrated Bioinformatics Algorithms and Experimental Validation to Explore Robust Biomarkers and Landscape of Immune Cell Infiltration in Dilated Cardiomyopathy. Front Cardiovasc Med 2022;9:809470. PMID: 35433865
  • Deng L, Long F, Wang T, Dai L et al. Identification of an Immune Classification and Prognostic Genes for Lung Adenocarcinoma Based on Immune Cell Signatures. Front Med (Lausanne) 2022;9:855387. PMID: 35433762
  • Dong X, Akuetteh PDP, Song J, Ni C et al. Major Vault Protein (MVP) Associated With BRAF (V600E) Mutation Is an Immune Microenvironment-Related Biomarker Promoting the Progression of Papillary Thyroid Cancer via MAPK/ERK and PI3K/AKT Pathways. Front Cell Dev Biol 2021;9:688370. PMID: 35433709
  • Yue L, Zhang R, Chen S, Duan G et al. Risk Score Prediction Model of Prognosis in GC Patients by Age and Gender Combined With m6A Modification Genes FTO and RBM15. Front Cell Dev Biol 2022;10:710708. PMID: 35433701
  • Shi X, Pan J, Qiu F, Wu L et al. Multiscale Transcriptomic Integration Reveals B-Cell Depletion and T-Cell Mistrafficking in Nasopharyngeal Carcinoma Progression. Front Cell Dev Biol 2022;10:857137. PMID: 35433690
  • Zhou W, Li J et al. Integrated Analysis of Genes Associated With Immune Microenvironment and Distant Metastasis in Uveal Melanoma. Front Cell Dev Biol 2022;10:874839. PMID: 35433689
  • Song C, Zhang J, Liu Y, Hu Y et al. Characterization and Validation of ceRNA-Mediated Pathway-Pathway Crosstalk Networks Across Eight Major Cardiovascular Diseases. Front Cell Dev Biol 2022;10:762129. PMID: 35433687
  • Gu H, Liang C et al. Construction and Validation of a 15-Top-prognostic-gene-based Signature to Indicate the Dichotomized Clinical Outcome and Response to Targeted Therapy for Bladder Cancer Patients. Front Cell Dev Biol 2022;10:725024. PMID: 35433683
  • Liu Y, Sun J, Han D, Cui S et al. Identification of Potential Biomarkers and Small Molecule Drugs for Cutaneous Melanoma Using Integrated Bioinformatic Analysis. Front Cell Dev Biol 2022;10:858633. PMID: 35433681
  • Phyo SA, Uchida K, Chen CY, Caporizzo MA et al. Transcriptional, Post-Transcriptional, and Post-Translational Mechanisms Rewrite the Tubulin Code During Cardiac Hypertrophy and Failure. Front Cell Dev Biol 2022;10:837486. PMID: 35433678
  • Ferdousi F, Isoda H et al. Regulating Early Biological Events in Human Amniotic Epithelial Stem Cells Using Natural Bioactive Compounds: Extendable Multidirectional Research Avenues. Front Cell Dev Biol 2022;10:865810. PMID: 35433672
  • Wu KY, Cao B, Wang CX, Yang XL et al. The C5a/C5aR1 Axis Contributes to the Pathogenesis of Acute Cystitis Through Enhancement of Adhesion and Colonization of Uropathogenic E. coli. Front Cell Infect Microbiol 2022;12:824505. PMID: 35433513
  • Huang X, Zhao L, Jin Y, Wang Z et al. Up-Regulated MISP Is Associated With Poor Prognosis and Immune Infiltration in Pancreatic Ductal Adenocarcinoma. Front Oncol 2022;12:827051. PMID: 35433491
  • Wang R, Guo Y, Ma P, Song Y et al. Comprehensive Analysis of 5-Methylcytosine (m(5)C) Regulators and the Immune Microenvironment in Pancreatic Adenocarcinoma to Aid Immunotherapy. Front Oncol 2022;12:851766. PMID: 35433474
  • Zeng X, Li L, Hu Z, Peng D et al. Integrated Multi-Omics Analysis Identified PTPRG and CHL1 as Key Regulators of Immunophenotypes in Clear Cell Renal Cell Carcinoma(ccRCC). Front Oncol 2022;12:832027. PMID: 35433461
  • Gao D, Zhang Z, Xu R, He Z et al. The Prognostic Value and Immune Infiltration of USP10 in Pan-Cancer: A Potential Therapeutic Target. Front Oncol 2022;12:829705. PMID: 35433424
  • Lu L, Zhang P, Cao X, Guan M et al. Prognosis and Characterization of Immune Microenvironment in Head and Neck Squamous Cell Carcinoma through a Pyroptosis-Related Signature. J Oncol 2022;2022:1539659. PMID: 35432539
  • Zhang W, Deng X, Liu H, Ke J et al. Identification and Verification of Potential Hub Genes in Amphetamine-Type Stimulant (ATS) and Opioid Dependence by Bioinformatic Analysis. Front Genet 2022;13:837123. PMID: 35432486
  • Lin D, Zhao W, Yang J, Wang H et al. Integrative Analysis of Biomarkers and Mechanisms in Adamantinomatous Craniopharyngioma. Front Genet 2022;13:830793. PMID: 35432485
  • Lin Y, Ma HY, Wang Y, He J et al. Identification of Potential Core Genes for the Rupture of Intracranial Aneurysms by a Bioinformatics Analysis. Front Genet 2022;13:875007. PMID: 35432454
  • Zheng ZJ, Li YS, Zhu JD, Zou HY et al. Construction of the Six-lncRNA Prognosis Signature as a Novel Biomarker in Esophageal Squamous Cell Carcinoma. Front Genet 2022;13:839589. PMID: 35432441
  • Wang X, Wang C, Zhang Z, Shi G et al. Genome-wide Identification of Metal Tolerance Protein Genes in Peanut: Differential Expression in the Root of Two Contrasting Cultivars Under Metal Stresses. Front Plant Sci 2022;13:791200. PMID: 35432419
  • Teng L, Shen L, Zhao W, Wang C et al. SLAMF8 Participates in Acute Renal Transplant Rejection via TLR4 Pathway on Pro-Inflammatory Macrophages. Front Immunol 2022;13:846695. PMID: 35432371
  • Gao Z, Xu J, Zhang Z, Fan Y et al. A Comprehensive Analysis of METTL1 to Immunity and Stemness in Pan-Cancer. Front Immunol 2022;13:795240. PMID: 35432338
  • Feng L, Tian R, Mu X, Chen C et al. Identification of Genes Linking Natural Killer Cells to Apoptosis in Acute Myocardial Infarction and Ischemic Stroke. Front Immunol 2022;13:817377. PMID: 35432334
  • Shen XT, Xie SZ, Xu J, Yang LY et al. Pan-Cancer Analysis Reveals a Distinct Neutrophil Extracellular Trap-Associated Regulatory Pattern. Front Immunol 2022;13:798022. PMID: 35432310
  • Hu Y, Zeng N, Ge Y, Wang D et al. Identification of the Shared Gene Signatures and Biological Mechanism in Type 2 Diabetes and Pancreatic Cancer. Front Endocrinol (Lausanne) 2022;13:847760. PMID: 35432196
  • Diao M, Wu Y, Yang J, Liu C et al. Identification of Novel Key Molecular Signatures in the Pathogenesis of Experimental Diabetic Kidney Disease. Front Endocrinol (Lausanne) 2022;13:843721. PMID: 35432190
  • Dong H, Du L, Cai S, Lin W et al. Tyrosine Phosphatase PTPRO Deficiency in ERBB2-Positive Breast Cancer Contributes to Poor Prognosis and Lapatinib Resistance. Front Pharmacol 2022;13:838171. PMID: 35431974
  • Ding Y, Hou Y, Liu Y, Yu T et al. MiR-130a-3p Alleviates Inflammatory and Fibrotic Phases of Pulmonary Fibrosis Through Proinflammatory Factor TNF-α and Profibrogenic Receptor TGF-βRII. Front Pharmacol 2022;13:863646. PMID: 35431964
  • Zhang Z, Wang F, Zhang J, Zhan W et al. An m6A-Related lncRNA Signature Predicts the Prognosis of Hepatocellular Carcinoma. Front Pharmacol 2022;13:854851. PMID: 35431958
  • Zeng T, Chen G, Qiao X, Chen H et al. NUSAP1 Could be a Potential Target for Preventing NAFLD Progression to Liver Cancer. Front Pharmacol 2022;13:823140. PMID: 35431924
  • Guo J, Li W, Cheng L, Gao X et al. Identification and Validation of Hub Genes with Poor Prognosis in Hepatocellular Carcinoma by Integrated Bioinformatical Analysis. Int J Gen Med 2022;15:3933-3941. PMID: 35431572
  • Shi ZE, Zhang MY, Liu JY, Zhang WD et al. Autophagy Induced by BCL2-Related ceRNA Network Participates in the Occurrence of COPD. Int J Chron Obstruct Pulmon Dis 2022;17:791-808. PMID: 35431545
  • Kang N, Xie X, Zhou X, Wang Y et al. Identification and validation of EMT-immune-related prognostic biomarkers CDKN2A, CMTM8 and ILK in colon cancer. BMC Gastroenterol 2022 Apr 16;22(1):190. PMID: 35429970
  • Cabiati M, Gaggini M, De Simone P, Del Ry S et al. Data mining of key genes expression in hepatocellular carcinoma: novel potential biomarkers of diagnosis prognosis or progression. Clin Exp Metastasis 2022 Aug;39(4):589-602. PMID: 35429302
  • Seo MK, Kang H, Kim S et al. Tumor microenvironment-aware, single-transcriptome prediction of microsatellite instability in colorectal cancer using meta-analysis. Sci Rep 2022 Apr 15;12(1):6283. PMID: 35428835
  • Brown MR, Laouteouet D, Delobel M, Villard O et al. The nuclear receptor REV-ERBα is implicated in the alteration of β-cell autophagy and survival under diabetogenic conditions. Cell Death Dis 2022 Apr 15;13(4):353. PMID: 35428762
  • Zhou T, Wang S, Song X, Liu W et al. RNF8 up-regulates AR/ARV7 action to contribute to advanced prostate cancer progression. Cell Death Dis 2022 Apr 15;13(4):352. PMID: 35428760
  • Li J, Feng G, He H, Wang H et al. Development of software enabling Chinese medicine-based precision treatment for osteoporosis at the gene and pathway levels. Chin Med 2022 Apr 15;17(1):47. PMID: 35428337
  • Zhang X, Zhang X, Liu P, Liu K et al. [Prognostic implications and functional enrichment analysis of LTB4R in patients with acute myeloid leukemia]. Nan Fang Yi Ke Da Xue Xue Bao 2022 Mar 20;42(3):309-320. PMID: 35426793
  • Liu X, Cheng C, Cai Y, Gu Y et al. Pan‑cancer analyses reveal the regulation and clinical outcome association of PCLAF in human tumors. Int J Oncol 2022 Jun;60(6). PMID: 35425993
  • Chen L, Tian B, Liu W, Liang H et al. Molecular Biomarker of Drug Resistance Developed From Patient-Derived Organoids Predicts Survival of Colorectal Cancer Patients. Front Oncol 2022;12:855674. PMID: 35425715
  • Feng A, Ma W, Faraj R, Black SM et al. SOX18-associated gene signature predicts sepsis outcome. Am J Transl Res 2022;14(3):1807-1817. PMID: 35422958
  • Ramadhani HF, Annisa A, Tedjo A, Noor DR et al. Combination of Enrichment Using Gene Ontology and Transcriptomic Analysis Revealed Contribution of Interferon Signaling to Severity of COVID-19. Interdiscip Perspect Infect Dis 2022;2022:3515001. PMID: 35422859
  • Zhou J, He S, Wang B, Yang W et al. Construction and Bioinformatics Analysis of circRNA-miRNA-mRNA Network in Acute Myocardial Infarction. Front Genet 2022;13:854993. PMID: 35422846
  • Su Z, Li Y, Chen S, Liu X et al. Identification of Ion Channel-Related Genes and miRNA-mRNA Networks in Mesial Temporal Lobe Epilepsy. Front Genet 2022;13:853529. PMID: 35422840
  • Wang B, Qin Y, Wu Q, Li X et al. mTOR Signaling Pathway Regulates the Release of Proinflammatory Molecule CCL5 Implicated in the Pathogenesis of Autism Spectrum Disorder. Front Immunol 2022;13:818518. PMID: 35422816
  • Li Z, Fang J, Chen S, Liu H et al. A Risk Model Developed Based on Necroptosis Predicts Overall Survival for Hepatocellular Carcinoma and Identification of Possible Therapeutic Drugs. Front Immunol 2022;13:870264. PMID: 35422802
  • Mai S, Liang L, Mai G, Liu X et al. Development and Validation of Lactate Metabolism-Related lncRNA Signature as a Prognostic Model for Lung Adenocarcinoma. Front Endocrinol (Lausanne) 2022;13:829175. PMID: 35422758
  • Yang M, Zheng H, Su Y, Xu K et al. Bioinformatics Analysis Identified the Hub Genes, mRNA-miRNA-lncRNA Axis, and Signaling Pathways Involved in Rheumatoid Arthritis Pathogenesis. Int J Gen Med 2022;15:3879-3893. PMID: 35422654
  • Erkin ÖC, Cömertpay B, Göv E et al. Integrative Analysis for Identification of Therapeutic Targets and Prognostic Signatures in Non-Small Cell Lung Cancer. Bioinform Biol Insights 2022;16:11779322221088796. PMID: 35422618
  • Yang K, Wang F, Li K, Peng G et al. N6-methyladenosine Modification-Related Long Non-Coding RNAs are Potential Biomarkers for Predicting the Prognosis of Patients With Osteosarcoma. Technol Cancer Res Treat 2022 Jan-Dec;21:15330338221085354. PMID: 35422168
  • Chiarini F, Paganelli F, Balestra T, Capanni C et al. Lamin A and the LINC complex act as potential tumor suppressors in Ewing Sarcoma. Cell Death Dis 2022 Apr 14;13(4):346. PMID: 35422060
  • Fei X, Xie X, Qin R, Wang A et al. Proteomics analysis: inhibiting the expression of P62 protein by chloroquine combined with dacarbazine can reduce the malignant progression of uveal melanoma. BMC Cancer 2022 Apr 14;22(1):408. PMID: 35421957
  • Chu J, Sun N, Hu W, Chen X et al. Bayesian hierarchical lasso Cox model: A 9-gene prognostic signature for overall survival in gastric cancer in an Asian population. PLoS One 2022;17(4):e0266805. PMID: 35421138
  • Zheng XS, Wang Q, Min J, Shen XR et al. Single-Cell Landscape of Lungs Reveals Key Role of Neutrophil-Mediated Immunopathology during Lethal SARS-CoV-2 Infection. J Virol 2022 May 11;96(9):e0003822. PMID: 35420442
  • Visser BJ, Sharma S, Chen PJ, McMullin AB et al. Psoralen mapping reveals a bacterial genome supercoiling landscape dominated by transcription. Nucleic Acids Res 2022 May 6;50(8):4436-4449. PMID: 35420137
  • Wang X, Ma L, Pei X, Wang H et al. Comprehensive assessment of cellular senescence in the tumor microenvironment. Brief Bioinform 2022 May 13;23(3). PMID: 35419596
  • Bell-Glenn S, Thompson JA, Salas LA, Koestler DC et al. A Novel Framework for the Identification of Reference DNA Methylation Libraries for Reference-Based Deconvolution of Cellular Mixtures. Front Bioinform 2022;2. PMID: 35419567
  • Luo C, Liu H, Xie F, Armand EJ et al. Single nucleus multi-omics identifies human cortical cell regulatory genome diversity. Cell Genom 2022 Mar 9;2(3). PMID: 35419551
  • Xie L, Dai R, Wang X, Xie G et al. Comprehensive Analysis Revealed the Potential Implications of m6A Regulators in Lung Adenocarcinoma. Front Mol Biosci 2022;9:806780. PMID: 35419413
  • Zhou Y, Lei D, Hu G, Luo F et al. A Cell Cycle-Related 13-mRNA Signature to Predict Prognosis in Hepatocellular Carcinoma. Front Oncol 2022;12:760190. PMID: 35419294
  • Ma L, Gong J, Zhao M, Kong X et al. A Novel Stool Methylation Test for the Non-Invasive Screening of Gastric and Colorectal Cancer. Front Oncol 2022;12:860701. PMID: 35419280
  • Shi H, Peng Q, Zhou X, He Y et al. An Efficient Signature Based on Necroptosis-Related Genes for Prognosis of Patients With Pancreatic Cancer. Front Genet 2022;13:848747. PMID: 35419022
  • Tang C, Fang M, Tan G, Zhang S et al. Discovery of Novel Circulating Immune Complexes in Lupus Nephritis Using Immunoproteomics. Front Immunol 2022;13:850015. PMID: 35419005
  • Feng S, Xia T, Ge Y, Zhang K et al. Computed Tomography Imaging-Based Radiogenomics Analysis Reveals Hypoxia Patterns and Immunological Characteristics in Ovarian Cancer. Front Immunol 2022;13:868067. PMID: 35418998
  • Xia QD, Sun JX, Xun Y, Xiao J et al. SUMOylation Pattern Predicts Prognosis and Indicates Tumor Microenvironment Infiltration Characterization in Bladder Cancer. Front Immunol 2022;13:864156. PMID: 35418978
  • Guo S, Sun Y et al. OTOP2, Inversely Modulated by miR-3148, Inhibits CRC Cell Migration, Proliferation and Epithelial-Mesenchymal Transition: Evidence from Bioinformatics Data Mining and Experimental Verification. Cancer Manag Res 2022;14:1371-1384. PMID: 35418782
  • Wu G, He M, Ren K, Ma H et al. Inducible Co-Stimulator ICOS Expression Correlates with Immune Cell Infiltration and Can Predict Prognosis in Lung Adenocarcinoma. Int J Gen Med 2022;15:3739-3751. PMID: 35418779
  • Han L, Wei X, Liu C, Volpe G et al. Cell transcriptomic atlas of the non-human primate Macaca fascicularis. Nature 2022 Apr;604(7907):723-731. PMID: 35418686
  • Calvanese V, Capellera-Garcia S, Ma F, Fares I et al. Mapping human haematopoietic stem cells from haemogenic endothelium to birth. Nature 2022 Apr;604(7906):534-540. PMID: 35418685
  • Guan J, Wang G, Wang J, Zhang Z et al. Chemical reprogramming of human somatic cells to pluripotent stem cells. Nature 2022 May;605(7909):325-331. PMID: 35418683
  • Jiang TMUnveiling the Time Course Mechanism of Bone Fracture Healing by Transcriptional Profiles. Comb Chem High Throughput Screen 2023;26(1):149-162. PMID: 35418283
  • Klinke DJ II, Fernandez A, Deng W, Razazan A et al. Data-driven learning how oncogenic gene expression locally alters heterocellular networks. Nat Commun 2022 Apr 13;13(1):1986. PMID: 35418177
  • Wu Q, Li L, Miao C, Hasnat M et al. Osteopontin promotes hepatocellular carcinoma progression through inducing JAK2/STAT3/NOX1-mediated ROS production. Cell Death Dis 2022 Apr 13;13(4):341. PMID: 35418176
  • Sakamoto T, Batmanov K, Wan S, Guo Y et al. The nuclear receptor ERR cooperates with the cardiogenic factor GATA4 to orchestrate cardiomyocyte maturation. Nat Commun 2022 Apr 13;13(1):1991. PMID: 35418170
  • Eteleeb AM, Thunuguntla PK, Gelev KZ, Tang CY et al. LINC00355 regulates p27(KIP) expression by binding to MENIN to induce proliferation in late-stage relapse breast cancer. NPJ Breast Cancer 2022 Apr 13;8(1):49. PMID: 35418131
  • Bai Y, Li Y, Xi Y, Ma C et al. Identification and validation of glomerulotubular crosstalk genes mediating IgA nephropathy by integrated bioinformatics. BMC Nephrol 2022 Apr 13;23(1):143. PMID: 35418061
  • Arunachalam E, Rogers W, Simpson GR, Möller-Levet C et al. HOX and PBX gene dysregulation as a therapeutic target in glioblastoma multiforme. BMC Cancer 2022 Apr 13;22(1):400. PMID: 35418059
  • Reuschl AK, Mesner D, Shivkumar M, Whelan MVX et al. HIV-1 Vpr drives a tissue residency-like phenotype during selective infection of resting memory T cells. Cell Rep 2022 Apr 12;39(2):110650. PMID: 35417711
  • Mauduit O, Aure MH, Delcroix V, Basova L et al. A mesenchymal to epithelial switch in Fgf10 expression specifies an evolutionary-conserved population of ionocytes in salivary glands. Cell Rep 2022 Apr 12;39(2):110663. PMID: 35417692
  • Li Z, Zou L, Xiao ZX, Yang J et al. Transcriptome‑based drug repositioning identifies TPCA‑1 as a potential selective inhibitor of esophagus squamous carcinoma cell viability. Int J Mol Med 2022 Jun;49(6). PMID: 35417037
  • Jansen J, van den Berge BT, van den Broek M, Maas RJ et al. Human pluripotent stem cell-derived kidney organoids for personalized congenital and idiopathic nephrotic syndrome modeling. Development 2022 May 1;149(9). PMID: 35417019
  • Velez LM, Van C, Moore T, Zhou Z et al. Genetic variation of putative myokine signaling is dominated by biological sex and sex hormones. Elife 2022 Apr 13;11. PMID: 35416774
  • Marsh-Wakefield F, Juillard P, Ashhurst TM, Juillard A et al. Peripheral B-cell dysregulation is associated with relapse after long-term quiescence in patients with multiple sclerosis. Immunol Cell Biol 2022 Jul;100(6):453-467. PMID: 35416319
  • Zhang X, Chen F, Huang P, Wang X et al. Exosome-depleted MiR-148a-3p derived from Hepatic Stellate Cells Promotes Tumor Progression via ITGA5/PI3K/Akt Axis in Hepatocellular Carcinoma. Int J Biol Sci 2022;18(6):2249-2260. PMID: 35414782
  • Rong D, Sun G, Zheng Z, Liu L et al. MGP promotes CD8(+) T cell exhaustion by activating the NF-κB pathway leading to liver metastasis of colorectal cancer. Int J Biol Sci 2022;18(6):2345-2361. PMID: 35414780
  • Tu B, Jia Y, Qian J et al. Bioinformatics Analysis Identified Five Widely Expressed Genes Associated with Prognosis in Sarcoma. Int J Gen Med 2022;15:3711-3725. PMID: 35414751
  • Huguet F, Gokan E, Foster HA, Amin HA et al. Repo-Man/protein phosphatase 1 SUMOylation mediates binding to lamin A and serine 22 dephosphorylation. Open Biol 2022 Apr;12(4):220017. PMID: 35414260
  • Peng J, Serrano G, Traniello IM, Calleja-Cervantes ME et al. SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes. Commun Biol 2022 Apr 12;5(1):351. PMID: 35414121
  • Wang C, Fan L, Khawaja RR, Liu B et al. Microglial NF-κB drives tau spreading and toxicity in a mouse model of tauopathy. Nat Commun 2022 Apr 12;13(1):1969. PMID: 35413950
  • Kupkova K, Mosquera JV, Smith JP, Stolarczyk M et al. GenomicDistributions: fast analysis of genomic intervals with Bioconductor. BMC Genomics 2022 Apr 12;23(1):299. PMID: 35413804
  • Pan X, Li H, Zhang X et al. TedSim: temporal dynamics simulation of single-cell RNA sequencing data and cell division history. Nucleic Acids Res 2022 May 6;50(8):4272-4288. PMID: 35412632
  • Chasseur AS, Trozzi G, Istasse C, Petit A et al. Marek's Disease Virus Virulence Genes Encode Circular RNAs. J Virol 2022 May 11;96(9):e0032122. PMID: 35412345
  • Karadağ Gürel A, Gürel S et al. To detect potential pathways and target genes in infantile Pompe patients using computational analysis. Bioimpacts 2022;12(2):89-105. PMID: 35411297
  • Wang LJ, Qiu BQ, Yuan MM, Zou HX et al. Identification and Validation of Dilated Cardiomyopathy-Related Genes via Bioinformatics Analysis. Int J Gen Med 2022;15:3663-3676. PMID: 35411175
  • Sun M, Yang Q, Hu C, Zhang H et al. Identification and Validation of Autophagy-Related Genes in Sepsis-Induced Acute Respiratory Distress Syndrome and Immune Infiltration. J Inflamm Res 2022;15:2199-2212. PMID: 35411170
  • Ren J, Zhang H, Wang J, Xu Y et al. Transcriptome analysis of adipocytokines and their-related LncRNAs in lung adenocarcinoma revealing the association with prognosis, immune infiltration, and metabolic characteristics. Adipocyte 2022 Dec;11(1):250-265. PMID: 35410586
  • Zu C, Li J, He X, Ji L et al. Identification of a circRNA-mediated comprehensive ceRNA network in spinal cord injury pathogenesis. Exp Biol Med (Maywood) 2022 Jun;247(11):931-944. PMID: 35410505
  • Bordeira-Carriço R, Teixeira J, Duque M, Galhardo M et al. Multidimensional chromatin profiling of zebrafish pancreas to uncover and investigate disease-relevant enhancers. Nat Commun 2022 Apr 11;13(1):1945. PMID: 35410466
  • Madsen-Østerbye J, Abdelhalim M, Baudement MO, Collas P et al. Local euchromatin enrichment in lamina-associated domains anticipates their repositioning in the adipogenic lineage. Genome Biol 2022 Apr 11;23(1):91. PMID: 35410387
  • Xiaowei W, Tong L, Yanjun Q, Lili F et al. PTH2R is related to cell proliferation and migration in ovarian cancer: a multi-omics analysis of bioinformatics and experiments. Cancer Cell Int 2022 Apr 11;22(1):148. PMID: 35410353
  • Niebel D, Fröhlich A, Zarbl R, Fietz S et al. DNA methylation regulates TIGIT expression within the melanoma microenvironment, is prognostic for overall survival, and predicts progression-free survival in patients treated with anti-PD-1 immunotherapy. Clin Epigenetics 2022 Apr 11;14(1):50. PMID: 35410311
  • Chen X, He XY, Dan Q, Li Y et al. FAM201A, a long noncoding RNA potentially associated with atrial fibrillation identified by ceRNA network analyses and WGCNA. BMC Med Genomics 2022 Apr 11;15(1):80. PMID: 35410298
  • Kaplow IM, Schäffer DE, Wirthlin ME, Lawler AJ et al. Inferring mammalian tissue-specific regulatory conservation by predicting tissue-specific differences in open chromatin. BMC Genomics 2022 Apr 11;23(1):291. PMID: 35410163
  • Wang Y, Shirakawa M, Ito T et al. Dynamic Changes in Reactive Oxygen Species in the Shoot Apex Contribute to Stem Cell Death in Arabidopsis thaliana. Int J Mol Sci 2022 Mar 31;23(7). PMID: 35409227
  • Minemura C, Asai S, Koma A, Kase-Kato I et al. Identification of Tumor-Suppressive miR-30e-3p Targets: Involvement of SERPINE1 in the Molecular Pathogenesis of Head and Neck Squamous Cell Carcinoma. Int J Mol Sci 2022 Mar 30;23(7). PMID: 35409173
  • Ting CT, Chen BS et al. Repurposing Multiple-Molecule Drugs for COVID-19-Associated Acute Respiratory Distress Syndrome and Non-Viral Acute Respiratory Distress Syndrome via a Systems Biology Approach and a DNN-DTI Model Based on Five Drug Design Specifications. Int J Mol Sci 2022 Mar 26;23(7). PMID: 35409008
  • Lin SH, Chen SC et al. RNA Editing in Glioma as a Sexually Dimorphic Prognostic Factor That Affects mRNA Abundance in Fatty Acid Metabolism and Inflammation Pathways. Cells 2022 Apr 5;11(7). PMID: 35406793
  • Kitano H, Kawabe Y, Kamihira M et al. HepG2-Based Designer Cells with Heat-Inducible Enhanced Liver Functions. Cells 2022 Apr 1;11(7). PMID: 35406758
  • Chrysanthou E, Sehovic E, Ostano P, Chiorino G et al. Comprehensive Gene Expression Analysis to Identify Differences and Similarities between Sex- and Stage-Stratified Melanoma Samples. Cells 2022 Mar 24;11(7). PMID: 35406661
  • Detroja R, Mukherjee S, Frenkel-Morgenstern M et al. The Landscape of Novel Expressed Chimeric RNAs in Rheumatoid Arthritis. Cells 2022 Mar 24;11(7). PMID: 35406656
  • Jain A, McCoy M, Coats C, Brown SZ et al. HuR Plays a Role in Double-Strand Break Repair in Pancreatic Cancer Cells and Regulates Functional BRCA1-Associated-Ring-Domain-1(BARD1) Isoforms. Cancers (Basel) 2022 Apr 6;14(7). PMID: 35406624
  • Re Cecconi AD, Barone M, Forti M, Lunardi M et al. Apelin Resistance Contributes to Muscle Loss during Cancer Cachexia in Mice. Cancers (Basel) 2022 Apr 2;14(7). PMID: 35406586
  • Lu YT, Xu T, Iqbal M, Hsieh TC et al. FOXC1 Binds Enhancers and Promotes Cisplatin Resistance in Bladder Cancer. Cancers (Basel) 2022 Mar 28;14(7). PMID: 35406487
  • Yang HH, Liu H, Hu N, Su H et al. Modified eQTL and Somatic DNA Segment Alterations in Esophageal Squamous Cell Carcinoma for Genes Related to Immunity, DNA Repair, and Inflammation. Cancers (Basel) 2022 Mar 23;14(7). PMID: 35406404
  • Beak M, Park S, Kim JH, Eom HJ et al. Second-Generation JK-206 Targets the Oncogenic Signal Mediator RHOA in Gastric Cancer. Cancers (Basel) 2022 Mar 22;14(7). PMID: 35406376
  • Ellegast JM, Alexe G, Hamze A, Lin S et al. Unleashing Cell-Intrinsic Inflammation as a Strategy to Kill AML Blasts. Cancer Discov 2022 Jul 6;12(7):1760-1781. PMID: 35405016
  • Barsi S, Papp H, Valdeolivas A, Tóth DJ et al. Computational drug repurposing against SARS-CoV-2 reveals plasma membrane cholesterol depletion as key factor of antiviral drug activity. PLoS Comput Biol 2022 Apr;18(4):e1010021. PMID: 35404937
  • Schulte LM, Koirtyohann KM, McGinnis KM et al. Using iRNA-seq analysis to predict gene expression regulatory level and activity in Zea mays tissues. G3 (Bethesda) 2022 May 30;12(6). PMID: 35404453
  • Zhang Y, Lu K, Wu X, Liu H et al. Genetic variants in the Hedgehog signaling pathway genes are associated with gastric cancer risk in a Chinese Han population. J Biomed Res 2021 Oct 29;36(1):22-31. PMID: 35403607
  • Liu Z, Naler LB, Zhu Y, Deng C et al. nMOWChIP-seq: low-input genome-wide mapping of non-histone targets. NAR Genom Bioinform 2022 Jun;4(2):lqac030. PMID: 35402909
  • Vuoristo S, Bhagat S, Hydén-Granskog C, Yoshihara M et al. DUX4 is a multifunctional factor priming human embryonic genome activation. iScience 2022 Apr 15;25(4):104137. PMID: 35402882
  • Zhang Y, Xie X, Wu P, Zhu P et al. SIEVE: identifying robust single cell variable genes for single-cell RNA sequencing data. Blood Sci 2021 Apr;3(2):35-39. PMID: 35402832
  • Lv X, Hu Y, Wang L, Zhang D et al. DDIT4 mediates the proliferation-promotive effect of IL-34 in human monocytic leukemia cells. Blood Sci 2021 Apr;3(2):48-56. PMID: 35402828
  • Cheng J, Dong Q, Lu Y, Shi L et al. CHD7 in oocytes is essential for female fertility. Ann Transl Med 2022 Mar;10(5):260. PMID: 35402599
  • Liu T, Hu X, Lin C, Shi X et al. 5-methylcytosine RNA methylation regulators affect prognosis and tumor microenvironment in lung adenocarcinoma. Ann Transl Med 2022 Mar;10(5):259. PMID: 35402591
  • Hu B, Wu C, Mao H, Gu H et al. Subpopulations of cancer-associated fibroblasts link the prognosis and metabolic features of pancreatic ductal adenocarcinoma. Ann Transl Med 2022 Mar;10(5):262. PMID: 35402584
  • Jiang M, Fang D, He X, Huang J et al. Risk score model of autophagy-related genes in osteosarcoma. Ann Transl Med 2022 Mar;10(5):252. PMID: 35402580
  • Shen K, Wang H, Xue S, Wang L et al. Genome-wide screening and immune landscape suggest a potential-m6A-related lncRNA risk signature for predicting prognosis of melanoma. Ann Transl Med 2022 Mar;10(5):241. PMID: 35402579
  • Zeng Q, Yang J, Ji J, Wang P et al. PD-L1 blockade potentiates the antitumor effects of ALA-PDT and optimizes the tumor microenvironment in cutaneous squamous cell carcinoma. Oncoimmunology 2022;11(1):2061396. PMID: 35402079
  • Asghari A, Wall K, Gill M, Vecchio ND et al. A novel group of genes that cause endocrine resistance in breast cancer identified by dynamic gene expression analysis. Oncotarget 2022;13:600-613. PMID: 35401937
  • Zhang ZM, Liu ZH, Nie Q, Zhang XM et al. Metformin improves high-fat diet-induced insulin resistance in mice by downregulating the expression of long noncoding RNA NONMMUT031874.2. Exp Ther Med 2022 May;23(5):332. PMID: 35401798
  • Li J, Han T, Wang X, Wang Y et al. Construction of a Novel Immune-Related mRNA Signature to Predict the Prognosis and Immune Characteristics of Human Colorectal Cancer. Front Genet 2022;13:851373. PMID: 35401707
  • Xu L, Hu Y, Liu W et al. Tumor Microenvironment-Mediated Immune Profiles Characterized by Distinct Survival Outcome and Immunotherapeutic Efficacy in Breast Cancer. Front Genet 2022;13:840348. PMID: 35401704
  • Sheng L, Tong Y, Zhang Y, Feng Q et al. Identification of Hub Genes With Differential Correlations in Sepsis. Front Genet 2022;13:876514. PMID: 35401666
  • Wu Z, Wei W, Fan H, Gu Y et al. Integrated Analysis of Competitive Endogenous RNA Networks in Acute Ischemic Stroke. Front Genet 2022;13:833545. PMID: 35401659
  • Villarino M, Rodríguez-Pires S, Requena E, Melgarejo P et al. A Secondary Metabolism Pathway Involved in the Production of a Putative Toxin Is Expressed at Early Stage of Monilinia laxa Infection. Front Plant Sci 2022;13:818483. PMID: 35401637
  • Desai SS, Whadgar S, Raghavan SC, Choudhary B et al. MiRAGDB: A Knowledgebase of RAG Regulators. Front Immunol 2022;13:863110. PMID: 35401578
  • Zhao M, Shen S, Xue C et al. A Novel m1A-Score Model Correlated With the Immune Microenvironment Predicts Prognosis in Hepatocellular Carcinoma. Front Immunol 2022;13:805967. PMID: 35401564
  • Pan Z, Huang A, He Y, Zhang Z et al. Metabolic Reprogramming of Alloreactive T Cells Through TCR/MYC/mTORC1/E2F6 Signaling in aGvHD Patients. Front Immunol 2022;13:850177. PMID: 35401560
  • Wang Z, Zhang H, Zhai Y, Li F et al. Single-Cell Profiling Reveals Heterogeneity of Primary and Lymph Node Metastatic Tumors and Immune Cell Populations and Discovers Important Prognostic Significance of CCDC43 in Oral Squamous Cell Carcinoma. Front Immunol 2022;13:843322. PMID: 35401551
  • Ray N, Jeong H, Kwon D, Kim J et al. Antibiotic Exposure Aggravates Bacteroides-Linked Uremic Toxicity in the Gut-Kidney Axis. Front Immunol 2022;13:737536. PMID: 35401522
  • Hu Y, Li Z, Chen G, Li Z et al. Hydroxychloroquine Alleviates EAU by Inhibiting Uveitogenic T Cells and Ameliorating Retinal Vascular Endothelial Cells Dysfunction. Front Immunol 2022;13:859260. PMID: 35401507
  • Veiga DFT, Tremblay M, Gerby B, Herblot S et al. Monoallelic Heb/Tcf12 Deletion Reduces the Requirement for NOTCH1 Hyperactivation in T-Cell Acute Lymphoblastic Leukemia. Front Immunol 2022;13:867443. PMID: 35401501
  • Fan D, Liu B, Gu X, Zhang Q et al. Potential Target Analysis of Triptolide Based on Transcriptome-Wide m(6)A Methylome in Rheumatoid Arthritis. Front Pharmacol 2022;13:843358. PMID: 35401168
  • Xia LY, Tang L, Huang H, Luo J et al. Identification of Potential Driver Genes and Pathways Based on Transcriptomics Data in Alzheimer's Disease. Front Aging Neurosci 2022;14:752858. PMID: 35401145
  • Takakura H, Horinaka M, Imai A, Aono Y et al. Sodium salicylate and 5-aminosalicylic acid synergistically inhibit the growth of human colon cancer cells and mouse intestinal polyp-derived cells. J Clin Biochem Nutr 2022 Mar;70(2):93-102. PMID: 35400827
  • Cao J, Yu C et al. Identification of Immune Infiltration and Prognostic Biomarkers in Small Cell Lung Cancer Based on Bioinformatic Methods from 3 Studies. Comb Chem High Throughput Screen 2023;26(3):507-516. PMID: 35400336
  • Tang XY, Xiong YL, Shi AP, Sun Y et al. The downregulation of fibrinogen-like protein 1 inhibits the proliferation of lung adenocarcinoma via regulating MYC-target genes. Transl Lung Cancer Res 2022 Mar;11(3):404-419. PMID: 35399566
  • Yang Z, Xu X, Gu C, Nielsen AV et al. Chemical Pretreatment Activated a Plastic State Amenable to Direct Lineage Reprogramming. Front Cell Dev Biol 2022;10:865038. PMID: 35399519
  • Liu XS, Yang JW, Zeng J, Chen XQ et al. SLC2A1 is a Diagnostic Biomarker Involved in Immune Infiltration of Colorectal Cancer and Associated With m6A Modification and ceRNA. Front Cell Dev Biol 2022;10:853596. PMID: 35399515
  • Fu M, Huang Y, Peng X, Li X et al. Development of Tumor Mutation Burden-Related Prognostic Model and Novel Biomarker Identification in Stomach Adenocarcinoma. Front Cell Dev Biol 2022;10:790920. PMID: 35399509
  • Lin X, Zhou T, Hu S, Yang L et al. Prognostic significance of pyroptosis-related factors in lung adenocarcinoma. J Thorac Dis 2022 Mar;14(3):654-667. PMID: 35399245
  • Shi F, He R, Zhu J, Lu T et al. miR-589-3p promoted osteogenic differentiation of periodontal ligament stem cells through targeting ATF1. J Orthop Surg Res 2022 Apr 10;17(1):221. PMID: 35399081
  • Vincent SA, Kim JM, Pérez-Salamó I, To TK et al. Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response. BMC Biol 2022 Apr 11;20(1):83. PMID: 35399062
  • van Riet J, Saha C, Strepis N, Brouwer RWW et al. CRISPRs in the human genome are differentially expressed between malignant and normal adjacent to tumor tissue. Commun Biol 2022 Apr 8;5(1):338. PMID: 35396392
  • Ikegami K, Masubuchi S et al. Suppression of trabecular meshwork phagocytosis by norepinephrine is associated with nocturnal increase in intraocular pressure in mice. Commun Biol 2022 Apr 8;5(1):339. PMID: 35396348
  • Karbalayghareh A, Sahin M, Leslie CS et al. Chromatin interaction-aware gene regulatory modeling with graph attention networks. Genome Res 2022 May;32(5):930-944. PMID: 35396274
  • Ding BJ, Zhou H, Liu L, Xu PP et al. [Bioinformatics Analysis of Microarray Data in Myelodysplastic Syndrome Based on Gene Expression Omnibus Database]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2022 Apr;30(2):511-515. PMID: 35395988
  • Shi YY, Hou Q, Tao H, Tao SD et al. [Effect of CXCR4 on the Treatment Response and Prognosis of Carfilzomib in Multiple Myeloma]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2022 Apr;30(2):455-460. PMID: 35395979
  • Apriamashvili G, Vredevoogd DW, Krijgsman O, Bleijerveld OB et al. Ubiquitin ligase STUB1 destabilizes IFNγ-receptor complex to suppress tumor IFNγ signaling. Nat Commun 2022 Apr 8;13(1):1923. PMID: 35395848
  • Herremans KM, Szymkiewicz DD, Riner AN, Bohan RP et al. The interleukin-1 axis and the tumor immune microenvironment in pancreatic ductal adenocarcinoma. Neoplasia 2022 Jun;28:100789. PMID: 35395492
  • Lyu Y, Jia W, Wu Y, Zhao X et al. Cpmer: A new conserved eEF1A2-binding partner that regulates Eomes translation and cardiomyocyte differentiation. Stem Cell Reports 2022 May 10;17(5):1154-1169. PMID: 35395174
  • Pancheva A, Wheadon H, Rogers S, Otto TD et al. Using topic modeling to detect cellular crosstalk in scRNA-seq. PLoS Comput Biol 2022 Apr;18(4):e1009975. PMID: 35395014
  • Xie S, Yang J, Huang S, Fan Y et al. Disrupted myelination network in the cingulate cortex of Parkinson's disease. IET Syst Biol 2022 May;16(3-4):98-119. PMID: 35394697
  • Pathak E, Atri N, Mishra R et al. Single-Cell Transcriptome Analysis Reveals the Role of Pancreatic Secretome in COVID-19 Associated Multi-organ Dysfunctions. Interdiscip Sci 2022 Dec;14(4):863-878. PMID: 35394619
  • Bang H, Kim JE, Lee HS, Park SM et al. Integrated bioinformatic analysis of gene expression profiling data to identify combinatorial biomarkers in inflammatory skin disease. Sci Rep 2022 Apr 7;12(1):5889. PMID: 35393522
  • Abedi Z, MotieGhader H, Hosseini SS, Sheikh Beig Goharrizi MA et al. mRNA-miRNA bipartite networks reconstruction in different tissues of bladder cancer based on gene co-expression network analysis. Sci Rep 2022 Apr 7;12(1):5885. PMID: 35393513
  • Li H, Brouwer CR, Luo W et al. A universal deep neural network for in-depth cleaning of single-cell RNA-Seq data. Nat Commun 2022 Apr 7;13(1):1901. PMID: 35393428
  • Bernareggi D, Xie Q, Prager BC, Yun J et al. CHMP2A regulates tumor sensitivity to natural killer cell-mediated cytotoxicity. Nat Commun 2022 Apr 7;13(1):1899. PMID: 35393416
  • Ma Z, Li Z, Wang S, Zhou Z et al. ZMAT1 acts as a tumor suppressor in pancreatic ductal adenocarcinoma by inducing SIRT3/p53 signaling pathway. J Exp Clin Cancer Res 2022 Apr 7;41(1):130. PMID: 35392973
  • Hussain K, Liu R, Smith RCG, Müller KTJ et al. HIF activation enhances FcγRIIb expression on mononuclear phagocytes impeding tumor targeting antibody immunotherapy. J Exp Clin Cancer Res 2022 Apr 7;41(1):131. PMID: 35392965
  • Gather F, Ihrig-Biedert I, Kohlhas P, Krutenko T et al. A specific, non-immune system-related isoform of the human inducible nitric oxide synthase is expressed during differentiation of human stem cells into various cell types. Cell Commun Signal 2022 Apr 7;20(1):47. PMID: 35392923
  • Ling Z, Huang S, Wen Z, Tang Z et al. mtTB: A Web-Based R/Shiny App for Pulmonary Tuberculosis Screening. Front Cell Infect Microbiol 2022;12:850279. PMID: 35392603
  • Xiao F, Qiu J, Zhao Y et al. Exploring the Potential Toxicological Mechanisms of Vine Tea on the Liver Based on Network Toxicology and Transcriptomics. Front Pharmacol 2022;13:855926. PMID: 35392562
  • Peng X, Mo Y, Liu J, Liu H et al. Identification and Validation of miRNA-TF-mRNA Regulatory Networks in Uterine Fibroids. Front Bioeng Biotechnol 2022;10:856745. PMID: 35392402
  • Wei B, Chen H, Chen X, Guo D et al. Sox15 Methylation Inhibits Cell Proliferation Through Wnt Signaling in Hepatocellular Carcinoma. Front Oncol 2022;12:842312. PMID: 35392235
  • Xu Y, Yu X, Xu J, Lu J et al. LncRNA RP11-138J23.1 Contributes to Gastric Cancer Progression by Interacting With RNA-Binding Protein HuR. Front Oncol 2022;12:848406. PMID: 35392234
  • Yu X, Xu J, Xu D, Bi X et al. Comprehensive Analysis of the Carcinogenic Process, Tumor Microenvironment, and Drug Response in HPV-Positive Cancers. Front Oncol 2022;12:842060. PMID: 35392231
  • Fan T, Liu Y, Liu H, Wang L et al. Transmembrane Protein-Based Risk Model and H3K4me3 Modification Characteristics in Lung Adenocarcinoma. Front Oncol 2022;12:828814. PMID: 35392225
  • Liu G, Luo S, Lei Y, Jiao M et al. Osteogenesis-Related Long Noncoding RNA GAS5 as a Novel Biomarker for Osteonecrosis of Femoral Head. Front Cell Dev Biol 2022;10:857612. PMID: 35392165
  • Xu M, Kong Y, Chen N, Peng W et al. Identification of Immune-Related Gene Signature and Prediction of CeRNA Network in Active Ulcerative Colitis. Front Immunol 2022;13:855645. PMID: 35392084
  • Janjic BM, Kulkarni A, Ferris RL, Vujanovic L et al. Human B Cells Mediate Innate Anti-Cancer Cytotoxicity Through Concurrent Engagement of Multiple TNF Superfamily Ligands. Front Immunol 2022;13:837842. PMID: 35392082
  • Xiong Q, Feng D, Wang Z, Ying Y et al. Fatty Acid Synthase Is the Key Regulator of Fatty Acid Metabolism and Is Related to Immunotherapy in Bladder Cancer. Front Immunol 2022;13:836939. PMID: 35392075
  • Li Z, Wang R, Qiu C, Cao C et al. Role of DTL in Hepatocellular Carcinoma and Its Impact on the Tumor Microenvironment. Front Immunol 2022;13:834606. PMID: 35392073
  • Cai D, Zhao Z, Hu J, Dai X et al. Identification of the Tumor Immune Microenvironment and Therapeutic Biomarkers by a Novel Molecular Subtype Based on Aging-Related Genes in Hepatocellular Carcinoma. Front Surg 2022;9:836080. PMID: 35392063
  • Faucillion ML, Johansson AM, Larsson J et al. Modulation of RNA stability regulates gene expression in two opposite ways: through buffering of RNA levels upon global perturbations and by supporting adapted differential expression. Nucleic Acids Res 2022 May 6;50(8):4372-4388. PMID: 35390159
  • Borcherding N, Severson KJ, Henderson N, Ortolan LS et al. Single-cell analysis of Sézary syndrome reveals novel markers and shifting gene profiles associated with treatment. Blood Adv 2023 Feb 14;7(3):321-335. PMID: 35390145
  • Ahmed FF, Reza MS, Sarker MS, Islam MS et al. Identification of host transcriptome-guided repurposable drugs for SARS-CoV-1 infections and their validation with SARS-CoV-2 infections by using the integrated bioinformatics approaches. PLoS One 2022;17(4):e0266124. PMID: 35390032
  • Wang Y, Yu Z, Shi W, Shen J et al. HLA complex P5 upregulation is correlated with poor prognosis and tumor progression in esophageal squamous cell carcinoma. Bioengineered 2022 Apr;13(4):9301-9311. PMID: 35389828
  • Wang C, Wang Y, Liu C, Meng X et al. Kinetochore-associated protein 1 promotes the invasion and tumorigenicity of cervical cancer cells via matrix metalloproteinase-2 and matrix metalloproteinase-9. Bioengineered 2022 Apr;13(4):9495-9507. PMID: 35389773
  • Johnson AO, Fowler SB, Webster CI, Brown AJ et al. Bioinformatic Design of Dendritic Cell-Specific Synthetic Promoters. ACS Synth Biol 2022 Apr 15;11(4):1613-1626. PMID: 35389220
  • Song D, Takahashi G, Zheng YW, Matsuo-Takasaki M et al. Retinoids rescue ceruloplasmin secretion and alleviate oxidative stress in Wilson's disease-specific hepatocytes. Hum Mol Genet 2022 Oct 28;31(21):3652-3671. PMID: 35388883
  • Zhang XJ, Xu HS, Li CH, Fu YR et al. Up-regulated SAMD9L modulated by TLR2 and HIF-1α as a promising biomarker in tuberculosis. J Cell Mol Med 2022 May;26(10):2935-2946. PMID: 35388602
  • Hu Y, Bai J, Zhou D, Zhang L et al. The miR-4732-5p/XPR1 axis suppresses the invasion, metastasis, and epithelial-mesenchymal transition of lung adenocarcinoma via the PI3K/Akt/GSK3β/Snail pathway. Mol Omics 2022 Jun 13;18(5):417-429. PMID: 35388387
  • Konstantinides N, Holguera I, Rossi AM, Escobar A et al. A complete temporal transcription factor series in the fly visual system. Nature 2022 Apr;604(7905):316-322. PMID: 35388222
  • Solmonson A, Faubert B, Gu W, Rao A et al. Compartmentalized metabolism supports midgestation mammalian development. Nature 2022 Apr;604(7905):349-353. PMID: 35388219
  • Lentini A, Cheng H, Noble JC, Papanicolaou N et al. Elastic dosage compensation by X-chromosome upregulation. Nat Commun 2022 Apr 6;13(1):1854. PMID: 35388014
  • Thorn GJ, Clarkson CT, Rademacher A, Mamayusupova H et al. DNA sequence-dependent formation of heterochromatin nanodomains. Nat Commun 2022 Apr 6;13(1):1861. PMID: 35387992
  • Clow PA, Du M, Jillette N, Taghbalout A et al. CRISPR-mediated multiplexed live cell imaging of nonrepetitive genomic loci with one guide RNA per locus. Nat Commun 2022 Apr 6;13(1):1871. PMID: 35387989
  • Liu G, Liu Y, Tao J, Li Y et al. [Differential gene expression and bioinformatics analysis in sepsis secondary to pneumonia]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2022 Feb;34(2):138-144. PMID: 35387718
  • Xiao S, Yang C, Zhang Y, Lai C et al. Downregulation of B3GNT6 is a predictor of poor outcomes in patients with colorectal cancer. World J Surg Oncol 2022 Apr 7;20(1):110. PMID: 35387659
  • Chen Y, Yang J, Wang Y, Shen W et al. Identification and Analysis of Hub Genes in Diabetic Cardiomyopathy: Potential Role of Cytochrome P450 1A1 in Mitochondrial Metabolism and STZ-Induced Myocardial Dysfunction. Front Cardiovasc Med 2022;9:835244. PMID: 35387435
  • Chinn AM, Salmerón C, Lee J, Sriram K et al. PDE4B Is a Homeostatic Regulator of Cyclic AMP in Dendritic Cells. Front Pharmacol 2022;13:833832. PMID: 35387344
  • Niu Z, Wang X, Xu Y, Li Y et al. Development and Validation of a Novel Survival Model for Cutaneous Melanoma Based on Necroptosis-Related Genes. Front Oncol 2022;12:852803. PMID: 35387121
  • Pariyar M, Thorne RF, Scott RJ, Avery-Kiejda KA et al. Verification and Validation of a Four-Gene Panel as a Prognostic Indicator in Triple Negative Breast Cancer. Front Oncol 2022;12:821334. PMID: 35387118
  • Thompson RJ, Sayers I, Kuokkanen K, Hall IP et al. Purinergic Receptors in the Airways: Potential Therapeutic Targets for Asthma? Front Allergy 2021;2:677677. PMID: 35386996
  • Ren SH, Qin YF, Qin H, Wang HD et al. N6-Methyladenine-Related Signature for Immune Microenvironment and Response to Immunotherapy in Hepatocellular Carcinoma. Int J Gen Med 2022;15:3525-3540. PMID: 35386863
  • Hou L, Hou S, Yin L, Zhao S et al. Epithelial-Mesenchymal Transition-Based Gene Signature and Distinct Molecular Subtypes for Predicting Clinical Outcomes in Breast Cancer. Int J Gen Med 2022;15:3497-3515. PMID: 35386860
  • Lu W, Zhang F, Zhong X, Wei J et al. Immune Subtypes Characterization Identifies Clinical Prognosis, Tumor Microenvironment Infiltration, and Immune Response in Ovarian Cancer. Front Mol Biosci 2022;9:801156. PMID: 35386298
  • Zhao Y, Li M, Miao N, Wei W et al. Use of miRNA Sequencing to Reveal Hub miRNAs and the Effect of miR-582-3p/SMAD2 in the Progression of Hepatocellular Carcinoma. Front Genet 2022;13:819553. PMID: 35386287
  • Li C, Pan J, Jiang Y, Wu Y et al. Characterization of Pyroptosis-Related Subtypes via RNA-Seq and ScRNA-Seq to Predict Chemo-Immunotherapy Response in Triple-Negative Breast Cancer. Front Genet 2022;13:788670. PMID: 35386285
  • Yang C, Zhang K, Zhang A, Sun N et al. Co-Expression Network Modeling Identifies Specific Inflammation and Neurological Disease-Related Genes mRNA Modules in Mood Disorder. Front Genet 2022;13:865015. PMID: 35386281
  • Xia QD, Sun JX, Liu CQ, Xu JZ et al. Ferroptosis Patterns and Tumor Microenvironment Infiltration Characterization in Bladder Cancer. Front Cell Dev Biol 2022;10:832892. PMID: 35386202
  • Savva K, Zachariou M, Bourdakou MM, Dietis N et al. Network-based stage-specific drug repurposing for Alzheimer's disease. Comput Struct Biotechnol J 2022;20:1427-1438. PMID: 35386099
  • Altorki NK, Borczuk AC, Harrison S, Groner LK et al. Global evolution of the tumor microenvironment associated with progression from preinvasive invasive to invasive human lung adenocarcinoma. Cell Rep 2022 Apr 5;39(1):110639. PMID: 35385730
  • Šušnjar U, Škrabar N, Brown AL, Abbassi Y et al. Cell environment shapes TDP-43 function with implications in neuronal and muscle disease. Commun Biol 2022 Apr 5;5(1):314. PMID: 35383280
  • Arzalluz-Luque A, Salguero P, Tarazona S, Conesa A et al. acorde unravels functionally interpretable networks of isoform co-usage from single cell data. Nat Commun 2022 Apr 5;13(1):1828. PMID: 35383181
  • Shah K, Maradana MR, Joaquina Delàs M, Metidji A et al. Cell-intrinsic Aryl Hydrocarbon Receptor signalling is required for the resolution of injury-induced colonic stem cells. Nat Commun 2022 Apr 5;13(1):1827. PMID: 35383166
  • Wang M, Zadeh S, Pizzolla A, Thia K et al. Characterization of the treatment-naive immune microenvironment in melanoma with BRAF mutation. J Immunother Cancer 2022 Apr;10(4). PMID: 35383113
  • Yi C, Liu J, Deng W, Luo C et al. Macrophage elastase (MMP12) critically contributes to the development of subretinal fibrosis. J Neuroinflammation 2022 Apr 5;19(1):78. PMID: 35382832
  • Wang W, Bhattacharyya S, Marangoni RG, Carns M et al. The JAK/STAT pathway is activated in systemic sclerosis and is effectively targeted by tofacitinib. J Scleroderma Relat Disord 2020 Feb;5(1):40-50. PMID: 35382402
  • Huang B, Li J, Zhao J et al. Screening and identification of potential biomarkers and therapeutic targets for systemic sclerosis-associated interstitial lung disease. Arch Rheumatol 2021 Dec;36(4):548-559. PMID: 35382367
  • Li X, Liao M, Guan J, Zhou L et al. Identification of Key Genes and Pathways in Peripheral Blood Mononuclear Cells of Type 1 Diabetes Mellitus by Integrated Bioinformatics Analysis. Diabetes Metab J 2022 May;46(3):451-463. PMID: 35381625
  • Zhao Z, Mu H, Feng S, Liu Y et al. Identification of Biomarkers Associated with Hepatocellular Carcinoma Stem Cell Characteristics Based on Co-Expression Network Analysis of Transcriptome Data and Stemness Index. Crit Rev Eukaryot Gene Expr 2022;32(2):47-60. PMID: 35381131
  • Li S, Wang X, Li J, Wei W et al. Identification and Molecular Mechanisms Study of Genes Associated with Osteoarthritis: A Comprehensive Bioinformatic Study of Cartilage and Synovium. Crit Rev Eukaryot Gene Expr 2022;32(2):25-38. PMID: 35381129
  • Kawamura S, Matsushita Y, Kurosaki S, Tange M et al. Inhibiting SCAP/SREBP exacerbates liver injury and carcinogenesis in murine nonalcoholic steatohepatitis. J Clin Invest 2022 Jun 1;132(11). PMID: 35380992
  • Bowers RR, Jones CM, Paz EA, Barrows JK et al. SWAN pathway-network identification of common aneuploidy-based oncogenic drivers. Nucleic Acids Res 2022 Apr 22;50(7):3673-3692. PMID: 35380699
  • Serna-Pujol N, Salinas-Pena M, Mugianesi F, Le Dily F et al. Coordinated changes in gene expression, H1 variant distribution and genome 3D conformation in response to H1 depletion. Nucleic Acids Res 2022 Apr 22;50(7):3892-3910. PMID: 35380694
  • Kang DS, Lee N, Shin DY, Jang YJ et al. Network-based integrated analysis for toxic effects of high-concentration formaldehyde inhalation exposure through the toxicogenomic approach. Sci Rep 2022 Apr 4;12(1):5645. PMID: 35379891
  • Song MY, Han CY, Moon YJ, Lee JH et al. Sirt6 reprograms myofibers to oxidative type through CREB-dependent Sox6 suppression. Nat Commun 2022 Apr 4;13(1):1808. PMID: 35379817
  • Han J, An O, Ren X, Song Y et al. Multilayered control of splicing regulatory networks by DAP3 leads to widespread alternative splicing changes in cancer. Nat Commun 2022 Apr 4;13(1):1793. PMID: 35379802
  • Zayed A, Baranowski C, Compagnion AC, Vernochet C et al. SWI/SNF chromatin remodeler complex within the reward pathway is required for behavioral adaptations to stress. Nat Commun 2022 Apr 4;13(1):1807. PMID: 35379786
  • Kang L, Dai C, Wang L, Pan X et al. Potential biomarkers that discriminate rheumatoid arthritis and osteoarthritis based on the analysis and validation of datasets. BMC Musculoskelet Disord 2022 Apr 4;23(1):319. PMID: 35379209
  • Lim EB, Oh HS, Kim KC, Kim MH et al. Identification and functional validation of HLA-C as a potential gene involved in colorectal cancer in the Korean population. BMC Genomics 2022 Apr 4;23(1):261. PMID: 35379174
  • Shi Y, Men J, Sun H, Tan J et al. The Identification and Analysis of MicroRNAs Combined Biomarkers for Hepatocellular Carcinoma Diagnosis. Med Chem 2022;18(10):1073-1085. PMID: 35379158
  • Zhang T, Liu Y, Li X, Hu B et al. Identification of Hub Genes and Biomarkers between Hyperandrogen and Normoandrogen Polycystic Ovary Syndrome by Bioinformatics Analysis. Comb Chem High Throughput Screen 2023;26(1):126-134. PMID: 35379124
  • Gu W, Ming T, Xie Z et al. Developing a Genetic Biomarker-based Diagnostic Model for Major Depressive Disorder using Random Forests and Artificial Neural Networks. Comb Chem High Throughput Screen 2023;26(2):424-435. PMID: 35379119
  • Zhang H, Liu Y, Xu Z, Chen Q et al. miR-873 and miR-105-2 May Affect the Tumour Microenvironment and are Potential Biomarkers for Lung Adenocarcinoma. Int J Gen Med 2022;15:3433-3445. PMID: 35378915
  • Li Y, Huang C, Yang Z, Wang L et al. Identification of potential biomarkers of gout through competitive endogenous RNA network analysis. Eur J Pharm Sci 2022 Jun 1;173:106180. PMID: 35378210
  • Li C, Ding J, Mei J et al. Comprehensive Analysis of Epigenetic Associated Genes on Differential Gene Expression and Prognosis in Hepatocellular Carcinoma. J Environ Pathol Toxicol Oncol 2022;41(1):27-43. PMID: 35378002
  • Li Y, Wu T, Cheng X, Lv M et al. Comparative Analysis of Key Transcription Factors Involved in Development in Sea Lamprey (Petromyzon marinus) through Systematic Mining of Lamprey Gene Expression Dataset. Crit Rev Eukaryot Gene Expr 2022;32(1):11-24. PMID: 35377977
  • Zhong LK, Deng XY, Shen F, Cai WS et al. Identification of a 3-Gene Prognostic Index for Papillary Thyroid Carcinoma. Front Mol Biosci 2022;9:807931. PMID: 35372518
  • Nur Husna SM, Md Shukri N, Tuan Sharif SE, Tan HTT et al. IL-4/IL-13 Axis in Allergic Rhinitis: Elevated Serum Cytokines Levels and Inverse Association With Tight Junction Molecules Expression. Front Mol Biosci 2022;9:819772. PMID: 35372516
  • Yang C, Li J, Guo Y, Gan D et al. Role of TFRC as a Novel Prognostic Biomarker and in Immunotherapy for Pancreatic Carcinoma. Front Mol Biosci 2022;9:756895. PMID: 35372510
  • Wan PZ, Xu TH, Tian BY, Guo GY et al. Machine Learning Reveals Ets2 as a Novel Target for Membranous Nephropathy Treatment and Its Role in Immune Infiltration. Front Med (Lausanne) 2022;9:813329. PMID: 35372448
  • Wu X, Pan Z, Liu W, Zha S et al. The Discovery, Validation, and Function of Hypoxia-Related Gene Biomarkers for Obstructive Sleep Apnea. Front Med (Lausanne) 2022;9:813459. PMID: 35372438
  • Tang M, Liao M, Ai X, He G et al. Increased CDCA2 Level Was Related to Poor Prognosis in Hepatocellular Carcinoma and Associated With Up-Regulation of Immune Checkpoints. Front Med (Lausanne) 2021;8:773724. PMID: 35372372
  • Guo C, Liu Z, Cao C, Zheng Y et al. Development and Validation of Ischemic Events Related Signature After Carotid Endarterectomy. Front Cell Dev Biol 2022;10:794608. PMID: 35372347
  • Liu T, Zhang J, Lin C, Liu G et al. Molecular Characterization Clinical and Immunotherapeutic Characteristics of m5C Regulator NOP2 Across 33 Cancer Types. Front Cell Dev Biol 2022;10:839136. PMID: 35372330
  • Wang Y, Zhang Y, Ding C, Jia C et al. Exploration of the Potential Mechanism of Qi Yin San Liang San Decoction in the Treatment of EGFRI-Related Adverse Skin Reactions Using Network Pharmacology and In Vitro Experiments. Front Oncol 2022;12:790713. PMID: 35372072
  • Zheng G, Han T, Hu X, Yang Z et al. NCAPG Promotes Tumor Progression and Modulates Immune Cell Infiltration in Glioma. Front Oncol 2022;12:770628. PMID: 35372056
  • Li Y, Nie Y, Guo H, Guo H et al. Establish of an Initial Platinum-Resistance Predictor in High-Grade Serous Ovarian Cancer Patients Regardless of Homologous Recombination Deficiency Status. Front Oncol 2022;12:847085. PMID: 35372049
  • Li WW, Liu B, Dong SQ, He SQ et al. Bioinformatics and Experimental Analysis of the Prognostic and Predictive Value of the CHPF Gene on Breast Cancer. Front Oncol 2022;12:856712. PMID: 35372047
  • Lai HY, Chiu CC, Kuo YH, Tsai HH et al. High Stromal SFRP2 Expression in Urothelial Carcinoma Confers an Unfavorable Prognosis. Front Oncol 2022;12:834249. PMID: 35372028
  • Yang L, Guo G, Yu X, Wen Y et al. Mutation-Derived Long Noncoding RNA Signature Predicts Survival in Lung Adenocarcinoma. Front Oncol 2022;12:780631. PMID: 35372012
  • Zhang M, Qi T, Yang L, Kolarich D et al. Multi-Faceted Effects of ST6Gal1 Expression on Precursor B-Lineage Acute Lymphoblastic Leukemia. Front Oncol 2022;12:828041. PMID: 35371997
  • Zheng D, Zhang Y, Xia Y, Cheng F et al. A Novel Gene Signature of Tripartite Motif Family for Predicting the Prognosis in Kidney Renal Clear Cell Carcinoma and Its Association With Immune Cell Infiltration. Front Oncol 2022;12:840410. PMID: 35371994
  • Li S, Zhang N, Liu S, Zhang H et al. ITGA5 Is a Novel Oncogenic Biomarker and Correlates With Tumor Immune Microenvironment in Gliomas. Front Oncol 2022;12:844144. PMID: 35371978
  • Xie L, Wang Q, Yan Z, Han Y et al. OSgc: A Web Portal to Assess the Performance of Prognostic Biomarkers in Gastric Cancer. Front Oncol 2022;12:856988. PMID: 35371973
  • Cantu N, Vyavahare S, Kumar S, Chen J et al. Synergistic Effects of Multiple Factors Involved in COVID-19-dependent Muscle Loss. Aging Dis 2022 Apr;13(2):344-352. PMID: 35371610
  • Hong Y, Si J, Xiao B, Xiong Y et al. circ_0000567/miR-421/TMEM100 Axis Promotes the Migration and Invasion of Lung Adenocarcinoma and Is Associated with Prognosis. J Cancer 2022;13(5):1540-1552. PMID: 35371319
  • Lu P, Yu Z, Wang K, Zhai Y et al. DDX21 Interacts with WDR5 to Promote Colorectal Cancer Cell Proliferation by Activating CDK1 Expression. J Cancer 2022;13(5):1530-1539. PMID: 35371306
  • Wolf J, Boneva S, Rosmus DD, Agostini H et al. In-Depth Molecular Profiling Specifies Human Retinal Microglia Identity. Front Immunol 2022;13:863158. PMID: 35371110
  • Zhang YP, Wang X, Jie LG, Qu Y et al. Osteoarticular Involvement-Associated Biomarkers and Pathways in Psoriasis: The Shared Pathway With Ankylosing Spondylitis. Front Immunol 2022;13:836533. PMID: 35371093
  • Zhao Z, Zhang Y, Gao D, Zhang Y et al. Inhibition of Histone H3 Lysine-27 Demethylase Activity Relieves Rheumatoid Arthritis Symptoms via Repression of IL6 Transcription in Macrophages. Front Immunol 2022;13:818070. PMID: 35371061
  • Peng S, Zhang T, Zhang S, Tang Q et al. Integrated Bioinformatics and Validation Reveal IL1B and Its Related Molecules as Potential Biomarkers in Chronic Spontaneous Urticaria. Front Immunol 2022;13:850993. PMID: 35371000
  • Maruyama SR, Fuzo CA, Oliveira AER, Rogerio LA et al. Insight Into the Long Noncoding RNA and mRNA Coexpression Profile in the Human Blood Transcriptome Upon Leishmania infantum Infection. Front Immunol 2022;13:784463. PMID: 35370994
  • Yin F, Zhang H, Guo P, Wu Y et al. Comprehensive Analysis of Key m6A Modification Related Genes and Immune Infiltrates in Human Aortic Dissection. Front Cardiovasc Med 2022;9:831561. PMID: 35369349
  • Chen X, Li Q, Zhang Z, Yang M et al. Identification of Potential Diagnostic Biomarkers From Circulating Cells During the Course of Sleep Deprivation-Related Myocardial Infarction Based on Bioinformatics Analyses. Front Cardiovasc Med 2022;9:843426. PMID: 35369343
  • Yan Y, Long T, Su Q, Wang Y et al. Cardiac ISL1-Interacting Protein, a Cardioprotective Factor, Inhibits the Transition From Cardiac Hypertrophy to Heart Failure. Front Cardiovasc Med 2022;9:857049. PMID: 35369338
  • Hua C, Zheng Q, Zhu J, Chen S et al. Human Papillomavirus Type 16 Early Protein E7 Activates Autophagy through Inhibition of Dual-Specificity Phosphatase 5. Oxid Med Cell Longev 2022;2022:1863098. PMID: 35368866
  • Sivakumar Harish T, Ramesh Babu P, Shrestha A, Balasubramanian B et al. Development of a Model System to Study Expression Profile of RAC2 Gene in Breast Cancer MDA-MB-231 Cell Line. Evid Based Complement Alternat Med 2022;2022:2077850. PMID: 35368753
  • Xing X, Xia Q, Gong B, Shen Z et al. Identification of Tissue-Specific Expressed Hub Genes and Potential Drugs in Rheumatoid Arthritis Using Bioinformatics Analysis. Front Genet 2022;13:855557. PMID: 35368701
  • Wang Y, Fang Y, Zhao F, Gu J et al. Identification of GGT5 as a Novel Prognostic Biomarker for Gastric Cancer and its Correlation With Immune Cell Infiltration. Front Genet 2022;13:810292. PMID: 35368661
  • Wang S, Zhang H, Liu Z, Liu Y et al. A Novel Deep Learning Method to Predict Lung Cancer Long-Term Survival With Biological Knowledge Incorporated Gene Expression Images and Clinical Data. Front Genet 2022;13:800853. PMID: 35368657
  • Li L, Wang B et al. One Ferroptosis-Related Gene-Pair Signature Serves as an Original Prognostic Biomarker in Lung Adenocarcinoma. Front Genet 2022;13:841712. PMID: 35368652
  • Yan C, Liu Q, Nie M, Hu W et al. Comprehensive Analysis of the Immune and Prognostic Implication of TRIM8 in Breast Cancer. Front Genet 2022;13:835540. PMID: 35368651
  • Dai M, Hu Z, Kang Z, Zheng Z et al. Based on multiple machine learning to identify the ENO2 as diagnosis biomarkers of glaucoma. BMC Ophthalmol 2022 Apr 2;22(1):155. PMID: 35366826
  • Woods LM, Ali FR, Gomez R, Chernukhin I et al. Elevated ASCL1 activity creates de novo regulatory elements associated with neuronal differentiation. BMC Genomics 2022 Apr 3;23(1):255. PMID: 35366798
  • Magnitov MD, Garaev AK, Tyakht AV, Ulianov SV et al. Pentad: a tool for distance-dependent analysis of Hi-C interactions within and between chromatin compartments. BMC Bioinformatics 2022 Apr 2;23(1):116. PMID: 35366792
  • Rang FJ, de Luca KL, de Vries SS, Valdes-Quezada C et al. Single-cell profiling of transcriptome and histone modifications with EpiDamID. Mol Cell 2022 May 19;82(10):1956-1970.e14. PMID: 35366395
  • Baker K, O'Donnell C, Bendix M, Keogh S et al. IL-36 signalling enhances a pro-tumorigenic phenotype in colon cancer cells with cancer cell growth restricted by administration of the IL-36R antagonist. Oncogene 2022 May;41(19):2672-2684. PMID: 35365751
  • Saleiro D, Wen JQ, Kosciuczuk EM, Eckerdt F et al. Discovery of a signaling feedback circuit that defines interferon responses in myeloproliferative neoplasms. Nat Commun 2022 Apr 1;13(1):1750. PMID: 35365653
  • Qi J, Sun H, Zhang Y, Wang Z et al. Single-cell and spatial analysis reveal interaction of FAP(+) fibroblasts and SPP1(+) macrophages in colorectal cancer. Nat Commun 2022 Apr 1;13(1):1742. PMID: 35365629
  • Zhang T, Liu H, Jiao L, Zhang Z et al. Genetic characteristics involving the PD-1/PD-L1/L2 and CD73/A2aR axes and the immunosuppressive microenvironment in DLBCL. J Immunother Cancer 2022 Apr;10(4). PMID: 35365585
  • Robinson EK, Worthington A, Poscablo D, Shapleigh B et al. lincRNA-Cox2 Functions to Regulate Inflammation in Alveolar Macrophages during Acute Lung Injury. J Immunol 2022 Apr 15;208(8):1886-1900. PMID: 35365562
  • Wang YW, Chen SC, Gu DL, Yeh YC et al. A novel HIF1α-STIL-FOXM1 axis regulates tumor metastasis. J Biomed Sci 2022 Apr 1;29(1):24. PMID: 35365182
  • Jin D, Yuan L, Li F, Wang S et al. GINS4 might be a novel prognostic immune-related biomarker of not only esophageal squamous cell carcinoma and other cancers. BMC Med Genomics 2022 Apr 1;15(1):75. PMID: 35365175
  • Rong L, Chen B, Liu K, Liu B et al. CircZDBF2 up-regulates RNF145 by ceRNA model and recruits CEBPB to accelerate oral squamous cell carcinoma progression via NFκB signaling pathway. J Transl Med 2022 Apr 1;20(1):148. PMID: 35365168
  • Chen S, Li H, Zhan H, Zeng X et al. Identification of novel genes in Behcet's disease using integrated bioinformatic analysis. Immunol Res 2022 Aug;70(4):461-468. PMID: 35364782
  • Huang H, Christidi E, Shafaattalab S, Davis MK et al. RARG S427L attenuates the DNA repair response to doxorubicin in induced pluripotent stem cell-derived cardiomyocytes. Stem Cell Reports 2022 Apr 12;17(4):756-765. PMID: 35364012
  • Zhu Y, Dong L, Wang C, Hao K et al. Functional redundancy among Polycomb complexes in maintaining the pluripotent state of embryonic stem cells. Stem Cell Reports 2022 May 10;17(5):1198-1214. PMID: 35364009
  • Khouri-Farah N, Guo Q, Morgan K, Shin J et al. Integrated single-cell transcriptomic and epigenetic study of cell state transition and lineage commitment in embryonic mouse cerebellum. Sci Adv 2022 Apr;8(13):eabl9156. PMID: 35363520
  • Qi H, Song S, Wang P et al. ImmuMethy, a database of DNA methylation plasticity at a single cytosine resolution in human blood and immune cells. Database (Oxford) 2022 Apr 1;2022. PMID: 35363305
  • Perez-Sanchez C, Barbera Betancourt A, Lyons PA, Zhang Z et al. miR-374a-5p regulates inflammatory genes and monocyte function in patients with inflammatory bowel disease. J Exp Med 2022 May 2;219(5). PMID: 35363256
  • Zhang Y, Tao G, Liu P, Lu K et al. Evaluation of genetic variants in nucleosome remodeling and deacetylase (NuRD) complex subunits encoding genes and gastric cancer susceptibility. Arch Toxicol 2022 Jun;96(6):1739-1749. PMID: 35362730
  • Recoules L, Heurteau A, Raynal F, Karasu N et al. The histone variant macroH2A1.1 regulates RNA polymerase II-paused genes within defined chromatin interaction landscapes. J Cell Sci 2022 Apr 1;135(7). PMID: 35362516
  • Nissani N, Ulitsky I et al. Unique features of transcription termination and initiation at closely spaced tandem human genes. Mol Syst Biol 2022 Apr;18(4):e10682. PMID: 35362230
  • Ma HY, N'Diaye EN, Caplazi P, Huang Z et al. BMP1 is not required for lung fibrosis in mice. Sci Rep 2022 Mar 31;12(1):5466. PMID: 35361882
  • Gambardella G, Viscido G, Tumaini B, Isacchi A et al. A single-cell analysis of breast cancer cell lines to study tumour heterogeneity and drug response. Nat Commun 2022 Mar 31;13(1):1714. PMID: 35361816
  • Hojman P, Stagaard R, Adachi-Fernandez E, Deshmukh AS et al. Exercise suppresses tumor growth independent of high fat food intake and associated immune dysfunction. Sci Rep 2022 Mar 31;12(1):5476. PMID: 35361802
  • Xiong W, Gao X, Zhang T, Jiang B et al. USP8 inhibition reshapes an inflamed tumor microenvironment that potentiates the immunotherapy. Nat Commun 2022 Mar 31;13(1):1700. PMID: 35361799
  • Morandi E, van Hemert MJ, Incarnato D et al. SHAPE-guided RNA structure homology search and motif discovery. Nat Commun 2022 Mar 31;13(1):1722. PMID: 35361788
  • McCann K, von Witzleben A, Thomas J, Wang C et al. Targeting the tumor mutanome for personalized vaccination in a TMB low non-small cell lung cancer. J Immunother Cancer 2022 Mar;10(3). PMID: 35361728
  • Hwang BJ, Tsao LC, Acharya CR, Trotter T et al. Sensitizing immune unresponsive colorectal cancers to immune checkpoint inhibitors through MAVS overexpression. J Immunother Cancer 2022 Mar;10(3). PMID: 35361727
  • Gualdrini F, Polletti S, Simonatto M, Prosperini E et al. H3K9 trimethylation in active chromatin restricts the usage of functional CTCF sites in SINE B2 repeats. Genes Dev 2022 Apr 1;36(7-8):414-432. PMID: 35361678
  • Chen S, Wu Y, Wang S, Wu J et al. A risk model of gene signatures for predicting platinum response and survival in ovarian cancer. J Ovarian Res 2022 Mar 31;15(1):39. PMID: 35361267
  • Quinn GP, Sessler T, Ahmaderaghi B, Lambe S et al. classifieR a flexible interactive cloud-application for functional annotation of cancer transcriptomes. BMC Bioinformatics 2022 Mar 31;23(1):114. PMID: 35361119
  • Romero-Losada AB, Arvanitidou C, de Los Reyes P, García-González M et al. ALGAEFUN with MARACAS, microALGAE FUNctional enrichment tool for MicroAlgae RnA-seq and Chip-seq AnalysiS. BMC Bioinformatics 2022 Mar 31;23(1):113. PMID: 35361110
  • He Z, Peng C, Li T, Li J et al. Cell Differentiation Trajectory in Liver Cirrhosis Predicts Hepatocellular Carcinoma Prognosis and Reveals Potential Biomarkers for Progression of Liver Cirrhosis to Hepatocellular Carcinoma. Front Genet 2022;13:858905. PMID: 35360852
  • Fan C, Liao M, Xie L, Huang L et al. Single-Cell Transcriptome Integration Analysis Reveals the Correlation Between Mesenchymal Stromal Cells and Fibroblasts. Front Genet 2022;13:798331. PMID: 35360851
  • Duan Q, Li GR, Qu YP, Yin DX et al. Genome-Wide Identification, Evolution and Expression Analysis of the Glutathione S-Transferase Supergene Family in Euphorbiaceae. Front Plant Sci 2022;13:808279. PMID: 35360301
  • Zhou L, Wang M, Guo H, Hou J et al. Integrated Analysis Highlights the Immunosuppressive Role of TREM2(+) Macrophages in Hepatocellular Carcinoma. Front Immunol 2022;13:848367. PMID: 35359989
  • Li N, Li Y, Hu J, Wu Y et al. A Link Between Mitochondrial Dysfunction and the Immune Microenvironment of Salivary Glands in Primary Sjogren's Syndrome. Front Immunol 2022;13:845209. PMID: 35359935
  • Hossain MT, Li S, Reza MS, Feng S et al. Identification of circRNA Biomarker for Gastric Cancer through Integrated Analysis. Front Mol Biosci 2022;9:857320. PMID: 35359600
  • Yuan S, Zhai Y, Tao T, Zhang X et al. Conflicting Roles of ZFP36L1 in Regulating the Progression of Muscle Invasive Bladder Cancer. Front Mol Biosci 2022;9:687786. PMID: 35359594
  • Maimaiti A, Aili Y, Turhon M, Kadeer K et al. Modification Patterns of DNA Methylation-Related lncRNAs Regulating Genomic Instability for Improving the Clinical Outcomes and Tumour Microenvironment Characterisation of Lower-Grade Gliomas. Front Mol Biosci 2022;9:844973. PMID: 35359593
  • Karmakar A, Ahamad Khan MM, Kumari N, Devarajan N et al. Identification of Epigenetically Modified Hub Genes and Altered Pathways Associated With Retinoblastoma. Front Cell Dev Biol 2022;10:743224. PMID: 35359459
  • Ai LY, Du MZ, Chen YR, Xia PY et al. Integrated Analysis of lncRNA and mRNA Expression Profiles Indicates Age-Related Changes in Meniscus. Front Cell Dev Biol 2022;10:844555. PMID: 35359458
  • Zheng J, Yang Z, Li Y, Yang L et al. Knockdown of AKR1C3 Promoted Sorafenib Sensitivity Through Inhibiting the Phosphorylation of AKT in Hepatocellular Carcinoma. Front Oncol 2022;12:823491. PMID: 35359392
  • Mi J, Ma S, Chen W, Kang M et al. Integrative Pan-Cancer Analysis of KIF15 Reveals Its Diagnosis and Prognosis Value in Nasopharyngeal Carcinoma. Front Oncol 2022;12:772816. PMID: 35359374
  • Zhou J, Wu L, Xu P, Li Y et al. Filamin A Is a Potential Driver of Breast Cancer Metastasis via Regulation of MMP-1. Front Oncol 2022;12:836126. PMID: 35359350
  • Tu C, Wei L, Wang L, Tang Y et al. Eight Differential miRNAs in DN Identified by Microarray Analysis as Novel Biomarkers. Diabetes Metab Syndr Obes 2022;15:907-920. PMID: 35359345
  • Chen L, Wang L, Ao W, Chen Y et al. Bioinformatics study of the potential therapeutic effects of ginsenoside Rf in reversing nonalcoholic fatty liver disease. Biomed Pharmacother 2022 May;149:112879. PMID: 35358801
  • Laitinen P, Väänänen MA, Kolari IL, Mäkinen PI et al. Nuclear microRNA-466c regulates Vegfa expression in response to hypoxia. PLoS One 2022;17(3):e0265948. PMID: 35358280
  • Bartom ET, Kocherginsky M, Paudel B, Vaidyanathan A et al. SPOROS: A pipeline to analyze DISE/6mer seed toxicity. PLoS Comput Biol 2022 Mar;18(3):e1010022. PMID: 35358200
  • Lee J, Lee J, Sim W, Kim JH et al. Soluble TGFBI aggravates the malignancy of cholangiocarcinoma through activation of the ITGB1 dependent PPARγ signalling pathway. Cell Oncol (Dordr) 2022 Apr;45(2):275-291. PMID: 35357655
  • Hu C, Liu T, Xu Y, Han C et al. [METTL14 promotes the proliferation and migration of cervical cancer cells by up-regulating m(6)A Myc expression]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2022 Feb;38(2):131-137. PMID: 35356881
  • Xu J, Zhou H, Xiang G et al. Identification of Key Biomarkers and Pathways for Maintaining Cognitively Normal Brain Aging Based on Integrated Bioinformatics Analysis. Front Aging Neurosci 2022;14:833402. PMID: 35356296
  • He Q, Fan B, Du P, Jin Y et al. Construction and Validation of Two Hepatocellular Carcinoma-Progression Prognostic Scores Based on Gene Set Variation Analysis. Front Cell Dev Biol 2022;10:806989. PMID: 35356272
  • Yin Y, Liu B, Cao Y, Yao S et al. Colorectal Cancer-Derived Small Extracellular Vesicles Promote Tumor Immune Evasion by Upregulating PD-L1 Expression in Tumor-Associated Macrophages. Adv Sci (Weinh) 2022 Mar;9(9):2102620. PMID: 35356153
  • Hong X, Wang X, Rang X, Yin X et al. The Shared Mechanism and Candidate Drugs of Multiple Sclerosis and Sjögren's Syndrome Analyzed by Bioinformatics Based on GWAS and Transcriptome Data. Front Immunol 2022;13:857014. PMID: 35356004
  • Guo Y, Yang J, Ren K, Tian X et al. The Heterogeneity of Immune Cell Infiltration Landscape and Its Immunotherapeutic Implications in Hepatocellular Carcinoma. Front Immunol 2022;13:861525. PMID: 35355983
  • Liu JJ, Liang Y, Zhang Y, Wu RX et al. GC-MS Profile of Hua-Feng-Dan and RNA-Seq Analysis of Induced Adaptive Responses in the Liver. Front Pharmacol 2022;13:730318. PMID: 35355721
  • Xu Q, Cao D, Fang B, Yan S et al. Immune-related gene signature predicts clinical outcomes and immunotherapy response in acute myeloid leukemia. Cancer Med 2022 Sep;11(17):3364-3380. PMID: 35355427
  • Kadur Lakshminarasimha Murthy P, Sontake V, Tata A, Kobayashi Y et al. Human distal lung maps and lineage hierarchies reveal a bipotent progenitor. Nature 2022 Apr;604(7904):111-119. PMID: 35355018
  • Weiss JM, Hunter MV, Cruz NM, Baggiolini A et al. Anatomic position determines oncogenic specificity in melanoma. Nature 2022 Apr;604(7905):354-361. PMID: 35355015
  • Minatoguchi S, Saito S, Furuhashi K, Sawa Y et al. A novel renal perivascular mesenchymal cell subset gives rise to fibroblasts distinct from classic myofibroblasts. Sci Rep 2022 Mar 30;12(1):5389. PMID: 35354870
  • Xu Z, Wang S, Ren Z, Gao X et al. An integrated analysis of prognostic and immune infiltrates for hub genes as potential survival indicators in patients with lung adenocarcinoma. World J Surg Oncol 2022 Mar 30;20(1):99. PMID: 35354488
  • Sun L, Wang X, Wang X, Cui X et al. Genome-wide DNA methylation profiles of autism spectrum disorder. Psychiatr Genet 2022 Aug 1;32(4):131-145. PMID: 35353793
  • Morrison CB, Edwards CE, Shaffer KM, Araba KC et al. SARS-CoV-2 infection of airway cells causes intense viral and cell shedding, two spreading mechanisms affected by IL-13. Proc Natl Acad Sci U S A 2022 Apr 19;119(16):e2119680119. PMID: 35353667
  • Li D, Yang J, Huang X, Zhou H et al. eIF4A2 targets developmental potency and histone H3.3 transcripts for translational control of stem cell pluripotency. Sci Adv 2022 Apr;8(13):eabm0478. PMID: 35353581
  • Zhu J, Yang S, Qi Y, Gong Z et al. Stem cell-homing hydrogel-based miR-29b-5p delivery promotes cartilage regeneration by suppressing senescence in an osteoarthritis rat model. Sci Adv 2022 Apr;8(13):eabk0011. PMID: 35353555
  • Dastjerdi A, Strong R, La Rocca SA, Wessels M et al. Investigation into an outbreak of Border disease virus in pigs in England. Transbound Emerg Dis 2022 Jul;69(4):1698-1706. PMID: 35353447
  • El Bezawy R, Percio S, Ciniselli CM, De Cesare M et al. miR-550a-3p is a prognostic biomarker and exerts tumor-suppressive functions by targeting HSP90AA1 in diffuse malignant peritoneal mesothelioma. Cancer Gene Ther 2022 Oct;29(10):1394-1404. PMID: 35352023
  • Keniry A, Jansz N, Gearing LJ, Wanigasuriya I et al. BAF complex-mediated chromatin relaxation is required for establishment of X chromosome inactivation. Nat Commun 2022 Mar 29;13(1):1658. PMID: 35351876
  • Liu Y, Guo Y, Bao S, Huang H et al. Bone marrow mesenchymal stem cell-derived exosomal microRNA-381-3p alleviates vascular calcification in chronic kidney disease by targeting NFAT5. Cell Death Dis 2022 Mar 28;13(3):278. PMID: 35351860
  • Laurent A, Madigou T, Bizot M, Turpin M et al. TET2-mediated epigenetic reprogramming of breast cancer cells impairs lysosome biogenesis. Life Sci Alliance 2022 Jul;5(7). PMID: 35351824
  • Zhang T, Wang T, Niu Q, Xu L et al. Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle. BMC Biol 2022 Mar 29;20(1):79. PMID: 35351103
  • Zhang Y, Xia R, Lv M, Li Z et al. Machine-Learning Algorithm-Based Prediction of Diagnostic Gene Biomarkers Related to Immune Infiltration in Patients With Chronic Obstructive Pulmonary Disease. Front Immunol 2022;13:740513. PMID: 35350787
  • Shao MM, Shi M, Du J, Pei XB et al. Metabolic Landscape of Bronchoalveolar Lavage Fluid in Coronavirus Disease 2019 at Single Cell Resolution. Front Immunol 2022;13:829760. PMID: 35350779
  • Fischer M, Schwarz R, Riege K, DeCaprio JA et al. TargetGeneReg 2.0: a comprehensive web-atlas for p53, p63, and cell cycle-dependent gene regulation. NAR Cancer 2022 Mar;4(1):zcac009. PMID: 35350773
  • Ankill J, Aure MR, Bjørklund S, Langberg S et al. Epigenetic alterations at distal enhancers are linked to proliferation in human breast cancer. NAR Cancer 2022 Mar;4(1):zcac008. PMID: 35350772
  • Yang X, Li Y, Liu G, Zha W et al. Cadherin-16 inhibits thyroid carcinoma cell proliferation and invasion. Oncol Lett 2022 May;23(5):145. PMID: 35350592
  • Xu J, Li X, Zhang P, Luo J et al. miR-143-5p suppresses breast cancer progression by targeting the HIF-1α-related GLUT1 pathway. Oncol Lett 2022 May;23(5):147. PMID: 35350590
  • Zhou Y, Nan P, Li C, Mo H et al. Upregulation of MTA1 in Colon Cancer Drives A CD8(+) T Cell-Rich But Classical Macrophage-Lacking Immunosuppressive Tumor Microenvironment. Front Oncol 2022;12:825783. PMID: 35350571
  • Xiong Z, Li X, Yang L, Wu L et al. Integrative Analysis of Gene Expression and DNA Methylation Depicting the Impact of Obesity on Breast Cancer. Front Cell Dev Biol 2022;10:818082. PMID: 35350384
  • She J, Su D, Diao R, Wang L et al. A Joint Model of Random Forest and Artificial Neural Network for the Diagnosis of Endometriosis. Front Genet 2022;13:848116. PMID: 35350240
  • Liu W, Liao X, Yang Y, Lin H et al. Joint dimension reduction and clustering analysis of single-cell RNA-seq and spatial transcriptomics data. Nucleic Acids Res 2022 Jul 8;50(12):e72. PMID: 35349708
  • Bendall ML, Francis JH, Shoushtari AN, Nixon DF et al. Specific human endogenous retroviruses predict metastatic potential in uveal melanoma. JCI Insight 2022 May 9;7(9). PMID: 35349481
  • Trotta EGC content strongly influences the role of poly(dA) in the intrinsic nucleosome positioning in Saccharomyces cerevisiae. Yeast 2022 Apr;39(4):262-271. PMID: 35348238
  • Morita T, Hayashi K et al. Actin-related protein 5 functions as a novel modulator of MyoD and MyoG in skeletal muscle and in rhabdomyosarcoma. Elife 2022 Mar 29;11. PMID: 35348112
  • Yun ZJ, Wang HJ, Yu YX, Sun ZY et al. [Screening of differentially expressed genes for colorectal cancer and prediction of potential traditional Chinese medicine: based on bioinformatics]. Zhongguo Zhong Yao Za Zhi 2022 Mar;47(6):1666-1676. PMID: 35347966
  • Ameline B, Nathrath M, Nord KH, de Flon FH et al. Methylation and copy number profiling: emerging tools to differentiate osteoblastoma from malignant mimics? Mod Pathol 2022 Sep;35(9):1204-1211. PMID: 35347251
  • Zou M, Ke Q, Nie Q, Qi R et al. Inhibition of cGAS-STING by JQ1 alleviates oxidative stress-induced retina inflammation and degeneration. Cell Death Differ 2022 Sep;29(9):1816-1833. PMID: 35347235
  • Luo K, Li L, Meng M, Chen Y et al. Bioinformatics Identification of Candidate Biomarkers in Endomyocardial Biopsy and Peripheral Blood for Cardiac Allograft Rejection. Ann Transplant 2022 Mar 29;27:e935488. PMID: 35347104
  • Fan S, Hu Y et al. Integrative analyses of biomarkers and pathways for heart failure. BMC Med Genomics 2022 Mar 27;15(1):72. PMID: 35346191
  • Wu Z, Xia C, Zhang C, Yang D et al. Prognostic significance of SNCA and its methylation in bladder cancer. BMC Cancer 2022 Mar 26;22(1):330. PMID: 35346107
  • Hernandez-Beeftink T, Marcelino-Rodríguez I, Guillen-Guio B, Rodríguez-Pérez H et al. Admixture Mapping of Sepsis in European Individuals With African Ancestries. Front Med (Lausanne) 2022;9:754440. PMID: 35345767
  • Kolka CM, Webster J, Lepletier A, Winterford C et al. C5b-9 Membrane Attack Complex Formation and Extracellular Vesicle Shedding in Barrett's Esophagus and Esophageal Adenocarcinoma. Front Immunol 2022;13:842023. PMID: 35345676
  • Zhang H, Liu Y, Hu D, Liu S et al. Identification of Novel Molecular Therapeutic Targets and Their Potential Prognostic Biomarkers Based on Cytolytic Activity in Skin Cutaneous Melanoma. Front Oncol 2022;12:844666. PMID: 35345444
  • Yanchao L, Sibin Z, Gareev I, Huan X et al. Bioinformatics analysis of potential therapeutic targets for COVID-19 infection in patients with carotid atherosclerosis. J Infect Public Health 2022 Apr;15(4):437-447. PMID: 35344771
  • Zhang X, Zhu XJ, Zhong Z, Du JC et al. Small Molecule-Induced Differentiation As a Potential Therapy for Liver Cancer. Adv Sci (Weinh) 2022 May;9(15):e2103619. PMID: 35343115
  • Li GH, Han F, Xiao FH, Gu KS et al. System-level metabolic modeling facilitates unveiling metabolic signature in exceptional longevity. Aging Cell 2022 Apr;21(4):e13595. PMID: 35343058
  • Wang R, Li M, Bai Y, Jiao Y et al. CALCRL Gene is a Suitable Prognostic Factor in AML/ETO(+) AML Patients. J Oncol 2022;2022:3024360. PMID: 35342399
  • Zhu L, Tian Q, Gao H, Wu K et al. PROX1 promotes breast cancer invasion and metastasis through WNT/β-catenin pathway via interacting with hnRNPK. Int J Biol Sci 2022;18(5):2032-2046. PMID: 35342346
  • Cheng XF, Zeng ZH, Deng W, Liu YF et al. Integrated Analysis of Microarray Studies to Identify Novel Diagnostic Markers in Bladder Pain Syndrome/Interstitial Cystitis with Hunner Lesion. Int J Gen Med 2022;15:3143-3154. PMID: 35342305
  • Chen X, Tu J, Ma L, Huang Y et al. Analysis of Ferroptosis-Related LncRNAs Signatures Associated with Tumor Immune Infiltration and Experimental Validation in Clear Cell Renal Cell Carcinoma. Int J Gen Med 2022;15:3215-3235. PMID: 35342303
  • Zhong D, Chen D, Zhang G, Lin S et al. Screening of Potential Key Biomarkers for Ewing Sarcoma: Evidence from Gene Array Analysis. Int J Gen Med 2022;15:2575-2588. PMID: 35342299
  • Githaka JMMolnupiravir Does Not Induce Mutagenesis in Host Lung Cells during SARS-CoV-2 Treatment. Bioinform Biol Insights 2022;16:11779322221085077. PMID: 35342288
  • Ji J, Li X, Zhu Y, Wang R et al. Screening of periodontitis-related diagnostic biomarkers based on weighted gene correlation network analysis and machine algorithms. Technol Health Care 2022;30(5):1209-1221. PMID: 35342071
  • Chen Y, Zhang L, Zang X, Shen X et al. Baohuoside I Inhibits Tumor Angiogenesis in Multiple Myeloma via the Peroxisome Proliferator-Activated Receptor γ/Vascular Endothelial Growth Factor Signaling Pathway. Front Pharmacol 2022;13:822082. PMID: 35341213
  • Ke P, Zheng C, Liu F, Wu L et al. Relationship between circadian genes and memory impairment caused by sleep deprivation. PeerJ 2022;10:e13165. PMID: 35341046
  • Liu Y, Zhang H, Han X, Xing X et al. Bioinformatics Methods Reveal the Biomarkers and the miRNA-mRNA Network in Hepatocellular Carcinoma. J Healthc Eng 2022;2022:9963096. PMID: 35340237
  • Han G, Guo Q, Li N, Bi W et al. Screening and Analysis of Biomarkers in the miRNA-mRNA Regulatory Network of Osteosarcoma. J Healthc Eng 2022;2022:8055052. PMID: 35340229
  • Wang T, Xu C, Zhang Z, Wu H et al. Cellular heterogeneity and transcriptomic profiles during intrahepatic cholangiocarcinoma initiation and progression. Hepatology 2022 Nov;76(5):1302-1317. PMID: 35340039
  • Zhang L, Shi J, Du D, Niu N et al. Ketogenesis acts as an endogenous protective programme to restrain inflammatory macrophage activation during acute pancreatitis. EBioMedicine 2022 Apr;78:103959. PMID: 35339899
  • La Manna MP, Orlando V, Badami GD, Tamburini B et al. Platelets accumulate in lung lesions of tuberculosis patients and inhibit T-cell responses and Mycobacterium tuberculosis replication in macrophages. Eur J Immunol 2022 May;52(5):784-799. PMID: 35338775
  • Assidicky R, Tokat UM, Tarman IO, Saatci O et al. Targeting HIF1-alpha/miR-326/ITGA5 axis potentiates chemotherapy response in triple-negative breast cancer. Breast Cancer Res Treat 2022 Jun;193(2):331-348. PMID: 35338412
  • Zhang Y, Garrett S, Carroll RE, Xia Y et al. Vitamin D receptor upregulates tight junction protein claudin-5 against colitis-associated tumorigenesis. Mucosal Immunol 2022 Apr;15(4):683-697. PMID: 35338345
  • Miglioli C, Bakalli G, Orso S, Karemera M et al. Evidence of antagonistic predictive effects of miRNAs in breast cancer cohorts through data-driven networks. Sci Rep 2022 Mar 25;12(1):5166. PMID: 35338170
  • Wang LJ, Chen CP, Lee YS, Ng PS et al. Functional antagonism between ΔNp63α and GCM1 regulates human trophoblast stemness and differentiation. Nat Commun 2022 Mar 25;13(1):1626. PMID: 35338152
  • Sulaiman N, Yaseen Hachim M, Khalique A, Mohammed AK et al. EXOC6 (Exocyst Complex Component 6) Is Associated with the Risk of Type 2 Diabetes and Pancreatic β-Cell Dysfunction. Biology (Basel) 2022 Mar 1;11(3). PMID: 35336762
  • Abe Y, Sakata-Yanagimoto M, Fujisawa M, Miyoshi H et al. A single-cell atlas of non-haematopoietic cells in human lymph nodes and lymphoma reveals a landscape of stromal remodelling. Nat Cell Biol 2022 Apr;24(4):565-578. PMID: 35332263
  • Zhang Q, Hu Y, Wei P, Shi L et al. Identification of hub genes for adult patients with sepsis via RNA sequencing. Sci Rep 2022 Mar 24;12(1):5128. PMID: 35332254
  • Jensen M, Müller C, Hübner N, Patone G et al. Expression of cardiovascular-related microRNAs is altered in L-arginine:glycine amidinotransferase deficient mice. Sci Rep 2022 Mar 24;12(1):5108. PMID: 35332188
  • Yoon S, Chandra A, Vahedi G et al. Stripenn detects architectural stripes from chromatin conformation data using computer vision. Nat Commun 2022 Mar 24;13(1):1602. PMID: 35332165
  • Kapalczynska M, Lin M, Maertzdorf J, Heuberger J et al. BMP feed-forward loop promotes terminal differentiation in gastric glands and is interrupted by H. pylori-driven inflammation. Nat Commun 2022 Mar 24;13(1):1577. PMID: 35332152
  • Yoo S, Sinha A, Yang D, Altorki NK et al. Integrative network analysis of early-stage lung adenocarcinoma identifies aurora kinase inhibition as interceptor of invasion and progression. Nat Commun 2022 Mar 24;13(1):1592. PMID: 35332150
  • Zhang P, Guan H, Yuan S, Cheng H et al. Targeting myeloid derived suppressor cells reverts immune suppression and sensitizes BRAF-mutant papillary thyroid cancer to MAPK inhibitors. Nat Commun 2022 Mar 24;13(1):1588. PMID: 35332119
  • Bady P, Marosi C, Weller M, Grønberg BH et al. DNA methylation-based age acceleration observed in IDH wild-type glioblastoma is associated with better outcome-including in elderly patients. Acta Neuropathol Commun 2022 Mar 24;10(1):39. PMID: 35331339
  • O'Grady T, Njock MS, Lion M, Bruyr J et al. Sorting and packaging of RNA into extracellular vesicles shape intracellular transcript levels. BMC Biol 2022 Mar 24;20(1):72. PMID: 35331218
  • Zhang J, Tian Y, Mo S, Fu X et al. Overexpressing PLOD Family Genes Predict Poor Prognosis in Pancreatic Cancer. Int J Gen Med 2022;15:3077-3096. PMID: 35330878
  • Tan Z, Fu S, Huang Y, Duan X et al. HSPB8 is a Potential Prognostic Biomarker that Correlates With Immune Cell Infiltration in Bladder Cancer. Front Genet 2022;13:804858. PMID: 35330734
  • Ding X, Liu H, Yuan Y, Zhong Q et al. Roles of GFPT2 Expression Levels on the Prognosis and Tumor Microenvironment of Colon Cancer. Front Oncol 2022;12:811559. PMID: 35330716
  • Bhattacharyya N, Gupta S, Sharma S, Soni A et al. CDK1 and HSP90AA1 Appear as the Novel Regulatory Genes in Non-Small Cell Lung Cancer: A Bioinformatics Approach. J Pers Med 2022 Mar 4;12(3). PMID: 35330393
  • Kuchi A, Wu J, Fuloria J, Hicks C et al. Landscape of Molecular Crosstalk Perturbation between Lung Cancer and COVID-19. Int J Environ Res Public Health 2022 Mar 15;19(6). PMID: 35329141
  • Tian H, Qiao S, Zhao Y, Jin X et al. Krüppel-like Transcription Factor 7 Is a Causal Gene in Autism Development. Int J Mol Sci 2022 Mar 21;23(6). PMID: 35328799
  • Korbut E, Krukowska K, Magierowski M et al. Barrett's Metaplasia Progression towards Esophageal Adenocarcinoma: An Attempt to Select a Panel of Molecular Sensors and to Reflect Clinical Alterations by Experimental Models. Int J Mol Sci 2022 Mar 18;23(6). PMID: 35328735
  • Torz L, Niss K, Lundh S, Rekling JC et al. NPFF Decreases Activity of Human Arcuate NPY Neurons: A Study in Embryonic-Stem-Cell-Derived Model. Int J Mol Sci 2022 Mar 17;23(6). PMID: 35328681
  • Stange L, Lucia KE, Ghori A, Vajkoczy P et al. LPPR5 Expression in Glioma Affects Growth, Vascular Architecture, and Sunitinib Resistance. Int J Mol Sci 2022 Mar 13;23(6). PMID: 35328529
  • Poisa-Beiro L, Landry JJM, Raffel S, Tanaka M et al. Glucose Metabolism and Aging of Hematopoietic Stem and Progenitor Cells. Int J Mol Sci 2022 Mar 11;23(6). PMID: 35328449
  • Gomez-Sanchez JA, Patel N, Martirena F, Fazal SV et al. Emerging Role of HDACs in Regeneration and Ageing in the Peripheral Nervous System: Repair Schwann Cells as Pivotal Targets. Int J Mol Sci 2022 Mar 10;23(6). PMID: 35328416
  • Fu J, Huang S, Qian J, Qing H et al. Genome-Wide Identification of Petunia HSF Genes and Potential Function of PhHSF19 in Benzenoid/Phenylpropanoid Biosynthesis. Int J Mol Sci 2022 Mar 10;23(6). PMID: 35328393
  • Yu T, Huang Z, Pu Z et al. Identification of Potential Diagnostic Biomarkers and Biological Pathways in Hypertrophic Cardiomyopathy Based on Bioinformatics Analysis. Genes (Basel) 2022 Mar 17;13(3). PMID: 35328083
  • Wang D, Huang F, Yan P, Nie Y et al. Cytosolic and Nucleosolic Calcium-Regulated Molecular Networks in Response to Long-Term Treatment with Abscisic Acid and Methyl Jasmonate in Arabidopsis thaliana. Genes (Basel) 2022 Mar 16;13(3). PMID: 35328077
  • Tian S, Wang J, Zhang F, Wang D et al. Comparative Analysis of microRNA Binding Site Distribution and microRNA-Mediated Gene Expression Repression of Oncogenes and Tumor Suppressor Genes. Genes (Basel) 2022 Mar 9;13(3). PMID: 35328035
  • Pirbaluty AM, Mehrban H, Kadkhodaei S, Ravash R et al. Network Meta-Analysis of Chicken Microarray Data following Avian Influenza Challenge-A Comparison of Highly and Lowly Pathogenic Strains. Genes (Basel) 2022 Feb 26;13(3). PMID: 35327988
  • Miyata Y, Tokumoto S, Arai T, Shaikhutdinov N et al. Identification of Genomic Safe Harbors in the Anhydrobiotic Cell Line, Pv11. Genes (Basel) 2022 Feb 24;13(3). PMID: 35327960
  • Wang X, Guan H, Liu W, Li H et al. Identification of Immune Markers in Dilated Cardiomyopathies with Heart Failure by Integrated Weighted Gene Coexpression Network Analysis. Genes (Basel) 2022 Feb 22;13(3). PMID: 35327947
  • Fox SA, Vacher M, Farah CS et al. Transcriptomic Biomarker Signatures for Discrimination of Oral Cancer Surgical Margins. Biomolecules 2022 Mar 17;12(3). PMID: 35327656
  • Arendt KAM, Ntaliarda G, Armenis V, Kati D et al. An In Vivo Inflammatory Loop Potentiates KRAS Blockade. Biomedicines 2022 Mar 3;10(3). PMID: 35327394
  • Zhang A, Hu H et al. A Novel Blood-Based microRNA Diagnostic Model with High Accuracy for Multi-Cancer Early Detection. Cancers (Basel) 2022 Mar 11;14(6). PMID: 35326599
  • Davis TB, Gupta S, Yang M, Pflieger L et al. Ras Pathway Activation and MEKi Resistance Scores Predict the Efficiency of MEKi and SRCi Combination to Induce Apoptosis in Colorectal Cancer. Cancers (Basel) 2022 Mar 11;14(6). PMID: 35326598
  • Sung JY, Cheong JH et al. The Matrisome Is Associated with Metabolic Reprograming in Stem-like Phenotypes of Gastric Cancer. Cancers (Basel) 2022 Mar 10;14(6). PMID: 35326589
  • Kweon SM, Kim G, Jeong Y, Huang W et al. Midnolin Regulates Liver Cancer Cell Growth In Vitro and In Vivo. Cancers (Basel) 2022 Mar 10;14(6). PMID: 35326575
  • Monteiro FL, Williams C, Helguero LA et al. A Systematic Review to Define the Multi-Faceted Role of Lysine Methyltransferase SETD7 in Cancer. Cancers (Basel) 2022 Mar 10;14(6). PMID: 35326563
  • Chakraborty A, Mastalerz M, Ansari M, Schiller HB et al. Emerging Roles of Airway Epithelial Cells in Idiopathic Pulmonary Fibrosis. Cells 2022 Mar 19;11(6). PMID: 35326501
  • Warwick T, Schulz MH, Gilsbach R, Brandes RP et al. Nuclear receptor activation shapes spatial genome organization essential for gene expression control: lessons learned from the vitamin D receptor. Nucleic Acids Res 2022 Apr 22;50(7):3745-3763. PMID: 35325193
  • Zou Z, Ohta T, Miura F, Oki S et al. ChIP-Atlas 2021 update: a data-mining suite for exploring epigenomic landscapes by fully integrating ChIP-seq, ATAC-seq and Bisulfite-seq data. Nucleic Acids Res 2022 Jul 5;50(W1):W175-W182. PMID: 35325188
  • Onoda N, Kawabata A, Hasegawa K, Sakakura M et al. Spatial and single-cell transcriptome analysis reveals changes in gene expression in response to drug perturbation in rat kidney. DNA Res 2022 Feb 27;29(2). PMID: 35325072
  • de la Calle-Fabregat C, Rodríguez-Ubreva J, Ciudad L, Ramírez J et al. The synovial and blood monocyte DNA methylomes mirror prognosis, evolution, and treatment in early arthritis. JCI Insight 2022 May 9;7(9). PMID: 35324478
  • Beinse G, Borghese B, Métairie M, Just PA et al. Highly Specific Droplet-Digital PCR Detection of Universally Methylated Circulating Tumor DNA in Endometrial Carcinoma. Clin Chem 2022 Jun 1;68(6):782-793. PMID: 35323926
  • Zhang Y, Sun Y, Zhu H, Hong H et al. Allelic imbalance of HLA-B expression in human lung cells infected with coronavirus and other respiratory viruses. Eur J Hum Genet 2022 Aug;30(8):922-929. PMID: 35322240
  • Li Q, Han Z, Singh N, Terré B et al. Disruption of GMNC-MCIDAS multiciliogenesis program is critical in choroid plexus carcinoma development. Cell Death Differ 2022 Aug;29(8):1596-1610. PMID: 35322202
  • Summers BD, Kim K, Clement CC, Khan Z et al. Lung lymphatic thrombosis and dysfunction caused by cigarette smoke exposure precedes emphysema in mice. Sci Rep 2022 Mar 23;12(1):5012. PMID: 35322079
  • Ouyang J, Hu Z, Tong J, Yang Y et al. Construction and evaluation of a nomogram for predicting survival in patients with lung cancer. Aging (Albany NY) 2022 Mar 23;14(6):2775-2792. PMID: 35321944
  • Lulu S, Hualing H, Shan Z, Dianxi C et al. Establishing a Prognostic Model Based on Three Genomic Instability-related LncRNAs for Clear Cell Renal Cell Cancer. Clin Genitourin Cancer 2022 Aug;20(4):e317-e329. PMID: 35321833
  • Xu J, Dong X, Wang R, Chen B et al. DOK2 Has Prognostic and Immunologic Significance in Adults With Acute Myeloid Leukemia: A Novel Immune-Related Therapeutic Target. Front Med (Lausanne) 2022;9:842383. PMID: 35321466
  • Xiao R, Liu C, Zhang B, Ma L et al. Tumor-Educated Platelets as a Promising Biomarker for Blood-Based Detection of Renal Cell Carcinoma. Front Oncol 2022;12:844520. PMID: 35321426
  • Wu DMouse Oocytes, A Complex Single Cell Transcriptome. Front Cell Dev Biol 2022;10:827937. PMID: 35321242
  • Li JJ, Chen YE, Tong X et al. A flexible model-free prediction-based framework for feature ranking. J Mach Learn Res 2021 May;22. PMID: 35321091
  • Sati S, Jones P, Kim HS, Zhou LA et al. HiCuT: An efficient and low input method to identify protein-directed chromatin interactions. PLoS Genet 2022 Mar;18(3):e1010121. PMID: 35320278
  • Zhai X, Lou H, Hu J et al. Five-gene signature predicts acute kidney injury in early kidney transplant patients. Aging (Albany NY) 2022 Mar 23;14(6):2628-2644. PMID: 35320116
  • Xiang J, Lu M, Shi M, Cheng X et al. Heparanase Blockade as a Novel Dual-Targeting Therapy for COVID-19. J Virol 2022 Apr 13;96(7):e0005722. PMID: 35319225
  • Guo H, Zhang Y, Hu Z, Wang L et al. Screening and identification of biomarkers associated with the immune infiltration of intracerebral hemorrhage. J Clin Lab Anal 2022 May;36(5):e24361. PMID: 35318719
  • Song H, Wang J, Wang X, Yuan B et al. HNF4A-AS1-encoded small peptide promotes self-renewal and aggressiveness of neuroblastoma stem cells via eEF1A1-repressed SMAD4 transactivation. Oncogene 2022 Apr;41(17):2505-2519. PMID: 35318442
  • Min J, Ma F, Seyran B, Pellegrini M et al. β-cell-specific deletion of PFKFB3 restores cell fitness competition and physiological replication under diabetogenic stress. Commun Biol 2022 Mar 22;5(1):248. PMID: 35318430
  • Gutierrez G, Sun P, Han Y, Dai X et al. Defining mammary basal cell transcriptional states using single-cell RNA-sequencing. Sci Rep 2022 Mar 22;12(1):4893. PMID: 35318370
  • Graf M, Interlandi M, Moreno N, Holdhof D et al. Single-cell transcriptomics identifies potential cells of origin of MYC rhabdoid tumors. Nat Commun 2022 Mar 22;13(1):1544. PMID: 35318328
  • Nunes IJG, Feltes BC, David MZ, Dorn M et al. Gene Expression Variation Analysis (GEVA): A new R package to evaluate variations in differential expression in multiple biological conditions. J Biomed Inform 2022 May;129:104053. PMID: 35318148
  • Fletcher CE, Deng L, Orafidiya F, Yuan W et al. A non-coding RNA balancing act: miR-346-induced DNA damage is limited by the long non-coding RNA NORAD in prostate cancer. Mol Cancer 2022 Mar 22;21(1):82. PMID: 35317841
  • Jawahar J, McCumber AW, Lickwar CR, Amoroso CR et al. Starvation causes changes in the intestinal transcriptome and microbiome that are reversed upon refeeding. BMC Genomics 2022 Mar 22;23(1):225. PMID: 35317738
  • Fu L, Yao M, Liu X, Zheng D et al. Using bioinformatics and systems biology to discover common pathogenetic processes between sarcoidosis and COVID-19. Gene Rep 2022 Jun;27:101597. PMID: 35317263
  • Salmerón-Bárcenas EG, Zacapala-Gómez AE, Lozano-Amado D, Castro-Muñoz LJ et al. Comprehensive bioinformatic analysis reveals oncogenic role of H2A.Z isoforms in cervical cancer progression. Iran J Basic Med Sci 2021 Nov;24(11):1470-1481. PMID: 35317119
  • Chen F, Fang J et al. Benefits of Targeted Molecular Therapy to Immune Infiltration and Immune-Related Genes Predicting Signature in Breast Cancer. Front Oncol 2022;12:824166. PMID: 35317079
  • Zhang N, Chen Y, Huang C, Wei M et al. Adipose-derived mesenchymal stem cells may reduce intestinal epithelial damage in ulcerative colitis by communicating with macrophages and blocking inflammatory pathways: an analysis in silico. Aging (Albany NY) 2022 Mar 22;14(6):2665-2677. PMID: 35315792
  • Catela C, Chen Y, Weng Y, Wen K et al. Control of spinal motor neuron terminal differentiation through sustained Hoxc8 gene activity. Elife 2022 Mar 22;11. PMID: 35315772
  • Fukuda K, Makino Y, Kaneko S, Shimura C et al. Potential role of KRAB-ZFP binding and transcriptional states on DNA methylation of retroelements in human male germ cells. Elife 2022 Mar 22;11. PMID: 35315771
  • Zhang X, Moore CM, Harmacek LD, Domenico J et al. CFTR-mediated monocyte/macrophage dysfunction revealed by cystic fibrosis proband-parent comparisons. JCI Insight 2022 Mar 22;7(6). PMID: 35315363
  • Wong LR, Zheng J, Wilhelmsen K, Li K et al. Eicosanoid signalling blockade protects middle-aged mice from severe COVID-19. Nature 2022 May;605(7908):146-151. PMID: 35314834
  • Mazid MA, Ward C, Luo Z, Liu C et al. Rolling back human pluripotent stem cells to an eight-cell embryo-like stage. Nature 2022 May;605(7909):315-324. PMID: 35314832
  • Anand P, Lenehan PJ, Niesen M, Yoo U et al. Genetic alteration of human MYH6 is mimicked by SARS-CoV-2 polyprotein: mapping viral variants of cardiac interest. Cell Death Discov 2022 Mar 21;8(1):124. PMID: 35314694
  • Ahmed M, Kojima Y, Masai I et al. Strip1 regulates retinal ganglion cell survival by suppressing Jun-mediated apoptosis to promote retinal neural circuit formation. Elife 2022 Mar 22;11. PMID: 35314028
  • Feola S, Chiaro J, Martins B, Russo S et al. A novel immunopeptidomic-based pipeline for the generation of personalized oncolytic cancer vaccines. Elife 2022 Mar 22;11. PMID: 35314027
  • Zhu GD, Xie LM, Su JW, Cao XJ et al. Identification of differentially expressed genes and signaling pathways with Candida infection by bioinformatics analysis. Eur J Med Res 2022 Mar 21;27(1):43. PMID: 35314002
  • Zheng H, Xie J, Song K, Yang J et al. StemSC: a cross-dataset human stemness index for single-cell samples. Stem Cell Res Ther 2022 Mar 21;13(1):115. PMID: 35313979
  • Chou PH, Luo CK, Wali N, Lin WY et al. A chemical probe inhibitor targeting STAT1 restricts cancer stem cell traits and angiogenesis in colorectal cancer. J Biomed Sci 2022 Mar 22;29(1):20. PMID: 35313878
  • Zhang W, Zhang Q, Che L, Xie Z et al. Using biological information to analyze potential miRNA-mRNA regulatory networks in the plasma of patients with non-small cell lung cancer. BMC Cancer 2022 Mar 21;22(1):299. PMID: 35313857
  • Kannan J, Mathews L, Wu Z, Young NS et al. CAISC: A software to integrate copy number variations and single nucleotide mutations for genetic heterogeneity profiling and subclone detection by single-cell RNA sequencing. BMC Bioinformatics 2022 Mar 21;23(Suppl 3):98. PMID: 35313800
  • Martínez-Gutierrez A, Carbajal-Lopez B, Bui TM, Mendoza-Rodriguez M et al. A microRNA panel that regulates proinflammatory cytokines as diagnostic and prognosis biomarkers in colon cancer. Biochem Biophys Rep 2022 Jul;30:101252. PMID: 35313644
  • Singh AK, Wang R, Lombardo KA, Praharaj M et al. Dynamic single-cell RNA sequencing reveals BCG vaccination curtails SARS-CoV-2 induced disease severity and lung inflammation. bioRxiv 2022 Mar 15 PMID: 35313583
  • Chen C, Wu Y, Lu HL, Liu K et al. Identification of potential biomarkers of vascular calcification using bioinformatics analysis and validation in vivo. PeerJ 2022;10:e13138. PMID: 35313524
  • Gad SA, Sugiyama M, Tsuge M, Wakae K et al. The kinesin KIF4 mediates HBV/HDV entry through the regulation of surface NTCP localization and can be targeted by RXR agonists in vitro. PLoS Pathog 2022 Mar;18(3):e1009983. PMID: 35312737
  • Wang M, Zhai Y, Lei X, Xu J et al. Determination of the Interaction and Pharmacological Modulation of MCHR1 Signaling by the C-Terminus of MRAP2 Protein. Front Endocrinol (Lausanne) 2022;13:848728. PMID: 35311242
  • Futagami T, Goto M et al. Insights regarding sirtuin-dependent gene regulation during white koji production. Commun Integr Biol 2022;15(1):92-95. PMID: 35311223
  • Sun C, Ma S, Chen Y, Kim NH et al. Diagnostic Value, Prognostic Value, and Immune Infiltration of LOX Family Members in Liver Cancer: Bioinformatic Analysis. Front Oncol 2022;12:843880. PMID: 35311155
  • Zuo S, Wang H, Li L, Pan H et al. Thymidine Kinase 1 Drives Skin Cutaneous Melanoma Malignant Progression and Metabolic Reprogramming. Front Oncol 2022;12:802807. PMID: 35311151
  • Deng H, Tang F, Zhou M, Shan D et al. Identification and Validation of N6-Methyladenosine-Related Biomarkers for Bladder Cancer: Implications for Immunotherapy. Front Oncol 2022;12:820242. PMID: 35311150
  • Zhang L, Zhou S, Zhou T, Li X et al. Targeting the lncRNA DUXAP8/miR-29a/PIK3CA Network Restores Doxorubicin Chemosensitivity via PI3K-AKT-mTOR Signaling and Synergizes With Inotuzumab Ozogamicin in Chemotherapy-Resistant B-Cell Acute Lymphoblastic Leukemia. Front Oncol 2022;12:773601. PMID: 35311115
  • Tanno N, Takemoto K, Takada-Horisawa Y, Shimada R et al. FBXO47 is essential for preventing the synaptonemal complex from premature disassembly in mouse male meiosis. iScience 2022 Apr 15;25(4):104008. PMID: 35310947
  • Ye G, Feng S, Yang Y, Cao Z et al. Establishment and Comprehensive Analysis of Underlying microRNA-mRNA Interactive Networks in Ovarian Cancer. J Oncol 2022;2022:5120342. PMID: 35310909
  • Zhang W, Shen J, Wang Y, Cai K et al. Blood SSR1: A Possible Biomarker for Early Prediction of Parkinson's Disease. Front Mol Neurosci 2022;15:762544. PMID: 35310885
  • Su L, Xu C, Zeng S, Su L et al. Large-Scale Integrative Analysis of Soybean Transcriptome Using an Unsupervised Autoencoder Model. Front Plant Sci 2022;13:831204. PMID: 35310659
  • Gaur A, Jindal Y, Singh V, Tiwari R et al. GWAS to Identify Novel QTNs for WSCs Accumulation in Wheat Peduncle Under Different Water Regimes. Front Plant Sci 2022;13:825687. PMID: 35310635
  • Song H, Yang J, Yu W et al. Promoter Hypomethylation of TGFBR3 as a Risk Factor of Alzheimer's Disease: An Integrated Epigenomic-Transcriptomic Analysis. Front Cell Dev Biol 2021;9:825729. PMID: 35310542
  • Zhang W, Zhang Y et al. TARSII and CARSII: Two approaches for SNP-independent identification of germline differentially methylated regions in mammals. STAR Protoc 2022 Jun 17;3(2):101240. PMID: 35310079
  • Jiang Y, Chen L, Chao Z, Chen T et al. Ferroptosis Related Genes in Ischemic and Idiopathic Cardiomyopathy: Screening for Potential Pharmacological Targets. Front Cell Dev Biol 2022;10:817819. PMID: 35309948
  • Liu L, Chen C, Tu G, Peng Y et al. Pyroptosis-Related lncRNAs for Predicting the Prognosis and Identifying Immune Microenvironment Infiltration in Breast Cancer Lung Metastasis. Front Cell Dev Biol 2022;10:821727. PMID: 35309942
  • Du Y, Sui Y, Cao J, Jiang X et al. Dynamic Changes in Myofibroblasts Affect the Carcinogenesis and Prognosis of Bladder Cancer Associated With Tumor Microenvironment Remodeling. Front Cell Dev Biol 2022;10:833578. PMID: 35309916
  • Liu Y, Shou Y, Zhu R, Qiu Z et al. Construction and Validation of a Ferroptosis-Related Prognostic Signature for Melanoma Based on Single-Cell RNA Sequencing. Front Cell Dev Biol 2022;10:818457. PMID: 35309911
  • Li R, Li JP, Liu TT, Huo C et al. Prognostic Value of Genomic Instability of m(6)A-Related lncRNAs in Lung Adenocarcinoma. Front Cell Dev Biol 2022;10:707405. PMID: 35309906
  • Lv X, Ding M, Liu Y et al. Landscape of Infiltrated Immune Cell Characterization in Uveal Melanoma to Improve Immune Checkpoint Blockade Therapy. Front Immunol 2022;13:848455. PMID: 35309331
  • Zhao R, Pan Z, Li B, Zhao S et al. Comprehensive Analysis of the Tumor Immune Microenvironment Landscape in Glioblastoma Reveals Tumor Heterogeneity and Implications for Prognosis and Immunotherapy. Front Immunol 2022;13:820673. PMID: 35309323
  • Abbas Z, George C, Ancliffe M, Howlett M et al. Conventional Therapies Deplete Brain-Infiltrating Adaptive Immune Cells in a Mouse Model of Group 3 Medulloblastoma Implicating Myeloid Cells as Favorable Immunotherapy Targets. Front Immunol 2022;13:837013. PMID: 35309309
  • Wang Z, Zhang J, Zheng W, He Y et al. Long Non-Coding RNAs H19 and HOTAIR Implicated in Intervertebral Disc Degeneration. Front Genet 2022;13:843599. PMID: 35309146
  • Harutyunyan A, Jones NC, Kwan P, Anderson A et al. Network Preservation Analysis Reveals Dysregulated Synaptic Modules and Regulatory Hubs Shared Between Alzheimer's Disease and Temporal Lobe Epilepsy. Front Genet 2022;13:821343. PMID: 35309145
  • Gan Y, Fang W, Zeng Y, Wang P et al. Identification of a Novel Survival-Related circRNA-miRNA-mRNA Regulatory Network Related to Immune Infiltration in Liver Hepatocellular Carcinoma. Front Genet 2022;13:800537. PMID: 35309118
  • Liu H, Xiang C, Wang Z, Song Y et al. Identification of Potential Ferroptosis-Related Biomarkers and Immune Infiltration in Human Coronary Artery Atherosclerosis. Int J Gen Med 2022;15:2979-2990. PMID: 35308568
  • Zhao Y, Feng HM, Yan WJ, Qin Y et al. Identification of the Signature Genes and Network of Reactive Oxygen Species Related Genes and DNA Repair Genes in Lung Adenocarcinoma. Front Med (Lausanne) 2022;9:833829. PMID: 35308531
  • Chen J, Wu L, Lv Y, Liu T et al. Screening of Long Non-coding RNAs Biomarkers for the Diagnosis of Tuberculosis and Preliminary Construction of a Clinical Diagnosis Model. Front Microbiol 2022;13:774663. PMID: 35308365
  • Zhou Z, Wang Y, Ji R, Zhang D et al. Vanillin Derivatives Reverse Fusobacterium nucleatum-Induced Proliferation and Migration of Colorectal Cancer Through E-Cadherin/β-Catenin Pathway. Front Pharmacol 2022;13:841918. PMID: 35308221
  • Li T, Liu W, Hui W, Shi T et al. Integrated Analysis of Ulcerative Colitis Revealed an Association between PHLPP2 and Immune Infiltration. Dis Markers 2022;2022:4983471. PMID: 35308140
  • Chen S, Zhang Y, Zhan Q et al. [Bioinformatics analysis of ventilator-induced lung injury genome microarray based on gene expression omnibus database and key gene verification]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2022 Jan;34(1):41-47. PMID: 35307059
  • Wang H, Liu Z, Meng L, Zhang X et al. Comprehensive bioinformation analysis of differentially expressed genes in recurrent pregnancy loss. Hum Fertil (Camb) 2022 Mar 21;:1-8. PMID: 35306956
  • Han X, Liu YJ, Liu BW, Ma ZL et al. TREM2 and CD163 Ameliorate Microglia-Mediated Inflammatory Environment in the Aging Brain. J Mol Neurosci 2022 May;72(5):1075-1084. PMID: 35306602
  • Gholaminejad A, Ghaeidamini M, Simal-Gandara J, Roointan A et al. An Integrative in silico Study to Discover Key Drivers in Pathogenicity of Focal and Segmental Glomerulosclerosis. Kidney Blood Press Res 2022;47(6):410-422. PMID: 35306494
  • Balasundaram A, Udhaya Kumar S, George Priya Doss C et al. A computational model revealing the immune-related hub genes and key pathways involved in rheumatoid arthritis (RA). Adv Protein Chem Struct Biol 2022;129:247-273. PMID: 35305721
  • Wu LD, Li F, Chen JY, Zhang J et al. Analysis of potential genetic biomarkers using machine learning methods and immune infiltration regulatory mechanisms underlying atrial fibrillation. BMC Med Genomics 2022 Mar 19;15(1):64. PMID: 35305619
  • Ma Y, Li Q, Chen G, Tan Z et al. Transcriptomic analysis reveals a novel regulatory factor of ECHDC1 involved in lipid metabolism of non-alcoholic fatty liver disease. Biochem Biophys Res Commun 2022 May 21;605:1-8. PMID: 35305493
  • Rosina M, Ceci V, Turchi R, Chuan L et al. Ejection of damaged mitochondria and their removal by macrophages ensure efficient thermogenesis in brown adipose tissue. Cell Metab 2022 Apr 5;34(4):533-548.e12. PMID: 35305295
  • Bersaglieri C, Kresoja-Rakic J, Gupta S, Bär D et al. Genome-wide maps of nucleolus interactions reveal distinct layers of repressive chromatin domains. Nat Commun 2022 Mar 18;13(1):1483. PMID: 35304483
  • Teghanemt A, Pulipati P, Misel-Wuchter K, Day K et al. CD4 expression in effector T cells depends on DNA demethylation over a developmentally established stimulus-responsive element. Nat Commun 2022 Mar 18;13(1):1477. PMID: 35304452
  • Chen YL, Li XL, Li G, Tao YF et al. BRD4 inhibitor GNE987 exerts anti-cancer effects by targeting super-enhancers in neuroblastoma. Cell Biosci 2022 Mar 18;12(1):33. PMID: 35303940
  • Chen S, Chai X, Wu X et al. Bioinformatical analysis of the key differentially expressed genes and associations with immune cell infiltration in development of endometriosis. BMC Genom Data 2022 Mar 18;23(1):20. PMID: 35303800
  • Ma J, Mahmud N, Bosland MC, Ross SR et al. DDX41 is needed for pre- and postnatal hematopoietic stem cell differentiation in mice. Stem Cell Reports 2022 Apr 12;17(4):879-893. PMID: 35303436
  • Maxwell PJ, McKechnie M, Armstrong CW, Manley JM et al. Attenuating Adaptive VEGF-A and IL8 Signaling Restores Durable Tumor Control in AR Antagonist-Treated Prostate Cancers. Mol Cancer Res 2022 Jun 3;20(6):841-853. PMID: 35302608
  • Spina E, Simundza J, Incassati A, Chandramouli A et al. Gpr125 is a unifying hallmark of multiple mammary progenitors coupled to tumor latency. Nat Commun 2022 Mar 17;13(1):1421. PMID: 35302059
  • Georgiou M, Ntavelou P, Stokes W, Roy R et al. ATR and CDK4/6 inhibition target the growth of methotrexate-resistant choriocarcinoma. Oncogene 2022 Apr;41(18):2540-2554. PMID: 35301407
  • Galle-Treger L, Helou DG, Quach C, Howard E et al. Autophagy impairment in liver CD11c(+) cells promotes non-alcoholic fatty liver disease through production of IL-23. Nat Commun 2022 Mar 17;13(1):1440. PMID: 35301333
  • Kobayashi H, Singer RH et al. Single-molecule imaging of microRNA-mediated gene silencing in cells. Nat Commun 2022 Mar 17;13(1):1435. PMID: 35301300
  • Jia Z, Wang K, Duan Y, Hu K et al. Claudin1 decrease induced by 1,25-dihydroxy-vitamin D3 potentiates gefitinib resistance therapy through inhibiting AKT activation-mediated cancer stem-like properties in NSCLC cells. Cell Death Discov 2022 Mar 18;8(1):122. PMID: 35301287
  • Harada T, Heshmati Y, Kalfon J, Perez MW et al. A distinct core regulatory module enforces oncogene expression in KMT2A-rearranged leukemia. Genes Dev 2022 Mar 1;36(5-6):368-389. PMID: 35301220
  • Li S, Zheng ZZ, Zhang YP, Liu ZQ et al. [Bioinformatics Analysis on Key Genes and Immune Infiltration of Osteosarcoma]. Zhongguo Yi Xue Ke Xue Yuan Xue Bao 2022 Feb;44(1):110-117. PMID: 35300772
  • Lei S, Zhang Y et al. Integrative analysis identifies key genes related to metastasis and a robust gene-based prognostic signature in uveal melanoma. BMC Med Genomics 2022 Mar 17;15(1):61. PMID: 35300699
  • Tran A, Yang P, Yang JYH, Ormerod JT et al. scREMOTE: Using multimodal single cell data to predict regulatory gene relationships and to build a computational cell reprogramming model. NAR Genom Bioinform 2022 Mar;4(1):lqac023. PMID: 35300460
  • de Almeida RMC, Thomas GL, Glazier JA et al. Transcriptogram analysis reveals relationship between viral titer and gene sets responses during Corona-virus infection. NAR Genom Bioinform 2022 Mar;4(1):lqac020. PMID: 35300459
  • Liu X, Huang Y, Tan F, Wang HY et al. Single-Cell Atlas of the Chinese Tongue Sole (Cynoglossus semilaevis) Ovary Reveals Transcriptional Programs of Oogenesis in Fish. Front Cell Dev Biol 2022;10:828124. PMID: 35300429
  • Zhai WY, Duan FF, Chen S, Wang JY et al. An Aging-Related Gene Signature-Based Model for Risk Stratification and Prognosis Prediction in Lung Squamous Carcinoma. Front Cell Dev Biol 2022;10:770550. PMID: 35300428
  • Huang P, Zhang B, Zhao J, Li MD et al. Integrating the Epigenome and Transcriptome of Hepatocellular Carcinoma to Identify Systematic Enhancer Aberrations and Establish an Aberrant Enhancer-Related Prognostic Signature. Front Cell Dev Biol 2022;10:827657. PMID: 35300417
  • Yoshitake R, Chang G, Saeki K, Ha D et al. Single-Cell Transcriptomics Identifies Heterogeneity of Mouse Mammary Gland Fibroblasts With Distinct Functions, Estrogen Responses, Differentiation Processes, and Crosstalks With Epithelium. Front Cell Dev Biol 2022;10:850568. PMID: 35300413
  • Gu J, Wang M, Wang X, Li J et al. Exosomal miR-483-5p in Bone Marrow Mesenchymal Stem Cells Promotes Malignant Progression of Multiple Myeloma by Targeting TIMP2. Front Cell Dev Biol 2022;10:862524. PMID: 35300408
  • Bian M, Wang W, Song C, Pan L et al. Autophagy-Related Genes Predict the Progression of Periodontitis Through the ceRNA Network. J Inflamm Res 2022;15:1811-1824. PMID: 35300213
  • Rahal F, Capdevielle C, Rousseau B, Izotte J et al. An EZH2 blocker sensitizes histone mutated diffuse midline glioma to cholesterol metabolism inhibitors through an off-target effect. Neurooncol Adv 2022 Jan-Dec;4(1):vdac018. PMID: 35300150
  • Bai W, Cheng L, Xiong L, Wang M et al. Identification of Prognostic Genes in Hepatocellular Carcinoma. Int J Gen Med 2022;15:2895-2904. PMID: 35300146
  • Yang Y, Xie S, Jiang W, Tang S et al. Discovering Novel Biomarkers Associated with the Pathogenesis of Psoriasis: Evidence from Bioinformatic Analysis. Int J Gen Med 2022;15:2817-2833. PMID: 35300136
  • Zhang XZ, Chen MJ, Fan PM, Jiang W et al. BTG2 Serves as a Potential Prognostic Marker and Correlates with Immune Infiltration in Lung Adenocarcinoma. Int J Gen Med 2022;15:2727-2745. PMID: 35300128
  • Xu YF, Yao Y, Ma M, Yang SH et al. The Proinflammatory Cytokines IL-18, IL-21, and IFN-γ Differentially Regulate Liver Inflammation and Anti-Mitochondrial Antibody Level in a Murine Model of Primary Biliary Cholangitis. J Immunol Res 2022;2022:7111445. PMID: 35300072
  • Duan Y, Xie E, Liu C, Sun J et al. Establishment of a Combined Diagnostic Model of Abdominal Aortic Aneurysm with Random Forest and Artificial Neural Network. Biomed Res Int 2022;2022:7173972. PMID: 35299890
  • Xu C, Pei D, Liu Y, Yu Y et al. Identification of a Novel Tumor Microenvironment Prognostic Signature for Bladder Urothelial Carcinoma. Front Oncol 2022;12:818860. PMID: 35299749
  • Xie B, Tan G, Ren J, Lu W et al. RB1 Is an Immune-Related Prognostic Biomarker for Ovarian Cancer. Front Oncol 2022;12:830908. PMID: 35299734
  • Reinecke B, Frericks N, Lauber C, Dinkelborg K et al. The Human Liver-Expressed Lectin CD302 Restricts Hepatitis C Virus Infection. J Virol 2022 Apr 13;96(7):e0199521. PMID: 35297672
  • Kumar A, Kumar V, Arora M, Kumar M et al. Overexpression of prothymosin-α in glioma is associated with tumor aggressiveness and poor prognosis. Biosci Rep 2022 Apr 29;42(4). PMID: 35297481
  • Strating E, Wassenaar E, Verhagen M, Rauwerdink P et al. Fibroblast activation protein identifies Consensus Molecular Subtype 4 in colorectal cancer and allows its detection by (68)Ga-FAPI-PET imaging. Br J Cancer 2022 Jul;127(1):145-155. PMID: 35296803
  • Wu M, Zhang X, Zhang W, Chiou YS et al. Cancer stem cell regulated phenotypic plasticity protects metastasized cancer cells from ferroptosis. Nat Commun 2022 Mar 16;13(1):1371. PMID: 35296660
  • Zeng C, Lin M, Jin Y, Zhang J et al. Identification of Key Genes Associated with Brain Metastasis from Breast Cancer: A Bioinformatics Analysis. Med Sci Monit 2022 Mar 17;28:e935071. PMID: 35296631
  • Lewis MA, Ingham NJ, Chen J, Pearson S et al. Identification and characterisation of spontaneous mutations causing deafness from a targeted knockout programme. BMC Biol 2022 Mar 17;20(1):67. PMID: 35296311
  • Goral A, Firczuk M, Fidyt K, Sledz M et al. A Specific CD44lo CD25lo Subpopulation of Regulatory T Cells Inhibits Anti-Leukemic Immune Response and Promotes the Progression in a Mouse Model of Chronic Lymphocytic Leukemia. Front Immunol 2022;13:781364. PMID: 35296093
  • Wang H, Shao R, Lu S, Bai S et al. Integrative Analysis of a Pyroptosis-Related Signature of Clinical and Biological Value in Multiple Myeloma. Front Oncol 2022;12:845074. PMID: 35296025
  • Yan P, Chen D, Yan X, Yan X et al. Ex Vivo Near-Infrared Molecular Imaging of Human Upper Urinary Tract Urothelial Carcinoma With a CD47-Based Targeted Tracer. Front Oncol 2022;12:825476. PMID: 35295998
  • Fan J, Zhou J, Qu Z, Peng H et al. Network Pharmacology and Molecular Docking Elucidate the Pharmacological Mechanism of the OSTEOWONDER Capsule for Treating Osteoporosis. Front Genet 2022;13:833027. PMID: 35295951
  • Wang H, Luo K, Guan Z, Li Z et al. Identification of the Crucial Role of CCL22 in F. nucleatum-Related Colorectal Tumorigenesis that Correlates With Tumor Microenvironment and Immune Checkpoint Therapy. Front Genet 2022;13:811900. PMID: 35295948
  • Zhang K, Qian Y, Quan X, Zhu T et al. A Novel Signature of Lipid Metabolism-Related Gene Predicts Prognosis and Response to Immunotherapy in Lung Adenocarcinoma. Front Cell Dev Biol 2022;10:730132. PMID: 35295857
  • Sun L, Ma J, Chen J, Pan Z et al. Bioinformatics-Guided Analysis Uncovers AOX1 as an Osteogenic Differentiation-Relevant Gene of Human Mesenchymal Stem Cells. Front Mol Biosci 2022;9:800288. PMID: 35295843
  • Pushparaj PN, Kalamegam G, Wali Sait KH, Rasool M et al. Decoding the Role of Astrocytes in the Entorhinal Cortex in Alzheimer's Disease Using High-Dimensional Single-Nucleus RNA Sequencing Data and Next-Generation Knowledge Discovery Methodologies: Focus on Drugs and Natural Product Remedies for Dementia. Front Pharmacol 2021;12:720170. PMID: 35295737
  • Li ZH, Cheng L, Wen C, Ding L et al. Activation of CNR1/PI3K/AKT Pathway by Tanshinone IIA Protects Hippocampal Neurons and Ameliorates Sleep Deprivation-Induced Cognitive Dysfunction in Rats. Front Pharmacol 2022;13:823732. PMID: 35295327
  • Xiong T, Han S, Pu L, Zhang TC et al. Bioinformatics and Machine Learning Methods to Identify FN1 as a Novel Biomarker of Aortic Valve Calcification. Front Cardiovasc Med 2022;9:832591. PMID: 35295271
  • Garipler G, Lu C, Morrissey A, Lopez-Zepeda LS et al. The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by repressing pro-differentiation genes. Cell Rep 2022 Mar 15;38(11):110524. PMID: 35294876
  • Enterina JR, Sarkar S, Streith L, Jung J et al. Coordinated changes in glycosylation regulate the germinal center through CD22. Cell Rep 2022 Mar 15;38(11):110512. PMID: 35294874
  • Ma S, Patel SA, Abe Y, Chen N et al. RORγt phosphorylation protects against T cell-mediated inflammation. Cell Rep 2022 Mar 15;38(11):110520. PMID: 35294872
  • Meng Q, Zhou L, Liang H, Hu A et al. Spine‑specific downregulation of LAPTM5 expression promotes the progression and spinal metastasis of estrogen receptor‑positive breast cancer by activating glutamine‑dependent mTOR signaling. Int J Oncol 2022 Apr;60(4). PMID: 35294039
  • Forte E, Ramialison M, Nim HT, Mara M et al. Adult mouse fibroblasts retain organ-specific transcriptomic identity. Elife 2022 Mar 16;11. PMID: 35293863
  • Jobbins AM, Haberman N, Artigas N, Amourda C et al. Dysregulated RNA polyadenylation contributes to metabolic impairment in non-alcoholic fatty liver disease. Nucleic Acids Res 2022 Apr 8;50(6):3379-3393. PMID: 35293570
  • Sutton GJ, Poppe D, Simmons RK, Walsh K et al. Comprehensive evaluation of deconvolution methods for human brain gene expression. Nat Commun 2022 Mar 15;13(1):1358. PMID: 35292647
  • Ma Y, Wang S, Wu Y, Liu B et al. Hepatic stellate cell mediates transcription of TNFSF14 in hepatocellular carcinoma cells via H(2)S/CSE-JNK/JunB signaling pathway. Cell Death Dis 2022 Mar 15;13(3):238. PMID: 35292636
  • Cheng X, Gao C, Liu X, Xu D et al. Characterization of the wheat VQ protein family and expression of candidate genes associated with seed dormancy and germination. BMC Plant Biol 2022 Mar 15;22(1):119. PMID: 35291943
  • He FY, Chen G, He RQ, Huang ZG et al. Expression of IER3 in hepatocellular carcinoma: clinicopathology, prognosis, and potential regulatory pathways. PeerJ 2022;10:e12944. PMID: 35291486
  • Duan M, Sivapragasam S, Antony JS, Ulibarri J et al. High-resolution mapping demonstrates inhibition of DNA excision repair by transcription factors. Elife 2022 Mar 15;11. PMID: 35289750
  • Gu Z, Hübschmann D et al. Improve consensus partitioning via a hierarchical procedure. Brief Bioinform 2022 May 13;23(3). PMID: 35289356
  • Khabirova E, Jardine L, Coorens THH, Webb S et al. Single-cell transcriptomics reveals a distinct developmental state of KMT2A-rearranged infant B-cell acute lymphoblastic leukemia. Nat Med 2022 Apr;28(4):743-751. PMID: 35288693
  • Katkar GD, Sayed IM, Anandachar MS, Castillo V et al. Artificial intelligence-rationalized balanced PPARα/γ dual agonism resets dysregulated macrophage processes in inflammatory bowel disease. Commun Biol 2022 Mar 14;5(1):231. PMID: 35288651
  • Hasan MI, Hossain MA, Bhuiyan P, Miah MS et al. A system biology approach to determine therapeutic targets by identifying molecular mechanisms and key pathways for type 2 diabetes that are linked to the development of tuberculosis and rheumatoid arthritis. Life Sci 2022 May 15;297:120483. PMID: 35288173
  • Yang T, Hui R, Nouws J, Sauler M et al. Untargeted metabolomics analysis of esophageal squamous cell cancer progression. J Transl Med 2022 Mar 14;20(1):127. PMID: 35287685
  • Xiao J, Tian X, Jin S, He Y et al. CELF1 promotes matrix metalloproteinases gene expression at transcriptional level in lens epithelial cells. BMC Ophthalmol 2022 Mar 14;22(1):122. PMID: 35287612
  • Wen F, Wu X, Li T, Jia M et al. Characterization of the WRKY gene family in Akebia trifoliata and their response to Colletotrichum acutatum. BMC Plant Biol 2022 Mar 14;22(1):115. PMID: 35287589
  • Yan S, Meng L, Guo X, Chen Z et al. Identification of ITGAX and CCR1 as potential biomarkers of atherosclerosis via Gene Set Enrichment Analysis. J Int Med Res 2022 Mar;50(3):3000605211039480. PMID: 35287505
  • Cao X, Yao N, Zhao Z, Fu Y et al. LEM domain containing 1 promotes pancreatic cancer growth and metastasis by p53 and mTORC1 signaling pathway. Bioengineered 2022 Mar;13(3):7771-7784. PMID: 35286235
  • Lin Q, Ni H, Zhong J, Zheng Z et al. Identification of hub genes and potential biomarkers of neutrophilic asthma: evidence from a bioinformatics analysis. J Asthma 2023 Feb;60(2):348-359. PMID: 35286184
  • Jeon HY, Choi J, Kraaier L, Kim YH et al. Airway secretory cell fate conversion via YAP-mTORC1-dependent essential amino acid metabolism. EMBO J 2022 Apr 19;41(8):e109365. PMID: 35285539
  • Sarma RJ, Subbarayan S, Zohmingthanga J, Chenkual S et al. Transcriptome analysis reveals SALL4 as a prognostic key gene in gastric adenocarcinoma. J Egypt Natl Canc Inst 2022 Mar 14;34(1):11. PMID: 35284980
  • Hua SL, Liang JQ, Hu GF, Yang XR et al. Constructing a competing endogenous RNA network for osteoarthritis. Ann Transl Med 2022 Feb;10(3):147. PMID: 35284549
  • Mo S, Fang D, Zhao S, Thai Hoa PT et al. Down regulated oncogene KIF2C inhibits growth, invasion, and metastasis of hepatocellular carcinoma through the Ras/MAPK signaling pathway and epithelial-to-mesenchymal transition. Ann Transl Med 2022 Feb;10(3):151. PMID: 35284538
  • Zhou Y, Tong Z, Zhu X, Huang S et al. hsa_circ_0072309 Expression Profiling in Non-small-Cell Lung Carcinoma and Its Implications for Diagnosis and Prognosis. Front Surg 2022;9:842292. PMID: 35284481
  • Tian Q, Zou J, Tang J, Liang L et al. scMelody: An Enhanced Consensus-Based Clustering Model for Single-Cell Methylation Data by Reconstructing Cell-to-Cell Similarity. Front Bioeng Biotechnol 2022;10:842019. PMID: 35284424
  • Luo X, Chen X, Chen S, Gao Q et al. High expression of SEZ6L2 as an independent prognostic Indicator in thyroid carcinoma. Gland Surg 2022 Feb;11(2):412-425. PMID: 35284305
  • Moretto M, Sonego P, Pilati S, Matus JT et al. A COMPASS for VESPUCCI: A FAIR Way to Explore the Grapevine Transcriptomic Landscape. Front Plant Sci 2022;13:815443. PMID: 35283898
  • Huang M, Xu L, Liu J, Huang P et al. Cell-Cell Communication Alterations via Intercellular Signaling Pathways in Substantia Nigra of Parkinson's Disease. Front Aging Neurosci 2022;14:828457. PMID: 35283752
  • Wang N, Sun J, Pang T, Zheng H et al. DNA Methylation Markers and Prediction Model for Depression and Their Contribution for Breast Cancer Risk. Front Mol Neurosci 2022;15:845212. PMID: 35283726
  • Wang Z, Xia Q, Su W, Cao M et al. Exploring the Communal Pathogenesis, Ferroptosis Mechanism, and Potential Therapeutic Targets of Dilated Cardiomyopathy and Hypertrophic Cardiomyopathy via a Microarray Data Analysis. Front Cardiovasc Med 2022;9:824756. PMID: 35282347
  • Xie J, Yang P, Wei H, Mai P et al. Development of a prognostic nomogram based on an eight-gene signature for esophageal squamous cell carcinoma by weighted gene co-expression network analysis (WGCNA). Ann Transl Med 2022 Jan;10(2):88. PMID: 35282133
  • Song Y, Hao Q, Zhang G, Fang Q et al. Comparison of multi-omics results between patients with acute myeloid leukemia with long-term survival and healthy controls. Ann Transl Med 2022 Jan;10(2):82. PMID: 35282130
  • Meng Y, Li Y, Fang D, Huang Y et al. Identification of solute carrier family genes related to the prognosis and tumor-infiltrating immune cells of pancreatic ductal adenocarcinoma. Ann Transl Med 2022 Jan;10(2):57. PMID: 35282128
  • Zhu W, Zhao L, Kong B, Liu Y et al. The methylation modification of m6A regulators contributes to the prognosis of ovarian cancer. Ann Transl Med 2022 Jan;10(2):59. PMID: 35282121
  • Xie F, Zhang D, Qian X, Wei H et al. Analysis of cancer-promoting genes related to chemotherapy resistance in esophageal squamous cell carcinoma. Ann Transl Med 2022 Jan;10(2):92. PMID: 35282117
  • Wang T, Chen X, Zeng K et al. Molecular mechanism and candidate biomarkers of morphine for analgesia and addiction effects. Ann Transl Med 2022 Jan;10(2):89. PMID: 35282113
  • Li Y, Shi H, Chen T, Xue J et al. Establishing a competing endogenous RNA (ceRNA)-immunoregulatory network associated with the progression of Alzheimer's disease. Ann Transl Med 2022 Jan;10(2):65. PMID: 35282112
  • Lyu M, Yi X, Huang Z, Chen Y et al. A transcriptomic analysis based on aberrant methylation levels revealed potential novel therapeutic targets for nasopharyngeal carcinoma. Ann Transl Med 2022 Jan;10(2):47. PMID: 35282089
  • Wang X, Wang D, Su F, Li C et al. Immune abnormalities and differential gene expression in the hippocampus and peripheral blood of patients with Alzheimer's disease. Ann Transl Med 2022 Jan;10(2):29. PMID: 35282083
  • Wen P, Dayyani F, Tao R, Zhong X et al. Screening and verification of potential gene targets in esophageal carcinoma by bioinformatics analysis and immunohistochemistry. Ann Transl Med 2022 Jan;10(2):70. PMID: 35282073
  • Liu Z, Zhong Y, Meng S, Liao Q et al. Identification of a seven-gene prognostic signature using the gene expression profile of osteosarcoma. Ann Transl Med 2022 Jan;10(2):53. PMID: 35282067
  • He J, Li X, Zhou J, Hu R et al. BATF2 and PDK4 as diagnostic molecular markers of sarcoidosis and their relationship with immune infiltration. Ann Transl Med 2022 Jan;10(2):106. PMID: 35282063
  • Liu P, Zhang R, Han L, Zhang X et al. Vasohibin 2 promotes lymphangiogenesis of lung squamous cell carcinoma through snail-dependent vascular endothelial growth factor-D (VEGF-D) signaling pathway. Ann Transl Med 2022 Jan;10(2):39. PMID: 35282047
  • Nie J, Gong L, Li Z, Ou D et al. Bioinformatics Analysis of mRNAs and miRNAs for Identifying Potential Biomarkers in Lung Adenosquamous Carcinoma. Comput Math Methods Med 2022;2022:5851269. PMID: 35281953
  • Wang W, Lin X, Yu R, Zhou S et al. Down-regulated C4orf19 confers poor prognosis in colon adenocarcinoma identified by gene co-expression network. J Cancer 2022;13(4):1145-1159. PMID: 35281862
  • Lin G, Feng Q, Zhan F, Yang F et al. Generation and Analysis of Pyroptosis-Based and Immune-Based Signatures for Kidney Renal Clear Cell Carcinoma Patients, and Cell Experiment. Front Genet 2022;13:809794. PMID: 35281845
  • Lu M, Li J, Fan X, Xie F et al. Novel Immune-Related Ferroptosis Signature in Esophageal Cancer: An Informatics Exploration of Biological Processes Related to the TMEM161B-AS1/hsa-miR-27a-3p/GCH1 Regulatory Network. Front Genet 2022;13:829384. PMID: 35281840
  • Cao L, Li T, Ba Y, Chen E et al. Exploring Immune-Related Prognostic Signatures in the Tumor Microenvironment of Colon Cancer. Front Genet 2022;13:801484. PMID: 35281839
  • Sun X, Zhang H, Shan M, Dong Y et al. Comprehensive Transcriptome Analysis of Patients With Keratoconus Highlights the Regulation of Immune Responses and Inflammatory Processes. Front Genet 2022;13:782709. PMID: 35281826
  • Aghamirza Moghim Aliabadi H, Eivazzadeh-Keihan R, Beig Parikhani A, Fattahi Mehraban S et al. COVID-19: A systematic review and update on prevention, diagnosis, and treatment. MedComm (2020) 2022 Mar;3(1):e115. PMID: 35281790
  • Pei D, Xu C, Wang D, Shi X et al. Application of m(6)A and TME in Predicting the Prognosis and Treatment of Clear Cell Renal Cell Carcinoma. J Oncol 2022;2022:2910491. PMID: 35281520
  • Bai J, Geng B, Wang X, Wang S et al. Analysis of Potential Hub Genes for Neuropathic Pain Based on Differential Expression in Rat Models. Pain Res Manag 2022;2022:6571987. PMID: 35281346
  • Bai M, Sun C et al. Determination of Breast Metabolic Phenotypes and Their Associations With Immunotherapy and Drug-Targeted Therapy: Analysis of Single-Cell and Bulk Sequences. Front Cell Dev Biol 2022;10:829029. PMID: 35281118
  • Liao G, Yang Y, Xie A, Jiang Z et al. Applicability of Anticancer Drugs for the Triple-Negative Breast Cancer Based on Homologous Recombination Repair Deficiency. Front Cell Dev Biol 2022;10:845950. PMID: 35281113
  • Guo C, Liu Z, Yu Y, Liu S et al. Integrated Analysis of Multi-Omics Alteration, Immune Profile, and Pharmacological Landscape of Pyroptosis-Derived lncRNA Pairs in Gastric Cancer. Front Cell Dev Biol 2022;10:816153. PMID: 35281096
  • Zhou X, Ji Q, Li Q, Wang P et al. HSPA6 is Correlated With the Malignant Progression and Immune Microenvironment of Gliomas. Front Cell Dev Biol 2022;10:833938. PMID: 35281087
  • Gu L, Jiang C, Xu C, Liu Y et al. Based on Molecular Subtypes, Immune Characteristics and Genomic Variation to Constructing and Verifying Multi-Gene Prognostic Characteristics of Colorectal Cancer. Front Cell Dev Biol 2022;10:828415. PMID: 35281077
  • Yan L, Song X, Yang G, Zou L et al. Identification and Validation of Immune Infiltration Phenotypes in Laryngeal Squamous Cell Carcinoma by Integrative Multi-Omics Analysis. Front Immunol 2022;13:843467. PMID: 35281069
  • Che Y, Jiang D, Xu L, Sun Y et al. The Clinical Prediction Value of the Ubiquitination Model Reflecting the Immune Traits in LUAD. Front Immunol 2022;13:846402. PMID: 35281055
  • Xu Z, Chen X, Song L, Yuan F et al. Matrix Remodeling-Associated Protein 8 as a Novel Indicator Contributing to Glioma Immune Response by Regulating Ferroptosis. Front Immunol 2022;13:834595. PMID: 35281049
  • Chen XT, Huang Y, Wang J, Li G et al. Ischemia-Reperfusion Injury and Immunosuppressants Promote Polyomavirus Replication Through Common Molecular Mechanisms. Front Immunol 2022;13:835584. PMID: 35281039
  • Wang D, Chen X, Du Y, Li X et al. Associations of HER2 Mutation With Immune-Related Features and Immunotherapy Outcomes in Solid Tumors. Front Immunol 2022;13:799988. PMID: 35281032
  • Meng Z, Chen Y, Wu W, Yan B et al. PRRX1 Is a Novel Prognostic Biomarker and Facilitates Tumor Progression Through Epithelial-Mesenchymal Transition in Uveal Melanoma. Front Immunol 2022;13:754645. PMID: 35281030
  • Dou M, Ding C, Zheng B, Deng G et al. Immune-Related Genes for Predicting Future Kidney Graft Loss: A Study Based on GEO Database. Front Immunol 2022;13:859693. PMID: 35281025
  • Sun H, Damania A, Mair ML, Otukoya E et al. STAT6 Blockade Abrogates Aspergillus-Induced Eosinophilic Chronic Rhinosinusitis and Asthma, A Model of Unified Airway Disease. Front Immunol 2022;13:818017. PMID: 35281012
  • Myasoedova VA, Massaiu I, Moschetta D, Chiesa M et al. Sex-Specific Cell Types and Molecular Pathways Indicate Fibro-Calcific Aortic Valve Stenosis. Front Immunol 2022;13:747714. PMID: 35280999
  • González de la Aleja A, Herrero C, Torres-Torresano M, de la Rosa JV et al. Activation of LXR Nuclear Receptors Impairs the Anti-Inflammatory Gene and Functional Profile of M-CSF-Dependent Human Monocyte-Derived Macrophages. Front Immunol 2022;13:835478. PMID: 35280993
  • Feng D, Shi X, Zhang F, Xiong Q et al. Energy Metabolism-Related Gene Prognostic Index Predicts Biochemical Recurrence for Patients With Prostate Cancer Undergoing Radical Prostatectomy. Front Immunol 2022;13:839362. PMID: 35280985
  • Li Y, Jeong J, Song W et al. Molecular Characteristics and Distribution of Adult Human Corneal Immune Cell Types. Front Immunol 2022;13:798346. PMID: 35280984
  • Yan J, Wu X, Yu J, Kong Y et al. An Immune-Related Gene Pair Index Predicts Clinical Response and Survival Outcome of Immune Checkpoint Inhibitors in Melanoma. Front Immunol 2022;13:839901. PMID: 35280982
  • Stein CS, McLendon JM, Witmer NH, Boudreau RL et al. Modulation of miR-181 influences dopaminergic neuronal degeneration in a mouse model of Parkinson's disease. Mol Ther Nucleic Acids 2022 Jun 14;28:1-15. PMID: 35280925
  • Zhang L, Huang Z, Cai Q, Zhao C et al. Inhibition of Transketolase Improves the Prognosis of Colorectal Cancer. Front Med (Lausanne) 2022;9:837143. PMID: 35280908
  • Feng H, Zhao Y, Yan W, Wei X et al. Identification of Signature Genes and Characterizations of Tumor Immune Microenvironment and Tumor Purity in Lung Adenocarcinoma Based on Machine Learning. Front Med (Lausanne) 2022;9:843749. PMID: 35280857
  • Jiang X, Chen M, Du J, Bi H et al. LncRNA-AC068228.1 Is a Novel Prognostic Biomarker That Promotes Malignant Phenotypes in Lung Adenocarcinoma. Front Oncol 2022;12:856655. PMID: 35280807
  • Wu Z, Liu P, Zhang G et al. Identification of circRNA-miRNA-Immune-Related mRNA Regulatory Network in Gastric Cancer. Front Oncol 2022;12:816884. PMID: 35280778
  • Huang Z, Yang J, Qiu W, Huang J et al. HAUS5 Is A Potential Prognostic Biomarker With Functional Significance in Breast Cancer. Front Oncol 2022;12:829777. PMID: 35280773
  • Jiang X, Shi Y, Chen X, Xu H et al. NCAPG as a Novel Prognostic Biomarker in Glioma. Front Oncol 2022;12:831438. PMID: 35280743
  • Wang L, Zhang J, Su Y, Maimaitiyiming Y et al. Distinct Roles of m(5)C RNA Methyltransferase NSUN2 in Major Gynecologic Cancers. Front Oncol 2022;12:786266. PMID: 35280737
  • Peng HY, Lei ST, Hou SH, Weng LC et al. PrP(C) Promotes Endometriosis Progression by Reprogramming Cholesterol Metabolism and Estrogen Biosynthesis of Endometrial Stromal Cells through PPARα Pathway. Int J Biol Sci 2022;18(4):1755-1772. PMID: 35280685
  • Pandi J, Arulprakasam A, Dhandapani R, Ramanathan S et al. Biomarkers for Breast Adenocarcinoma Using In Silico Approaches. Evid Based Complement Alternat Med 2022;2022:7825272. PMID: 35280505
  • Xu T, Xu S, Yao Y, Chen X et al. P2RY14 downregulation in lung adenocarcinoma: a potential therapeutic target associated with immune infiltration. J Thorac Dis 2022 Feb;14(2):515-535. PMID: 35280459
  • Hu Z, Liu Y, Zhu Y, Cui H et al. Identification of key biomarkers and immune infiltration in renal interstitial fibrosis. Ann Transl Med 2022 Feb;10(4):190. PMID: 35280428
  • Lu YJ, Gong Y, Li WJ, Zhao CY et al. The prognostic significance of a novel ferroptosis-related gene model in breast cancer. Ann Transl Med 2022 Feb;10(4):184. PMID: 35280394
  • Wang L, Fang D, Liu Y et al. Autophagy-related genes are potential diagnostic biomarkers for dermatomyositis. Ann Transl Med 2022 Feb;10(4):228. PMID: 35280393
  • Liang G, Ma W, Luo Y, Yin J et al. Identification of differentially expressed and methylated genes and construction of a co-expression network in age-related macular degeneration. Ann Transl Med 2022 Feb;10(4):223. PMID: 35280389
  • Chen Y, Zou L, Lu J, Hu M et al. Identification and validation of novel gene markers of osteoporosis by weighted co expression analysis. Ann Transl Med 2022 Feb;10(4):210. PMID: 35280365
  • Jiang JH, Gao J, Chen CY, Ao YQ et al. Circulating tumor cell methylation profiles reveal the classification and evolution of non-small cell lung cancer. Transl Lung Cancer Res 2022 Feb;11(2):224-237. PMID: 35280307
  • Chai K, Zhang X, Tang H, Gu H et al. The Application of Consensus Weighted Gene Co-expression Network Analysis to Comparative Transcriptome Meta-Datasets of Multiple Sclerosis in Gray and White Matter. Front Neurol 2022;13:807349. PMID: 35280300
  • Amudzi AA, Piedra-Mora C, Ma DJ, Wong NB et al. Using Gene Expression Analysis to Understand Complex Autoimmune Skin Disease Patients: A Series of Four Canine Cutaneous Lupus Erythematosus Cases. Front Vet Sci 2022;9:778934. PMID: 35280134
  • Xu Y, Dong X, Ma B, Mu P et al. Circ_0000228 Promotes Cervical Cancer Progression via Regulating miR-337-3p /TGFBR1 Axis. Cell J 2022 Feb;24(2):91-98. PMID: 35279965
  • Zeller C, Richter D, Jurinovic V, Valtierra-Gutiérrez IA et al. Adverse stem cell clones within a single patient's tumor predict clinical outcome in AML patients. J Hematol Oncol 2022 Mar 12;15(1):25. PMID: 35279202
  • Liu SH, Wang YL, Jiang SM, Wan XJ et al. Identifying the hub gene and immune infiltration of Parkinson's disease using bioinformatical methods. Brain Res 2022 Jun 15;1785:147879. PMID: 35278479
  • M Ascensión A, Ibáñez-Solé O, Inza I, Izeta A et al. Triku: a feature selection method based on nearest neighbors for single-cell data. Gigascience 2022 Mar 12;11. PMID: 35277963
  • Zhu T, Liu J, Beck S, Pan S et al. A pan-tissue DNA methylation atlas enables in silico decomposition of human tissue methylomes at cell-type resolution. Nat Methods 2022 Mar;19(3):296-306. PMID: 35277705
  • Mosharaf MP, Reza MS, Kibria MK, Ahmed FF et al. Computational identification of host genomic biomarkers highlighting their functions, pathways and regulators that influence SARS-CoV-2 infections and drug repurposing. Sci Rep 2022 Mar 11;12(1):4279. PMID: 35277538
  • Li M, Huang H, Wang B, Jiang S et al. Comprehensive 3D epigenomic maps define limbal stem/progenitor cell function and identity. Nat Commun 2022 Mar 11;13(1):1293. PMID: 35277509
  • Kuang W, Jin H, Yang F, Chen X et al. ALKBH3-dependent m(1)A demethylation of Aurora A mRNA inhibits ciliogenesis. Cell Discov 2022 Mar 11;8(1):25. PMID: 35277482
  • Zhou Y, Yu Z, Liu L, Wei L et al. Construction and evaluation of an integrated predictive model for chronic kidney disease based on the random forest and artificial neural network approaches. Biochem Biophys Res Commun 2022 May 7;603:21-28. PMID: 35276459
  • Børset M, Elsaadi S, Vandsemb EN, Hess ES et al. Highly expressed genes in multiple myeloma cells - what can they tell us about the disease? Eur J Haematol 2022 Jul;109(1):31-40. PMID: 35276027
  • Leon A, Subirana L, Magre K, Cases I et al. Gene Regulatory Networks of Epidermal and Neural Fate Choice in a Chordate. Mol Biol Evol 2022 Apr 11;39(4). PMID: 35276009
  • Zhu L, Zhang X, Chen Y, Yan D et al. Identification of prognostic genes in oral squamous cell carcinoma microenvironment. Cancer Biomark 2022;34(4):523-532. PMID: 35275524
  • Lv Y, Wang M, Chen M, Wang D et al. hsa_circ_0119412 overexpression promotes cervical cancer progression by targeting miR-217 to upregulate anterior gradient 2. J Clin Lab Anal 2022 Apr;36(4):e24236. PMID: 35274779
  • Hicks P, Oluwadare O et al. HiCARN: resolution enhancement of Hi-C data using cascading residual networks. Bioinformatics 2022 Apr 28;38(9):2414-2421. PMID: 35274679
  • Degener MJF, van Cruchten RTP, Otero BA, Wang ET et al. A comprehensive atlas of fetal splicing patterns in the brain of adult myotonic dystrophy type 1 patients. NAR Genom Bioinform 2022 Mar;4(1):lqac016. PMID: 35274098
  • Yao G, Zhao K, Bao K, Li J et al. Radiation increases COL1A1, COL3A1, and COL1A2 expression in breast cancer. Open Med (Wars) 2022;17(1):329-340. PMID: 35274048
  • Wang H, Zhang R, Li E, Yan R et al. Pan-Cancer Transcriptome and Immune Infiltration Analyses Reveal the Oncogenic Role of Far Upstream Element-Binding Protein 1 (FUBP1). Front Mol Biosci 2022;9:794715. PMID: 35274005
  • Guan Y, Xu B, Sui Y, Chen Z et al. Pan-Cancer Analysis and Validation Reveals that D-Dimer-Related Genes are Prognostic and Downregulate CD8(+) T Cells via TGF-Beta Signaling in Gastric Cancer. Front Mol Biosci 2022;9:790706. PMID: 35274004
  • Wang Z, Chen X, Jiang Z et al. Immune infiltration and a ferroptosis-related gene signature for predicting the prognosis of patients with cholangiocarcinoma. Am J Transl Res 2022;14(2):1204-1219. PMID: 35273723
  • Xue R, Tang Q, Zhang Y, Xie M et al. Integrative Analyses of Genes Associated With Otologic Disorders in Turner Syndrome. Front Genet 2022;13:799783. PMID: 35273637
  • Qian D, Qian C, Ye B, Xu M et al. Development and Validation of a Novel Stemness-Index-Related Long Noncoding RNA Signature for Breast Cancer Based on Weighted Gene Co-Expression Network Analysis. Front Genet 2022;13:760514. PMID: 35273635
  • Qing X, Xu W, Liu S, Chen Z et al. Molecular Characteristics, Clinical Significance, and Cancer Immune Interactions of Angiogenesis-Associated Genes in Gastric Cancer. Front Immunol 2022;13:843077. PMID: 35273618
  • Wu Z, Lei K, Xu S, He J et al. Establishing a Prognostic Model Based on Ulceration and Immune Related Genes in Melanoma Patients and Identification of EIF3B as a Therapeutic Target. Front Immunol 2022;13:824946. PMID: 35273605
  • Zhang M, Ma J, Guo Q, Ding S et al. CD8(+) T Cell-Associated Gene Signature Correlates With Prognosis Risk and Immunotherapy Response in Patients With Lung Adenocarcinoma. Front Immunol 2022;13:806877. PMID: 35273597
  • Chen L, Zhu D, Huang J, Zhang H et al. Identification of Hub Genes Associated with COPD Through Integrated Bioinformatics Analysis. Int J Chron Obstruct Pulmon Dis 2022;17:439-456. PMID: 35273447
  • Zhao Z, Zhang D, Yang F, Xu M et al. Evolutionarily conservative and non-conservative regulatory networks during primate interneuron development revealed by single-cell RNA and ATAC sequencing. Cell Res 2022 May;32(5):425-436. PMID: 35273378
  • Montgomery MK, Bayliss J, Nie S, De Nardo W et al. Deep proteomic profiling unveils arylsulfatase A as a non-alcoholic steatohepatitis inducible hepatokine and regulator of glycemic control. Nat Commun 2022 Mar 10;13(1):1259. PMID: 35273160
  • Yang M, Davis TB, Pflieger L, Nebozhyn MV et al. An integrative gene expression signature analysis identifies CMS4 KRAS-mutated colorectal cancers sensitive to combined MEK and SRC targeted therapy. BMC Cancer 2022 Mar 10;22(1):256. PMID: 35272617
  • Xu Z, Jiang M, Bai X, Ding L et al. Identification and Verification of Potential Core Genes in Pediatric Septic Shock. Comb Chem High Throughput Screen 2022;25(13):2228-2239. PMID: 35272594
  • Deepti P, Pasha A, Kumbhakar DV, Doneti R et al. Overexpression of Secreted Phosphoprotein 1 (SPP1) predicts poor survival in HPV positive cervical cancer. Gene 2022 May 25;824:146381. PMID: 35271951
  • Shemirani R, Lin G, Abduweli Uyghurturk D, Le M et al. An miRNA derived from amelogenin exon4 regulates expression of transcription factor Runx2 by directly targeting upstream activators Nfia and Prkch. J Biol Chem 2022 May;298(5):101807. PMID: 35271849
  • Huang S, Xiang C, Song Y et al. Identification of the shared gene signatures and pathways between sarcopenia and type 2 diabetes mellitus. PLoS One 2022;17(3):e0265221. PMID: 35271662
  • Hasegawa T, Ito M, Hasegawa S, Teranishi M et al. Molecular Hydrogen Enhances Proliferation of Cancer Cells That Exhibit Potent Mitochondrial Unfolded Protein Response. Int J Mol Sci 2022 Mar 7;23(5). PMID: 35270030
  • Mossakowska BJ, Kober P, Rusetska N, Boresowicz J et al. Difference in miRNA Expression in Functioning and Silent Corticotroph Pituitary Adenomas Indicates the Role of miRNA in the Regulation of Corticosteroid Receptors. Int J Mol Sci 2022 Mar 5;23(5). PMID: 35270010
  • Suda T, Yamashita T, Sunagozaka H, Okada H et al. Dickkopf-1 Promotes Angiogenesis and is a Biomarker for Hepatic Stem Cell-like Hepatocellular Carcinoma. Int J Mol Sci 2022 Mar 3;23(5). PMID: 35269944
  • Liu K, Han X, Liang Z, Yan J et al. Genome-Wide Identification, Classification, and Expression Analysis of the HD-Zip Transcription Factor Family in Apple (Malus domestica Borkh.). Int J Mol Sci 2022 Feb 27;23(5). PMID: 35269775
  • Kircher M, Chludzinski E, Krepel J, Saremi B et al. Augmentation of Transcriptomic Data for Improved Classification of Patients with Respiratory Diseases of Viral Origin. Int J Mol Sci 2022 Feb 24;23(5). PMID: 35269624
  • Zhang T, Wong G et al. Dysregulation of Human Somatic piRNA Expression in Parkinson's Disease Subtypes and Stages. Int J Mol Sci 2022 Feb 23;23(5). PMID: 35269612
  • Boeckmans J, Gatzios A, Heymans A, Rombaut M et al. Transcriptomics Reveals Discordant Lipid Metabolism Effects between In Vitro Models Exposed to Elafibranor and Liver Samples of NAFLD Patients after Bariatric Surgery. Cells 2022 Mar 4;11(5). PMID: 35269515
  • Vainshelbaum NM, Salmina K, Gerashchenko BI, Lazovska M et al. Role of the Circadian Clock "Death-Loop" in the DNA Damage Response Underpinning Cancer Treatment Resistance. Cells 2022 Mar 3;11(5). PMID: 35269502
  • Schimke LF, Marques AHC, Baiocchi GC, de Souza Prado CA et al. Severe COVID-19 Shares a Common Neutrophil Activation Signature with Other Acute Inflammatory States. Cells 2022 Mar 1;11(5). PMID: 35269470
  • Rada P, Lamballe F, Carceller-López E, Hitos AB et al. Enhanced Wild-Type MET Receptor Levels in Mouse Hepatocytes Attenuates Insulin-Mediated Signaling. Cells 2022 Feb 24;11(5). PMID: 35269415
  • Lapborisuth K, Farrell C, Pellegrini M et al. Pseudotime Analysis Reveals Exponential Trends in DNA Methylation Aging with Mortality Associated Timescales. Cells 2022 Feb 22;11(5). PMID: 35269389
  • Vidal MS Jr, Deguit CDT, Yu GFB, Amosco MD et al. G-Protein Coupled Receptor Dysregulation May Play Roles in Severe Preeclampsia-A Weighted Gene Correlation Network Analysis of Placental Gene Expression Profile. Cells 2022 Feb 22;11(5). PMID: 35269385
  • Ufuk A, Garner T, Stevens A, Latif A et al. Monocarboxylate Transporters Are Involved in Extracellular Matrix Remodelling in Pancreatic Ductal Adenocarcinoma. Cancers (Basel) 2022 Mar 2;14(5). PMID: 35267606
  • Bong JW, Gim JA, Ju Y, Cheong C et al. Prognosis and Sensitivity of Adjuvant Chemotherapy in Mucinous Colorectal Adenocarcinoma without Distant Metastasis. Cancers (Basel) 2022 Mar 2;14(5). PMID: 35267605
  • Wolf J, Boneva S, Rosmus DD, Agostini H et al. Deciphering the Molecular Signature of Human Hyalocytes in Relation to Other Innate Immune Cell Populations. Invest Ophthalmol Vis Sci 2022 Mar 2;63(3):9. PMID: 35266958
  • Latorre P, Böttcher R, Nadal-Ribelles M, Li CH et al. Data-driven identification of inherent features of eukaryotic stress-responsive genes. NAR Genom Bioinform 2022 Mar;4(1):lqac018. PMID: 35265837
  • Brouard C, Mariette J, Flamary R, Vialaneix N et al. Feature selection for kernel methods in systems biology. NAR Genom Bioinform 2022 Mar;4(1):lqac014. PMID: 35265835
  • Ma Y, Li Y, Guo P, Zhao J et al. Endothelial Cells Potentially Participate in the Metastasis of Triple-Negative Breast Cancer. J Immunol Res 2022;2022:5412007. PMID: 35265720
  • Huang L, Xu Z, Xie Y, Jiang S et al. Comprehensive Characterization of Ageing-Relevant Subtypes Associated With Different Tumorigenesis and Tumor Microenvironment in Prostate Cancer. Front Mol Biosci 2022;9:803474. PMID: 35265669
  • Tong W, Wang G, Zhu L, Bai Y et al. Pan-Cancer Analysis Identified CD93 as a Valuable Biomarker for Predicting Patient Prognosis and Immunotherapy Response. Front Mol Biosci 2021;8:793445. PMID: 35265666
  • Yue T, Liu X, Zuo S, Zhu J et al. BCL2A1 and CCL18 Are Predictive Biomarkers of Cisplatin Chemotherapy and Immunotherapy in Colon Cancer Patients. Front Cell Dev Biol 2021;9:799278. PMID: 35265629
  • Zhao X, Yan H, Yan X, Chen Z et al. A Novel Prognostic Four-Gene Signature of Breast Cancer Identified by Integrated Bioinformatics Analysis. Dis Markers 2022;2022:5925982. PMID: 35265226
  • Lee W, Kim HY, Choi YJ, Jung SH et al. SNX10-mediated degradation of LAMP2A by NSAIDs inhibits chaperone-mediated autophagy and induces hepatic lipid accumulation. Theranostics 2022;12(5):2351-2369. PMID: 35265214
  • Xiaojia W, Jianchun L, Bingwen Z, Xingcan H et al. Exploring the Mechanism of Astragalus propinquus Schischkin and Panax Notoginseng (A&P) Compounds in the Treatment of Renal Fibrosis and Chronic Kidney Disease Based on Integrated Network Analysis. Evid Based Complement Alternat Med 2022;2022:2646022. PMID: 35265144
  • Wu J, Xiao Y, Lu W, Zhang Z et al. Correlation between Tumor Microenvironment and Immune Subtypes Based on CD8 T Cells Enhancing Personalized Therapy of Gastric Cancer. J Oncol 2022;2022:8933167. PMID: 35265130
  • She H, Tan L, Zhou Y, Zhu Y et al. The Landscape of Featured Metabolism-Related Genes and Imbalanced Immune Cell Subsets in Sepsis. Front Genet 2022;13:821275. PMID: 35265105
  • Lagumdzic E, Pernold C, Viano M, Olgiati S et al. Transcriptome Profiling of Porcine Naïve, Intermediate and Terminally Differentiated CD8(+) T Cells. Front Immunol 2022;13:849922. PMID: 35265090
  • Jiang Y, Ji Q, Long X, Wang P et al. CLCF1 Is a Novel Potential Immune-Related Target With Predictive Value for Prognosis and Immunotherapy Response in Glioma. Front Immunol 2022;13:810832. PMID: 35265072
  • Wang X, Chang S, Wang T, Wu R et al. IL7R Is Correlated With Immune Cell Infiltration in the Tumor Microenvironment of Lung Adenocarcinoma. Front Pharmacol 2022;13:857289. PMID: 35264973
  • Wang H, Zhang J et al. Identification of DTL as Related Biomarker and Immune Infiltration Characteristics of Nasopharyngeal Carcinoma via Comprehensive Strategies. Int J Gen Med 2022;15:2329-2345. PMID: 35264872
  • Vaishnav ED, de Boer CG, Molinet J, Yassour M et al. The evolution, evolvability and engineering of gene regulatory DNA. Nature 2022 Mar;603(7901):455-463. PMID: 35264797
  • Melhem H, Kaya B, Kaymak T, Wuggenig P et al. Epithelial GPR35 protects from Citrobacter rodentium infection by preserving goblet cells and mucosal barrier integrity. Mucosal Immunol 2022 Mar;15(3):443-458. PMID: 35264769
  • Shen T, Ni T, Chen J, Chen H et al. An enhancer variant at 16q22.1 predisposes to hepatocellular carcinoma via regulating PRMT7 expression. Nat Commun 2022 Mar 9;13(1):1232. PMID: 35264579
  • Pan B, Xia Y, Gao Z, Zhao G et al. Cinnamomi Ramulus inhibits the growth of colon cancer cells via Akt/ERK signaling pathways. Chin Med 2022 Mar 9;17(1):36. PMID: 35264225
  • Semina SE, Pal P, Kansara NS, Huggins RJ et al. Selective pressure of endocrine therapy activates the integrated stress response through NFκB signaling in a subpopulation of ER positive breast cancer cells. Breast Cancer Res 2022 Mar 9;24(1):19. PMID: 35264224
  • Möller-Levet CS, Laing EE, Archer SN, Dijk DJ et al. Diurnal and circadian rhythmicity of the human blood transcriptome overlaps with organ- and tissue-specific expression of a non-human primate. BMC Biol 2022 Mar 9;20(1):63. PMID: 35264172
  • Bonthuis PJ, Steinwand S, Stacher Hörndli CN, Emery J et al. Noncanonical genomic imprinting in the monoamine system determines naturalistic foraging and brain-adrenal axis functions. Cell Rep 2022 Mar 8;38(10):110500. PMID: 35263575
  • Zindl CL, Witte SJ, Laufer VA, Gao M et al. A nonredundant role for T cell-derived interleukin 22 in antibacterial defense of colonic crypts. Immunity 2022 Mar 8;55(3):494-511.e11. PMID: 35263568
  • Yao K, Schaafsma E, Zhang B, Cheng C et al. Tumor cell intrinsic and extrinsic features predict prognosis in estrogen receptor positive breast cancer. PLoS Comput Biol 2022 Mar;18(3):e1009495. PMID: 35263321
  • Gil-Gálvez A, Jiménez-Gancedo S, Pérez-Posada A, Franke M et al. Gain of gene regulatory network interconnectivity at the origin of vertebrates. Proc Natl Acad Sci U S A 2022 Mar 15;119(11):e2114802119. PMID: 35263228
  • Jiang Z, Elsarrag SZ, Duan Q, LaGory EL et al. KLF15 cistromes reveal a hepatocyte pathway governing plasma corticosteroid transport and systemic inflammation. Sci Adv 2022 Mar 11;8(10):eabj2917. PMID: 35263131
  • Yang X, Zhou S, Yang C, Cao C et al. CCNB1, Negatively Regulated by miR-559, Promotes the Proliferation, Migration, and Invasion of Ovarian Carcinoma Cells. Mol Biotechnol 2022 Sep;64(9):958-969. PMID: 35262876
  • Guo P, Xu T, Jiang Y, Shen W et al. Identification of potential key molecular biomarkers in lung adenocarcinoma by bioinformatics analysis. Transl Cancer Res 2022 Jan;11(1):227-241. PMID: 35261899
  • Zhan Y, Chen X, Zheng H, Luo J et al. YB1 associates with oncogenetic roles and poor prognosis in nasopharyngeal carcinoma. Sci Rep 2022 Mar 8;12(1):3699. PMID: 35260638
  • Kwok AWC, Qiao C, Huang R, Sham MH et al. MQuad enables clonal substructure discovery using single cell mitochondrial variants. Nat Commun 2022 Mar 8;13(1):1205. PMID: 35260582
  • Matsumura M, Nomoto M, Itaya T, Aratani Y et al. Mechanosensory trichome cells evoke a mechanical stimuli-induced immune response in Arabidopsis thaliana. Nat Commun 2022 Mar 8;13(1):1216. PMID: 35260555
  • Rogg M, Maier JI, Van Wymersch C, Helmstädter M et al. α-Parvin Defines a Specific Integrin Adhesome to Maintain the Glomerular Filtration Barrier. J Am Soc Nephrol 2022 Apr;33(4):786-808. PMID: 35260418
  • Tang X, Deng Z, Ding P, Qiang W et al. A novel protein encoded by circHNRNPU promotes multiple myeloma progression by regulating the bone marrow microenvironment and alternative splicing. J Exp Clin Cancer Res 2022 Mar 8;41(1):85. PMID: 35260179
  • Dussiau C, Boussaroque A, Gaillard M, Bravetti C et al. Hematopoietic differentiation is characterized by a transient peak of entropy at a single-cell level. BMC Biol 2022 Mar 9;20(1):60. PMID: 35260165
  • Liu S, Wen C et al. miR-141-3p promotes retinoblastoma progression via inhibiting sushi domain-containing protein 2. Bioengineered 2022 Mar;13(3):7410-7424. PMID: 35259051
  • Yang B, Fang L, Gao Q, Xu C et al. Species-specific KRAB-ZFPs function as repressors of retroviruses by targeting PBS regions. Proc Natl Acad Sci U S A 2022 Mar 15;119(11):e2119415119. PMID: 35259018
  • Kogan PS, Wirth F, Tomar A, Darr J et al. Uncovering the molecular identity of cardiosphere-derived cells (CDCs) by single-cell RNA sequencing. Basic Res Cardiol 2022 Mar 8;117(1):11. PMID: 35258704
  • Li J, Zaslavsky M, Su Y, Guo J et al. KIR(+)CD8(+) T cells suppress pathogenic T cells and are active in autoimmune diseases and COVID-19. Science 2022 Apr 15;376(6590):eabi9591. PMID: 35258337
  • Zhang Y, Lv P, Ma J, Chen N et al. Antrodia cinnamomea exerts an anti-hepatoma effect by targeting PI3K/AKT-mediated cell cycle progression in vitro and in vivo. Acta Pharm Sin B 2022 Feb;12(2):890-906. PMID: 35256953
  • Zhang X, Ren Z, Xu J, Chen Q et al. MiR-1301-3p Inhibits Epithelial-Mesenchymal Transition via Targeting RhoA in Pancreatic Cancer. J Oncol 2022;2022:5514715. PMID: 35256884
  • Nakatani T, Lin J, Ji F, Ettinger A et al. DNA replication fork speed underlies cell fate changes and promotes reprogramming. Nat Genet 2022 Mar;54(3):318-327. PMID: 35256805
  • Wang H, Zhang D, Cui X, Dai Y et al. Loss of IRF7 accelerates acute myeloid leukemia progression and induces VCAM1-VLA-4 mediated intracerebral invasion. Oncogene 2022 Apr;41(16):2303-2314. PMID: 35256780
  • Chen J, Zhuang Y, Wang P, Ning J et al. Reducing N6AMT1-mediated 6mA DNA modification promotes breast tumor progression via transcriptional repressing cell cycle inhibitors. Cell Death Dis 2022 Mar 7;13(3):216. PMID: 35256595
  • Chen A, Jin J, Cheng S, Liu Z et al. mTORC1 induces plasma membrane depolarization and promotes preosteoblast senescence by regulating the sodium channel Scn1a. Bone Res 2022 Mar 8;10(1):25. PMID: 35256591
  • Liu SC, Tsai CH, Wang YH, Su CM et al. Melatonin abolished proinflammatory factor expression and antagonized osteoarthritis progression in vivo. Cell Death Dis 2022 Mar 7;13(3):215. PMID: 35256585
  • Ashley B, Simner C, Manousopoulou A, Jenkinson C et al. Placental uptake and metabolism of 25(OH)vitamin D determine its activity within the fetoplacental unit. Elife 2022 Mar 8;11. PMID: 35256050
  • Wang J, Niu Y, Luo L, Lu Z et al. Decoding ceRNA regulatory network in the pulmonary artery of hypoxia-induced pulmonary hypertension (HPH) rat model. Cell Biosci 2022 Mar 7;12(1):27. PMID: 35255963
  • Li D, Velazquez JJ, Ding J, Hislop J et al. TraSig: inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data. Genome Biol 2022 Mar 7;23(1):73. PMID: 35255944
  • Pothuraju R, Pai P, Chaudhary S, Siddiqui JA et al. Depletion of transmembrane mucin 4 (Muc4) alters intestinal homeostasis in a genetically engineered mouse model of colorectal cancer. Aging (Albany NY) 2022 Mar 7;14(5):2025-2046. PMID: 35255004
  • Siddiqui G, De Paoli A, MacRaild CA, Sexton AE et al. A new mass spectral library for high-coverage and reproducible analysis of the Plasmodium falciparum-infected red blood cell proteome. Gigascience 2022 Mar 7;11. PMID: 35254426
  • Liu W, Wen D, Liu Z, Wang K et al. Erythropoiesis signature and ubiquitin-mediated proteolysis are enriched in systematic juvenile idiopathic arthritis. Int J Immunogenet 2022 Jun;49(3):193-201. PMID: 35253998
  • Sun D, Liu Z, Li T, Wu Q et al. STRIDE: accurately decomposing and integrating spatial transcriptomics using single-cell RNA sequencing. Nucleic Acids Res 2022 Apr 22;50(7):e42. PMID: 35253896
  • Verdile V, Svetoni F, La Rosa P, Ferrante G et al. EWS splicing regulation contributes to balancing Foxp1 isoforms required for neuronal differentiation. Nucleic Acids Res 2022 Apr 8;50(6):3362-3378. PMID: 35253879
  • Goyal M, Serrano G, Argemi J, Shomorony I et al. JIND: joint integration and discrimination for automated single-cell annotation. Bioinformatics 2022 Apr 28;38(9):2488-2495. PMID: 35253844
  • Zhai Z, Lei YL, Wang R, Xie Y et al. Supervised capacity preserving mapping: a clustering guided visualization method for scRNA-seq data. Bioinformatics 2022 Apr 28;38(9):2496-2503. PMID: 35253834
  • He L, Arnold C, Thoma J, Rohde C et al. CDK7/12/13 inhibition targets an oscillating leukemia stem cell network and synergizes with venetoclax in acute myeloid leukemia. EMBO Mol Med 2022 Apr 7;14(4):e14990. PMID: 35253392
  • Liu XG, Li M, Mai SJ, Cai RJ et al. Telomere length-related signature as a novel biomarker of prognosis and immune response in non-small cell lung cancer. Eur Rev Med Pharmacol Sci 2022 Feb;26(4):1304-1319. PMID: 35253187
  • Zhu M, Zhang C, Zhang Z, Liao X et al. Changes in transcriptomic landscape in human end-stage heart failure with distinct etiology. iScience 2022 Mar 18;25(3):103935. PMID: 35252820
  • Milazzotto MP, Noonan MJ, de Almeida Monteiro Melo Ferraz M et al. Mining RNAseq data reveals dynamic metaboloepigenetic profiles in human, mouse and bovine pre-implantation embryos. iScience 2022 Mar 18;25(3):103904. PMID: 35252810
  • Goodwin K, Jaslove JM, Tao H, Zhu M et al. Patterning the embryonic pulmonary mesenchyme. iScience 2022 Mar 18;25(3):103838. PMID: 35252804
  • Wang L, Tang D, Wu T, Sun F et al. Disruption of LTBP4 Inhibition-Induced TGFβ1 Activation Promoted Cell Proliferation and Metastasis in Skin Melanoma by Inhibiting the Activation of the Hippo-YAP1 Signaling Pathway. Front Cell Dev Biol 2021;9:673904. PMID: 35252214
  • Yang M, Qiu Y, Yang Y, Wang W et al. An Integrated Analysis of the Identified PRPF19 as an Onco-immunological Biomarker Encompassing the Tumor Microenvironment, Disease Progression, and Prognoses in Hepatocellular Carcinoma. Front Cell Dev Biol 2022;10:840010. PMID: 35252202
  • Cheuk YC, Xu S, Zhu D, Luo Y et al. Monocytic Myeloid-Derived Suppressor Cells Inhibit Myofibroblastic Differentiation in Mesenchymal Stem Cells Through IL-15 Secretion. Front Cell Dev Biol 2022;10:817402. PMID: 35252184
  • Feng W, Zhang Y, Liu W, Wang X et al. A Prognostic Model Using Immune-Related Genes for Colorectal Cancer. Front Cell Dev Biol 2022;10:813043. PMID: 35252182
  • Fang Y, Pei S, Huang K, Xu F et al. Single-Cell Transcriptome Reveals the Metabolic and Clinical Features of a Highly Malignant Cell Subpopulation in Pancreatic Ductal Adenocarcinoma. Front Cell Dev Biol 2022;10:798165. PMID: 35252177
  • Dai Q, Ye Y et al. Development and Validation of a Novel Histone Acetylation-Related Gene Signature for Predicting the Prognosis of Ovarian Cancer. Front Cell Dev Biol 2022;10:793425. PMID: 35252174
  • Wang Z, Zhang J, Zhang H, Dai Z et al. CMTM Family Genes Affect Prognosis and Modulate Immunocytes Infiltration in Grade II/III Glioma Patients by Influencing the Tumor Immune Landscape and Activating Associated Immunosuppressing Pathways. Front Cell Dev Biol 2022;10:740822. PMID: 35252165
  • Li Y, Peng H, Jiang P, Zhang J et al. Downregulation of Methyltransferase-Like 14 Promotes Ovarian Cancer Cell Proliferation Through Stabilizing TROAP mRNA. Front Oncol 2022;12:824258. PMID: 35251990
  • Jiang X, Wei Z, Wang C, Wang Q et al. A Four-miRNA-Based Diagnostic Signature for Rheumatoid Arthritis. Dis Markers 2022;2022:6693589. PMID: 35251375
  • Mori T, Ueno K, Tokunaga K, Kawai Y et al. A single-nucleotide-polymorphism in the 5'-flanking region of MSX1 gene as a predictive marker candidate for platinum-based therapy of esophageal carcinoma. Ther Adv Med Oncol 2022;14:17588359221080580. PMID: 35251318
  • Tang Y, Liu YX, Huang X, Li P et al. DNA Damage Response Genes in Osteosarcoma. J Oncol 2021;2021:9365953. PMID: 35251167
  • González-Grandío E, Álamos S, Zhang Y, Dalton-Roesler J et al. Chromatin Changes in Phytochrome Interacting Factor-Regulated Genes Parallel Their Rapid Transcriptional Response to Light. Front Plant Sci 2022;13:803441. PMID: 35251080
  • Bargiela D, Cunha PP, Veliça P, Foskolou IP et al. Vitamin B6 Metabolism Determines T Cell Anti-Tumor Responses. Front Immunol 2022;13:837669. PMID: 35251031
  • Ma B, Wang K, Liang Y, Meng Q et al. Molecular Characteristics, Oncogenic Roles, and Relevant Immune and Pharmacogenomic Features of EVA1B in Colorectal Cancer. Front Immunol 2022;13:809837. PMID: 35250982
  • Yang J, Chang T, Tang L, Deng H et al. Increased Expression of Tim-3 Is Associated With Depletion of NKT Cells In SARS-CoV-2 Infection. Front Immunol 2022;13:796682. PMID: 35250975
  • Min Y, Feng Y, Luo H, Hu D et al. Identifying and Validating of an Autophagy-Related Gene Signature for the Prediction of Early Relapse in Breast Cancer. Front Endocrinol (Lausanne) 2022;13:824362. PMID: 35250881
  • Rao C, Jin J, Lu J, Wang C et al. A Multielement Prognostic Nomogram Based on a Peripheral Blood Test, Conventional MRI and Clinical Factors for Glioblastoma. Front Neurol 2022;13:822735. PMID: 35250826
  • Zhu H, Tan J, Zhao Y, Wang Z et al. Potential Role of the Chemotaxis System in Formation and Progression of Intracranial Aneurysms Through Weighted Gene Co-Expression Network Analysis. Int J Gen Med 2022;15:2217-2231. PMID: 35250300
  • Ruess H, Lee J, Guzman C, Malladi VS et al. Decoding Human Genome Regulatory Features That Influence HIV-1 Proviral Expression and Fate Through an Integrated Genomics Approach. Bioinform Biol Insights 2022;16:11779322211072333. PMID: 35250265
  • Li Z, Wu L, Wang C, Wang Y et al. Characterization of pectin methylesterase gene family and its possible role in juice sac granulation in navel orange (Citrus sinensis Osbeck). BMC Genomics 2022 Mar 7;23(1):185. PMID: 35249536
  • Zhang F, Cai J, Hu K, Liu W et al. An Immune-Related Gene Signature Predicting Prognosis and Immunotherapy Response in Hepatocellular Carcinoma. Comb Chem High Throughput Screen 2022;25(13):2203-2216. PMID: 35249477
  • Foster GJ, Sievert MAC, Button-Simons K, Vendrely KM et al. Cyclical regression covariates remove the major confounding effect of cyclical developmental gene expression with strain-specific drug response in the malaria parasite Plasmodium falciparum. BMC Genomics 2022 Mar 5;23(1):180. PMID: 35247977
  • Nguyen QH, Nguyen T, Le DH et al. DrGA: cancer driver gene analysis in a simpler manner. BMC Bioinformatics 2022 Mar 5;23(1):86. PMID: 35247965
  • Dickerson KM, Qu C, Gao Q, Iacobucci I et al. ZNF384 Fusion Oncoproteins Drive Lineage Aberrancy in Acute Leukemia. Blood Cancer Discov 2022 May 5;3(3):240-263. PMID: 35247902
  • Cai HY, Yang HS, Shan SC, Lei YY et al. A novel signature based on immune-related gene pairs and clinical features to predict prognosis and treatment effect in "driver gene negative" lung adenocarcinoma. Cancer Med 2022 Jun;11(11):2259-2270. PMID: 35246970
  • Prokopenko D, Lee S, Hecker J, Mullin K et al. Region-based analysis of rare genomic variants in whole-genome sequencing datasets reveal two novel Alzheimer's disease-associated genes: DTNB and DLG2. Mol Psychiatry 2022 Apr;27(4):1963-1969. PMID: 35246634
  • Bellec M, Dufourt J, Hunt G, Lenden-Hasse H et al. The control of transcriptional memory by stable mitotic bookmarking. Nat Commun 2022 Mar 4;13(1):1176. PMID: 35246556
  • Wang X, Zhou T, Chen X, Wang Y et al. System analysis based on the cancer-immunity cycle identifies ZNF207 as a novel immunotherapy target for hepatocellular carcinoma. J Immunother Cancer 2022 Mar;10(3). PMID: 35246476
  • Chignon A, Mathieu S, Rufiange A, Argaud D et al. Enhancer promoter interactome and Mendelian randomization identify network of druggable vascular genes in coronary artery disease. Hum Genomics 2022 Mar 4;16(1):8. PMID: 35246263
  • Xia M, Zhao F, Zhang Y, Zheng Z et al. Identification of diagnostic markers and immune cell infiltration characteristics in antineutrophil cytoplasmic antibody-associated vasculitis by weighted gene co-expression network analysis. Eur J Med Res 2022 Mar 5;27(1):37. PMID: 35246248
  • Hao Y, Wang B, Zhao J, Wang P et al. Identification of gene biomarkers with expression profiles in patients with allergic rhinitis. Allergy Asthma Clin Immunol 2022 Mar 4;18(1):20. PMID: 35246242
  • Sen A, Huo Y, Elster J, Zage PE et al. Allele-specific expression reveals genes with recurrent cis-regulatory alterations in high-risk neuroblastoma. Genome Biol 2022 Mar 4;23(1):71. PMID: 35246212
  • Zhao W, Yao M, Zhang Y, Xiong D et al. Endothelial cyclin I reduces vulnerability to angiotensin II-induced vascular remodeling and abdominal aortic aneurysm risk. Microvasc Res 2022 Jul;142:104348. PMID: 35245516
  • Stankevičius V, Gibas P, Masiulionytė B, Gasiulė L et al. Selective chemical tracking of Dnmt1 catalytic activity in live cells. Mol Cell 2022 Mar 3;82(5):1053-1065.e8. PMID: 35245449
  • Detilleux D, Raynaud P, Pradet-Balade B, Helmlinger D et al. The TRRAP transcription cofactor represses interferon-stimulated genes in colorectal cancer cells. Elife 2022 Mar 4;11. PMID: 35244540
  • Huang P, Deng W, Bao H, Lin Z et al. SOX4 facilitates PGR protein stability and FOXO1 expression conducive for human endometrial decidualization. Elife 2022 Mar 4;11. PMID: 35244538
  • Sui J, Zhao Q, Zhang Y, Liang G et al. Dysregulated LINC00961 Contributes to the Vitality and Migration of NSCLC Via miR-19a-3p/miR-19b-3p/miR-125b-5p. DNA Cell Biol 2022 Mar;41(3):319-329. PMID: 35244469
  • Freeman SS, Sade-Feldman M, Kim J, Stewart C et al. Combined tumor and immune signals from genomes or transcriptomes predict outcomes of checkpoint inhibition in melanoma. Cell Rep Med 2022 Feb 15;3(2):100500. PMID: 35243413
  • Zhang H, Guo J, Li H, Guan Y et al. Machine learning for artemisinin resistance in malaria treatment across in vivo-in vitro platforms. iScience 2022 Mar 18;25(3):103910. PMID: 35243261
  • Scalvini B, Schiessel H, Golovnev A, Mashaghi A et al. Circuit topology analysis of cellular genome reveals signature motifs, conformational heterogeneity, and scaling. iScience 2022 Mar 18;25(3):103866. PMID: 35243229
  • Platanitis E, Gruener S, Ravi Sundar Jose Geetha A, Boccuni L et al. Interferons reshape the 3D conformation and accessibility of macrophage chromatin. iScience 2022 Mar 18;25(3):103840. PMID: 35243225
  • Sibilio A, Suñer C, Fernández-Alfara M, Martín J et al. Immune translational control by CPEB4 regulates intestinal inflammation resolution and colorectal cancer development. iScience 2022 Feb 18;25(2):103790. PMID: 35243213
  • Li F, Huang K, Pan C, Xiao Y et al. Expression Patterns of Glycosylation Regulators Define Tumor Microenvironment and Immunotherapy in Gastric Cancer. Front Cell Dev Biol 2022;10:811075. PMID: 35242759
  • Qiu L, Zhou R, Luo Z, Wu J et al. CDC27-ODC1 Axis Promotes Metastasis, Accelerates Ferroptosis and Predicts Poor Prognosis in Neuroblastoma. Front Oncol 2022;12:774458. PMID: 35242701
  • Kirschner KM, Kelterborn S, Stehr H, Penzlin JLT et al. Adaptation of the Oxygen Sensing System during Lung Development. Oxid Med Cell Longev 2022;2022:9714669. PMID: 35242281
  • Liu C, Li N, Lu Z, Sun Q et al. CG and CHG Methylation Contribute to the Transcriptional Control of OsPRR37-Output Genes in Rice. Front Plant Sci 2022;13:839457. PMID: 35242159
  • Huang X, Zhang KJ, Jiang JJ, Jiang SY et al. Identification of Crucial Genes and Key Functions in Type 2 Diabetic Hearts by Bioinformatic Analysis. Front Endocrinol (Lausanne) 2022;13:801260. PMID: 35242109
  • Hildebrand S, Ibrahim M, Schlitzer A, Maegdefessel L et al. PDGF regulates guanylate cyclase expression and cGMP signaling in vascular smooth muscle. Commun Biol 2022 Mar 3;5(1):197. PMID: 35241778
  • Oliveira CR, Knapp D, Elewa A, Gerber T et al. Tig1 regulates proximo-distal identity during salamander limb regeneration. Nat Commun 2022 Mar 3;13(1):1141. PMID: 35241664
  • Sun K, Chen RX, Li JZ, Luo ZX et al. LPAR2 correlated with different prognosis and immune cell infiltration in head and neck squamous cell carcinoma and kidney renal clear cell carcinoma. Hereditas 2022 Mar 4;159(1):16. PMID: 35241179
  • Miller RM, Jordan BT, Mehlferber MM, Jeffery ED et al. Enhanced protein isoform characterization through long-read proteogenomics. Genome Biol 2022 Mar 3;23(1):69. PMID: 35241129
  • Fan X, Zou X, Liu C, Peng S et al. Global analysis of miRNA-mRNA regulation pair in bladder cancer. World J Surg Oncol 2022 Mar 3;20(1):66. PMID: 35241117
  • Liu C, Gao ZQ, Li J, Zhou Q et al. Identification of novel therapeutic targets for Fuchs' endothelial corneal dystrophy based on gene bioinformatics analysis. PLoS One 2022;17(3):e0264018. PMID: 35239706
  • Jouffe C, Weger BD, Martin E, Atger F et al. Disruption of the circadian clock component BMAL1 elicits an endocrine adaption impacting on insulin sensitivity and liver disease. Proc Natl Acad Sci U S A 2022 Mar 8;119(10):e2200083119. PMID: 35238641
  • Ugidos M, Nueda MJ, Prats-Montalbán JM, Ferrer A et al. MultiBaC: an R package to remove batch effects in multi-omic experiments. Bioinformatics 2022 Apr 28;38(9):2657-2658. PMID: 35238331
  • Adossa NA, Rytkönen KT, Elo LL et al. Dirichlet process mixture models for single-cell RNA-seq clustering. Biol Open 2022 Apr 15;11(4). PMID: 35237784
  • Chen Q, Chu L, Li X, Li H et al. Investigation of an FGFR-Signaling-Related Prognostic Model and Immune Landscape in Head and Neck Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:801715. PMID: 35237609
  • Jiang D, Li Y, Cao J, Sheng L et al. Cell Division Cycle-Associated Genes Are Potential Immune Regulators in Nasopharyngeal Carcinoma. Front Oncol 2022;12:779175. PMID: 35237510
  • Gu BJ, Tong YK, Wang YY, Zhang ML et al. Genome-wide evolution and expression analysis of the MYB-CC gene family in Brassica spp. PeerJ 2022;10:e12882. PMID: 35237467
  • Li H, Li Y, Luo C, Liang X et al. New Approach for Targeted Treatment of Mild COVID-19 by Honeysuckle through Network Pharmacology Analysis. Comput Math Methods Med 2022;2022:9604456. PMID: 35237344
  • Teng Z, Zhao Z, Li Y, Tian Z et al. i6mA-Vote: Cross-Species Identification of DNA N6-Methyladenine Sites in Plant Genomes Based on Ensemble Learning With Voting. Front Plant Sci 2022;13:845835. PMID: 35237293
  • Liang Y, Wang T, Gao R, Jia X et al. Fucosyltransferase 8 is Overexpressed and Influences Clinical Outcomes in Lung Adenocarcinoma Patients. Pathol Oncol Res 2022;28:1610116. PMID: 35237113
  • Smargon AA, Madrigal AA, Yee BA, Dong KD et al. Crosstalk between CRISPR-Cas9 and the human transcriptome. Nat Commun 2022 Mar 2;13(1):1125. PMID: 35236841
  • Wang C, Liu WR, Tan S, Zhou JK et al. Characterization of distinct circular RNA signatures in solid tumors. Mol Cancer 2022 Mar 2;21(1):63. PMID: 35236349
  • Krohannon A, Srivastava M, Rauch S, Srivastava R et al. CASowary: CRISPR-Cas13 guide RNA predictor for transcript depletion. BMC Genomics 2022 Mar 2;23(1):172. PMID: 35236300
  • Mourad RTADreg: a versatile regression framework for TAD identification, differential analysis and rearranged 3D genome prediction. BMC Bioinformatics 2022 Mar 2;23(1):82. PMID: 35236295
  • Laidou S, Grigoriadis D, Papanikolaou S, Foutadakis S et al. The TΑp63/BCL2 axis represents a novel mechanism of clinical aggressiveness in chronic lymphocytic leukemia. Blood Adv 2022 Apr 26;6(8):2646-2656. PMID: 35235952
  • Wang S, Lv T, Chen Q, Yang Y et al. Transcriptome sequencing and lncRNA-miRNA-mRNA network construction in cardiac fibrosis and heart failure. Bioengineered 2022 Mar;13(3):7118-7133. PMID: 35235759
  • Gatti V, Fierro C, Compagnone M, La Banca V et al. ΔNp63-Senataxin circuit controls keratinocyte differentiation by promoting the transcriptional termination of epidermal genes. Proc Natl Acad Sci U S A 2022 Mar 8;119(10):e2104718119. PMID: 35235452
  • Ma L, Tang Q, Gao X, Lee J et al. Tet-mediated DNA demethylation regulates specification of hematopoietic stem and progenitor cells during mammalian embryogenesis. Sci Adv 2022 Mar 4;8(9):eabm3470. PMID: 35235365
  • Liu X, Zhao B, Shaw TI, Fridley BL et al. Summarizing internal dynamics boosts differential analysis and functional interpretation of super enhancers. Nucleic Acids Res 2022 Apr 8;50(6):3115-3127. PMID: 35234924
  • Sparks R, Lau WW, Liu C, Han KL et al. Influenza vaccination and single cell multiomics reveal sex dimorphic immune imprints of prior mild COVID-19. medRxiv 2022 Sep 1 PMID: 35233581
  • Park J, Foox J, Hether T, Danko DC et al. System-wide transcriptome damage and tissue identity loss in COVID-19 patients. Cell Rep Med 2022 Feb 15;3(2):100522. PMID: 35233546
  • Han L, Wang M, Yang Y, Xu H et al. Detection of Prognostic Biomarkers for Hepatocellular Carcinoma through CircRNA-associated CeRNA Analysis. J Clin Transl Hepatol 2022 Feb 28;10(1):80-89. PMID: 35233376
  • Huang X, Wu B, Zhang F, Chen F et al. Epigenetic Biomarkers Screening of Non-Coding RNA and DNA Methylation Based on Peripheral Blood Monocytes in Smokers. Front Genet 2022;13:766553. PMID: 35233217
  • Smith LK, Parmenter T, Kleinschmidt M, Kusnadi EP et al. Adaptive translational reprogramming of metabolism limits the response to targeted therapy in BRAF(V600) melanoma. Nat Commun 2022 Mar 1;13(1):1100. PMID: 35232962
  • Marinov GK, Chen X, Wu T, He C et al. The chromatin organization of a chlorarachniophyte nucleomorph genome. Genome Biol 2022 Mar 1;23(1):65. PMID: 35232465
  • Liu C, Liu Y, Yu Y, Zhao Y et al. Comprehensive analysis of ferroptosis-related genes and prognosis of cutaneous melanoma. BMC Med Genomics 2022 Mar 1;15(1):39. PMID: 35232428
  • Ren J, Li N, Pei S, Lian Y et al. Histone methyltransferase WHSC1 loss dampens MHC-I antigen presentation pathway to impair IFN-γ-stimulated antitumor immunity. J Clin Invest 2022 Apr 15;132(8). PMID: 35230972
  • Benegas G, Fischer J, Song YS et al. Robust and annotation-free analysis of alternative splicing across diverse cell types in mice. Elife 2022 Mar 1;11. PMID: 35229721
  • Kroef V, Ruegenberg S, Horn M, Allmeroth K et al. GFPT2/GFAT2 and AMDHD2 act in tandem to control the hexosamine pathway. Elife 2022 Mar 1;11. PMID: 35229715
  • Guo K, Zhuo Z, Chen P, Wu H et al. Construction of a pyroptosis-related classifier for risk prediction of acute myocardial infarction. Rev Cardiovasc Med 2022 Feb 9;23(2):52. PMID: 35229543
  • Umemoto T, Johansson A, Ahmad SAI, Hashimoto M et al. ATP citrate lyase controls hematopoietic stem cell fate and supports bone marrow regeneration. EMBO J 2022 Apr 19;41(8):e109463. PMID: 35229328
  • MacLean M, López-Díez R, Vasquez C, Gugger PF et al. Neuronal-glial communication perturbations in murine SOD1(G93A) spinal cord. Commun Biol 2022 Feb 28;5(1):177. PMID: 35228715
  • Murray CW, Brady JJ, Han M, Cai H et al. LKB1 drives stasis and C/EBP-mediated reprogramming to an alveolar type II fate in lung cancer. Nat Commun 2022 Feb 28;13(1):1090. PMID: 35228570
  • Jin Z, Huang W, Shen N, Li J et al. Single-cell gene fusion detection by scFusion. Nat Commun 2022 Feb 28;13(1):1084. PMID: 35228538
  • Hauffe L, Picard D, Musa J, Remke M et al. Eukaryotic translation initiation factor 4E binding protein 1 (EIF4EBP1) expression in glioblastoma is driven by ETS1- and MYBL2-dependent transcriptional activation. Cell Death Discov 2022 Feb 28;8(1):91. PMID: 35228525
  • Kolesnikova TD, Pokholkova GV, Dovgan VV, Zhimulev IF et al. Super-resolution microscopy reveals stochastic initiation of replication in Drosophila polytene chromosomes. Chromosome Res 2022 Dec;30(4):361-383. PMID: 35226231
  • Vafaeie F, Nomiri S, Ranjbaran J, Safarpour H et al. ACAN, MDFI, and CHST1 as Candidate Genes in Gastric Cancer: A Comprehensive Insilco Analysis. Asian Pac J Cancer Prev 2022 Feb 1;23(2):683-694. PMID: 35225482
  • Tong X, Zhao X, Dang X, Kou Y et al. Predicting Diagnostic Gene Biomarkers Associated With Immune Checkpoints, N6-Methyladenosine, and Ferroptosis in Patients With Acute Myocardial Infarction. Front Cardiovasc Med 2022;9:836067. PMID: 35224064
  • Willemsen L, Chen HJ, van Roomen CPAA, Griffith GR et al. Monocyte and Macrophage Lipid Accumulation Results in Down-Regulated Type-I Interferon Responses. Front Cardiovasc Med 2022;9:829877. PMID: 35224060
  • Guo C, Liu Z, Yu Y, Zhou Z et al. EGR1 and KLF4 as Diagnostic Markers for Abdominal Aortic Aneurysm and Associated With Immune Infiltration. Front Cardiovasc Med 2022;9:781207. PMID: 35224035
  • Tian Z, Meng L, Wang X, Diao T et al. CGN Correlates With the Prognosis and Tumor Immune Microenvironment in Clear Cell Renal Cell Carcinoma. Front Mol Biosci 2022;9:758974. PMID: 35223987
  • Di J, Chai Y, Yang X, Dong H et al. ELP6 and PLIN5 Mutations Were Probably Prognostic Biomarkers for Patients With Gastric Cancer. Front Med (Lausanne) 2022;9:803617. PMID: 35223903
  • Sun Y, Liu B, Chen Y, Xing Y et al. Multi-Omics Prognostic Signatures Based on Lipid Metabolism for Colorectal Cancer. Front Cell Dev Biol 2021;9:811957. PMID: 35223868
  • Hu R, Tao T, Yu L, Ding Q et al. Multi-Omics Characterization of Tumor Microenvironment Heterogeneity and Immunotherapy Resistance Through Cell States-Based Subtyping in Bladder Cancer. Front Cell Dev Biol 2021;9:809588. PMID: 35223867
  • Li W, Ding Z, Zhang H, Shi Q et al. The Roles of Blood Lipid-Metabolism Genes in Immune Infiltration Could Promote the Development of IDD. Front Cell Dev Biol 2022;10:844395. PMID: 35223859
  • Valdés-López JF, Fernandez GJ, Urcuqui-Inchima S et al. Synergistic Effects of Toll-Like Receptor 1/2 and Toll-Like Receptor 3 Signaling Triggering Interleukin 27 Gene Expression in Chikungunya Virus-Infected Macrophages. Front Cell Dev Biol 2022;10:812110. PMID: 35223841
  • Zhang Y, Zhang K, Gong H, Li Q et al. Links Between N (6)-Methyladenosine and Tumor Microenvironments in Colorectal Cancer. Front Cell Dev Biol 2022;10:807129. PMID: 35223837
  • Yi R, Hong S, Zhang Y, Lin A et al. MHC-II Signature Correlates With Anti-Tumor Immunity and Predicts anti-PD-L1 Response of Bladder Cancer. Front Cell Dev Biol 2022;10:757137. PMID: 35223828
  • Wang Q, Li X, Tang W, Guan X et al. Differential Gene Sets Profiling in Gram-Negative and Gram-Positive Sepsis. Front Cell Infect Microbiol 2022;12:801232. PMID: 35223539
  • Tian T, Fu J, Li D, Liu Y et al. Methylation of Immune-Related Genes in Peripheral Blood Leukocytes and Breast Cancer. Front Oncol 2022;12:817565. PMID: 35223499
  • Santo GD, Frasca M, Bertoli G, Castiglioni I et al. Identification of key miRNAs in prostate cancer progression based on miRNA-mRNA network construction. Comput Struct Biotechnol J 2022;20:864-873. PMID: 35222845
  • He J, Chen Z, Xue Q, Shi W et al. Block of Proliferation 1 Promotes Proliferation, Invasion and Epithelial Mesenchymal Transformation in Gastric Cancer. Oxid Med Cell Longev 2022;2022:2946989. PMID: 35222794
  • Zhang Z, Hu X, Qiu D, Sun Y et al. Development and Validation of a Necroptosis-Related Prognostic Model in Head and Neck Squamous Cell Carcinoma. J Oncol 2022;2022:8402568. PMID: 35222645
  • Chen H, Zhang Z, Zhou L, Cai T et al. Identification of CCL19 as a Novel Immune-Related Biomarker in Diabetic Nephropathy. Front Genet 2022;13:830437. PMID: 35222545
  • Yang Y, Xie L, Li C, Liu L et al. Prognostic Model of Eleven Genes Based on the Immune Microenvironment in Patients With Thymoma. Front Genet 2022;13:668696. PMID: 35222524
  • Dang R, Qu B, Guo K, Zhou S et al. Weighted Co-Expression Network Analysis Identifies RNF181 as a Causal Gene of Coronary Artery Disease. Front Genet 2021;12:818813. PMID: 35222523
  • Shan M, Liu H, Hao Y, Song K et al. Metabolomic Profiling Reveals That 5-Hydroxylysine and 1-Methylnicotinamide Are Metabolic Indicators of Keloid Severity. Front Genet 2021;12:804248. PMID: 35222522
  • Wang G, Du W, Che L, Gao X et al. High Expression of PLAGL2 is Associated With Poor Prognosis in High-Grade Glioma. Front Genet 2021;12:787746. PMID: 35222518
  • Chen G, Hu K, Zhao J, Guo F et al. Genome-Wide Association Analysis for Salt-Induced Phenotypic and Physiologic Responses in Rice at Seedling and Reproductive Stages. Front Plant Sci 2022;13:822618. PMID: 35222481
  • Nasim Z, Susila H, Jin S, Youn G et al. Polymerase II-Associated Factor 1 Complex-Regulated FLOWERING LOCUS C-Clade Genes Repress Flowering in Response to Chilling. Front Plant Sci 2022;13:817356. PMID: 35222476
  • Dai W, Zheng P, Luo D, Xie Q et al. LPIN1 Is a Regulatory Factor Associated With Immune Response and Inflammation in Sepsis. Front Immunol 2022;13:820164. PMID: 35222395
  • Zheng H, Lu X, Li K, Zhu F et al. ATG Ubiquitination Is Required for Circumsporozoite Protein to Subvert Host Innate Immunity Against Rodent Malaria Liver Stage. Front Immunol 2022;13:815936. PMID: 35222391
  • Locy H, Verhulst S, Cools W, Waelput W et al. Assessing Tumor-Infiltrating Lymphocytes in Breast Cancer: A Proposal for Combining Immunohistochemistry and Gene Expression Analysis to Refine Scoring. Front Immunol 2022;13:794175. PMID: 35222378
  • Zhu M, Zeng Q, Fan T, Lei Y et al. Clinical Significance and Immunometabolism Landscapes of a Novel Recurrence-Associated Lipid Metabolism Signature In Early-Stage Lung Adenocarcinoma: A Comprehensive Analysis. Front Immunol 2022;13:783495. PMID: 35222371
  • Zhu A, Real F, Zhu J, Greffe S et al. HIV-Sheltering Platelets From Immunological Non-Responders Induce a Dysfunctional Glycolytic CD4(+) T-Cell Profile. Front Immunol 2021;12:781923. PMID: 35222352
  • Zhou Z, Liang S, Zhou Z, Liu J et al. Avasimibe Alleviates Disruption of the Airway Epithelial Barrier by Suppressing the Wnt/β-Catenin Signaling Pathway. Front Pharmacol 2022;13:795934. PMID: 35222024
  • Takeda-Uchimura Y, Nishitsuji K, Ikezaki M, Akama TO et al. Beta3Gn-T7 Is a Keratan Sulfate β1,3 N-Acetylglucosaminyltransferase in the Adult Brain. Front Neuroanat 2022;16:813841. PMID: 35221933
  • Shu J, Wei W, Zhang L et al. Identification of Molecular Signatures and Candidate Drugs in Vascular Dementia by Bioinformatics Analyses. Front Mol Neurosci 2022;15:751044. PMID: 35221911
  • Sohn EJFunctional Roles and Targets of COVID-19 in Blood Cells Determined Using Bioinformatics Analyses. Bioinform Biol Insights 2022;16:11779322221080266. PMID: 35221679
  • Hossain MB, Islam MK, Adhikary A, Rahaman A et al. Bioinformatics Approach to Identify Significant Biomarkers, Drug Targets Shared Between Parkinson's Disease and Bipolar Disorder: A Pilot Study. Bioinform Biol Insights 2022;16:11779322221079232. PMID: 35221677
  • Zheng X, Song J, Yu C, Zhou Z et al. Single-cell transcriptomic profiling unravels the adenoma-initiation role of protein tyrosine kinases during colorectal tumorigenesis. Signal Transduct Target Ther 2022 Feb 28;7(1):60. PMID: 35221332
  • Winter C, Camarão AAR, Steffen I, Jung K et al. Network meta-analysis of transcriptome expression changes in different manifestations of dengue virus infection. BMC Genomics 2022 Feb 27;23(1):165. PMID: 35220956
  • Huang T, Meng F, Huang H, Wang L et al. GALNT8 suppresses breast cancer cell metastasis potential by regulating EGFR O-GalNAcylation. Biochem Biophys Res Commun 2022 Apr 23;601:16-23. PMID: 35220009
  • Shen Y, Wu X, Li Q, Huang X et al. Identification and Potential Value of Candidate Genes in Patients With Non-obstructive Azoospermia. Urology 2022 Jun;164:133-139. PMID: 35219767
  • Zhang N, Shen Y, Li H, Chen Y et al. The m6A reader IGF2BP3 promotes acute myeloid leukemia progression by enhancing RCC2 stability. Exp Mol Med 2022 Feb;54(2):194-205. PMID: 35217832
  • Kurniawan F, Chetlangia N, Kamran M, Redon CE et al. BEND3 safeguards pluripotency by repressing differentiation-associated genes. Proc Natl Acad Sci U S A 2022 Mar 1;119(9). PMID: 35217604
  • Galbraith MD, Kinning KT, Sullivan KD, Araya P et al. Specialized interferon action in COVID-19. Proc Natl Acad Sci U S A 2022 Mar 15;119(11). PMID: 35217532
  • Taubenschmid-Stowers J, Rostovskaya M, Santos F, Ljung S et al. 8C-like cells capture the human zygotic genome activation program in vitro. Cell Stem Cell 2022 Mar 3;29(3):449-459.e6. PMID: 35216671
  • Xin Y, Chen S, Tang K, Wu Y et al. Identification of Nifurtimox and Chrysin as Anti-Influenza Virus Agents by Clinical Transcriptome Signature Reversion. Int J Mol Sci 2022 Feb 21;23(4). PMID: 35216485
  • de Llobet Cucalon L, Di Vona C, Morselli M, Vezzoli M et al. An RNA Polymerase III General Transcription Factor Engages in Cell Type-Specific Chromatin Looping. Int J Mol Sci 2022 Feb 18;23(4). PMID: 35216376
  • Zhang H, Zeng Y, Seo J, Kim YJ et al. Global Identification and Characterization of C2 Domain-Containing Proteins Associated with Abiotic Stress Response in Rice (Oryza sativa L.). Int J Mol Sci 2022 Feb 17;23(4). PMID: 35216337
  • Sato H, Narita S, Ishida M, Takahashi Y et al. Specific Gut Microbial Environment in Lard Diet-Induced Prostate Cancer Development and Progression. Int J Mol Sci 2022 Feb 17;23(4). PMID: 35216332
  • Kim EY, Lee JM et al. Transcriptional Control of Trpm6 by the Nuclear Receptor FXR. Int J Mol Sci 2022 Feb 10;23(4). PMID: 35216094
  • Nakano K, Yokoyama K, Shin S, Uchida K et al. Exploring New Functional Aspects of HTLV-1 RNA-Binding Protein Rex: How Does Rex Control Viral Replication? Viruses 2022 Feb 16;14(2). PMID: 35216000
  • Sacramento CQ, Fintelman-Rodrigues N, Dias SSG, Temerozo JR et al. Unlike Chloroquine, Mefloquine Inhibits SARS-CoV-2 Infection in Physiologically Relevant Cells. Viruses 2022 Feb 11;14(2). PMID: 35215969
  • Zhao K, Shi Y, So HC et al. Prediction of Drug Targets for Specific Diseases Leveraging Gene Perturbation Data: A Machine Learning Approach. Pharmaceutics 2022 Jan 20;14(2). PMID: 35213968
  • Losenkova K, Takeda A, Ragauskas S, Cerrada-Gimenez M et al. CD73 controls ocular adenosine levels and protects retina from light-induced phototoxicity. Cell Mol Life Sci 2022 Feb 25;79(3):152. PMID: 35212809
  • Wei X, Deng W, Dong Z, Xie Z et al. Identification of Subtypes and a Delayed Graft Function Predictive Signature Based on Ferroptosis in Renal Ischemia-Reperfusion Injury. Front Cell Dev Biol 2022;10:800650. PMID: 35211472
  • Li C, Tian C, Zeng Y, Liang J et al. Integrated Analysis of MATH-Based Subtypes Reveals a Novel Screening Strategy for Early-Stage Lung Adenocarcinoma. Front Cell Dev Biol 2022;10:769711. PMID: 35211471
  • Xiao Q, Lei L, Ren J, Peng M et al. Mutant NPM1-Regulated FTO-Mediated m(6)A Demethylation Promotes Leukemic Cell Survival via PDGFRB/ERK Signaling Axis. Front Oncol 2022;12:817584. PMID: 35211409
  • Chen YH, Zhong LF, Hong X, Zhu QL et al. Integrated Analysis of circRNA-miRNA-mRNA ceRNA Network in Cardiac Hypertrophy. Front Genet 2022;13:781676. PMID: 35211156
  • Song C, Lee Y, Kim S et al. Bioinformatic Analysis for the Prognostic Implication of Genes Encoding Epithelial Sodium Channel in Cervical Cancer. Int J Gen Med 2022;15:1777-1787. PMID: 35210842
  • Yin X, Wang X, Wang S, Xia Y et al. Screening for Regulatory Network of miRNA-Inflammation, Oxidative Stress and Prognosis-Related mRNA in Acute Myocardial Infarction: An in silico and Validation Study. Int J Gen Med 2022;15:1715-1731. PMID: 35210840
  • Koster S, Gurumurthy RK, Kumar N, Prakash PG et al. Modelling Chlamydia and HPV co-infection in patient-derived ectocervix organoids reveals distinct cellular reprogramming. Nat Commun 2022 Feb 24;13(1):1030. PMID: 35210413
  • Xi Y, Lin Y, Guo W, Wang X et al. Multi-omic characterization of genome-wide abnormal DNA methylation reveals diagnostic and prognostic markers for esophageal squamous-cell carcinoma. Signal Transduct Target Ther 2022 Feb 25;7(1):53. PMID: 35210398
  • Stromnes IM, Hulbert A, Rollins MR, Basom RS et al. Insufficiency of compound immune checkpoint blockade to overcome engineered T cell exhaustion in pancreatic cancer. J Immunother Cancer 2022 Feb;10(2). PMID: 35210305
  • Taguchi YH, Turki T et al. Novel feature selection method via kernel tensor decomposition for improved multi-omics data analysis. BMC Med Genomics 2022 Feb 24;15(1):37. PMID: 35209912
  • Hassan A, Khalaily N, Kilav-Levin R, Nechama M et al. Molecular Mechanisms of Parathyroid Disorders in Chronic Kidney Disease. Metabolites 2022 Jan 25;12(2). PMID: 35208186
  • Huang YC, Huang JL, Tseng LC, Yu PH et al. High Expression of Interferon Pathway Genes CXCL10 and STAT2 Is Associated with Activated T-Cell Signature and Better Outcome of Oral Cancer Patients. J Pers Med 2022 Jan 21;12(2). PMID: 35207629
  • Zoran T, Seelbinder B, White PL, Price JS et al. Molecular Profiling Reveals Characteristic and Decisive Signatures in Patients after Allogeneic Stem Cell Transplantation Suffering from Invasive Pulmonary Aspergillosis. J Fungi (Basel) 2022 Feb 10;8(2). PMID: 35205926
  • Vierthaler M, Sun Q, Wang Y, Steinfass T et al. ADCK2 Knockdown Affects the Migration of Melanoma Cells via MYL6. Cancers (Basel) 2022 Feb 20;14(4). PMID: 35205819
  • Shmakova AA, Klimovich PS, Rysenkova KD, Popov VS et al. Urokinase Receptor uPAR Downregulation in Neuroblastoma Leads to Dormancy, Chemoresistance and Metastasis. Cancers (Basel) 2022 Feb 16;14(4). PMID: 35205745
  • Scatozza F, Facchiano A et al. Expression of Autoimmunity-Related Genes in Melanoma. Cancers (Basel) 2022 Feb 16;14(4). PMID: 35205739
  • Park J, Cho M, Cho J, Kim EE et al. MicroRNA-101-3p Suppresses Cancer Cell Growth by Inhibiting the USP47-Induced Deubiquitination of RPL11. Cancers (Basel) 2022 Feb 15;14(4). PMID: 35205710
  • Dziadowicz SA, Wang L, Akhter H, Aesoph D et al. Bone Marrow Stroma-Induced Transcriptome and Regulome Signatures of Multiple Myeloma. Cancers (Basel) 2022 Feb 13;14(4). PMID: 35205675
  • Sharma BR, Karki R, Sundaram B, Wang Y et al. The Transcription Factor IRF9 Promotes Colorectal Cancer via Modulating the IL-6/STAT3 Signaling Axis. Cancers (Basel) 2022 Feb 12;14(4). PMID: 35205671
  • Gómez-Cuadrado L, Bullock E, Mabruk Z, Zhao H et al. Characterisation of the Stromal Microenvironment in Lobular Breast Cancer. Cancers (Basel) 2022 Feb 11;14(4). PMID: 35205651
  • Son JA, Ahn HR, You D, Baek GO et al. Novel Gene Signatures as Prognostic Biomarkers for Predicting the Recurrence of Hepatocellular Carcinoma. Cancers (Basel) 2022 Feb 9;14(4). PMID: 35205612
  • Tao S, Liu P, Shi Y, Feng Y et al. Single-Cell Transcriptome and Network Analyses Unveil Key Transcription Factors Regulating Mesophyll Cell Development in Maize. Genes (Basel) 2022 Feb 20;13(2). PMID: 35205426
  • Shi Y, Lee JH, Kang H, Jiang H et al. A Two-Part Mixed Model for Differential Expression Analysis in Single-Cell High-Throughput Gene Expression Data. Genes (Basel) 2022 Feb 18;13(2). PMID: 35205420
  • Xu Q, Li G, Osorio D, Zhong Y et al. scInTime: A Computational Method Leveraging Single-Cell Trajectory and Gene Regulatory Networks to Identify Master Regulators of Cellular Differentiation. Genes (Basel) 2022 Feb 18;13(2). PMID: 35205415
  • Thomas JP, Ölbei M, Brooks-Warburton J, Korcsmaros T et al. Analysing miRNA-Target Gene Networks in Inflammatory Bowel Disease and Other Complex Diseases Using Transcriptomic Data. Genes (Basel) 2022 Feb 18;13(2). PMID: 35205414
  • Li Y, Xu H, Chitaman JM, Feng J et al. Whole Genome DNA Methylation Profiling of D2 Medium Spiny Neurons in Mouse Nucleus Accumbens Using Two Independent Library Preparation Methods. Genes (Basel) 2022 Feb 6;13(2). PMID: 35205351
  • Xue R, Lin W, Fujita H, Sun J et al. Dkk3/REIC Deficiency Impairs Spermiation, Sperm Fibrous Sheath Integrity and the Sperm Motility of Mice. Genes (Basel) 2022 Jan 31;13(2). PMID: 35205329
  • Ziel-Swier LJYM, Liu Y, Seitz A, de Jong D et al. The Role of the MYC/miR-150/MYB/ZDHHC11 Network in Hodgkin Lymphoma and Diffuse Large B-Cell Lymphoma. Genes (Basel) 2022 Jan 25;13(2). PMID: 35205272
  • Ahmed MM, Zaki A, Alhazmi A, Alsharif KF et al. Identification and Validation of Pathogenic Genes in Sepsis and Associated Diseases by Integrated Bioinformatics Approach. Genes (Basel) 2022 Jan 24;13(2). PMID: 35205254
  • Sun H, Li M, Ji Y, Zhu J et al. Identification of Regulatory Factors and Prognostic Markers in Amyotrophic Lateral Sclerosis. Antioxidants (Basel) 2022 Feb 1;11(2). PMID: 35204186
  • Lübke L, Zhang G, Strähle U, Rastegar S et al. mdka Expression Is Associated with Quiescent Neural Stem Cells during Constitutive and Reactive Neurogenesis in the Adult Zebrafish Telencephalon. Brain Sci 2022 Feb 18;12(2). PMID: 35204047
  • Yang H, Kolben T, Kessler M, Meister S et al. FAM111A Is a Novel Molecular Marker for Oocyte Aging. Biomedicines 2022 Jan 25;10(2). PMID: 35203468
  • Spek CA, Aberson HL, Duitman J et al. Macrophage C/EBPδ Drives Gemcitabine, but Not 5-FU or Paclitaxel, Resistance of Pancreatic Cancer Cells in a Deoxycytidine-Dependent Manner. Biomedicines 2022 Jan 20;10(2). PMID: 35203429
  • Suteau V, Munier M, Ben Boubaker R, Wery M et al. Identification of Dysregulated Expression of G Protein Coupled Receptors in Endocrine Tumors by Bioinformatics Analysis: Potential Drug Targets? Cells 2022 Feb 17;11(4). PMID: 35203352
  • Gómez-Carballa A, Rivero-Calle I, Pardo-Seco J, Gómez-Rial J et al. A multi-tissue study of immune gene expression profiling highlights the key role of the nasal epithelium in COVID-19 severity. Environ Res 2022 Jul;210:112890. PMID: 35202626
  • Li C, Guan X, Jing H, Xiao X et al. Circular RNA circBFAR promotes glioblastoma progression by regulating a miR-548b/FoxM1 axis. FASEB J 2022 Mar;36(3):e22183. PMID: 35202487
  • Lu B, Wu J, Chen H, Li S et al. LncRNA Expression Profiles in Canine Mammary Tumors Identify lnc34977 as a Promoter of Proliferation, Migration and Invasion of Canine Mammary Tumor Cells. Vet Sci 2022 Feb 15;9(2). PMID: 35202335
  • Ilieva M, Miller HE, Agarwal A, Paulus GK et al. FibroDB: Expression Analysis of Protein-Coding and Long Non-Coding RNA Genes in Fibrosis. Noncoding RNA 2022 Jan 28;8(1). PMID: 35202087
  • Oliveira-Rizzo C, Ottati MC, Fort RS, Chavez S et al. Hsa-miR-183-5p Modulates Cell Adhesion by Repression of ITGB1 Expression in Prostate Cancer. Noncoding RNA 2022 Jan 18;8(1). PMID: 35202085
  • Suwannakul N, Midorikawa K, Du C, Qi YP et al. Subcellular localization of HMGB1 in human cholangiocarcinoma: correlation with tumor stage. Discov Oncol 2021 Nov 8;12(1):49. PMID: 35201494
  • Sharma H, Niveditha D, Chowdhury R, Mukherjee S et al. A genome-wide expression profile of noncoding RNAs in human osteosarcoma cells as they acquire resistance to cisplatin. Discov Oncol 2021 Oct 20;12(1):43. PMID: 35201486
  • Mancini M, Cappello A, Pecorari R, Lena AM et al. Involvement of transcribed lncRNA uc.291 and SWI/SNF complex in cutaneous squamous cell carcinoma. Discov Oncol 2021 May 3;12(1):14. PMID: 35201472
  • Giustiniani J, Dobos G, Moins-Teisserenc H, Eustaquio T et al. CCR8 is a new therapeutic target in cutaneous T-cell lymphomas. Blood Adv 2022 Jun 14;6(11):3507-3512. PMID: 35201316
  • Luo P, Cheng S, Zhang F, Feng R et al. A large-scale genetic correlation scan between rheumatoid arthritis and human plasma protein. Bone Joint Res 2022 Feb;11(2):134-142. PMID: 35200038
  • Sun C, Shi C, Duan X, Zhang Y et al. Exosomal microRNA-618 derived from mesenchymal stem cells attenuate the progression of hepatic fibrosis by targeting Smad4. Bioengineered 2022 Mar;13(3):5915-5927. PMID: 35199612
  • Machlab D, Burger L, Soneson C, Rijli FM et al. monaLisa: an R/Bioconductor package for identifying regulatory motifs. Bioinformatics 2022 Apr 28;38(9):2624-2625. PMID: 35199152
  • Neveu B, Richer C, Cassart P, Caron M et al. Identification of new ETV6 modulators through a high-throughput functional screening. iScience 2022 Mar 18;25(3):103858. PMID: 35198911
  • Wang S, Xie J, Zou X, Pan T et al. Single-cell multiomics reveals heterogeneous cell states linked to metastatic potential in liver cancer cell lines. iScience 2022 Mar 18;25(3):103857. PMID: 35198910
  • Gómez-Redondo I, Pericuesta E, Navarrete-Lopez P, Ramos-Ibeas P et al. Zrsr2 and functional U12-dependent spliceosome are necessary for follicular development. iScience 2022 Feb 18;25(2):103860. PMID: 35198906
  • Islam MK, Rahman MH, Islam MR, Islam MZ et al. Network based systems biology approach to identify diseasome and comorbidity associations of Systemic Sclerosis with cancers. Heliyon 2022 Feb;8(2):e08892. PMID: 35198765
  • Yang Q, Xu F, Jian A, Yu H et al. m6A Regulator-Mediated Methylation Modification Patterns and Tumor Microenvironment Cell-Infiltration Characterization in Head and Neck Cancer. Front Cell Dev Biol 2021;9:803141. PMID: 35198565
  • Lesovaya EA, Chudakova D, Baida G, Zhidkova EM et al. The long winding road to the safer glucocorticoid receptor (GR) targeting therapies. Oncotarget 2022;13:408-424. PMID: 35198100
  • Seth S, Mallik S, Bhadra T, Zhao Z et al. Dimensionality Reduction and Louvain Agglomerative Hierarchical Clustering for Cluster-Specified Frequent Biomarker Discovery in Single-Cell Sequencing Data. Front Genet 2022;13:828479. PMID: 35198011
  • Mishra DC, Arora D, Budhlakoti N, Solanke AU et al. Identification of Potential Cytokinin Responsive Key Genes in Rice Treated With Trans-Zeatin Through Systems Biology Approach. Front Genet 2021;12:780599. PMID: 35198001
  • Zhao X, Ge L, Wang J, Song Z et al. Exploration of Potential Integrated Models of N6-Methyladenosine Immunity in Systemic Lupus Erythematosus by Bioinformatic Analyses. Front Immunol 2021;12:752736. PMID: 35197962
  • Zeng H, Fu Y, Shen L, Quan S et al. Integrated Analysis of Multiple Microarrays Based on Raw Data Identified Novel Gene Signatures in Recurrent Implantation Failure. Front Endocrinol (Lausanne) 2022;13:785462. PMID: 35197930
  • Wang Y, Chen G, Shao W et al. Identification of Ferroptosis-Related Genes in Alzheimer's Disease Based on Bioinformatic Analysis. Front Neurosci 2022;16:823741. PMID: 35197821
  • Jin F, Duan C et al. Identification of immune-infiltrated hub genes as potential biomarkers of Moyamoya disease by bioinformatics analysis. Orphanet J Rare Dis 2022 Feb 23;17(1):80. PMID: 35197088
  • Wang ZY, Zhao S, Liu JF, Zhao HY et al. Genome-wide identification of Tomato Golden 2-Like transcription factors and abiotic stress related members screening. BMC Plant Biol 2022 Feb 23;22(1):82. PMID: 35196981
  • Ding Y, Liu X, Yuan Y, Sheng Y et al. THRSP identified as a potential hepatocellular carcinoma marker by integrated bioinformatics analysis and experimental validation. Aging (Albany NY) 2022 Feb 23;14(4):1743-1766. PMID: 35196258
  • De Rop FV, Ismail JN, Bravo González-Blas C, Hulselmans GJ et al. Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads. Elife 2022 Feb 23;11. PMID: 35195064
  • Ghafouri-Fard S, Khoshbakht T, Hussen BM, Taheri M et al. The emerging role non-coding RNAs in B cell-related disorders. Cancer Cell Int 2022 Feb 22;22(1):91. PMID: 35193592
  • Li C, Tian C, Zeng Y, Liang J et al. Machine learning and bioinformatics analysis revealed classification and potential treatment strategy in stage 3-4 NSCLC patients. BMC Med Genomics 2022 Feb 22;15(1):33. PMID: 35193578
  • Hou J, Ye X, Feng W, Zhang Q et al. Distance correlation application to gene co-expression network analysis. BMC Bioinformatics 2022 Feb 21;23(1):81. PMID: 35193539
  • Adetunji MO, Abraham BJ et al. SEAseq: a portable and cloud-based chromatin occupancy analysis suite. BMC Bioinformatics 2022 Feb 23;23(1):77. PMID: 35193506
  • Natarajan SR, Ponnusamy L, Manoharan R et al. MARK2/4 promotes Warburg effect and cell growth in non-small cell lung carcinoma through the AMPKα1/mTOR/HIF-1α signaling pathway. Biochim Biophys Acta Mol Cell Res 2022 Jul;1869(7):119242. PMID: 35192892
  • Zhao S, Mo X, Wen Z, Ren L et al. Comprehensive bioinformatics analysis reveals the hub genes and pathways associated with multiple myeloma. Hematology 2022 Dec;27(1):280-292. PMID: 35192775
  • Bae S, Na KJ, Koh J, Lee DS et al. CellDART: cell type inference by domain adaptation of single-cell and spatial transcriptomic data. Nucleic Acids Res 2022 Jun 10;50(10):e57. PMID: 35191503
  • Chukrallah LG, Badrinath A, Vittor GG, Snyder EM et al. ADAD2 regulates heterochromatin in meiotic and post-meiotic male germ cells via translation of MDC1. J Cell Sci 2022 Feb 15;135(4). PMID: 35191498
  • He X, Tolosa MF, Zhang T, Goru SK et al. Myofibroblast YAP/TAZ activation is a key step in organ fibrogenesis. JCI Insight 2022 Feb 22;7(4). PMID: 35191398
  • Yang C, Zhang H, Chen M, Wang S et al. A survey of optimal strategy for signature-based drug repositioning and an application to liver cancer. Elife 2022 Feb 22;11. PMID: 35191375
  • Schmidt L, Issa II, Haraldsdóttir H, Hald JL et al. Hsp90 inhibition sensitizes DLBCL cells to cisplatin. Cancer Chemother Pharmacol 2022 Apr;89(4):431-440. PMID: 35190872
  • Ma Y, Liu C, Xi G, Guan Y et al. Bioinformatic Analysis and Cellular Assays Identify Substance P Influencing Th17/Treg Differentiation via the MyD88 Pathway as a Potential Contributor to the Progression of Asthma and Allergic Rhinitis. Dis Markers 2022;2022:3843954. PMID: 35190755
  • Gong LY, Tu T, Zhu J, Hu AP et al. Golgi phosphoprotein 3 induces autophagy and epithelial-mesenchymal transition to promote metastasis in colon cancer. Cell Death Discov 2022 Feb 21;8(1):76. PMID: 35190555
  • Wilson SB, Howden SE, Vanslambrouck JM, Dorison A et al. DevKidCC allows for robust classification and direct comparisons of kidney organoid datasets. Genome Med 2022 Feb 22;14(1):19. PMID: 35189942
  • Zhou RR, Zhao SD, Parast L et al. Estimation of the proportion of treatment effect explained by a high-dimensional surrogate. Stat Med 2022 May 30;41(12):2227-2246. PMID: 35189671
  • Ma X, Feng Y, Yang Y, Li X et al. Genome-wide characterization of i-motifs and their potential roles in the stability and evolution of transposable elements in rice. Nucleic Acids Res 2022 Apr 8;50(6):3226-3238. PMID: 35188565
  • Marcheva B, Weidemann BJ, Taguchi A, Perelis M et al. P2Y1 purinergic receptor identified as a diabetes target in a small-molecule screen to reverse circadian β-cell failure. Elife 2022 Feb 21;11. PMID: 35188462
  • Brereton CJ, Yao L, Davies ER, Zhou Y et al. Pseudohypoxic HIF pathway activation dysregulates collagen structure-function in human lung fibrosis. Elife 2022 Feb 21;11. PMID: 35188460
  • Lopes N, Boucherit N, Santamaria JC, Provin N et al. Thymocytes trigger self-antigen-controlling pathways in immature medullary thymic epithelial stages. Elife 2022 Feb 21;11. PMID: 35188458
  • Skok Gibbs C, Jackson CA, Saldi GA, Tjärnberg A et al. High-performance single-cell gene regulatory network inference at scale: the Inferelator 3.0. Bioinformatics 2022 Apr 28;38(9):2519-2528. PMID: 35188184
  • Silver MJ, Saffari A, Kessler NJ, Chandak GR et al. Environmentally sensitive hotspots in the methylome of the early human embryo. Elife 2022 Feb 21;11. PMID: 35188105
  • Zhang Y, Day K, Absher DM et al. STAT3-mediated allelic imbalance of novel genetic variant Rs1047643 and B-cell-specific super-enhancer in association with systemic lupus erythematosus. Elife 2022 Feb 21;11. PMID: 35188103
  • Bofill-De Ros X, Hong Z, Birkenfeld B, Alamo-Ortiz S et al. Flexible pri-miRNA structures enable tunable production of 5' isomiRs. RNA Biol 2022;19(1):279-289. PMID: 35188062
  • Hirt CK, Booij TH, Grob L, Simmler P et al. Drug screening and genome editing in human pancreatic cancer organoids identifies drug-gene interactions and candidates for off-label treatment. Cell Genom 2022 Feb;2(2):100095. PMID: 35187519
  • Zhou J, Zhang X, Ji L, Jiang G et al. Identification of Potential Biomarkers of Type 2 Diabetes Mellitus-Related Immune Infiltration Using Weighted Gene Coexpression Network Analysis. Biomed Res Int 2022;2022:9920744. PMID: 35187175
  • Yang H, DeRoo E, Zhou T, Liu B et al. Deciphering Cell-Cell Communication in Abdominal Aortic Aneurysm From Single-Cell RNA Transcriptomic Data. Front Cardiovasc Med 2022;9:831789. PMID: 35187133
  • Neves EGA, Koh CC, Souza-Silva TG, Passos LSA et al. T-Cell Subpopulations Exhibit Distinct Recruitment Potential, Immunoregulatory Profile and Functional Characteristics in Chagas versus Idiopathic Dilated Cardiomyopathies. Front Cardiovasc Med 2022;9:787423. PMID: 35187122
  • Yin J, He X, Xia H, He L et al. Head and Neck Squamous Cell Carcinoma Subtypes Based on Immunologic and Hallmark Gene Sets in Tumor and Non-tumor Tissues. Front Surg 2022;9:821600. PMID: 35187059
  • Xiao Y, Yang K, Wang Z, Zhao M et al. CD44-Mediated Poor Prognosis in Glioma Is Associated With M2-Polarization of Tumor-Associated Macrophages and Immunosuppression. Front Surg 2021;8:775194. PMID: 35187044
  • Xu H, Hu J, Song Y, Chen H et al. Retinoic Acid Metabolism-Related Enzyme Signature Identified Prognostic and Immune Characteristics in Sarcoma. Front Cell Dev Biol 2021;9:780951. PMID: 35186946
  • Lu X, Zhang J, Li YQ, Liu QX et al. Plasmodium Circumsporozoite Protein Enhances the Efficacy of Gefitinib in Lung Adenocarcinoma Cells by Inhibiting Autophagy via Proteasomal Degradation of LC3B. Front Cell Dev Biol 2022;10:830046. PMID: 35186935
  • Gong X, Liu Y, Zheng C, Tian P et al. Establishment of a 4-miRNA Prognostic Model for Risk Stratification of Patients With Pancreatic Adenocarcinoma. Front Oncol 2022;12:827259. PMID: 35186758
  • Zhu J, Jiang Y, Wang T, Wu A et al. Integrative Analysis of m6A RNA Methylation Regulators and the Tumor Immune Microenvironment in Non-Small-Cell Lung Cancer. Dis Markers 2022;2022:2989200. PMID: 35186164
  • Wu Y, Peng Z, Gu S, Wang H et al. A Risk Score Signature Consisting of Six Immune Genes Predicts Overall Survival in Patients with Lower-Grade Gliomas. Comput Math Methods Med 2022;2022:2558548. PMID: 35186111
  • Cervantes-Gracia K, Chahwan R, Husi H et al. Integrative OMICS Data-Driven Procedure Using a Derivatized Meta-Analysis Approach. Front Genet 2022;13:828786. PMID: 35186042
  • Gao Y, Feng C, Zhang Y, Song C et al. TRmir: A Comprehensive Resource for Human Transcriptional Regulatory Information of MiRNAs. Front Genet 2022;13:808950. PMID: 35186035
  • Zhang S, Yang H, Xiang X, Liu L et al. THBS2 is Closely Related to the Poor Prognosis and Immune Cell Infiltration of Gastric Cancer. Front Genet 2022;13:803460. PMID: 35186032
  • Sekula M, Gaskins J, Datta S et al. Single-Cell Differential Network Analysis with Sparse Bayesian Factor Models. Front Genet 2021;12:810816. PMID: 35186014
  • Jiu S, Zhang Y, Han P, Han Y et al. Genome-Wide Identification and Expression Analysis of VviYABs Family Reveal Its Potential Functions in the Developmental Switch and Stresses Response During Grapevine Development. Front Genet 2021;12:762221. PMID: 35186002
  • Li Y, He Y, Chen S, Wang Q et al. S100A12 as Biomarker of Disease Severity and Prognosis in Patients With Idiopathic Pulmonary Fibrosis. Front Immunol 2022;13:810338. PMID: 35185901
  • Chen J, Lu T, Zhong F, Lv Q et al. A Signature of N(6)-methyladenosine Regulator-Related Genes Predicts Prognoses and Immune Responses for Head and Neck Squamous Cell Carcinoma. Front Immunol 2022;13:809872. PMID: 35185897
  • Xia J, Chen S, Li Y, Li H et al. Immune Response Is Key to Genetic Mechanisms of SARS-CoV-2 Infection With Psychiatric Disorders Based on Differential Gene Expression Pattern Analysis. Front Immunol 2022;13:798538. PMID: 35185890
  • Chen L, Niu X, Qiao X, Liu S et al. Characterization of Interplay Between Autophagy and Ferroptosis and Their Synergistical Roles on Manipulating Immunological Tumor Microenvironment in Squamous Cell Carcinomas. Front Immunol 2021;12:739039. PMID: 35185859
  • Bodkin N, Ross M, McClain MT, Ko ER et al. Systematic comparison of published host gene expression signatures for bacterial/viral discrimination. Genome Med 2022 Feb 21;14(1):18. PMID: 35184750
  • Wen S, Peng W, Chen Y, Du X et al. Four differentially expressed genes can predict prognosis and microenvironment immune infiltration in lung cancer: a study based on data from the GEO. BMC Cancer 2022 Feb 21;22(1):193. PMID: 35184748
  • Skenteris NT, Seime T, Witasp A, Karlöf E et al. Osteomodulin attenuates smooth muscle cell osteogenic transition in vascular calcification. Clin Transl Med 2022 Feb;12(2):e682. PMID: 35184400
  • Yu T, Bai Y, Liu Z, Wang Z et al. Large-scale analyses of heat shock transcription factors and database construction based on whole-genome genes in horticultural and representative plants. Hortic Res 2022 Feb 19;9. PMID: 35184193
  • Carpintero-Fernández P, Borghesan M, Eleftheriadou O, Pan-Castillo B et al. Genome wide CRISPR/Cas9 screen identifies the coagulation factor IX (F9) as a regulator of senescence. Cell Death Dis 2022 Feb 19;13(2):163. PMID: 35184131
  • Li S, Zhang Q, Huang Z, Tao W et al. Comprehensive analysis of immunocyte infiltration and the key genes associated with intraplaque hemorrhage in carotid atherosclerotic plaques. Int Immunopharmacol 2022 May;106:108633. PMID: 35183915
  • Pepin AS, Lafleur C, Lambrot R, Dumeaux V et al. Sperm histone H3 lysine 4 tri-methylation serves as a metabolic sensor of paternal obesity and is associated with the inheritance of metabolic dysfunction. Mol Metab 2022 May;59:101463. PMID: 35183795
  • Liu F, Chen GD, Fan LK et al. Knockdown of PDX1 enhances the osteogenic differentiation of ADSCs partly via activation of the PI3K/Akt signaling pathway. J Orthop Surg Res 2022 Feb 19;17(1):107. PMID: 35183219
  • Hafstað V, Søkilde R, Häkkinen J, Larsson M et al. Regulatory networks and 5' partner usage of miRNA host gene fusions in breast cancer. Int J Cancer 2022 Jul 1;151(1):95-106. PMID: 35182081
  • Katsura K, Nakano Y, Zhang Y, Shemirani R et al. WDR72 regulates vesicle trafficking in ameloblasts. Sci Rep 2022 Feb 18;12(1):2820. PMID: 35181734
  • Smith CM, Hutvagner G et al. A comparative analysis of single cell small RNA sequencing data reveals heterogeneous isomiR expression and regulation. Sci Rep 2022 Feb 18;12(1):2834. PMID: 35181712
  • Motahharynia A, Moein S, Kiyanpour F, Moradzadeh K et al. Olfactory receptors contribute to progression of kidney fibrosis. NPJ Syst Biol Appl 2022 Feb 18;8(1):8. PMID: 35181660
  • Koh HH, Choi S, Park CK, Ha SY et al. Down-regulation of TRPV6 Is Associated With Adverse Prognosis in Hepatocellular Carcinoma Treated With Curative Resection. Cancer Genomics Proteomics 2022 Mar-Apr;19(2):259-269. PMID: 35181592
  • Jafarinejad-Farsangi S, Moazzam-Jazi M, Naderi Ghale-Noie Z, Askari N et al. Investigation of genes and pathways involved in breast cancer subtypes through gene expression meta-analysis. Gene 2022 May 5;821:146328. PMID: 35181505
  • Shokati Eshkiki Z, Khayer N, Talebi A, Karbalaei R et al. Novel insight into pancreatic adenocarcinoma pathogenesis using liquid association analysis. BMC Med Genomics 2022 Feb 18;15(1):30. PMID: 35180880
  • Cao P, Zhao B, Xiao Y, Hu S et al. Understanding the Critical Role of Glycolysis-Related lncRNAs in Lung Adenocarcinoma Based on Three Molecular Subtypes. Biomed Res Int 2022;2022:7587398. PMID: 35178454
  • Wang WL, Batzorig U, Hung CS, Wei PL et al. Aldehyde Dehydrogenase 2 Family Member (ALDH2) Is a Therapeutic Index for Oxaliplatin Response on Colorectal Cancer Therapy with Dysfunction p53. Biomed Res Int 2022;2022:1322788. PMID: 35178443
  • Sun Y, Xiao Z, Chen Y, Xu D et al. Susceptibility Modules and Genes in Hypertrophic Cardiomyopathy by WGCNA and ceRNA Network Analysis. Front Cell Dev Biol 2021;9:822465. PMID: 35178407
  • Li F, Shi Y, Yang X, Luo Z et al. Anhydroicaritin Inhibits EMT in Breast Cancer by Enhancing GPX1 Expression: A Research Based on Sequencing Technologies and Bioinformatics Analysis. Front Cell Dev Biol 2021;9:764481. PMID: 35178395
  • Xu J, Li J, Ramakrishnan A, Yan H et al. Six1 and Six2 of the Sine Oculis Homeobox Subfamily are Not Functionally Interchangeable in Mouse Nephron Formation. Front Cell Dev Biol 2022;10:815249. PMID: 35178390
  • Dong M, Shen W, Yang G, Yang Z et al. Analysis of m6A Methylation Modification Patterns and Tumor Immune Microenvironment in Breast Cancer. Front Cell Dev Biol 2022;10:785058. PMID: 35178386
  • Zhang J, Han X, Lin L, Chen J et al. Unraveling the Expression Patterns of Immune Checkpoints Identifies New Subtypes and Emerging Therapeutic Indicators in Lung Adenocarcinoma. Oxid Med Cell Longev 2022;2022:3583985. PMID: 35178154
  • Tang GY, Yu P, Zhang C, Deng HY et al. The Neuropeptide-Related HERC5/TAC1 Interactions May Be Associated with the Dysregulation of lncRNA GAS5 Expression in Gestational Diabetes Mellitus Exosomes. Dis Markers 2022;2022:8075285. PMID: 35178132
  • Liu R, Dollinger E, Nie Q et al. Machine Learning of Single Cell Transcriptomic Data From anti-PD-1 Responders and Non-responders Reveals Distinct Resistance Mechanisms in Skin Cancers and PDAC. Front Genet 2021;12:806457. PMID: 35178072
  • Martini P, Sales G, Diamante L, Perrera V et al. BrewerIX enables allelic expression analysis of imprinted and X-linked genes from bulk and single-cell transcriptomes. Commun Biol 2022 Feb 17;5(1):146. PMID: 35177756
  • Qin X, Zhao Y, Zhang T, Yin C et al. TrkB agonist antibody ameliorates fertility deficits in aged and cyclophosphamide-induced premature ovarian failure model mice. Nat Commun 2022 Feb 17;13(1):914. PMID: 35177657
  • Li T, Lu D, Yao C, Li T et al. Kansl1 haploinsufficiency impairs autophagosome-lysosome fusion and links autophagic dysfunction with Koolen-de Vries syndrome in mice. Nat Commun 2022 Feb 17;13(1):931. PMID: 35177641
  • Farfariello V, Gordienko DV, Mesilmany L, Touil Y et al. TRPC3 shapes the ER-mitochondria Ca(2+) transfer characterizing tumour-promoting senescence. Nat Commun 2022 Feb 17;13(1):956. PMID: 35177596
  • Lv J, Yi Y, Qi Y, Yan C et al. Mitochondrial homeostasis regulates definitive endoderm differentiation of human pluripotent stem cells. Cell Death Discov 2022 Feb 17;8(1):69. PMID: 35177589
  • Meng X, Lin Z, Cao S, Janowska I et al. Estrogen-mediated downregulation of HIF-1α signaling in B lymphocytes influences postmenopausal bone loss. Bone Res 2022 Feb 17;10(1):15. PMID: 35177582
  • Sidiropoulos N, Mardin BR, Rodríguez-González FG, Bochkov ID et al. Somatic structural variant formation is guided by and influences genome architecture. Genome Res 2022 Apr;32(4):643-655. PMID: 35177558
  • Cloud AS, Vargheese AM, Gunewardena S, Shimak RM et al. Loss of REST in breast cancer promotes tumor progression through estrogen sensitization, MMP24 and CEMIP overexpression. BMC Cancer 2022 Feb 17;22(1):180. PMID: 35177031
  • Salih SJ, Ghobadi MZ et al. Evaluating the cytotoxicity and pathogenicity of multi-walled carbon nanotube through weighted gene co-expression network analysis: a nanotoxicogenomics study. BMC Genom Data 2022 Feb 17;23(1):12. PMID: 35176998
  • Osman N, Shawky AE, Brylinski M et al. Exploring the effects of genetic variation on gene regulation in cancer in the context of 3D genome structure. BMC Genom Data 2022 Feb 17;23(1):13. PMID: 35176995
  • Leote AC, Wu X, Beyer A et al. Regulatory network-based imputation of dropouts in single-cell RNA sequencing data. PLoS Comput Biol 2022 Feb;18(2):e1009849. PMID: 35176023
  • Lee DR, Rhodes C, Mitra A, Zhang Y et al. Transcriptional heterogeneity of ventricular zone cells in the ganglionic eminences of the mouse forebrain. Elife 2022 Feb 17;11. PMID: 35175194
  • Nakahata K, Simons BW, Pozzo E, Shuck R et al. K-Ras and p53 mouse model with molecular characteristics of human rhabdomyosarcoma and translational applications. Dis Model Mech 2022 Feb 1;15(2). PMID: 35174853
  • Bouchoucha Y, Tauziède-Espariat A, Gauthier A, Guillemot D et al. Intra- and extra-cranial BCOR-ITD tumours are separate entities within the BCOR-rearranged family. J Pathol Clin Res 2022 May;8(3):217-232. PMID: 35174661
  • Huang SSY, Rinchai D, Toufiq M, Kabeer BSA et al. Transcriptomic profile investigations highlight a putative role for NUDT16 in sepsis. J Cell Mol Med 2022 Mar;26(5):1714-1721. PMID: 35174610
  • Li M, Cao W, Huang B, Zhu Z et al. Establishment and Analysis of an Individualized Immune-Related Gene Signature for the Prognosis of Gastric Cancer. Front Surg 2022;9:829237. PMID: 35174205
  • Wolf J, Hajdu RI, Boneva S, Schlecht A et al. Characterization of the Cellular Microenvironment and Novel Specific Biomarkers in Pterygia Using RNA Sequencing. Front Med (Lausanne) 2021;8:714458. PMID: 35174178
  • Zhang S, Zhang J, Zhang Q, Liang Y et al. Identification of Prognostic Biomarkers for Bladder Cancer Based on DNA Methylation Profile. Front Cell Dev Biol 2021;9:817086. PMID: 35174173
  • Li H, Liu S, Li C, Xiao Z et al. TNF Family-Based Signature Predicts Prognosis, Tumor Microenvironment, and Molecular Subtypes in Bladder Carcinoma. Front Cell Dev Biol 2021;9:800967. PMID: 35174161
  • Du C, Liu X, Li M, Zhao Y et al. Analysis of 5-Methylcytosine Regulators and DNA Methylation-Driven Genes in Colon Cancer. Front Cell Dev Biol 2021;9:657092. PMID: 35174154
  • Liu J, Kong S, Song S, Dong H et al. Metabolic Variation Dictates Cardiac Pathogenesis in Patients With Tetralogy of Fallot. Front Pediatr 2021;9:819195. PMID: 35174118
  • Serral F, Pardo AM, Sosa E, Palomino MM et al. Pathway Driven Target Selection in Klebsiella pneumoniae: Insights Into Carbapenem Exposure. Front Cell Infect Microbiol 2022;12:773405. PMID: 35174104
  • Qiu W, Wu X, Shi H, Liu B et al. ASF1B: A Possible Prognostic Marker, Therapeutic Target, and Predictor of Immunotherapy in Male Thyroid Carcinoma. Front Oncol 2022;12:678025. PMID: 35174076
  • Zhu C, Xiao H, Jiang X, Tong R et al. Prognostic Biomarker DDOST and Its Correlation With Immune Infiltrates in Hepatocellular Carcinoma. Front Genet 2021;12:819520. PMID: 35173766
  • Pei T, Luo B, Huang W, Liu D et al. Increased Expression of YAP Inhibited the Autophagy Level by Upregulating mTOR Signal in the Eutopic ESCs of Endometriosis. Front Endocrinol (Lausanne) 2022;13:813165. PMID: 35173685
  • Bian S, Ni W, Zhu M, Zhang X et al. Flap endonuclease 1 Facilitated Hepatocellular Carcinoma Progression by Enhancing USP7/MDM2-mediated P53 Inactivation. Int J Biol Sci 2022;18(3):1022-1038. PMID: 35173534
  • Al-Aamri A, Taha K, Maalouf M, Kudlicki A et al. Inferring Causation in Yeast Gene Association Networks With Kernel Logistic Regression. Evol Bioinform Online 2020;16:1176934320920310. PMID: 35173404
  • Kumari R, Katara P et al. Up regulated virulence genes in M. tuberculosis H37Rv gleaned from genome wide expression profiles. Bioinformation 2021;17(6):608-615. PMID: 35173382
  • Wu H, Ding X, Hu X, Zhao Q et al. LINC01021 maintains tumorigenicity by enhancing N6-methyladenosine reader IMP2 dependent stabilization of MSX1 and JARID2: implication in colorectal cancer. Oncogene 2022 Mar;41(13):1959-1973. PMID: 35173309
  • Omolaoye TS, Hachim MY, du Plessis SS et al. Using publicly available transcriptomic data to identify mechanistic and diagnostic biomarkers in azoospermia and overall male infertility. Sci Rep 2022 Feb 16;12(1):2584. PMID: 35173218
  • Qi M, Xia Y, Wu Y, Zhang Z et al. Lin28B-high breast cancer cells promote immune suppression in the lung pre-metastatic niche via exosomes and support cancer progression. Nat Commun 2022 Feb 16;13(1):897. PMID: 35173168
  • Asleh K, Negri GL, Spencer Miko SE, Colborne S et al. Proteomic analysis of archival breast cancer clinical specimens identifies biological subtypes with distinct survival outcomes. Nat Commun 2022 Feb 16;13(1):896. PMID: 35173148
  • Lu Z, Tian Y, Bai Z, Liu J et al. Increased oxidative stress contributes to impaired peripheral CD56(dim)CD57(+) NK cells from patients with systemic lupus erythematosus. Arthritis Res Ther 2022 Feb 16;24(1):48. PMID: 35172900
  • Ma Y, Qiu F, Deng C, Li J et al. Integrating single-cell sequencing data with GWAS summary statistics reveals CD16+monocytes and memory CD8+T cells involved in severe COVID-19. Genome Med 2022 Feb 17;14(1):16. PMID: 35172892
  • Namløs HM, Skårn M, Ahmed D, Grad I et al. miR-486-5p expression is regulated by DNA methylation in osteosarcoma. BMC Genomics 2022 Feb 17;23(1):142. PMID: 35172717
  • Deng X, Gao J, Zhao F et al. Identification of differentially expressed genes and pathways in kidney of ANCA-associated vasculitis by integrated bioinformatics analysis. Ren Fail 2022 Dec;44(1):204-216. PMID: 35172670
  • Jansen C, Paraiso KD, Zhou JJ, Blitz IL et al. Uncovering the mesendoderm gene regulatory network through multi-omic data integration. Cell Rep 2022 Feb 15;38(7):110364. PMID: 35172134
  • Tang WJ, Watson CJ, Olmstead T, Allan CH et al. Single-cell resolution of MET- and EMT-like programs in osteoblasts during zebrafish fin regeneration. iScience 2022 Feb 18;25(2):103784. PMID: 35169687
  • Tran E, Shi T, Li X, Chowdhury AY et al. Development of human alveolar epithelial cell models to study distal lung biology and disease. iScience 2022 Feb 18;25(2):103780. PMID: 35169685
  • De Silva K, Demmer RT, Jönsson D, Mousa A et al. A data-driven biocomputing pipeline with meta-analysis on high throughput transcriptomics to identify genome-wide miRNA markers associated with type 2 diabetes. Heliyon 2022 Feb;8(2):e08886. PMID: 35169647
  • Chu L, Qu Y, An Y, Hou L et al. Induction of senescence-associated secretory phenotype underlies the therapeutic efficacy of PRC2 inhibition in cancer. Cell Death Dis 2022 Feb 15;13(2):155. PMID: 35169119
  • Zhang Y, Chen F, Zhang F, Huang X et al. Characterization of DNA methylation as well as mico-RNA expression and screening of epigenetic markers in adipogenesis. J Transl Med 2022 Feb 15;20(1):93. PMID: 35168604
  • Ilyin AA, Kononkova AD, Golova AV, Shloma VV et al. Comparison of genome architecture at two stages of male germline cell differentiation in Drosophila. Nucleic Acids Res 2022 Apr 8;50(6):3203-3225. PMID: 35166842
  • Bakoulis S, Krautz R, Alcaraz N, Salvatore M et al. Endogenous retroviruses co-opted as divergently transcribed regulatory elements shape the regulatory landscape of embryonic stem cells. Nucleic Acids Res 2022 Feb 28;50(4):2111-2127. PMID: 35166831
  • Pudlo NA, Urs K, Crawford R, Pirani A et al. Phenotypic and Genomic Diversification in Complex Carbohydrate-Degrading Human Gut Bacteria. mSystems 2022 Feb 22;7(1):e0094721. PMID: 35166563
  • Maqdasy S, Lecoutre S, Renzi G, Frendo-Cumbo S et al. Impaired phosphocreatine metabolism in white adipocytes promotes inflammation. Nat Metab 2022 Feb;4(2):190-202. PMID: 35165448
  • Wang J, Ge J, Wang Y, Xiong F et al. EBV miRNAs BART11 and BART17-3p promote immune escape through the enhancer-mediated transcription of PD-L1. Nat Commun 2022 Feb 14;13(1):866. PMID: 35165282
  • Maity AK, Stone TC, Ward V, Webster AP et al. Novel epigenetic network biomarkers for early detection of esophageal cancer. Clin Epigenetics 2022 Feb 14;14(1):23. PMID: 35164838
  • Santourlidis S, Schulz WA, Araúzo-Bravo MJ, Gerovska D et al. Epigenetics in the Diagnosis and Therapy of Malignant Melanoma. Int J Mol Sci 2022 Jan 28;23(3). PMID: 35163453
  • Chang J, Guo C, Li J, Liang Z et al. EN1 Regulates Cell Growth and Proliferation in Human Glioma Cells via Hedgehog Signaling. Int J Mol Sci 2022 Jan 20;23(3). PMID: 35163043
  • Chou CK, Chi SY, Hung YY, Yang YC et al. Decreased Expression of Estrogen Receptors Is Associated with Tumorigenesis in Papillary Thyroid Carcinoma. Int J Mol Sci 2022 Jan 18;23(3). PMID: 35162942
  • Loeffler-Wirth H, Hopp L, Schmidt M, Zakharyan R et al. The Transcriptome and Methylome of the Developing and Aging Brain and Their Relations to Gliomas and Psychological Disorders. Cells 2022 Jan 21;11(3). PMID: 35159171
  • Quinn CH, Beierle AM, Hutchins SC, Marayati R et al. Targeting High-Risk Neuroblastoma Patient-Derived Xenografts with Oncolytic Virotherapy. Cancers (Basel) 2022 Feb 1;14(3). PMID: 35159029
  • Safarulla S, Madan A, Xing F, Chandrasekaran A et al. CXCR2 Mediates Distinct Neutrophil Behavior in Brain Metastatic Breast Tumor. Cancers (Basel) 2022 Jan 20;14(3). PMID: 35158784
  • Guan G, Xie J, Dai Y, Han H et al. TFPI2 suppresses the interaction of TGF-β2 pathway regulators to promote endothelial-mesenchymal transition in diabetic nephropathy. J Biol Chem 2022 Mar;298(3):101725. PMID: 35157852
  • Bhatt DP, Mills CA, Anderson KA, Henriques BJ et al. Deglutarylation of glutaryl-CoA dehydrogenase by deacylating enzyme SIRT5 promotes lysine oxidation in mice. J Biol Chem 2022 Apr;298(4):101723. PMID: 35157847
  • Li T, Wang W, Gan W, Lv S et al. Comprehensive bioinformatics analysis identifies LAPTM5 as a potential blood biomarker for hypertensive patients with left ventricular hypertrophy. Aging (Albany NY) 2022 Feb 14;14(3):1508-1528. PMID: 35157609
  • Huizing GJ, Peyré G, Cantini L et al. Optimal transport improves cell-cell similarity inference in single-cell omics data. Bioinformatics 2022 Apr 12;38(8):2169-2177. PMID: 35157031
  • Liu DL, Wu MY, Zhang TN, Wang CG et al. Ferroptosis Regulator Modification Patterns and Tumor Microenvironment Immune Infiltration Characterization in Hepatocellular Carcinoma. Front Mol Biosci 2022;9:807502. PMID: 35155577
  • Sun S, Mao W, Wan L, Pan K et al. Metastatic Immune-Related Genes for Affecting Prognosis and Immune Response in Renal Clear Cell Carcinoma. Front Mol Biosci 2021;8:794326. PMID: 35155566
  • Geng QS, Yang MJ, Li LF, Shen ZB et al. Over-Expression and Prognostic Significance of FATP5, as a New Biomarker, in Colorectal Carcinoma. Front Mol Biosci 2021;8:770624. PMID: 35155561
  • Li C, Zhu Y, Chen W, Li M et al. Circulating NAD+ Metabolism-Derived Genes Unveils Prognostic and Peripheral Immune Infiltration in Amyotrophic Lateral Sclerosis. Front Cell Dev Biol 2022;10:831273. PMID: 35155438
  • Zhang S, Xiong Y, Zheng C, Long J et al. Crosstalk Between Four Types of RNA Modification Writers Characterizes the Tumor Immune Microenvironment Infiltration Patterns in Skin Cutaneous Melanoma. Front Cell Dev Biol 2022;10:821678. PMID: 35155433
  • Hilgers K, Ibrahim SA, Kiesel L, Greve B et al. Differential Impact of Membrane-Bound and Soluble Forms of the Prognostic Marker Syndecan-1 on the Invasiveness, Migration, Apoptosis, and Proliferation of Cervical Cancer Cells. Front Oncol 2022;12:803899. PMID: 35155241
  • Rong X, Lv J, Liu Y, Wang Z et al. PET/CT Imaging of Activated Cancer-Associated Fibroblasts Predict Response to PD-1 Blockade in Gastric Cancer Patients. Front Oncol 2021;11:802257. PMID: 35155199
  • Darwish NHE, Glinsky GV, Sudha T, Mousa SA et al. Targeting Thyrointegrin αvβ3 Using Fluorobenzyl Polyethylene Glycol Conjugated Tetraiodothyroacetic Acid (NP751) in Acute Myeloid Leukemia. Front Oncol 2021;11:793810. PMID: 35155195
  • Chang YT, Tsai WC, Lin WZ, Wu CC et al. A Novel IGLC2 Gene Linked With Prognosis of Triple-Negative Breast Cancer. Front Oncol 2021;11:759952. PMID: 35155184
  • Xu D, Guo Y, Lei S, Guo A et al. Identification and Characterization of TF-lncRNA Regulatory Networks Involved in the Tumorigenesis and Development of Adamantinomatous Craniopharyngioma. Front Oncol 2021;11:739714. PMID: 35155179
  • Hamzeloo-Moghadam M, Rezaei Tavirani M, Razzaghi M, Rezaei Tavirani S et al. EGR1 Is a Critical Gene in Response of Human Keratinocyte to Blue Light Radiation. J Lasers Med Sci 2021;12:e83. PMID: 35155168
  • Arjmand B, Khodadoost M, Jahani Sherafat S, Rezaei Tavirani M et al. Assessment of colon cancer molecular mechanism: a system biology approach. Gastroenterol Hepatol Bed Bench 2021 Fall;14(Suppl1):S51-S57. PMID: 35154602
  • Xie L, Huang G, Gao M, Huang J et al. Identification of Atrial Fibrillation-Related lncRNA Based on Bioinformatic Analysis. Dis Markers 2022;2022:8307975. PMID: 35154514
  • Huang J, Zhou Q et al. Identification of the Relationship between Hub Genes and Immune Cell Infiltration in Vascular Endothelial Cells of Proliferative Diabetic Retinopathy Using Bioinformatics Methods. Dis Markers 2022;2022:7231046. PMID: 35154512
  • Zhang J, Huang C, Liu Z, Ren S et al. Screening of Potential Biomarkers in the Peripheral Serum for Steroid-Induced Osteonecrosis of the Femoral Head Based on WGCNA and Machine Learning Algorithms. Dis Markers 2022;2022:2639470. PMID: 35154510
  • Zhang FL, Zhang SE, Sun YJ, Wang JJ et al. Comparative Transcriptomics Uncover the Uniqueness of Oocyte Development in the Donkey. Front Genet 2022;13:839207. PMID: 35154289
  • He W, Lin G, Pan C, Li W et al. The Identification of Two RNA Modification Patterns and Tumor Microenvironment Infiltration Characterization of Lung Adenocarcinoma. Front Genet 2022;13:761681. PMID: 35154267
  • Wu H, Zhao X, Wang J, Jiang X et al. Circular RNA CDR1as Alleviates Cisplatin-Based Chemoresistance by Suppressing MiR-1299 in Ovarian Cancer. Front Genet 2021;12:815448. PMID: 35154259
  • Zhang J, Tang H, Jiang X, Huang N et al. Hypoxia-Induced miR-378a-3p Inhibits Osteosarcoma Invasion and Epithelial-to-Mesenchymal Transition via BYSL Regulation. Front Genet 2021;12:804952. PMID: 35154253
  • Liu Z, Xu H, Weng S, Ren Y et al. Stemness Refines the Classification of Colorectal Cancer With Stratified Prognosis, Multi-Omics Landscape, Potential Mechanisms, and Treatment Options. Front Immunol 2022;13:828330. PMID: 35154148
  • Liu X, Lin L, Lu L, Li X et al. Comparative Transcriptional Analysis Identified Characteristic Genes and Patterns in HIV-Infected Immunological Non-Responders. Front Immunol 2022;13:807890. PMID: 35154126
  • Wang T, Li T, Li B, Zhao J et al. Immunogenomic Landscape in Breast Cancer Reveals Immunotherapeutically Relevant Gene Signatures. Front Immunol 2022;13:805184. PMID: 35154121
  • Huang Z, Xia S, Mei S, Wen Y et al. Integrated Analysis Reveals the Characteristics and Effects of SARS-CoV-2 Maternal-Fetal Transmission. Front Microbiol 2022;13:813187. PMID: 35154056
  • Yang J, Wu Z, Yang L, Jeong JH et al. Characterization of Kinesin Family Member 2C as a Proto-Oncogene in Cervical Cancer. Front Pharmacol 2021;12:785981. PMID: 35153749
  • Swarup N, Hong KO, Chawla K, Choi SJ et al. Effect of PAIP1 on the metastatic potential and prognostic significance in oral squamous cell carcinoma. Int J Oral Sci 2022 Feb 14;14(1):9. PMID: 35153296
  • Meng K, Hu X, Zheng G, Qian C et al. Identification of prognostic biomarkers for papillary thyroid carcinoma by a weighted gene co-expression network analysis. Cancer Med 2022 May;11(9):2006-2019. PMID: 35152572
  • Wu X, Qin K, Iroegbu CD, Xiang K et al. Genetic analysis of potential biomarkers and therapeutic targets in ferroptosis from coronary artery disease. J Cell Mol Med 2022 Apr;26(8):2177-2190. PMID: 35152560
  • Liang XZ, Luo D, Chen YR, Li JC et al. Identification of potential autophagy-related genes in steroid-induced osteonecrosis of the femoral head via bioinformatics analysis and experimental verification. J Orthop Surg Res 2022 Feb 12;17(1):86. PMID: 35151359
  • Niu H, Zhao M, Huang J, Wang J et al. UHMK1-dependent phosphorylation of Cajal body protein coilin alters 5-FU sensitivity in colon cancer cells. Cell Commun Signal 2022 Feb 12;20(1):18. PMID: 35151311
  • Shen Y, Ye H, Zhang D, Yang M et al. The role of exosomal CDC6 in the hirudin-mediated suppression of the malignant phenotype of bladder cancer cells. Gene 2022 May 5;821:146269. PMID: 35150820
  • Chrysanthou S, Tang Q, Lee J, Taylor SJ et al. The DNA dioxygenase Tet1 regulates H3K27 modification and embryonic stem cell biology independent of its catalytic activity. Nucleic Acids Res 2022 Apr 8;50(6):3169-3189. PMID: 35150568
  • Hashemi R, Peymani M, Ghaedi K, Saffar H et al. In silico identification of the specific pathways in each stage of colorectal cancer and the association of their top genes with drug resistance and sensitivity. Med Oncol 2022 Feb 12;39(5):57. PMID: 35150347
  • Ghosal S, Banerjee S et al. In silico bioinformatics analysis for identification of differentially expressed genes and therapeutic drug molecules in Glucocorticoid-resistant Multiple myeloma. Med Oncol 2022 Feb 12;39(5):53. PMID: 35150335
  • Parigi SM, Larsson L, Das S, Ramirez Flores RO et al. The spatial transcriptomic landscape of the healing mouse intestine following damage. Nat Commun 2022 Feb 11;13(1):828. PMID: 35149721
  • Tansley S, Uttam S, Ureña Guzmán A, Yaqubi M et al. Single-cell RNA sequencing reveals time- and sex-specific responses of mouse spinal cord microglia to peripheral nerve injury and links ApoE to chronic pain. Nat Commun 2022 Feb 11;13(1):843. PMID: 35149686
  • Shi Y, Xu Y, Xu Z, Wang H et al. TKI resistant-based prognostic immune related gene signature in LUAD, in which FSCN1 contributes to tumor progression. Cancer Lett 2022 Apr 28;532:215583. PMID: 35149175
  • Tripathi S, Park JH, Pudakalakatti S, Bhattacharya PK et al. A mechanistic modeling framework reveals the key principles underlying tumor metabolism. PLoS Comput Biol 2022 Feb;18(2):e1009841. PMID: 35148308
  • Tang S, Jiang W, Xu P, Xie S et al. Integrated bioinformatic analysis of key biomarkers and signalling pathways in psoriasis. Scott Med J 2022 Feb;67(1):7-17. PMID: 35147459
  • Singh A, Mahesh A, Noack F, Cardoso de Toledo B et al. Tcf12 and NeuroD1 cooperatively drive neuronal migration during cortical development. Development 2022 Feb 1;149(3). PMID: 35147187
  • Baltaci O, Pedersen ME, Sherry T, Handley A et al. Atypical TGF-β signaling controls neuronal guidance in Caenorhabditis elegans. iScience 2022 Feb 18;25(2):103791. PMID: 35146399
  • Zheng Y, Han L, Chen Z, Li Y et al. PD-L1(+)CD8(+) T cells enrichment in lung cancer exerted regulatory function and tumor-promoting tolerance. iScience 2022 Feb 18;25(2):103785. PMID: 35146396
  • Abugessaisa I, Hasegawa A, Noguchi S, Cardon M et al. SkewC: Identifying cells with skewed gene body coverage in single-cell RNA sequencing data. iScience 2022 Feb 18;25(2):103777. PMID: 35146392
  • Fang X, Duan SF, Hu ZY, Wang JJ et al. Inhibition of Matrix Metalloproteinase-8 Protects Against Sepsis Serum Mediated Leukocyte Adhesion. Front Med (Lausanne) 2022;9:814890. PMID: 35145983
  • Liu J, Zhang Z, Zhang W, Meng L et al. Ferroptosis Mediation Patterns Reveal Novel Tool to Implicate Immunotherapy and Multi-Omics Characteristics in Bladder Cancer. Front Cell Dev Biol 2022;10:791630. PMID: 35145965
  • Xu Y, Liao W, Luo Q, Yang D et al. Histone Acetylation Regulator-Mediated Acetylation Patterns Define Tumor Malignant Pathways and Tumor Microenvironment in Hepatocellular Carcinoma. Front Immunol 2022;13:761046. PMID: 35145517
  • Ye Z, Liu D, Liu D, Lv Y et al. Immune Infiltration of CD8+ T Cells in Patients With Diabetic Pancreatic Cancer Reduces the Malignancy of Cancer Tissues: An In Silico Study. Front Endocrinol (Lausanne) 2021;12:826667. PMID: 35145483
  • Kang J, Kwon EJ, Ha M, Lee H et al. Identification of Shared Genes and Pathways in Periodontitis and Type 2 Diabetes by Bioinformatics Analysis. Front Endocrinol (Lausanne) 2021;12:724278. PMID: 35145474
  • Lex RK, Zhou W, Ji Z, Falkenstein KN et al. GLI transcriptional repression is inert prior to Hedgehog pathway activation. Nat Commun 2022 Feb 10;13(1):808. PMID: 35145123
  • Mota A, Schweitzer M, Wernersson E, Crosetto N et al. Simultaneous visualization of DNA loci in single cells by combinatorial multi-color iFISH. Sci Data 2022 Feb 10;9(1):47. PMID: 35145120
  • Chen YY, Ge JY, Zhu SY, Shao ZM et al. Copy number amplification of ENSA promotes the progression of triple-negative breast cancer via cholesterol biosynthesis. Nat Commun 2022 Feb 10;13(1):791. PMID: 35145111
  • Arneson A, Haghani A, Thompson MJ, Pellegrini M et al. A mammalian methylation array for profiling methylation levels at conserved sequences. Nat Commun 2022 Feb 10;13(1):783. PMID: 35145108
  • Gao M, Veil M, Rosenblatt M, Riesle AJ et al. Pluripotency factors determine gene expression repertoire at zygotic genome activation. Nat Commun 2022 Feb 10;13(1):788. PMID: 35145080
  • Ni L, Xiao J, Zhang D, Shao Z et al. Immune-responsive gene 1/itaconate activates nuclear factor erythroid 2-related factor 2 in microglia to protect against spinal cord injury in mice. Cell Death Dis 2022 Feb 10;13(2):140. PMID: 35145070
  • Zhang S, Zhang W, Zhang J et al. Comprehensive analysis of immune cell infiltration and significant genes in head and neck squamous cell carcinoma. Oral Oncol 2022 Mar;126:105755. PMID: 35144208
  • Galea E, Weinstock LD, Larramona-Arcas R, Pybus AF et al. Multi-transcriptomic analysis points to early organelle dysfunction in human astrocytes in Alzheimer's disease. Neurobiol Dis 2022 May;166:105655. PMID: 35143967
  • Malcolm JR, Leese NK, Lamond-Warner PI, Brackenbury WJ et al. Widespread association of ERα with RMRP and tRNA genes in MCF-7 cells and breast cancers. Gene 2022 May 5;821:146280. PMID: 35143945
  • Pozzi A, Dowling DK et al. New Insights into Mitochondrial-Nuclear Interactions Revealed through Analysis of Small RNAs. Genome Biol Evol 2022 Feb 4;14(2). PMID: 35143645
  • Tschodu D, Ulm B, Bendrat K, Lippoldt J et al. Comparative analysis of molecular signatures reveals a hybrid approach in breast cancer: Combining the Nottingham Prognostic Index with gene expressions into a hybrid signature. PLoS One 2022;17(2):e0261035. PMID: 35143511
  • Contaxis N, Clark J, Dellureficio A, Gonzales S et al. Ten simple rules for improving research data discovery. PLoS Comput Biol 2022 Feb;18(2):e1009768. PMID: 35143479
  • Feng X, Xiao Y, He J, Yang M et al. Long noncoding RNA Gm31629 protects against mucosal damage in experimental colitis via YB-1/E2F pathway. JCI Insight 2022 Mar 22;7(6). PMID: 35143419
  • Xie B, Li K, Zhang H, Lai G et al. Identification and validation of an immune-related gene pairs signature for three urologic cancers. Aging (Albany NY) 2022 Feb 10;14(3):1429-1447. PMID: 35143414
  • Rhodes K, Barr KA, Popp JM, Strober BJ et al. Human embryoid bodies as a novel system for genomic studies of functionally diverse cell types. Elife 2022 Feb 10;11. PMID: 35142607
  • Bharthur Sanjay A, Patania A, Yan X, Svaldi D et al. Characterization of gene expression patterns in mild cognitive impairment using a transcriptomics approach and neuroimaging endophenotypes. Alzheimers Dement 2022 Dec;18(12):2493-2508. PMID: 35142026
  • Huang S, Huang F, Zhang H, Yang Y et al. In vivo development and single-cell transcriptome profiling of human brain organoids. Cell Prolif 2022 Mar;55(3):e13201. PMID: 35141969
  • Ke X, Zhang J, Huang X, Li S et al. Construction and Analysis of the lncRNA-miRNA-mRNA Network Based on Competing Endogenous RNA in Atrial Fibrillation. Front Cardiovasc Med 2022;9:791156. PMID: 35141302
  • Geng QS, Huang T, Li LF, Shen ZB et al. Over-Expression and Prognostic Significance of FN1, Correlating With Immune Infiltrates in Thyroid Cancer. Front Med (Lausanne) 2021;8:812278. PMID: 35141255
  • Shen J, Fu B, Wu Y, Yang Y et al. USP25 Expression in Peripheral Blood Mononuclear Cells Is Associated With Bone Mineral Density in Women. Front Cell Dev Biol 2021;9:811611. PMID: 35141233
  • Ouyang W, Jiang Y, Bu S, Tang T et al. A Prognostic Risk Score Based on Hypoxia-, Immunity-, and Epithelialto-Mesenchymal Transition-Related Genes for the Prognosis and Immunotherapy Response of Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:758777. PMID: 35141229
  • Wu M, Wei B, Duan SL, Liu M et al. Methylation-Driven Gene PLAU as a Potential Prognostic Marker for Differential Thyroid Carcinoma. Front Cell Dev Biol 2022;10:819484. PMID: 35141223
  • Wang Q, Dou S, Zhang B, Jiang H et al. Heterogeneity of human corneal endothelium implicates lncRNA NEAT1 in Fuchs endothelial corneal dystrophy. Mol Ther Nucleic Acids 2022 Mar 8;27:880-893. PMID: 35141048
  • Saxena S, Molczyk C, Purohit A, Ehrhorn E et al. Differential expression profile of CXC-receptor-2 ligands as potential biomarkers in pancreatic ductal adenocarcinoma. Am J Cancer Res 2022;12(1):68-90. PMID: 35141005
  • Liu R, Song P, Gu X, Liang W et al. Comprehensive Landscape of Immune Infiltration and Aberrant Pathway Activation in Ischemic Stroke. Front Immunol 2021;12:766724. PMID: 35140708
  • Liu J, Zhao J, Xu J, Sun Q et al. SPINK5 is a Prognostic Biomarker Associated With the Progression and Prognosis of Laryngeal Squamous Cell Carcinoma Identified by Weighted Gene Co-Expression Network Analysis. Evol Bioinform Online 2022;18:11769343221077118. PMID: 35140453
  • Reijns MAM, Parry DA, Williams TC, Nadeu F et al. Signatures of TOP1 transcription-associated mutagenesis in cancer and germline. Nature 2022 Feb;602(7898):623-631. PMID: 35140396
  • Yao K, Tong CY, Cheng C et al. A framework to predict the applicability of Oncotype DX, MammaPrint, and E2F4 gene signatures for improving breast cancer prognostic prediction. Sci Rep 2022 Feb 9;12(1):2211. PMID: 35140308
  • Shen SS, Nanda H, Aliferis C, Langlois RA et al. Characterization of influenza A virus induced transposons reveals a subgroup of transposons likely possessing the regulatory role as eRNAs. Sci Rep 2022 Feb 9;12(1):2188. PMID: 35140280
  • Reisle C, Williamson LM, Pleasance E, Davies A et al. A platform for oncogenomic reporting and interpretation. Nat Commun 2022 Feb 9;13(1):756. PMID: 35140225
  • Kriebel AR, Welch JD et al. UINMF performs mosaic integration of single-cell multi-omic datasets using nonnegative matrix factorization. Nat Commun 2022 Feb 9;13(1):780. PMID: 35140223
  • Abdelfattah N, Kumar P, Wang C, Leu JS et al. Single-cell analysis of human glioma and immune cells identifies S100A4 as an immunotherapy target. Nat Commun 2022 Feb 9;13(1):767. PMID: 35140215
  • Du M, Zou F, Li Y, Yan Y et al. Chemically Induced Chromosomal Interaction (CICI) method to study chromosome dynamics and its biological roles. Nat Commun 2022 Feb 9;13(1):757. PMID: 35140210
  • Kang D, Lee J, Jung J, Carlson BA et al. Selenophosphate synthetase 1 deficiency exacerbates osteoarthritis by dysregulating redox homeostasis. Nat Commun 2022 Feb 9;13(1):779. PMID: 35140209
  • Owens DDG, Anselmi G, Oudelaar AM, Downes DJ et al. Dynamic Runx1 chromatin boundaries affect gene expression in hematopoietic development. Nat Commun 2022 Feb 9;13(1):773. PMID: 35140205
  • Cheong JH, Wang SC, Park S, Porembka MR et al. Development and validation of a prognostic and predictive 32-gene signature for gastric cancer. Nat Commun 2022 Feb 9;13(1):774. PMID: 35140202
  • Salas LA, Zhang Z, Koestler DC, Butler RA et al. Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling. Nat Commun 2022 Feb 9;13(1):761. PMID: 35140201
  • Kidani Y, Nogami W, Yasumizu Y, Kawashima A et al. CCR8-targeted specific depletion of clonally expanded Treg cells in tumor tissues evokes potent tumor immunity with long-lasting memory. Proc Natl Acad Sci U S A 2022 Feb 15;119(7). PMID: 35140181
  • Yang L, He YT, Dong S, Wei XW et al. Single-cell transcriptome analysis revealed a suppressive tumor immune microenvironment in EGFR mutant lung adenocarcinoma. J Immunother Cancer 2022 Jan;10(2). PMID: 35140113
  • Marino N, German R, Podicheti R, Rusch DB et al. Aberrant epigenetic and transcriptional events associated with breast cancer risk. Clin Epigenetics 2022 Feb 9;14(1):21. PMID: 35139887
  • Jiao A, Sun C, Wang X, Lei L et al. DExD/H-box helicase 9 intrinsically controls CD8(+) T cell-mediated antiviral response through noncanonical mechanisms. Sci Adv 2022 Feb 11;8(6):eabk2691. PMID: 35138904
  • Li Y, Xiao X, Li J, Byun J et al. Genome-wide interaction analysis identified low-frequency variants with sex disparity in lung cancer risk. Hum Mol Genet 2022 Aug 23;31(16):2831-2843. PMID: 35138370
  • Shao X, Zhang X, Zhang R, Zhu R et al. The atlas of ACE2 expression in fetal and adult human hearts reveals the potential mechanism of heart-injured patients infected with SARS-CoV-2. Am J Physiol Cell Physiol 2022 Apr 1;322(4):C723-C738. PMID: 35138176
  • Van Winkle JA, Peterson ST, Kennedy EA, Wheadon MJ et al. Homeostatic interferon-lambda response to bacterial microbiota stimulates preemptive antiviral defense within discrete pockets of intestinal epithelium. Elife 2022 Feb 9;11. PMID: 35137688
  • Ahluwalia P, Mondal AK, Ahluwalia M, Sahajpal NS et al. Clinical and molecular assessment of an onco-immune signature with prognostic significance in patients with colorectal cancer. Cancer Med 2022 Mar;11(6):1573-1586. PMID: 35137551
  • Luan Y, Tang N, Yang J, Liu S et al. Deficiency of ribosomal proteins reshapes the transcriptional and translational landscape in human cells. Nucleic Acids Res 2022 Jul 8;50(12):6601-6617. PMID: 35137207
  • Ammunét T, Wang N, Khan S, Elo LL et al. Deep learning tools are top performers in long non-coding RNA prediction. Brief Funct Genomics 2022 May 21;21(3):230-241. PMID: 35136929
  • Haarhuis JHI, van der Weide RH, Blomen VA, Flach KD et al. A Mediator-cohesin axis controls heterochromatin domain formation. Nat Commun 2022 Feb 8;13(1):754. PMID: 35136067
  • Hu D, Cao Q, Tong M, Ji C et al. A novel defined risk signature based on pyroptosis-related genes can predict the prognosis of prostate cancer. BMC Med Genomics 2022 Feb 8;15(1):24. PMID: 35135561
  • Li W, Li X, Ma X, Xiao W et al. Mapping the m1A, m5C, m6A and m7G methylation atlas in zebrafish brain under hypoxic conditions by MeRIP-seq. BMC Genomics 2022 Feb 8;23(1):105. PMID: 35135476
  • Toker IA, Lev I, Mor Y, Gurevich Y et al. Transgenerational inheritance of sexual attractiveness via small RNAs enhances evolvability in C. elegans. Dev Cell 2022 Feb 7;57(3):298-309.e9. PMID: 35134343
  • Li J, Yang S, Yang X, Wu H et al. PlantGF: an analysis and annotation platform for plant gene families. Database (Oxford) 2022 Feb 2;2022. PMID: 35134149
  • Yates J, Boeva V et al. Deciphering the etiology and role in oncogenic transformation of the CpG island methylator phenotype: a pan-cancer analysis. Brief Bioinform 2022 Mar 10;23(2). PMID: 35134107
  • Sona C, Yeh YT, Patsalos A, Halasz L et al. Evidence of islet CADM1-mediated immune cell interactions during human type 1 diabetes. JCI Insight 2022 Mar 22;7(6). PMID: 35133983
  • Liang J, Huang X, Li W, Hu Y et al. Identification and external validation of the hub genes associated with cardiorenal syndrome through time-series and network analyses. Aging (Albany NY) 2022 Feb 8;14(3):1351-1373. PMID: 35133974
  • Huang X, Huang Z, Wei Z, Feng Y et al. Transcriptome Comparison of Brain and Kidney Endothelial Cells in Homeostasis. Biomed Res Int 2022;2022:5239255. PMID: 35132377
  • Li Y, Li L, Zhao H, Gao X et al. Identifying Obstructive Sleep Apnea Syndrome-Associated Genes and Pathways through Weighted Gene Coexpression Network Analysis. Comput Math Methods Med 2022;2022:3993509. PMID: 35132330
  • Noack F, Vangelisti S, Raffl G, Carido M et al. Multimodal profiling of the transcriptional regulatory landscape of the developing mouse cortex identifies Neurog2 as a key epigenome remodeler. Nat Neurosci 2022 Feb;25(2):154-167. PMID: 35132236
  • Tanizaki Y, Zhang H, Shibata Y, Shi YB et al. Thyroid hormone receptor α controls larval intestinal epithelial cell death by regulating the CDK1 pathway. Commun Biol 2022 Feb 7;5(1):112. PMID: 35132135
  • Salgado-Albarrán M, Späth J, González-Barrios R, Baumbach J et al. CTCFL regulates the PI3K-Akt pathway and it is a target for personalized ovarian cancer therapy. NPJ Syst Biol Appl 2022 Feb 7;8(1):5. PMID: 35132075
  • Patel NM, Oliveira FRMB, Ramos HP, Aimaretti E et al. Inhibition of Bruton's Tyrosine Kinase Activity Attenuates Hemorrhagic Shock-Induced Multiple Organ Dysfunction in Rats. Ann Surg 2023 Mar 1;277(3):e624-e633. PMID: 35129479
  • Causier B, Hopes T, McKay M, Paling Z et al. Plants utilise ancient conserved peptide upstream open reading frames in stress-responsive translational regulation. Plant Cell Environ 2022 Apr;45(4):1229-1241. PMID: 35128674
  • Chang CS, Yu WH, Su CC, Ruan JW et al. Single-cell RNA sequencing uncovers the individual alteration of intestinal mucosal immunocytes in Dusp6 knockout mice. iScience 2022 Feb 18;25(2):103738. PMID: 35128351
  • Wan Y, Song Y, Chen J, Kong J et al. Upregulated Fibulin-1 Increased Endometrial Stromal Cell Viability and Migration by Repressing EFEMP1-Dependent Ferroptosis in Endometriosis. Biomed Res Int 2022;2022:4809415. PMID: 35127942
  • Islam MR, Abdulrazak LF, Alam MK, Paul BK et al. Identification of Potential Key Genes and Molecular Mechanisms of Medulloblastoma Based on Integrated Bioinformatics Approach. Biomed Res Int 2022;2022:1776082. PMID: 35127939
  • Tanaka T, Asano T, Okui T, Kuraoka S et al. Computational Screening Strategy for Drug Repurposing Identified Niclosamide as Inhibitor of Vascular Calcification. Front Cardiovasc Med 2021;8:826529. PMID: 35127876
  • Song Y, Du Y, Qin C, Liang H et al. Gemcitabine-Resistant Biomarkers in Bladder Cancer are Associated with Tumor-Immune Microenvironment. Front Cell Dev Biol 2021;9:809620. PMID: 35127724
  • Chen Y, Zhao Y, Lu R, Zhao H et al. Identification and Validation of a Novel Genomic Instability-Associated Long Non-Coding RNA Prognostic Signature in Head and Neck Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:787766. PMID: 35127708
  • Iyyanar PPR, Wu Z, Lan Y, Hu YC et al. Alx1 Deficient Mice Recapitulate Craniofacial Phenotype and Reveal Developmental Basis of ALX1-Related Frontonasal Dysplasia. Front Cell Dev Biol 2022;10:777887. PMID: 35127681
  • White LA, Bisom TC, Grimes HL, Hayashi M et al. Tra2beta-Dependent Regulation of RIO Kinase 3 Splicing During Rift Valley Fever Virus Infection Underscores the Links Between Alternative Splicing and Innate Antiviral Immunity. Front Cell Infect Microbiol 2021;11:799024. PMID: 35127560
  • Srivastava A, Sharma H, Khanna S, Sadhu Balasundaram T et al. Interleukin-6 Induced Proliferation Is Attenuated by Transforming Growth Factor-β-Induced Signaling in Human Hepatocellular Carcinoma Cells. Front Oncol 2021;11:811941. PMID: 35127527
  • Endo I, Amatya VJ, Kushitani K, Kambara T et al. Insulin-Like Growth Factor 2 mRNA Binding Protein 3 Promotes Cell Proliferation of Malignant Mesothelioma Cells by Downregulating p27(Kip1). Front Oncol 2021;11:795467. PMID: 35127504
  • Cai Q, Zhu M, Duan J, Wang H et al. Comprehensive Analysis of Immune-Related Prognosis of TK1 in Hepatocellular Carcinoma. Front Oncol 2021;11:786873. PMID: 35127491
  • Lin S, Gu S, Qian S, Liu Y et al. Genome-Wide Methylation Profiling of lncRNAs Reveals a Novel Progression-Related and Prognostic Marker for Colorectal Cancer. Front Oncol 2021;11:782077. PMID: 35127488
  • Mai Z, Chen H, Huang M, Zhao X et al. A Robust Metabolic Enzyme-Based Prognostic Signature for Head and Neck Squamous Cell Carcinoma. Front Oncol 2021;11:770241. PMID: 35127477
  • Gao J, Wu Z, Zhao M, Zhang R et al. Allosteric inhibition reveals SHP2-mediated tumor immunosuppression in colon cancer by single-cell transcriptomics. Acta Pharm Sin B 2022 Jan;12(1):149-166. PMID: 35127377
  • Yu Y, Sun X, Chen F, Liu M et al. Genetic Alteration, Prognostic and Immunological Role of Acyl-CoA Synthetase Long-Chain Family Member 4 in a Pan-Cancer Analysis. Front Genet 2022;13:812674. PMID: 35126480
  • Yan Y, He W, Chen Y, Li Q et al. Comprehensive Analysis to Identify the Encoded Gens of Sodium Channels as a Prognostic Biomarker in Hepatocellular Carcinoma. Front Genet 2021;12:802067. PMID: 35126466
  • Fukui A, Matsunami M et al. Gene Structure Analysis of Chemokines and Their Receptors in Allotetraploid Frog, Xenopus laevis. Front Genet 2021;12:787979. PMID: 35126458
  • Ojeda-Martinez D, Diaz I, Santamaria ME et al. Transcriptomic Landscape of Herbivore Oviposition in Arabidopsis: A Systematic Review. Front Plant Sci 2021;12:772492. PMID: 35126411
  • Aune TM, Tossberg JT, Heinrich RM, Porter KP et al. Alu RNA Structural Features Modulate Immune Cell Activation and A-to-I Editing of Alu RNAs Is Diminished in Human Inflammatory Bowel Disease. Front Immunol 2022;13:818023. PMID: 35126398
  • Zhu X, Li S, Luo J, Ying X et al. Subtyping of Human Papillomavirus-Positive Cervical Cancers Based on the Expression Profiles of 50 Genes. Front Immunol 2022;13:801639. PMID: 35126391
  • Xue J, Huang Y, Zhang H, Hu J et al. Arginine GlcNAcylation and Activity Regulation of PhoP by a Type III Secretion System Effector in Salmonella. Front Microbiol 2021;12:825743. PMID: 35126337
  • Zhu K, Cheng X, Wang S, Zhang H et al. PBK/TOPK Inhibitor Suppresses the Progression of Prolactinomas. Front Endocrinol (Lausanne) 2021;12:706909. PMID: 35126305
  • Li H, Wu H, Li W, Zhou J et al. Constructing a Multiple Sclerosis Diagnosis Model Based on Microarray. Front Neurol 2021;12:721788. PMID: 35126277
  • He X, Hu Y, Liu W, Zhu G et al. Deciphering the Effective Constituents and Mechanisms of Portulaca oleracea L. for Treating NASH via Integrating Bioinformatics Analysis and Experimental Pharmacology. Front Pharmacol 2021;12:818227. PMID: 35126150
  • Long H, Reeves R, Simon MM et al. Mouse genomic and cellular annotations. Mamm Genome 2022 Mar;33(1):19-30. PMID: 35124726
  • Zhuang X, Chen B, Huang S, Han J et al. Hypermethylation of miR-145 promoter-mediated SOX9-CLDN8 pathway regulates intestinal mucosal barrier in Crohn's disease. EBioMedicine 2022 Feb;76:103846. PMID: 35124427
  • Kong J, Yu G, Si W, Li G et al. Identification of a glycolysis-related gene signature for predicting prognosis in patients with hepatocellular carcinoma. BMC Cancer 2022 Feb 5;22(1):142. PMID: 35123420
  • Huang J, Ru G, Sun J, Sun L et al. Elevated RIF1 participates in the epigenetic abnormalities of zygotes by regulating histone modifications on MuERV-L in obese mice. Mol Med 2022 Feb 5;28(1):17. PMID: 35123389
  • Deng M, Sun S, Zhao R, Guan R et al. The pyroptosis-related gene signature predicts prognosis and indicates immune activity in hepatocellular carcinoma. Mol Med 2022 Feb 5;28(1):16. PMID: 35123387
  • Jia Y, Liu Y, Zhu J, Liu L et al. DEC1 promotes progression of Helicobacter pylori-positive gastric cancer by regulating Akt/NF-κB pathway. J Cell Mol Med 2022 Apr;26(7):1943-1954. PMID: 35122398
  • Lopez-Bujanda ZA, Haffner MC, Chaimowitz MG, Chowdhury N et al. Castration-mediated IL-8 promotes myeloid infiltration and prostate cancer progression. Nat Cancer 2021 Aug;2(8):803-818. PMID: 35122025
  • Hu Z, Yuan J, Long M, Jiang J et al. The Cancer Surfaceome Atlas integrates genomic, functional and drug response data to identify actionable targets. Nat Cancer 2021 Dec;2(12):1406-1422. PMID: 35121907
  • Bhattacharya A, Freedman AN, Avula V, Harris R et al. Placental genomics mediates genetic associations with complex health traits and disease. Nat Commun 2022 Feb 4;13(1):706. PMID: 35121757
  • Wolpaw AJ, Grossmann LD, Dessau JL, Dong MM et al. Epigenetic state determines inflammatory sensing in neuroblastoma. Proc Natl Acad Sci U S A 2022 Feb 8;119(6). PMID: 35121657
  • Guo C, Li H, Pan N, Xu S et al. Identification of prognostic signature with seven LncRNAs for papillary thyroid carcinoma. Adv Med Sci 2022 Mar;67(1):103-113. PMID: 35121283
  • Erkal B, Vural Korkut S et al. Identification of miRNAs and their potential effects on multiple sclerosis related pathways using ın silico analysis. Mult Scler Relat Disord 2022 Mar;59:103642. PMID: 35121245
  • Lei C, Kan H, Chen W, Yang D et al. Different gene co-expression patterns of aortic intima-media and adventitia in thoracic aortic aneurysm. Gene 2022 Apr 20;819:146233. PMID: 35121027
  • Kerk SY, Bai Y, Smith J, Lalgudi P et al. Homozygous ALS-linked FUS P525L mutations cell- autonomously perturb transcriptome profile and chemoreceptor signaling in human iPSC microglia. Stem Cell Reports 2022 Mar 8;17(3):678-692. PMID: 35120624
  • Vancamp P, Le Blay K, Butruille L, Sébillot A et al. Developmental thyroid disruption permanently affects the neuroglial output in the murine subventricular zone. Stem Cell Reports 2022 Mar 8;17(3):459-474. PMID: 35120623
  • Katsanos D, Barkoulas M et al. Targeted DamID in C. elegans reveals a direct role for LIN-22 and NHR-25 in antagonizing the epidermal stem cell fate. Sci Adv 2022 Feb 4;8(5):eabk3141. PMID: 35119932
  • Rawle DJ, Le TT, Dumenil T, Bishop C et al. Widespread discrepancy in Nnt genotypes and genetic backgrounds complicates granzyme A and other knockout mouse studies. Elife 2022 Feb 4;11. PMID: 35119362
  • Chan M, Yuan H, Soifer I, Maile TM et al. Novel insights from a multiomics dissection of the Hayflick limit. Elife 2022 Feb 4;11. PMID: 35119359
  • Shi W, Zhang X, Xu C, Pang R et al. Identification of Hub Genes and Pathways Associated with Oxidative Stress of Cartilage in Osteonecrosis of Femoral Head Using Bioinformatics Analysis. Cartilage 2022 Jan-Mar;13(1):19476035221074000. PMID: 35118903
  • Huang L, Songyang Z, Dai Z, Xiong Y et al. Field cancerization profile-based prognosis signatures lead to more robust risk evaluation in hepatocellular carcinoma. iScience 2022 Feb 18;25(2):103747. PMID: 35118360
  • Thakur C, Tripathi A, Ravichandran S, Shivananjaiah A et al. A new blood-based RNA signature (R(9)), for monitoring effectiveness of tuberculosis treatment in a South Indian longitudinal cohort. iScience 2022 Feb 18;25(2):103745. PMID: 35118358
  • Yuan J, Liu T, Zhang Y et al. An Iron Metabolism-Related Gene Signature for the Prognosis of Colon Cancer. Front Cell Dev Biol 2021;9:786684. PMID: 35118074
  • Lyu L, Li H, Chen C, Yu Y et al. Exosomal miRNA Profiling is a Potential Screening Route for Non-Functional Pituitary Adenoma. Front Cell Dev Biol 2021;9:771354. PMID: 35118066
  • Wang LJ, Lv P, Lou Y, Ye J et al. Gene Expression-Based Predication of RNA Pseudouridine Modification in Tumor Microenvironment and Prognosis of Glioma Patients. Front Cell Dev Biol 2021;9:727595. PMID: 35118063
  • Jia E, Ren N, Zhang R, Zhou C et al. Circulating miR-17 as a promising diagnostic biomarker for lung adenocarcinoma: evidence from the Gene Expression Omnibus. Transl Cancer Res 2020 Sep;9(9):5544-5554. PMID: 35117918
  • Wang Z, Jiang X, Li Q, Jin Y et al. Integrated analysis identifies low microRNA-215 expression as associated with a poor prognosis of patients with colorectal cancer through the IKβ-α signaling pathway. Transl Cancer Res 2020 Sep;9(9):5233-5244. PMID: 35117890
  • Liu Y, Yang M, Sun W, Zhang M et al. Developing prognostic gene panel of survival time in lung adenocarcinoma patients using machine learning. Transl Cancer Res 2020 Jun;9(6):3860-3869. PMID: 35117753
  • Wang Y, Liang HX, Zhang CM, Zou M et al. FOXO3/TRIM22 axis abated the antitumor effect of gemcitabine in non-small cell lung cancer via autophagy induction. Transl Cancer Res 2020 Feb;9(2):937-948. PMID: 35117439
  • Dong B, Chai M, Chen H, Feng Q et al. Screening and verifying key genes with poor prognosis in colon cancer through bioinformatics analysis. Transl Cancer Res 2020 Nov;9(11):6720-6732. PMID: 35117282
  • Gong W, Dai W, Wei H, Chen Y et al. ZC3H12D is a prognostic biomarker associated with immune cell infiltration in lung adenocarcinoma. Transl Cancer Res 2020 Oct;9(10):6128-6142. PMID: 35117224
  • Liu X, Xing C et al. PDZRN4-mediated colon cancer cell proliferation and dissemination is regulated by miR-221-3p. Transl Cancer Res 2019 Aug;8(4):1289-1300. PMID: 35116871
  • Peng P, Zhang W, Cao D, Yang J et al. The proteomic comparison of peripheral circulation-derived exosomes from the epithelial ovarian carcinoma (EOC) patients and non-EOC subjects. Transl Cancer Res 2019 Apr;8(2):452-465. PMID: 35116777
  • Chen Q, Wang X, Hu J et al. Systematically integrative analysis identifies diagnostic and prognostic candidates and small-molecule drugs for lung adenocarcinoma. Transl Cancer Res 2021 Aug;10(8):3619-3646. PMID: 35116665
  • Xie E, Lin M, Sun Z, Jin Y et al. Serum miR-27a is a biomarker for the prognosis of non-small cell lung cancer patients receiving chemotherapy. Transl Cancer Res 2021 Jul;10(7):3458-3469. PMID: 35116650
  • Wang J, Zhang C, Chen X, Li Y et al. Functions of CXC chemokines as biomarkers and potential therapeutic targets in the hepatocellular carcinoma microenvironment. Transl Cancer Res 2021 May;10(5):2169-2187. PMID: 35116536
  • Chen X, Wang R, Xu T, Zhang Y et al. Identification of candidate genes associated with papillary thyroid carcinoma pathogenesis and progression by weighted gene co-expression network analysis. Transl Cancer Res 2021 Feb;10(2):694-713. PMID: 35116402
  • Li H, Wang Z, Liang S, Liu Q et al. Radiation induces epithelial to mesenchymal transition via upregulation of PD-L1 in nasopharyngeal carcinoma cell. Transl Cancer Res 2021 Jan;10(1):372-381. PMID: 35116267
  • Wang J, Zhang Z, Liang C, Lv T et al. Targeting Myadm to Intervene Pulmonary Hypertension on Rats Before Pregnancy Alleviates the Effect on Their Offspring's Cardiac-Cerebral Systems. Front Pharmacol 2021;12:791370. PMID: 35115938
  • Yang H, Zhang H, Luan Y, Liu T et al. Noncoding genetic variation in GATA3 increases acute lymphoblastic leukemia risk through local and global changes in chromatin conformation. Nat Genet 2022 Feb;54(2):170-179. PMID: 35115686
  • Desquilles L, Cano L, Ghukasyan G, Mouchet N et al. Well-differentiated liver cancers reveal the potential link between ACE2 dysfunction and metabolic breakdown. Sci Rep 2022 Feb 3;12(1):1859. PMID: 35115564
  • Wu J, Feng Z, Chen L, Li Y et al. TNF antagonist sensitizes synovial fibroblasts to ferroptotic cell death in collagen-induced arthritis mouse models. Nat Commun 2022 Feb 3;13(1):676. PMID: 35115492
  • Geron I, Savino AM, Fishman H, Tal N et al. An instructive role for Interleukin-7 receptor α in the development of human B-cell precursor leukemia. Nat Commun 2022 Feb 3;13(1):659. PMID: 35115489
  • Cugusi S, Mitter R, Kelly GP, Walker J et al. Heat shock induces premature transcript termination and reconfigures the human transcriptome. Mol Cell 2022 Apr 21;82(8):1573-1588.e10. PMID: 35114099
  • Smith R, Susor A, Ming H, Tait J et al. The H3.3 chaperone Hira complex orchestrates oocyte developmental competence. Development 2022 Mar 1;149(5). PMID: 35112132
  • Zhang HP, Wu J, Liu ZF, Gao JW et al. SPARCL1 Is a Novel Prognostic Biomarker and Correlates with Tumor Microenvironment in Colorectal Cancer. Biomed Res Int 2022;2022:1398268. PMID: 35111844
  • Li D, Yu T, Han J, Xu X et al. Prognostic Value and Immunological Role of KIFC1 in Hepatocellular Carcinoma. Front Mol Biosci 2021;8:799651. PMID: 35111813
  • Kou F, Cheng Y, Shi L, Liu J et al. LCN2 as a Potential Diagnostic Biomarker for Ulcerative Colitis-Associated Carcinogenesis Related to Disease Duration. Front Oncol 2021;11:793760. PMID: 35111677
  • Zhang L, Pan J, Wang Z, Yang C et al. Multi-Omics Profiling Suggesting Intratumoral Mast Cells as Predictive Index of Breast Cancer Lung Metastasis. Front Oncol 2021;11:788778. PMID: 35111673
  • Dong Y, Liu X, Jiang B, Wei S et al. A Genome-Wide Investigation of Effects of Aberrant DNA Methylation on the Usage of Alternative Promoters in Hepatocellular Carcinoma. Front Oncol 2021;11:780266. PMID: 35111672
  • Zhang M, Zhou Z, Liu Z, Liu F et al. Exploring the potential biomarkers for prognosis of glioblastoma via weighted gene co-expression network analysis. PeerJ 2022;10:e12768. PMID: 35111402
  • Tang Y, Wu Y, Xue M, Zhu B et al. A 10-Gene Signature Identified by Machine Learning for Predicting the Response to Transarterial Chemoembolization in Patients with Hepatocellular Carcinoma. J Oncol 2022;2022:3822773. PMID: 35111225
  • Liu B, Ma X, Ha W et al. Identification of Potential Prognostic Biomarkers Associated With Macrophage M2 Infiltration in Gastric Cancer. Front Genet 2021;12:827444. PMID: 35111208
  • Xia W, Chen H, Feng Y, Shi N et al. Tree Shrew Is a Suitable Animal Model for the Study of Epstein Barr Virus. Front Immunol 2021;12:789604. PMID: 35111158
  • Li Y, Mi P, Wu J, Tang Y et al. High Throughput scRNA-Seq Provides Insights Into Leydig Cell Senescence Induced by Experimental Autoimmune Orchitis: A Prominent Role of Interstitial Fibrosis and Complement Activation. Front Immunol 2021;12:771373. PMID: 35111154
  • Junghof J, Kogure Y, Yu T, Verdugo-Sivianes EM et al. CDH18 is a fetal epicardial biomarker regulating differentiation towards vascular smooth muscle cells. NPJ Regen Med 2022 Feb 2;7(1):14. PMID: 35110584
  • Jiang C, He J, Xu S, Wang Q et al. NR4A1 promotes LEF1 expression in the pathogenesis of papillary thyroid cancer. Cell Death Discov 2022 Feb 2;8(1):46. PMID: 35110542
  • Deng M, Chen B, Liu Z, Wan Y et al. YBX1 mediates alternative splicing and maternal mRNA decay during pre-implantation development. Cell Biosci 2022 Feb 2;12(1):12. PMID: 35109938
  • Packeiser EM, Taher L, Kong W, Ernst M et al. RNA-seq of nine canine prostate cancer cell lines reveals diverse therapeutic target signatures. Cancer Cell Int 2022 Feb 2;22(1):54. PMID: 35109825
  • Liu F, Li X, Yan H, Wu J et al. Downregulation of CPT2 promotes proliferation and inhibits apoptosis through p53 pathway in colorectal cancer. Cell Signal 2022 Apr;92:110267. PMID: 35108639
  • Mapps AA, Thomsen MB, Boehm E, Zhao H et al. Diversity of satellite glia in sympathetic and sensory ganglia. Cell Rep 2022 Feb 1;38(5):110328. PMID: 35108545
  • Osokine I, Siewiera J, Rideaux D, Ma S et al. Gene silencing by EZH2 suppresses TGF-β activity within the decidua to avert pregnancy-adverse wound healing at the maternal-fetal interface. Cell Rep 2022 Feb 1;38(5):110329. PMID: 35108527
  • Korunes KL, Liu J, Huang R, Xia M et al. A gene expression biomarker for predictive toxicology to identify chemical modulators of NF-κB. PLoS One 2022;17(2):e0261854. PMID: 35108274
  • Tang H, Yu X, Liu R, Zeng T et al. Vec2image: an explainable artificial intelligence model for the feature representation and classification of high-dimensional biological data by vector-to-image conversion. Brief Bioinform 2022 Mar 10;23(2). PMID: 35106553
  • Douglass EF Jr, Allaway RJ, Szalai B, Wang W et al. A community challenge for a pancancer drug mechanism of action inference from perturbational profile data. Cell Rep Med 2022 Jan 18;3(1):100492. PMID: 35106508
  • Miyata H, Toyoda Y, Takada T, Hiragi T et al. Identification of an exporter that regulates vitamin C supply from blood to the brain. iScience 2022 Jan 21;25(1):103642. PMID: 35106468
  • Noviello C, Kobon K, Delivry L, Guilbert T et al. RhoA within myofibers controls satellite cell microenvironment to allow hypertrophic growth. iScience 2022 Jan 21;25(1):103616. PMID: 35106464
  • Barrett JE, Jones A, Evans I, Reisel D et al. The DNA methylome of cervical cells can predict the presence of ovarian cancer. Nat Commun 2022 Feb 1;13(1):448. PMID: 35105887
  • Barrett JE, Herzog C, Jones A, Leavy OC et al. The WID-BC-index identifies women with primary poor prognostic breast cancer based on DNA methylation in cervical samples. Nat Commun 2022 Feb 1;13(1):449. PMID: 35105882
  • Johnson TS, Yu CY, Huang Z, Xu S et al. Diagnostic Evidence GAuge of Single cells (DEGAS): a flexible deep transfer learning framework for prioritizing cells in relation to disease. Genome Med 2022 Feb 1;14(1):11. PMID: 35105355
  • Luo Y, He Z, Liu W, Zhou F et al. DTL Is a Prognostic Biomarker and Promotes Bladder Cancer Progression through Regulating the AKT/mTOR axis. Oxid Med Cell Longev 2022;2022:3369858. PMID: 35103094
  • Kamasako T, Kaga K, Inoue KI, Hariyama M et al. Supervised machine learning algorithm identified KRT20, BATF and TP63 as biologically relevant biomarkers for bladder biopsy specimens from interstitial cystitis/bladder pain syndrome patients. Int J Urol 2022 May;29(5):406-412. PMID: 35102612
  • Zhang F, Deng Y, Wang D, Wang S et al. Construction and validation of a pyroptosis-related gene signature associated with the tumor microenvironment in uveal melanoma. Sci Rep 2022 Jan 31;12(1):1640. PMID: 35102195
  • Siddaway R, Milos S, Vadivel AKA, Dobson THW et al. Splicing is an alternate oncogenic pathway activation mechanism in glioma. Nat Commun 2022 Jan 31;13(1):588. PMID: 35102191
  • Lee C, Kim J, Han J, Oh D et al. Formyl peptide receptor 2 determines sex-specific differences in the progression of nonalcoholic fatty liver disease and steatohepatitis. Nat Commun 2022 Jan 31;13(1):578. PMID: 35102146
  • Wang Y, Pan Y, Wu J, Luo Y et al. A Novel Predictive Model Incorporating Ferroptosis-Related Gene Signatures for Overall Survival in Patients with Lung Adenocarcinoma. Med Sci Monit 2022 Feb 1;28:e934050. PMID: 35102130
  • Makino K, Long MD, Kajihara R, Matsueda S et al. Generation of cDC-like cells from human induced pluripotent stem cells via Notch signaling. J Immunother Cancer 2022 Jan;10(1). PMID: 35101945
  • Miao Y, Chen Y, Xue F, Liu K et al. Contribution of ferroptosis and GPX4's dual functions to osteoarthritis progression. EBioMedicine 2022 Feb;76:103847. PMID: 35101656
  • Ma X, Mo M, Tan C, Tan JHJ et al. Liver-specific LINC01146, a promising prognostic indicator, inhibits the malignant phenotype of hepatocellular carcinoma cells both in vitro and in vivo. J Transl Med 2022 Jan 31;20(1):57. PMID: 35101062
  • Zheng SC, Stein-O'Brien G, Augustin JJ, Slosberg J et al. Universal prediction of cell-cycle position using transfer learning. Genome Biol 2022 Jan 31;23(1):41. PMID: 35101061
  • Hait TA, Elkon R, Shamir R et al. CT-FOCS: a novel method for inferring cell type-specific enhancer-promoter maps. Nucleic Acids Res 2022 Jun 10;50(10):e55. PMID: 35100425
  • St Germain CP, Zhao H, Sinha V, Sanz LA et al. Genomic patterns of transcription-replication interactions in mouse primary B cells. Nucleic Acids Res 2022 Feb 28;50(4):2051-2073. PMID: 35100392
  • Izgi H, Han D, Isildak U, Huang S et al. Inter-tissue convergence of gene expression during ageing suggests age-related loss of tissue and cellular identity. Elife 2022 Jan 31;11. PMID: 35098922
  • Wang LN, Wang L, Cheng G, Dai M et al. The association of telomere maintenance and TERT expression with susceptibility to human papillomavirus infection in cervical epithelium. Cell Mol Life Sci 2022 Jan 31;79(2):110. PMID: 35098380
  • Chu X, Wang J et al. Dynamics and Pathways of Chromosome Structural Organizations during Cell Transdifferentiation. JACS Au 2022 Jan 24;2(1):116-127. PMID: 35098228
  • Walker RE, Ma L, Li C, Ying Y et al. TRB3 Deletion Has a Limited Effect on Milk Fat Synthesis and Milk Fat Depression in C57BL/6N Mice. Curr Dev Nutr 2022 Jan;6(1):nzab142. PMID: 35098004
  • Zhao L, Lv F, Zheng Y, Yan L et al. Characterization of an Aging-Based Diagnostic Gene Signature and Molecular Subtypes With Diverse Immune Infiltrations in Atherosclerosis. Front Mol Biosci 2021;8:792540. PMID: 35096968
  • Ma B, Liu Z, Xu H, Liu L et al. Molecular Characterization and Clinical Relevance of ALDH2 in Human Cancers. Front Med (Lausanne) 2021;8:832605. PMID: 35096916
  • Chen T, He Q, Xiang Z, Dou R et al. Identification and Validation of Key Genes of Differential Correlations in Gastric Cancer. Front Cell Dev Biol 2021;9:801687. PMID: 35096829
  • Xie J, Zou Y, Ye F, Zhao W et al. A Novel Platelet-Related Gene Signature for Predicting the Prognosis of Triple-Negative Breast Cancer. Front Cell Dev Biol 2021;9:795600. PMID: 35096824
  • Yao C, Weng J, Feng L, Zhang W et al. SIPA1 Enhances Aerobic Glycolysis Through HIF-2α Pathway to Promote Breast Cancer Metastasis. Front Cell Dev Biol 2021;9:779169. PMID: 35096814
  • Shen A, Liu L, Huang Y, Shen Z et al. Down-Regulating HAUS6 Suppresses Cell Proliferation by Activating the p53/p21 Pathway in Colorectal Cancer. Front Cell Dev Biol 2021;9:772077. PMID: 35096810
  • Hajjaji N, Aboulouard S, Cardon T, Bertin D et al. Path to Clonal Theranostics in Luminal Breast Cancers. Front Oncol 2021;11:802177. PMID: 35096604
  • Jia X, Chen B, Li Z, Huang S et al. Identification of a Four-Gene-Based SERM Signature for Prognostic and Drug Sensitivity Prediction in Gastric Cancer. Front Oncol 2021;11:799223. PMID: 35096599
  • Wang L, Zeng D, Wang Q, Liu L et al. Screening and Identification of Novel Potential Biomarkers for Breast Cancer Brain Metastases. Front Oncol 2021;11:784096. PMID: 35096583
  • He ZX, Zhao SB, Fang X, E JF et al. Prognostic and Predictive Value of BGN in Colon Cancer Outcomes and Response to Immunotherapy. Front Oncol 2021;11:761030. PMID: 35096572
  • Peng WS, Zhou X, Yan WB, Li YJ et al. Dissecting the heterogeneity of the microenvironment in primary and recurrent nasopharyngeal carcinomas using single-cell RNA sequencing. Oncoimmunology 2022;11(1):2026583. PMID: 35096485
  • Zhou Z, Bai J, Zhong S, Zhang R et al. Downregulation of PIK3CB Involved in Alzheimer's Disease via Apoptosis, Axon Guidance, and FoxO Signaling Pathway. Oxid Med Cell Longev 2022;2022:1260161. PMID: 35096262
  • Blackmur JP, Vaughan-Shaw PG, Donnelly K, Harris BT et al. Gene Co-Expression Network Analysis Identifies Vitamin D-Associated Gene Modules in Adult Normal Rectal Epithelium Following Supplementation. Front Genet 2021;12:783970. PMID: 35096006
  • Chen X, Wu D et al. Comprehensive Analysis of Hub Genes Associated With Competing Endogenous RNA Networks in Stroke Using Bioinformatics Analysis. Front Genet 2021;12:779923. PMID: 35096003
  • Liu C, Huang Y, Cui Y, Zhou J et al. The Immunological Role of CDK4/6 and Potential Mechanism Exploration in Ovarian Cancer. Front Immunol 2021;12:799171. PMID: 35095879
  • Henriques-Pons A, Beghini DG, Silva VDS, Iwao Horita S et al. Pulmonary Mesenchymal Stem Cells in Mild Cases of COVID-19 Are Dedicated to Proliferation; In Severe Cases, They Control Inflammation, Make Cell Dispersion, and Tissue Regeneration. Front Immunol 2021;12:780900. PMID: 35095855
  • Juchem KW, Gounder AP, Gao JP, Seccareccia E et al. NFAM1 Promotes Pro-Inflammatory Cytokine Production in Mouse and Human Monocytes. Front Immunol 2021;12:773445. PMID: 35095847
  • Deng YX, He WG, Cai HJ, Jiang JH et al. Analysis and Validation of Hub Genes in Blood Monocytes of Postmenopausal Osteoporosis Patients. Front Endocrinol (Lausanne) 2021;12:815245. PMID: 35095774
  • Zhang B, Wang G, Huang CB, Zhu JN et al. Exploration of the Role of Serine Proteinase Inhibitor A3 in Alcohol Dependence Using Gene Expression Omnibus Database. Front Psychiatry 2021;12:779143. PMID: 35095596
  • Yang J, Hai J, Dong X, Zhang M et al. MicroRNA-92a-3p Enhances Cisplatin Resistance by Regulating Krüppel-Like Factor 4-Mediated Cell Apoptosis and Epithelial-to-Mesenchymal Transition in Cervical Cancer. Front Pharmacol 2021;12:783213. PMID: 35095494
  • Niu M, Zhang B, Li L, Su Z et al. Targeting HSP90 Inhibits Proliferation and Induces Apoptosis Through AKT1/ERK Pathway in Lung Cancer. Front Pharmacol 2021;12:724192. PMID: 35095481
  • He X, Cheng X, Ding J, Xiong M et al. Hyperglycemia induces miR-26-5p down-regulation to overexpress PFKFB3 and accelerate epithelial-mesenchymal transition in gastric cancer. Bioengineered 2022 Feb;13(2):2902-2917. PMID: 35094634
  • Cheng Y, Kang XZ, Cheng T, Ye ZW et al. FACI Is a Novel CREB-H-Induced Protein That Inhibits Intestinal Lipid Absorption and Reverses Diet-Induced Obesity. Cell Mol Gastroenterol Hepatol 2022;13(5):1365-1391. PMID: 35093589
  • Brozowski JM, Timoshchenko RG, Serafin DS, Allyn B et al. G protein-coupled receptor kinase 3 modulates mesenchymal stem cell proliferation and differentiation through sphingosine-1-phosphate receptor regulation. Stem Cell Res Ther 2022 Jan 29;13(1):37. PMID: 35093170
  • Li L, Li WJ, Zheng XR, Liu QL et al. Eriodictyol ameliorates cognitive dysfunction in APP/PS1 mice by inhibiting ferroptosis via vitamin D receptor-mediated Nrf2 activation. Mol Med 2022 Jan 29;28(1):11. PMID: 35093024
  • Xie Y, Li J, Suo Y, Li Y et al. Downregulation of miR-3680-3p inhibits the progression of osteoarthritis via targeting OGG1. Arch Gerontol Geriatr 2022 May-Jun;100:104626. PMID: 35092863
  • You B, Zhang P, Gu M, Yin H et al. Let-7i-5p promotes a malignant phenotype in nasopharyngeal carcinoma via inhibiting tumor-suppressive autophagy. Cancer Lett 2022 Apr 10;531:14-26. PMID: 35092862
  • He L, Lv S, Ma X, Jiang S et al. ErbB2 promotes breast cancer metastatic potential via HSF1/LDHA axis-mediated glycolysis. Med Oncol 2022 Jan 29;39(4):45. PMID: 35092510
  • Garcia P, Jürgens-Wemheuer W, Uriarte Huarte O, Michelucci A et al. Neurodegeneration and neuroinflammation are linked, but independent of alpha-synuclein inclusions, in a seeding/spreading mouse model of Parkinson's disease. Glia 2022 May;70(5):935-960. PMID: 35092321
  • Schultz IC, Bertoni APS, Wink MR et al. Purinergic signaling elements are correlated with coagulation players in peripheral blood and leukocyte samples from COVID-19 patients. J Mol Med (Berl) 2022 Apr;100(4):569-584. PMID: 35091759
  • Long HS, Greenaway S, Powell G, Mallon AM et al. Making sense of the linear genome, gene function and TADs. Epigenetics Chromatin 2022 Jan 29;15(1):4. PMID: 35090532
  • Huang J, Sun W, Wang Z, Lv C et al. FTO suppresses glycolysis and growth of papillary thyroid cancer via decreasing stability of APOE mRNA in an N6-methyladenosine-dependent manner. J Exp Clin Cancer Res 2022 Jan 28;41(1):42. PMID: 35090515
  • Du J, Gu J, Deng J, Kong L et al. The expression and survival significance of sodium glucose transporters in pancreatic cancer. BMC Cancer 2022 Jan 28;22(1):116. PMID: 35090421
  • Yao Q, Yu Y, Wang Z, Zhang M et al. CANT1 serves as a potential prognostic factor for lung adenocarcinoma and promotes cell proliferation and invasion in vitro. BMC Cancer 2022 Jan 28;22(1):117. PMID: 35090419
  • Torres-Méndez A, Pop S, Bonnal S, Almudi I et al. Parallel evolution of a splicing program controlling neuronal excitability in flies and mammals. Sci Adv 2022 Jan 28;8(4):eabk0445. PMID: 35089784
  • Zhai J, Luo G et al. GATA6‑induced FN1 activation promotes the proliferation, invasion and migration of oral squamous cell carcinoma cells. Mol Med Rep 2022 Mar;25(3). PMID: 35088888
  • Feng X, Guo J, An G, Wu Y et al. Genetic Aberrations and Interaction of NEK2 and TP53 Accelerate Aggressiveness of Multiple Myeloma. Adv Sci (Weinh) 2022 Mar;9(9):e2104491. PMID: 35088582
  • Liu X, Luo Z, Ren X, Chen Z et al. The Crosstalk Between Malignant Cells and Tumor-Promoting Immune Cells Relevant to Immunotherapy in Pancreatic Ductal Adenocarcinoma. Front Cell Dev Biol 2021;9:821232. PMID: 35087839
  • Luo Y, Sun X, Xiong J et al. Characterization of m6A Regulator-Mediated Methylation Modification Patterns and Tumor Microenvironment Infiltration in Ovarian Cancer. Front Cell Dev Biol 2021;9:794801. PMID: 35087835
  • Chen G, Long J, Zhu R, Yang G et al. Identification and Validation of Constructing the Prognostic Model With Four DNA Methylation-Driven Genes in Pancreatic Cancer. Front Cell Dev Biol 2021;9:709669. PMID: 35087823
  • Wang H, Cui B, Sun H, Zhang F et al. Aberrant GATA2 Activation in Pediatric B-Cell Acute Lymphoblastic Leukemia. Front Pediatr 2021;9:795529. PMID: 35087776
  • Huang C, He J, Dong Y, Huang L et al. Identification of Novel Prognostic Markers Associated With Laryngeal Squamous Cell Carcinoma Using Comprehensive Analysis. Front Oncol 2021;11:779153. PMID: 35087752
  • Shen L, Zhou K, Liu H, Yang J et al. Prediction of Mechanosensitive Genes in Vascular Endothelial Cells Under High Wall Shear Stress. Front Genet 2021;12:796812. PMID: 35087573
  • Qiao Z, Li J, Kou H, Chen X et al. Hsa-miR-557 Inhibits Osteosarcoma Growth Through Targeting KRAS. Front Genet 2021;12:789823. PMID: 35087570
  • Ma J, Zhang T, Wang W, Chen Y et al. Comparative Transcriptome Analysis of Gayal (Bos frontalis), Yak (Bos grunniens), and Cattle (Bos taurus) Reveal the High-Altitude Adaptation. Front Genet 2021;12:778788. PMID: 35087567
  • Krzyszton M, Kufel J et al. Analysis of mRNA-derived siRNAs in mutants of mRNA maturation and surveillance pathways in Arabidopsis thaliana. Sci Rep 2022 Jan 27;12(1):1474. PMID: 35087200
  • Lee A, Scott MKD, Wimmers F, Arunachalam PS et al. A molecular atlas of innate immunity to adjuvanted and live attenuated vaccines, in mice. Nat Commun 2022 Jan 27;13(1):549. PMID: 35087093
  • Cheng J, Chen Z, Zuo G, Cao W et al. Integrated analysis of differentially expressed genes, differentially methylated genes, and natural compounds in hepatitis C virus-induced cirrhosis. J Int Med Res 2022 Jan;50(1):3000605221074525. PMID: 35086375
  • Devesa-Peiro A, Sebastian-Leon P, Parraga-Leo A, Pellicer A et al. Breaking the ageing paradigm in endometrium: endometrial gene expression related to cilia and ageing hallmarks in women over 35 years. Hum Reprod 2022 Apr 1;37(4):762-776. PMID: 35085395
  • Igata T, Tanaka H, Etoh K, Hong S et al. Loss of the transcription repressor ZHX3 induces senescence-associated gene expression and mitochondrial-nucleolar activation. PLoS One 2022;17(1):e0262488. PMID: 35085309
  • Yu H, Fu Y, Tang Z, Jiang L et al. A novel pyroptosis-related signature predicts prognosis and response to treatment in breast carcinoma. Aging (Albany NY) 2022 Jan 27;14(2):989-1013. PMID: 35085103
  • Verly IRN, Matser YAH, Leen R, Meinsma R et al. Urinary 3-Methoxytyramine Is a Biomarker for MYC Activity in Patients With Neuroblastoma. JCO Precis Oncol 2022 Jan;6:e2000447. PMID: 35085004
  • Liu Z, Guo Y, Yang X, Chen C et al. Immune Landscape Refines the Classification of Colorectal Cancer With Heterogeneous Prognosis, Tumor Microenvironment and Distinct Sensitivity to Frontline Therapies. Front Cell Dev Biol 2021;9:784199. PMID: 35083217
  • Lou S, Zhang J, Yin X, Zhang Y et al. Comprehensive Characterization of Tumor Purity and Its Clinical Implications in Gastric Cancer. Front Cell Dev Biol 2021;9:782529. PMID: 35083216
  • Tong T, Zhang J, Zhu X, Hui P et al. Prognostic Autophagy-Related Model Revealed by Integrating Single-Cell RNA Sequencing Data and Bulk Gene Profiles in Gastric Cancer. Front Cell Dev Biol 2021;9:729485. PMID: 35083210
  • Li Y, Gao X et al. LINC00883 Promotes Drug Resistance of Glioma Through a microRNA-136/NEK1-Dependent Mechanism. Front Oncol 2021;11:692265. PMID: 35083134
  • Chen H, Zhang C, Zhou Q, Guo Y et al. Integrated Bioinformatic Analysis Identifies TIPIN as a Prognostic Biomarker in Hepatocellular Carcinoma. Dis Markers 2022;2022:5764592. PMID: 35082931
  • Duan X, Wang W, Tang M, Gao F et al. Dissecting Cellular Heterogeneity Based on Network Denoising of scRNA-seq Using Local Scaling Self-Diffusion. Front Genet 2021;12:811043. PMID: 35082838
  • Holm I, Nardini L, Pain A, Bischoff E et al. Comprehensive Genomic Discovery of Non-Coding Transcriptional Enhancers in the African Malaria Vector Anopheles coluzzii. Front Genet 2021;12:785934. PMID: 35082832
  • Li Y, Li M, Qu C, Li Y et al. The Polygenic Map of Keloid Fibroblasts Reveals Fibrosis-Associated Gene Alterations in Inflammation and Immune Responses. Front Immunol 2021;12:810290. PMID: 35082796
  • Lou S, Wang Y, Zhang J, Yin X et al. Patient-Level DNA Damage Repair Pathway Profiles and Anti-Tumor Immunity for Gastric Cancer. Front Immunol 2021;12:806324. PMID: 35082793
  • Pan YB, Sun Y, Li HJ, Zhou LY et al. Transcriptome Analyses Reveal Systematic Molecular Pathology After Optic Nerve Crush. Front Cell Neurosci 2021;15:800154. PMID: 35082604
  • Yu N, Liu X, Shi D, Bai L et al. CD63 and C3AR1: The Potential Molecular Targets in the Progression of Septic Shock. Int J Gen Med 2022;15:711-728. PMID: 35082520
  • Wang Z, Li M, Liu Y, Qiao Z et al. CRHBP is degraded via autophagy and exerts anti-hepatocellular carcinoma effects by reducing cyclin B2 expression and dissociating cyclin B2-CDK1 complex. Cancer Gene Ther 2022 Aug;29(8-9):1217-1227. PMID: 35082401
  • Cosgrove N, Varešlija D, Keelan S, Elangovan A et al. Mapping molecular subtype specific alterations in breast cancer brain metastases identifies clinically relevant vulnerabilities. Nat Commun 2022 Jan 26;13(1):514. PMID: 35082299
  • Ma W, Pang Z, Huang X, Xu J et al. Citrus Huanglongbing is a pathogen-triggered immune disease that can be mitigated with antioxidants and gibberellin. Nat Commun 2022 Jan 26;13(1):529. PMID: 35082290
  • Lim Y, Gang DY, Lee WY, Yun SH et al. Proteomic identification of arginine-methylated proteins in colon cancer cells and comparison of messenger RNA expression between colorectal cancer and adjacent normal tissues. Ann Coloproctol 2022 Feb;38(1):60-68. PMID: 35081685
  • Murray ER, Menezes S, Henry JC, Williams JL et al. Disruption of pancreatic stellate cell myofibroblast phenotype promotes pancreatic tumor invasion. Cell Rep 2022 Jan 25;38(4):110227. PMID: 35081338
  • Li X, Yu Z, Fang Q, Yang M et al. The transmembrane endoplasmic reticulum-associated E3 ubiquitin ligase TRIM13 restrains the pathogenic-DNA-triggered inflammatory response. Sci Adv 2022 Jan 28;8(4):eabh0496. PMID: 35080984
  • Bonaventura P, Alcazer V, Mutez V, Tonon L et al. Identification of shared tumor epitopes from endogenous retroviruses inducing high-avidity cytotoxic T cells for cancer immunotherapy. Sci Adv 2022 Jan 28;8(4):eabj3671. PMID: 35080970
  • Ruane PT, Garner T, Parsons L, Babbington PA et al. Trophectoderm differentiation to invasive syncytiotrophoblast is promoted by endometrial epithelial cells during human embryo implantation. Hum Reprod 2022 Apr 1;37(4):777-792. PMID: 35079788
  • Pinheiro-de-Sousa I, Fonseca-Alaniz MH, Teixeira SK, Rodrigues MV et al. Uncovering emergent phenotypes in endothelial cells by clustering of surrogates of cardiovascular risk factors. Sci Rep 2022 Jan 25;12(1):1372. PMID: 35079076
  • Chen Y, Zhao Y, Yang X, Ren X et al. USP44 regulates irradiation-induced DNA double-strand break repair and suppresses tumorigenesis in nasopharyngeal carcinoma. Nat Commun 2022 Jan 25;13(1):501. PMID: 35079021
  • Sauler M, McDonough JE, Adams TS, Kothapalli N et al. Characterization of the COPD alveolar niche using single-cell RNA sequencing. Nat Commun 2022 Jan 25;13(1):494. PMID: 35078977
  • Martin L, Kaci N, Benoist-Lasselin C, Mondoloni M et al. Theobroma cacao improves bone growth by modulating defective ciliogenesis in a mouse model of achondroplasia. Bone Res 2022 Jan 25;10(1):8. PMID: 35078974
  • Salachan PV, Rasmussen M, Fredsøe J, Ulhøi B et al. Microbiota of the prostate tumor environment investigated by whole-transcriptome profiling. Genome Med 2022 Jan 25;14(1):9. PMID: 35078527
  • Zagare A, Barmpa K, Smajic S, Smits LM et al. Midbrain organoids mimic early embryonic neurodevelopment and recapitulate LRRK2-p.Gly2019Ser-associated gene expression. Am J Hum Genet 2022 Feb 3;109(2):311-327. PMID: 35077669
  • Moonen L, Mangiante L, Leunissen DJG, Lap LMV et al. Differential Orthopedia Homeobox expression in pulmonary carcinoids is associated with changes in DNA methylation. Int J Cancer 2022 Jun 15;150(12):1987-1997. PMID: 35076935
  • Morais MRPT, Tian P, Lawless C, Murtuza-Baker S et al. Kidney organoids recapitulate human basement membrane assembly in health and disease. Elife 2022 Jan 25;11. PMID: 35076391
  • Duttke SH, Beyhan S, Singh R, Neal S et al. Decoding Transcription Regulatory Mechanisms Associated with Coccidioides immitis Phase Transition Using Total RNA. mSystems 2022 Feb 22;7(1):e0140421. PMID: 35076277
  • Zhao YL, Zhang JX, Yang JJ, Wei YB et al. MiR-205-5p promotes lung cancer progression and is valuable for the diagnosis of lung cancer. Thorac Cancer 2022 Mar;13(6):832-843. PMID: 35076182
  • Papaiz DD, Rius FE, Ayub ALP, Origassa CS et al. Genes regulated by DNA methylation are involved in distinct phenotypes during melanoma progression and are prognostic factors for patients. Mol Oncol 2022 May;16(9):1913-1930. PMID: 35075772
  • Kawaguchi ES, Li G, Lewinger JP, Gauderman WJ et al. Two-step hypothesis testing to detect gene-environment interactions in a genome-wide scan with a survival endpoint. Stat Med 2022 Apr 30;41(9):1644-1657. PMID: 35075649
  • Li Q, Gao X, Luo X, Wu Q et al. Identification of Hub Genes Associated with Immune Infiltration in Cardioembolic Stroke by Whole Blood Transcriptome Analysis. Dis Markers 2022;2022:8086991. PMID: 35075378
  • Adam S, Bräcker J, Klingel V, Osteresch B et al. Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns. Commun Biol 2022 Jan 24;5(1):92. PMID: 35075236
  • Menezes AC, Dixon C, Scholz A, Nicholson R et al. RUNX3 overexpression inhibits normal human erythroid development. Sci Rep 2022 Jan 24;12(1):1243. PMID: 35075235
  • Corredor Z, Suarez-Molina A, Fong C, Cifuentes-C L et al. Presence of periodontal pathogenic bacteria in blood of patients with coronary artery disease. Sci Rep 2022 Jan 24;12(1):1241. PMID: 35075206
  • Tazyeen S, Ahmed MM, Farooqui A, Alam A et al. Identification of key regulators in Sarcoidosis through multidimensional systems biological approach. Sci Rep 2022 Jan 24;12(1):1236. PMID: 35075176
  • Younger NT, Wilson ML, Martinez Lyons A, Jarman EJ et al. In Vivo Modeling of Patient Genetic Heterogeneity Identifies New Ways to Target Cholangiocarcinoma. Cancer Res 2022 Apr 15;82(8):1548-1559. PMID: 35074757
  • Brothers M, Rine J et al. Distinguishing between recruitment and spread of silent chromatin structures in Saccharomyces cerevisiae. Elife 2022 Jan 24;11. PMID: 35073254
  • Mishra S, Raj AS, Kumar A, Rajeevan A et al. Innate immune sensing of influenza A viral RNA through IFI16 promotes pyroptotic cell death. iScience 2022 Jan 21;25(1):103714. PMID: 35072006
  • Mousavi SM, Derakhshan M, Baharloii F, Dashti F et al. Non-coding RNAs and glioblastoma: Insight into their roles in metastasis. Mol Ther Oncolytics 2022 Mar 17;24:262-287. PMID: 35071748
  • Zhao H, Guo Y, Ma Y, Chen Y et al. NonLoss: a novel analytical method for differential biological module identification from single-cell transcriptome. Ann Transl Med 2021 Dec;9(24):1788. PMID: 35071482
  • Su A, Chen X, Zhang Z, Xu B et al. Integrated transcriptomic and metabolomic analysis of rat serum to investigate potential target of puerarin in the treatment post-traumatic stress disorder. Ann Transl Med 2021 Dec;9(24):1771. PMID: 35071465
  • Qi W, Li R, Li L, Li S et al. Identification of key genes associated with esophageal adenocarcinoma based on bioinformatics analysis. Ann Transl Med 2021 Dec;9(23):1711. PMID: 35071405
  • Ahmed MM, Tazyeen S, Haque S, Alsulimani A et al. Network-Based Approach and IVI Methodologies, a Combined Data Investigation Identified Probable Key Genes in Cardiovascular Disease and Chronic Kidney Disease. Front Cardiovasc Med 2021;8:755321. PMID: 35071341
  • Zhu M, Jiang B, Zuo H, Wang X et al. LIM-Domain-Binding Protein 1 Mediates Cell Proliferation and Drug Resistance in Colorectal Cancer. Front Surg 2021;8:790380. PMID: 35071313
  • Wang H, Cheng Q, Chang K, Bao L et al. Integrated Analysis of Ferroptosis-Related Biomarker Signatures to Improve the Diagnosis and Prognosis Prediction of Ovarian Cancer. Front Cell Dev Biol 2021;9:807862. PMID: 35071242
  • Xu J, Wang Y, Wei Z, Zhuang J et al. Single-Cell Transcriptomes Combining with Consecutive Genomics Reveal Clonal Evolution and Gene Regulatory Networks in Relapsed and Refractory Multiple Myeloma. Front Cell Dev Biol 2021;9:794144. PMID: 35071234
  • Chen HY, Li XX, Li C, Zhu HC et al. 5-Hydroxymethylcytosine Signatures in Circulating Cell-Free DNA as Early Warning Biomarkers for COVID-19 Progression and Myocardial Injury. Front Cell Dev Biol 2021;9:781267. PMID: 35071229
  • Sha Y, Han L, Sun B, Zhao Q et al. Identification of a Glycosyltransferase Signature for Predicting Prognosis and Immune Microenvironment in Neuroblastoma. Front Cell Dev Biol 2021;9:769580. PMID: 35071226
  • Shi X, Zhang L, Li Y, Xue J et al. Integrative Analysis of Bulk and Single-Cell RNA Sequencing Data Reveals Cell Types Involved in Heart Failure. Front Bioeng Biotechnol 2021;9:779225. PMID: 35071201
  • Du S, Mansmann U, Geisler BP, Li Y et al. A Diagnostic Model for Kawasaki Disease Based on Immune Cell Characterization From Blood Samples. Front Pediatr 2021;9:769937. PMID: 35071130
  • Liu F, Liang J, Long P, Zhu L et al. ZCCHC17 Served as a Predictive Biomarker for Prognosis and Immunotherapy in Hepatocellular Carcinoma. Front Oncol 2021;11:799566. PMID: 35071004
  • Zhang X, Wei X, Wang Y, Wang S et al. Pyroptosis Regulators and Tumor Microenvironment Infiltration Characterization in Clear Cell Renal Cell Carcinoma. Front Oncol 2021;11:774279. PMID: 35070978
  • Motawi TMK, Sadik NAH, Sabry D, Fahim SA et al. rs62139665 Polymorphism in the Promoter Region of EpCAM Is Associated With Hepatitis C Virus-Related Hepatocellular Carcinoma Risk in Egyptians. Front Oncol 2021;11:754104. PMID: 35070966
  • Zhang H, Gu J, Qu M, Sun Z et al. Effects of Intravenous Infusion of Lidocaine on Short-Term Outcomes and Survival in Patients Undergoing Surgery for Ovarian Cancer: A Retrospective Propensity Score Matching Study. Front Oncol 2021;11:689832. PMID: 35070949
  • Hu FF, Chen H, Duan Y, Lan B et al. CBX2 and EZH2 cooperatively promote the growth and metastasis of lung adenocarcinoma. Mol Ther Nucleic Acids 2022 Mar 8;27:670-684. PMID: 35070495
  • Huang X, Xu H, Zeng Y, Lan Q et al. Identification of a 3-gene signature for predicting the prognosis of stage II colon cancer based on microsatellite status. J Gastrointest Oncol 2021 Dec;12(6):2749-2762. PMID: 35070404
  • Zeng Z, Gao Y, Li J, Zhang G et al. Violations of proportional hazard assumption in Cox regression model of transcriptomic data in TCGA pan-cancer cohorts. Comput Struct Biotechnol J 2022;20:496-507. PMID: 35070171
  • Luo C, Nie H, Yu L et al. Identification of Aging-Related Genes Associated with Prognostic Value and Immune Microenvironment Characteristics in Diffuse Large B-Cell Lymphoma. Oxid Med Cell Longev 2022;2022:3334522. PMID: 35069971
  • Han S, Liu Q, Yang Z, Ma J et al. Identification of Ferroptosis-Related Gene Prognostic Signature and HSF1 for Reversing Doxorubicin and Gemcitabine Resistance in Uterine Carcinosarcoma. Dis Markers 2022;2022:6400227. PMID: 35069934
  • Xia MD, Yu RR, Chen DM et al. Identification of Hub Biomarkers and Immune-Related Pathways Participating in the Progression of Antineutrophil Cytoplasmic Antibody-Associated Glomerulonephritis. Front Immunol 2021;12:809325. PMID: 35069594
  • Chen Y, You S, Li J, Zhang Y et al. Follicular Helper T-Cell-Based Classification of Endometrial Cancer Promotes Precise Checkpoint Immunotherapy and Provides Prognostic Stratification. Front Immunol 2021;12:788959. PMID: 35069566
  • Shu Y, He L, Gao M, Xiao F et al. EOGT Correlated With Immune Infiltration: A Candidate Prognostic Biomarker for Hepatocellular Carcinoma. Front Immunol 2021;12:780509. PMID: 35069551
  • Xie YZ, Peng CW, Su ZQ, Huang HT et al. A Practical Strategy for Exploring the Pharmacological Mechanism of Luteolin Against COVID-19/Asthma Comorbidity: Findings of System Pharmacology and Bioinformatics Analysis. Front Immunol 2021;12:769011. PMID: 35069542
  • Liu Z, He J, Han J, Yang J et al. m6A Regulators Mediated Methylation Modification Patterns and Tumor Microenvironment Infiltration Characterization In Nasopharyngeal Carcinoma. Front Immunol 2021;12:762243. PMID: 35069534
  • Du S, Zeng F, Sun H, Liu Y et al. Prognostic and therapeutic significance of a novel ferroptosis related signature in colorectal cancer patients. Bioengineered 2022 Feb;13(2):2498-2512. PMID: 35067161
  • Kamaliyan Z, Mirfakhraie R, Azizi-Tabesh G, Darbeheshti F et al. The role of FOXC1/FOXCUT/DANCR axis in triple negative breast cancer: a bioinformatics and experimental approach. Mol Biol Rep 2022 Apr;49(4):2821-2829. PMID: 35066769
  • Zhong M, Li X, Zhao F, Huang Y et al. Natural compound library screening identifies Sanguinarine chloride for the treatment of SCLC by upregulating CDKN1A. Transl Oncol 2022 Jan 20;17:101345. PMID: 35066462
  • Unterman A, Sumida TS, Nouri N, Yan X et al. Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19. Nat Commun 2022 Jan 21;13(1):440. PMID: 35064122
  • Hong SM, Lee AY, Hwang SM, Ha YJ et al. NAMPT mitigates colitis severity by supporting redox-sensitive activation of phagocytosis in inflammatory macrophages. Redox Biol 2022 Apr;50:102237. PMID: 35063804
  • Sokka J, Yoshihara M, Kvist J, Laiho L et al. CRISPR activation enables high-fidelity reprogramming into human pluripotent stem cells. Stem Cell Reports 2022 Feb 8;17(2):413-426. PMID: 35063129
  • Tang L, Hill MC, Ellinor PT, Li M et al. Bacon: a comprehensive computational benchmarking framework for evaluating targeted chromatin conformation capture-specific methodologies. Genome Biol 2022 Jan 21;23(1):30. PMID: 35063001
  • Zhang Z, Zhou L, Zhou S, Li X et al. Circular RNA hsa_circ_0069117 suppresses proliferation and migration of osteosarcoma cells lines via miR-875-3p/PF4V1 axis. J Orthop Surg Res 2022 Jan 21;17(1):37. PMID: 35062989
  • Yan Q, Wu X, Zhou P, Zhou Y et al. HERV-W Envelope Triggers Abnormal Dopaminergic Neuron Process through DRD2/PP2A/AKT1/GSK3 for Schizophrenia Risk. Viruses 2022 Jan 14;14(1). PMID: 35062349
  • Nault R, Saha S, Bhattacharya S, Dodson J et al. Benchmarking of a Bayesian single cell RNAseq differential gene expression test for dose-response study designs. Nucleic Acids Res 2022 May 6;50(8):e48. PMID: 35061903
  • Larcombe SD, Capewell P, Jensen K, Weir W et al. Susceptibility to disease (tropical theileriosis) is associated with differential expression of host genes that possess motifs recognised by a pathogen DNA binding protein. PLoS One 2022;17(1):e0262051. PMID: 35061738
  • Hong K, Zhang Y, Yao L, Zhang J et al. Tumor microenvironment-related multigene prognostic prediction model for breast cancer. Aging (Albany NY) 2022 Jan 20;14(2):845-868. PMID: 35060926
  • Moncunill G, Carnes J, Chad Young W, Carpp L et al. Transcriptional correlates of malaria in RTS,S/AS01-vaccinated African children: a matched case-control study. Elife 2022 Jan 21;11. PMID: 35060479
  • Hou YP, Diao TT, Xu ZH, Mao XY et al. Bioinformatic Analysis Combined With Experimental Validation Reveals Novel Hub Genes and Pathways Associated With Focal Segmental Glomerulosclerosis. Front Mol Biosci 2021;8:691966. PMID: 35059432
  • Lin S, Peng Y, Xu Y, Zhang W et al. Establishment of a Risk Score Model for Early Prediction of Severe H1N1 Influenza. Front Cell Infect Microbiol 2021;11:776840. PMID: 35059324
  • Vlachostergios PJ, Karathanasis A, Papandreou CN, Tzortzis V et al. Early mRNA Expression of Neuroendocrine Differentiation Signals Predicts Recurrence After Radical Prostatectomy: A Transcriptomic Analysis. World J Oncol 2021 Dec;12(6):232-239. PMID: 35059083
  • Busbee PB, Bam M, Yang X, Abdulla OA et al. Dysregulated TP53 Among PTSD Patients Leads to Downregulation of miRNA let-7a and Promotes an Inflammatory Th17 Phenotype. Front Immunol 2021;12:815840. PMID: 35058939
  • Lin Y, Wu TY, Wan S, Yang JYH et al. scJoint integrates atlas-scale single-cell RNA-seq and ATAC-seq data with transfer learning. Nat Biotechnol 2022 May;40(5):703-710. PMID: 35058621
  • Yoon J, Grinchuk OV, Tirado-Magallanes R, Ngian ZK et al. E2F and STAT3 provide transcriptional synergy for histone variant H2AZ activation to sustain glioblastoma chromatin accessibility and tumorigenicity. Cell Death Differ 2022 Jul;29(7):1379-1394. PMID: 35058574
  • Cakir B, Tanaka Y, Kiral FR, Xiang Y et al. Expression of the transcription factor PU.1 induces the generation of microglia-like cells in human cortical organoids. Nat Commun 2022 Jan 20;13(1):430. PMID: 35058453
  • Dai B, Xu J, Li X, Huang L et al. Macrophages in epididymal adipose tissue secrete osteopontin to regulate bone homeostasis. Nat Commun 2022 Jan 20;13(1):427. PMID: 35058428
  • Wang Y, Guo L, Yin X, McCarthy EC et al. Pathogenic TNF-α drives peripheral nerve inflammation in an Aire-deficient model of autoimmunity. Proc Natl Acad Sci U S A 2022 Jan 25;119(4). PMID: 35058362
  • Pawar A, Chowdhury OR, Chauhan R, Talole S et al. Identification of key gene signatures for the overall survival of ovarian cancer. J Ovarian Res 2022 Jan 20;15(1):12. PMID: 35057823
  • Kong D, Li G, Yang Z, Cheng S et al. Identification of an ACK1/TNK2-based prognostic signature for colon cancer to predict survival and inflammatory landscapes. BMC Cancer 2022 Jan 20;22(1):84. PMID: 35057760
  • Zhang C, Cui L, Fang J et al. Genome-wide association study of the candidate genes for grape berry shape-related traits. BMC Plant Biol 2022 Jan 20;22(1):42. PMID: 35057757
  • Chang CY, Chen KY, Shih HJ, Chiang M et al. Let-7i-5p Mediates the Therapeutic Effects of Exosomes from Human Placenta Choriodecidual Membrane-Derived Mesenchymal Stem Cells on Mitigating Endotoxin-Induced Mortality and Liver Injury in High-Fat Diet-Induced Obese Mice. Pharmaceuticals (Basel) 2021 Dec 27;15(1). PMID: 35056093
  • Butterworth J, Gregoire D, Peter M, Roca Suarez AA et al. GOLT1B Activation in Hepatitis C Virus-Infected Hepatocytes Links ER Trafficking and Viral Replication. Pathogens 2021 Dec 31;11(1). PMID: 35055994
  • Grossmannova K, Barathova M, Belvoncikova P, Lauko V et al. Hypoxia Marker Carbonic Anhydrase IX Is Present in Abdominal Aortic Aneurysm Tissue and Plasma. Int J Mol Sci 2022 Jan 14;23(2). PMID: 35055064
  • Belotti Y, Lim EH, Lim CT et al. The Role of the Extracellular Matrix and Tumor-Infiltrating Immune Cells in the Prognostication of High-Grade Serous Ovarian Cancer. Cancers (Basel) 2022 Jan 14;14(2). PMID: 35053566
  • Spix B, Jeridi A, Ansari M, Yildirim AÖ et al. Endolysosomal Cation Channels and Lung Disease. Cells 2022 Jan 17;11(2). PMID: 35053420
  • Satter KB, Tran PMH, Tran LKH, Ramsey Z et al. Oncocytoma-Related Gene Signature to Differentiate Chromophobe Renal Cancer and Oncocytoma Using Machine Learning. Cells 2022 Jan 15;11(2). PMID: 35053403
  • Raabe FJ, Stephan M, Waldeck JB, Huber V et al. Expression of Lineage Transcription Factors Identifies Differences in Transition States of Induced Human Oligodendrocyte Differentiation. Cells 2022 Jan 11;11(2). PMID: 35053357
  • Lice I, Sanches JM, Correia-Silva RD, Corrêa MP et al. Effects of Formyl Peptide Receptor Agonists Ac(9-12) and WKYMV in In Vivo and In Vitro Acute Inflammatory Experimental Models. Cells 2022 Jan 11;11(2). PMID: 35053343
  • Pozo MR, Meredith GW, Entcheva E et al. Human iPSC-Cardiomyocytes as an Experimental Model to Study Epigenetic Modifiers of Electrophysiology. Cells 2022 Jan 7;11(2). PMID: 35053315
  • Ferraro F, Fevga C, Bonifati V, Mandemakers W et al. Correcting Differential Gene Expression Analysis for Cyto-Architectural Alterations in Substantia Nigra of Parkinson's Disease Patients Reveals Known and Potential Novel Disease-Associated Genes and Pathways. Cells 2022 Jan 7;11(2). PMID: 35053314
  • Scionti F, Agapito G, Caracciolo D, Riillo C et al. Risk Alleles for Multiple Myeloma Susceptibility in ADME Genes. Cells 2022 Jan 6;11(2). PMID: 35053305
  • Mandal S, Tejaswi T, Janivara R, Srikrishnan S et al. Transcriptomic-Based Quantification of the Epithelial-Hybrid-Mesenchymal Spectrum across Biological Contexts. Biomolecules 2021 Dec 25;12(1). PMID: 35053177
  • Garcia-Giralt N, Roca-Ayats N, Abril JF, Martinez-Gil N et al. Gene Network of Susceptibility to Atypical Femoral Fractures Related to Bisphosphonate Treatment. Genes (Basel) 2022 Jan 14;13(1). PMID: 35052486
  • Li M, Ma J, Liu H, Ou M et al. Identification and Characterization of Wall-Associated Kinase (WAK) and WAK-like (WAKL) Gene Family in Juglans regia and Its Wild Related Species Juglans mandshurica. Genes (Basel) 2022 Jan 12;13(1). PMID: 35052474
  • Liu D, Liu W, Chen X, Yin J et al. circKCNN2 suppresses the recurrence of hepatocellular carcinoma at least partially via regulating miR-520c-3p/methyl-DNA-binding domain protein 2 axis. Clin Transl Med 2022 Jan;12(1):e662. PMID: 35051313
  • Xue J, Chen L, Cheng H, Song X et al. The Identification and Validation of Hub Genes Associated with Acute Myocardial Infarction Using Weighted Gene Co-Expression Network Analysis. J Cardiovasc Dev Dis 2022 Jan 17;9(1). PMID: 35050240
  • Verissimo T, Faivre A, Sgardello S, Naesens M et al. Estimated Renal Metabolomics at Reperfusion Predicts One-Year Kidney Graft Function. Metabolites 2022 Jan 10;12(1). PMID: 35050179
  • Song Z, He M, Zhao R, Qi L et al. Molecular Evolution of Lysine Biosynthesis in Agaricomycetes. J Fungi (Basel) 2021 Dec 31;8(1). PMID: 35049977
  • Wen D, Yu L, Xiong D, Tian C et al. Genome-Wide Identification of bZIP Transcription Factor Genes and Functional Analyses of Two Members in Cytospora chrysosperma. J Fungi (Basel) 2021 Dec 30;8(1). PMID: 35049973
  • Kokina A, Tanilas K, Ozolina Z, Pleiko K et al. Purine Auxotrophic Starvation Evokes Phenotype Similar to Stationary Phase Cells in Budding Yeast. J Fungi (Basel) 2021 Dec 29;8(1). PMID: 35049969
  • Miao M, Wu J, Cai F, Wang YG et al. A Modified Memetic Algorithm with an Application to Gene Selection in a Sheep Body Weight Study. Animals (Basel) 2022 Jan 15;12(2). PMID: 35049823
  • Shen Z, Li RZ, Prohaska TA, Hoeksema MA et al. Systematic analysis of naturally occurring insertions and deletions that alter transcription factor spacing identifies tolerant and sensitive transcription factor pairs. Elife 2022 Jan 20;11. PMID: 35049498
  • Chu SK, Zhao S, Shyr Y, Liu Q et al. Comprehensive evaluation of noise reduction methods for single-cell RNA sequencing data. Brief Bioinform 2022 Mar 10;23(2). PMID: 35048125
  • Graham GT, Selvanathan SP, Zöllner SK, Stahl E et al. Comprehensive profiling of mRNA splicing indicates that GC content signals altered cassette exon inclusion in Ewing sarcoma. NAR Cancer 2022 Mar;4(1):zcab052. PMID: 35047826
  • Høye E, Fromm B, Böttger PHM, Domanska D et al. A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer. NAR Cancer 2022 Mar;4(1):zcab051. PMID: 35047825
  • Tao W, Liu F, Zhang J, Fu S et al. miR-3587 Inhibitor Attenuates Ferroptosis Following Renal Ischemia-Reperfusion Through HO-1. Front Mol Biosci 2021;8:789927. PMID: 35047556
  • Zhang X, Yang F, Liu F, Tian Q et al. Conservation of Differential Animal MicroRNA Processing by Drosha and Dicer. Front Mol Biosci 2021;8:730006. PMID: 35047552
  • Wang H, Yin J, Hong Y, Ren A et al. SCG2 is a Prognostic Biomarker Associated With Immune Infiltration and Macrophage Polarization in Colorectal Cancer. Front Cell Dev Biol 2021;9:795133. PMID: 35047505
  • Yao J, Li S, Wang X et al. Identification of Breast Cancer Immune Subtypes by Analyzing Bulk Tumor and Single Cell Transcriptomes. Front Cell Dev Biol 2021;9:781848. PMID: 35047498
  • Nai A, Zeng H, Wu Q, He Z et al. lncRNA/miR-29c-Mediated High Expression of LOX Can Influence the Immune Status and Chemosensitivity and Can Forecast the Poor Prognosis of Gastric Cancer. Front Cell Dev Biol 2021;9:760470. PMID: 35047494
  • Zhong X, Yang Y, Li B, Liang P et al. Downregulation of SLC27A6 by DNA Hypermethylation Promotes Proliferation but Suppresses Metastasis of Nasopharyngeal Carcinoma Through Modulating Lipid Metabolism. Front Oncol 2021;11:780410. PMID: 35047398
  • Zhang S, Zhang Y, Min P et al. Single-Cell and Bulk Transcriptome Data Integration Reveals Dysfunctional Cell Types and Aberrantly Expressed Genes in Hypertrophic Scar. Front Genet 2021;12:806740. PMID: 35047019
  • Clarelli F, Barizzone N, Mangano E, Zuccalà M et al. Contribution of Rare and Low-Frequency Variants to Multiple Sclerosis Susceptibility in the Italian Continental Population. Front Genet 2021;12:800262. PMID: 35047017
  • Yang R, Wang Z, Li J, Pi X et al. Identification and Verification of Five Potential Biomarkers Related to Skin and Thermal Injury Using Weighted Gene Co-Expression Network Analysis. Front Genet 2021;12:781589. PMID: 35047008
  • Pan S, Tang T, Wu Y, Zhang L et al. Identification and Validation of Immune-Related Prognostic Genes in the Tumor Microenvironment of Colon Adenocarcinoma. Front Genet 2021;12:778153. PMID: 35047006
  • Lin Z, Ji X, Tian N, Gan Y et al. Mapping Intellectual Structure for the Long Non-Coding RNA in Hepatocellular Carcinoma Development Research. Front Genet 2021;12:771810. PMID: 35047004
  • Liu Y, Li G, Yang Y, Lu Z et al. Analysis of N6-Methyladenosine Modification Patterns and Tumor Immune Microenvironment in Pancreatic Adenocarcinoma. Front Genet 2021;12:752025. PMID: 35046996
  • Tonglin H, Yanna Z, Xiaoling Y, Ruilan G et al. Single-Cell RNA-Seq of Bone Marrow Cells in Aplastic Anemia. Front Genet 2021;12:745483. PMID: 35046994
  • Linnerbauer M, Lößlein L, Farrenkopf D, Vandrey O et al. Astrocyte-Derived Pleiotrophin Mitigates Late-Stage Autoimmune CNS Inflammation. Front Immunol 2021;12:800128. PMID: 35046956
  • Cai Y, Xu K, Aihaiti Y, Li Z et al. Derlin-1, as a Potential Early Predictive Biomarker for Nonresponse to Infliximab Treatment in Rheumatoid Arthritis, Is Related to Autophagy. Front Immunol 2021;12:795912. PMID: 35046954
  • Li X, Garg M, Jia T, Liao Q et al. Single-Cell Analysis Reveals the Immune Characteristics of Myeloid Cells and Memory T Cells in Recovered COVID-19 Patients With Different Severities. Front Immunol 2021;12:781432. PMID: 35046942
  • Zhang Y, Liu Q, Cui M, Wang M et al. Comprehensive Analysis of Expression, Prognostic Value, and Immune Infiltration for Ubiquitination-Related FBXOs in Pancreatic Ductal Adenocarcinoma. Front Immunol 2021;12:774435. PMID: 35046938
  • Raza W, Guo J, Qadir MI, Bai B et al. qPCR Analysis Reveals Association of Differential Expression of SRR, NFKB1, and PDE4B Genes With Type 2 Diabetes Mellitus. Front Endocrinol (Lausanne) 2021;12:774696. PMID: 35046895
  • Busby T, Chen Y, Godfrey TC, Rehan M et al. Baf45a Mediated Chromatin Remodeling Promotes Transcriptional Activation for Osteogenesis and Odontogenesis. Front Endocrinol (Lausanne) 2021;12:763392. PMID: 35046892
  • Stein KC, Morales-Polanco F, van der Lienden J, Rainbolt TK et al. Ageing exacerbates ribosome pausing to disrupt cotranslational proteostasis. Nature 2022 Jan;601(7894):637-642. PMID: 35046576
  • Han A, Chua V, Baqai U, Purwin TJ et al. Pyruvate dehydrogenase inactivation causes glycolytic phenotype in BAP1 mutant uveal melanoma. Oncogene 2022 Feb;41(8):1129-1139. PMID: 35046531
  • Danaher P, Kim Y, Nelson B, Griswold M et al. Advances in mixed cell deconvolution enable quantification of cell types in spatial transcriptomic data. Nat Commun 2022 Jan 19;13(1):385. PMID: 35046414
  • Kim DW, Place E, Chinnaiya K, Manning E et al. Single-cell analysis of early chick hypothalamic development reveals that hypothalamic cells are induced from prethalamic-like progenitors. Cell Rep 2022 Jan 18;38(3):110251. PMID: 35045288
  • Choi BH, Rawat V, Högström J, Burns PA et al. Lineage-specific silencing of PSAT1 induces serine auxotrophy and sensitivity to dietary serine starvation in luminal breast tumors. Cell Rep 2022 Jan 18;38(3):110278. PMID: 35045283
  • Hozhabri H, Ghasemi Dehkohneh RS, Razavi SM, Razavi SM et al. Comparative analysis of protein-protein interaction networks in metastatic breast cancer. PLoS One 2022;17(1):e0260584. PMID: 35045088
  • Fiszbein A, McGurk M, Calvo-Roitberg E, Kim G et al. Widespread occurrence of hybrid internal-terminal exons in human transcriptomes. Sci Adv 2022 Jan 21;8(3):eabk1752. PMID: 35044812
  • Yao K, Zhou E, Cheng C et al. A B-Raf V600E gene signature for melanoma predicts prognosis and reveals sensitivity to targeted therapies. Cancer Med 2022 Feb;11(4):1232-1243. PMID: 35044091
  • Xiang CX, Liu XG, Zhou DQ, Zhou Y et al. Identification of a glioma functional network from gene fitness data using machine learning. J Cell Mol Med 2022 Feb;26(4):1253-1263. PMID: 35044082
  • Alnabulsi A, Wang T, Pang W, Ionescu M et al. Identification of a prognostic signature in colorectal cancer using combinatorial algorithm-driven analysis. J Pathol Clin Res 2022 May;8(3):245-256. PMID: 35043584
  • Yang Y, Dufault-Thompson K, Fontenele RS, Jiang X et al. Putative host-derived insertions in the genomes of circulating SARS-CoV-2 variants. bioRxiv 2022 Apr 28 PMID: 35043112
  • Zhang L, Geng X, Wang F, Tang J et al. 53BP1 regulates heterochromatin through liquid phase separation. Nat Commun 2022 Jan 18;13(1):360. PMID: 35042897
  • Rypens C, Bertucci F, Finetti P, Robertson F et al. Comparative transcriptional analyses of preclinical models and patient samples reveal MYC and RELA driven expression patterns that define the molecular landscape of IBC. NPJ Breast Cancer 2022 Jan 18;8(1):12. PMID: 35042871
  • Li Z, Feng H et al. A neural network-based method for exhaustive cell label assignment using single cell RNA-seq data. Sci Rep 2022 Jan 18;12(1):910. PMID: 35042860
  • Chacha PP, Horie R, Kusakabe TG, Sasakura Y et al. Neuronal identities derived by misexpression of the POU IV sensory determinant in a protovertebrate. Proc Natl Acad Sci U S A 2022 Jan 25;119(4). PMID: 35042818
  • Lawniczak MKN, Durbin R, Flicek P, Lindblad-Toh K et al. Standards recommendations for the Earth BioGenome Project. Proc Natl Acad Sci U S A 2022 Jan 25;119(4). PMID: 35042802
  • Zhang J, Yu S, Li Q, Wang Q et al. Increased co-expression of MEST and BRCA1 is associated with worse prognosis and immune infiltration in ovarian cancer. Gynecol Oncol 2022 Mar;164(3):566-576. PMID: 35042621
  • Iouranova A, Grun D, Rossy T, Duc J et al. KRAB zinc finger protein ZNF676 controls the transcriptional influence of LTR12-related endogenous retrovirus sequences. Mob DNA 2022 Jan 18;13(1):4. PMID: 35042549
  • Zhang Q, Xia T, Qi C, Du J et al. High expression of S100A2 predicts poor prognosis in patients with endometrial carcinoma. BMC Cancer 2022 Jan 18;22(1):77. PMID: 35042454
  • Chignon A, Argaud D, Boulanger MC, Mkannez G et al. Genome-wide chromatin contacts of super-enhancer-associated lncRNA identify LINC01013 as a regulator of fibrosis in the aortic valve. PLoS Genet 2022 Jan;18(1):e1010010. PMID: 35041643
  • Wang S, Zhang C, Chen R et al. Circ_0006220 promotes non-small cell lung cancer progression via sponging miR-203-3p and regulating RGS17 expression. Hum Exp Toxicol 2022 Jan-Dec;41:9603271211062854. PMID: 35041543
  • Cannistraci A, Hascoet P, Ali A, Mundra P et al. MiR-378a inhibits glucose metabolism by suppressing GLUT1 in prostate cancer. Oncogene 2022 Mar;41(10):1445-1455. PMID: 35039635
  • Belenguer G, Mastrogiovanni G, Pacini C, Hall Z et al. RNF43/ZNRF3 loss predisposes to hepatocellular-carcinoma by impairing liver regeneration and altering the liver lipid metabolic ground-state. Nat Commun 2022 Jan 17;13(1):334. PMID: 35039505
  • Li CC, Zhang G, Du J, Liu D et al. Pre-configuring chromatin architecture with histone modifications guides hematopoietic stem cell formation in mouse embryos. Nat Commun 2022 Jan 17;13(1):346. PMID: 35039499
  • Kerepesi C, Meer MV, Ablaeva J, Amoroso VG et al. Epigenetic aging of the demographically non-aging naked mole-rat. Nat Commun 2022 Jan 17;13(1):355. PMID: 35039495
  • Isali I, McClellan P, Calaway A, Prunty M et al. Gene network profiling in muscle-invasive bladder cancer: A systematic review and meta-analysis. Urol Oncol 2022 May;40(5):197.e11-197.e23. PMID: 35039218
  • Ruan H, Dai Z, Yan J, Long X et al. ZBTB24 (Zinc Finger and BTB Domain Containing 24) prevents recurrent spontaneous abortion by promoting trophoblast proliferation, differentiation and migration. Bioengineered 2022 Feb;13(2):2777-2790. PMID: 35038951
  • Zhang R, Chen X, Zuo W, Ji Z et al. Inflammatory activation and immune cell infiltration are main biological characteristics of SARS-CoV-2 infected myocardium. Bioengineered 2022 Feb;13(2):2486-2497. PMID: 35037831
  • Jha P, Singh P, Arora S, Sultan A et al. Integrative multiomics and in silico analysis revealed the role of ARHGEF1 and its screened antagonist in mild and severe COVID-19 patients. J Cell Biochem 2022 Mar;123(3):673-690. PMID: 35037717
  • Tian X, Xu WH, Xu FJ, Li H et al. Identification of prognostic biomarkers in papillary renal cell carcinoma and PTTG1 may serve as a biomarker for predicting immunotherapy response. Ann Med 2022 Dec;54(1):211-226. PMID: 35037540
  • McEnany J, Meir Y, Wingreen NS et al. piRNAs of Caenorhabditis elegans broadly silence nonself sequences through functionally random targeting. Nucleic Acids Res 2022 Feb 22;50(3):1416-1429. PMID: 35037068
  • Fefelova EA, Pleshakova IM, Mikhaleva EA, Pirogov SA et al. Impaired function of rDNA transcription initiation machinery leads to derepression of ribosomal genes with insertions of R2 retrotransposon. Nucleic Acids Res 2022 Jan 25;50(2):867-884. PMID: 35037046
  • Rabenius A, Chandrakumaran S, Sistonen L, Vihervaara A et al. Quantifying RNA synthesis at rate-limiting steps of transcription using nascent RNA-sequencing data. STAR Protoc 2022 Mar 18;3(1):101036. PMID: 35036951
  • Suriyalaksh M, Raimondi C, Mains A, Segonds-Pichon A et al. Gene regulatory network inference in long-lived C. elegans reveals modular properties that are predictive of novel aging genes. iScience 2022 Jan 21;25(1):103663. PMID: 35036864
  • Lan R, Ge D, Liu YZ, You Z et al. Dcx expression defines a subpopulation of Gdf5 (+) cells with chondrogenic potentials in E12.5 mouse embryonic limbs. Biochem Biophys Rep 2022 Mar;29:101200. PMID: 35036586
  • Mariam A, Miller-Atkins G, Moro A, Rodarte AI et al. Salivary miRNAs as non-invasive biomarkers of hepatocellular carcinoma: a pilot study. PeerJ 2022;10:e12715. PMID: 35036096
  • Guo F, Yan J, Ling G, Chen H et al. Screening and Identification of Key Biomarkers in Lower Grade Glioma via Bioinformatical Analysis. Appl Bionics Biomech 2022;2022:6959237. PMID: 35035531
  • Guan X, Xin H, Xu M, Ji J et al. The Role and Mechanism of SIRT6 in Regulating Phenotype Transformation of Vascular Smooth Muscle Cells in Abdominal Aortic Aneurysm. Comput Math Methods Med 2022;2022:3200798. PMID: 35035519
  • Ul Haq MF, Kayani MA, Arshad T, Hadi Anwar RA et al. Genetic interactions of mitochondrial sirtuins in brain tumorigenesis. Future Oncol 2022 Feb;18(5):597-611. PMID: 35034477
  • Zhang T, Feng X, Dong J, Xu Z et al. Cardiac troponin T and autoimmunity in skeletal muscle aging. Geroscience 2022 Aug;44(4):2025-2045. PMID: 35034279
  • Fang L, Yu W, Yu G, Zhong F et al. Junctional Adhesion Molecule-Like Protein (JAML) Is Correlated with Prognosis and Immune Infiltrates in Lung Adenocarcinoma. Med Sci Monit 2022 Jan 16;28:e933503. PMID: 35034089
  • Raftopulos NL, Washaya TC, Niederprüm A, Egert A et al. Prostate cancer cell proliferation is influenced by LDL-cholesterol availability and cholesteryl ester turnover. Cancer Metab 2022 Jan 15;10(1):1. PMID: 35033184
  • Fan J, Chen M, Cao S, Yao Q et al. Identification of a ferroptosis-related gene pair biomarker with immune infiltration landscapes in ischemic stroke: a bioinformatics-based comprehensive study. BMC Genomics 2022 Jan 16;23(1):59. PMID: 35033021
  • Rams M, Conrad TOF et al. Dictionary learning allows model-free pseudotime estimation of transcriptomic data. BMC Genomics 2022 Jan 15;23(1):56. PMID: 35033004
  • Deng H, Li J, Ali Shah A, Lin G et al. Commonly expressed key transcriptomic profiles of sepsis in the human circulation and brain via integrated analysis. Int Immunopharmacol 2022 Mar;104:108518. PMID: 35032827
  • Mallick P, Maity S, Chakrabarti O, Chakrabarti S et al. Role of systems biology and multi-omics analyses in delineating spatial interconnectivity and temporal dynamicity of ER stress mediated cellular responses. Biochim Biophys Acta Mol Cell Res 2022 Apr;1869(4):119210. PMID: 35032474
  • James NE, Woodman M, Ribeiro JR et al. Prognostic immunologic signatures in epithelial ovarian cancer. Oncogene 2022 Mar;41(10):1389-1396. PMID: 35031772
  • Landowski M, Bhute VJ, Takimoto T, Grindel S et al. A mutation in transmembrane protein 135 impairs lipid metabolism in mouse eyecups. Sci Rep 2022 Jan 14;12(1):756. PMID: 35031662
  • Spix B, Butz ES, Chen CC, Rosato AS et al. Lung emphysema and impaired macrophage elastase clearance in mucolipin 3 deficient mice. Nat Commun 2022 Jan 14;13(1):318. PMID: 35031603
  • Zhu W, Chen X, Guo X, Liu H et al. Low Glucose-Induced Overexpression of HOXC-AS3 Promotes Metabolic Reprogramming of Breast Cancer. Cancer Res 2022 Mar 1;82(5):805-818. PMID: 35031573
  • Khoshbakht S, Mokhtari M, Moravveji SS, Azimzadeh Jamalkandi S et al. Re-wiring and gene expression changes of AC025034.1 and ATP2B1 play complex roles in early-to-late breast cancer progression. BMC Genom Data 2022 Jan 14;23(1):6. PMID: 35031021
  • Hita A, Brocart G, Fernandez A, Rehmsmeier M et al. MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts. BMC Bioinformatics 2022 Jan 14;23(1):39. PMID: 35030988
  • Belsky DW, Caspi A, Corcoran DL, Sugden K et al. DunedinPACE, a DNA methylation biomarker of the pace of aging. Elife 2022 Jan 14;11. PMID: 35029144
  • Hugh JC, Haddon LSJ, Githaka JM, Bigras G et al. DREAM, a possible answer to the estrogen paradox of the Women's Health Initiative Trial. Heliyon 2022 Jan;8(1):e08666. PMID: 35028452
  • Cheng X, Cao Y, Wang X, Cheng L et al. Systematic Pan-Cancer Analysis of KLRB1 with Prognostic Value and Immunological Activity across Human Tumors. J Immunol Res 2022;2022:5254911. PMID: 35028320
  • Zhang SQ, Liu J, Chen HB, Dai WJ et al. A novel three-microRNA signature for predicting survival in patients with nasopharyngeal carcinoma. J Dent Sci 2022 Jan;17(1):377-388. PMID: 35028061
  • Lange M, Bergen V, Klein M, Setty M et al. CellRank for directed single-cell fate mapping. Nat Methods 2022 Feb;19(2):159-170. PMID: 35027767
  • Lozano AX, Chaudhuri AA, Nene A, Bacchiocchi A et al. T cell characteristics associated with toxicity to immune checkpoint blockade in patients with melanoma. Nat Med 2022 Feb;28(2):353-362. PMID: 35027754
  • Yun W, Choi KA, Hwang I, Zheng J et al. OCT4-induced oligodendrocyte progenitor cells promote remyelination and ameliorate disease. NPJ Regen Med 2022 Jan 13;7(1):4. PMID: 35027563
  • Sun Q, Wang Y, Officer A, Pecknold B et al. Stem-like breast cancer cells in the activated state resist genetic stress via TGFBI-ZEB1. NPJ Breast Cancer 2022 Jan 13;8(1):5. PMID: 35027548
  • Sang H, Zhang W, Peng L, Wei S et al. Exosomal circRELL1 serves as a miR-637 sponge to modulate gastric cancer progression via regulating autophagy activation. Cell Death Dis 2022 Jan 13;13(1):56. PMID: 35027539
  • Li Z, Hu M, Qiu J, Feng J et al. H2A Histone Family Member Z (H2AFZ) Serves as a Prognostic Biomarker in Lung Adenocarcinoma: Bioinformatic Analysis and Experimental Validation. Med Sci Monit 2022 Jan 14;28:e933447. PMID: 35027526
  • Valdivia AO, Bhattacharya SK et al. Lyso-Lipid-Induced Oligodendrocyte Maturation Underlies Restoration of Optic Nerve Function. eNeuro 2022 Jan-Feb;9(1). PMID: 35027445
  • Baghela A, Pena OM, Lee AH, Baquir B et al. Predicting sepsis severity at first clinical presentation: The role of endotypes and mechanistic signatures. EBioMedicine 2022 Jan;75:103776. PMID: 35027333
  • Meek S, Watson T, Eory L, McFarlane G et al. Stem cell-derived porcine macrophages as a new platform for studying host-pathogen interactions. BMC Biol 2022 Jan 14;20(1):14. PMID: 35027054
  • Liu P, Chen R, Zhang X, Fu R et al. Combined PD-1/PD-L1 and tumor-infiltrating immune cells redefined a unique molecular subtype of high-grade serous ovarian carcinoma. BMC Genomics 2022 Jan 13;23(1):51. PMID: 35026984
  • Xu J, Su SM, Zhang X, Chan UI et al. ATP11B inhibits breast cancer metastasis in a mouse model by suppressing externalization of nonapoptotic phosphatidylserine. J Clin Invest 2022 Mar 1;132(5). PMID: 35025764
  • Wang Q, Qiu X, Liu T, Ahn C et al. The hepatokine TSK maintains myofiber integrity and exercise endurance and contributes to muscle regeneration. JCI Insight 2022 Feb 22;7(4). PMID: 35025761
  • Cai B, Ma M, Zhang J, Wang Z et al. LncEDCH1 improves mitochondrial function to reduce muscle atrophy by interacting with SERCA2. Mol Ther Nucleic Acids 2022 Mar 8;27:319-334. PMID: 35024244
  • Su C, Huang R, Yu Z, Zheng J et al. Myelin and lymphocyte protein serves as a prognostic biomarker and is closely associated with the tumor microenvironment in the nephroblastoma. Cancer Med 2022 Mar;11(5):1427-1438. PMID: 35023304
  • Chen H, Li Q, Yi R, Li B et al. CircRNA casein kinase 1 gamma 1 (circ-CSNK1G1) plays carcinogenic effects in thyroid cancer by acting as miR-149-5p sponge and relieving the suppression of miR-149-5p on mitogen-activated protein kinase 1 (MAPK1). J Clin Lab Anal 2022 Feb;36(2):e24188. PMID: 35023214
  • Li S, Zhao F, Ye J, Li K et al. Cellular metabolic basis of altered immunity in the lungs of patients with COVID-19. Med Microbiol Immunol 2022 Feb;211(1):49-69. PMID: 35022857
  • Sepporta MV, Praz V, Balmas Bourloud K, Joseph JM et al. TWIST1 expression is associated with high-risk neuroblastoma and promotes primary and metastatic tumor growth. Commun Biol 2022 Jan 12;5(1):42. PMID: 35022561
  • Wang S, Luke CJ, Pak SC, Shi V et al. SERPINB3 (SCCA1) inhibits cathepsin L and lysoptosis, protecting cervical cancer cells from chemoradiation. Commun Biol 2022 Jan 12;5(1):46. PMID: 35022555
  • Mohsenzadegan M, Razmi M, Vafaei S, Abolhasani M et al. Co-expression of cancer-testis antigens of MAGE-A6 and MAGE-A11 is associated with tumor aggressiveness in patients with bladder cancer. Sci Rep 2022 Jan 12;12(1):599. PMID: 35022469
  • Tanaka Y, Takeda R, Fukushima T, Mikami K et al. Eliminating chronic myeloid leukemia stem cells by IRAK1/4 inhibitors. Nat Commun 2022 Jan 12;13(1):271. PMID: 35022428
  • Schick M, Zhang L, Maurer S, Maurer HC et al. Genetic alterations of the SUMO isopeptidase SENP6 drive lymphomagenesis and genetic instability in diffuse large B-cell lymphoma. Nat Commun 2022 Jan 12;13(1):281. PMID: 35022408
  • Pratumchai I, Zak J, Huang Z, Min B et al. B cell-derived IL-27 promotes control of persistent LCMV infection. Proc Natl Acad Sci U S A 2022 Jan 18;119(3). PMID: 35022243
  • Hao C, Yang Y, Du J, Deng XW et al. The PCY-SAG14 phytocyanin module regulated by PIFs and miR408 promotes dark-induced leaf senescence in Arabidopsis. Proc Natl Acad Sci U S A 2022 Jan 18;119(3). PMID: 35022242
  • Li G, Fu S, Wang S, Zhu C et al. A deep generative model for multi-view profiling of single-cell RNA-seq and ATAC-seq data. Genome Biol 2022 Jan 12;23(1):20. PMID: 35022082
  • Polyanskaya SA, Moreno RY, Lu B, Feng R et al. SCP4-STK35/PDIK1L complex is a dual phospho-catalytic signaling dependency in acute myeloid leukemia. Cell Rep 2022 Jan 11;38(2):110233. PMID: 35021089
  • Brombin A, Simpson DJ, Travnickova J, Brunsdon H et al. Tfap2b specifies an embryonic melanocyte stem cell that retains adult multifate potential. Cell Rep 2022 Jan 11;38(2):110234. PMID: 35021087
  • Qin T, Mullan B, Ravindran R, Messinger D et al. ATRX loss in glioma results in dysregulation of cell-cycle phase transition and ATM inhibitor radio-sensitization. Cell Rep 2022 Jan 11;38(2):110216. PMID: 35021084
  • Kusi M, Zand M, Lin LL, Chen M et al. 2-Hydroxyglutarate destabilizes chromatin regulatory landscape and lineage fidelity to promote cellular heterogeneity. Cell Rep 2022 Jan 11;38(2):110220. PMID: 35021081
  • Rana N, Privitera G, Kondolf HC, Bulek K et al. GSDMB is increased in IBD and regulates epithelial restitution/repair independent of pyroptosis. Cell 2022 Jan 20;185(2):283-298.e17. PMID: 35021065
  • La Greca A, Bellora N, Le Dily F, Jara R et al. Chromatin topology defines estradiol-primed progesterone receptor and PAX2 binding in endometrial cancer cells. Elife 2022 Jan 12;11. PMID: 35018885
  • Tao W, Radstake TRDJ, Pandit A et al. RegEnrich gene regulator enrichment analysis reveals a key role of the ETS transcription factor family in interferon signaling. Commun Biol 2022 Jan 11;5(1):31. PMID: 35017649
  • Machino H, Kaneko S, Komatsu M, Ikawa N et al. The metabolic stress-activated checkpoint LKB1-MARK3 axis acts as a tumor suppressor in high-grade serous ovarian carcinoma. Commun Biol 2022 Jan 11;5(1):39. PMID: 35017636
  • Rodriguez E, Boelaars K, Brown K, Madunić K et al. Analysis of the glyco-code in pancreatic ductal adenocarcinoma identifies glycan-mediated immune regulatory circuits. Commun Biol 2022 Jan 11;5(1):41. PMID: 35017635
  • Interlandi M, Kerl K, Dugas M et al. InterCellar enables interactive analysis and exploration of cell-cell communication in single-cell transcriptomic data. Commun Biol 2022 Jan 11;5(1):21. PMID: 35017628
  • Wang R, Chen F, Chen Q, Wan X et al. MyoD is a 3D genome structure organizer for muscle cell identity. Nat Commun 2022 Jan 11;13(1):205. PMID: 35017543
  • Esfandyari D, Idrissou BMG, Hennis K, Avramopoulos P et al. MicroRNA-365 regulates human cardiac action potential duration. Nat Commun 2022 Jan 11;13(1):220. PMID: 35017523
  • Linderman GC, Zhao J, Roulis M, Bielecki P et al. Zero-preserving imputation of single-cell RNA-seq data. Nat Commun 2022 Jan 11;13(1):192. PMID: 35017482
  • Seyfrid M, Maich WT, Shaikh VM, Tatari N et al. CD70 as an actionable immunotherapeutic target in recurrent glioblastoma and its microenvironment. J Immunother Cancer 2022 Jan;10(1). PMID: 35017149
  • Pantelaiou-Prokaki G, Mieczkowska I, Schmidt GE, Fritzsche S et al. HDAC8 suppresses the epithelial phenotype and promotes EMT in chemotherapy-treated basal-like breast cancer. Clin Epigenetics 2022 Jan 11;14(1):7. PMID: 35016723
  • Nguyen TT, Lee HS, Burt BM, Wu J et al. A lepidic gene signature predicts patient prognosis and sensitivity to immunotherapy in lung adenocarcinoma. Genome Med 2022 Jan 12;14(1):5. PMID: 35016696
  • Anand L, Rodriguez Lopez CM et al. ChromoMap: an R package for interactive visualization of multi-omics data and annotation of chromosomes. BMC Bioinformatics 2022 Jan 11;23(1):33. PMID: 35016614
  • Rong Z, Chen H, Zhang Z, Zhang Y et al. Identification of cardiomyopathy-related core genes through human metabolic networks and expression data. BMC Genomics 2022 Jan 12;23(1):47. PMID: 35016605
  • Li D, Ning C, Zhang J, Wang Y et al. Dynamic transcriptome and chromatin architecture in granulosa cells during chicken folliculogenesis. Nat Commun 2022 Jan 10;13(1):131. PMID: 35013308
  • Misheva M, Kotzamanis K, Davies LC, Tyrrell VJ et al. Oxylipin metabolism is controlled by mitochondrial β-oxidation during bacterial inflammation. Nat Commun 2022 Jan 10;13(1):139. PMID: 35013270
  • Horvath S, Haghani A, Peng S, Hales EN et al. DNA methylation aging and transcriptomic studies in horses. Nat Commun 2022 Jan 10;13(1):40. PMID: 35013267
  • Liu XZ, Rulina A, Choi MH, Pedersen L et al. C/EBPB-dependent adaptation to palmitic acid promotes tumor formation in hormone receptor negative breast cancer. Nat Commun 2022 Jan 10;13(1):69. PMID: 35013251
  • Lam KHB, Leon AJ, Hui W, Lee SC et al. Topographic mapping of the glioblastoma proteome reveals a triple-axis model of intra-tumoral heterogeneity. Nat Commun 2022 Jan 10;13(1):116. PMID: 35013227
  • Wang Q, Zhang Y, Zhang B, Fu Y et al. Single-cell chromatin accessibility landscape in kidney identifies additional cell-of-origin in heterogenous papillary renal cell carcinoma. Nat Commun 2022 Jan 10;13(1):31. PMID: 35013217
  • Ajore R, Niroula A, Pertesi M, Cafaro C et al. Functional dissection of inherited non-coding variation influencing multiple myeloma risk. Nat Commun 2022 Jan 10;13(1):151. PMID: 35013207
  • Dion-Albert L, Cadoret A, Doney E, Kaufmann FN et al. Vascular and blood-brain barrier-related changes underlie stress responses and resilience in female mice and depression in human tissue. Nat Commun 2022 Jan 10;13(1):164. PMID: 35013188
  • Matkovic R, Morel M, Lanciano S, Larrous P et al. TASOR epigenetic repressor cooperates with a CNOT1 RNA degradation pathway to repress HIV. Nat Commun 2022 Jan 10;13(1):66. PMID: 35013187
  • Cheung PF, Yang J, Fang R, Borgers A et al. Progranulin mediates immune evasion of pancreatic ductal adenocarcinoma through regulation of MHCI expression. Nat Commun 2022 Jan 10;13(1):156. PMID: 35013174
  • Song H, Weinstein HNW, Allegakoen P, Wadsworth MH 2nd et al. Single-cell analysis of human primary prostate cancer reveals the heterogeneity of tumor-associated epithelial cell states. Nat Commun 2022 Jan 10;13(1):141. PMID: 35013146
  • Zhou L, Niu Z, Wang Y, Zheng Y et al. Senescence as a dictator of patient outcomes and therapeutic efficacies in human gastric cancer. Cell Death Discov 2022 Jan 10;8(1):13. PMID: 35013121
  • Fang J, Zhang P, Wang Q, Chiang CW et al. Artificial intelligence framework identifies candidate targets for drug repurposing in Alzheimer's disease. Alzheimers Res Ther 2022 Jan 10;14(1):7. PMID: 35012639
  • Kaur N, Oskotsky B, Butte AJ, Hu Z et al. Systematic identification of ACE2 expression modulators reveals cardiomyopathy as a risk factor for mortality in COVID-19 patients. Genome Biol 2022 Jan 10;23(1):15. PMID: 35012625
  • Meijer A, De Meyer T, Vandepoele K, Kyndt T et al. Spatiotemporal expression profile of novel and known small RNAs throughout rice plant development focussing on seed tissues. BMC Genomics 2022 Jan 11;23(1):44. PMID: 35012466
  • Sun X, Wang D, Zhu J, Sun S et al. A novel nonparametric computational strategy for identifying differential methylation regions. BMC Bioinformatics 2022 Jan 10;23(Suppl 1):29. PMID: 35012449
  • Walbech JS, Kinalis S, Winther O, Nielsen FC et al. Interpretable Autoencoders Trained on Single Cell Sequencing Data Can Transfer Directly to Data from Unseen Tissues. Cells 2021 Dec 28;11(1). PMID: 35011647
  • Beauregard AP, Hannay B, Gharib E, Crapoulet N et al. Pax-5 Protein Expression Is Regulated by Transcriptional 3'UTR Editing. Cells 2021 Dec 28;11(1). PMID: 35011638
  • Liu LP, Zheng DX, Xu ZF, Zhou HC et al. Transcriptomic and Functional Evidence Show Similarities between Human Amniotic Epithelial Stem Cells and Keratinocytes. Cells 2021 Dec 27;11(1). PMID: 35011631
  • Greulich F, Bielefeld KA, Scheundel R, Mechtidou A et al. Enhancer RNA Expression in Response to Glucocorticoid Treatment in Murine Macrophages. Cells 2021 Dec 23;11(1). PMID: 35011590
  • Taniue K, Tanu T, Shimoura Y, Mitsutomi S et al. RNA Exosome Component EXOSC4 Amplified in Multiple Cancer Types Is Required for the Cancer Cell Survival. Int J Mol Sci 2022 Jan 2;23(1). PMID: 35008922
  • Kusakabe T, Sawaji Y, Endo K, Suzuki H et al. DUSP-1 Induced by PGE(2) and PGE(1) Attenuates IL-1β-Activated MAPK Signaling, Leading to Suppression of NGF Expression in Human Intervertebral Disc Cells. Int J Mol Sci 2021 Dec 29;23(1). PMID: 35008797
  • Mohammed OJ, Cebrero ME, Ahmad O, Peet A et al. The Molecular Landscape of Medulloblastoma in Teenagers and Young Adults. Cancers (Basel) 2022 Jan 5;14(1). PMID: 35008416
  • Ravensbergen CJ, Kuruc M, Polack M, Crobach S et al. The Stroma Liquid Biopsy Panel Contains a Stromal-Epithelial Gene Signature Ratio That Is Associated with the Histologic Tumor-Stroma Ratio and Predicts Survival in Colon Cancer. Cancers (Basel) 2021 Dec 29;14(1). PMID: 35008327
  • Kiran S, Wilson B, Saha S, Graff JA et al. HPVE6-USP46 Mediated Cdt2 Stabilization Reduces Set8 Mediated H4K20-Methylation to Induce Gene Expression Changes. Cancers (Basel) 2021 Dec 22;14(1). PMID: 35008200
  • Ahn HM, Choi EY, Kim YJ et al. GPR87 Promotes Metastasis through the AKT-eNOS-NO Axis in Lung Adenocarcinoma. Cancers (Basel) 2021 Dec 21;14(1). PMID: 35008182
  • Borden ES, Adams AC, Buetow KH, Wilson MA et al. Shared Gene Expression and Immune Pathway Changes Associated with Progression from Nevi to Melanoma. Cancers (Basel) 2021 Dec 21;14(1). PMID: 35008167
  • Huang K, Wang C, Vagts C, Raguveer V et al. Long non-coding RNAs (lncRNAs) NEAT1 and MALAT1 are differentially expressed in severe COVID-19 patients: An integrated single-cell analysis. PLoS One 2022;17(1):e0261242. PMID: 35007307
  • Gunewardena S, Huck I, Walesky C, Robarts D et al. Progressive loss of hepatocyte nuclear factor 4 alpha activity in chronic liver diseases in humans. Hepatology 2022 Aug;76(2):372-386. PMID: 35006629
  • Bollig-Fischer A, Bao B, Manning M, Dyson G et al. Role of novel cancer gene SLITRK3 to activate NTRK3 in squamous cell lung cancer. Mol Biomed 2021 Aug 30;2(1):26. PMID: 35006496
  • Georgiadou A, Dunican C, Soro-Barrio P, Lee HJ et al. Comparative transcriptomic analysis reveals translationally relevant processes in mouse models of malaria. Elife 2022 Jan 10;11. PMID: 35006075
  • Aass KR, Mjelle R, Kastnes MH, Tryggestad SS et al. Intracellular IL-32 regulates mitochondrial metabolism, proliferation, and differentiation of malignant plasma cells. iScience 2022 Jan 21;25(1):103605. PMID: 35005550
  • Wang T, Wen W, Liu H, Zhang J et al. Development and Validation of a Novel Prognosis Prediction Model for Patients With Stomach Adenocarcinoma. Front Med (Lausanne) 2021;8:793401. PMID: 35004767
  • Liu J, Wang J, Wu M, Zhang W et al. Comprehensive Analysis of N6-methyladenosine Modification Patterns Associated With Multiomic Characteristics of Bladder Cancer. Front Med (Lausanne) 2021;8:757432. PMID: 35004726
  • Li C, Yang T, Ou R, Shang H et al. Overlapping Genetic Architecture Between Schizophrenia and Neurodegenerative Disorders. Front Cell Dev Biol 2021;9:797072. PMID: 35004692
  • Xie Z, Wu L, Hua S, Zhang Y et al. External Validation of the Prognostic Value of an Immune-Associated Gene Panel for Clear Cell Renal Cell Carcinomas. Front Cell Dev Biol 2021;9:794840. PMID: 35004689
  • Ge F, Pan Q, Qin Y, Jia M et al. Single-Cell Analysis Identify Transcription Factor BACH1 as a Master Regulator Gene in Vascular Cells During Aging. Front Cell Dev Biol 2021;9:786496. PMID: 35004685
  • Hou Q, Le W, Kan S, Shi J et al. Nuclear Receptor Interacting Protein-2 Mediates the Stabilization and Activation of β-Catenin During Podocyte Injury. Front Cell Dev Biol 2021;9:781792. PMID: 35004680
  • Liu D, Zhu J, Ma X, Zhang L et al. Transcriptomic and Metabolomic Profiling in Helicobacter pylori-Induced Gastric Cancer Identified Prognosis- and Immunotherapy-Relevant Gene Signatures. Front Cell Dev Biol 2021;9:769409. PMID: 35004676
  • Zheng X, Liao X, Nie L, Lin T et al. LCK and CD3E Orchestrate the Tumor Microenvironment and Promote Immunotherapy Response and Survival of Muscle-Invasive Bladder Cancer Patients. Front Cell Dev Biol 2021;9:748280. PMID: 35004669
  • Wang J, Peng X, Li R, Liu K et al. Evaluation of Serum miR-17-92 Cluster as Noninvasive Biomarkers for Bladder Cancer Diagnosis. Front Oncol 2021;11:795837. PMID: 35004321
  • Zhao Z, Wang Z, Wang P, Liu S et al. EPDR1, Which Is Negatively Regulated by miR-429, Suppresses Epithelial Ovarian Cancer Progression via PI3K/AKT Signaling Pathway. Front Oncol 2021;11:751567. PMID: 35004274
  • Ma Q, Zhang J, Huang J, Wang X et al. Decreased miR-940 expression can predict a negative prognosis in early-stage nonsmoking female lung adenocarcinoma. Transl Lung Cancer Res 2021 Nov;10(11):4293-4302. PMID: 35004257
  • Li D, Yu T, Hu J, Wu J et al. Downregulation of CYP39A1 Serves as a Novel Biomarker in Hepatocellular Carcinoma with Worse Clinical Outcome. Oxid Med Cell Longev 2021;2021:5175581. PMID: 35003516
  • Wang J, Cai X, Zhang L, Lei D et al. Linc01513 inhibits the malignant potential of Nasopharyngeal carcinoma by binding to PTBP1. J Cancer 2021;12(24):7380-7389. PMID: 35003358
  • Shi Y, Chen D, Ma S, Xu H et al. Identification of Potential Biomarkers of Depression and Network Pharmacology Approach to Investigate the Mechanism of Key Genes and Therapeutic Traditional Chinese Medicine in the Treatment of Depression. Evid Based Complement Alternat Med 2021;2021:2165632. PMID: 35003290
  • Luo G, Li G, Wan Z, Zhang Y et al. circITGA7 Acts as a miR-370-3p Sponge to Suppress the Proliferation of Prostate Cancer. J Oncol 2021;2021:8060389. PMID: 35003259
  • Fu M, Pei Y, Lu F, Jiang H et al. Identification of Potential Hub Genes and miRNA-mRNA Pairs Related to the Progression and Prognosis of Cervical Cancer Through Integrated Bioinformatics Analysis. Front Genet 2021;12:775006. PMID: 35003215
  • Alqutami F, Senok A, Hachim M et al. COVID-19 Transcriptomic Atlas: A Comprehensive Analysis of COVID-19 Related Transcriptomics Datasets. Front Genet 2021;12:755222. PMID: 35003208
  • Huang ZD, Liu ZZ, Liu YY, Fu YC et al. Molecular Subtypes Based on Cell Differentiation Trajectories in Head and Neck Squamous Cell Carcinoma: Differential Prognosis and Immunotherapeutic Responses. Front Immunol 2021;12:791621. PMID: 35003112
  • Xie J, Chen L, Cao Y, Wu D et al. Single-Cell Sequencing Analysis and Weighted Co-Expression Network Analysis Based on Public Databases Identified That TNC Is a Novel Biomarker for Keloid. Front Immunol 2021;12:783907. PMID: 35003102
  • Qiu C, Shi W, Wu H, Zou S et al. Identification of Molecular Subtypes and a Prognostic Signature Based on Inflammation-Related Genes in Colon Adenocarcinoma. Front Immunol 2021;12:769685. PMID: 35003085
  • Zhu Y, Zhang Z, Song J, Qian W et al. SARS-CoV-2-Encoded MiRNAs Inhibit Host Type I Interferon Pathway and Mediate Allelic Differential Expression of Susceptible Gene. Front Immunol 2021;12:767726. PMID: 35003084
  • Huang ZD, Lin LL, Liu ZZ, Hu C et al. m6A Modification Patterns With Distinct Immunity, Metabolism, and Stemness Characteristics in Soft Tissue Sarcoma. Front Immunol 2021;12:765723. PMID: 35003079
  • Coppola M, Lai RP, Wilkinson RJ, Ottenhoff THM et al. The In Vivo Transcriptomic Blueprint of Mycobacterium tuberculosis in the Lung. Front Immunol 2021;12:763364. PMID: 35003075
  • Mao R, Yang F, Zhang T, Li J et al. Landscape and Clinical Significance of Immune Checkpoint in Cutaneous Melanoma. Front Immunol 2021;12:756282. PMID: 35003069
  • Zheng W, Wang T, Wu P, Yan Q et al. Host Factor Interaction Networks Identified by Integrative Bioinformatics Analysis Reveals Therapeutic Implications in COPD Patients With COVID-19. Front Pharmacol 2021;12:718874. PMID: 35002688
  • Singh N, Rai S, Bhatnagar R, Bhatnagar S et al. Network analysis of host-pathogen protein interactions in microbe induced cardiovascular diseases. In Silico Biol 2021;14(3-4):115-133. PMID: 35001887
  • Yang H, Wang L, Zheng Y, Hu G et al. Knockdown of zinc finger protein 267 suppresses diffuse large B-cell lymphoma progression, metastasis, and cancer stem cell properties. Bioengineered 2022 Jan;13(1):1686-1701. PMID: 35001816
  • Buddham R, Chauhan S, Narad P, Mathur P et al. Reconstruction and Exploratory Analysis of mTORC1 Signaling Pathway and Its Applications to Various Diseases Using Network-Based Approach. J Microbiol Biotechnol 2022 Mar 28;32(3):365-377. PMID: 35001007
  • Xu P, Wang M, Song WM, Wang Q et al. The landscape of human tissue and cell type specific expression and co-regulation of senescence genes. Mol Neurodegener 2022 Jan 9;17(1):5. PMID: 35000600
  • Li ZX, Zheng ZQ, Yang PY, Lin L et al. WTAP-mediated m(6)A modification of lncRNA DIAPH1-AS1 enhances its stability to facilitate nasopharyngeal carcinoma growth and metastasis. Cell Death Differ 2022 Jun;29(6):1137-1151. PMID: 34999731
  • Wu JY, Lan XL, Yan DM, Fang YY et al. The clinical significance of transcription factor WD repeat and HMG-box DNA binding protein 1 in laryngeal squamous cell carcinoma and its potential molecular mechanism. Pathol Res Pract 2022 Feb;230:153751. PMID: 34999279
  • Mahin KF, Robiuddin M, Islam M, Ashraf S et al. PanClassif: Improving pan cancer classification of single cell RNA-seq gene expression data using machine learning. Genomics 2022 Mar;114(2):110264. PMID: 34998929
  • Nguyen QH, Le DH et al. oCEM: Automatic detection and analysis of overlapping co-expressed gene modules. BMC Genomics 2022 Jan 8;23(1):39. PMID: 34998362
  • Zhang B, Yao K, Cheng C et al. A network-based integration for understanding racial disparity in prostate cancer. Transl Oncol 2022 Jan 5;17:101327. PMID: 34998235
  • Rajkumar T, Amritha S, Sridevi V, Gopal G et al. Identification and validation of plasma biomarkers for diagnosis of breast cancer in South Asian women. Sci Rep 2022 Jan 7;12(1):100. PMID: 34997107
  • Roohollahi K, de Jong Y, Pai G, Zaini MA et al. BIRC2-BIRC3 amplification: a potentially druggable feature of a subset of head and neck cancers in patients with Fanconi anemia. Sci Rep 2022 Jan 7;12(1):45. PMID: 34997070
  • Gammie SCEvaluation of animal model congruence to human depression based on large-scale gene expression patterns of the CNS. Sci Rep 2022 Jan 7;12(1):108. PMID: 34997033
  • Chang HJ, Yang UC, Lai MY, Chen CH et al. High BRCA1 gene expression increases the risk of early distant metastasis in ER(+) breast cancers. Sci Rep 2022 Jan 7;12(1):77. PMID: 34996912
  • Breeze CE, Haugen E, Reynolds A, Teschendorff A et al. Integrative analysis of 3604 GWAS reveals multiple novel cell type-specific regulatory associations. Genome Biol 2022 Jan 7;23(1):13. PMID: 34996498
  • Yin ZX, Xing CY, Li GH, Pang LB et al. A combined risk model for the multi-encompassing identification of heterogeneities of prognoses, biological pathway variations and immune states for sepsis patients. BMC Anesthesiol 2022 Jan 7;22(1):16. PMID: 34996374
  • Xu H, Hu Y, Zhang X, Aouizerat BE et al. A novel graph-based k-partitioning approach improves the detection of gene-gene correlations by single-cell RNA sequencing. BMC Genomics 2022 Jan 7;23(1):35. PMID: 34996359
  • Wille CK, Sridharan R et al. DOT1L inhibition enhances pluripotency beyond acquisition of epithelial identity and without immediate suppression of the somatic transcriptome. Stem Cell Reports 2022 Feb 8;17(2):384-396. PMID: 34995500
  • Francis HS, Harold CL, Beagrie RA, King AJ et al. Scalable in vitro production of defined mouse erythroblasts. PLoS One 2022;17(1):e0261950. PMID: 34995303
  • Wang Z, Guo K, Gao P, Pu Q et al. Repurposable drugs for SARS-CoV-2 and influenza sepsis with scRNA-seq data targeting post-transcription modifications. Precis Clin Med 2021 Dec;4(4):215-230. PMID: 34993416
  • Zhu C, Gu L, Yao M, Li J et al. Prognostic Value of an Immune-Related Gene Signature in Oral Squamous Cell Carcinoma. Front Oncol 2021;11:776979. PMID: 34993138
  • Ba L, Huang L, He Z, Deng S et al. Does Chronic Sleep Fragmentation Lead to Alzheimer's Disease in Young Wild-Type Mice? Front Aging Neurosci 2021;13:759983. PMID: 34992526
  • Ying L, Cheng M, Lu Y, Tao Q et al. Glutamine Metabolism Scoring Predicts Prognosis and Therapeutic Resistance in Hepatocellular Carcinoma. Pathol Oncol Res 2021;27:1610075. PMID: 34992505
  • Guan X, Wang Y, Sun Y, Zhang C et al. CTLA4-Mediated Immunosuppression in Glioblastoma is Associated with the Infiltration of Macrophages in the Tumor Microenvironment. J Inflamm Res 2021;14:7315-7329. PMID: 34992419
  • Bedi YS, Roach AN, Thomas KN, Mehta NA et al. Chromatin alterations during the epididymal maturation of mouse sperm refine the paternally inherited epigenome. Epigenetics Chromatin 2022 Jan 6;15(1):2. PMID: 34991687
  • Wang H, Joshi P, Hong SH, Maye PF et al. Predicting the targets of IRF8 and NFATc1 during osteoclast differentiation using the machine learning method framework cTAP. BMC Genomics 2022 Jan 7;23(1):14. PMID: 34991467
  • Song X, Gao HY, Herrup K, Hart RP et al. Optimized splitting of mixed-species RNA sequencing data. J Bioinform Comput Biol 2022 Apr;20(2):2250001. PMID: 34991436
  • Prat A, Guarneri V, Pascual T, Brasó-Maristany F et al. Development and validation of the new HER2DX assay for predicting pathological response and survival outcome in early-stage HER2-positive breast cancer. EBioMedicine 2022 Jan;75:103801. PMID: 34990895
  • Mascia F, Mazo I, Alterovitz WL, Karagiannis K et al. In search of autophagy biomarkers in breast cancer: Receptor status and drug agnostic transcriptional changes during autophagy flux in cell lines. PLoS One 2022;17(1):e0262134. PMID: 34990474
  • Xing J, He YC, Wang KY, Wan PZ et al. Involvement of YTHDF1 in renal fibrosis progression via up-regulating YAP. FASEB J 2022 Feb;36(2):e22144. PMID: 34990050
  • Miklas JW, Levy S, Hofsteen P, Mex DI et al. Amino acid primed mTOR activity is essential for heart regeneration. iScience 2022 Jan 21;25(1):103574. PMID: 34988408
  • Lu H, Li L, Sun D, Duan Y et al. Identification of novel hub genes associated with lymph node metastasis of head and neck squamous cell carcinoma by completive bioinformatics analysis. Ann Transl Med 2021 Nov;9(22):1678. PMID: 34988187
  • Jia G, Jiang X, Li Z, Ding X et al. Decoding the Mechanism of Shen Qi Sha Bai Decoction in Treating Acute Myeloid Leukemia Based on Network Pharmacology and Molecular Docking. Front Cell Dev Biol 2021;9:796757. PMID: 34988084
  • Zhang H, Liu C, Li L, Feng X et al. Genomic evidence of lung carcinogenesis associated with coal smoke in Xuanwei area, China. Natl Sci Rev 2021 Dec;8(12):nwab152. PMID: 34987843
  • Elsadany M, Elghaish RA, Khalil AS, Ahmed AS et al. Transcriptional Analysis of Nuclear-Encoded Mitochondrial Genes in Eight Neurodegenerative Disorders: The Analysis of Seven Diseases in Reference to Friedreich's Ataxia. Front Genet 2021;12:749792. PMID: 34987545
  • Janssens J, Aibar S, Taskiran II, Ismail JN et al. Decoding gene regulation in the fly brain. Nature 2022 Jan;601(7894):630-636. PMID: 34987221
  • Park S, Baek IJ, Ryu JH, Chun CH et al. PPARα-ACOT12 axis is responsible for maintaining cartilage homeostasis through modulating de novo lipogenesis. Nat Commun 2022 Jan 5;13(1):3. PMID: 34987154
  • Chang NC, Rovira Q, Wells J, Feschotte C et al. Zebrafish transposable elements show extensive diversification in age, genomic distribution, and developmental expression. Genome Res 2022 Jul;32(7):1408-1423. PMID: 34987056
  • Ma J, Song B, Wei Z, Huang D et al. m5C-Atlas: a comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome. Nucleic Acids Res 2022 Jan 7;50(D1):D196-D203. PMID: 34986603
  • Zhang Y, Zhang F, Wang Z, Wu S et al. scMAGIC: accurately annotating single cells using two rounds of reference-based classification. Nucleic Acids Res 2022 May 6;50(8):e43. PMID: 34986249
  • Ito T, Kubiura-Ichimaru M, Murakami Y, Bogutz AB et al. DNMT1 regulates the timing of DNA methylation by DNMT3 in an enzymatic activity-dependent manner in mouse embryonic stem cells. PLoS One 2022;17(1):e0262277. PMID: 34986190
  • Li H, Li W, Zhang S, Qiu M et al. Enterovirus 71 Activates GADD34 via Precursor 3CD to Promote IRES-Mediated Viral Translation. Microbiol Spectr 2022 Feb 23;10(1):e0138821. PMID: 34985336
  • Gupta R, Kumar P et al. CREB1(K292) and HINFP(K330) as Putative Common Therapeutic Targets in Alzheimer's and Parkinson's Disease. ACS Omega 2021 Dec 28;6(51):35780-35798. PMID: 34984308
  • Lu G, Cai W, Wang X, Huang B et al. Identifying prognostic signatures in the microenvironment of prostate cancer. Transl Androl Urol 2021 Nov;10(11):4206-4218. PMID: 34984186
  • Ahmed NS, Gatchalian J, Ho J, Burns MJ et al. BRD9 regulates interferon-stimulated genes during macrophage activation via cooperation with BET protein BRD4. Proc Natl Acad Sci U S A 2022 Jan 4;119(1). PMID: 34983841
  • Katakam S, Anand S, Martin P, Riggi N et al. Necrotic debris and STING exert therapeutically relevant effects on tumor cholesterol homeostasis. Life Sci Alliance 2022 Mar;5(3). PMID: 34983824
  • Wong KM, King DA, Schwartz EK, Herrera RE et al. Retinoblastoma protein regulates carcinogen susceptibility at heterochromatic cancer driver loci. Life Sci Alliance 2022 Apr;5(4). PMID: 34983823
  • Du L, Liu W, Aldana-Masangkay G, Pozhitkov A et al. SUMOylation inhibition enhances dexamethasone sensitivity in multiple myeloma. J Exp Clin Cancer Res 2022 Jan 4;41(1):8. PMID: 34983615
  • Wong CH, Lou UK, Fung FK, Tong JHM et al. CircRTN4 promotes pancreatic cancer progression through a novel CircRNA-miRNA-lncRNA pathway and stabilizing epithelial-mesenchymal transition protein. Mol Cancer 2022 Jan 4;21(1):10. PMID: 34983537
  • He Y, Shang Y, Li Y, Wang M et al. An 8-ferroptosis-related genes signature from Bronchoalveolar Lavage Fluid for prognosis in patients with idiopathic pulmonary fibrosis. BMC Pulm Med 2022 Jan 5;22(1):15. PMID: 34983465
  • Torres-Campana D, Horard B, Denaud S, Benoit G et al. Three classes of epigenomic regulators converge to hyperactivate the essential maternal gene deadhead within a heterochromatin mini-domain. PLoS Genet 2022 Jan;18(1):e1009615. PMID: 34982772
  • Hou Y, Li FZ et al. The protective effect of Metformin/Donepezil in diabetic mice brain: evidence from bioinformatics analysis and experiments. Eur Rev Med Pharmacol Sci 2021 Dec;25(24):7668-7678. PMID: 34982428
  • Hickey GJ, Wike CL, Nie X, Guo Y et al. Establishment of developmental gene silencing by ordered polycomb complex recruitment in early zebrafish embryos. Elife 2022 Jan 4;11. PMID: 34982026
  • Liu Y, Tang G, Li J et al. Long non-coding RNA NEAT1 participates in ventilator-induced lung injury by regulating miR-20b expression. Mol Med Rep 2022 Feb;25(2). PMID: 34981816
  • He W, Su X, Chen L, Liu C et al. Potential biomarkers and therapeutic targets of idiopathic pulmonary arterial hypertension. Physiol Rep 2022 Jan;10(1):e15101. PMID: 34981661
  • Hasan MI, Rahman MH, Islam MB, Islam MZ et al. Systems Biology and Bioinformatics approach to Identify blood based signatures molecules and drug targets of patient with COVID-19. Inform Med Unlocked 2022;28:100840. PMID: 34981034
  • Gabbutt C, Schenck RO, Weisenberger DJ, Kimberley C et al. Fluctuating methylation clocks for cell lineage tracing at high temporal resolution in human tissues. Nat Biotechnol 2022 May;40(5):720-730. PMID: 34980912
  • Wang Z, He J, Bach DH, Huang YH et al. Induction of m(6)A methylation in adipocyte exosomal LncRNAs mediates myeloma drug resistance. J Exp Clin Cancer Res 2022 Jan 3;41(1):4. PMID: 34980213
  • Wang S, Xie H, Mao F, Wang H et al. N(4)-acetyldeoxycytosine DNA modification marks euchromatin regions in Arabidopsis thaliana. Genome Biol 2022 Jan 3;23(1):5. PMID: 34980211
  • Gundogdu P, Loucera C, Alamo-Alvarez I, Dopazo J et al. Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data. BioData Min 2022 Jan 3;15(1):1. PMID: 34980200
  • Okamoto L, Watanabe S, Deno S, Nie X et al. Meta-analysis of transcriptional regulatory networks for lipid metabolism in neural cells from schizophrenia patients based on an open-source intelligence approach. Neurosci Res 2022 Feb;175:82-97. PMID: 34979163
  • Xia Z, Bi X, Yang S, Yang X et al. Metal transporter Slc30a1 controls pharyngeal neural crest differentiation via the zinc-Snai2-Jag1 cascade. MedComm (2020) 2021 Dec;2(4):778-797. PMID: 34977877
  • Srinivas V, Ruiz RA, Pan M, Immanuel SRC et al. Transcriptome signature of cell viability predicts drug response and drug interaction in Mycobacterium tuberculosis. Cell Rep Methods 2021 Dec 20;1(8):None. PMID: 34977849
  • Ye Y, Zhang Y, Yang N, Gao Q et al. Profiling of immune features to predict immunotherapy efficacy. Innovation (Camb) 2022 Jan 25;3(1):100194. PMID: 34977836
  • LeBlanc L, Kim M, Kambhampati A, Son AJ et al. β-catenin links cell seeding density to global gene expression during mouse embryonic stem cell differentiation. iScience 2022 Jan 21;25(1):103541. PMID: 34977504
  • Zhu J, Mou Y, Ye S, Hu H et al. Identification of a Six-Gene SLC Family Signature With Prognostic Value in Patients With Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:803198. PMID: 34977043
  • Zhou Q, Cao H, Hang X, Liang H et al. Midkine Prevents Calcification of Aortic Valve Interstitial Cells via Intercellular Crosstalk. Front Cell Dev Biol 2021;9:794058. PMID: 34977035
  • Huang Z, Liu J, Yang J, Yan Y et al. PDE4B Induces Epithelial-to-Mesenchymal Transition in Bladder Cancer Cells and Is Transcriptionally Suppressed by CBX7. Front Cell Dev Biol 2021;9:783050. PMID: 34977026
  • Zhang L, Yu H, Deng T, Ling L et al. FNDC3B and BPGM Are Involved in Human Papillomavirus-Mediated Carcinogenesis of Cervical Cancer. Front Oncol 2021;11:783868. PMID: 34976823
  • Shi Y, Wu M, Liu Y, Hu L et al. ITGA5 Predicts Dual-Drug Resistance to Temozolomide and Bevacizumab in Glioma. Front Oncol 2021;11:769592. PMID: 34976814
  • Lu J, Zhang Y, Sun M, Ding C et al. Multi-Omics Analysis of Fatty Acid Metabolism in Thyroid Carcinoma. Front Oncol 2021;11:737127. PMID: 34976793
  • Zhang H, Zhao X, Wang J, Ji W et al. Development and Validation of an Immune-Related Signature for the Prediction of Recurrence Risk of Patients With Laryngeal Cancer. Front Oncol 2021;11:683915. PMID: 34976784
  • Liu Z, Ren Z, Zhang C, Qian R et al. ELK3: A New Molecular Marker for the Diagnosis and Prognosis of Glioma. Front Oncol 2021;11:608748. PMID: 34976781
  • Fathima S, Sinha S, Donakonda S et al. Unraveling unique and common cell type-specific mechanisms in glioblastoma multiforme. Comput Struct Biotechnol J 2022;20:90-106. PMID: 34976314
  • Chen M, He C, Zhu K, Chen Z et al. Resveratrol ameliorates polycystic ovary syndrome via transzonal projections within oocyte-granulosa cell communication. Theranostics 2022;12(2):782-795. PMID: 34976213
  • Alfaro R, Martínez-Banaclocha H, Llorente S, Jimenez-Coll V et al. Computational Prediction of Biomarkers, Pathways, and New Target Drugs in the Pathogenesis of Immune-Based Diseases Regarding Kidney Transplantation Rejection. Front Immunol 2021;12:800968. PMID: 34975915
  • Zhang Y, Li Y, Cao W, Wang F et al. Single-Cell Analysis of Target Antigens of CAR-T Reveals a Potential Landscape of "On-Target, Off-Tumor Toxicity". Front Immunol 2021;12:799206. PMID: 34975912
  • Zhan H, Li H, Cheng L, Yan S et al. Novel Insights Into Gene Signatures and Their Correlation With Immune Infiltration of Peripheral Blood Mononuclear Cells in Behcet's Disease. Front Immunol 2021;12:794800. PMID: 34975900
  • Hasankhani A, Bahrami A, Sheybani N, Aria B et al. Differential Co-Expression Network Analysis Reveals Key Hub-High Traffic Genes as Potential Therapeutic Targets for COVID-19 Pandemic. Front Immunol 2021;12:789317. PMID: 34975885
  • Zhu M, Cui Y, Mo Q, Zhang J et al. Characterization of m(6)A RNA Methylation Regulators Predicts Survival and Immunotherapy in Lung Adenocarcinoma. Front Immunol 2021;12:782551. PMID: 34975871
  • Mou W, Yang S, Guo R, Fu L et al. A Novel Homozygous TTC7A Missense Mutation Results in Familial Multiple Intestinal Atresia and Combined Immunodeficiency. Front Immunol 2021;12:759308. PMID: 34975848
  • Chakraborty C, Sharma AR, Bhattacharya M, Zayed H et al. Understanding Gene Expression and Transcriptome Profiling of COVID-19: An Initiative Towards the Mapping of Protective Immunity Genes Against SARS-CoV-2 Infection. Front Immunol 2021;12:724936. PMID: 34975833
  • Aguiari G, Crudele F, Taccioli C, Minotti L et al. Dysregulation of Transglutaminase type 2 through GATA3 defines aggressiveness and Doxorubicin sensitivity in breast cancer. Int J Biol Sci 2022;18(1):1-14. PMID: 34975314
  • Liu C, Zhang X, Chai H, Xu S et al. Identification of Immune Cells and Key Genes associated with Alzheimer's Disease. Int J Med Sci 2022;19(1):112-125. PMID: 34975305
  • Zhao Z, Wang C, Jia J, Wang Z et al. Regulatory network of metformin on adipogenesis determined by combining high-throughput sequencing and GEO database. Adipocyte 2022 Dec;11(1):56-68. PMID: 34974794
  • Zeng H, Qin H, Liao M, Zheng E et al. CD36 promotes de novo lipogenesis in hepatocytes through INSIG2-dependent SREBP1 processing. Mol Metab 2022 Mar;57:101428. PMID: 34974159
  • Ting C, Aspal M, Vaishampayan N, Huang SK et al. Fatal COVID-19 and Non-COVID-19 Acute Respiratory Distress Syndrome Is Associated with Incomplete Alveolar Type 1 Epithelial Cell Differentiation from the Transitional State without Fibrosis. Am J Pathol 2022 Mar;192(3):454-467. PMID: 34973949
  • Zhong L, Fang S, Wang AQ, Zhang ZH et al. Identification of the Fosl1/AMPK/autophagy axis involved in apoptotic and inflammatory effects following spinal cord injury. Int Immunopharmacol 2022 Feb;103:108492. PMID: 34973528
  • Huang X, Jie S, Li W, Li H et al. miR-122-5p targets GREM2 to protect against glucocorticoid-induced endothelial damage through the BMP signaling pathway. Mol Cell Endocrinol 2022 Mar 15;544:111541. PMID: 34973370
  • Daemen A, Udyavar AR, Sandmann T, Li C et al. Transcriptomic profiling of adjuvant colorectal cancer identifies three key prognostic biological processes and a disease specific role for granzyme B. PLoS One 2021;16(12):e0262198. PMID: 34972191
  • Harlan B, Park HG, Spektor R, Cummings B et al. Single-cell chromatin accessibility and lipid profiling reveals SCD1-dependent metabolic shift in adipocytes induced by bariatric surgery. PLoS One 2021;16(12):e0261783. PMID: 34972124
  • Chen TY, Li X, Goobie GC, Hung CH et al. Identification of a distal RXFP1 gene enhancer with differential activity in fibrotic lung fibroblasts involving AP-1. PLoS One 2021;16(12):e0254466. PMID: 34972106
  • Lewandowski D, Sander CL, Tworak A, Gao F et al. Dynamic lipid turnover in photoreceptors and retinal pigment epithelium throughout life. Prog Retin Eye Res 2022 Jul;89:101037. PMID: 34971765
  • Ma X, Mo C, Huang L, Cao P et al. An Robust Rank Aggregation and Least Absolute Shrinkage and Selection Operator Analysis of Novel Gene Signatures in Dilated Cardiomyopathy. Front Cardiovasc Med 2021;8:747803. PMID: 34970603
  • Dai D, Guo Y, Shui Y, Li J et al. Combination of Radiosensitivity Gene Signature and PD-L1 Status Predicts Clinical Outcome of Patients With Locally Advanced Head and Neck Squamous Cell Carcinoma: A Study Based on The Cancer Genome Atlas Dataset. Front Mol Biosci 2021;8:775562. PMID: 34970597
  • Yi Y, Zhu H, Klausen C, Chang HM et al. Dysregulated BMP2 in the Placenta May Contribute to Early-Onset Preeclampsia by Regulating Human Trophoblast Expression of Extracellular Matrix and Adhesion Molecules. Front Cell Dev Biol 2021;9:768669. PMID: 34970543
  • Gu X, Ge L, Ren B, Fang Y et al. Glucocorticoids Promote Extracellular Matrix Component Remodeling by Activating YAP in Human Retinal Capillary Endothelial Cells. Front Cell Dev Biol 2021;9:738341. PMID: 34970541
  • Leng Y, Dang S, Yin F, Gao T et al. GDPLichi: a DNA Damage Repair-Related Gene Classifier for Predicting Lung Adenocarcinoma Immune Checkpoint Inhibitors Response. Front Oncol 2021;11:733533. PMID: 34970479
  • Jin Z, Shen H, Cha W, Xia H et al. Predictive value of using plasma long non-coding RNAs ANRIL and HOXA11-AS for in-stent restenosis. Exp Ther Med 2022 Feb;23(2):115. PMID: 34970338
  • Leon J, Michelson DA, Olejnik J, Chowdhary K et al. A virus-specific monocyte inflammatory phenotype is induced by SARS-CoV-2 at the immune-epithelial interface. Proc Natl Acad Sci U S A 2022 Jan 4;119(1). PMID: 34969849
  • Szeliga MComprehensive analysis of the expression levels and prognostic values of PRDX family genes in glioma. Neurochem Int 2022 Feb;153:105256. PMID: 34968631
  • Wei G, Dong Y, He Z, Qiu H et al. Identification of hub genes and construction of an mRNA-miRNA-lncRNA network of gastric carcinoma using integrated bioinformatics analysis. PLoS One 2021;16(12):e0261728. PMID: 34968391
  • Liu S, Chen S, Cai W, Yin H et al. Divergence Analyses of Sperm DNA Methylomes between Monozygotic Twin AI Bulls. Epigenomes 2019 Sep 26;3(4). PMID: 34968253
  • Perrin A, Daccord N, Roquis D, Celton JM et al. Divergent DNA Methylation Signatures of Juvenile Seedlings, Grafts and Adult Apple Trees. Epigenomes 2020 Mar 1;4(1). PMID: 34968238
  • Wibowo MA, Nugroho EP, Hermawan A et al. Genomic Understanding Reveals the Important Role of FGFR2 as Paeoniflorin Target for Circumventing Breast Cancer Resistance to Tamoxifen. Asian Pac J Cancer Prev 2021 Dec 1;22(12):3949-3958. PMID: 34967576
  • Zhang X, Ma L, Shen Y, Zhang C et al. Transcription factor paired related homeobox 1 (PRRX1) activates matrix metalloproteinases (MMP)13, which promotes the dextran sulfate sodium-induced inflammation and barrier dysfunction of NCM460 cells. Bioengineered 2022 Jan;13(1):645-654. PMID: 34967278
  • Chen C, Han M, Zhang W, Cui J et al. Identification of key genes and pathways in type 2 diabetes mellitus and vitamin C metabolism through bioinformatics analysis. Asia Pac J Clin Nutr 2021 Dec;30(4):715-729. PMID: 34967200
  • Raza SHA, Liang C, Guohua W, Pant SD et al. Screening and Identification of Muscle-Specific Candidate Genes via Mouse Microarray Data Analysis. Front Vet Sci 2021;8:794628. PMID: 34966817
  • Hu H, Zhang F, Li L, Liu J et al. Identification and Validation of ATF3 Serving as a Potential Biomarker and Correlating With Pharmacotherapy Response and Immune Infiltration Characteristics in Rheumatoid Arthritis. Front Mol Biosci 2021;8:761841. PMID: 34966780
  • Xia F, Yan Y, Shen C et al. A Prognostic Pyroptosis-Related lncRNAs Risk Model Correlates With the Immune Microenvironment in Colon Adenocarcinoma. Front Cell Dev Biol 2021;9:811734. PMID: 34966747
  • Yang J, Hong S, Zhang X, Liu J et al. Tumor Immune Microenvironment Related Gene-Based Model to Predict Prognosis and Response to Compounds in Ovarian Cancer. Front Oncol 2021;11:807410. PMID: 34966691
  • Wang Y, Xu X, Marshall JE, Gong M et al. Loss of Hyaluronan and Proteoglycan Link Protein-1 Induces Tumorigenesis in Colorectal Cancer. Front Oncol 2021;11:754240. PMID: 34966673
  • Zhao C, Li Y, Qiu C, Chen J et al. Splicing Factor DDX23, Transcriptionally Activated by E2F1, Promotes Ovarian Cancer Progression by Regulating FOXM1. Front Oncol 2021;11:749144. PMID: 34966670
  • Yue W, Du X, Wang X, Gui N et al. Prognostic values of the core components of the mammalian circadian clock in prostate cancer. PeerJ 2021;9:e12539. PMID: 34966582
  • Zhao J, Liu B, Li X et al. A transcription factor signature predicts the survival of patients with adrenocortical carcinoma. PeerJ 2021;9:e12433. PMID: 34966575
  • Sun Z, Yuan X, Du P, Chen P et al. High Expression of PDE8B and DUOX2 Associated with Ability of Metastasis in Thyroid Carcinoma. Comput Math Methods Med 2021;2021:2362195. PMID: 34966441
  • Sheng H, Pan H, Yao M, Xu L et al. Integrated Analysis of Circular RNA-Associated ceRNA Network Reveals Potential circRNA Biomarkers in Human Breast Cancer. Comput Math Methods Med 2021;2021:1732176. PMID: 34966440
  • Dong X, Yang Y, Yuan Q, Hou J et al. High Expression of CEMIP Correlates Poor Prognosis and the Tumur Microenvironment in Breast Cancer as a Promisingly Prognostic Biomarker. Front Genet 2021;12:768140. PMID: 34966410
  • Yu L, Ding Y, Wan T, Deng T et al. Significance of CD47 and Its Association With Tumor Immune Microenvironment Heterogeneity in Ovarian Cancer. Front Immunol 2021;12:768115. PMID: 34966389
  • Erkes A, Mücke S, Reschke M, Boch J et al. Epigenetic features improve TALE target prediction. BMC Genomics 2021 Dec 29;22(1):914. PMID: 34965853
  • Suryatenggara J, Yong KJ, Tenen DE, Tenen DG et al. ChIP-AP: an integrated analysis pipeline for unbiased ChIP-seq analysis. Brief Bioinform 2022 Jan 17;23(1). PMID: 34965583
  • Jeong J, Shin JH, Li W, Hong JY et al. MAL2 mediates the formation of stable HER2 signaling complexes within lipid raft-rich membrane protrusions in breast cancer cells. Cell Rep 2021 Dec 28;37(13):110160. PMID: 34965434
  • Mohammed M, Mboya IB, Mwambi H, Elbashir MK et al. Predictors of colorectal cancer survival using cox regression and random survival forests models based on gene expression data. PLoS One 2021;16(12):e0261625. PMID: 34965262
  • Ghosh B, Sarkar A, Mondal S, Bhattacharya N et al. piRNAQuest V.2: an updated resource for searching through the piRNAome of multiple species. RNA Biol 2022;19(1):12-25. PMID: 34965192
  • Zheng W, Lin G, Wang Z et al. Bioinformatics study on different gene expression profiles of fibroblasts and vascular endothelial cells in keloids. Medicine (Baltimore) 2021 Nov 24;100(47):e27777. PMID: 34964740
  • Lee YH, Jang HJ, Kim S, Choi SS et al. Hepatic MIR20B promotes nonalcoholic fatty liver disease by suppressing PPARA. Elife 2021 Dec 29;10. PMID: 34964438
  • Gong B, Zhou Y, Purdom E et al. Cobolt: integrative analysis of multimodal single-cell sequencing data. Genome Biol 2021 Dec 28;22(1):351. PMID: 34963480
  • Pruseth B, Ghosh A, Pradhan D, Purkait S et al. Analysis of Overexpressed miRNA in Circulation and Cancer Tissue to Develop a Potential microRNA Panel for the Diagnosis of Colorectal Cancer. Microrna 2021;10(4):250-262. PMID: 34963442
  • Lee H, Seo PJ et al. HiCORE: Hi-C Analysis for Identification of Core Chromatin Looping Regions with Higher Resolution. Mol Cells 2021 Dec 31;44(12):883-892. PMID: 34963105
  • Luo Q, Yu Y, Lan X et al. SIGNET: single-cell RNA-seq-based gene regulatory network prediction using multiple-layer perceptron bagging. Brief Bioinform 2022 Jan 17;23(1). PMID: 34962260
  • Zhou H, Jiang L, Wang G, Su L et al. Identification of MCM4 as a Prognostic Marker of Hepatocellular Carcinoma. Biomed Res Int 2021;2021:7479326. PMID: 34961841
  • Modanwal S, Mishra N et al. Identification of common genes in obesity and cancer through network interaction and targeting those genes by virtual screening approach. J Biomol Struct Dyn 2023 Feb;41(3):1109-1127. PMID: 34961392
  • Yang L, Yu Q, Zhu Y, Ali Mallah M et al. Core genes in lung adenocarcinoma identified by integrated bioinformatic analysis. Int J Environ Health Res 2023 Mar;33(3):243-257. PMID: 34961365
  • Lu YH, Alam I, Yang YQ, Yu YC et al. Evolutionary Analysis of the YABBY Gene Family in Brassicaceae. Plants (Basel) 2021 Dec 8;10(12). PMID: 34961171
  • Bass A, Liu Y, Dakshanamurthy S et al. Single-Cell and Bulk RNASeq Profiling of COVID-19 Patients Reveal Immune and Inflammatory Mechanisms of Infection-Induced Organ Damage. Viruses 2021 Dec 2;13(12). PMID: 34960687
  • Sabir MJ, Low R, Hall N, Kamli MR et al. A Bioinformatics Approach to Identifying Potential Biomarkers for Cryptosporidium parvum: A Coccidian Parasite Associated with Fetal Diarrhea. Vaccines (Basel) 2021 Dec 2;9(12). PMID: 34960172
  • Hoch D, Brandl W, Strutz J, Köfeler HC et al. Human Milk Oligosaccharides in Cord Blood Are Altered in Gestational Diabetes and Stimulate Feto-Placental Angiogenesis In Vitro. Nutrients 2021 Nov 26;13(12). PMID: 34959807
  • Bozic D, Baralić K, Živančević K, Miljaković EA et al. Predicting sulforaphane-induced adverse effects in colon cancer patients via in silico investigation. Biomed Pharmacother 2022 Feb;146:112598. PMID: 34959120
  • Zhang X, Ye Z, Chen J, Qiao F et al. AMDBNorm: an approach based on distribution adjustment to eliminate batch effects of gene expression data. Brief Bioinform 2022 Jan 17;23(1). PMID: 34958674
  • Feng Y, Liu L, Li J, Huang J et al. Systematic characterization of the tumor microenvironment in Chinese patients with hepatocellular carcinoma highlights intratumoral B cells as a potential immunotherapy target. Oncol Rep 2022 Feb;47(2). PMID: 34958112
  • Liu H, Zhang Y, Chen W, Zhang Y et al. TMEM130 regulates cell migration through DNA methylation in nasopharyngeal carcinoma. Cancer Biomark 2022;34(2):265-273. PMID: 34958002
  • Hui PY, Chen YH, Qin J, Jiang XH et al. PON2 blockade overcomes dexamethasone resistance in acute lymphoblastic leukemia. Hematology 2022 Dec;27(1):32-42. PMID: 34957927
  • Thunen A, La Placa D, Zhang Z, Shively JE et al. Role of lncRNA LIPE-AS1 in adipogenesis. Adipocyte 2022 Dec;11(1):11-27. PMID: 34957921
  • Cui Y, Zhou Z, Chai Y, Zhang Y et al. Upregulated GSDMB in Clear Cell Renal Cell Carcinoma Is Associated with Immune Infiltrates and Poor Prognosis. J Immunol Res 2021;2021:7753553. PMID: 34957313
  • Yu Y, Chen X, Zhang W, Liu J et al. Abnormal Expression of Centromere Protein U Is Associated with Hepatocellular Cancer Progression. Biomed Res Int 2021;2021:4051192. PMID: 34957303
  • Xu J, Yang Y et al. Integrated Gene Expression Profiling Analysis Reveals Potential Molecular Mechanisms and Candidate Biomarkers for Early Risk Stratification and Prediction of STEMI and Post-STEMI Heart Failure Patients. Front Cardiovasc Med 2021;8:736497. PMID: 34957234
  • Tang H, Wang J, Luo X, Wang Q et al. An Apoptosis-Related Gene Prognostic Index for Colon Cancer. Front Cell Dev Biol 2021;9:790878. PMID: 34957118
  • Sun S, Li C, Cui K, Liu B et al. Hsa_circ_0062682 Promotes Serine Metabolism and Tumor Growth in Colorectal Cancer by Regulating the miR-940/PHGDH Axis. Front Cell Dev Biol 2021;9:770006. PMID: 34957102
  • Wu T, Wei B, Lin H, Zhou B et al. Integral Analyses of Competing Endogenous RNA Mechanisms and DNA Methylation Reveal Regulatory Mechanisms in Osteosarcoma. Front Cell Dev Biol 2021;9:763347. PMID: 34957096
  • Gao L, Chen R, Sugimoto M, Mizuta M et al. The RNA Methylation Modification 5-Methylcytosine Impacts Immunity Characteristics, Prognosis and Progression of Oral Squamous Cell Carcinoma by Bioinformatics Analysis. Front Bioeng Biotechnol 2021;9:760724. PMID: 34957065
  • Guo Z, Shen L, Li N, Wu X et al. Aurora Kinase A as a Diagnostic and Prognostic Marker of Malignant Mesothelioma. Front Oncol 2021;11:789244. PMID: 34956905
  • Xiong Z, Liu H, He C, Li X et al. Hypoxia Contributes to Poor Prognosis in Primary IDH-wt GBM by Inducing Tumor Cells MES-Like Transformation Trend and Inhibiting Immune Cells Activity. Front Oncol 2021;11:782043. PMID: 34956900
  • Zhu J, Wu Y, Lao S, Shen J et al. Targeting TRIM54/Axin1/β-Catenin Axis Prohibits Proliferation and Metastasis in Hepatocellular Carcinoma. Front Oncol 2021;11:759842. PMID: 34956880
  • Pullikuth AK, Routh ED, Zimmerman KD, Chifman J et al. Bulk and Single-Cell Profiling of Breast Tumors Identifies TREM-1 as a Dominant Immune Suppressive Marker Associated With Poor Outcomes. Front Oncol 2021;11:734959. PMID: 34956864
  • Ren L, Zhang S, Shi J, Wang X et al. Distinct effects of ANGPT2 on gene expression of glomerular podocytes and mesangial cells. Am J Transl Res 2021;13(11):12249-12263. PMID: 34956451
  • Quintanilla E, Diwa K, Nguyen A, Vu L et al. A Data Report on the Curation and Development of a Database of Genes for Acute Respiratory Distress Syndrome. Front Genet 2021;12:750568. PMID: 34956316
  • Zhu C, Zhang S, Liu D, Wang Q et al. A Novel Gene Prognostic Signature Based on Differential DNA Methylation in Breast Cancer. Front Genet 2021;12:742578. PMID: 34956313
  • Yuan H, Liu J, Zhao L, Wu P et al. Prognostic Risk Model and Tumor Immune Environment Modulation of m5C-Related LncRNAs in Pancreatic Ductal Adenocarcinoma. Front Immunol 2021;12:800268. PMID: 34956238
  • Xu B, Lu M, Yan L, Ge M et al. A Pan-Cancer Analysis of Predictive Methylation Signatures of Response to Cancer Immunotherapy. Front Immunol 2021;12:796647. PMID: 34956232
  • Zhang Q, Lv L, Ma P, Zhang Y et al. Identification of an Autophagy-Related Pair Signature for Predicting Prognoses and Immune Activity in Pancreatic Adenocarcinoma. Front Immunol 2021;12:743938. PMID: 34956177
  • Long Q, Wang R, Feng M, Zhao X et al. Construction and Analysis of a Diagnostic Model Based on Differential Expression Genes in Patients With Major Depressive Disorder. Front Psychiatry 2021;12:762683. PMID: 34955918
  • Kuang Z, Tu J, Li X et al. Combined Identification of Novel Markers for Diagnosis and Prognostic of Classic Hodgkin Lymphoma. Int J Gen Med 2021;14:9951-9963. PMID: 34955650
  • Liu H, Tian Y, Li J, Zhang G et al. Identification and functional analysis of lncRNAs and mRNAs between tumorigenesis and metastasis in CRC. Aging (Albany NY) 2021 Dec 26;13(24):25859-25885. PMID: 34954693
  • Li X, Sun H, Liu Q, Liu Y et al. Conjoint analysis of circulating tumor cells and solid tumors for exploring potential prognostic markers and constructing a robust novel predictive signature for breast cancer. Cancer Cell Int 2021 Dec 25;21(1):708. PMID: 34953500
  • Kadefors M, Rolandsson Enes S, Åhrman E, Michaliková B et al. CD105(+)CD90(+)CD13(+) identifies a clonogenic subset of adventitial lung fibroblasts. Sci Rep 2021 Dec 24;11(1):24417. PMID: 34952905
  • Hu Y, Li M, Liu Z, Song X et al. Carbon catabolite repression involves physical interaction of the transcription factor CRE1/CreA and the Tup1-Cyc8 complex in Penicillium oxalicum and Trichoderma reesei. Biotechnol Biofuels 2021 Dec 24;14(1):244. PMID: 34952627
  • Luo M, Huang Z, Yang X, Chen Y et al. PHLDB2 Mediates Cetuximab Resistance via Interacting With EGFR in Latent Metastasis of Colorectal Cancer. Cell Mol Gastroenterol Hepatol 2022;13(4):1223-1242. PMID: 34952201
  • Wang YZ, Liu C, Zhao J, Yu J et al. H2A mono-ubiquitination differentiates FACT's functions in nucleosome assembly and disassembly. Nucleic Acids Res 2022 Jan 25;50(2):833-846. PMID: 34951461
  • Wu D, Wang X, Yang J, Wu Y et al. [Scr eening of key genes and pathways of brain aging and prediction of potential effective Chinese medicinals: based on bioinformatics]. Zhongguo Zhong Yao Za Zhi 2021 Nov;46(21):5701-5709. PMID: 34951224
  • Xia Y, Li X, Tian X, Zhao Q et al. Identification of a Five-Gene Signature Derived From MYCN Amplification and Establishment of a Nomogram for Predicting the Prognosis of Neuroblastoma. Front Mol Biosci 2021;8:769661. PMID: 34950701
  • Chen H, Sun Q, Zhang C, She J et al. Identification and Validation of CYBB, CD86, and C3AR1 as the Key Genes Related to Macrophage Infiltration of Gastric Cancer. Front Mol Biosci 2021;8:756085. PMID: 34950700
  • Zuo Z, Li Y, Zeng C, Xi Y et al. Integrated Analyses Identify Key Molecules and Reveal the Potential Mechanism of miR-182-5p/FOXO1 Axis in Alcoholic Liver Disease. Front Med (Lausanne) 2021;8:767584. PMID: 34950682
  • Li T, Xu J, Liu Y et al. A Novel Circular RNA CircRFX3 Serves as a Sponge for MicroRNA-587 in Promoting Glioblastoma Progression via Regulating PDIA3. Front Cell Dev Biol 2021;9:757260. PMID: 34950658
  • Xu X, Han Z, Ruan Y, Liu M et al. HPV16-LINC00393 Integration Alters Local 3D Genome Architecture in Cervical Cancer Cells. Front Cell Infect Microbiol 2021;11:785169. PMID: 34950609
  • Lu M, Zhan H, Liu B, Li D et al. N6-methyladenosine-related non-coding RNAs are potential prognostic and immunotherapeutic responsiveness biomarkers for bladder cancer. EPMA J 2021 Dec;12(4):589-604. PMID: 34950253
  • Qi L, Ye C, Zhang D, Bai R et al. The Effects of Differentially-Expressed Homeobox Family Genes on the Prognosis and HOXC6 on Immune Microenvironment Orchestration in Colorectal Cancer. Front Immunol 2021;12:781221. PMID: 34950145
  • Li M, Chen H, Yin P, Song J et al. Identification and Clinical Validation of Key Extracellular Proteins as the Potential Biomarkers in Relapsing-Remitting Multiple Sclerosis. Front Immunol 2021;12:753929. PMID: 34950135
  • Luecken MD, Büttner M, Chaichoompu K, Danese A et al. Benchmarking atlas-level data integration in single-cell genomics. Nat Methods 2022 Jan;19(1):41-50. PMID: 34949812
  • Ajaykumar A, Yang JJ et al. Integrative Comparison of Burrows-Wheeler Transform-Based Mapping Algorithm with de Bruijn Graph for Identification of Lung/Liver Cancer-Specific Gene. J Microbiol Biotechnol 2022 Feb 28;32(2):149-159. PMID: 34949753
  • Han Y, Wu J, Gong Z, Zhou Y et al. Identification and development of a novel 5-gene diagnostic model based on immune infiltration analysis of osteoarthritis. J Transl Med 2021 Dec 23;19(1):522. PMID: 34949204
  • Valdebenito-Maturana B, Guatimosim C, Carrasco MA, Tapia JC et al. Spatially Resolved Expression of Transposable Elements in Disease and Somatic Tissue with SpatialTE. Int J Mol Sci 2021 Dec 20;22(24). PMID: 34948421
  • Chiricosta L, Gugliandolo A, Mazzon E et al. SARS-CoV-2 Exacerbates Beta-Amyloid Neurotoxicity, Inflammation and Oxidative Stress in Alzheimer's Disease Patients. Int J Mol Sci 2021 Dec 19;22(24). PMID: 34948400
  • Dana P, Kariya R, Lert-Itthiporn W, Seubwai W et al. Homophilic Interaction of CD147 Promotes IL-6-Mediated Cholangiocarcinoma Invasion via the NF-κB-Dependent Pathway. Int J Mol Sci 2021 Dec 16;22(24). PMID: 34948304
  • Cainelli N, Forestan C, Angeli D, Villegas TR et al. Transcriptomic Insights on the Preventive Action of Apple (cv Granny Smith) Skin Wounding on Superficial Scald Development. Int J Mol Sci 2021 Dec 14;22(24). PMID: 34948219
  • Wang X, Chao N, Zhang A, Kang J et al. Systematic Analysis and Biochemical Characterization of the Caffeoyl Shikimate Esterase Gene Family in Poplar. Int J Mol Sci 2021 Dec 13;22(24). PMID: 34948162
  • Evgeniou M, Sacnun JM, Kratochwill K, Perco P et al. A Meta-Analysis of Human Transcriptomics Data in the Context of Peritoneal Dialysis Identifies Novel Receptor-Ligand Interactions as Potential Therapeutic Targets. Int J Mol Sci 2021 Dec 10;22(24). PMID: 34948074
  • Das S, Rai A, Merchant ML, Cave MC et al. A Comprehensive Survey of Statistical Approaches for Differential Expression Analysis in Single-Cell RNA Sequencing Studies. Genes (Basel) 2021 Dec 2;12(12). PMID: 34946896
  • Marion MC, Ramos PS, Bachali P, Labonte AC et al. Nucleic Acid-Sensing and Interferon-Inducible Pathways Show Differential Methylation in MZ Twins Discordant for Lupus and Overexpression in Independent Lupus Samples: Implications for Pathogenic Mechanism and Drug Targeting. Genes (Basel) 2021 Nov 26;12(12). PMID: 34946847
  • Li X, Dong L, Yu H, Zhang Y et al. Bioinformatic Analysis Identified Hub Genes Associated with Heterocyclic Amines Induced Cytotoxicity of Peripheral Blood Mononuclear Cells. Genes (Basel) 2021 Nov 25;12(12). PMID: 34946837
  • Sen ND, Zhang H, Hinnebusch AG et al. Down-Regulation of Yeast Helicase Ded1 by Glucose Starvation or Heat-Shock Differentially Impairs Translation of Ded1-Dependent mRNAs. Microorganisms 2021 Nov 23;9(12). PMID: 34946015
  • Iosifidis T, Sutanto EN, Montgomery ST, Agudelo-Romero P et al. Dysregulated Notch Signaling in the Airway Epithelium of Children with Wheeze. J Pers Med 2021 Dec 7;11(12). PMID: 34945795
  • Faleiro I, Roberto VP, Demirkol Canli S, Fraunhoffer NA et al. DNA Methylation of PI3K/AKT Pathway-Related Genes Predicts Outcome in Patients with Pancreatic Cancer: A Comprehensive Bioinformatics-Based Study. Cancers (Basel) 2021 Dec 17;13(24). PMID: 34944974
  • Kumar V, McClelland M, Nguyen J, De Robles G et al. Expression of Endogenous Retroviral RNA in Prostate Tumors has Prognostic Value and Shows Differences among Americans of African Versus European/Middle Eastern Ancestry. Cancers (Basel) 2021 Dec 17;13(24). PMID: 34944967
  • Roldán FL, Lozano JJ, Ingelmo-Torres M, Carrasco R et al. Clinicopathological and Molecular Prognostic Classifier for Intermediate/High-Risk Clear Cell Renal Cell Carcinoma. Cancers (Basel) 2021 Dec 17;13(24). PMID: 34944958
  • Gwark S, Ahn HS, Yeom J, Yu J et al. Plasma Proteome Signature to Predict the Outcome of Breast Cancer Patients Receiving Neoadjuvant Chemotherapy. Cancers (Basel) 2021 Dec 14;13(24). PMID: 34944885
  • Quist KM, Solorzano I, Wendel SO, Chintala S et al. Cervical Cancer Development: Implications of HPV16 E6E7-NFX1-123 Regulated Genes. Cancers (Basel) 2021 Dec 8;13(24). PMID: 34944802
  • Mo Q, Wan L, Schell MJ, Jim H et al. Integrative Analysis Identifies Multi-Omics Signatures That Drive Molecular Classification of Uveal Melanoma. Cancers (Basel) 2021 Dec 7;13(24). PMID: 34944787
  • Ewers KM, Patil S, Kopp W, Thomale J et al. HSP90 Inhibition Synergizes with Cisplatin to Eliminate Basal-like Pancreatic Ductal Adenocarcinoma Cells. Cancers (Basel) 2021 Dec 7;13(24). PMID: 34944784
  • Szabolcsi Z, Demeter A, Kiraly P, Balogh A et al. Epigenetic Dysregulation of Trophoblastic Gene Expression in Gestational Trophoblastic Disease. Biomedicines 2021 Dec 17;9(12). PMID: 34944751
  • Tomaszewska W, Kozłowska-Masłoń J, Baranowski D, Perkowska A et al. miR-154 Influences HNSCC Development and Progression through Regulation of the Epithelial-to-Mesenchymal Transition Process and Could Be Used as a Potential Biomarker. Biomedicines 2021 Dec 13;9(12). PMID: 34944712
  • Mizuno K, Tanigawa K, Misono S, Suetsugu T et al. Regulation of Oncogenic Targets by Tumor-Suppressive miR-150-3p in Lung Squamous Cell Carcinoma. Biomedicines 2021 Dec 11;9(12). PMID: 34944699
  • Schreiber J, Liaukouskaya N, Fuhrmann L, Hauser AT et al. BET Proteins Regulate Expression of Osr1 in Early Kidney Development. Biomedicines 2021 Dec 10;9(12). PMID: 34944697
  • Broennimann K, Ricardo-Lax I, Adler J, Michailidis E et al. RNR-R2 Upregulation by a Short Non-Coding Viral Transcript. Biomolecules 2021 Dec 3;11(12). PMID: 34944466
  • Groen N, Leenders F, Mahfouz A, Munoz-Garcia A et al. Single-Cell Transcriptomics Links Loss of Human Pancreatic β-Cell Identity to ER Stress. Cells 2021 Dec 19;10(12). PMID: 34944092
  • Then C, Bellegarde F, Schivre G, Martinière A et al. Plant Viruses Can Alter Aphid-Triggered Calcium Elevations in Infected Leaves. Cells 2021 Dec 14;10(12). PMID: 34944040
  • Reuter S, Kentrup D, Grabner A, Köhler G et al. C4d Deposition after Allogeneic Renal Transplantation in Rats Is Involved in Initial Apoptotic Cell Clearance. Cells 2021 Dec 10;10(12). PMID: 34944007
  • Kiaee K, Jodat YA, Bassous NJ, Matharu N et al. Transcriptomic Mapping of Neural Diversity, Differentiation and Functional Trajectory in iPSC-Derived 3D Brain Organoid Models. Cells 2021 Dec 5;10(12). PMID: 34943930
  • Fang K, Liu D, Pathak SS, Yang B et al. Disruption of Circadian Rhythms by Ambient Light during Neurodevelopment Leads to Autistic-like Molecular and Behavioral Alterations in Adult Mice. Cells 2021 Nov 26;10(12). PMID: 34943821
  • Iborra-Egea O, Gálvez-Montón C, Prat-Vidal C, Roura S et al. Deep Learning Analyses to Delineate the Molecular Remodeling Process after Myocardial Infarction. Cells 2021 Nov 23;10(12). PMID: 34943776
  • Zhang J, Wang W, Zhu S, Chen Y et al. Increased SERPINA3 Level Is Associated with Ulcerative Colitis. Diagnostics (Basel) 2021 Dec 16;11(12). PMID: 34943607
  • Song IH, Kim YA, Heo SH, Bang WS et al. The Association of Estrogen Receptor Activity, Interferon Signaling, and MHC Class I Expression in Breast Cancer. Cancer Res Treat 2022 Oct;54(4):1111-1120. PMID: 34942685
  • Rossi F, Beltran M, Damizia M, Grelloni C et al. Circular RNA ZNF609/CKAP5 mRNA interaction regulates microtubule dynamics and tumorigenicity. Mol Cell 2022 Jan 6;82(1):75-89.e9. PMID: 34942120
  • Haynes JM, Sibuea SM, Aguiar AA, Li F et al. Inhibition of β-catenin dependent WNT signalling upregulates the transcriptional repressor NR0B1 and downregulates markers of an A9 phenotype in human embryonic stem cell-derived dopaminergic neurons: Implications for Parkinson's disease. PLoS One 2021;16(12):e0261730. PMID: 34941945
  • Zhan H, Mo F, Xu Q, Wang S et al. An integrative pan-cancer analysis reveals the oncogenic role of mutS homolog 6 (MSH6) in human tumors. Aging (Albany NY) 2021 Dec 7;13(23):25271-25290. PMID: 34941572
  • Hale CR, Sawicka K, Mora K, Fak JJ et al. FMRP regulates mRNAs encoding distinct functions in the cell body and dendrites of CA1 pyramidal neurons. Elife 2021 Dec 23;10. PMID: 34939924
  • Rejali L, Seyedna SY, Asadzadeh Aghdaei H, Nazemalhosseini Mojarad E et al. Expression and Clinical Significance of Novel Long Noncoding RNA Fibroblast Growth Factor 10AS and FGF10 in Colorectal Cancer. Cell J 2021 Nov;23(6):665-673. PMID: 34939760
  • Tang J, Zhang C, Wang S, Chen J et al. A novel circRNA-miRNA-mRNA network reveals hsa-circ-0040039 as a biomarker for intervertebral disc degeneration. J Int Med Res 2021 Dec;49(12):300060520960983. PMID: 34939437
  • Li GG, Lu Y, He P, Zhang SY et al. Target prediction and activity verification for the antidepressant action of Huangqin (Radix Scutellariae Baicalensis). J Tradit Chin Med 2021 Dec;41(6):845-852. PMID: 34939380
  • Green JL, Osterhout RE, Klova AL, Merkwirth C et al. Molecular characterization of type I IFN-induced cytotoxicity in bladder cancer cells reveals biomarkers of resistance. Mol Ther Oncolytics 2021 Dec 17;23:547-559. PMID: 34938855
  • Liang X, He W, Zhang H, Luo D et al. Inflammatory Cells Accelerated Carotid Artery Calcification via MMP9: Evidences From Single-Cell Analysis. Front Cardiovasc Med 2021;8:766613. PMID: 34938784
  • Zhang M, Chen H, Liang B, Wang X et al. Prognostic Value of mRNAsi/Corrected mRNAsi Calculated by the One-Class Logistic Regression Machine-Learning Algorithm in Glioblastoma Within Multiple Datasets. Front Mol Biosci 2021;8:777921. PMID: 34938774
  • Li T, Yan Z, Wang W, Zhang R et al. SEMA6B Overexpression Predicts Poor Prognosis and Correlates With the Tumor Immunosuppressive Microenvironment in Colorectal Cancer. Front Mol Biosci 2021;8:687319. PMID: 34938771
  • Singh I, Parte P et al. Heterogeneity in the Epigenetic Landscape of Murine Testis-Specific Histone Variants TH2A and TH2B Sharing the Same Bi-Directional Promoter. Front Cell Dev Biol 2021;9:755751. PMID: 34938732
  • Jiang Z, Xing C, Wang P, Liu X et al. Identification of Therapeutic Targets and Prognostic Biomarkers Among Chemokine (C-C Motif) Ligands in the Liver Hepatocellular Carcinoma Microenvironment. Front Cell Dev Biol 2021;9:748269. PMID: 34938730
  • Li Y, Cai Q, Shen X, Chen X et al. Overexpression of B7-H3 Is Associated With Poor Prognosis in Laryngeal Cancer. Front Oncol 2021;11:759528. PMID: 34938657
  • Wang LL, Yan D, Tang X, Zhang M et al. High Expression of BCL11A Predicts Poor Prognosis for Childhood MLL-r ALL. Front Oncol 2021;11:755188. PMID: 34938655
  • Wan R, Bai L, Cai C, Ya W et al. Discovery of tumor immune infiltration-related snoRNAs for predicting tumor immune microenvironment status and prognosis in lung adenocarcinoma. Comput Struct Biotechnol J 2021;19:6386-6399. PMID: 34938414
  • Hu C, Yin L, Chen Z, Waldron RT et al. The unique pancreatic stellate cell gene expression signatures are associated with the progression from acute to chronic pancreatitis. Comput Struct Biotechnol J 2021;19:6375-6385. PMID: 34938413
  • Wang K, Lu Y, Zhao Z, Zhang C et al. Bioinformatics-Based Analysis of lncRNA-mRNA Interaction Network of Mild Hepatic Encephalopathy in Cirrhosis. Comput Math Methods Med 2021;2021:7777699. PMID: 34938356
  • Li F, Sun JY, Wu LD, Qu Q et al. Predictive Biomarkers for Postmyocardial Infarction Heart Failure Using Machine Learning: A Secondary Analysis of a Cohort Study. Evid Based Complement Alternat Med 2021;2021:2903543. PMID: 34938340
  • Xia Y, Zhou X, Ye Z, Yu W et al. Construction and Analysis of Immune Infiltration-Related ceRNA Network for Kidney Stones. Front Genet 2021;12:774155. PMID: 34938320
  • Luo B, Lin J, Cai W, Wang M et al. Identification of the Pyroptosis-Related Gene Signature and Risk Score Model for Colon Adenocarcinoma. Front Genet 2021;12:771847. PMID: 34938319
  • Xu F, Tang Q, Wang Y, Wang G et al. Development and Validation of a Six-Gene Prognostic Signature for Bladder Cancer. Front Genet 2021;12:758612. PMID: 34938313
  • Rauner M, Foessl I, Formosa MM, Kague E et al. Perspective of the GEMSTONE Consortium on Current and Future Approaches to Functional Validation for Skeletal Genetic Disease Using Cellular, Molecular and Animal-Modeling Techniques. Front Endocrinol (Lausanne) 2021;12:731217. PMID: 34938269
  • Liu M, Shan G, Jiang H, Zeng L et al. Identification of miRNA and Their Regulatory Effects Induced by Total Flavonoids From Dracocephalum moldavica in the Treatment of Vascular Dementia. Front Pharmacol 2021;12:796628. PMID: 34938197
  • Guo J, Zhou P, Liu Z, Dai F et al. The Aflibercept-Induced MicroRNA Profile in the Vitreous of Proliferative Diabetic Retinopathy Patients Detected by Next-Generation Sequencing. Front Pharmacol 2021;12:781276. PMID: 34938191
  • Wang X, Guo S, Zhou X, Wang Y et al. Exploring the Molecular Mechanism of lncRNA-miRNA-mRNA Networks in Non-Syndromic Cleft Lip with or without Cleft Palate. Int J Gen Med 2021;14:9931-9943. PMID: 34938111
  • He X, Ding J, Cheng X, Xiong M et al. Hypoxia-Related Gene-Based Signature Can Evaluate the Tumor Immune Microenvironment and Predict the Prognosis of Colon Adenocarcinoma Patients. Int J Gen Med 2021;14:9853-9862. PMID: 34938106
  • Brookes DH, Aghazadeh A, Listgarten J et al. On the sparsity of fitness functions and implications for learning. Proc Natl Acad Sci U S A 2022 Jan 4;119(1). PMID: 34937698
  • Tuong ZK, Loudon KW, Berry B, Richoz N et al. Resolving the immune landscape of human prostate at a single-cell level in health and cancer. Cell Rep 2021 Dec 21;37(12):110132. PMID: 34936871
  • Wang G, Yao H, Gong Y, Lu Z et al. Metabolic detection and systems analyses of pancreatic ductal adenocarcinoma through machine learning, lipidomics, and multi-omics. Sci Adv 2021 Dec 24;7(52):eabh2724. PMID: 34936449
  • Mo S, Song B, Wang Y et al. Transcriptomic Analysis and Novel Gene Pair-Based Signatures for Hepatitis B-Related Hepatocellular Carcinoma. Crit Rev Eukaryot Gene Expr 2021;31(6):37-53. PMID: 34936291
  • Zhu Y, Wu Z, Yan W, Shao F et al. Allosteric inhibition of SHP2 uncovers aberrant TLR7 trafficking in aggravating psoriasis. EMBO Mol Med 2022 Mar 7;14(3):e14455. PMID: 34936223
  • Alameer A, Chicco D et al. geoCancerPrognosticDatasetsRetriever: a bioinformatics tool to easily identify cancer prognostic datasets on Gene Expression Omnibus (GEO). Bioinformatics 2022 Mar 4;38(6):1761-1763. PMID: 34935889
  • Tao HC, Wang C, Ma N, Zhu X et al. Recurrent Superenhancer of the Oncogene POU5F1B in Colorectal Cancers. Biomed Res Int 2021;2021:5405060. PMID: 34934770
  • Ma Y, Guo J, Li D, Cai X et al. Identification of potential key genes and functional role of CENPF in osteosarcoma using bioinformatics and experimental analysis. Exp Ther Med 2022 Jan;23(1):80. PMID: 34934449
  • Chen S, Jin Z, Xin L, Lv L et al. Expression and Clinical Significance of Origin Recognition Complex Subunit 6 in Breast Cancer - A Comprehensive Bioinformatics Analysis. Int J Gen Med 2021;14:9733-9745. PMID: 34934348
  • Ramosaj M, Madsen S, Maillard V, Scandella V et al. Lipid droplet availability affects neural stem/progenitor cell metabolism and proliferation. Nat Commun 2021 Dec 21;12(1):7362. PMID: 34934077
  • Singh N, Ramnarine VR, Song JH, Pandey R et al. The long noncoding RNA H19 regulates tumor plasticity in neuroendocrine prostate cancer. Nat Commun 2021 Dec 21;12(1):7349. PMID: 34934057
  • Mikulasova A, Kent D, Trevisan-Herraz M, Karataraki N et al. Epigenomic translocation of H3K4me3 broad domains over oncogenes following hijacking of super-enhancers. Genome Res 2022 Jul;32(7):1343-1354. PMID: 34933939
  • Huang N, Seow WQ, Appert A, Dong Y et al. Accessible Region Conformation Capture (ARC-C) gives high-resolution insights into genome architecture and regulation. Genome Res 2022 Feb;32(2):357-366. PMID: 34933938
  • Kazemi E, Zargooshi J, Kaboudi M, Izadi F et al. Investigation of gene expression and genetic simultaneous control associated with erectile dysfunction and diabetes. Cell Mol Biol (Noisy-le-grand) 2021 Nov 25;67(3):195-200. PMID: 34933709
  • Bao Y, Gabrielpillai J, Dietrich J, Zarbl R et al. Fibroblast growth factor (FGF), FGF receptor (FGFR), and cyclin D1 (CCND1) DNA methylation in head and neck squamous cell carcinomas is associated with transcriptional activity, gene amplification, human papillomavirus (HPV) status, and sensitivity to tyrosine kinase inhibitors. Clin Epigenetics 2021 Dec 21;13(1):228. PMID: 34933671
  • Li P, Zhang H, Zhang W, Zhang Y et al. TMNP: a transcriptome-based multi-scale network pharmacology platform for herbal medicine. Brief Bioinform 2022 Jan 17;23(1). PMID: 34933331
  • Yang H, Tian W, Zhou B et al. Sarcopenia and a 5-mRNA risk module as a combined factor to predict prognosis for patients with stomach adenocarcinoma. Genomics 2022 Jan;114(1):361-377. PMID: 34933074
  • Tran TA, Zhang QJ, Wang L, Gonzales C et al. Inhibition of Jumonji demethylases reprograms severe dilated cardiomyopathy and prolongs survival. J Biol Chem 2022 Feb;298(2):101515. PMID: 34933013
  • Kubinyecz O, Santos F, Drage D, Reik W et al. Maternal Dppa2 and Dppa4 are dispensable for zygotic genome activation but important for offspring survival. Development 2021 Dec 15;148(24). PMID: 34931676
  • Oberlin S, Rajeswaran R, Trasser M, Barragán-Borrero V et al. Innate, translation-dependent silencing of an invasive transposon in Arabidopsis. EMBO Rep 2022 Feb 3;23(3):e53400. PMID: 34931432
  • Yau TO, Vadakekolathu J, Foulds GA, Du G et al. Hyperactive neutrophil chemotaxis contributes to anti-tumor necrosis factor-α treatment resistance in inflammatory bowel disease. J Gastroenterol Hepatol 2022 Mar;37(3):531-541. PMID: 34931384
  • Carnesecchi J, Boumpas P, van Nierop Y Sanchez P, Domsch K et al. The Hox transcription factor Ultrabithorax binds RNA and regulates co-transcriptional splicing through an interplay with RNA polymerase II. Nucleic Acids Res 2022 Jan 25;50(2):763-783. PMID: 34931250
  • Zhang X, Wang Z, Hu L, Shen X et al. Identification of Potential Genetic Biomarkers and Target Genes of Peri-Implantitis Using Bioinformatics Tools. Biomed Res Int 2021;2021:1759214. PMID: 34931168
  • Zhong B, Cheng B, Huang X, Xiao Q et al. Colorectal cancer-associated fibroblasts promote metastasis by up-regulating LRG1 through stromal IL-6/STAT3 signaling. Cell Death Dis 2021 Dec 20;13(1):16. PMID: 34930899
  • Ma S, Chen X, Zhu X, Tsao PS et al. Leveraging cell-type-specific regulatory networks to interpret genetic variants in abdominal aortic aneurysm. Proc Natl Acad Sci U S A 2022 Jan 4;119(1). PMID: 34930827
  • Wang H, Liu L, Liu C, Wang L et al. Induction of meiosis by embryonic gonadal somatic cells differentiated from pluripotent stem cells. Stem Cell Res Ther 2021 Dec 20;12(1):607. PMID: 34930450
  • Zheng MAnti-influenza T cells in bronchoalveolar microenvironment of critically severe COVID-19 patients. Crit Care 2021 Dec 20;25(1):444. PMID: 34930426
  • Wang N, Li X, Zhong Z, Qiu Y et al. 3D hESC exosomes enriched with miR-6766-3p ameliorates liver fibrosis by attenuating activated stellate cells through targeting the TGFβRII-SMADS pathway. J Nanobiotechnology 2021 Dec 20;19(1):437. PMID: 34930304
  • Cai W, Bao W, Chen S, Yang Y et al. Metabolic syndrome related gene signature predicts the prognosis of patients with pancreatic ductal carcinoma. A novel link between metabolic dysregulation and pancreatic ductal carcinoma. Cancer Cell Int 2021 Dec 20;21(1):698. PMID: 34930261
  • Zhou Q, Li H, Zhang Y, Peng W et al. MicroRNA-513c-5p is involved in the pathogenesis of preeclampsia by regulating of low-density lipoprotein receptor-associated protein 6. BMC Pregnancy Childbirth 2021 Dec 20;21(1):837. PMID: 34930169
  • Kikegawa M, Nakajima A, Yu J, Asai M et al. Molecular profiling of ginsenoside metabolites to identify estrogen receptor alpha activity. Gene 2022 Mar 1;813:146108. PMID: 34929341
  • Li H, Guan K, Liu D, Liu M et al. Identification of mitochondria-related hub genes in sarcopenia and functional regulation of MFG-E8 on ROS-mediated mitochondrial dysfunction and cell cycle arrest. Food Funct 2022 Jan 24;13(2):624-638. PMID: 34928287
  • Jablonski KP, Pirkl M, Ćevid D, Bühlmann P et al. Identifying cancer pathway dysregulations using differential causal effects. Bioinformatics 2022 Mar 4;38(6):1550-1559. PMID: 34927666
  • Nunes IJG, Recamonde-Mendoza M, Feltes BC et al. Gene Expression Analysis Platform (GEAP): A highly customizable, fast, versatile and ready-to-use microarray analysis platform. Genet Mol Biol 2021;45(1):e20210077. PMID: 34927664
  • Liu X, Xu S, Li Y, Chen Q et al. Identification of CALU and PALLD as Potential Biomarkers Associated With Immune Infiltration in Heart Failure. Front Cardiovasc Med 2021;8:774755. PMID: 34926621
  • Wang K, Zhong W, Long Z, Guo Y et al. 5-Methylcytosine RNA Methyltransferases-Related Long Non-coding RNA to Develop and Validate Biochemical Recurrence Signature in Prostate Cancer. Front Mol Biosci 2021;8:775304. PMID: 34926580
  • Song H, Zhuang L, Xu X, Shi J et al. MCC Regulator of WNT Signaling Pathway (MCC) Is a Podocyte Essential Gene. Front Med (Lausanne) 2021;8:777563. PMID: 34926519
  • Wang L, Yu T, Zhang X, Cai X et al. Network Integration Analysis and Immune Infiltration Analysis Reveal Potential Biomarkers for Primary Open-Angle Glaucoma. Front Cell Dev Biol 2021;9:793638. PMID: 34926471
  • Hu J, Yang Y, Ma Y, Ning Y et al. Proliferation Cycle Transcriptomic Signatures are Strongly associated With Gastric Cancer Patient Survival. Front Cell Dev Biol 2021;9:770994. PMID: 34926458
  • Ye F, Liang Y, Hu J, Hu Y et al. DNA Methylation Modification Map to Predict Tumor Molecular Subtypes and Efficacy of Immunotherapy in Bladder Cancer. Front Cell Dev Biol 2021;9:760369. PMID: 34926451
  • Xiao S, Liu X, Yuan L, Wang F et al. A Ferroptosis-Related lncRNAs Signature Predicts Prognosis and Therapeutic Response of Gastric Cancer. Front Cell Dev Biol 2021;9:736682. PMID: 34926441
  • Liu YJ, Hounye AH, Wang Z, Liu X et al. Identification and Validation of Three Autophagy-Related Long Noncoding RNAs as Prognostic Signature in Cholangiocarcinoma. Front Oncol 2021;11:780601. PMID: 34926294
  • Yao J, Duan L, Huang X, Liu J et al. Development and Validation of a Prognostic Gene Signature Correlated With M2 Macrophage Infiltration in Esophageal Squamous Cell Carcinoma. Front Oncol 2021;11:769727. PMID: 34926275
  • Yuan W, Yong W, Zhu J, Shi D et al. DPP4 Regulates DHCR24-Mediated Cholesterol Biosynthesis to Promote Methotrexate Resistance in Gestational Trophoblastic Neoplastic Cells. Front Oncol 2021;11:704024. PMID: 34926239
  • Chen ZY, Yang H, Bu J, Chen Q et al. Prognosis Implication of a Novel Metabolism-Related Gene Signature in Ewing Sarcoma. J Oncol 2021;2021:3578949. PMID: 34925508
  • Zheng S, Xie X, Guo X, Wu Y et al. Identification of a Pyroptosis-Related Gene Signature for Predicting Overall Survival and Response to Immunotherapy in Hepatocellular Carcinoma. Front Genet 2021;12:789296. PMID: 34925465
  • Jin X, Wang J, Ge L, Hu Q et al. Identification of Immune-Related Biomarkers for Sciatica in Peripheral Blood. Front Genet 2021;12:781945. PMID: 34925462
  • Qi L, Xu R, Wan L, Ren X et al. Identification and Validation of a Novel Pyroptosis-Related Gene Signature for Prognosis Prediction in Soft Tissue Sarcoma. Front Genet 2021;12:773373. PMID: 34925457
  • Yang J, Wang J, Tian S, Wang Q et al. An Integrated Analysis of Tumor Purity of Common Central Nervous System Tumors in Children Based on Machine Learning Methods. Front Genet 2021;12:707802. PMID: 34925437
  • Liu Y, Liu C, Zhang H, Yi X et al. Establishment of A Nomogram for Predicting the Prognosis of Soft Tissue Sarcoma Based on Seven Glycolysis-Related Gene Risk Score. Front Genet 2021;12:675865. PMID: 34925434
  • Shehwana H, Ijaz S, Fatima A, Walton S et al. Transcriptome Analysis of Host Inflammatory Responses to the Ectoparasitic Mite Sarcoptes scabiei var. hominis. Front Immunol 2021;12:778840. PMID: 34925353
  • Sur S, Nguyen M, Boada P, Sigdel TK et al. FcER1: A Novel Molecule Implicated in the Progression of Human Diabetic Kidney Disease. Front Immunol 2021;12:769972. PMID: 34925339
  • Santamaria K, Desmots F, Leonard S, Caron G et al. Committed Human CD23-Negative Light-Zone Germinal Center B Cells Delineate Transcriptional Program Supporting Plasma Cell Differentiation. Front Immunol 2021;12:744573. PMID: 34925321
  • Yan Z, He M, He L, Wei L et al. Identification and Validation of a Novel Six-Gene Expression Signature for Predicting Hepatocellular Carcinoma Prognosis. Front Immunol 2021;12:723271. PMID: 34925311
  • Li D, Yuan Q, Xiong L, Li A et al. The miR-4739/DLX3 Axis Modulates Bone Marrow-Derived Mesenchymal Stem Cell (BMSC) Osteogenesis Affecting Osteoporosis Progression. Front Endocrinol (Lausanne) 2021;12:703167. PMID: 34925225
  • Huang W, Fan L, Tang Y, Chi Y et al. A Pan-Cancer Analysis of the Oncogenic Role of Integrin Beta4 (ITGB4) in Human Tumors. Int J Gen Med 2021;14:9629-9645. PMID: 34924769
  • Liu Y, Chen Y, Wang Y, Jiang S et al. DNA demethylase ALKBH1 promotes adipogenic differentiation via regulation of HIF-1 signaling. J Biol Chem 2022 Jan;298(1):101499. PMID: 34922943
  • Jiang T, Wang H, Liu L, Song H et al. CircIL4R activates the PI3K/AKT signaling pathway via the miR-761/TRIM29/PHLPP1 axis and promotes proliferation and metastasis in colorectal cancer. Mol Cancer 2021 Dec 18;20(1):167. PMID: 34922544
  • Liu R, Hu Y, Liu T, Wang Y et al. Profiles of immune cell infiltration and immune-related genes in the tumor microenvironment of osteosarcoma cancer. BMC Cancer 2021 Dec 18;21(1):1345. PMID: 34922489
  • Ruff GL, Murphy KE, Smith ZR, Vertino PM et al. Subtype-Independent ANP32E Reduction During Breast Cancer Progression in Accordance with Chromatin Relaxation. BMC Cancer 2021 Dec 18;21(1):1342. PMID: 34922480
  • Wang J, Fan Q, Yu T, Zhang Y et al. Identifying the hub genes for Duchenne muscular dystrophy and Becker muscular dystrophy by weighted correlation network analysis. BMC Genom Data 2021 Dec 18;22(1):57. PMID: 34922439
  • Liu Z, Guo C, Dang Q, Wang L et al. Integrative analysis from multi-center studies identities a consensus machine learning-derived lncRNA signature for stage II/III colorectal cancer. EBioMedicine 2022 Jan;75:103750. PMID: 34922323
  • Sun H, Kim E, Ryu J, Lee H et al. TM4SF5-mediated liver malignancy involves NK cell exhaustion-like phenotypes. Cell Mol Life Sci 2021 Dec 18;79(1):49. PMID: 34921636
  • Yang E, Guan W, Gong D, Li J et al. Epigenetic silencing of UBXN8 contributes to leukemogenesis in t(8;21) acute myeloid leukemia. Exp Mol Med 2021 Dec;53(12):1902-1910. PMID: 34921223
  • Baloch AA, Raza AM, Rana SSA, Ullah S et al. BrCNGC gene family in field mustard: genome-wide identification, characterization, comparative synteny, evolution and expression profiling. Sci Rep 2021 Dec 17;11(1):24203. PMID: 34921218
  • Dinh HQ, Pan F, Wang G, Huang QF et al. Integrated single-cell transcriptome analysis reveals heterogeneity of esophageal squamous cell carcinoma microenvironment. Nat Commun 2021 Dec 17;12(1):7335. PMID: 34921160
  • Lee BY, Hogg EKJ, Below CR, Kononov A et al. Heterocellular OSM-OSMR signalling reprograms fibroblasts to promote pancreatic cancer growth and metastasis. Nat Commun 2021 Dec 17;12(1):7336. PMID: 34921158
  • Yao F, Deng Y, Zhao Y, Mei Y et al. A targetable LIFR-NF-κB-LCN2 axis controls liver tumorigenesis and vulnerability to ferroptosis. Nat Commun 2021 Dec 17;12(1):7333. PMID: 34921145
  • Xiong D, Li M, Zeng C et al. Construction and validation of a risk scoring model for diffuse large B-cell lymphoma based on ferroptosis-related genes and its association with immune infiltration. Transl Oncol 2022 Feb;16:101314. PMID: 34920339
  • Lam KK, Tang CL, Tan E, Wong SH et al. KRAS mutation-independent downregulation of MAPK/PI3K signaling in colorectal cancer. Mol Oncol 2022 Mar;16(5):1171-1183. PMID: 34919787
  • Erdmann É, Ould Madi Berthélémy P, Cottard F, Angel CZ et al. Androgen receptor-mediated transcriptional repression targets cell plasticity in prostate cancer. Mol Oncol 2022 Jul;16(13):2518-2536. PMID: 34919781
  • Mammadli M, Harris R, Suo L, May A et al. Interleukin-2-inducible T-cell kinase (Itk) signaling regulates potent noncanonical regulatory T cells. Clin Transl Med 2021 Dec;11(12):e625. PMID: 34919342
  • Guo ZY, Zhu ZT et al. NCAPG is a prognostic biomarker associated with vascular invasion in hepatocellular carcinoma. Eur Rev Med Pharmacol Sci 2021 Dec;25(23):7238-7251. PMID: 34919223
  • Xie W, Wu Z et al. Identifying the hub genes and immune infiltration related to pyroptosis in rheumatoid arthritis. Medicine (Baltimore) 2021 Dec 17;100(50):e28321. PMID: 34918712
  • Chen Q, Ren Z, Liu D, Jin Z et al. Identification of prognostic metabolic genes in adrenocortical carcinoma and establishment of a prognostic nomogram: A bioinformatic study. Medicine (Baltimore) 2021 Dec 17;100(50):e27864. PMID: 34918636
  • Valentini S, Marchioretti C, Bisio A, Rossi A et al. TranSNPs: A class of functional SNPs affecting mRNA translation potential revealed by fraction-based allelic imbalance. iScience 2021 Dec 17;24(12):103531. PMID: 34917903
  • Wang RQ, Zhao W, Yang HK, Dong JM et al. Single-Cell RNA Sequencing Analysis of the Heterogeneity in Gene Regulatory Networks in Colorectal Cancer. Front Cell Dev Biol 2021;9:765578. PMID: 34917613
  • Tian W, Wang P, Wang Z, Qi H et al. Phospholipid Phosphatase 4 as a Driver of Malignant Glioma and Pancreatic Adenocarcinoma. Front Oncol 2021;11:790676. PMID: 34917513
  • Peng L, Tao Y, Wu R, Su J et al. NFAT as a Biomarker and Therapeutic Target in Non-Small Cell Lung Cancer-Related Brain Metastasis. Front Oncol 2021;11:781150. PMID: 34917508
  • Liang XH, Feng ZP, Liu FQ, Yan R et al. Identification of potential biomarkers for diagnosis of hepatocellular carcinoma. Exp Ther Med 2022 Jan;23(1):51. PMID: 34917180
  • Xu Y, Hu J, Cao C, Zhang M et al. Distinct Hypoxia-Related Gene Profiling Characterizes Clinicopathological Features and Immune Status of Mismatch Repair-Deficient Colon Cancer. J Oncol 2021;2021:2427427. PMID: 34917146
  • Teng Y, Wang B, Shang D, Yang N et al. Identification and Validation of an Immune and Ferroptosis-Combined Index for Non-Small Cell Lung Cancer. Front Genet 2021;12:764869. PMID: 34917129
  • Liu J, Wang Z, Hao S, Wang F et al. Tcf1 Sustains the Expression of Multiple Regulators in Promoting Early Natural Killer Cell Development. Front Immunol 2021;12:791220. PMID: 34917097
  • Zhang H, Liu Y, Cao X, Wang W et al. Nrf2 Promotes Inflammation in Early Myocardial Ischemia-Reperfusion via Recruitment and Activation of Macrophages. Front Immunol 2021;12:763760. PMID: 34917083
  • Wu L, Wang W, Tian S, Zheng H et al. Identification of Hub Genes in Patients with Alzheimer Disease and Obstructive Sleep Apnea Syndrome Using Integrated Bioinformatics Analysis. Int J Gen Med 2021;14:9491-9502. PMID: 34916831
  • Li SJ, Cai ZW, Yang HF, Tang XD et al. A Next-Generation Sequencing of Plasma Exosome-Derived microRNAs and Target Gene Analysis with a Microarray Database of Thermally Injured Skins: Identification of Blood-to-Tissue Interactions at Early Burn Stage. J Inflamm Res 2021;14:6783-6798. PMID: 34916825
  • Fu Y, He G, Liu Z, Wang J et al. Exploration and Validation of a Novel Inflammatory Response-Associated Gene Signature to Predict Osteosarcoma Prognosis and Immune Infiltration. J Inflamm Res 2021;14:6719-6734. PMID: 34916821
  • Langkabel J, Horne A, Bonaguro L, Holsten L et al. Induction of Rosette-to-Lumen stage embryoids using reprogramming paradigms in ESCs. Nat Commun 2021 Dec 16;12(1):7322. PMID: 34916498
  • Mosler T, Conte F, Longo GMC, Mikicic I et al. R-loop proximity proteomics identifies a role of DDX41 in transcription-associated genomic instability. Nat Commun 2021 Dec 16;12(1):7314. PMID: 34916496
  • Zhao HB, Xu GB, Yang WQ, Li XZ et al. [Bioinformatics-based identification of the key genes associated with prostate cancer]. Zhonghua Nan Ke Xue 2021 Jun;27(6):489-498. PMID: 34914287
  • Chen ZJ, Guan H, Wang S, Xu B et al. [Genes and signaling pathways related to the biochemical recurrence of prostate cancer: An analysis based on the GEO database]. Zhonghua Nan Ke Xue 2021 Jan;27(1):17-25. PMID: 34914276
  • Guo YS, Xu XF, Li N, Sun N et al. [Impact of high-fat diet on gene expression in mouse prostate tissue]. Zhonghua Nan Ke Xue 2021 Aug;27(8):675-679. PMID: 34914237
  • Huang WT, Kuo SH, Kuo YC, Lin CW et al. miR-155-regulated mTOR and Toll-like receptor 5 in gastric diffuse large B-cell lymphoma. Cancer Med 2022 Feb;11(3):555-570. PMID: 34913612
  • Fan J, Shi J, Zhang Y, Liu J et al. NKG2D discriminates diverse ligands through selectively mechano-regulated ligand conformational changes. EMBO J 2022 Dec 17;41(2):e107739. PMID: 34913508
  • Xu K, Shao Y, Saaoud F, Gillespie A et al. Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation. Front Cardiovasc Med 2021;8:773473. PMID: 34912867
  • Das A, Shyamal S, Sinha T, Mishra SS et al. Identification of Potential circRNA-microRNA-mRNA Regulatory Network in Skeletal Muscle. Front Mol Biosci 2021;8:762185. PMID: 34912845
  • Kong X, Xu R, Wang W, Zeng M et al. CircularLRRC7 is a Potential Tumor Suppressor Associated With miR-1281 and PDXP Expression in Glioblastoma. Front Mol Biosci 2021;8:743417. PMID: 34912844
  • Li J, Xu Y, Peng G, Zhu K et al. Identification of the Nerve-Cancer Cross-Talk-Related Prognostic Gene Model in Head and Neck Squamous Cell Carcinoma. Front Oncol 2021;11:788671. PMID: 34912722
  • Han J, Deng X, Sun R, Luo M et al. GPI Is a Prognostic Biomarker and Correlates With Immune Infiltrates in Lung Adenocarcinoma. Front Oncol 2021;11:752642. PMID: 34912709
  • Xu K, Lian F, Quan Y, Liu J et al. Septicemic Melioidosis Detection Using Support Vector Machine with Five Immune Cell Types. Dis Markers 2021;2021:8668978. PMID: 34912476
  • Wang D, Liu Y, Tang D, Wei S et al. Induction of PI3K/Akt-Mediated Apoptosis in Osteoclasts Is a Key Approach for Buxue Tongluo Pills to Treat Osteonecrosis of the Femoral Head. Front Pharmacol 2021;12:729909. PMID: 34912214
  • Zhao T, Chiang ZD, Morriss JW, LaFave LM et al. Spatial genomics enables multi-modal study of clonal heterogeneity in tissues. Nature 2022 Jan;601(7891):85-91. PMID: 34912115
  • Guo H, Wu Y, Nouri M, Spisak S et al. Androgen receptor and MYC equilibration centralizes on developmental super-enhancer. Nat Commun 2021 Dec 15;12(1):7308. PMID: 34911936
  • Qin Y, Chen L, Chen L et al. Identification and verification of key cancer genes associated with prognosis of colorectal cancer based on bioinformatics analysis. Zhong Nan Da Xue Xue Bao Yi Xue Ban 2021 Oct 28;46(10):1063-1070. PMID: 34911835
  • Robinson E, Care MA, Walker K, Campbell M et al. A System for In Vitro Generation of Mature Murine Plasma Cells Uncovers Differential Blimp-1/Prdm1 Promoter Usage. J Immunol 2022 Jan 15;208(2):514-525. PMID: 34911772
  • Isakova A, Neff N, Quake SR et al. Single-cell quantification of a broad RNA spectrum reveals unique noncoding patterns associated with cell types and states. Proc Natl Acad Sci U S A 2021 Dec 21;118(51). PMID: 34911763
  • Ma Q, Caillier SJ, Muzic S, University of California San Francisco MS-EPIC Team et al. Specific hypomethylation programs underpin B cell activation in early multiple sclerosis. Proc Natl Acad Sci U S A 2021 Dec 21;118(51). PMID: 34911760
  • Dasgupta S, Maricic I, Tang J, Wandro S et al. Class Ib MHC-Mediated Immune Interactions Play a Critical Role in Maintaining Mucosal Homeostasis in the Mammalian Large Intestine. Immunohorizons 2021 Dec 15;5(12):953-971. PMID: 34911745
  • Liu R, Kasowitz SD, Homolka D, Leu NA et al. YTHDC2 is essential for pachytene progression and prevents aberrant microtubule-driven telomere clustering in male meiosis. Cell Rep 2021 Dec 14;37(11):110110. PMID: 34910909
  • Long MD, Jacobi JJ, Singh PK, Llimos G et al. Reduced NCOR2 expression accelerates androgen deprivation therapy failure in prostate cancer. Cell Rep 2021 Dec 14;37(11):110109. PMID: 34910907
  • Zhao B, Wang L, Shao Z, Chin K et al. ENAP1 retrains seed germination via H3K9 acetylation mediated positive feedback regulation of ABI5. PLoS Genet 2021 Dec;17(12):e1009955. PMID: 34910726
  • Lian X, Gao C, Sun X, Jiang C et al. Signatures of immune selection in intact and defective proviruses distinguish HIV-1 elite controllers. Sci Transl Med 2021 Dec 15;13(624):eabl4097. PMID: 34910552
  • Evrard C, Faway E, De Vuyst E, Svensek O et al. Deletion of TNFAIP6 Gene in Human Keratinocytes Demonstrates a Role for TSG-6 to Retain Hyaluronan Inside Epidermis. JID Innov 2021 Dec;1(4):100054. PMID: 34909750
  • Wang A, Fogel AL, Murphy MJ, Panse G et al. Cytokine RNA In Situ Hybridization Permits Individualized Molecular Phenotyping in Biopsies of Psoriasis and Atopic Dermatitis. JID Innov 2021 Jun;1(2):100021. PMID: 34909719
  • Liu Y, Lu N, Bi C, Han T et al. FEM: mining biological meaning from cell level in single-cell RNA sequencing data. PeerJ 2021;9:e12570. PMID: 34909283
  • Huang X, Wei X, Qiao S, Zhang X et al. Low Density Lipoprotein Receptor (LDLR) and 3-Hydroxy-3-Methylglutaryl Coenzyme a Reductase (HMGCR) Expression are Associated with Platinum-Resistance and Prognosis in Ovarian Carcinoma Patients. Cancer Manag Res 2021;13:9015-9024. PMID: 34908877
  • Shi Z, Li X, Zhang L, Luo Y et al. Potential Novel Modules and Hub Genes as Prognostic Candidates of Thyroid Cancer by Weighted Gene Co-Expression Network Analysis. Int J Gen Med 2021;14:9433-9444. PMID: 34908870
  • Chai AWY, Tan AC, Cheong SC et al. Uncovering drug repurposing candidates for head and neck cancers: insights from systematic pharmacogenomics data analysis. Sci Rep 2021 Dec 14;11(1):23933. PMID: 34907286
  • Su C, Rousseau S, Emad A et al. Identification of transcriptional regulatory network associated with response of host epithelial cells to SARS-CoV-2. Sci Rep 2021 Dec 14;11(1):23928. PMID: 34907210
  • Maeda Y, Wada H, Sugiyama D, Saito T et al. Depletion of central memory CD8(+) T cells might impede the antitumor therapeutic effect of Mogamulizumab. Nat Commun 2021 Dec 14;12(1):7280. PMID: 34907192
  • Zhang Y, Tan YY, Chen PP, Xu H et al. Genome-wide identification of microRNA targets reveals positive regulation of the Hippo pathway by miR-122 during liver development. Cell Death Dis 2021 Dec 14;12(12):1161. PMID: 34907157
  • Li L, Wang N, Xiong Y, Guo G et al. Transcription Factor FOSL1 Enhances Drug Resistance of Breast Cancer through DUSP7-Mediated Dephosphorylation of PEA15. Mol Cancer Res 2022 Apr 1;20(4):515-526. PMID: 34907034
  • Nim HT, Dang L, Thiyagarajah H, Bakopoulos D et al. A cis-regulatory-directed pipeline for the identification of genes involved in cardiac development and disease. Genome Biol 2021 Dec 15;22(1):335. PMID: 34906219
  • You Y, Tian L, Su S, Dong X et al. Benchmarking UMI-based single-cell RNA-seq preprocessing workflows. Genome Biol 2021 Dec 14;22(1):339. PMID: 34906205
  • Wang X, He H, Rui W, Zhang N et al. TRIM38 triggers the uniquitination and degradation of glucose transporter type 1 (GLUT1) to restrict tumor progression in bladder cancer. J Transl Med 2021 Dec 14;19(1):508. PMID: 34906161
  • Zhang Y, Chen X, Fu Q, Wang F et al. Comprehensive analysis of pyroptosis regulators and tumor immune microenvironment in clear cell renal cell carcinoma. Cancer Cell Int 2021 Dec 14;21(1):667. PMID: 34906145
  • Xia Q, Thompson JA, Koestler DC et al. Batch effect reduction of microarray data with dependent samples using an empirical Bayes approach (BRIDGE). Stat Appl Genet Mol Biol 2021 Dec 14;20(4-6):101-119. PMID: 34905304
  • Zhao LW, Zhu YZ, Wu YW, Pi SB et al. Nuclear poly(A) binding protein 1 (PABPN1) mediates zygotic genome activation-dependent maternal mRNA clearance during mouse early embryonic development. Nucleic Acids Res 2022 Jan 11;50(1):458-472. PMID: 34904664
  • Qi X, Yan D, Zuo J, Wang R et al. Development of a novel chemokine signaling-based multigene signature to predict prognosis and therapeutic response in colorectal cancer. J Zhejiang Univ Sci B 2021 Dec 15;22(12):1053-1059. PMID: 34904417
  • Moore SR, Halldorsdottir T, Martins J, Lucae S et al. Sex differences in the genetic regulation of the blood transcriptome response to glucocorticoid receptor activation. Transl Psychiatry 2021 Dec 13;11(1):632. PMID: 34903727
  • Carrabotta M, Laginestra MA, Durante G, Mancarella C et al. Integrated Molecular Characterization of Patient-Derived Models Reveals Therapeutic Strategies for Treating CIC-DUX4 Sarcoma. Cancer Res 2022 Feb 15;82(4):708-720. PMID: 34903601
  • Hu Z, Ahmed AA, Yau C et al. CIDER: an interpretable meta-clustering framework for single-cell RNA-seq data integration and evaluation. Genome Biol 2021 Dec 13;22(1):337. PMID: 34903266
  • Ou D, Wu Y et al. The prognostic and clinical significance of IFI44L aberrant downregulation in patients with oral squamous cell carcinoma. BMC Cancer 2021 Dec 13;21(1):1327. PMID: 34903206
  • Liu Y, Cheng L, Song X, Li C et al. A TP53-associated immune prognostic signature for the prediction of the overall survival and therapeutic responses in pancreatic cancer. Math Biosci Eng 2022 Jan;19(1):191-208. PMID: 34902987
  • Feng J, He H et al. Signature of arylacetamide deacetylase expression is associated with prognosis and immune infiltration in ovarian cancer. Obstet Gynecol Sci 2022 Jan;65(1):52-63. PMID: 34902961
  • Wang L, Zhu H, Sun W, Liang L et al. Low expression of bestrophin-2 is associated with poor prognosis in colon cancer. Gene 2022 Mar 1;813:146117. PMID: 34902511
  • Bernasconi A, Cascianelli S et al. Scenarios for the Integration of Microarray Gene Expression Profiles in COVID-19-Related Studies. Methods Mol Biol 2022;2401:195-215. PMID: 34902130
  • Chicco DgeneExpressionFromGEO: An R Package to Facilitate Data Reading from Gene Expression Omnibus (GEO). Methods Mol Biol 2022;2401:187-194. PMID: 34902129
  • Yang J, Li Y, Zong C, Zhang Q et al. Xanthatin Selectively Targets Retinoblastoma by Inhibiting the PLK1-Mediated Cell Cycle. Invest Ophthalmol Vis Sci 2021 Dec 1;62(15):11. PMID: 34901994
  • Ju J, Wismans LV, Mustafa DAM, Reinders MJT et al. Robust deep learning model for prognostic stratification of pancreatic ductal adenocarcinoma patients. iScience 2021 Dec 17;24(12):103415. PMID: 34901786
  • Liu Y, Li J, Zeng S, Zhang Y et al. Bioinformatic Analyses and Experimental Verification Reveal that High FSTL3 Expression Promotes EMT via Fibronectin-1/α5β1 Interaction in Colorectal Cancer. Front Mol Biosci 2021;8:762924. PMID: 34901156
  • Jin X, Chen L, Zhou N, Ni H et al. LRMP Associates With Immune Infiltrates and Acts as a Prognostic Biomarker in Lung Adenocarcinoma. Front Mol Biosci 2021;8:711928. PMID: 34901148
  • Sun X, Guo Y, Zhang Y, Zhao P et al. Colon Cancer-Related Genes Identification and Function Study Based on Single-Cell Multi-Omics Integration. Front Cell Dev Biol 2021;9:789587. PMID: 34901030
  • Chen M, Lin W, Ye R, Yi J et al. PPARβ/δ Agonist Alleviates Diabetic Osteoporosis via Regulating M1/M2 Macrophage Polarization. Front Cell Dev Biol 2021;9:753194. PMID: 34901001
  • Liu W, Li C, Wu Y, Xu W et al. Integrating m6A Regulators-Mediated Methylation Modification Models and Tumor Immune Microenvironment Characterization in Caucasian and Chinese Low-Grade Gliomas. Front Cell Dev Biol 2021;9:725764. PMID: 34900988
  • Giannos P, Kechagias KS, Bowden S, Tabassum N et al. PCNA in Cervical Intraepithelial Neoplasia and Cervical Cancer: An Interaction Network Analysis of Differentially Expressed Genes. Front Oncol 2021;11:779042. PMID: 34900731
  • Gao X, Zhao N, Dong L, Zheng X et al. A Novel Lipid Prognostic Signature of ADCY2, LIPE, and OLR1 in Head and Neck Squamous Cell Carcinoma. Front Oncol 2021;11:735993. PMID: 34900686
  • Pan J, Weng Z, Xue C, Lin B et al. The Bioinformatics-Based Analysis Identifies 7 Immune-Related Genes as Prognostic Biomarkers for Colon Cancer. Front Oncol 2021;11:726701. PMID: 34900677
  • Chen P, Wang H, Zhao L, Guo H et al. Immune Checkpoints OX40 and OX40L in Small-Cell Lung Cancer: Predict Prognosis and Modulate Immune Microenvironment. Front Oncol 2021;11:713853. PMID: 34900670
  • Li M, Yue W, Li Q, Yu W et al. Circular RNA Circ_0000098 Elevates ALX4 Expression via Adsorbing miR-1204 to Inhibit the Progression of Hepatocellular Carcinoma. Front Oncol 2021;11:696078. PMID: 34900665
  • Hu X, Liu Y, Bing Z, Ye Q et al. High Moesin Expression Is a Predictor of Poor Prognosis of Breast Cancer: Evidence From a Systematic Review With Meta-Analysis. Front Oncol 2021;11:650488. PMID: 34900662
  • Gutiérrez JAB, Cardona Maya WD et al. In Silico Analysis of Sperm From Ejaculates with Different Semen Characteristics. J Reprod Infertil 2021 Jul-Sep;22(3):210-215. PMID: 34900641
  • Wang MT, Charng MJ, Chi PL, Cheng CC et al. Gene Mutation Annotation and Pedigree for Pulmonary Arterial Hypertension Patients in Han Chinese Patients. Glob Heart 2021;16(1):70. PMID: 34900561
  • Zhou Y, Fang Y, Zhou J, Liu Y et al. NPM1 is a Novel Therapeutic Target and Prognostic Biomarker for Ewing Sarcoma. Front Genet 2021;12:771253. PMID: 34899858
  • Zheng X, Zhou X, Xu H, Jin D et al. A Novel Immune-Gene Pair Signature Revealing the Tumor Microenvironment Features and Immunotherapy Prognosis of Muscle-Invasive Bladder Cancer. Front Genet 2021;12:764184. PMID: 34899849
  • Kang Z, Li W, Yu YH, Che M et al. Identification of Immune-Related Genes Associated With Bladder Cancer Based on Immunological Characteristics and Their Correlation With the Prognosis. Front Genet 2021;12:763590. PMID: 34899848
  • Kong M, Xiang B et al. Identifying Biomarkers to Predict the Prognosis of Biliary Atresia by Weighted Gene Co-Expression Network Analysis. Front Genet 2021;12:760182. PMID: 34899846
  • Du G, Cheng X, Zhang Z, Han L et al. TGF-Beta Induced Key Genes of Osteogenic and Adipogenic Differentiation in Human Mesenchymal Stem Cells and MiRNA-mRNA Regulatory Networks. Front Genet 2021;12:759596. PMID: 34899844
  • Li J, Bushel PR, Lin L, Day K et al. Structural Equation Modeling of In silico Perturbations. Front Genet 2021;12:727532. PMID: 34899830
  • Hamidi F, Gilani N, Belaghi RA, Sarbakhsh P et al. Exploration of Potential miRNA Biomarkers and Prediction for Ovarian Cancer Using Artificial Intelligence. Front Genet 2021;12:724785. PMID: 34899827
  • Yu W, Ma Y, Hou W, Wang F et al. Identification of Immune-Related lncRNA Prognostic Signature and Molecular Subtypes for Glioblastoma. Front Immunol 2021;12:706936. PMID: 34899682
  • Howell MC, Green R, McGill AR, Kahlil RM et al. Activation of Intracellular Complement in Lungs of Patients With Severe COVID-19 Disease Decreases T-Cell Activity in the Lungs. Front Immunol 2021;12:700705. PMID: 34899680
  • Jia L, Chen Z, Zhang Y, Ma L et al. Suppression and Activation of Intracellular Immune Response in Initial Severe Acute Respiratory Syndrome Coronavirus 2 Infection. Front Microbiol 2021;12:768740. PMID: 34899651
  • Shi R, Dai F, He Y, Sun L et al. Comprehensive Analyses of Type 1 Diabetes Ketosis- or Ketoacidosis-Related Genes in Activated CD56(+)CD16(+) NK Cells. Front Endocrinol (Lausanne) 2021;12:750135. PMID: 34899600
  • Park CH, Moon J, Park M, Cheng H et al. Protein Kinase SGK2 Is Induced by the β(3) Adrenergic Receptor-cAMP-PKA-PGC-1α/NT-PGC-1α Axis but Dispensable for Brown/Beige Adipose Tissue Thermogenesis. Front Physiol 2021;12:780312. PMID: 34899399
  • Lu L, Cai Y, Luo X, Wang Z et al. A Core Omnigenic Non-coding Trait Governing Dex-Induced Osteoporotic Effects Identified Without DEXA. Front Pharmacol 2021;12:750959. PMID: 34899306
  • Zhao X, Wu S, Jing J et al. Identifying Diagnostic and Prognostic Biomarkers and Candidate Therapeutic Drugs of Gastric Cancer Based on Transcriptomics and Single-Cell Sequencing. Pathol Oncol Res 2021;27:1609955. PMID: 34899080
  • Ye H, Sun M, Huang S, Xu F et al. Gene Network Analysis of Hepatocellular Carcinoma Identifies Modules Associated with Disease Progression, Survival, and Chemo Drug Resistance. Int J Gen Med 2021;14:9333-9347. PMID: 34898998
  • Thibodeau A, Khetan S, Eroglu A, Tewhey R et al. CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data. PLoS Comput Biol 2021 Dec;17(12):e1009670. PMID: 34898596
  • Li Y, Li Y, Xia Z, Zhang D et al. Identification of a novel immune signature for optimizing prognosis and treatment prediction in colorectal cancer. Aging (Albany NY) 2021 Dec 13;13(23):25518-25549. PMID: 34898475
  • Wu P, Shi J, Sun W, Zhang H et al. The prognostic value of plasma complement factor B (CFB) in thyroid carcinoma. Bioengineered 2021 Dec;12(2):12854-12866. PMID: 34898340
  • Rodríguez-Barrueco R, Latorre J, Devis-Jáuregui L, Lluch A et al. A microRNA Cluster Controls Fat Cell Differentiation and Adipose Tissue Expansion By Regulating SNCG. Adv Sci (Weinh) 2022 Feb;9(4):e2104759. PMID: 34898027
  • Engel SR, Wong ED, Nash RS, Aleksander S et al. New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources. Genetics 2022 Apr 4;220(4). PMID: 34897464
  • Liang J, Li X, Xu J, Cai GM et al. hsa_circ_0072389, hsa_circ_0072386, hsa_circ_0008621, hsa_circ_0072387, and hsa_circ_0072391 aggravate glioma via miR-338-5p/IKBIP. Aging (Albany NY) 2021 Dec 12;13(23):25213-25240. PMID: 34897031
  • Konwar C, Asiimwe R, Inkster AM, Merrill SM et al. Risk-focused differences in molecular processes implicated in SARS-CoV-2 infection: corollaries in DNA methylation and gene expression. Epigenetics Chromatin 2021 Dec 11;14(1):54. PMID: 34895312
  • Sun R, Zhou Y, Cui Q et al. Comparative analysis of aneurysm subtypes associated genes based on protein-protein interaction network. BMC Bioinformatics 2021 Dec 11;22(1):587. PMID: 34895131
  • Shi D, Mu S, Pu F, Liu J et al. Integrative analysis of immune-related multi-omics profiles identifies distinct prognosis and tumor microenvironment patterns in osteosarcoma. Mol Oncol 2022 Jun;16(11):2174-2194. PMID: 34894177
  • Morante-Palacios O, Ciudad L, Micheroli R, de la Calle-Fabregat C et al. Coordinated glucocorticoid receptor and MAFB action induces tolerogenesis and epigenome remodeling in dendritic cells. Nucleic Acids Res 2022 Jan 11;50(1):108-126. PMID: 34893889
  • Kitzman SC, Duan T, Pufall MA, Geyer PK et al. Checkpoint activation drives global gene expression changes in Drosophila nuclear lamina mutants. G3 (Bethesda) 2022 Feb 4;12(2). PMID: 34893833
  • Li X, Yuan B, Lu M, Wang Y et al. The methyltransferase METTL3 negatively regulates nonalcoholic steatohepatitis (NASH) progression. Nat Commun 2021 Dec 10;12(1):7213. PMID: 34893641
  • D'Oto A, Fang J, Jin H, Xu B et al. KDM6B promotes activation of the oncogenic CDK4/6-pRB-E2F pathway by maintaining enhancer activity in MYCN-amplified neuroblastoma. Nat Commun 2021 Dec 10;12(1):7204. PMID: 34893606
  • Jia Y, Zhou J, Tan TK, Chung TH et al. Super Enhancer-Mediated Upregulation of HJURP Promotes Growth and Survival of t(4;14)-Positive Multiple Myeloma. Cancer Res 2022 Feb 1;82(3):406-418. PMID: 34893510
  • Qin W, Qian SX, Cai XH, Lu XZ et al. [Analysis of the Differential Expression of circRNA in Acute Myeloid Leukemia by GEO Database]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2021 Dec;29(6):1719-1726. PMID: 34893100
  • Jia Y, Tian C, Wang H, Yu F et al. Long non-coding RNA NORAD/miR-224-3p/MTDH axis contributes to CDDP resistance of esophageal squamous cell carcinoma by promoting nuclear accumulation of β-catenin. Mol Cancer 2021 Dec 10;20(1):162. PMID: 34893064
  • Zhang S, Lv M, Cheng Y, Wang S et al. Immune landscape of advanced gastric cancer tumor microenvironment identifies immunotherapeutic relevant gene signature. BMC Cancer 2021 Dec 11;21(1):1324. PMID: 34893046
  • Das SK, Kuzin V, Cameron DP, Sanford S et al. MYC assembles and stimulates topoisomerases 1 and 2 in a "topoisome". Mol Cell 2022 Jan 6;82(1):140-158.e12. PMID: 34890565
  • Raghavan S, Winter PS, Navia AW, Williams HL et al. Microenvironment drives cell state, plasticity, and drug response in pancreatic cancer. Cell 2021 Dec 9;184(25):6119-6137.e26. PMID: 34890551
  • Sheffield NC, Stolarczyk M, Reuter VP, Rendeiro AF et al. Linking big biomedical datasets to modular analysis with Portable Encapsulated Projects. Gigascience 2021 Dec 6;10(12). PMID: 34890448
  • Schiebout C, Frost HR et al. CAMML: Multi-Label Immune Cell-Typing and Stemness Analysis for Single-Cell RNA-sequencing. Pac Symp Biocomput 2022;27:199-210. PMID: 34890149
  • Ren N, Li Y, Xiong Y, Li P et al. Functional Screenings Identify Regulatory Variants Associated with Breast Cancer Susceptibility. Curr Issues Mol Biol 2021 Oct 26;43(3):1756-1777. PMID: 34889888
  • Wong CJ, Whiddon JL, Langford AT, Belleville AE et al. Canine DUXC: implications for DUX4 retrotransposition and preclinical models of FSHD. Hum Mol Genet 2022 May 19;31(10):1694-1704. PMID: 34888646
  • Hayes M, Nguyen A, Islam R, Butler C et al. HolistIC: leveraging Hi-C and whole genome shotgun sequencing for double minute chromosome discovery. Bioinformatics 2022 Feb 7;38(5):1208-1215. PMID: 34888626
  • Teekakirikul P, Zhu W, Gabriel GC, Young CB et al. Common deletion variants causing protocadherin-α deficiency contribute to the complex genetics of BAV and left-sided congenital heart disease. HGG Adv 2021 Jul 8;2(3). PMID: 34888534
  • Yi X, Zheng Z, Xu H, Zhou Y et al. Interrogating cell type-specific cooperation of transcriptional regulators in 3D chromatin. iScience 2021 Dec 17;24(12):103468. PMID: 34888502
  • Zheng B, Xie F, Cheng F, Wang J et al. Integrative Analysis of Immune-Related Genes in the Tumor Microenvironment of Renal Clear Cell Carcinoma and Renal Papillary Cell Carcinoma. Front Mol Biosci 2021;8:760031. PMID: 34888353
  • Deng L, Wang D, Chen S, Hu W et al. Epiphycan Predicts Poor Outcomes and Promotes Metastasis in Ovarian Cancer. Front Oncol 2021;11:653782. PMID: 34888227
  • Wang XM, Chen SW, Chen G, Zhou HF et al. Clinical Value and Potential Mechanism of miRNA-33a-5p in Lung Squamous Cell Carcinoma. Anal Cell Pathol (Amst) 2021;2021:6614331. PMID: 34888137
  • Du A, Wu X, Gao Y, Jiang B et al. m6A Regulator-Mediated Methylation Modification Patterns and Tumor Microenvironment Infiltration Characterization in Acute Myeloid Leukemia. Front Immunol 2021;12:789914. PMID: 34887874
  • Wang S, Ren D, Arkoun B, Kaushik AL et al. Lyl-1 regulates primitive macrophages and microglia development. Commun Biol 2021 Dec 9;4(1):1382. PMID: 34887504
  • Taher L, Israel S, Drexler HCA, Makalowski W et al. The proteome, not the transcriptome, predicts that oocyte superovulation affects embryonic phenotypes in mice. Sci Rep 2021 Dec 9;11(1):23731. PMID: 34887460
  • Poetz F, Corbo J, Levdansky Y, Spiegelhalter A et al. RNF219 attenuates global mRNA decay through inhibition of CCR4-NOT complex-mediated deadenylation. Nat Commun 2021 Dec 9;12(1):7175. PMID: 34887419
  • Tin A, Schlosser P, Matias-Garcia PR, Thio CHL et al. Epigenome-wide association study of serum urate reveals insights into urate co-regulation and the SLC2A9 locus. Nat Commun 2021 Dec 9;12(1):7173. PMID: 34887389
  • Du N, Dong D, Sun L, Che L et al. Identification of ACOT13 and PTGER2 as novel candidate genes of autosomal dominant polycystic kidney disease through whole exome sequencing. Eur J Med Res 2021 Dec 9;26(1):142. PMID: 34886911
  • Xu D, Zhang Y, Jin F et al. The role of AKR1 family in tamoxifen resistant invasive lobular breast cancer based on data mining. BMC Cancer 2021 Dec 9;21(1):1321. PMID: 34886806
  • Lien TG, Ohnstad HO, Lingjærde OC, Vallon-Christersson J et al. Sample Preparation Approach Influences PAM50 Risk of Recurrence Score in Early Breast Cancer. Cancers (Basel) 2021 Dec 4;13(23). PMID: 34885228
  • Fan H, Jia P, Zhao Z et al. Cell-Type-Specific Profibrotic Scores across Multi-Organ Systems Predict Cancer Prognosis. Cancers (Basel) 2021 Nov 30;13(23). PMID: 34885134
  • Yalçin M, Malhan D, Basti A, Peralta AR et al. A Computational Analysis in a Cohort of Parkinson's Disease Patients and Clock-Modified Colorectal Cancer Cells Reveals Common Expression Alterations in Clock-Regulated Genes. Cancers (Basel) 2021 Nov 28;13(23). PMID: 34885088
  • Verma S, Shankar E, Lin S, Singh V et al. Identification of Key Genes Associated with Progression and Prognosis of Bladder Cancer through Integrated Bioinformatics Analysis. Cancers (Basel) 2021 Nov 25;13(23). PMID: 34885040
  • Misiak D, Bauer M, Lange J, Haase J et al. MiRNA Deregulation Distinguishes Anaplastic Thyroid Carcinoma (ATC) and Supports Upregulation of Oncogene Expression. Cancers (Basel) 2021 Nov 24;13(23). PMID: 34885022
  • Chen C, Tian J, He Z, Xiong W et al. Identified Three Interferon Induced Proteins as Novel Biomarkers of Human Ischemic Cardiomyopathy. Int J Mol Sci 2021 Dec 4;22(23). PMID: 34884921
  • Buskin A, Singh P, Lorenz O, Robson C et al. A Review of Prostate Organogenesis and a Role for iPSC-Derived Prostate Organoids to Study Prostate Development and Disease. Int J Mol Sci 2021 Dec 3;22(23). PMID: 34884905
  • Yang LY, Tsai MY, Juan SH, Chang SF et al. Exerting the Appropriate Application of Methylprednisolone in Acute Spinal Cord Injury Based on Time Course Transcriptomics Analysis. Int J Mol Sci 2021 Dec 1;22(23). PMID: 34884829
  • Giralt I, Gallo-Oller G, Navarro N, Zarzosa P et al. Dickkopf-1 Inhibition Reactivates Wnt/β-Catenin Signaling in Rhabdomyosarcoma, Induces Myogenic Markers In Vitro and Impairs Tumor Cell Survival In Vivo. Int J Mol Sci 2021 Nov 29;22(23). PMID: 34884726
  • Zhang ML, Jin Y, Zhao LH, Zhang J et al. Derivation of Porcine Extra-Embryonic Endoderm Cell Lines Reveals Distinct Signaling Pathway and Multipotency States. Int J Mol Sci 2021 Nov 29;22(23). PMID: 34884722
  • Tsai HC, Lai YY, Hsu HC, Fong YC et al. CCL4 Stimulates Cell Migration in Human Osteosarcoma via the mir-3927-3p/Integrin αvβ3 Axis. Int J Mol Sci 2021 Nov 25;22(23). PMID: 34884541
  • Patel D, Dabhi AM, Dmello C, Seervi M et al. FKBP1A upregulation correlates with poor prognosis and increased metastatic potential of HNSCC. Cell Biol Int 2022 Mar;46(3):443-453. PMID: 34882900
  • Strauss P, Mikkelsen H, Furriol J et al. Variable expression of eighteen common housekeeping genes in human non-cancerous kidney biopsies. PLoS One 2021;16(12):e0259373. PMID: 34882702
  • Luo Y, Zhou Q, Zhu F, Fan L et al. Hypomethylation-driven AKT Serine/Threonine Kinase 3 promotes testicular germ cell tumors proliferation and negatively correlates to immune infiltration. Bioengineered 2021 Dec;12(2):11288-11302. PMID: 34882061
  • Dasgupta S, Ghosh N, Choudhury P, Joshi M et al. NMR metabolomic and microarray-based transcriptomic data integration identifies unique molecular signatures of hypersensitivity pneumonitis. Mol Omics 2022 Feb 21;18(2):101-111. PMID: 34881764
  • Yu Z, Deng P, Chen Y, Liu S et al. Inhibition of the PLK1-Coupled Cell Cycle Machinery Overcomes Resistance to Oxaliplatin in Colorectal Cancer. Adv Sci (Weinh) 2021 Dec;8(23):e2100759. PMID: 34881526
  • Ren XB, Zhao J, Liang XF, Guo XD et al. Identification TRIM46 as a Potential Biomarker and Therapeutic Target for Clear Cell Renal Cell Carcinoma Through Comprehensive Bioinformatics Analyses. Front Med (Lausanne) 2021;8:785331. PMID: 34881275
  • Liu X, Zhang Y, Wang Z, Liu L et al. PRRC2A Promotes Hepatocellular Carcinoma Progression and Associates with Immune Infiltration. J Hepatocell Carcinoma 2021;8:1495-1511. PMID: 34881207
  • Zhang Y, Li CY, Pan M, Li JY et al. Exploration of the Key Proteins of High-Grade Intraepithelial Neoplasia to Adenocarcinoma Sequence Using In-Depth Quantitative Proteomics Analysis. J Oncol 2021;2021:5538756. PMID: 34880916
  • Peng L, Wang X, Bing D et al. Identification and Validation of Prognostic Factors of Lipid Metabolism in Obstructive Sleep Apnea. Front Genet 2021;12:747576. PMID: 34880901
  • Zhang Z, Tan Z, Lv Q, Wang L et al. High Expression of C1ORF112 Predicts a Poor Outcome: A Potential Target for the Treatment of Low-Grade Gliomas. Front Genet 2021;12:710944. PMID: 34880897
  • Sun Q, Li Y, Yang X, Wu X et al. Identification and Validation of 17-lncRNA Related to Regulatory T Cell Heterogeneity as a Prognostic Signature for Head and Neck Squamous Cell Carcinoma. Front Immunol 2021;12:782216. PMID: 34880875
  • Zhang ZC, Guo JN, Zhang N, Wang ZQ et al. Identification and Validation of Immune-Related Gene for Predicting Prognosis and Therapeutic Response in Ovarian Cancer. Front Immunol 2021;12:763791. PMID: 34880862
  • Li Y, Chen S, Li X, Wang X et al. CD247, a Potential T Cell-Derived Disease Severity and Prognostic Biomarker in Patients With Idiopathic Pulmonary Fibrosis. Front Immunol 2021;12:762594. PMID: 34880861
  • Zhang C, Feng YG, Tam C, Wang N et al. Transcriptional Profiling and Machine Learning Unveil a Concordant Biosignature of Type I Interferon-Inducible Host Response Across Nasal Swab and Pulmonary Tissue for COVID-19 Diagnosis. Front Immunol 2021;12:733171. PMID: 34880855
  • Luo Y, Huang X, Zhan J, Zhang S et al. Role of CD5L and SRD5A2 as Prognostic Biomarkers for Hepatocellular Carcinoma. Int J Gen Med 2021;14:9247-9260. PMID: 34880664
  • Ye C, Zhu S, Yuan J et al. Construction of ceRNA Network to Reveal Potential Biomarkers in Crohn's Disease and Validation in a TNBS Induced Mice Model. J Inflamm Res 2021;14:6447-6459. PMID: 34880646
  • Huang TC, Wang YF, Vazquez-Ferrer E, Theofel I et al. Sex-specific chromatin remodelling safeguards transcription in germ cells. Nature 2021 Dec;600(7890):737-742. PMID: 34880491
  • Bartlett TE, Jia P, Chandna S, Roy S et al. Inference of tissue relative proportions of the breast epithelial cell types luminal progenitor, basal, and luminal mature. Sci Rep 2021 Dec 8;11(1):23702. PMID: 34880407
  • Zhou Q, Ji L, Shi X, Deng D et al. INTS8 is a therapeutic target for intrahepatic cholangiocarcinoma via the integration of bioinformatics analysis and experimental validation. Sci Rep 2021 Dec 8;11(1):23649. PMID: 34880328
  • Rosenbaum SR, Tiago M, Caksa S, Capparelli C et al. SOX10 requirement for melanoma tumor growth is due, in part, to immune-mediated effects. Cell Rep 2021 Dec 7;37(10):110085. PMID: 34879275
  • Yang J, Zhou J, Li C, Wang S et al. Integrated analysis of the functions and prognostic values of RNA-binding proteins in neuroblastoma. PLoS One 2021;16(12):e0260876. PMID: 34879089
  • Schneider-Lunitz V, Ruiz-Orera J, Hubner N, van Heesch S et al. Multifunctional RNA-binding proteins influence mRNA abundance and translational efficiency of distinct sets of target genes. PLoS Comput Biol 2021 Dec;17(12):e1009658. PMID: 34879078
  • Clayton SA, Daley KK, MacDonald L, Fernandez-Vizarra E et al. Inflammation causes remodeling of mitochondrial cytochrome c oxidase mediated by the bifunctional gene C15orf48. Sci Adv 2021 Dec 10;7(50):eabl5182. PMID: 34878835
  • Zhu H, Tao Y, Huang Q, Chen Z et al. Identification of ferroptosis-related genes as potential biomarkers of tongue squamous cell carcinoma using an integrated bioinformatics approach. FEBS Open Bio 2022 Feb;12(2):412-429. PMID: 34878732
  • De Sarkar N, Dasgupta S, Chatterjee P, Coleman I et al. Genomic attributes of homology-directed DNA repair deficiency in metastatic prostate cancer. JCI Insight 2021 Dec 8;6(23). PMID: 34877933
  • Miyake M, Zhang J, Yasue A, Hisanaga S et al. Integrated stress response regulates GDF15 secretion from adipocytes, preferentially suppresses appetite for a high-fat diet and improves obesity. iScience 2021 Dec 17;24(12):103448. PMID: 34877504
  • Morozzi G, Rothen J, Toussaint G, De Lange K et al. STING regulates peripheral nerve regeneration and colony stimulating factor 1 receptor (CSF1R) processing in microglia. iScience 2021 Dec 17;24(12):103434. PMID: 34877494
  • Zhang S, Xiang X, Liu L, Yang H et al. Bioinformatics Analysis of Hub Genes and Potential Therapeutic Agents Associated with Gastric Cancer. Cancer Manag Res 2021;13:8929-8951. PMID: 34876855
  • Wang J, Zhang Y, Liu X, Liu H et al. Is the Fixed Periodic Treatment Effective for the Tumor System without Complete Information? Cancer Manag Res 2021;13:8915-8928. PMID: 34876854
  • Liu X, Zhong G, Li W, Zeng Y et al. The Construction and Comprehensive Analysis of a ceRNA Immunoregulatory Network and Tissue-Infiltrating Immune Cells in Atrial Fibrillation. Int J Gen Med 2021;14:9051-9066. PMID: 34876841
  • Li L, Yu X, Ma G, Ji Z et al. Identification of an Innate Immune-Related Prognostic Signature in Early-Stage Lung Squamous Cell Carcinoma. Int J Gen Med 2021;14:9007-9022. PMID: 34876838
  • Gerber JP, Russ J, Chandrasekar V, Offermann N et al. Aberrant chromatin landscape following loss of the H3.3 chaperone Daxx in haematopoietic precursors leads to Pu.1-mediated neutrophilia and inflammation. Nat Cell Biol 2021 Dec;23(12):1224-1239. PMID: 34876685
  • Colon A, Hirday R, Patel A, Poddar A et al. A computational pipeline for functional gene discovery. Sci Rep 2021 Dec 7;11(1):23522. PMID: 34876638
  • Qi G, Ma H, Li Y, Peng J et al. TTK inhibition increases cisplatin sensitivity in high-grade serous ovarian carcinoma through the mTOR/autophagy pathway. Cell Death Dis 2021 Dec 7;12(12):1135. PMID: 34876569
  • Ding H, Huang Y, Shi J, Wang L et al. Attenuated expression of SNF5 facilitates progression of bladder cancer via STAT3 activation. Cancer Cell Int 2021 Dec 7;21(1):655. PMID: 34876150
  • Lin H, Xia L, Lian J, Chen Y et al. Delineation of colorectal cancer ligand-receptor interactions and their roles in the tumor microenvironment and prognosis. J Transl Med 2021 Dec 7;19(1):497. PMID: 34876143
  • Zeng H, Fu Y, Shen L, Quan S et al. MicroRNA signatures in plasma and plasma exosome during window of implantation for implantation failure following in-vitro fertilization and embryo transfer. Reprod Biol Endocrinol 2021 Dec 7;19(1):180. PMID: 34876134
  • Kim SK, Jung SM, Park KS, Kim KJ et al. Integrative analysis of lung molecular signatures reveals key drivers of idiopathic pulmonary fibrosis. BMC Pulm Med 2021 Dec 7;21(1):404. PMID: 34876074
  • Xu C, Cai L, Gao J et al. An efficient scRNA-seq dropout imputation method using graph attention network. BMC Bioinformatics 2021 Dec 7;22(1):582. PMID: 34876032
  • Li X, Zhang H, Liu J, Li P et al. Five crucial prognostic-related autophagy genes stratified female breast cancer patients aged 40-60 years. BMC Bioinformatics 2021 Dec 7;22(1):580. PMID: 34876005
  • Zhang Z, Zhang L, Shen Y et al. Identification of immune features of HIV-infected patients with antiretroviral therapy through bioinformatics analysis. Virology 2022 Jan;566:69-74. PMID: 34875552
  • Engel KL, Lo HG, Goering R, Li Y et al. Analysis of subcellular transcriptomes by RNA proximity labeling with Halo-seq. Nucleic Acids Res 2022 Feb 28;50(4):e24. PMID: 34875090
  • Diaz-Gimeno P, Sebastian-Leon P, Sanchez-Reyes JM, Spath K et al. Identifying and optimizing human endometrial gene expression signatures for endometrial dating. Hum Reprod 2022 Jan 28;37(2):284-296. PMID: 34875061
  • Kinoshita M, Kobayashi T, Planells B, Klisch D et al. Pluripotent stem cells related to embryonic disc exhibit common self-renewal requirements in diverse livestock species. Development 2021 Dec 1;148(23). PMID: 34874452
  • Mauduit D, Taskiran II, Minnoye L, de Waegeneer M et al. Analysis of long and short enhancers in melanoma cell states. Elife 2021 Dec 7;10. PMID: 34874265
  • Peng M, de Vries RP et al. Machine learning prediction of novel pectinolytic enzymes in Aspergillus niger through integrating heterogeneous (post-) genomics data. Microb Genom 2021 Dec;7(12). PMID: 34874247
  • Immanuel SRC, Arrieta-Ortiz ML, Ruiz RA, Pan M et al. Quantitative prediction of conditional vulnerabilities in regulatory and metabolic networks using PRIME. NPJ Syst Biol Appl 2021 Dec 6;7(1):43. PMID: 34873198
  • Huang Y, Zheng W, Ji C, Wang X et al. Circular RNA circRPPH1 promotes breast cancer progression via circRPPH1-miR-512-5p-STAT1 axis. Cell Death Discov 2021 Dec 6;7(1):376. PMID: 34873163
  • Tang M, Abbas HA, Negrao MV, Ramineni M et al. The histologic phenotype of lung cancers is associated with transcriptomic features rather than genomic characteristics. Nat Commun 2021 Dec 6;12(1):7081. PMID: 34873156
  • Yu SCY, Jiang P, Peng W, Cheng SH et al. Single-molecule sequencing reveals a large population of long cell-free DNA molecules in maternal plasma. Proc Natl Acad Sci U S A 2021 Dec 14;118(50). PMID: 34873045
  • Foox J, Nordlund J, Lalancette C, Gong T et al. The SEQC2 epigenomics quality control (EpiQC) study. Genome Biol 2021 Dec 6;22(1):332. PMID: 34872606
  • Xiang B, Deng C, Qiu F, Li J et al. Single cell sequencing analysis identifies genetics-modulated ORMDL3(+) cholangiocytes having higher metabolic effects on primary biliary cholangitis. J Nanobiotechnology 2021 Dec 6;19(1):406. PMID: 34872583
  • Wang Y, Tan H, Yu T, Ma X et al. The identification of gene signatures in patients with extranodal NK/T-cell lymphoma from a pair of twins. BMC Cancer 2021 Dec 6;21(1):1303. PMID: 34872521
  • Wang L, Gao Y, Wang S, Zhang Q et al. Genome-wide identification of PME genes, evolution and expression analyses in soybean (Glycine max L.). BMC Plant Biol 2021 Dec 6;21(1):578. PMID: 34872520
  • Xiao C, Jin HG, Zhang LC, Liu JQ et al. Effects of SPARCL1 on the proliferation and differentiation of sheep preadipocytes. Adipocyte 2021 Dec;10(1):658-669. PMID: 34872433
  • Röling M, Mollapour Sisakht M, Ne E, Moulos P et al. A Two-Color Haploid Genetic Screen Identifies Novel Host Factors Involved in HIV-1 Latency. mBio 2021 Dec 21;12(6):e0298021. PMID: 34872356
  • Li X, Huang Y, Ye N, He J et al. Analysis of immune-related genes in idiopathic pulmonary fibrosis based on bioinformatics and experimental verification. Ann Palliat Med 2021 Nov;10(11):11598-11614. PMID: 34872285
  • Ji J, Xie M, Qian Q, Xu Y et al. SOX9-mediated UGT8 expression promotes glycolysis and maintains the malignancy of non-small cell lung cancer. Biochem Biophys Res Commun 2022 Jan 8;587:139-145. PMID: 34872002
  • Dong X, Lu G, Su X, Liu J et al. Identification of key miRNA signature and pathways involved in multiple myeloma by integrated bioinformatics analysis. Hematology 2021 Dec;26(1):976-984. PMID: 34871535
  • Li J, Zhang Z, Hu J, Wan X et al. MiR-1246 regulates the PI3K/AKT signaling pathway by targeting PIK3AP1 and inhibits thyroid cancer cell proliferation and tumor growth. Mol Cell Biochem 2022 Mar;477(3):649-661. PMID: 34870753
  • Borella R, De Biasi S, Paolini A, Boraldi F et al. Metabolic reprograming shapes neutrophil functions in severe COVID-19. Eur J Immunol 2022 Mar;52(3):484-502. PMID: 34870329
  • Valencia K, Sainz C, Bértolo C, de Biurrun G et al. Two cell line models to study multiorganic metastasis and immunotherapy in lung squamous cell carcinoma. Dis Model Mech 2022 Jan 1;15(1). PMID: 34870316
  • Yun W, Qian L, Yuan R, Xu H et al. Periplocymarin Alleviates Doxorubicin-Induced Heart Failure and Excessive Accumulation of Ceramides. Front Cardiovasc Med 2021;8:732554. PMID: 34869633
  • Dai Z, Liu T, Liu G, Deng Z et al. Identification of Clinical and Tumor Microenvironment Characteristics of Hypoxia-Related Risk Signature in Lung Adenocarcinoma. Front Mol Biosci 2021;8:757421. PMID: 34869590
  • Arnone D, Vallier M, Hergalant S, Chabot C et al. Long-Term Overconsumption of Fat and Sugar Causes a Partially Reversible Pre-inflammatory Bowel Disease State. Front Nutr 2021;8:758518. PMID: 34869528
  • Day K, Seale LA, Graham RM, Cardoso BR et al. Selenotranscriptome Network in Non-alcoholic Fatty Liver Disease. Front Nutr 2021;8:744825. PMID: 34869521
  • Cao Y, Wu HN, Cao XL, Yue KY et al. Transmembrane Protein Ttyh1 Maintains the Quiescence of Neural Stem Cells Through Ca(2+)/NFATc3 Signaling. Front Cell Dev Biol 2021;9:779373. PMID: 34869383
  • Fan C, Ma Y, Chen S, Zhou Q et al. Comprehensive Analysis of the Transcriptome-Wide m6A Methylation Modification Difference in Liver Fibrosis Mice by High-Throughput m6A Sequencing. Front Cell Dev Biol 2021;9:767051. PMID: 34869362
  • Dai C, Chen M, Wang C, Hao X et al. Deconvolution of Bulk Gene Expression Profiles with Single-Cell Transcriptomics to Develop a Cell Type Composition-Based Prognostic Model for Acute Myeloid Leukemia. Front Cell Dev Biol 2021;9:762260. PMID: 34869351
  • Zhang MY, Huo C, Liu JY, Shi ZE et al. Identification of a Five Autophagy Subtype-Related Gene Expression Pattern for Improving the Prognosis of Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:756911. PMID: 34869345
  • Ma Y, Tan Z, Li Q, Fan W et al. Combined Analysis of Expression Profiles in a Mouse Model and Patients Identified BHMT2 as a New Regulator of Lipid Metabolism in Metabolic-Associated Fatty Liver Disease. Front Cell Dev Biol 2021;9:741710. PMID: 34869329
  • Xu H, Wei K, Tu J, Chen Y et al. Reducing Inflammation and Vascular Invasion in Intervertebral Disc Degeneration via Cystathionine-γ-Lyase Inhibitory Effect on E-Selectin. Front Cell Dev Biol 2021;9:741046. PMID: 34869327
  • Wang S, Ding B, Cui M, Yan W et al. Fanconi Anemia Pathway Genes Advance Cervical Cancer via Immune Regulation and Cell Adhesion. Front Cell Dev Biol 2021;9:734794. PMID: 34869316
  • Zhang T, Lai S, Cai Y, Huang Z et al. Comprehensive Analysis and Identification of Prognostic Biomarkers and Therapeutic Targets Among FAM83 Family Members for Gastric Cancer. Front Cell Dev Biol 2021;9:719613. PMID: 34869310
  • Zeng J, Liu W, Liang J, Peng J et al. Analysis of miRNA Profiles and the Regulatory Network in Congenital Pulmonary Airway Malformations. Front Pediatr 2021;9:671107. PMID: 34869091
  • Abba MC, Fabre ML, Lee J, Tatineni P et al. HOTAIR Modulated Pathways in Early-Stage Breast Cancer Progression. Front Oncol 2021;11:783211. PMID: 34869037
  • Mi L, Qi Q, Ran H, Chen L et al. Suppression of Ribosome Biogenesis by Targeting WD Repeat Domain 12 (WDR12) Inhibits Glioma Stem-Like Cell Growth. Front Oncol 2021;11:751792. PMID: 34868955
  • Zhao Q, Cheng Y, Xiong Y et al. LTF Regulates the Immune Microenvironment of Prostate Cancer Through JAK/STAT3 Pathway. Front Oncol 2021;11:692117. PMID: 34868909
  • Scott TM, Jensen S, Pickett BE et al. A signaling pathway-driven bioinformatics pipeline for predicting therapeutics against emerging infectious diseases. F1000Res 2021;10:330. PMID: 34868553
  • Wu Y, Wu Y, Liu K, Liu H et al. Identification of Genetic Predisposition in Noncirrhotic Portal Hypertension Patients With Multiple Renal Cysts by Integrated Analysis of Whole-Genome and Single-Cell RNA Sequencing. Front Genet 2021;12:775470. PMID: 34868264
  • Chen Y, Huang X, Zhu K, Li C et al. LIMD2 is a Prognostic and Predictive Marker in Patients With Esophageal Cancer Based on a ceRNA Network Analysis. Front Genet 2021;12:774432. PMID: 34868263
  • Wang T, Yang C, Li B, Xing Y et al. Identification of lncRNA-miRNA-mRNA Networks Linked to Non-small Lung Cancer Resistance to Inhibitors of Epidermal Growth Factor Receptor. Front Genet 2021;12:758591. PMID: 34868237
  • Rajagopalan S, Singh A, Khiabanian H et al. Cilium Expression Score Predicts Glioma Survival. Front Genet 2021;12:758391. PMID: 34868236
  • Zhou S, Meng Q, Li L, Hai L et al. Identification of a Qualitative Signature for the Diagnosis of Dementia With Lewy Bodies. Front Genet 2021;12:758103. PMID: 34868234
  • Shen Z, Liu S, Liu J, Liu J et al. Weighted Gene Co-Expression Network Analysis and Treatment Strategies of Tumor Recurrence-Associated Hub Genes in Lung Adenocarcinoma. Front Genet 2021;12:756235. PMID: 34868230
  • Zhang H, Lu D, Li Q, Lu F et al. Identification of Six Prognostic Genes in EGFR-Mutant Lung Adenocarcinoma Using Structure Network Algorithms. Front Genet 2021;12:755245. PMID: 34868228
  • Chen J, Ding J, Huang W, Sun L et al. DNASE1L3 as a Novel Diagnostic and Prognostic Biomarker for Lung Adenocarcinoma Based on Data Mining. Front Genet 2021;12:699242. PMID: 34868195
  • Liu C, Wang S, Zheng S, Xu F et al. Avoiding Absolute Quantification Trap: A Novel Predictive Signature of Clinical Benefit to Anti-PD-1 Immunotherapy in Non-Small Cell Lung Cancer. Front Immunol 2021;12:782106. PMID: 34868057
  • Wang X, Wu S, Liu F, Ke D et al. An Immunogenic Cell Death-Related Classification Predicts Prognosis and Response to Immunotherapy in Head and Neck Squamous Cell Carcinoma. Front Immunol 2021;12:781466. PMID: 34868055
  • Weiss E, Vlahos A, Kim B, Wijegunasekara S et al. Transcriptomic Remodelling of Fetal Endothelial Cells During Establishment of Inflammatory Memory. Front Immunol 2021;12:757393. PMID: 34867995
  • Zhang Z, Wu P, Zhang C, Luo Y et al. Tumor Necrosis Factor Family Member Profile Predicts Prognosis and Adjuvant Chemotherapy Benefit for Patients With Small-Cell Lung Cancer. Front Immunol 2021;12:745769. PMID: 34867972
  • Yang P, Zhang X, Chen S, Tao Y et al. A Novel Serum tsRNA for Diagnosis and Prediction of Nephritis in SLE. Front Immunol 2021;12:735105. PMID: 34867955
  • Morante-Palacios O, Lorente-Sorolla C, Ciudad L, Calafell-Segura J et al. JAK2-STAT Epigenetically Regulates Tolerized Genes in Monocytes in the First Encounter With Gram-Negative Bacterial Endotoxins in Sepsis. Front Immunol 2021;12:734652. PMID: 34867954
  • Zandhuis ND, Nicolet BP, Wolkers MC et al. RNA-Binding Protein Expression Alters Upon Differentiation of Human B Cells and T Cells. Front Immunol 2021;12:717324. PMID: 34867946
  • Valenzuela-Melgarejo FJ, Lagunas C, Carmona-Pastén F, Jara-Medina K et al. Supraphysiological Role of Melatonin Over Vascular Dysfunction of Pregnancy, a New Therapeutic Agent? Front Physiol 2021;12:767684. PMID: 34867473
  • Zeng R, Huang S, Qiu X, Zhuo Z et al. Predicting the Prognosis of Esophageal Adenocarcinoma by a Pyroptosis-Related Gene Signature. Front Pharmacol 2021;12:767187. PMID: 34867395
  • Zhou M, Li J, Luo D, Zhang H et al. Network Pharmacology and Molecular Docking-Based Investigation: Prunus mume Against Colorectal Cancer via Silencing RelA Expression. Front Pharmacol 2021;12:761980. PMID: 34867383
  • Zhu C, Wang Z, Cai J, Pan C et al. VDR Signaling via the Enzyme NAT2 Inhibits Colorectal Cancer Progression. Front Pharmacol 2021;12:727704. PMID: 34867333
  • Huang L, Wu C, Xu D, Cui Y et al. Screening of Important Factors in the Early Sepsis Stage Based on the Evaluation of ssGSEA Algorithm and ceRNA Regulatory Network. Evol Bioinform Online 2021;17:11769343211058463. PMID: 34866895
  • Dumaine JE, Sateriale A, Gibson AR, Reddy AG et al. The enteric pathogen Cryptosporidium parvum exports proteins into the cytosol of the infected host cell. Elife 2021 Dec 6;10. PMID: 34866573
  • Li X, Lin J, Pan Y, Cui P et al. Identification of a Liver Progenitor Cell-Related Genes Signature Predicting Overall Survival for Hepatocellular Carcinoma. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211041425. PMID: 34866477
  • Moore BM, Lee YS, Wang P, Azodi C et al. Modeling temporal and hormonal regulation of plant transcriptional response to wounding. Plant Cell 2022 Feb 3;34(2):867-888. PMID: 34865154
  • Pan L, Dinh HQ, Pawitan Y, Vu TN et al. Isoform-level quantification for single-cell RNA sequencing. Bioinformatics 2022 Feb 7;38(5):1287-1294. PMID: 34864849
  • Rezaei Z, Ranjbaran J, Safarpour H, Nomiri S et al. Identification of early diagnostic biomarkers via WGCNA in gastric cancer. Biomed Pharmacother 2022 Jan;145:112477. PMID: 34864309
  • Nuechterlein N, Shapiro LG, Holland EC, Cimino PJ et al. Machine learning modeling of genome-wide copy number alteration signatures reliably predicts IDH mutational status in adult diffuse glioma. Acta Neuropathol Commun 2021 Dec 4;9(1):191. PMID: 34863298
  • Cai C, Zhang X, Liu Y, Shen E et al. Gut microbiota imbalance in colorectal cancer patients, the risk factor of COVID-19 mortality. Gut Pathog 2021 Dec 4;13(1):70. PMID: 34863291
  • Lolansen SD, Rostgaard N, Andreassen SN, Simonsen AH et al. Elevated CSF inflammatory markers in patients with idiopathic normal pressure hydrocephalus do not promote NKCC1 hyperactivity in rat choroid plexus. Fluids Barriers CNS 2021 Dec 4;18(1):54. PMID: 34863228
  • Zhu X, Yang H, Zhang M, Wu X et al. YTHDC1-mediated VPS25 regulates cell cycle by targeting JAK-STAT signaling in human glioma cells. Cancer Cell Int 2021 Dec 4;21(1):645. PMID: 34863175
  • Fan G, Jin Z, Wang K, Yang H et al. Identification of four hub genes in venous thromboembolism via weighted gene coexpression network analysis. BMC Cardiovasc Disord 2021 Dec 3;21(1):577. PMID: 34861826
  • Koui Y, Himeno M, Mori Y, Nakano Y et al. Development of human iPSC-derived quiescent hepatic stellate cell-like cells for drug discovery and in vitro disease modeling. Stem Cell Reports 2021 Dec 14;16(12):3050-3063. PMID: 34861166
  • Hassani SF, Sayaf M, Danandeh SS, Nourollahzadeh Z et al. Novel Insight Into the Association Between Obesity and Hepatocellular Carcinoma Occurrence and Recurrence: High-Throughput Microarray Data Set Analysis of Differentially Expressed Genes. JCO Clin Cancer Inform 2021 Dec;5:1169-1180. PMID: 34860577
  • Stephenson M, Nip KM, HafezQorani S, Gagalova KK et al. RNA-Scoop: interactive visualization of transcripts in single-cell transcriptomes. NAR Genom Bioinform 2021 Dec;3(4):lqab105. PMID: 34859209
  • Liu Y, Xiang J, Peng G, Shen C et al. Omics- and Pharmacogenomic Evidence for the Prognostic, Regulatory, and Immune-Related Roles of PBK in a Pan-Cancer Cohort. Front Mol Biosci 2021;8:785370. PMID: 34859058
  • Liu T, Guo L, Liu G, Hu X et al. Molecular Characterization of the Clinical and Tumor Immune Microenvironment Signature of 5-methylcytosine-Related Regulators in non-small Cell Lung Cancer. Front Cell Dev Biol 2021;9:779367. PMID: 34858994
  • Rao J, Li W, Chen C et al. Pyroptosis-Mediated Molecular Subtypes and Tumor Microenvironment Infiltration Characterization in Colon Cancer. Front Cell Dev Biol 2021;9:766503. PMID: 34858988
  • Jiang X, Yuan Y, Tang L, Wang J et al. Comprehensive Pan-Cancer Analysis of the Prognostic and Immunological Roles of the METTL3/lncRNA-SNHG1/miRNA-140-3p/UBE2C Axis. Front Cell Dev Biol 2021;9:765772. PMID: 34858987
  • Dong X, Zhang Q, Hao J, Xie Q et al. Large Multicohort Study Reveals a Prostate Cancer Susceptibility Allele at 5p15 Regulating TERT via Androgen Signaling-Orchestrated Chromatin Binding of E2F1 and MYC. Front Oncol 2021;11:754206. PMID: 34858826
  • Liu Y, Wu L, Lu H, Wu E et al. Enhancing the Therapeutic Efficacy of KRAS(G12C) Inhibitors in Lung Adenocarcinoma Cell Models by Cotargeting the MAPK Pathway or HSP90. J Oncol 2021;2021:2721466. PMID: 34858498
  • Albaradei S, Uludag M, Thafar MA, Gojobori T et al. Predicting Bone Metastasis Using Gene Expression-Based Machine Learning Models. Front Genet 2021;12:771092. PMID: 34858485
  • Deng M, Peng L, Li J, Liu X et al. PPP1R14B Is a Prognostic and Immunological Biomarker in Pan-Cancer. Front Genet 2021;12:763561. PMID: 34858479
  • Liu C, Cai D, Zeng W, Huang Y et al. Inferring Differential Networks by Integrating Gene Expression Data With Additional Knowledge. Front Genet 2021;12:760155. PMID: 34858477
  • Hao M, Zou X, Jin S et al. Identification of Intercellular Signaling Changes Across Conditions and Their Influence on Intracellular Signaling Response From Multiple Single-Cell Datasets. Front Genet 2021;12:751158. PMID: 34858473
  • Zhao Q, Wang Q, Wang T, Xu J et al. Pattern Recognition Receptors (PRRs) in Macrophages Possess Prognosis and Immunotherapy Potential for Melanoma. Front Immunol 2021;12:765615. PMID: 34858419
  • Lee YH, Seo JW, Kim M, Tae D et al. Urinary mRNA Signatures as Predictors of Renal Function Decline in Patients With Biopsy-Proven Diabetic Kidney Disease. Front Endocrinol (Lausanne) 2021;12:774436. PMID: 34858345
  • Garcia-Alonso L, Handfield LF, Roberts K, Nikolakopoulou K et al. Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro. Nat Genet 2021 Dec;53(12):1698-1711. PMID: 34857954
  • Park SR, Lee JW, Kim SK, Yu WJ et al. The impact of fine particulate matter (PM) on various beneficial functions of human endometrial stem cells through its key regulator SERPINB2. Exp Mol Med 2021 Dec;53(12):1850-1865. PMID: 34857902
  • Klein B, Holmér L, Smith KM, Johnson MM et al. A computational exploration of resilience and evolvability of protein-protein interaction networks. Commun Biol 2021 Dec 2;4(1):1352. PMID: 34857859
  • Hildebrandt F, Andersson A, Saarenpää S, Larsson L et al. Spatial Transcriptomics to define transcriptional patterns of zonation and structural components in the mouse liver. Nat Commun 2021 Dec 2;12(1):7046. PMID: 34857782
  • Matsumura Y, Ito R, Yajima A, Yamaguchi R et al. Spatiotemporal dynamics of SETD5-containing NCoR-HDAC3 complex determines enhancer activation for adipogenesis. Nat Commun 2021 Dec 2;12(1):7045. PMID: 34857762
  • Bolis M, Bossi D, Vallerga A, Ceserani V et al. Dynamic prostate cancer transcriptome analysis delineates the trajectory to disease progression. Nat Commun 2021 Dec 2;12(1):7033. PMID: 34857732
  • Muskovic W, Powell JE et al. DropletQC: improved identification of empty droplets and damaged cells in single-cell RNA-seq data. Genome Biol 2021 Dec 2;22(1):329. PMID: 34857027
  • Wu HL, Li SM, Huang YC, Xia QD et al. Transcriptional regulation and ubiquitination-dependent regulation of HnRNPK oncogenic function in prostate tumorigenesis. Cancer Cell Int 2021 Dec 2;21(1):641. PMID: 34857003
  • Jiang Y, Shen Y, Ding L, Xia S et al. Identification of transcription factors and construction of a novel miRNA regulatory network in primary osteoarthritis by integrated analysis. BMC Musculoskelet Disord 2021 Dec 2;22(1):1008. PMID: 34856957
  • Ohori M, Nakayama Y, Ogasawara-Shimizu M, Toyoshiba H et al. Gene regulatory network analysis defines transcriptome landscape with alternative splicing of human umbilical vein endothelial cells during replicative senescence. BMC Genomics 2021 Dec 2;22(1):869. PMID: 34856941
  • Zhang J, Liu L, Xu T, Zhang W et al. Exploring cell-specific miRNA regulation with single-cell miRNA-mRNA co-sequencing data. BMC Bioinformatics 2021 Dec 2;22(1):578. PMID: 34856921
  • Grasedieck S, Cabantog A, MacPhee L, Im J et al. The retinoic acid receptor co-factor NRIP1 is uniquely upregulated and represents a therapeutic target in acute myeloid leukemia with chromosome 3q rearrangements. Haematologica 2022 Aug 1;107(8):1758-1772. PMID: 34854277
  • Lin W, Wan X, Sun A, Zhou M et al. RUNX1/EGFR pathway contributes to STAT3 activation and tumor growth caused by hyperactivated mTORC1. Mol Ther Oncolytics 2021 Dec 17;23:387-401. PMID: 34853810
  • Chang Y, Zhao Y, Wang L, Wu M et al. PHF5A promotes colorectal cancerprogression by alternative splicing of TEAD2. Mol Ther Nucleic Acids 2021 Dec 3;26:1215-1227. PMID: 34853721
  • Xu L, Li YY, Zhang YC, Wu YX et al. A Novel Ferroptosis-Related Gene Signature to Predict Prognosis in Patients with Head and Neck Squamous Cell Carcinoma. Dis Markers 2021;2021:5759927. PMID: 34853622
  • Liu Y, Williams SG, Jones HR, Keavney BD et al. A novel RNA-mediated mechanism causing down-regulation of insulating promoter interactions in human embryonic stem cells. Sci Rep 2021 Dec 1;11(1):23233. PMID: 34853328
  • Ibarra-Morales D, Rauer M, Quarato P, Rabbani L et al. Histone variant H2A.Z regulates zygotic genome activation. Nat Commun 2021 Dec 1;12(1):7002. PMID: 34853314
  • Singh AK, Schauer T, Pfaller L, Straub T et al. The biogenesis and function of nucleosome arrays. Nat Commun 2021 Dec 1;12(1):7011. PMID: 34853297
  • Zu HL, Liu HW, Wang HY et al. Identification of crucial genes involved in pathogenesis of regional weakening of the aortic wall. Hereditas 2021 Dec 2;158(1):35. PMID: 34852854
  • Zhang Y, Chen Q, Gong M, Zeng Y et al. Gene regulatory networks analysis of muscle-invasive bladder cancer subtypes using differential graphical model. BMC Genomics 2021 Dec 1;22(Suppl 1):863. PMID: 34852762
  • Zebley CC, Brown C, Mi T, Fan Y et al. CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia. Cell Rep 2021 Nov 30;37(9):110079. PMID: 34852226
  • Carrera S, O'Donnell A, Li Y, Nowicki-Osuch K et al. Complexities in the role of acetylation dynamics in modifying inducible gene activation parameters. Nucleic Acids Res 2021 Dec 16;49(22):12744-12756. PMID: 34850951
  • Wang Z, Zhong Y, Ye Z, Zeng L et al. MarkovHC: Markov hierarchical clustering for the topological structure of high-dimensional single-cell omics data with transition pathway and critical point detection. Nucleic Acids Res 2022 Jan 11;50(1):46-56. PMID: 34850940
  • Wang J, Nakato R et al. HiC1Dmetrics: framework to extract various one-dimensional features from chromosome structure data. Brief Bioinform 2022 Jan 17;23(1). PMID: 34850813
  • Choi J, Lyons DB, Zilberman D et al. Histone H1 prevents non-CG methylation-mediated small RNA biogenesis in Arabidopsis heterochromatin. Elife 2021 Dec 1;10. PMID: 34850679
  • Luan AA, Hou LL, Zhang FY et al. Silencing of SBF2-AS1 inhibits cell growth and invasion by sponging microRNA-338-3p in serous ovarian carcinoma. Kaohsiung J Med Sci 2022 Apr;38(4):302-311. PMID: 34850542
  • Milton CI, Selfe J, Aladowicz E, Man SYK et al. FGF7-FGFR2 autocrine signaling increases growth and chemoresistance of fusion-positive rhabdomyosarcomas. Mol Oncol 2022 Mar;16(6):1272-1289. PMID: 34850536
  • Bicci I, Calabrese C, Golder ZJ, Gomez-Duran A et al. Single-molecule mitochondrial DNA sequencing shows no evidence of CpG methylation in human cells and tissues. Nucleic Acids Res 2021 Dec 16;49(22):12757-12768. PMID: 34850165
  • Corsi GI, Gadekar VP, Gorodkin J, Seemann SE et al. CRISPRroots: on- and off-target assessment of RNA-seq data in CRISPR-Cas9 edited cells. Nucleic Acids Res 2022 Feb 28;50(4):e20. PMID: 34850137
  • Moreno P, Fexova S, George N, Manning JR et al. Expression Atlas update: gene and protein expression in multiple species. Nucleic Acids Res 2022 Jan 7;50(D1):D129-D140. PMID: 34850121
  • Bacher R, Chu LF, Argus C, Bolin JM et al. Enhancing biological signals and detection rates in single-cell RNA-seq experiments with cDNA library equalization. Nucleic Acids Res 2022 Jan 25;50(2):e12. PMID: 34850101
  • Gu Z, Hübschmann D et al. spiralize: an R package for visualizing data on spirals. Bioinformatics 2022 Feb 7;38(5):1434-1436. PMID: 34849585
  • Suarez-Lopez L, Shui B, Brubaker DK, Hill M et al. Cross-species transcriptomic signatures predict response to MK2 inhibition in mouse models of chronic inflammation. iScience 2021 Dec 17;24(12):103406. PMID: 34849469
  • Tomikawa J, Penfold CA, Kamiya T, Hibino R et al. Cell division- and DNA replication-free reprogramming of somatic nuclei for embryonic transcription. iScience 2021 Nov 19;24(11):103290. PMID: 34849463
  • Legetth O, Rodhe J, Lang S, Dhapola P et al. CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data. iScience 2021 Nov 19;24(11):103251. PMID: 34849461
  • Li M, Zeng Z, Zhang A, Ye Q et al. WGCNA Analysis Identifies Polycystic Ovary Syndrome-Associated Circular RNAs That Interact with RNA-Binding Proteins and Sponge miRNAs. Int J Gen Med 2021;14:8737-8751. PMID: 34849014
  • Liu YJ, Yin SY, Zeng SH, Hu YD et al. Prognostic Value of LHFPL Tetraspan Subfamily Member 6 (LHFPL6) in Gastric Cancer: A Study Based on Bioinformatics Analysis and Experimental Validation. Pharmgenomics Pers Med 2021;14:1483-1504. PMID: 34848995
  • Milanesi E, Dobre M, Cucos CA, Rojo AI et al. Whole Blood Expression Pattern of Inflammation and Redox Genes in Mild Alzheimer's Disease. J Inflamm Res 2021;14:6085-6102. PMID: 34848989
  • Yu Z, Liu Y, Li Y, Zhang J et al. miRNA-338-3p inhibits glioma cell proliferation and progression by targeting MYT1L. Brain Res Bull 2022 Feb;179:1-12. PMID: 34848272
  • Morelli L, Giansanti V, Cittaro D et al. Nested Stochastic Block Models applied to the analysis of single cell data. BMC Bioinformatics 2021 Nov 30;22(1):576. PMID: 34847879
  • Rastelli D, Robinson A, Lagomarsino VN, Matthews LT et al. Diminished androgen levels are linked to irritable bowel syndrome and cause bowel dysfunction in mice. J Clin Invest 2022 Jan 18;132(2). PMID: 34847080
  • Patsalos A, Halasz L, Medina-Serpas MA, Berger WK et al. A growth factor-expressing macrophage subpopulation orchestrates regenerative inflammation via GDF-15. J Exp Med 2022 Jan 3;219(1). PMID: 34846534
  • Wang Y, Xu L, Zhao W, Chen X et al. T cell landscape and dynamics in immunoglobulin light chain amyloidosis before and after daratumumab-based therapy. Clin Transl Med 2021 Nov;11(11):e582. PMID: 34845849
  • Mavrikaki M, Lee JD, Solomon IH, Slack FJ et al. Severe COVID-19 induces molecular signatures of aging in the human brain. medRxiv 2021 Nov 24 PMID: 34845457
  • Kalinina DS, Ptukha MA, Goriainova AV, Merkulyeva NS et al. Role of the trace amine associated receptor 5 (TAAR5) in the sensorimotor functions. Sci Rep 2021 Nov 29;11(1):23092. PMID: 34845253
  • Munne PM, Martikainen L, Räty I, Bertula K et al. Compressive stress-mediated p38 activation required for ERα + phenotype in breast cancer. Nat Commun 2021 Nov 29;12(1):6967. PMID: 34845227
  • Campbell S, Mesaros C, Izzo L, Affronti H et al. Glutamine deprivation triggers NAGK-dependent hexosamine salvage. Elife 2021 Nov 30;10. PMID: 34844667
  • Wilks C, Zheng SC, Chen FY, Charles R et al. recount3: summaries and queries for large-scale RNA-seq expression and splicing. Genome Biol 2021 Nov 29;22(1):323. PMID: 34844637
  • Wu J, Cao J, Fan Y, Li C et al. Comprehensive analysis of miRNA-mRNA regulatory network and potential drugs in chronic chagasic cardiomyopathy across human and mouse. BMC Med Genomics 2021 Nov 29;14(1):283. PMID: 34844599
  • Hayashi Y, Suzuki H, Nakajima W, Uehara I et al. Virus-infection in cochlear supporting cells induces audiosensory receptor hair cell death by TRAIL-induced necroptosis. PLoS One 2021;16(11):e0260443. PMID: 34843580
  • Svensson SL, Sharma CM et al. RNase III-mediated processing of a trans-acting bacterial sRNA and its cis-encoded antagonist. Elife 2021 Nov 29;10. PMID: 34843430
  • Barthelson K, Newman M, Lardelli M et al. Brain transcriptomes of zebrafish and mouse Alzheimer's disease knock-in models imply early disrupted energy metabolism. Dis Model Mech 2022 Jan 1;15(1). PMID: 34842276
  • Liu S, Chen H, Ma W, Zhong Y et al. Non-coding RNAs and related molecules associated with form-deprivation myopia in mice. J Cell Mol Med 2022 Jan;26(1):186-194. PMID: 34841657
  • Achudhan D, Liu SC, Lin YY, Lee HP et al. Antcin K inhibits VEGF-dependent angiogenesis in human rheumatoid arthritis synovial fibroblasts. J Food Biochem 2022 Jan;46(1):e14022. PMID: 34841538
  • Tan RSG, Zhou M, Li F, Guan LL et al. Identifying active rumen epithelial associated bacteria and archaea in beef cattle divergent in feed efficiency using total RNA-seq. Curr Res Microb Sci 2021 Dec;2:100064. PMID: 34841354
  • Sharma NK, Gupta S, Kumar A, Kumar P et al. RBPSpot: Learning on appropriate contextual information for RBP binding sites discovery. iScience 2021 Dec 17;24(12):103381. PMID: 34841226
  • Fu Z, Xu Y, Chen Y, Lv H et al. Construction of miRNA-mRNA-TF Regulatory Network for Diagnosis of Gastric Cancer. Biomed Res Int 2021;2021:9121478. PMID: 34840985
  • Bhagavatham SKS, Kannan V, Darshan VMD, Sivaramakrishnan V et al. Nucleotides modulate synoviocyte proliferation and osteoclast differentiation in macrophages with potential implications for rheumatoid arthritis. 3 Biotech 2021 Dec;11(12):504. PMID: 34840926
  • Han L, Han Y et al. Network Pharmacology-Based Study on the Active Component and Mechanism of the Anti-Gastric-Cancer Effect of Herba Sarcandrae. J Healthc Eng 2021;2021:3001131. PMID: 34840695
  • Gao L, Li GS, Li JD, He J et al. Identification of the susceptibility genes for COVID-19 in lung adenocarcinoma with global data and biological computation methods. Comput Struct Biotechnol J 2021;19:6229-6239. PMID: 34840672
  • Mahendran N, P M DRV et al. A deep learning framework with an embedded-based feature selection approach for the early detection of the Alzheimer's disease. Comput Biol Med 2022 Feb;141:105056. PMID: 34839903
  • Shields EJ, Sorida M, Sheng L, Sieriebriennikov B et al. Genome annotation with long RNA reads reveals new patterns of gene expression and improves single-cell analyses in an ant brain. BMC Biol 2021 Nov 27;19(1):254. PMID: 34838024
  • Cheng X, Tian B, Gao C, Gao W et al. Identification and expression analysis of candidate genes related to seed dormancy and germination in the wheat GATA family. Plant Physiol Biochem 2021 Dec;169:343-359. PMID: 34837867
  • Gu Y, Cao J, Zhang X, Gao H et al. Receptome profiling identifies KREMEN1 and ASGR1 as alternative functional receptors of SARS-CoV-2. Cell Res 2022 Jan;32(1):24-37. PMID: 34837059
  • He J, Liu L, Tang F, Zhou Y et al. Paradoxical effects of DNA tumor virus oncogenes on epithelium-derived tumor cell fate during tumor progression and chemotherapy response. Signal Transduct Target Ther 2021 Nov 26;6(1):408. PMID: 34836940
  • Li R, Li H, Zhu L, Zhang X et al. Reciprocal regulation of LOXL2 and HIF1α drives the Warburg effect to support pancreatic cancer aggressiveness. Cell Death Dis 2021 Nov 26;12(12):1106. PMID: 34836938
  • Nuthikattu S, Milenkovic D, Norman JE, Rutledge J et al. Inhibition of Soluble Epoxide Hydrolase Is Protective against the Multiomic Effects of a High Glycemic Diet on Brain Microvascular Inflammation and Cognitive Dysfunction. Nutrients 2021 Nov 1;13(11). PMID: 34836168
  • Cerapio JP, Perrier M, Pont F, Tosolini M et al. Single-Cell RNAseq Profiling of Human γδ T Lymphocytes in Virus-Related Cancers and COVID-19 Disease. Viruses 2021 Nov 3;13(11). PMID: 34835019
  • Bhadra S, Chen S, Liu C et al. Analysis of Differentially Expressed Genes That Aggravate Metabolic Diseases in Depression. Life (Basel) 2021 Nov 7;11(11). PMID: 34833079
  • Esmaeili F, Lohrasebi T, Mohammadi-Dehcheshmeh M, Ebrahimie E et al. Evaluation of the Effectiveness of Herbal Components Based on Their Regulatory Signature on Carcinogenic Cancer Cells. Cells 2021 Nov 12;10(11). PMID: 34831362
  • Biagi CAO Jr, Cury SS, Alves CP, Rabhi N et al. Multidimensional Single-Nuclei RNA-Seq Reconstruction of Adipose Tissue Reveals Adipocyte Plasticity Underlying Thermogenic Response. Cells 2021 Nov 8;10(11). PMID: 34831295
  • Nath A, Rayabaram J, Ijee S, Bagchi A et al. Comprehensive Analysis of microRNAs in Human Adult Erythropoiesis. Cells 2021 Nov 4;10(11). PMID: 34831239
  • Naville M, Merabet S et al. In-Depth Annotation of the Drosophila Bithorax-Complex Reveals the Presence of Several Alternative ORFs That Could Encode for Motif-Rich Peptides. Cells 2021 Nov 2;10(11). PMID: 34831206
  • Liu M, Huang Q, A J, Li L et al. The Cardiac Glycoside Deslanoside Exerts Anticancer Activity in Prostate Cancer Cells by Modulating Multiple Signaling Pathways. Cancers (Basel) 2021 Nov 19;13(22). PMID: 34830961
  • Ognibene M, Amoroso L, Melchionda F, Cangelosi D et al. High Grade of Amplification of Six Regions on Chromosome 2p in a Neuroblastoma Patient with Very Poor Outcome: The Putative New Oncogene TSSC1. Cancers (Basel) 2021 Nov 18;13(22). PMID: 34830942
  • Belotti Y, Lim SB, Iyer NG, Lim WT et al. Prognostic Matrisomal Gene Panel and Its Association with Immune Cell Infiltration in Head and Neck Carcinomas. Cancers (Basel) 2021 Nov 17;13(22). PMID: 34830910
  • Bocci F, Zhou P, Nie Q et al. Single-Cell RNA-Seq Analysis Reveals the Acquisition of Cancer Stem Cell Traits and Increase of Cell-Cell Signaling during EMT Progression. Cancers (Basel) 2021 Nov 16;13(22). PMID: 34830900
  • Łukasiewicz M, Pastuszak K, Łapińska-Szumczyk S, Różański R et al. Diagnostic Accuracy of Liquid Biopsy in Endometrial Cancer. Cancers (Basel) 2021 Nov 16;13(22). PMID: 34830891
  • García-García L, Fernández-Tabanera E, Cervera ST, Melero-Fernández de Mera RM et al. The Transcription Factor FEZF1, a Direct Target of EWSR1-FLI1 in Ewing Sarcoma Cells, Regulates the Expression of Neural-Specific Genes. Cancers (Basel) 2021 Nov 12;13(22). PMID: 34830820
  • Glogovitis I, Yahubyan G, Würdinger T, Koppers-Lalic D et al. miRGalaxy: Galaxy-Based Framework for Interactive Analysis of microRNA and isomiR Sequencing Data. Cancers (Basel) 2021 Nov 12;13(22). PMID: 34830818
  • Wu X, Yang Y, Zhong C, Wang T et al. Single-Cell Atlas of Adult Testis in Protogynous Hermaphroditic Orange-Spotted Grouper, Epinephelus coioides. Int J Mol Sci 2021 Nov 22;22(22). PMID: 34830486
  • Shende N, Xu J, Li WT, Liu J et al. Enhancer RNA Profiling in Smoking and HPV Associated HNSCC Reveals Associations to Key Oncogenes. Int J Mol Sci 2021 Nov 21;22(22). PMID: 34830428
  • Arowolo O, Pobezinsky L, Suvorov A et al. Chemical Exposures Affect Innate Immune Response to SARS-CoV-2. Int J Mol Sci 2021 Nov 19;22(22). PMID: 34830356
  • Eidelman Y, Salnikov I, Slanina S, Andreev S et al. Chromosome Folding Promotes Intrachromosomal Aberrations under Radiation- and Nuclease-Induced DNA Breakage. Int J Mol Sci 2021 Nov 10;22(22). PMID: 34830065
  • Cornely OA, Gow N, Hoenigl M, Warris A et al. 10th Trends in Medical Mycology Held on 8 to 11 October 2021, Aberdeen, Scotland, Organized by the European Confederation of Medical Mycology (ECMM). J Fungi (Basel) 2021 Oct 28;7(11). PMID: 34829205
  • Han Y, Huang L, Zhou F et al. Zoo: Selecting Transcriptomic and Methylomic Biomarkers by Ensembling Animal-Inspired Swarm Intelligence Feature Selection Algorithms. Genes (Basel) 2021 Nov 18;12(11). PMID: 34828418
  • Xu A, Qian C, Lin J, Yu W et al. Cell Differentiation Trajectory-Associated Molecular Classification of Osteosarcoma. Genes (Basel) 2021 Oct 23;12(11). PMID: 34828292
  • Jeong H, Shin S, Yeom HG et al. Accurate Single-Cell Clustering through Ensemble Similarity Learning. Genes (Basel) 2021 Oct 22;12(11). PMID: 34828276
  • Wu X, Zhao H, Lai J, Zhang N et al. Interleukin 17D Enhances the Developmental Competence of Cloned Pig Embryos by Inhibiting Apoptosis and Promoting Embryonic Genome Activation. Animals (Basel) 2021 Oct 26;11(11). PMID: 34827794
  • Perera DDBD, Perera KML, Peiris DC et al. A Novel In Silico Benchmarked Pipeline Capable of Complete Protein Analysis: A Possible Tool for Potential Drug Discovery. Biology (Basel) 2021 Oct 28;10(11). PMID: 34827106
  • Kurgyis Z, Vornholz L, Pechloff K, Kemény LV et al. Keratinocyte-intrinsic BCL10/MALT1 activity initiates and amplifies psoriasiform skin inflammation. Sci Immunol 2021 Nov 26;6(65):eabi4425. PMID: 34826258
  • Gong K, Zhou H, Liu H, Xie T et al. Identification and Integrate Analysis of Key Biomarkers for Diagnosis and Prognosis of Non-Small Cell Lung Cancer Based on Bioinformatics Analysis. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211060202. PMID: 34825846
  • Liu L, Zhao J, Du X, Zhao Y et al. Construction and validation of a novel aging-related gene signature and prognostic nomogram for predicting the overall survival in ovarian cancer. Cancer Med 2021 Dec;10(24):9097-9114. PMID: 34825509
  • Welte T, Mai J, Zhang Z, Tian S et al. A heparan-sulfate-bearing syndecan-1 glycoform is a distinct surface marker for intra-tumoral myeloid-derived suppressor cells. iScience 2021 Nov 19;24(11):103349. PMID: 34825135
  • Attri S, Sharma V, Kumar A, Verma C et al. Dissecting role of founder mutation p.V727M in GNE in Indian HIBM cohort. Open Med (Wars) 2021;16(1):1733-1744. PMID: 34825065
  • Lee RD, Munro SA, Knutson TP, LaRue RS et al. Single-cell analysis identifies dynamic gene expression networks that govern B cell development and transformation. Nat Commun 2021 Nov 25;12(1):6843. PMID: 34824268
  • Zhao J, Lu P, Wan C, Huang Y et al. Cell-fate transition and determination analysis of mouse male germ cells throughout development. Nat Commun 2021 Nov 25;12(1):6839. PMID: 34824237
  • Büttner M, Ostner J, Müller CL, Theis FJ et al. scCODA is a Bayesian model for compositional single-cell data analysis. Nat Commun 2021 Nov 25;12(1):6876. PMID: 34824236
  • Rogic A, Pant I, Grumolato L, Fernandez-Rodriguez R et al. High endogenous CCL2 expression promotes the aggressive phenotype of human inflammatory breast cancer. Nat Commun 2021 Nov 25;12(1):6889. PMID: 34824220
  • Álvarez EG, Demeulemeester J, Otero P, Jolly C et al. Aberrant integration of Hepatitis B virus DNA promotes major restructuring of human hepatocellular carcinoma genome architecture. Nat Commun 2021 Nov 25;12(1):6910. PMID: 34824211
  • Zhang Q, Cheng S, Wang Y, Wang M et al. Interrogation of the microenvironmental landscape in spinal ependymomas reveals dual functions of tumor-associated macrophages. Nat Commun 2021 Nov 25;12(1):6867. PMID: 34824203
  • Sadegh S, Skelton J, Anastasi E, Bernett J et al. Network medicine for disease module identification and drug repurposing with the NeDRex platform. Nat Commun 2021 Nov 25;12(1):6848. PMID: 34824199
  • Mo W, Liu B, Zhang H, Jin X et al. Landscape of transcription termination in Arabidopsis revealed by single-molecule nascent RNA sequencing. Genome Biol 2021 Nov 25;22(1):322. PMID: 34823554
  • Cai H, Liu H et al. Immune infiltration landscape and immune-marker molecular typing of pulmonary fibrosis with pulmonary hypertension. BMC Pulm Med 2021 Nov 25;21(1):383. PMID: 34823498
  • Wei SY, Guo S, Feng B, Ning SW et al. Identification of miRNA-mRNA network and immune-related gene signatures in IgA nephropathy by integrated bioinformatics analysis. BMC Nephrol 2021 Nov 25;22(1):392. PMID: 34823491
  • Raffaele M, Kovacovicova K, Biagini T, Lo Re O et al. Nociceptin/orphanin FQ opioid receptor (NOP) selective ligand MCOPPB links anxiolytic and senolytic effects. Geroscience 2022 Feb;44(1):463-483. PMID: 34820764
  • Liang ZQ, Gao L, Chen JH, Dai WB et al. Downregulation of the Coiled-Coil Domain Containing 80 and Its Perspective Mechanisms in Ovarian Carcinoma: A Comprehensive Study. Int J Genomics 2021;2021:3752871. PMID: 34820451
  • Constantino FB, Cury SS, Nogueira CR, Carvalho RF et al. Prediction of Non-canonical Routes for SARS-CoV-2 Infection in Human Placenta Cells. Front Mol Biosci 2021;8:614728. PMID: 34820418
  • Li X, Li Z, Liu P, Ai S et al. Novel CircRNAs in Hub ceRNA Axis Regulate Gastric Cancer Prognosis and Microenvironment. Front Med (Lausanne) 2021;8:771206. PMID: 34820403
  • Shen S, Wang R, Qiu H, Li C et al. Development of an Autophagy-Based and Stemness-Correlated Prognostic Model for Hepatocellular Carcinoma Using Bulk and Single-Cell RNA-Sequencing. Front Cell Dev Biol 2021;9:743910. PMID: 34820373
  • Meng X, Liu J, Zhao M et al. Genome-wide identification of RING finger genes in flax (Linum usitatissimum) and analyses of their evolution. PeerJ 2021;9:e12491. PMID: 34820204
  • Liu R, Yin H, Sun X, Liu S et al. Interleukin 20 receptor A expression in colorectal cancer and its clinical significance. PeerJ 2021;9:e12467. PMID: 34820194
  • Tyagi P, Bhide M et al. Development of a bioinformatics platform for analysis of quantitative transcriptomics and proteomics data: the OMnalysis. PeerJ 2021;9:e12415. PMID: 34820180
  • Zhang B, Gao L, Shao C, Deng M et al. Arecoline Enhances Phosphodiesterase 4A Activity to Promote Transforming Growth Factor-β-Induced Buccal Mucosal Fibroblast Activation via cAMP-Epac1 Signaling Pathway. Front Pharmacol 2021;12:722040. PMID: 34819854
  • Kim DK, Lee JS, Lee EY, Jang H et al. O-GlcNAcylation of Sox2 at threonine 258 regulates the self-renewal and early cell fate of embryonic stem cells. Exp Mol Med 2021 Nov;53(11):1759-1768. PMID: 34819616
  • Liu Y, Debo B, Li M, Shi Z et al. LSD1 inhibition sustains T cell invigoration with a durable response to PD-1 blockade. Nat Commun 2021 Nov 24;12(1):6831. PMID: 34819502
  • Lin B, Liu J, Zhang Y, Wu Y et al. Urinary peptidomics reveals proteases involved in idiopathic membranous nephropathy. BMC Genomics 2021 Nov 24;22(1):852. PMID: 34819020
  • Kenchappa RS, Liu Y, Argenziano MG, Banu MA et al. Protein kinase C(ι) and SRC signaling define reciprocally related subgroups of glioblastoma with distinct therapeutic vulnerabilities. Cell Rep 2021 Nov 23;37(8):110054. PMID: 34818553
  • Reddy J, Fonseca MAS, Corona RI, Nameki R et al. Predicting master transcription factors from pan-cancer expression data. Sci Adv 2021 Nov 26;7(48):eabf6123. PMID: 34818047
  • Porcù E, Benetton M, Bisio V, Da Ros A et al. The long non-coding RNA CDK6-AS1 overexpression impacts on acute myeloid leukemia differentiation and mitochondrial dynamics. iScience 2021 Nov 19;24(11):103350. PMID: 34816103
  • Li Q, Wang Y, Deng W, Liu Y et al. Heterogeneity of cell composition and origin identified by single-cell transcriptomics in renal cysts of patients with autosomal dominant polycystic kidney disease. Theranostics 2021;11(20):10064-10073. PMID: 34815804
  • Sun H, Wang G, Cai J, Wei X et al. Long non-coding RNA H19 mediates N-acetyltransferase 1 gene methylation in the development of tamoxifen resistance in breast cancer. Exp Ther Med 2022 Jan;23(1):12. PMID: 34815764
  • Jiang J, Li Z, Chen C, Jiang W et al. Metabolomics Strategy Assisted by Transcriptomics Analysis to Identify Potential Biomarkers Associated with Tuberculosis. Infect Drug Resist 2021;14:4795-4807. PMID: 34815677
  • An J, Yang T, Dong J, Liao Z et al. Identifying miRNA Modules and Related Pathways of Chronic Obstructive Pulmonary Disease Associated Emphysema by Weighted Gene Co-Expression Network Analysis. Int J Chron Obstruct Pulmon Dis 2021;16:3119-3130. PMID: 34815668
  • Smith PR, Loerch S, Kunder N, Stanowick AD et al. Functionally distinct roles for eEF2K in the control of ribosome availability and p-body abundance. Nat Commun 2021 Nov 23;12(1):6789. PMID: 34815424
  • Georgolopoulos G, Psatha N, Iwata M, Nishida A et al. Discrete regulatory modules instruct hematopoietic lineage commitment and differentiation. Nat Commun 2021 Nov 23;12(1):6790. PMID: 34815405
  • Schmelz K, Toedling J, Huska M, Cwikla MC et al. Spatial and temporal intratumour heterogeneity has potential consequences for single biopsy-based neuroblastoma treatment decisions. Nat Commun 2021 Nov 23;12(1):6804. PMID: 34815394
  • Yang J, Li Y, Han Y, Feng Y et al. Single-cell transcriptome profiling reveals intratumoural heterogeneity and malignant progression in retinoblastoma. Cell Death Dis 2021 Nov 23;12(12):1100. PMID: 34815392
  • Yan B, Tzertzinis G, Schildkraut I, Ettwiller L et al. Comprehensive determination of transcription start sites derived from all RNA polymerases using ReCappable-seq. Genome Res 2022 Jan;32(1):162-174. PMID: 34815308
  • Niu F, Liu Z, Liu P, Pan H et al. Identification of novel genetic biomarkers and treatment targets for arteriosclerosis-related abdominal aortic aneurysm using bioinformatic tools. Math Biosci Eng 2021 Nov 5;18(6):9761-9774. PMID: 34814367
  • Hammad A, Elshaer M, Tang X et al. Identification of potential biomarkers with colorectal cancer based on bioinformatics analysis and machine learning. Math Biosci Eng 2021 Oct 19;18(6):8997-9015. PMID: 34814332
  • Zhang B, Zeng K, Li R, Jiang H et al. Construction of the gene expression subgroups of patients with coronary artery disease through bioinformatics approach. Math Biosci Eng 2021 Oct 9;18(6):8622-8640. PMID: 34814316
  • Wang S, Xie X, Li C, Jia J et al. Integrative network analysis of N(6) methylation-related genes reveal potential therapeutic targets for spinal cord injury. Math Biosci Eng 2021 Sep 18;18(6):8174-8187. PMID: 34814294
  • Oliver C, Martinez G et al. Accumulation dynamics of ARGONAUTE proteins during meiosis in Arabidopsis. Plant Reprod 2022 Jun;35(2):153-160. PMID: 34812935
  • Medini H, Zirman A, Mishmar D et al. Immune system cells from COVID-19 patients display compromised mitochondrial-nuclear expression co-regulation and rewiring toward glycolysis. iScience 2021 Dec 17;24(12):103471. PMID: 34812416
  • López-Pérez AR, Balwierz PJ, Lenhard B, Muller F et al. Identification of downstream effectors of retinoic acid specifying the zebrafish pancreas by integrative genomics. Sci Rep 2021 Nov 22;11(1):22717. PMID: 34811400
  • Grelet S, Fréreux C, Obellianne C, Noguchi K et al. TGFβ-induced expression of long noncoding lincRNA Platr18 controls breast cancer axonogenesis. Life Sci Alliance 2022 Feb;5(2). PMID: 34810279
  • Girgis J, Yang D, Chakroun I, Liu Y et al. Six1 promotes skeletal muscle thyroid hormone response through regulation of the MCT10 transporter. Skelet Muscle 2021 Nov 19;11(1):26. PMID: 34809717
  • Deng G, Wang W, Li Y, Sun H et al. Nomogram based on autophagy related genes for predicting the survival in melanoma. BMC Cancer 2021 Nov 22;21(1):1258. PMID: 34809598
  • Li J, Muhammad J, Xie T, Sun J et al. LINC00853 restrains T cell acute lymphoblastic leukemia invasion and infiltration by regulating CCR9/CCL25. Mol Immunol 2021 Dec;140:267-275. PMID: 34808497
  • Jussila AR, Zhang B, Caves E, Kirti S et al. Skin Fibrosis and Recovery Is Dependent on Wnt Activation via DPP4. J Invest Dermatol 2022 Jun;142(6):1597-1606.e9. PMID: 34808238
  • Takei H, Coelho-Silva JL, Tavares Leal C, Queiroz Arantes Rocha A et al. Suppression of multiple anti-apoptotic BCL2 family proteins recapitulates the effects of JAK2 inhibitors in JAK2V617F driven myeloproliferative neoplasms. Cancer Sci 2022 Feb;113(2):597-608. PMID: 34808021
  • Yuki A, Fujii C, Yamanoi K, Matoba H et al. Glycosylation of MUC6 by α1,4-linked N-acetylglucosamine enhances suppression of pancreatic cancer malignancy. Cancer Sci 2022 Feb;113(2):576-586. PMID: 34808019
  • Sen'kova AV, Savin IA, Brenner EV, Zenkova MA et al. Core genes involved in the regulation of acute lung injury and their association with COVID-19 and tumor progression: A bioinformatics and experimental study. PLoS One 2021;16(11):e0260450. PMID: 34807957
  • Peng M, Ren J, Jing Y, Jiang X et al. Tumour-derived small extracellular vesicles suppress CD8+ T cell immune function by inhibiting SLC6A8-mediated creatine import in NPM1-mutated acute myeloid leukaemia. J Extracell Vesicles 2021 Nov;10(13):e12168. PMID: 34807526
  • Yang C, Wu J, Lu X, Xiong S et al. Identification of novel biomarkers for intracerebral hemorrhage via long noncoding RNA-associated competing endogenous RNA network. Mol Omics 2022 Jan 17;18(1):71-82. PMID: 34807207
  • Agarwal I, Przeworski M et al. Mutation saturation for fitness effects at human CpG sites. Elife 2021 Nov 22;10. PMID: 34806592
  • Tuong ZK, Lukowski SW, Nguyen QH, Chandra J et al. A model of impaired Langerhans cell maturation associated with HPV induced epithelial hyperplasia. iScience 2021 Nov 19;24(11):103326. PMID: 34805788
  • Han T, Wu Z, Zhu J, Kou Y et al. Analysis and Construction of a Molecular Diagnosis Model of Drug-Resistant Epilepsy Based on Bioinformatics. Front Mol Biosci 2021;8:683032. PMID: 34805265
  • Zhang Y, Peng J, Du H, Zhang N et al. Identification and Validation of Immune- and Stemness-Related Prognostic Signature of Melanoma. Front Cell Dev Biol 2021;9:755284. PMID: 34805163
  • Li X, Liang W, Zhao H, Jin Z et al. Immune Cell Infiltration Landscape of Ovarian Cancer to Identify Prognosis and Immunotherapy-Related Genes to Aid Immunotherapy. Front Cell Dev Biol 2021;9:749157. PMID: 34805159
  • Badanjak K, Mulica P, Smajic S, Delcambre S et al. iPSC-Derived Microglia as a Model to Study Inflammation in Idiopathic Parkinson's Disease. Front Cell Dev Biol 2021;9:740758. PMID: 34805149
  • Yang Y, Li J, Yao L, Wu L et al. Effect of Photodynamic Therapy on Gemcitabine-Resistant Cholangiocarcinoma in vitro and in vivo Through KLF10 and EGFR. Front Cell Dev Biol 2021;9:710721. PMID: 34805140
  • Ke M, Qian J, Hao F, Li X et al. Acupuncture Synergized With Bortezomib Improves Survival of Multiple Myeloma Mice via Decreasing Metabolic Ornithine. Front Oncol 2021;11:779562. PMID: 34804983
  • Zhu X, Zhou R, Lu Y, Zhang Y et al. Identification and Validation of Afatinib Potential Drug Resistance Gene BIRC5 in Non-Small Cell Lung Cancer. Front Oncol 2021;11:763035. PMID: 34804966
  • Zhao G, An J, Pu Q, Geng W et al. Gene Signatures and Cancer-Immune Phenotypes Based on m(6)A Regulators in Breast Cancer. Front Oncol 2021;11:756412. PMID: 34804948
  • Mao C, Ma L, Huang Y, Yang X et al. Immunogenomic Landscape and Immune-Related Gene-Based Prognostic Signature in Asian Gastric Cancer. Front Oncol 2021;11:750768. PMID: 34804939
  • Mei Y, Li K, Zhang Z, Li M et al. miR-33b-3p Acts as a Tumor Suppressor by Targeting DOCK4 in Prostate Cancer. Front Oncol 2021;11:740452. PMID: 34804930
  • Ding J, Li H, Liu Y, Xie Y et al. OXCT1 Enhances Gemcitabine Resistance Through NF-κB Pathway in Pancreatic Ductal Adenocarcinoma. Front Oncol 2021;11:698302. PMID: 34804914
  • Gao L, Zhao R, Liu J, Zhang W et al. KIF15 Promotes Progression of Castration Resistant Prostate Cancer by Activating EGFR Signaling Pathway. Front Oncol 2021;11:679173. PMID: 34804913
  • Li J, Zhang L, Yuan Y, Wang Q et al. In Silico Functional Prediction and Expression Analysis of C2H2 Zinc-Finger Family Transcription Factor Revealed Regulatory Role of ZmZFP126 in Maize Growth. Front Genet 2021;12:770427. PMID: 34804129
  • Xu Z, Xie Y, Mao Y, Huang J et al. Ferroptosis-Related Gene Signature Predicts the Prognosis of Skin Cutaneous Melanoma and Response to Immunotherapy. Front Genet 2021;12:758981. PMID: 34804126
  • Guan Q, Tian Y, Zhang Z, Zhang L et al. Identification of Potential Key Genes in the Pathogenesis of Chronic Obstructive Pulmonary Disease Through Bioinformatics Analysis. Front Genet 2021;12:754569. PMID: 34804123
  • Fuentelsaz-Romero S, Barrio-Alonso C, García Campos R, Torres Torresano M et al. The Macrophage Reprogramming Ability of Antifolates Reveals Soluble CD14 as a Potential Biomarker for Methotrexate Response in Rheumatoid Arthritis. Front Immunol 2021;12:776879. PMID: 34804067
  • Guo Y, Wang R, Li J, Song Y et al. Comprehensive Analysis of m6A RNA Methylation Regulators and the Immune Microenvironment to Aid Immunotherapy in Pancreatic Cancer. Front Immunol 2021;12:769425. PMID: 34804059
  • Lu Y, Li K, Hu Y, Wang X et al. Expression of Immune Related Genes and Possible Regulatory Mechanisms in Alzheimer's Disease. Front Immunol 2021;12:768966. PMID: 34804058
  • Yan M, Hu J, Ping Y, Xu L et al. Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma. Front Immunol 2021;12:758288. PMID: 34804045
  • Yang Q, Zhang H, Wei T, Lin A et al. Single-Cell RNA Sequencing Reveals the Heterogeneity of Tumor-Associated Macrophage in Non-Small Cell Lung Cancer and Differences Between Sexes. Front Immunol 2021;12:756722. PMID: 34804043
  • Matsumoto H, Scicluna BP, Jim KK, Falahi F et al. HIVEP1 Is a Negative Regulator of NF-κB That Inhibits Systemic Inflammation in Sepsis. Front Immunol 2021;12:744358. PMID: 34804025
  • Hu Z, Zhang H, Fan F, Wang Z et al. Identification of Methylation Immune Subtypes and Establishment of a Prognostic Signature for Gliomas Using Immune-Related Genes. Front Immunol 2021;12:737650. PMID: 34804019
  • Jung HJ, Coleman R, Woodward OM, Welling PA et al. Doxycycline Changes the Transcriptome Profile of mIMCD3 Renal Epithelial Cells. Front Physiol 2021;12:771691. PMID: 34803745
  • Lai Y, Han T, Lao Z, Li G et al. Phillyrin for COVID-19 and Influenza Co-infection: A Potential Therapeutic Strategy Targeting Host Based on Bioinformatics Analysis. Front Pharmacol 2021;12:754241. PMID: 34803696
  • He YY, Xie XM, Zhang HD, Ye J et al. Identification of Hypoxia Induced Metabolism Associated Genes in Pulmonary Hypertension. Front Pharmacol 2021;12:753727. PMID: 34803695
  • Wang Z, Li X, Yang J, Gong Y et al. Single-cell RNA sequencing deconvolutes the in vivo heterogeneity of human bone marrow-derived mesenchymal stem cells. Int J Biol Sci 2021;17(15):4192-4206. PMID: 34803492
  • Imam N, Alam A, Siddiqui MF, Ahmed MM et al. Identification of key regulators in parathyroid adenoma using an integrative gene network analysis. Bioinformation 2020;16(11):910-922. PMID: 34803267
  • Zmyslowska A, Kuljanin M, Malachowska B, Stanczak M et al. Multiomic analysis on human cell model of wolfram syndrome reveals changes in mitochondrial morphology and function. Cell Commun Signal 2021 Nov 20;19(1):116. PMID: 34801048
  • Du Y, Cao J, Jiang X, Cai X et al. Comprehensive analysis of CXCL12 expression reveals the significance of inflammatory fibroblasts in bladder cancer carcinogenesis and progression. Cancer Cell Int 2021 Nov 20;21(1):613. PMID: 34801033
  • Ding Q, Edwards MM, Wang N, Zhu X et al. The genetic architecture of DNA replication timing in human pluripotent stem cells. Nat Commun 2021 Nov 19;12(1):6746. PMID: 34799581
  • Pahl MC, Doege CA, Hodge KM, Littleton SH et al. Cis-regulatory architecture of human ESC-derived hypothalamic neuron differentiation aids in variant-to-gene mapping of relevant complex traits. Nat Commun 2021 Nov 19;12(1):6749. PMID: 34799566
  • Nöthling J, Abrahams N, Toikumo S, Suderman M et al. Genome-wide differentially methylated genes associated with posttraumatic stress disorder and longitudinal change in methylation in rape survivors. Transl Psychiatry 2021 Nov 19;11(1):594. PMID: 34799556
  • De Santis R, Etoc F, Rosado-Olivieri EA, Brivanlou AH et al. Self-organization of human dorsal-ventral forebrain structures by light induced SHH. Nat Commun 2021 Nov 19;12(1):6768. PMID: 34799555
  • Ye Y, Feng W, Zhang J, Zhu K et al. Genome-wide identification and characterization of circular RNA m(6)A modification in pancreatic cancer. Genome Med 2021 Nov 19;13(1):183. PMID: 34798904
  • Ito Y, Nakahara F, Kagoya Y, Kurokawa M et al. CD62L expression level determines the cell fate of myeloid progenitors. Stem Cell Reports 2021 Dec 14;16(12):2871-2886. PMID: 34798065
  • Wang JH, Kumar S, Liu GS et al. Bulk Gene Expression Deconvolution Reveals Infiltration of M2 Macrophages in Retinal Neovascularization. Invest Ophthalmol Vis Sci 2021 Nov 1;62(14):22. PMID: 34797904
  • Xu H, Chai SS, Lv P, Wang JJ et al. CNN3 in glioma: The prognostic factor and a potential immunotherapeutic target. Medicine (Baltimore) 2021 Nov 19;100(46):e27931. PMID: 34797350
  • Quan X, Zhao C, Gao Z, Zhang Y et al. DDX10 and BYSL as the potential targets of chondrosarcoma and glioma. Medicine (Baltimore) 2021 Nov 19;100(46):e27669. PMID: 34797290
  • Parrish A, Srivastava A, Juskeviciute E, Hoek JB et al. Dysregulation of miR-21-associated miRNA regulatory networks by chronic ethanol consumption impairs liver regeneration. Physiol Genomics 2021 Dec 1;53(12):546-555. PMID: 34796728
  • Li J, Gao X, Zhu W, Li X et al. Integrative Analysis of the Expression of microRNA, Long Noncoding RNA, and mRNA in Osteoarthritis and Construction of a Competing Endogenous Network. Biochem Genet 2022 Aug;60(4):1141-1158. PMID: 34796409
  • Shchukina I, Bagaitkar J, Shpynov O, Loginicheva E et al. Enhanced epigenetic profiling of classical human monocytes reveals a specific signature of healthy aging in the DNA methylome. Nat Aging 2021 Jan;1(1):124-141. PMID: 34796338
  • Athmane N, Williamson I, Boyle S, Biddie SC et al. MUC4 is not expressed in cell lines used for live cell imaging. Wellcome Open Res 2021;6:265. PMID: 34796278
  • Sun Y, Li L, Yao W, Liu X et al. USH2A Mutation is Associated With Tumor Mutation Burden and Antitumor Immunity in Patients With Colon Adenocarcinoma. Front Genet 2021;12:762160. PMID: 34795697
  • Tinel C, Lamarthée B, Callemeyn J, Van Loon E et al. Integrative Omics Analysis Unravels Microvascular Inflammation-Related Pathways in Kidney Allograft Biopsies. Front Immunol 2021;12:738795. PMID: 34795664
  • Han T, Hu X, Li K, Zhang D et al. Bifidobacterium infantis Maintains Genome Stability in Ulcerative Colitis via Regulating Anaphase-Promoting Complex Subunit 7. Front Microbiol 2021;12:761113. PMID: 34795654
  • Akama-Garren EH, van den Broek T, Simoni L, Castrillon C et al. Follicular T cells are clonally and transcriptionally distinct in B cell-driven mouse autoimmune disease. Nat Commun 2021 Nov 18;12(1):6687. PMID: 34795279
  • Mukhopadhyay C, Yang C, Xu L, Liu D et al. G3BP1 inhibits Cul3(SPOP) to amplify AR signaling and promote prostate cancer. Nat Commun 2021 Nov 18;12(1):6662. PMID: 34795264
  • Phillips D, Matusiak M, Gutierrez BR, Bhate SS et al. Immune cell topography predicts response to PD-1 blockade in cutaneous T cell lymphoma. Nat Commun 2021 Nov 18;12(1):6726. PMID: 34795254
  • Arnold CP, Lozano AM, Mann FG Jr, Nowotarski SH et al. Hox genes regulate asexual reproductive behavior and tissue segmentation in adult animals. Nat Commun 2021 Nov 18;12(1):6706. PMID: 34795249
  • Qin W, Yuan Q, Liu Y, Zeng Y et al. Identification of key molecular markers in epithelial ovarian cancer by integrated bioinformatics analysis. Taiwan J Obstet Gynecol 2021 Nov;60(6):983-994. PMID: 34794761
  • Henning AN, Green D, Baumann R, Grandinetti P et al. Immunomagnetic B cell isolation as a tool to study blood cell subsets and enrich B cell transcripts. BMC Res Notes 2021 Nov 18;14(1):418. PMID: 34794498
  • Wang L, Gao Z, Liu C, Li J et al. Potential biomarkers of abnormal osseointegration of implants in type II diabetes mellitus. BMC Oral Health 2021 Nov 18;21(1):583. PMID: 34794414
  • Seczynska M, Bloor S, Cuesta SM, Lehner PJ et al. Genome surveillance by HUSH-mediated silencing of intronless mobile elements. Nature 2022 Jan;601(7893):440-445. PMID: 34794168
  • Ctortecka C, Krššáková G, Stejskal K, Penninger JM et al. Comparative Proteome Signatures of Trace Samples by Multiplexed Data-Independent Acquisition. Mol Cell Proteomics 2022 Jan;21(1):100177. PMID: 34793982
  • Herz J, Fu Z, Kim K, Dykstra T et al. GABAergic neuronal IL-4R mediates T cell effect on memory. Neuron 2021 Nov 17;109(22):3609-3618.e9. PMID: 34793707
  • Bignon Y, Rinaldi A, Nadour Z, Poindessous V et al. Cell stress response impairs de novo NAD+ biosynthesis in the kidney. JCI Insight 2022 Jan 11;7(1). PMID: 34793337
  • Zhao X, Shi L, Ruan S, Bi W et al. CircleBase: an integrated resource and analysis platform for human eccDNAs. Nucleic Acids Res 2022 Jan 7;50(D1):D72-D82. PMID: 34792166
  • Dumetz F, Chow EY, Harris LM, Liew SW et al. G-quadruplex RNA motifs influence gene expression in the malaria parasite Plasmodium falciparum. Nucleic Acids Res 2021 Dec 2;49(21):12486-12501. PMID: 34792144
  • Decker KT, Gao Y, Rychel K, Al Bulushi T et al. proChIPdb: a chromatin immunoprecipitation database for prokaryotic organisms. Nucleic Acids Res 2022 Jan 7;50(D1):D1077-D1084. PMID: 34791440
  • Arshinoff BI, Cary GA, Karimi K, Foley S et al. Echinobase: leveraging an extant model organism database to build a knowledgebase supporting research on the genomics and biology of echinoderms. Nucleic Acids Res 2022 Jan 7;50(D1):D970-D979. PMID: 34791383
  • Ho CH, Huang YJ, Lai YJ, Mukherjee R et al. The misuse of distributional assumptions in functional class scoring gene-set and pathway analysis. G3 (Bethesda) 2022 Jan 4;12(1). PMID: 34791175
  • Hong F, Gong Z, Zhang X, Ma P et al. Identification of biomarkers and ceRNA network in glioblastoma through bioinformatic analysis and evaluation of potential prognostic values. Ann Transl Med 2021 Oct;9(20):1561. PMID: 34790767
  • Gong J, Jin B, Shang L, Liu N et al. Characterization of the Immune Cell Infiltration Landscape of Thyroid Cancer for Improved Immunotherapy. Front Mol Biosci 2021;8:714053. PMID: 34790698
  • Zheng K, Yao S, Yao W, Li Q et al. Association Between RSK2 and Clinical Indexes of Primary Breast Cancer: A Meta-Analysis Based on mRNA Microarray Data. Front Genet 2021;12:770134. PMID: 34790230
  • Li G, Zhang J, Liu D, Wei Q et al. Identification of Hub Genes and Potential ceRNA Networks of Diabetic Nephropathy by Weighted Gene Co-Expression Network Analysis. Front Genet 2021;12:767654. PMID: 34790229
  • Guo Y, Huang B, Li R, Li J et al. Low APOA-1 Expression in Hepatocellular Carcinoma Patients Is Associated With DNA Methylation and Poor Overall Survival. Front Genet 2021;12:760744. PMID: 34790226
  • Li W, Zhou Y, Wu Z, Shi Y et al. Targeting Wnt Signaling in the Tumor Immune Microenvironment to Enhancing EpCAM CAR T-Cell therapy. Front Pharmacol 2021;12:724306. PMID: 34790117
  • Miyashita N, Enokido T, Horie M, Fukuda K et al. TGF-β-mediated epithelial-mesenchymal transition and tumor-promoting effects in CMT64 cells are reflected in the transcriptomic signature of human lung adenocarcinoma. Sci Rep 2021 Nov 17;11(1):22380. PMID: 34789779
  • Geusz RJ, Wang A, Lam DK, Vinckier NK et al. Sequence logic at enhancers governs a dual mechanism of endodermal organ fate induction by FOXA pioneer factors. Nat Commun 2021 Nov 17;12(1):6636. PMID: 34789735
  • Zhu L, Zhao S, Zhao W et al. Potential Regulatory Role of lncRNA-miRNA-mRNA in Coronary Artery Disease (CAD). Int Heart J 2021 Nov 30;62(6):1369-1378. PMID: 34789641
  • Langdon RJ, Yousefi P, Relton CL, Suderman MJ et al. Epigenetic modelling of former, current and never smokers. Clin Epigenetics 2021 Nov 17;13(1):206. PMID: 34789321
  • Wu H, Tian W, Tai X, Li X et al. Identification and functional analysis of novel oncogene DDX60L in pancreatic ductal adenocarcinoma. BMC Genomics 2021 Nov 18;22(1):833. PMID: 34789165
  • Bhalla S, Melnekoff DT, Aleman A, Leshchenko V et al. Patient similarity network of newly diagnosed multiple myeloma identifies patient subgroups with distinct genetic features and clinical implications. Sci Adv 2021 Nov 19;7(47):eabg9551. PMID: 34788103
  • Heino S, Fang S, Lähde M, Högström J et al. Lef1 restricts ectopic crypt formation and tumor cell growth in intestinal adenomas. Sci Adv 2021 Nov 19;7(47):eabj0512. PMID: 34788095
  • Singh S, Quarni W, Goralski M, Wan S et al. Targeting the spliceosome through RBM39 degradation results in exceptional responses in high-risk neuroblastoma models. Sci Adv 2021 Nov 19;7(47):eabj5405. PMID: 34788094
  • Meng J, Cao L, Song H, Chen L et al. Integrated analysis of gene expression and DNA methylation datasets identified key genes and a 6-gene prognostic signature for primary lung adenocarcinoma. Genet Mol Biol 2021;44(4):e20200465. PMID: 34787244
  • Mukund K, Mathee K, Subramaniam S et al. Plasmin Cascade Mediates Thrombotic Events in SARS-CoV-2 Infection via Complement and Platelet-Activating Systems. IEEE Open J Eng Med Biol 2020;1:220-227. PMID: 34786557
  • Feng J, Wei T, Cui X, Wei R et al. Identification of key genes and pathways in mild and severe nonalcoholic fatty liver disease by integrative analysis. Chronic Dis Transl Med 2021 Dec;7(4):276-286. PMID: 34786546
  • Chai D, Jia C, Zheng J, Zou Q et al. Staem5: A novel computational approachfor accurate prediction of m5C site. Mol Ther Nucleic Acids 2021 Dec 3;26:1027-1034. PMID: 34786208
  • Liu Y, Du Z, Xu Z, Jin T et al. Overexpressed GNA13 induces temozolomide sensitization via down-regulating MGMT and p-RELA in glioma. Am J Transl Res 2021;13(10):11413-11426. PMID: 34786068
  • Demetriadou C, Raoukka A, Charidemou E, Mylonas C et al. Histone N-terminal acetyltransferase NAA40 links one-carbon metabolism to chemoresistance. Oncogene 2022 Jan;41(4):571-585. PMID: 34785778
  • Starks RR, Kaur H, Tuteja G et al. Mapping cis-regulatory elements in the midgestation mouse placenta. Sci Rep 2021 Nov 16;11(1):22331. PMID: 34785717
  • Imami AS, McCullumsmith RE, O'Donovan SM et al. Strategies to identify candidate repurposable drugs: COVID-19 treatment as a case example. Transl Psychiatry 2021 Nov 16;11(1):591. PMID: 34785660
  • Wu MZ, Yuan YC, Huang BY, Chen JX et al. Identification of a TGF-β/SMAD/lnc-UTGF positive feedback loop and its role in hepatoma metastasis. Signal Transduct Target Ther 2021 Nov 17;6(1):395. PMID: 34785655
  • Schmid KT, Höllbacher B, Cruceanu C, Böttcher A et al. scPower accelerates and optimizes the design of multi-sample single cell transcriptomic studies. Nat Commun 2021 Nov 16;12(1):6625. PMID: 34785648
  • Dottermusch M, Sumisławski P, Krevet J, Middelkamp M et al. Co-activation of Sonic hedgehog and Wnt signaling in murine retinal precursor cells drives ocular lesions with features of intraocular medulloepithelioma. Oncogenesis 2021 Nov 16;10(11):78. PMID: 34785636
  • Zhang Z, Chai H, Wang Y, Pan Z et al. Cancer survival prognosis with Deep Bayesian Perturbation Cox Network. Comput Biol Med 2022 Feb;141:105012. PMID: 34785075
  • Qu J, Luo M, Zhang J, Han F et al. A paradoxical role for sestrin 2 protein in tumor suppression and tumorigenesis. Cancer Cell Int 2021 Nov 16;21(1):606. PMID: 34784907
  • Wang J, Mijiti Y, Chen Y, Liu Z et al. Aryl hydrocarbon receptor is a prognostic biomarker and is correlated with immune responses in cervical cancer. Bioengineered 2021 Dec;12(2):11922-11935. PMID: 34784845
  • Fan X, Liu M, Fei L, Huang Z et al. CircFOXM1 promotes the proliferation, migration, invasion, and glutaminolysis of glioblastoma by regulating the miR-577/E2F5 axis. Bosn J Basic Med Sci 2022 Apr 1;22(2):205-216. PMID: 34784267
  • Wang J, Rattner A, Nathans J et al. A transcriptome atlas of the mouse iris at single-cell resolution defines cell types and the genomic response to pupil dilation. Elife 2021 Nov 16;10. PMID: 34783308
  • Yoo JS, Sasaki M, Cho SX, Kasuga Y et al. SARS-CoV-2 inhibits induction of the MHC class I pathway by targeting the STAT1-IRF1-NLRC5 axis. Nat Commun 2021 Nov 15;12(1):6602. PMID: 34782627
  • Choate LA, Barshad G, McMahon PW, Said I et al. Multiple stages of evolutionary change in anthrax toxin receptor expression in humans. Nat Commun 2021 Nov 15;12(1):6590. PMID: 34782625
  • Han Y, Hu X, Yun X, Liu J et al. Nucleolar and spindle associated protein 1 enhances chemoresistance through DNA damage repair pathway in chronic lymphocytic leukemia by binding with RAD51. Cell Death Dis 2021 Nov 15;12(11):1083. PMID: 34782617
  • Belluti S, Semeghini V, Rigillo G, Ronzio M et al. Alternative splicing of NF-YA promotes prostate cancer aggressiveness and represents a new molecular marker for clinical stratification of patients. J Exp Clin Cancer Res 2021 Nov 15;40(1):362. PMID: 34782004
  • Qu Q, Sun JY, Zhang ZY, Su Y et al. Hub microRNAs and genes in the development of atrial fibrillation identified by weighted gene co-expression network analysis. BMC Med Genomics 2021 Nov 15;14(1):271. PMID: 34781940
  • Xu YN, Deng MS, Liu YF, Yao J et al. Tight junction protein CLDN17 serves as a tumor suppressor to reduce the invasion and migration of oral cancer cells by inhibiting epithelial-mesenchymal transition. Arch Oral Biol 2022 Jan;133:105301. PMID: 34781072
  • Shi Z, Mori-Akiyama Y, Du W, Fultz R et al. Loss of H2R Signaling Disrupts Neutrophil Homeostasis and Promotes Inflammation-Associated Colonic Tumorigenesis in Mice. Cell Mol Gastroenterol Hepatol 2022;13(3):717-737. PMID: 34781022
  • Guo T, Xing Y, Zhu H, Yang L et al. Relationship between osteoporosis and benign paroxysmal positional vertigo based on evidence-based medicine and bioinformatics. Arch Osteoporos 2021 Nov 15;16(1):173. PMID: 34779956
  • Li Q, Liu W, Wang Z, Wang C et al. Exosomal ANXA1 derived from thyroid cancer cells is associated with malignant transformation of human thyroid follicular epithelial cells by promoting cell proliferation. Int J Oncol 2021 Dec;59(6). PMID: 34779491
  • Wang X, Wu F, Deng Y, Chai J et al. Increased expression of PSME2 is associated with clear cell renal cell carcinoma invasion by regulating BNIP3‑mediated autophagy. Int J Oncol 2021 Dec;59(6). PMID: 34779489
  • Li P, Li Q, Biswas N, Xin H et al. LIF, a mitogen for choroidal endothelial cells, protects the choriocapillaris: implications for prevention of geographic atrophy. EMBO Mol Med 2022 Jan 11;14(1):e14511. PMID: 34779136
  • de Mey S, Dufait I, De Ridder M et al. Radioresistance of Human Cancers: Clinical Implications of Genetic Expression Signatures. Front Oncol 2021;11:761901. PMID: 34778082
  • Dang Q, Liu Z, Hu S, Chen Z et al. Derivation and Clinical Validation of a Redox-Driven Prognostic Signature for Colorectal Cancer. Front Oncol 2021;11:743703. PMID: 34778061
  • Lin L, Huang K, Tu Z, Zhu X et al. Integrin Alpha-2 as a Potential Prognostic and Predictive Biomarker for Patients With Lower-Grade Glioma. Front Oncol 2021;11:738651. PMID: 34778054
  • Ding J, Xu J, Deng Q, Ma W et al. Knockdown of Oligosaccharyltransferase Subunit Ribophorin 1 Induces Endoplasmic-Reticulum-Stress-Dependent Cell Apoptosis in Breast Cancer. Front Oncol 2021;11:722624. PMID: 34778038
  • Zhang S, Wan J, Chen M, Cai D et al. Tumor-Infiltrating CD8+ T Cells Driven by the Immune Checkpoint-Associated Gene IDO1 Are Associated With Cervical Cancer Prognosis. Front Oncol 2021;11:720447. PMID: 34778035
  • Zhu Y, Zhang C, Zhao D, Li W et al. BDNF Acts as a Prognostic Factor Associated with Tumor-Infiltrating Th2 Cells in Pancreatic Adenocarcinoma. Dis Markers 2021;2021:7842035. PMID: 34777634
  • Zhang L, Wang Q, Xie X et al. Identification of Biomarkers Related to Immune Cell Infiltration with Gene Coexpression Network in Myocardial Infarction. Dis Markers 2021;2021:2227067. PMID: 34777632
  • Wu C, Zhou Y, Wang M, Dai G et al. Bioinformatics Analysis Explores Potential Hub Genes in Nonalcoholic Fatty Liver Disease. Front Genet 2021;12:772487. PMID: 34777484
  • Yang B, Zhou M, Wu Y, Ma Y et al. The Impact of Immune Microenvironment on the Prognosis of Pancreatic Ductal Adenocarcinoma Based on Multi-Omics Analysis. Front Immunol 2021;12:769047. PMID: 34777388
  • Liu J, Chen C, Wang Y, Qian C et al. Comprehensive of N1-Methyladenosine Modifications Patterns and Immunological Characteristics in Ovarian Cancer. Front Immunol 2021;12:746647. PMID: 34777359
  • Sarif J, Raychaudhuri D, D'Rozario R, Bandopadhyay P et al. Plasma Gradient of Soluble Urokinase-Type Plasminogen Activator Receptor Is Linked to Pathogenic Plasma Proteome and Immune Transcriptome and Stratifies Outcomes in Severe COVID-19. Front Immunol 2021;12:738093. PMID: 34777349
  • Qiu D, Hu J, Hu J, Yu A et al. PMEPA1 Is a Prognostic Biomarker That Correlates With Cell Malignancy and the Tumor Microenvironment in Bladder Cancer. Front Immunol 2021;12:705086. PMID: 34777336
  • Ren X, Chen X, Zhang X, Jiang S et al. Immune Microenvironment and Response in Prostate Cancer Using Large Population Cohorts. Front Immunol 2021;12:686809. PMID: 34777331
  • Cai S, Huang K, Yang F, Wang X et al. Cortical Thickness Differences Are Associated With Chemical Synaptic Transmission Upregulated Genes in Degeneration of Mild Cognitive Impairment. Front Aging Neurosci 2021;13:745381. PMID: 34776930
  • Wong X, Hoskins VE, Melendez-Perez AJ, Harr JC et al. Lamin C is required to establish genome organization after mitosis. Genome Biol 2021 Nov 15;22(1):305. PMID: 34775987
  • Gong LJ, Wang XY, Yao XD, Wu X et al. CircESRP1 inhibits clear cell renal cell carcinoma progression through the CTCF-mediated positive feedback loop. Cell Death Dis 2021 Nov 13;12(11):1081. PMID: 34775467
  • Ding W, Lu Y, Zhou A, Chen Y et al. Mast1 mediates radiation-induced gastric injury via the P38 MAPK pathway. Exp Cell Res 2021 Dec 15;409(2):112913. PMID: 34774870
  • Kip AM, Grootjans J, Manca M, Hadfoune M et al. Temporal Transcript Profiling Identifies a Role for Unfolded Protein Stress in Human Gut Ischemia-Reperfusion Injury. Cell Mol Gastroenterol Hepatol 2022;13(3):681-694. PMID: 34774803
  • Alivand MR, Najafi S, Esmaeili S, Rahmanpour D et al. Integrative analysis of DNA methylation and gene expression profiles to identify biomarkers of glioblastoma. Cancer Genet 2021 Nov;258-259:135-150. PMID: 34773808
  • Wu D, Tan H, Su W, Cheng D et al. MZF1 mediates oncogene-induced senescence by promoting the transcription of p16(INK4A). Oncogene 2022 Jan;41(3):414-426. PMID: 34773072
  • Wrzesińska B, Kościelniak K, Frąckowiak P, Praczyk T et al. The analysis of reference genes expression stability in susceptible and resistant Apera spica-venti populations under herbicide treatment. Sci Rep 2021 Nov 12;11(1):22145. PMID: 34772993
  • Osma-Garcia IC, Capitan-Sobrino D, Mouysset M, Bell SE et al. The RNA-binding protein HuR is required for maintenance of the germinal centre response. Nat Commun 2021 Nov 12;12(1):6556. PMID: 34772950
  • Zhang H, Song L, Wang X, Cheng H et al. Fast alignment and preprocessing of chromatin profiles with Chromap. Nat Commun 2021 Nov 12;12(1):6566. PMID: 34772935
  • Han Y, Kang L, Liu X, Zhuang Y et al. Establishment and validation of a logistic regression model for prediction of septic shock severity in children. Hereditas 2021 Nov 12;158(1):45. PMID: 34772470
  • Balcik-Ercin P, Cayrefourcq L, Soundararajan R, Mani SA et al. Epithelial-to-Mesenchymal Plasticity in Circulating Tumor Cell Lines Sequentially Derived from a Patient with Colorectal Cancer. Cancers (Basel) 2021 Oct 28;13(21). PMID: 34771571
  • Thota R, Yang M, Pflieger L, Schell MJ et al. APC and TP53 Mutations Predict Cetuximab Sensitivity across Consensus Molecular Subtypes. Cancers (Basel) 2021 Oct 27;13(21). PMID: 34771559
  • Shen W, Wang G, Cooper GR, Jiang Y et al. The Epithelial and Stromal Immune Microenvironment in Gastric Cancer: A Comprehensive Analysis Reveals Prognostic Factors with Digital Cytometry. Cancers (Basel) 2021 Oct 27;13(21). PMID: 34771544
  • Morrison C, Weterings E, Mahadevan D, Sanan A et al. Expression Levels of RAD51 Inversely Correlate with Survival of Glioblastoma Patients. Cancers (Basel) 2021 Oct 26;13(21). PMID: 34771522
  • Meier-Soelch J, Mayr-Buro C, Juli J, Leib L et al. Monitoring the Levels of Cellular NF-κB Activation States. Cancers (Basel) 2021 Oct 26;13(21). PMID: 34771516
  • Hervás-Corpión I, Gallardo-Orihuela A, Catalina-Fernández I, Iglesias-Lozano I et al. Potential Diagnostic Value of the Differential Expression of Histone H3 Variants between Low- and High-Grade Gliomas. Cancers (Basel) 2021 Oct 20;13(21). PMID: 34771425
  • Rajthala S, Min A, Parajuli H, Debnath KC et al. Profiling and Functional Analysis of microRNA Deregulation in Cancer-Associated Fibroblasts in Oral Squamous Cell Carcinoma Depicts an Anti-Invasive Role of microRNA-204 via Regulation of Their Motility. Int J Mol Sci 2021 Nov 4;22(21). PMID: 34769388
  • Butz H, Mészáros K, Likó I, Patocs A et al. Wnt-Signaling Regulated by Glucocorticoid-Induced miRNAs. Int J Mol Sci 2021 Oct 29;22(21). PMID: 34769207
  • Szczepińska T, Mollah AF, Plewczynski D et al. Genomic Marks Associated with Chromatin Compartments in the CTCF, RNAPII Loop and Genomic Windows. Int J Mol Sci 2021 Oct 27;22(21). PMID: 34769020
  • Madej E, Ryszawy D, Brożyna AA, Czyz M et al. Deciphering the Functional Role of RIPK4 in Melanoma. Int J Mol Sci 2021 Oct 25;22(21). PMID: 34768934
  • Tan IL, Barisani D, Panceri R, Modderman R et al. A Combined mRNA- and miRNA-Sequencing Approach Reveals miRNAs as Potential Regulators of the Small Intestinal Transcriptome in Celiac Disease. Int J Mol Sci 2021 Oct 21;22(21). PMID: 34768815
  • Sekino Y, Pham QT, Kobatake K, Kitano H et al. KIFC1 Is Associated with Basal Type, Cisplatin Resistance, PD-L1 Expression and Poor Prognosis in Bladder Cancer. J Clin Med 2021 Oct 21;10(21). PMID: 34768355
  • Gurnari C, Pagliuca S, Guan Y, Adema V et al. TET2 mutations as a part of DNA dioxygenase deficiency in myelodysplastic syndromes. Blood Adv 2022 Jan 11;6(1):100-107. PMID: 34768283
  • Hu Y, Xu C, Ren J, Zeng Y et al. Exposure to Tobacco Smoking Induces a subset of Activated Tumor-resident Tregs in Non-Small Cell Lung Cancer. Transl Oncol 2022 Jan;15(1):101261. PMID: 34768099
  • Namboori SC, Thomas P, Ames R, Hawkins S et al. Single-cell transcriptomics identifies master regulators of neurodegeneration in SOD1 ALS iPSC-derived motor neurons. Stem Cell Reports 2021 Dec 14;16(12):3020-3035. PMID: 34767750
  • Zheng X, Liu G, Huang R et al. Identification and Verification of Feature Immune-Related Genes in Patients With Hypertrophic Cardiomyopathy Based on Bioinformatics Analyses. Front Cardiovasc Med 2021;8:752559. PMID: 34765659
  • Tang YP, Yin YX, Xie MZ, Liang XQ et al. Systematic Analysis of the Clinical Significance of Hyaluronan-Mediated Motility Receptor in Colorectal Cancer. Front Mol Biosci 2021;8:733271. PMID: 34765644
  • Morice S, Danieau G, Tesfaye R, Mullard M et al. Involvement of the TGF-β Signaling Pathway in the Development of YAP-Driven Osteosarcoma Lung Metastasis. Front Oncol 2021;11:765711. PMID: 34765560
  • Xiong J, Wu L, Huang L, Wu C et al. LncRNA FOXP4-AS1 Promotes Progression of Ewing Sarcoma and Is Associated With Immune Infiltrates. Front Oncol 2021;11:718876. PMID: 34765540
  • Wang CC, Lin SY, Huang YH, Hsieh CH et al. Paired-like homeodomain 2B contributes to tumour progression and anti-autophagy in human lung cancer. Am J Cancer Res 2021;11(10):4900-4918. PMID: 34765299
  • Zhang W, Chen T, Liu J, Yu S et al. RAB11FIP1: An Indicator for Tumor Immune Microenvironment and Prognosis of Lung Adenocarcinoma from a Comprehensive Analysis of Bioinformatics. Front Genet 2021;12:757169. PMID: 34764984
  • Ding H, Anastopoulos I, Bailey AD 4th, Stuart J et al. Towards inferring nanopore sequencing ionic currents from nucleotide chemical structures. Nat Commun 2021 Nov 11;12(1):6545. PMID: 34764310
  • Jia P, Li X, Wang X, Yao L et al. ZMYND8 mediated liquid condensates spatiotemporally decommission the latent super-enhancers during macrophage polarization. Nat Commun 2021 Nov 11;12(1):6535. PMID: 34764296
  • Ogawa M, Jiang JX, Xia S, Yang D et al. Generation of functional ciliated cholangiocytes from human pluripotent stem cells. Nat Commun 2021 Nov 11;12(1):6504. PMID: 34764255
  • Sartori G, Napoli S, Cascione L, Chung EYL et al. ASB2 is a direct target of FLI1 that sustains NF-κB pathway activation in germinal center-derived diffuse large B-cell lymphoma. J Exp Clin Cancer Res 2021 Nov 11;40(1):357. PMID: 34763718
  • Tian L, Jabbari JS, Thijssen R, Gouil Q et al. Comprehensive characterization of single-cell full-length isoforms in human and mouse with long-read sequencing. Genome Biol 2021 Nov 11;22(1):310. PMID: 34763716
  • Charmpi K, Chokkalingam M, Johnen R, Beyer A et al. Optimizing network propagation for multi-omics data integration. PLoS Comput Biol 2021 Nov;17(11):e1009161. PMID: 34762640
  • Xu F, Guan Y, Xue L, Zhang P et al. The roles of ferroptosis regulatory gene SLC7A11 in renal cell carcinoma: A multi-omics study. Cancer Med 2021 Dec;10(24):9078-9096. PMID: 34761566
  • Zhang S, Wang Y, Yu M, Shang Y et al. Discovery of Herbacetin as a Novel SGK1 Inhibitor to Alleviate Myocardial Hypertrophy. Adv Sci (Weinh) 2022 Jan;9(2):e2101485. PMID: 34761560
  • Mädler SC, Julien-Laferriere A, Wyss L, Phan M et al. Besca, a single-cell transcriptomics analysis toolkit to accelerate translational research. NAR Genom Bioinform 2021 Dec;3(4):lqab102. PMID: 34761219
  • Zhang M, Lei YS, Meng XW, Liu HY et al. Iguratimod Alleviates Myocardial Ischemia/Reperfusion Injury Through Inhibiting Inflammatory Response Induced by Cardiac Fibroblast Pyroptosis via COX2/NLRP3 Signaling Pathway. Front Cell Dev Biol 2021;9:746317. PMID: 34760889
  • Zhang X, Dong W, Zhang J, Liu W et al. A Novel Mitochondrial-Related Nuclear Gene Signature Predicts Overall Survival of Lung Adenocarcinoma Patients. Front Cell Dev Biol 2021;9:740487. PMID: 34760888
  • Wang G, Li H, Pan J, Yan T et al. Upregulated Expression of Cancer-Derived Immunoglobulin G Is Associated With Progression in Glioma. Front Oncol 2021;11:758856. PMID: 34760705
  • Dashti F, Mirazimi SMA, Rabiei N, Fathazam R et al. The role of non-coding RNAs in chemotherapy for gastrointestinal cancers. Mol Ther Nucleic Acids 2021 Dec 3;26:892-926. PMID: 34760336
  • Li B, Sun WX, Zhang WY, Zheng Y et al. The Transcriptome Characteristics of Severe Asthma From the Prospect of Co-Expressed Gene Modules. Front Genet 2021;12:765400. PMID: 34759961
  • Liu X, Ma B, Chen M, Zhang Y et al. Prognostic Autophagy-Related Genes of Gastric Cancer Patients on Chemotherapy. Front Genet 2021;12:720849. PMID: 34759953
  • Zheng G, Wang Z, Fan Y, Wang T et al. The Clinical Significance and Immunization of MSMO1 in Cervical Squamous Cell Carcinoma Based on Bioinformatics Analysis. Front Genet 2021;12:705851. PMID: 34759952
  • Yang Y, Guang Y, Wang F, Chen Y et al. Characterization of Phytochrome-Interacting Factor Genes in Pepper and Functional Analysis of CaPIF8 in Cold and Salt Stress. Front Plant Sci 2021;12:746517. PMID: 34759940
  • Mittli D, Tukacs V, Micsonai A, Ravasz L et al. The Single-Cell Transcriptomic Analysis of Prefrontal Pyramidal Cells and Interneurons Reveals the Neuronal Expression of Genes Encoding Antimicrobial Peptides and Immune Proteins. Front Immunol 2021;12:749433. PMID: 34759929
  • Guo F, Liang J, Xu M, Zhang G et al. A Novel DCL2-Dependent Micro-Like RNA Vm-PC-3p-92107_6 Affects Pathogenicity by Regulating the Expression of Vm-VPS10 in Valsa mali. Front Microbiol 2021;12:721399. PMID: 34759897
  • Qu J, Hou Y, Chen Q, Chen J et al. RNA demethylase ALKBH5 promotes tumorigenesis in multiple myeloma via TRAF1-mediated activation of NF-κB and MAPK signaling pathways. Oncogene 2022 Jan;41(3):400-413. PMID: 34759347
  • Han S, Li X, Wang K, Zhu D et al. PURPL represses autophagic cell death to promote cutaneous melanoma by modulating ULK1 phosphorylation. Cell Death Dis 2021 Nov 10;12(11):1070. PMID: 34759263
  • Kim JW, Yin X, Martin I, Xiong Y et al. Dysregulated mRNA Translation in the G2019S LRRK2 and LRRK2 Knock-Out Mouse Brains. eNeuro 2021 Nov-Dec;8(6). PMID: 34759048
  • Qin Y, Li B, Arumugam S, Lu Q et al. m(6)A mRNA methylation-directed myeloid cell activation controls progression of NAFLD and obesity. Cell Rep 2021 Nov 9;37(6):109968. PMID: 34758326
  • Chen WS, Liang Y, Zong M, Liu JJ et al. Single-cell transcriptomics reveals opposing roles of Shp2 in Myc-driven liver tumor cells and microenvironment. Cell Rep 2021 Nov 9;37(6):109974. PMID: 34758313
  • Fang F, Cao W, Zhu W, Lam N et al. The cell-surface 5'-nucleotidase CD73 defines a functional T memory cell subset that declines with age. Cell Rep 2021 Nov 9;37(6):109981. PMID: 34758299
  • Kotlyar M, Pastrello C, Ahmed Z, Chee J et al. IID 2021: towards context-specific protein interaction analyses by increased coverage, enhanced annotation and enrichment analysis. Nucleic Acids Res 2022 Jan 7;50(D1):D640-D647. PMID: 34755877
  • Ntostis P, Iles D, Kokkali G, Vaxevanoglou T et al. The impact of maternal age on gene expression during the GV to MII transition in euploid human oocytes. Hum Reprod 2021 Dec 27;37(1):80-92. PMID: 34755188
  • Zhu Z, Wang W, Lin F, Jordan T et al. Genome profiles of pathologist-defined cell clusters by multiregional LCM and G&T-seq in one triple-negative breast cancer patient. Cell Rep Med 2021 Oct 19;2(10):100404. PMID: 34755126
  • Su Q, Kim SY, Adewale F, Zhou Y et al. Single-cell RNA transcriptome landscape of hepatocytes and non-parenchymal cells in healthy and NAFLD mouse liver. iScience 2021 Nov 19;24(11):103233. PMID: 34755088
  • Ke P, Qian L, Zhou Y, Feng L et al. Identification of hub genes and transcription factor-miRNA-mRNA pathways in mice and human renal ischemia-reperfusion injury. PeerJ 2021;9:e12375. PMID: 34754625
  • Zhou X, Sam TW, Lee AY, Leung D et al. Mouse strain-specific polymorphic provirus functions as cis-regulatory element leading to epigenomic and transcriptomic variations. Nat Commun 2021 Nov 9;12(1):6462. PMID: 34753915
  • Yu H, Sun Z, Tan T, Pan H et al. rRNA biogenesis regulates mouse 2C-like state by 3D structure reorganization of peri-nucleolar heterochromatin. Nat Commun 2021 Nov 9;12(1):6365. PMID: 34753899
  • Zhou H, Liu W, Zhou Y, Hong Z et al. Therapeutic inhibition of GAS6-AS1/YBX1/MYC axis suppresses cell propagation and disease progression of acute myeloid leukemia. J Exp Clin Cancer Res 2021 Nov 9;40(1):353. PMID: 34753494
  • Shen M, Gong R, Li H, Yang Z et al. Identification of key molecular markers of acute coronary syndrome using peripheral blood transcriptome sequencing analysis and mRNA-lncRNA co-expression network construction. Bioengineered 2021 Dec;12(2):12087-12106. PMID: 34753383
  • Shen Q, Zhang S et al. Approximate distance correlation for selecting highly interrelated genes across datasets. PLoS Comput Biol 2021 Nov;17(11):e1009548. PMID: 34752449
  • Ščupáková K, Adelaja OT, Balluff B, Ayyappan V et al. Clinical importance of high-mannose, fucosylated, and complex N-glycans in breast cancer metastasis. JCI Insight 2021 Dec 22;6(24). PMID: 34752419
  • Nakazawa Y, Nishiyama N, Koizumi H, Kanemaru K et al. Tumor-derived extracellular vesicles regulate tumor-infiltrating regulatory T cells via the inhibitory immunoreceptor CD300a. Elife 2021 Nov 9;10. PMID: 34751648
  • Okido T, Kodama Y, Mashima J, Kosuge T et al. DNA Data Bank of Japan (DDBJ) update report 2021. Nucleic Acids Res 2022 Jan 7;50(D1):D102-D105. PMID: 34751405
  • Kaya A, Phua CZJ, Lee M, Wang L et al. Evolution of natural lifespan variation and molecular strategies of extended lifespan in yeast. Elife 2021 Nov 9;10. PMID: 34751131
  • Miao R, Qi C, Fu Y, Wang Y et al. Silencing of circARHGAP12 inhibits the progression of atherosclerosis via miR-630/EZH2/TIMP2 signal axis. J Cell Physiol 2022 Jan;237(1):1057-1069. PMID: 34750830
  • MotieGhader H, Safavi E, Rezapour A, Amoodizaj FF et al. Drug repurposing for coronavirus (SARS-CoV-2) based on gene co-expression network analysis. Sci Rep 2021 Nov 8;11(1):21872. PMID: 34750486
  • Lamarthée B, Marchal A, Charbonnier S, Blein T et al. Transient mTOR inhibition rescues 4-1BB CAR-Tregs from tonic signal-induced dysfunction. Nat Commun 2021 Nov 8;12(1):6446. PMID: 34750385
  • Levy MA, Beck DB, Metcalfe K, Douzgou S et al. Deficiency of TET3 leads to a genome-wide DNA hypermethylation episignature in human whole blood. NPJ Genom Med 2021 Nov 8;6(1):92. PMID: 34750377
  • Li D, Liang Y, Lu J, Tan Y et al. An alternative splicing signature in human Crohn's disease. BMC Gastroenterol 2021 Nov 8;21(1):420. PMID: 34749666
  • Tangaro MA, Mandreoli P, Chiara M, Donvito G et al. Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service. BMC Bioinformatics 2021 Nov 8;22(Suppl 15):544. PMID: 34749633
  • Martínez-Morcillo FJ, Cantón-Sandoval J, Martínez-Navarro FJ, Cabas I et al. NAMPT-derived NAD+ fuels PARP1 to promote skin inflammation through parthanatos cell death. PLoS Biol 2021 Nov;19(11):e3001455. PMID: 34748530
  • Fukuizumi A, Noro R, Seike M, Miyanaga A et al. CADM1 and SPC25 Gene Mutations in Lung Cancer Patients With Idiopathic Pulmonary Fibrosis. JTO Clin Res Rep 2021 Nov;2(11):100232. PMID: 34746885
  • Sgariglia D, Conforte AJ, Pedreira CE, Vidal de Carvalho LA et al. Data-Driven Modeling of Breast Cancer Tumors Using Boolean Networks. Front Big Data 2021;4:656395. PMID: 34746770
  • Wade AA, van den Ameele J, Cheetham SW, Yakob R et al. In vivo targeted DamID identifies CHD8 genomic targets in fetal mouse brain. iScience 2021 Nov 19;24(11):103234. PMID: 34746699
  • Hao X, Zhang Y, Lu Y, Han G et al. STK39 enhances the progression of Cholangiocarcinoma via PI3K/AKT pathway. iScience 2021 Nov 19;24(11):103223. PMID: 34746696
  • Sheng S, Guo B, Wang Z, Zhang Z et al. Aberrant Methylation and Immune Microenvironment Are Associated With Overexpressed Fibronectin 1: A Diagnostic and Prognostic Target in Head and Neck Squamous Cell Carcinoma. Front Mol Biosci 2021;8:753563. PMID: 34746236
  • Verhulst S, van Os EA, De Smet V, Eysackers N et al. Gene Signatures Detect Damaged Liver Sinusoidal Endothelial Cells in Chronic Liver Diseases. Front Med (Lausanne) 2021;8:750044. PMID: 34746184
  • Dreno B, Chavda R, Julia V, Khammari A et al. Transcriptomics Analysis Indicates Trifarotene Reverses Acne-Related Gene Expression Changes. Front Med (Lausanne) 2021;8:745822. PMID: 34746181
  • Lu Y, Chen J, Wang S, Tian Z et al. Identification of Genetic Signature Associated With Aging in Pulmonary Fibrosis. Front Med (Lausanne) 2021;8:744239. PMID: 34746180
  • Sun S, Yang Y, Yang Z, Wang J et al. Ferroptosis Characterization in Lung Adenocarcinomas Reveals Prognostic Signature With Immunotherapeutic Implication. Front Cell Dev Biol 2021;9:743724. PMID: 34746138
  • Kang W, Hu J, Zhao Q, Song F et al. Identification of an Autophagy-Related Risk Signature Correlates With Immunophenotype and Predicts Immune Checkpoint Blockade Efficacy of Neuroblastoma. Front Cell Dev Biol 2021;9:731380. PMID: 34746127
  • Xu X, Ruan X, Zhang Y, Cai G et al. Comprehensive Analysis of the Implication of PGRMC1 in Triple-Negative Breast Cancer. Front Bioeng Biotechnol 2021;9:714030. PMID: 34746100
  • Omar M, Marchionni L, Häcker G, Badr MT et al. Host Blood Gene Signatures Can Detect the Progression to Severe and Cerebral Malaria. Front Cell Infect Microbiol 2021;11:743616. PMID: 34746025
  • Li K, Song Y, Qin L, Li A et al. A CpG Methylation Signature as a Potential Marker for Early Diagnosis of Hepatocellular Carcinoma From HBV-Related Liver Disease Using Multiplex Bisulfite Sequencing. Front Oncol 2021;11:756326. PMID: 34745991
  • Mahmoud MM, Sanad EF, Elshimy RAA, Hamdy NM et al. Competitive Endogenous Role of the LINC00511/miR-185-3p Axis and miR-301a-3p From Liquid Biopsy as Molecular Markers for Breast Cancer Diagnosis. Front Oncol 2021;11:749753. PMID: 34745973
  • Yi J, Zhong W, Wu H, Feng J et al. Identification of Key Genes Affecting the Tumor Microenvironment and Prognosis of Triple-Negative Breast Cancer. Front Oncol 2021;11:746058. PMID: 34745969
  • Zhao Q, Wongpoomchai R, Chariyakornkul A, Xiao Z et al. Identification of Gene-Set Signature in Early-Stage Hepatocellular Carcinoma and Relevant Immune Characteristics. Front Oncol 2021;11:740484. PMID: 34745960
  • Meng W, Xiao H, Zhao R, Li D et al. The Prognostic Value of Bone Morphogenetic Proteins and Their Receptors in Lung Adenocarcinoma. Front Oncol 2021;11:608239. PMID: 34745928
  • Huang R, Yu H, Zhong X et al. Identification of Novel CircRNA-miRNA-mRNA Regulatory Network and Its Prognostic Prediction in Breast Cancer. Evid Based Complement Alternat Med 2021;2021:2916398. PMID: 34745276
  • Zhang P, Sheng M, Du C, Chao Z et al. Assessment of CircRNA Expression Profiles and Potential Functions in Brown Adipogenesis. Front Genet 2021;12:769690. PMID: 34745232
  • Lim KH, Yang S, Kim SH, Joo JY et al. Identifying New COVID-19 Receptor Neuropilin-1 in Severe Alzheimer's Disease Patients Group Brain Using Genome-Wide Association Study Approach. Front Genet 2021;12:741175. PMID: 34745215
  • Li X, Zeng Q, Wang S, Li M et al. CRAC Channel Controls the Differentiation of Pathogenic B Cells in Lupus Nephritis. Front Immunol 2021;12:779560. PMID: 34745151
  • Liu J, Wang Y, Yuan S, Wei J et al. Construction of an Immune Cell Infiltration Score to Evaluate the Prognosis and Therapeutic Efficacy of Ovarian Cancer Patients. Front Immunol 2021;12:751594. PMID: 34745124
  • Robertson H, Li J, Kim HJ, Rhodes JW et al. Transcriptomic Analysis Identifies A Tolerogenic Dendritic Cell Signature. Front Immunol 2021;12:733231. PMID: 34745103
  • Mu S, Shi D, Ai L, Fan F et al. International Prognostic Index-Based Immune Prognostic Model for Diffuse Large B-Cell Lymphoma. Front Immunol 2021;12:732006. PMID: 34745101
  • Yin H, Guo R, Zhang H, Liu S et al. A Dynamic Transcriptome Map of Different Tissue Microenvironment Cells Identified During Gastric Cancer Development Using Single-Cell RNA Sequencing. Front Immunol 2021;12:728169. PMID: 34745098
  • Mu Q, Zhang Y, Gu L, Gerner ST et al. Transcriptomic Profiling Reveals the Antiapoptosis and Antioxidant Stress Effects of Fos in Ischemic Stroke. Front Neurol 2021;12:728984. PMID: 34744970
  • Zhang J, Wang Z, Zhang D, Pan Y et al. Integrative Analysis Reveals a miRNA-mRNA Regulatory Network and Potential Causative Agents in the Asthmatic Airway Epithelium. J Asthma Allergy 2021;14:1307-1321. PMID: 34744440
  • Jiang Y, Wu SY, Chen YL, Zhang ZM et al. CEBPG promotes acute myeloid leukemia progression by enhancing EIF4EBP1. Cancer Cell Int 2021 Nov 7;21(1):598. PMID: 34743716
  • Riccio-Rengifo C, Finke J, Rocha C et al. Identifying stress responsive genes using overlapping communities in co-expression networks. BMC Bioinformatics 2021 Nov 7;22(1):541. PMID: 34743699
  • Su X, Chen J, Lin X, Chen X et al. FERMT3 mediates cigarette smoke-induced epithelial-mesenchymal transition through Wnt/β-catenin signaling. Respir Res 2021 Nov 6;22(1):286. PMID: 34742298
  • Yap K, Chung TH, Makeyev EV et al. Hybridization-proximity labeling reveals spatially ordered interactions of nuclear RNA compartments. Mol Cell 2022 Jan 20;82(2):463-478.e11. PMID: 34741808
  • Shao R, Wang H, Liu W, Wang J et al. Establishment of a prognostic ferroptosis-related gene profile in acute myeloid leukaemia. J Cell Mol Med 2021 Dec;25(23):10950-10960. PMID: 34741393
  • Qi J, Zhang R, Wang Y et al. Exosomal miR-21-5p derived from bone marrow mesenchymal stem cells promote osteosarcoma cell proliferation and invasion by targeting PIK3R1. J Cell Mol Med 2021 Dec;25(23):11016-11030. PMID: 34741385
  • Zhong J, Wang H, Zhuang Y, Shen Q et al. Identification of the antibacterial mechanism of cryptotanshinone on methicillin-resistant Staphylococcus aureus using bioinformatics analysis. Sci Rep 2021 Nov 5;11(1):21726. PMID: 34741111
  • Liu Y, Li H, Czajkowsky DM, Shao Z et al. Monocytic THP-1 cells diverge significantly from their primary counterparts: a comparative examination of the chromosomal conformations and transcriptomes. Hereditas 2021 Nov 5;158(1):43. PMID: 34740370
  • Mao W, Wang K, Xu B, Zhang H et al. ciRS-7 is a prognostic biomarker and potential gene therapy target for renal cell carcinoma. Mol Cancer 2021 Nov 5;20(1):142. PMID: 34740354
  • Yang C, Huang S, Cao F, Zheng Y et al. A lipid metabolism-related genes prognosis biomarker associated with the tumor immune microenvironment in colorectal carcinoma. BMC Cancer 2021 Nov 5;21(1):1182. PMID: 34740325
  • Das S, Caballero M, Kolesnikova T, Zhimulev I et al. Replication timing analysis in polyploid cells reveals Rif1 uses multiple mechanisms to promote underreplication in Drosophila. Genetics 2021 Nov 5;219(3). PMID: 34740250
  • Chen M, Li Z, Cao L, Fang C et al. miR-877-3p inhibits tumor growth and angiogenesis of osteosarcoma through fibroblast growth factor 2 signaling. Bioengineered 2022 Apr;13(4):8174-8186. PMID: 34738872
  • Jin Q, Cheng M, Xia X, Han Y et al. Down-regulation of MYH10 driven by chromosome 17p13.1 deletion promotes hepatocellular carcinoma metastasis through activation of the EGFR pathway. J Cell Mol Med 2021 Dec;25(24):11142-11156. PMID: 34738311
  • Li W, Ding Z, Zhao Y, Jiang M et al. Novel Natural Inhibitors Targeting Enhancer of Zeste Homolog 2: A Comprehensive Structural Biology Research. Front Oncol 2021;11:741403. PMID: 34737956
  • Wang M, Wang J, Zhang X, Yuan R et al. The complex landscape of haematopoietic lineage commitments is encoded in the coarse-grained endogenous network. R Soc Open Sci 2021 Nov;8(11):211289. PMID: 34737882
  • Çubukçuoğlu Deniz G, Durdu S, Doğan Y, Erdemli E et al. Molecular Signatures of Human Chronic Atrial Fibrillation in Primary Mitral Regurgitation. Cardiovasc Ther 2021;2021:5516185. PMID: 34737791
  • Zhang C, He Z, Cheng L, Cao J et al. Investigation of Prognostic Markers of Lung Adenocarcinoma Based on Tumor Metabolism-Related Genes. Front Genet 2021;12:760506. PMID: 34737767
  • Wu X, Liang Y et al. Screening and Prognostic Analysis of Immune-Related Genes in Pancreatic Cancer. Front Genet 2021;12:721419. PMID: 34737763
  • Ma B, Jiang H, Luo Y, Liao T et al. Tumor-Infiltrating Immune-Related Long Non-Coding RNAs Indicate Prognoses and Response to PD-1 Blockade in Head and Neck Squamous Cell Carcinoma. Front Immunol 2021;12:692079. PMID: 34737735
  • Jiang X, Zhang W, Li L, Xie S et al. Integrated Transcriptomic Analysis Revealed Hub Genes and Pathways Involved in Sorafenib Resistance in Hepatocellular Carcinoma. Pathol Oncol Res 2021;27:1609985. PMID: 34737677
  • Li Y, Ma K, Xie Q, Zhang X et al. Identification of HOXD10 as a Marker of Poor Prognosis in Glioblastoma Multiforme. Onco Targets Ther 2021;14:5183-5195. PMID: 34737577
  • Wang LSingle-cell normalization and association testing unifying CRISPR screen and gene co-expression analyses with Normalisr. Nat Commun 2021 Nov 4;12(1):6395. PMID: 34737291
  • Li Z, Kuppe C, Ziegler S, Cheng M et al. Chromatin-accessibility estimation from single-cell ATAC-seq data with scOpen. Nat Commun 2021 Nov 4;12(1):6386. PMID: 34737275
  • Chen D, McManus CE, Radmanesh B, Matzat LH et al. Temporal inhibition of chromatin looping and enhancer accessibility during neuronal remodeling. Nat Commun 2021 Nov 4;12(1):6366. PMID: 34737269
  • Che M, Chaturvedi A, Munro SA, Pitzen SP et al. Opposing transcriptional programs of KLF5 and AR emerge during therapy for advanced prostate cancer. Nat Commun 2021 Nov 4;12(1):6377. PMID: 34737261
  • Yoshizawa-Sugata N, Yamazaki S, Mita-Yoshida K, Ono T et al. Loss of full-length DNA replication regulator Rif1 in two-cell embryos is associated with zygotic transcriptional activation. J Biol Chem 2021 Dec;297(6):101367. PMID: 34736895
  • Zhang D, Zhou S, Zhou Z, Jiang X et al. BDdb: a comprehensive platform for exploration and utilization of birth defect multi-omics data. BMC Med Genomics 2021 Nov 4;14(1):260. PMID: 34736471
  • Suezawa T, Kanagaki S, Korogi Y, Nakao K et al. Modeling of lung phenotype of Hermansky-Pudlak syndrome type I using patient-specific iPSCs. Respir Res 2021 Nov 4;22(1):284. PMID: 34736469
  • Wang J, Fan Q, Yu T, Zhang Y et al. Identifying the Hub Genes and Immune Cell Infiltration in Synovial Tissue between Osteoarthritic and Rheumatoid Arthritic Patients by Bioinformatic Approach. Curr Pharm Des 2022;28(6):497-509. PMID: 34736376
  • Sun Y, Li W, Li X, Zheng H et al. Oncogenic role of karyopherin α2 (KPNA2) in human tumors: A pan-cancer analysis. Comput Biol Med 2021 Dec;139:104955. PMID: 34735944
  • Xu H, Pan Y et al. A prognostic fibroblast-related risk signature in colorectal cancer. Aging (Albany NY) 2021 Nov 4;13(21):24251-24270. PMID: 34735373
  • Wang H, Wang X, Xu L, Cao H et al. Nonnegative matrix factorization-based bioinformatics analysis reveals that TPX2 and SELENBP1 are two predictors of the inner sub-consensuses of lung adenocarcinoma. Cancer Med 2021 Dec;10(24):9058-9077. PMID: 34734491
  • Li C, Hong Z, Ou M, Zhu X et al. Integrated miRNA-mRNA Expression Profiles Revealing Key Molecules in Ovarian Cancer Based on Bioinformatics Analysis. Biomed Res Int 2021;2021:6673655. PMID: 34734085
  • Chen S, Ju G, Gu J, Shi M et al. Competing endogenous RNA network for esophageal cancer progression. Ann Transl Med 2021 Sep;9(18):1473. PMID: 34734025
  • Cai J, Qiu J, Wang H, Sun J et al. Identification of potential biomarkers in ovarian carcinoma and an evaluation of their prognostic value. Ann Transl Med 2021 Sep;9(18):1472. PMID: 34734024
  • Li C, Yang F, Wang R, Li W et al. CALD1 promotes the expression of PD-L1 in bladder cancer via the JAK/STAT signaling pathway. Ann Transl Med 2021 Sep;9(18):1441. PMID: 34733993
  • Huang J, Li C, Zhang W, Yang F et al. SULF2 is a novel diagnostic and prognostic marker for high-grade bladder cancer with lymphatic metastasis. Ann Transl Med 2021 Sep;9(18):1439. PMID: 34733991
  • Lu Y, Wu Q, Liao J, Zhang S et al. Identification of the distinctive role of DPT in dilated cardiomyopathy: a study based on bulk and single-cell transcriptomic analysis. Ann Transl Med 2021 Sep;9(18):1401. PMID: 34733953
  • Fan B, Ji K, Bu Z, Zhang J et al. ARHGAP11A Is a Prognostic Biomarker and Correlated With Immune Infiltrates in Gastric Cancer. Front Mol Biosci 2021;8:720645. PMID: 34733886
  • Xiao B, Liu L, Chen Z, Li A et al. A Novel Overall Survival Prediction Signature Based on Cancer Stem Cell-Related Genes in Osteosarcoma. Front Cell Dev Biol 2021;9:753414. PMID: 34733853
  • Li Y, Dong W, Zhang P, Zhang T et al. Comprehensive Analysis of Regulatory Factors and Immune-Associated Patterns to Decipher Common and BRCA1/2 Mutation-Type-Specific Critical Regulation in Breast Cancer. Front Cell Dev Biol 2021;9:750897. PMID: 34733851
  • Ruan S, Shi J, Wang M, Zhu Z et al. Analysis of Multiple Human Tumor Cases Reveals the Carcinogenic Effects of PKP3. J Healthc Eng 2021;2021:9391104. PMID: 34733461
  • Yang F, Yuan WQ, Li J, Luo YQ et al. Knockdown of METTL14 suppresses the malignant progression of non-small cell lung cancer by reducing Twist expression. Oncol Lett 2021 Dec;22(6):847. PMID: 34733365
  • Hasankhani A, Bahrami A, Sheybani N, Fatehi F et al. Integrated Network Analysis to Identify Key Modules and Potential Hub Genes Involved in Bovine Respiratory Disease: A Systems Biology Approach. Front Genet 2021;12:753839. PMID: 34733317
  • Yufeng Z, Ming Q, Dandan W et al. MiR-320d Inhibits Progression of EGFR-Positive Colorectal Cancer by Targeting TUSC3. Front Genet 2021;12:738559. PMID: 34733314
  • Ye F, Hu Y, Gao J, Liang Y et al. Radiogenomics Map Reveals the Landscape of m6A Methylation Modification Pattern in Bladder Cancer. Front Immunol 2021;12:722642. PMID: 34733275
  • Dong C, Dang D, Zhao X, Wang Y et al. Integrative Characterization of the Role of IL27 In Melanoma Using Bioinformatics Analysis. Front Immunol 2021;12:713001. PMID: 34733272
  • Liu YZ, Xu MY, Dai XY, Yan L et al. Pyruvate Kinase M2 Mediates Glycolysis Contributes to Psoriasis by Promoting Keratinocyte Proliferation. Front Pharmacol 2021;12:765790. PMID: 34733164
  • Chai K, Liang J, Zhang X, Cao P et al. Application of Machine Learning and Weighted Gene Co-expression Network Algorithm to Explore the Hub Genes in the Aging Brain. Front Aging Neurosci 2021;13:707165. PMID: 34733151
  • Xu X, Wang Y, Zhang S, Zhu Y et al. Exploration of Prognostic Biomarkers of Muscle-Invasive Bladder Cancer (MIBC) by Bioinformatics. Evol Bioinform Online 2021;17:11769343211049270. PMID: 34733102
  • Lam BYH, Williamson A, Finer S, Day FR et al. MC3R links nutritional state to childhood growth and the timing of puberty. Nature 2021 Nov;599(7885):436-441. PMID: 34732894
  • Nieuwenhuis TO, Rosenberg AZ, McCall MN, Halushka MK et al. Tissue, age, sex, and disease patterns of matrisome expression in GTEx transcriptome data. Sci Rep 2021 Nov 3;11(1):21549. PMID: 34732773
  • Croucher DC, Richards LM, Tsofack SP, Waller D et al. Longitudinal single-cell analysis of a myeloma mouse model identifies subclonal molecular programs associated with progression. Nat Commun 2021 Nov 3;12(1):6322. PMID: 34732728
  • Fenix AM, Miyaoka Y, Bertero A, Blue SM et al. Gain-of-function cardiomyopathic mutations in RBM20 rewire splicing regulation and re-distribute ribonucleoprotein granules within processing bodies. Nat Commun 2021 Nov 3;12(1):6324. PMID: 34732726
  • Jindal S, Pennock ND, Sun D, Horton W et al. Postpartum breast cancer has a distinct molecular profile that predicts poor outcomes. Nat Commun 2021 Nov 3;12(1):6341. PMID: 34732713
  • Choi JH, Horowitz LB, Ringstad N et al. Opponent vesicular transporters regulate the strength of glutamatergic neurotransmission in a C. elegans sensory circuit. Nat Commun 2021 Nov 3;12(1):6334. PMID: 34732711
  • Liu Y, Gu Z, Cao H, Kaphle P et al. Convergence of oncogenic cooperation at single-cell and single-gene levels drives leukemic transformation. Nat Commun 2021 Nov 3;12(1):6323. PMID: 34732703
  • Kitamoto T, Kuo T, Okabe A, Kaneda A et al. An integrative transcriptional logic model of hepatic insulin resistance. Proc Natl Acad Sci U S A 2021 Nov 9;118(45). PMID: 34732569
  • Richter GM, Kruppa J, Keceli HG, Ataman-Duruel ET et al. Epigenetic adaptations of the masticatory mucosa to periodontal inflammation. Clin Epigenetics 2021 Nov 3;13(1):203. PMID: 34732256
  • George J, Li Y, Kadamberi IP, Parashar D et al. RNA-binding protein FXR1 drives cMYC translation by recruiting eIF4F complex to the translation start site. Cell Rep 2021 Nov 2;37(5):109934. PMID: 34731628
  • Cooke M, Kreider-Letterman G, Baker MJ, Zhang S et al. FARP1, ARHGEF39, and TIAM2 are essential receptor tyrosine kinase effectors for Rac1-dependent cell motility in human lung adenocarcinoma. Cell Rep 2021 Nov 2;37(5):109905. PMID: 34731623
  • Blümli S, Wiechens N, Wu MY, Singh V et al. Acute depletion of the ARID1A subunit of SWI/SNF complexes reveals distinct pathways for activation and repression of transcription. Cell Rep 2021 Nov 2;37(5):109943. PMID: 34731603
  • Li C, Li J, Lu P et al. Identification of key genes involved in Brg1 mutation-induced cataract using bioinformatics analyses with publicly available microarray data. Acta Biochim Pol 2021 Nov 3;68(4):733-737. PMID: 34731561
  • Lu J, Wang Z, Maimaiti M, Hui W et al. Identification of diagnostic signatures in ulcerative colitis patients via bioinformatic analysis integrated with machine learning. Hum Cell 2022 Jan;35(1):179-188. PMID: 34731452
  • Zhang J, Tan J, Wang M, Wang Y et al. Lipid-induced DRAM recruits STOM to lysosomes and induces LMP to promote exosome release from hepatocytes in NAFLD. Sci Adv 2021 Nov 5;7(45):eabh1541. PMID: 34731006
  • Ding B, Liu Y, Liu Z, Zheng L et al. Noncoding loci without epigenomic signals can be essential for maintaining global chromatin organization and cell viability. Sci Adv 2021 Nov 5;7(45):eabi6020. PMID: 34731001
  • Wishart TFL, Lovicu FJ et al. An Atlas of Heparan Sulfate Proteoglycans in the Postnatal Rat Lens. Invest Ophthalmol Vis Sci 2021 Nov 1;62(14):5. PMID: 34730792
  • Zhou H, Chen Y et al. CircRNA has_circ_0001806 promotes hepatocellular carcinoma progression via the miR-193a-5p/MMP16 pathway. Braz J Med Biol Res 2021;54(12):e11459. PMID: 34730679
  • Maehara K, Tomimatsu K, Harada A, Tanaka K et al. Modeling population size independent tissue epigenomes by ChIL-seq with single thin sections. Mol Syst Biol 2021 Nov;17(11):e10323. PMID: 34730297
  • Cho NR, Yu Y, Oh CK, Ko DS et al. Neuropeptide Y: a potential theranostic biomarker for diabetic peripheral neuropathy in patients with type-2 diabetes. Ther Adv Chronic Dis 2021;12:20406223211041936. PMID: 34729143
  • Zhu L, Zhang C, Xue J, He X et al. EZH2-mediated epigenetic suppression of lncRNA PCAT18 predicts a poor prognosis and regulates the expression of p16 by interacting with miR-570a-3p in gastric cancer. J Cancer 2021;12(23):7069-7078. PMID: 34729108
  • Lee S, Islam MN, Boostanpour K, Aran D et al. Molecular programs of fibrotic change in aging human lung. Nat Commun 2021 Nov 2;12(1):6309. PMID: 34728633
  • Zhang B, Jiang H, Wu J, Cai Y et al. m6A demethylase FTO attenuates cardiac dysfunction by regulating glucose uptake and glycolysis in mice with pressure overload-induced heart failure. Signal Transduct Target Ther 2021 Nov 2;6(1):377. PMID: 34728610
  • Li M, Zhu W, Wang C, Zheng Y et al. Weighted gene co-expression network analysis to identify key modules and hub genes associated with paucigranulocytic asthma. BMC Pulm Med 2021 Nov 2;21(1):343. PMID: 34727921
  • Zhang Y, Archer KJ et al. Bayesian variable selection for high-dimensional data with an ordinal response: identifying genes associated with prognostic risk group in acute myeloid leukemia. BMC Bioinformatics 2021 Nov 2;22(1):539. PMID: 34727888
  • Mathur S, Wang JC, Seehus CR, Poirier F et al. Nociceptor neurons promote IgE class switch in B cells. JCI Insight 2021 Dec 22;6(24). PMID: 34727095
  • Ji H, Li H, Zhang H, Cheng Z et al. Role of microRNA‑218‑5p in sevoflurane‑induced protective effects in hepatic ischemia/reperfusion injury mice by regulating GAB2/PI3K/AKT pathway. Mol Med Rep 2022 Jan;25(1). PMID: 34726254
  • Hill DL, Whyte CE, Innocentin S, Lee JL et al. Impaired HA-specific T follicular helper cell and antibody responses to influenza vaccination are linked to inflammation in humans. Elife 2021 Nov 2;10. PMID: 34726156
  • Zhang W, Yu F, Weng J, Zheng Y et al. SOX12 Promotes Stem Cell-Like Phenotypes and Osteosarcoma Tumor Growth by Upregulating JAGGED1. Stem Cells Int 2021;2021:9941733. PMID: 34725550
  • Hunter MV, Moncada R, Weiss JM, Yanai I et al. Spatially resolved transcriptomics reveals the architecture of the tumor-microenvironment interface. Nat Commun 2021 Nov 1;12(1):6278. PMID: 34725363
  • Matrone G, Jung SY, Choi JM, Jain A et al. Nuclear S-nitrosylation impacts tissue regeneration in zebrafish. Nat Commun 2021 Nov 1;12(1):6282. PMID: 34725362
  • Lehmann BD, Colaprico A, Silva TC, Chen J et al. Multi-omics analysis identifies therapeutic vulnerabilities in triple-negative breast cancer subtypes. Nat Commun 2021 Nov 1;12(1):6276. PMID: 34725325
  • Talon I, Janiszewski A, Theeuwes B, Lefevre T et al. Enhanced chromatin accessibility contributes to X chromosome dosage compensation in mammals. Genome Biol 2021 Nov 1;22(1):302. PMID: 34724962
  • Zhang T, Li X, He Y, Wang Y et al. Cancer-associated fibroblasts-derived HAPLN1 promotes tumour invasion through extracellular matrix remodeling in gastric cancer. Gastric Cancer 2022 Mar;25(2):346-359. PMID: 34724589
  • Qi X, Wang XQ, Jin L, Gao LX et al. Uncovering potential single nucleotide polymorphisms, copy number variations and related signaling pathways in primary Sjogren's syndrome. Bioengineered 2021 Dec;12(2):9313-9331. PMID: 34723755
  • Dai H, Wang J, Huang Z, Zhang H et al. LncRNA OIP5-AS1 Promotes the Autophagy-Related Imatinib Resistance in Chronic Myeloid Leukemia Cells by Regulating miR-30e-5p/ATG12 Axis. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211052150. PMID: 34723728
  • Zhang J, Cavallaro M, Hebenstreit D et al. Timing RNA polymerase pausing with TV-PRO-seq. Cell Rep Methods 2021 Oct 25;1(6):None. PMID: 34723238
  • Li X, Han Y, Li D, Yuan H et al. Identification and Validation of a Dysregulated miRNA-Associated mRNA Network in Temporal Lobe Epilepsy. Biomed Res Int 2021;2021:4118216. PMID: 34722763
  • Correia C, Wang QD, Linhardt G, Carlsson LG et al. Unraveling the Metabolic Derangements Occurring in Non-infarcted Areas of Pig Hearts With Chronic Heart Failure. Front Cardiovasc Med 2021;8:753470. PMID: 34722683
  • He XS, Zou SY, Yao JL, Yu W et al. Transcriptomic Analysis Identifies Complement Component 3 as a Potential Predictive Biomarker for Chemotherapy Resistance in Colorectal Cancer. Front Mol Biosci 2021;8:763652. PMID: 34722636
  • Han Z, Zhuang X, Yang B, Jin L et al. SYDE1 Acts as an Oncogene in Glioma and has Diagnostic and Prognostic Values. Front Mol Biosci 2021;8:714203. PMID: 34722629
  • Liu HY, Gu H, Li Y, Hu P et al. Dietary Conjugated Linoleic Acid Modulates the Hepatic Circadian Clock Program via PPARα/REV-ERBα-Mediated Chromatin Modification in Mice. Front Nutr 2021;8:711398. PMID: 34722605
  • Guo L, Jing Y et al. Construction and Identification of a Novel 5-Gene Signature for Predicting the Prognosis in Breast Cancer. Front Med (Lausanne) 2021;8:669931. PMID: 34722557
  • Bartlett B, Gao Z, Schukking M, Menor M et al. The miRNA Profile of Inflammatory Colorectal Tumors Identify TGF-β as a Companion Target for Checkpoint Blockade Immunotherapy. Front Cell Dev Biol 2021;9:754507. PMID: 34722540
  • Zhou S, Han Y, Li J, Pi X et al. New Prognostic Biomarkers and Drug Targets for Skin Cutaneous Melanoma via Comprehensive Bioinformatic Analysis and Validation. Front Oncol 2021;11:745384. PMID: 34722301
  • Zhang H, Xia P, Ma W, Yuan Y et al. Development and Validation of an RNA Binding Protein-associated Prognostic Model for Hepatocellular Carcinoma. J Clin Transl Hepatol 2021 Oct 28;9(5):635-646. PMID: 34722178
  • Ari Yuka S, Yilmaz A et al. Effect of SARS-CoV-2 infection on host competing endogenous RNA and miRNA network. PeerJ 2021;9:e12370. PMID: 34722003
  • Warren RL, Birol I et al. HLA alleles measured from COVID-19 patient transcriptomes reveal associations with disease prognosis in a New York cohort. PeerJ 2021;9:e12368. PMID: 34722002
  • Wu Z, Chen L, Jin C, Xu J et al. A novel pyroptosis-associated gene signature for immune status and prognosis of cutaneous melanoma. PeerJ 2021;9:e12304. PMID: 34721986
  • Liu L, Xu K, Zhou Y et al. Development of a novel embryonic germline gene-related prognostic model of lung adenocarcinoma. PeerJ 2021;9:e12257. PMID: 34721973
  • Cerapio JP, Perrier M, Balança CC, Gravelle P et al. Phased differentiation of γδ T and T CD8 tumor-infiltrating lymphocytes revealed by single-cell transcriptomics of human cancers. Oncoimmunology 2021;10(1):1939518. PMID: 34721945
  • Yu X, Wang Z, Chen Y, Yin G et al. The Predictive Role of Immune Related Subgroup Classification in Immune Checkpoint Blockade Therapy for Lung Adenocarcinoma. Front Genet 2021;12:771830. PMID: 34721552
  • Malla B, Guo X, Senger G, Chasapopoulou Z et al. A Systematic Review of Transcriptional Dysregulation in Huntington's Disease Studied by RNA Sequencing. Front Genet 2021;12:751033. PMID: 34721539
  • Li H, Liu F, Wang X, Li M et al. Identification of Hub lncRNAs Along With lncRNA-miRNA-mRNA Network for Effective Diagnosis and Prognosis of Papillary Thyroid Cancer. Front Pharmacol 2021;12:748867. PMID: 34721037
  • Dokoshi T, Seidman JS, Cavagnero KJ, Li F et al. Skin inflammation activates intestinal stromal fibroblasts and promotes colitis. J Clin Invest 2021 Nov 1;131(21). PMID: 34720087
  • Qin Y, Li J, Zhou Y, Yin C et al. Apolipoprotein D as a Potential Biomarker and Construction of a Transcriptional Regulatory-Immune Network Associated with Osteoarthritis by Weighted Gene Coexpression Network Analysis. Cartilage 2021 Dec;13(1_suppl):1702S-1717S. PMID: 34719950
  • Iftakhar-E-Khuda I, Pessia A, Zheng S, Kankainen M et al. Vascular adhesion protein-1 defines a unique subpopulation of human hematopoietic stem cells and regulates their proliferation. Cell Mol Life Sci 2021 Dec;78(23):7851-7872. PMID: 34719737
  • Gao C, Gu X, Chen Y, Zhou M et al. Identification of Potential Prognostic and Predictive Biomarkers for Immune-Checkpoint Inhibitor Response in Small Cell Lung Cancer. Med Sci Monit 2021 Nov 1;27:e932275. PMID: 34719665
  • Liu YJ, Liu TT, Jiang LH, Liu Q et al. Identification of hub genes associated with cognition in the hippocampus of Alzheimer's Disease. Bioengineered 2021 Dec;12(2):9598-9609. PMID: 34719328
  • Li J, Wang X, Bu D, Zou J et al. Exploration of the active components and pharmacological mechanism of Compound Longmaining for the treatment of myocardial infarction. Front Biosci (Landmark Ed) 2021 Oct 30;26(10):813-827. PMID: 34719208
  • Tang Z, Fan W, Li Q, Wang D et al. MVIP: multi-omics portal of viral infection. Nucleic Acids Res 2022 Jan 7;50(D1):D817-D827. PMID: 34718748
  • Liu J, Yin F, Lang K, Jie W et al. MetazExp: a database for gene expression and alternative splicing profiles and their analyses based on 53 615 public RNA-seq samples in 72 metazoan species. Nucleic Acids Res 2022 Jan 7;50(D1):D1046-D1054. PMID: 34718719
  • Zhu Z, Zhang S, Wang P, Chen X et al. A comprehensive review of the analysis and integration of omics data for SARS-CoV-2 and COVID-19. Brief Bioinform 2022 Jan 17;23(1). PMID: 34718395
  • Kang J, Gong P, Ge M, Sadeghnezhad E et al. "The PLCP gene family of grapevine (Vitis vinifera L.): characterization and differential expression in response to Plasmopara Viticola". BMC Plant Biol 2021 Oct 30;21(1):499. PMID: 34717550
  • Chen G, Qian HM, Chen J, Wang J et al. Whole transcriptome sequencing identifies key circRNAs, lncRNAs, and miRNAs regulating neurogenesis in developing mouse retina. BMC Genomics 2021 Oct 30;22(1):779. PMID: 34717547
  • Borst L, Sluijter M, Sturm G, Charoentong P et al. NKG2A is a late immune checkpoint on CD8 T cells and marks repeated stimulation and cell division. Int J Cancer 2022 Feb 15;150(4):688-704. PMID: 34716584
  • Haas E, Incebacak RD, Hentrich T, Huridou C et al. A Novel SCA3 Knock-in Mouse Model Mimics the Human SCA3 Disease Phenotype Including Neuropathological, Behavioral, and Transcriptional Abnormalities Especially in Oligodendrocytes. Mol Neurobiol 2022 Jan;59(1):495-522. PMID: 34716557
  • Lin WY, Fordham SE, Hungate E, Sunter NJ et al. Genome-wide association study identifies susceptibility loci for acute myeloid leukemia. Nat Commun 2021 Oct 29;12(1):6233. PMID: 34716350
  • Woo J, Williams SM, Markillie LM, Feng S et al. High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip. Nat Commun 2021 Oct 29;12(1):6246. PMID: 34716329
  • Song J, Cui D, Wang J, Qin J et al. Overexpression of HMGA1 confers radioresistance by transactivating RAD51 in cholangiocarcinoma. Cell Death Discov 2021 Oct 29;7(1):322. PMID: 34716319
  • Hu RD, Zhang W, Li L, Zuo ZQ et al. Chromatin accessibility analysis identifies the transcription factor ETV5 as a suppressor of adipose tissue macrophage activation in obesity. Cell Death Dis 2021 Oct 29;12(11):1023. PMID: 34716308
  • Szabo A, Akkouh IA, Vandenberghe M, Osete JR et al. A human iPSC-astroglia neurodevelopmental model reveals divergent transcriptomic patterns in schizophrenia. Transl Psychiatry 2021 Oct 29;11(1):554. PMID: 34716291
  • Tang K, Cheng Y, Li Q et al. Construction and Verification of a Hypoxia-Stemness-Based Gene Signature for Risk Stratification in Esophageal Cancer. Med Sci Monit 2021 Oct 30;27:e934359. PMID: 34716287
  • Sengupta S, West KO, Sanghvi S, Laliotis G et al. PRMT5 Promotes Symmetric Dimethylation of RNA Processing Proteins and Modulates Activated T Cell Alternative Splicing and Ca(2+)/NFAT Signaling. Immunohorizons 2021 Oct 29;5(10):884-897. PMID: 34716181
  • Krishna AP, John S, Shinde PL, Mishra R et al. Proteo-transcriptomics meta-analysis identifies SUMO2 as a promising target in glioblastoma multiforme therapeutics. Cancer Cell Int 2021 Oct 29;21(1):575. PMID: 34715855
  • Au L, Hatipoglu E, Robert de Massy M, Litchfield K et al. Determinants of anti-PD-1 response and resistance in clear cell renal cell carcinoma. Cancer Cell 2021 Nov 8;39(11):1497-1518.e11. PMID: 34715028
  • Zhu YX, Huang JQ, Ming YY, Zhuang Z et al. Screening of key biomarkers of tendinopathy based on bioinformatics and machine learning algorithms. PLoS One 2021;16(10):e0259475. PMID: 34714891
  • Yang H, Na FY, Guo L, Liang X et al. The landscape of DNA methylation in asthma: a data mining and validation. Bioengineered 2021 Dec;12(2):10063-10072. PMID: 34714718
  • Deryabin PI, Shatrova AN, Borodkina AV et al. Apoptosis resistance of senescent cells is an intrinsic barrier for senolysis induced by cardiac glycosides. Cell Mol Life Sci 2021 Dec;78(23):7757-7776. PMID: 34714358
  • Liu H, Li T, Ye X, Lyu J et al. Identification of Key Biomarkers and Pathways in Small-Cell Lung Cancer Using Biological Analysis. Biomed Res Int 2021;2021:5953386. PMID: 34712733
  • Ghuwalewala S, Ghatak D, Das S, Roy S et al. MiRNA-146a/AKT/β-Catenin Activation Regulates Cancer Stem Cell Phenotype in Oral Squamous Cell Carcinoma by Targeting CD24. Front Oncol 2021;11:651692. PMID: 34712602
  • Wang P, Chen Y, Zheng Y, Fu Y et al. Identification of Epithelial-Mesenchymal Transition- (EMT-) Related LncRNA for Prognostic Prediction and Risk Stratification in Esophageal Squamous Cell Carcinoma. Dis Markers 2021;2021:5340240. PMID: 34712369
  • Chen YL, Zhang ZM, Li XL, Tao YF et al. MI-773, a breaker of the MDM2/p53 axis, exhibits anticancer effects in neuroblastoma via downregulation of INSM1. Oncol Lett 2021 Dec;22(6):838. PMID: 34712362
  • Wei R, Li S, Yu G, Guan X et al. Deciphering the Pyroptosis-Related Prognostic Signature and Immune Cell Infiltration Characteristics of Colon Cancer. Front Genet 2021;12:755384. PMID: 34712271
  • Wei X, Wang Y, Ji C, Luan J et al. Genomic Instability Promotes the Progression of Clear Cell Renal Cell Carcinoma Through Influencing the Immune Microenvironment. Front Genet 2021;12:706661. PMID: 34712264
  • Wen S, Li J, Yang J, Li B et al. Quantitative Acetylomics Revealed Acetylation-Mediated Molecular Pathway Network Changes in Human Nonfunctional Pituitary Neuroendocrine Tumors. Front Endocrinol (Lausanne) 2021;12:753606. PMID: 34712204
  • Nie X, Liu H, Wei X, Li L et al. miRNA-382-5p Suppresses the Expression of Farnesoid X Receptor to Promote Progression of Liver Cancer. Cancer Manag Res 2021;13:8025-8035. PMID: 34712060
  • Cherif C, Nguyen DT, Paris C, Le TK et al. Menin inhibition suppresses castration-resistant prostate cancer and enhances chemosensitivity. Oncogene 2022 Jan;41(1):125-137. PMID: 34711954
  • Lainé A, Labiad O, Hernandez-Vargas H, This S et al. Regulatory T cells promote cancer immune-escape through integrin αvβ8-mediated TGF-β activation. Nat Commun 2021 Oct 28;12(1):6228. PMID: 34711823
  • Cheng J, Hsu LF, Juan YH, Liu HP et al. Pathway-targeting gene matrix for Drosophila gene set enrichment analysis. PLoS One 2021;16(10):e0259201. PMID: 34710184
  • Garrido-Gomez T, Castillo-Marco N, Clemente-Ciscar M, Cordero T et al. Disrupted PGR-B and ESR1 signaling underlies defective decidualization linked to severe preeclampsia. Elife 2021 Oct 28;10. PMID: 34709177
  • Xiao L, Dang Y, Hu B, Luo L et al. Overlapping functions of RBBP4 and RBBP7 in regulating cell proliferation and histone H3.3 deposition during mouse preimplantation development. Epigenetics 2022 Oct;17(10):1205-1218. PMID: 34709113
  • Xue Y, Yang Y, Tian H, Quan H et al. Computational characterization of domain-segregated 3D chromatin structure and segmented DNA methylation status in carcinogenesis. Mol Oncol 2022 Feb;16(3):699-716. PMID: 34708506
  • Poonpanichakul T, Shiao MS, Jiravejchakul N, Matangkasombut P et al. Capturing tumour heterogeneity in pre- and post-chemotherapy colorectal cancer ascites-derived cells using single-cell RNA-sequencing. Biosci Rep 2021 Dec 22;41(12). PMID: 34708245
  • Zhang S, Gong C, Ruiz-Martinez A, Wang H et al. Integrating single cell sequencing with a spatial quantitative systems pharmacology model spQSP for personalized prediction of triple-negative breast cancer immunotherapy response. Immunoinformatics (Amst) 2021 Oct;1-2. PMID: 34708216
  • Huang R, Wang S, Zhu R, Xian S et al. Identification of Key eRNAs for Spinal Cord Injury by Integrated Multinomial Bioinformatics Analysis. Front Cell Dev Biol 2021;9:728242. PMID: 34708039
  • Liu XS, Liu JM, Chen YJ, Li FY et al. Comprehensive Analysis of Hexokinase 2 Immune Infiltrates and m6A Related Genes in Human Esophageal Carcinoma. Front Cell Dev Biol 2021;9:715883. PMID: 34708035
  • Fang L, Yu G, Yu W, Chen G et al. The correlation of WDR76 expression with survival outcomes and immune infiltrates in lung adenocarcinoma. PeerJ 2021;9:e12277. PMID: 34707943
  • Tran DT, Might M et al. cdev: a ground-truth based measure to evaluate RNA-seq normalization performance. PeerJ 2021;9:e12233. PMID: 34707933
  • Bukhari SAC, Mandell J, Kleinstein SH, Cheung KH et al. A linked data graph approach to integration of immunological data. Proceedings (IEEE Int Conf Bioinformatics Biomed) 2019 Nov;2019:1742-1749. PMID: 34707915
  • Xun M, Song J, Shi J, Li J et al. Genome-Wide Identification of Sultr Genes in Malus domestica and Low Sulfur-Induced MhSultr3;1a to Increase Cysteine-Improving Growth. Front Plant Sci 2021;12:748242. PMID: 34707631
  • Cheok YY, Tan GMY, Fernandez KC, Chan YT et al. Podoplanin Drives Motility of Active Macrophage via Regulating Filamin C During Helicobacter pylori Infection. Front Immunol 2021;12:702156. PMID: 34707599
  • Tian P, Zhao Z, Fan Y, Cui N et al. Changes in Expressions of Spermatogenic Marker Genes and Spermatogenic Cell Population Caused by Stress. Front Endocrinol (Lausanne) 2021;12:584125. PMID: 34707565
  • Pei G, Ma N, Chen F, Guo L et al. Screening and Identification of Hub Genes in the Corticosteroid Resistance Network in Human Airway Epithelial Cells via Microarray Analysis. Front Pharmacol 2021;12:672065. PMID: 34707493
  • Ju M, Jiang L, Wei Q, Yu L et al. A Immune-Related Signature Associated with TME Can Serve as a Potential Biomarker for Survival and Sorafenib Resistance in Liver Cancer. Onco Targets Ther 2021;14:5065-5083. PMID: 34707365
  • Keinan O, Valentine JM, Xiao H, Mahata SK et al. Glycogen metabolism links glucose homeostasis to thermogenesis in adipocytes. Nature 2021 Nov;599(7884):296-301. PMID: 34707293
  • Takeda T, Yokoyama Y, Takahashi H, Okuzaki D et al. A stem cell marker KLF5 regulates CCAT1 via three-dimensional genome structure in colorectal cancer cells. Br J Cancer 2022 Jan;126(1):109-119. PMID: 34707247
  • Wang J, Wang J, Hong W, Zhang L et al. Optineurin modulates the maturation of dendritic cells to regulate autoimmunity through JAK2-STAT3 signaling. Nat Commun 2021 Oct 27;12(1):6198. PMID: 34707127
  • Pessoa Rodrigues C, Chatterjee A, Wiese M, Stehle T et al. Histone H4 lysine 16 acetylation controls central carbon metabolism and diet-induced obesity in mice. Nat Commun 2021 Oct 27;12(1):6212. PMID: 34707105
  • Ludwig LM, Hawley KM, Banks DB, Thomas-Toth AT et al. Venetoclax imparts distinct cell death sensitivity and adaptivity patterns in T cells. Cell Death Dis 2021 Oct 27;12(11):1005. PMID: 34707089
  • Shou Y, Yang L, Yang Y, Xu J et al. Inhibition of keratinocyte ferroptosis suppresses psoriatic inflammation. Cell Death Dis 2021 Oct 27;12(11):1009. PMID: 34707088
  • Desai VP, Chouaref J, Wu H, Pastor WA et al. The role of MORC3 in silencing transposable elements in mouse embryonic stem cells. Epigenetics Chromatin 2021 Oct 27;14(1):49. PMID: 34706774
  • Huang D, Zhang K, Zheng W, Zhang R et al. Long noncoding RNA SGO1-AS1 inactivates TGFβ signaling by facilitating TGFB1/2 mRNA decay and inhibits gastric carcinoma metastasis. J Exp Clin Cancer Res 2021 Oct 28;40(1):342. PMID: 34706749
  • Zhu K, Xiaoqiang L, Deng W, Wang G et al. Development and validation of a novel lipid metabolism-related gene prognostic signature and candidate drugs for patients with bladder cancer. Lipids Health Dis 2021 Oct 27;20(1):146. PMID: 34706720
  • Iglesias MJ, Kruse LD, Sanchez-Rivera L, Enge L et al. Identification of Endothelial Proteins in Plasma Associated With Cardiovascular Risk Factors. Arterioscler Thromb Vasc Biol 2021 Dec;41(12):2990-3004. PMID: 34706560
  • Wang Z, Hulsurkar M, Zhuo L, Xu J et al. CKB inhibits epithelial-mesenchymal transition and prostate cancer progression by sequestering and inhibiting AKT activation. Neoplasia 2021 Nov;23(11):1147-1165. PMID: 34706306
  • Menzel L, Zschummel M, Crowley T, Franke V et al. Lymphocyte access to lymphoma is impaired by high endothelial venule regression. Cell Rep 2021 Oct 26;37(4):109878. PMID: 34706240
  • Heinrich A, Bhandary B, Potter SJ, Ratner N et al. Cdc42 activity in Sertoli cells is essential for maintenance of spermatogenesis. Cell Rep 2021 Oct 26;37(4):109885. PMID: 34706238
  • Chang MH, Levescot A, Nelson-Maney N, Blaustein RB et al. Arthritis flares mediated by tissue-resident memory T cells in the joint. Cell Rep 2021 Oct 26;37(4):109902. PMID: 34706228
  • Huang S, Lai X, Yang L, Ye F et al. Asporin Promotes TGF-β-induced Lung Myofibroblast Differentiation by Facilitating Rab11-Dependent Recycling of TβRI. Am J Respir Cell Mol Biol 2022 Feb;66(2):158-170. PMID: 34705621
  • Chen J, Liu X, Wu Q, Jiang X et al. Systematic Analyses of a Chemokine Family-Based Risk Model Predicting Clinical Outcome and Immunotherapy Response in Lung Adenocarcinoma. Cell Transplant 2021 Jan-Dec;30:9636897211055046. PMID: 34705571
  • Wilson MM, Callens C, Le Gallo M, Mironov S et al. An EMT-primary cilium-GLIS2 signaling axis regulates mammogenesis and claudin-low breast tumorigenesis. Sci Adv 2021 Oct 29;7(44):eabf6063. PMID: 34705506
  • Perrot N, Pelletier W, Bourgault J, Couture C et al. A trans-omic Mendelian randomization study of parental lifespan uncovers novel aging biology and therapeutic candidates for chronic diseases. Aging Cell 2021 Nov;20(11):e13497. PMID: 34704651
  • Chung H, Jo Y, Ryu D, Jeong C et al. Artificial-intelligence-driven discovery of prognostic biomarker for sarcopenia. J Cachexia Sarcopenia Muscle 2021 Dec;12(6):2220-2230. PMID: 34704369
  • Koike K, Masuda T, Sato K, Fujii A et al. GET4 is a novel driver gene in colorectal cancer that regulates the localization of BAG6, a nucleocytoplasmic shuttling protein. Cancer Sci 2022 Jan;113(1):156-169. PMID: 34704338
  • Li H, Mo Z et al. Prognostic Value of Metabolism-Related Genes and Immune Infiltration in Clear Cell Renal Cell Carcinoma. Int J Gen Med 2021;14:6885-6898. PMID: 34703293
  • Shao Y, Luo J, Ye L, Ran HY et al. Construction and Integrated Analysis of Competitive Endogenous Long Non-Coding RNA Network in Thoracic Aortic Dissection. Int J Gen Med 2021;14:6863-6873. PMID: 34703291
  • An L, Wang Y et al. Potential Roles of miRNA-1245a Regulatory Networks in Sarcopenia. Int J Gen Med 2021;14:6807-6813. PMID: 34703286
  • Zamani-Ahmadmahmudi M, Nassiri SM, Asadabadi A et al. Prognostic efficacy of the RTN1 gene in patients with diffuse large B-cell lymphoma. Sci Rep 2021 Oct 26;11(1):21098. PMID: 34702929
  • Tsai HF, Chang YC, Li CH, Chan MH et al. Type V collagen alpha 1 chain promotes the malignancy of glioblastoma through PPRC1-ESM1 axis activation and extracellular matrix remodeling. Cell Death Discov 2021 Oct 26;7(1):313. PMID: 34702798
  • Sun D, Yang KS, Chen JL, Wang ZB et al. Identification and validation of an immune-associated RNA-binding proteins signature to predict clinical outcomes and therapeutic responses in colon cancer patients. World J Surg Oncol 2021 Oct 26;19(1):314. PMID: 34702278
  • Chen M, Ren R, Lin W, Xiang L et al. Exploring the oncostatin M (OSM) feed-forward signaling of glioblastoma via STAT3 in pan-cancer analysis. Cancer Cell Int 2021 Oct 26;21(1):565. PMID: 34702277
  • Liang J, Hu R, Wang X, Liu X et al. Decoding the Transcriptional Response to Ischemic Stroke in Obese and Non-obese Mice Brain. Curr Neurovasc Res 2021;18(2):211-218. PMID: 34702150
  • Boos SL, Loevenich LP, Vosberg S, Engleitner T et al. Disease Modeling on Tumor Organoids Implicates AURKA as a Therapeutic Target in Liver Metastatic Colorectal Cancer. Cell Mol Gastroenterol Hepatol 2022;13(2):517-540. PMID: 34700030
  • Zhang H, Cheng N, Li Z, Bai L et al. DNA crosslinking and recombination-activating genes 1/2 (RAG1/2) are required for oncogenic splicing in acute lymphoblastic leukemia. Cancer Commun (Lond) 2021 Nov;41(11):1116-1136. PMID: 34699692
  • Yang Z, Peng B, Pan Y, Gu Y et al. Analysis and verification of N(6)-methyladenosine-modified genes as novel biomarkers for clear cell renal cell carcinoma. Bioengineered 2021 Dec;12(2):9473-9483. PMID: 34699322
  • Wang Y, Feng F, Zheng P, Wang L et al. Dysregulated lncRNA and mRNA may promote the progression of ischemic stroke via immune and inflammatory pathways: results from RNA sequencing and bioinformatics analysis. Genes Genomics 2022 Jan;44(1):97-108. PMID: 34699043
  • Ringwald M, Richardson JE, Baldarelli RM, Blake JA et al. Mouse Genome Informatics (MGI): latest news from MGD and GXD. Mamm Genome 2022 Mar;33(1):4-18. PMID: 34698891
  • Miao Y, Chen X, Qin M, Zhou W et al. lncRNA GAS5, as a ceRNA, inhibits the proliferation of diffuse large B‑cell lymphoma cells by regulating the miR‑18a‑5p/RUNX1 axis. Int J Oncol 2021 Nov;59(5). PMID: 34698360
  • Gaffo E, Buratin A, Dal Molin A, Bortoluzzi S et al. Sensitive, reliable and robust circRNA detection from RNA-seq with CirComPara2. Brief Bioinform 2022 Jan 17;23(1). PMID: 34698333
  • Chen H, Lv Y, Yin X, Chen X et al. Effects of Sample Size on Plant Single-Cell RNA Profiling. Curr Issues Mol Biol 2021 Oct 20;43(3):1685-1697. PMID: 34698115
  • McLaughlin KM, Bojkova D, Kandler JD, Bechtel M et al. A Potential Role of the CD47/SIRPalpha Axis in COVID-19 Pathogenesis. Curr Issues Mol Biol 2021 Sep 22;43(3):1212-1225. PMID: 34698067
  • Chen JH, Wang LL, Tao L, Qi B et al. Identification of MYH6 as the potential gene for human ischaemic cardiomyopathy. J Cell Mol Med 2021 Nov;25(22):10736-10746. PMID: 34697898
  • McAllister MJ, Kirkwood K, Chuah SC, Thompson EJ et al. Intestinal Protein Characterisation of SARS-CoV-2 Entry Molecules ACE2 and TMPRSS2 in Inflammatory Bowel Disease (IBD) and Fatal COVID-19 Infection. Inflammation 2022 Apr;45(2):567-572. PMID: 34697723
  • Tsan YC, DePalma SJ, Zhao YT, Capilnasiu A et al. Physiologic biomechanics enhance reproducible contractile development in a stem cell derived cardiac muscle platform. Nat Commun 2021 Oct 25;12(1):6167. PMID: 34697315
  • Peng WX, Koirala P, Zhou H, Jiang J et al. Lnc-DC promotes estrogen independent growth and tamoxifen resistance in breast cancer. Cell Death Dis 2021 Oct 25;12(11):1000. PMID: 34697301
  • Bourdakou MM, Spyrou GM, Kolios G et al. Colon Cancer Progression Is Reflected to Monotonic Differentiation in Gene Expression and Pathway Deregulation Facilitating Stage-specific Drug Repurposing. Cancer Genomics Proteomics 2021 Nov-Dec;18(6):757-769. PMID: 34697067
  • Xu W, Ye L, Wu H et al. MicroRNA-4423-3p inhibits proliferation of fibroblast-like synoviocytes by targeting matrix metalloproteinase 13 in rheumatoid arthritis. Bioengineered 2021 Dec;12(2):9411-9423. PMID: 34696684
  • Sun J, Zhou F, Xue J, Ji C et al. Long non-coding RNA TRPM2-AS regulates microRNA miR-138-5p and PLAU (Plasminogen Activator, Urokinase) to promote the progression of gastric adenocarcinoma. Bioengineered 2021 Dec;12(2):9753-9765. PMID: 34696681
  • Park SJ, Jin U, Park SM et al. Interaction between coxsackievirus B3 infection and α-synuclein in models of Parkinson's disease. PLoS Pathog 2021 Oct;17(10):e1010018. PMID: 34695168
  • Radic Shechter K, Kafkia E, Zirngibl K, Gawrzak S et al. Metabolic memory underlying minimal residual disease in breast cancer. Mol Syst Biol 2021 Oct;17(10):e10141. PMID: 34694069
  • Nong S, Chen X, Wang Z, Xu G et al. Potential lncRNA Biomarkers for HBV-Related Hepatocellular Carcinoma Diagnosis Revealed by Analysis on Coexpression Network. Biomed Res Int 2021;2021:9972011. PMID: 34692847
  • Zheng Y, Zhang Y, Zhang X, Dang Y et al. Novel lncRNA-miRNA-mRNA Competing Endogenous RNA Triple Networks Associated Programmed Cell Death in Heart Failure. Front Cardiovasc Med 2021;8:747449. PMID: 34692796
  • Zheng H, Liu H, Li H, Dou W et al. Weighted Gene Co-expression Network Analysis Identifies a Cancer-Associated Fibroblast Signature for Predicting Prognosis and Therapeutic Responses in Gastric Cancer. Front Mol Biosci 2021;8:744677. PMID: 34692770
  • Hong L, Zha Y, Wang C, Qiao S et al. Folic Acid Alleviates High Glucose and Fat-Induced Pyroptosis via Inhibition of the Hippo Signal Pathway on H9C2 Cells. Front Mol Biosci 2021;8:698698. PMID: 34692767
  • Chen Z, Lan R, Ye K, Chen H et al. Prioritization of Diagnostic and Prognostic Biomarkers for Lupus Nephritis Based on Integrated Bioinformatics Analyses. Front Bioeng Biotechnol 2021;9:717234. PMID: 34692653
  • Jiang X, Xia Y, Meng H, Liu Y et al. Identification of a Nuclear Mitochondrial-Related Multi-Genes Signature to Predict the Prognosis of Bladder Cancer. Front Oncol 2021;11:746029. PMID: 34692528
  • Xie Z, Cai J, Sun W, Hua S et al. Development and Validation of Prognostic Model in Transitional Bladder Cancer Based on Inflammatory Response-Associated Genes. Front Oncol 2021;11:740985. PMID: 34692520
  • Li W, Hu C, Zhang X, Wang B et al. SUZ12 Loss Amplifies the Ras/ERK Pathway by Activating Adenylate Cyclase 1 in NF1-Associated Neurofibromas. Front Oncol 2021;11:738300. PMID: 34692515
  • Yang L, Zhou YN, Zeng MM, Zhou N et al. Circular RNA Circ-0002570 Accelerates Cancer Progression by Regulating VCAN via MiR-587 in Gastric Cancer. Front Oncol 2021;11:733745. PMID: 34692507
  • Li Y, Li D, Chen Y, Lu Y et al. Robust Glycogene-Based Prognostic Signature for Proficient Mismatch Repair Colorectal Adenocarcinoma. Front Oncol 2021;11:727752. PMID: 34692502
  • Zhao S, Dong X, Ni X, Li L et al. Exploration of a Novel Prognostic Risk Signature and Its Effect on the Immune Response in Nasopharyngeal Carcinoma. Front Oncol 2021;11:709931. PMID: 34692486
  • Qian L, Li Y, Cao Y, Meng G et al. Pan-Cancer Analysis of Glycolytic and Ketone Bodies Metabolic Genes: Implications for Response to Ketogenic Dietary Therapy. Front Oncol 2021;11:689068. PMID: 34692477
  • Xu X, Li G, Li C, Zhang J et al. Evolutionary transition between invertebrates and vertebrates via methylation reprogramming in embryogenesis. Natl Sci Rev 2019 Oct;6(5):993-1003. PMID: 34691960
  • Qiu P, Jiang J, Liu Z, Cai Y et al. BMAL1 knockout macaque monkeys display reduced sleep and psychiatric disorders. Natl Sci Rev 2019 Jan;6(1):87-100. PMID: 34691834
  • Liu J, Huang T, Zhang Y, Zhao T et al. Sequence- and structure-selective mRNA m(5)C methylation by NSUN6 in animals. Natl Sci Rev 2021 Jun;8(6):nwaa273. PMID: 34691665
  • Xu K, Xu D, Pei H, Quan Y et al. Whole Blood Transcriptome Analysis Reveals the Correlation between Specific Immune Cells and Septicemic Melioidosis. Dis Markers 2021;2021:6166492. PMID: 34691288
  • Kuang Y, Wang Y, Cao X, Peng C et al. New prognostic factors and scoring system for patients with acute myeloid leukemia. Oncol Lett 2021 Dec;22(6):823. PMID: 34691250
  • Ghahramani N, Shodja J, Rafat SA, Panahi B et al. Integrative Systems Biology Analysis Elucidates Mastitis Disease Underlying Functional Modules in Dairy Cattle. Front Genet 2021;12:712306. PMID: 34691146
  • Yuan J, Yuan Z, Ye A, Wu T et al. Low GNG12 Expression Predicts Adverse Outcomes: A Potential Therapeutic Target for Osteosarcoma. Front Immunol 2021;12:758845. PMID: 34691083
  • Long Q, Huang C, Meng Q, Peng J et al. TNF Patterns and Tumor Microenvironment Characterization in Head and Neck Squamous Cell Carcinoma. Front Immunol 2021;12:754818. PMID: 34691075
  • Li H, Huang Y, Sharma A, Ming W et al. From Cellular Infiltration Assessment to a Functional Gene Set-Based Prognostic Model for Breast Cancer. Front Immunol 2021;12:751530. PMID: 34691065
  • Yu R, Zhang J, Zhuo Y, Hong X et al. Identification of Diagnostic Signatures and Immune Cell Infiltration Characteristics in Rheumatoid Arthritis by Integrating Bioinformatic Analysis and Machine-Learning Strategies. Front Immunol 2021;12:724934. PMID: 34691030
  • Dai Y, Li J, Wen H, Liu J et al. In Silico Analysis of the Gene Expression Patterns between Aldosterone-Producing Adenoma and Nonfunctional Adrenocortical Adenoma. Genet Res (Camb) 2021;2021:9553637. PMID: 34690553
  • Zhu F, Zuo L, Hu R, Wang J et al. A ten-genes-based diagnostic signature for atherosclerosis. BMC Cardiovasc Disord 2021 Oct 23;21(1):513. PMID: 34688276
  • Zheng J, Chen X, Wu L, Zhou Y et al. Identification of MDM2, YTHDF2 and DDX21 as potential biomarkers and targets for treatment of type 2 diabetes. Biochem Biophys Res Commun 2021 Dec 3;581:110-117. PMID: 34688145
  • Zhu W, Zhai X, Jia Z, Wang Y et al. Bioinformatics analysis of sequential gene expression profiling after skin and skeletal muscle wound in mice. Leg Med (Tokyo) 2022 Feb;54:101982. PMID: 34687982
  • Santamaria S, Martin DR, Dong X, Yamamoto K et al. Post-translational regulation and proteolytic activity of the metalloproteinase ADAMTS8. J Biol Chem 2021 Nov;297(5):101323. PMID: 34687701
  • Maybury-Lewis SY, Brown AK, Yeary M, Sloutskin A et al. Changing and stable chromatin accessibility supports transcriptional overhaul during neural stem cell activation and is altered with age. Aging Cell 2021 Nov;20(11):e13499. PMID: 34687484
  • Yang T, Alessandri-Haber N, Fury W, Schaner M et al. AdRoit is an accurate and robust method to infer complex transcriptome composition. Commun Biol 2021 Oct 22;4(1):1218. PMID: 34686758
  • Guan Y, Enejder A, Wang M, Fang Z et al. A human multi-lineage hepatic organoid model for liver fibrosis. Nat Commun 2021 Oct 22;12(1):6138. PMID: 34686668
  • Liu N, Wang X, Zhu Z, Li D et al. Selected ideal natural ligand against TNBC by inhibiting CDC20, using bioinformatics and molecular biology. Aging (Albany NY) 2021 Oct 22;13(20):23702-23725. PMID: 34686627
  • Huang S, Ma L, Lan B, Liu N et al. Comprehensive analysis of prognostic genes in gastric cancer. Aging (Albany NY) 2021 Oct 22;13(20):23637-23651. PMID: 34686626
  • Valdebenito-Maturana B, Torres F, Carrasco M, Tapia JC et al. Differential regulation of transposable elements (TEs) during the murine submandibular gland development. Mob DNA 2021 Oct 22;12(1):23. PMID: 34686213
  • Wu Z, Guo J, Zhang Y, Liu J et al. MiR-425-5p accelerated the proliferation, migration, and invasion of ovarian cancer cells via targeting AFF4. J Ovarian Res 2021 Oct 22;14(1):138. PMID: 34686190
  • Warrier NM, Agarwal P, Kumar P et al. Integrative Analysis to Identify Genes Associated with Stemness and Immune Infiltration in Glioblastoma. Cells 2021 Oct 15;10(10). PMID: 34685742
  • Duan K, Si CY, Zhao SM, Ai ZY et al. The Long Terminal Repeats of ERV6 Are Activated in Pre-Implantation Embryos of Cynomolgus Monkey. Cells 2021 Oct 9;10(10). PMID: 34685690
  • Samara VA, Das S, Reddy MA, Tanwar VS et al. Angiotensin II-Induced Long Non-Coding RNA Alivec Regulates Chondrogenesis in Vascular Smooth Muscle Cells. Cells 2021 Oct 9;10(10). PMID: 34685676
  • Abdallah F, Henriet E, Suet A, Arar A et al. miR-21-3p/IL-22 Axes Are Major Drivers of Psoriasis Pathogenesis by Modulating Keratinocytes Proliferation-Survival Balance and Inflammatory Response. Cells 2021 Sep 26;10(10). PMID: 34685526
  • Quan H, Tian H, Liu S, Xue Y et al. Progressive Domain Segregation in Early Embryonic Development and Underlying Correlation to Genetic and Epigenetic Changes. Cells 2021 Sep 23;10(10). PMID: 34685501
  • Kao SY, Nikonova E, Chaabane S, Sabani A et al. A Candidate RNAi Screen Reveals Diverse RNA-Binding Protein Phenotypes in Drosophila Flight Muscle. Cells 2021 Sep 22;10(10). PMID: 34685485
  • Liang C, Rios-Miguel AB, Jarick M, Neurgaonkar P et al. Staphylococcusaureus Transcriptome Data and Metabolic Modelling Investigate the Interplay of Ser/Thr Kinase PknB, Its Phosphatase Stp, the glmR/yvcK Regulon and the cdaA Operon for Metabolic Adaptation. Microorganisms 2021 Oct 14;9(10). PMID: 34683468
  • Hsu WJ, Chen CH, Chang YC, Cheng CH et al. PRMT1 Confers Resistance to Olaparib via Modulating MYC Signaling in Triple-Negative Breast Cancer. J Pers Med 2021 Oct 8;11(10). PMID: 34683150
  • Guilcher M, Liehrmann A, Seyman C, Blein T et al. Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing. Int J Mol Sci 2021 Oct 19;22(20). PMID: 34681956
  • Yeh SJ, Chung MH, Chen BS et al. Investigating Pathogenetic Mechanisms of Alzheimer's Disease by Systems Biology Approaches for Drug Discovery. Int J Mol Sci 2021 Oct 19;22(20). PMID: 34681938
  • Park MC, Kim H, Choi H, Chang MS et al. Epstein-Barr Virus miR-BART1-3p Regulates the miR-17-92 Cluster by Targeting E2F3. Int J Mol Sci 2021 Oct 10;22(20). PMID: 34681596
  • Gavrish GE, Chistyakov DV, Sergeeva MG et al. ARGEOS: A New Bioinformatic Tool for Detailed Systematics Search in GEO and ArrayExpress. Biology (Basel) 2021 Oct 11;10(10). PMID: 34681124
  • Pinkney HR, Black MA, Diermeier SD et al. Single-Cell RNA-Seq Reveals Heterogeneous lncRNA Expression in Xenografted Triple-Negative Breast Cancer Cells. Biology (Basel) 2021 Sep 30;10(10). PMID: 34681087
  • Nguyen TB, Do DN, Nguyen-Thanh T, Tatipamula VB et al. Identification of Five Hub Genes as Key Prognostic Biomarkers in Liver Cancer via Integrated Bioinformatics Analysis. Biology (Basel) 2021 Sep 24;10(10). PMID: 34681056
  • Zhang S, Wang R, Huang C, Zhang L et al. Modulation of Global Gene Expression by Aneuploidy and CNV of Dosage Sensitive Regulatory Genes. Genes (Basel) 2021 Oct 12;12(10). PMID: 34681000
  • Lee JO, Lee M, Chung YJ et al. DBtRend: A Web-Server of tRNA Expression Profiles from Small RNA Sequencing Data in Humans. Genes (Basel) 2021 Oct 3;12(10). PMID: 34680971
  • Lin YS, Wang CC, Chen CY et al. GWAS Meta-Analysis Reveals Shared Genes and Biological Pathways between Major Depressive Disorder and Insomnia. Genes (Basel) 2021 Sep 26;12(10). PMID: 34680902
  • Tsai WL, Wang CY, Lee YC, Tang WC et al. A New Light on Potential Therapeutic Targets for Colorectal Cancer Treatment. Biomedicines 2021 Oct 10;9(10). PMID: 34680556
  • Mendaza S, Guerrero-Setas D, Monreal-Santesteban I, Ulazia-Garmendia A et al. A DNA Methylation-Based Gene Signature Can Predict Triple-Negative Breast Cancer Diagnosis. Biomedicines 2021 Oct 4;9(10). PMID: 34680511
  • Oliveira RAC, Imparato DO, Fernandes VGS, Cavalcante JVF et al. Reverse Engineering of the Pediatric Sepsis Regulatory Network and Identification of Master Regulators. Biomedicines 2021 Sep 23;9(10). PMID: 34680414
  • Kim J, Kim SY, Ma SX, Kim SM et al. PPARγ Targets-Derived Diagnostic and Prognostic Index for Papillary Thyroid Cancer. Cancers (Basel) 2021 Oct 12;13(20). PMID: 34680260
  • Bonanomi M, Salmistraro N, Fiscon G, Conte F et al. Transcriptomics and Metabolomics Integration Reveals Redox-Dependent Metabolic Rewiring in Breast Cancer Cells. Cancers (Basel) 2021 Oct 9;13(20). PMID: 34680207
  • Mäki-Nevala S, Ukwattage S, Wirta EV, Ahtiainen M et al. Immunoprofiles and DNA Methylation of Inflammatory Marker Genes in Ulcerative Colitis-Associated Colorectal Tumorigenesis. Biomolecules 2021 Sep 30;11(10). PMID: 34680073
  • Almars AM, Alwateer M, Qaraad M, Amjad S et al. Brain Cancer Prediction Based on Novel Interpretable Ensemble Gene Selection Algorithm and Classifier. Diagnostics (Basel) 2021 Oct 19;11(10). PMID: 34679634
  • Sakaram S, Hasin-Brumshtein Y, Khatri P, He YD et al. A Multi-mRNA Prognostic Signature for Anti-TNFα Therapy Response in Patients with Inflammatory Bowel Disease. Diagnostics (Basel) 2021 Oct 14;11(10). PMID: 34679598
  • Aubert A, Stüder F, Colombo BM, Mendoza-Parra MA et al. A Core Transcription Regulatory Circuitry Defining Microglia Cell Identity Inferred from the Reanalysis of Multiple Human Microglia Differentiation Protocols. Brain Sci 2021 Oct 11;11(10). PMID: 34679401
  • Tang HY, Guo JQ, Sang BT, Cheng JN et al. PDGFRβ modulates aerobic glycolysis in osteosarcoma HOS cells via the PI3K/AKT/mTOR/c-Myc pathway. Biochem Cell Biol 2022 Feb;100(1):75-84. PMID: 34678088
  • Evrard M, Wynne-Jones E, Peng C, Kato Y et al. Sphingosine 1-phosphate receptor 5 (S1PR5) regulates the peripheral retention of tissue-resident lymphocytes. J Exp Med 2022 Jan 3;219(1). PMID: 34677611
  • Cabbia A, Hilbers PAJ, van Riel NAW et al. Simulating Metabolic Flexibility in Low Energy Expenditure Conditions Using Genome-Scale Metabolic Models. Metabolites 2021 Oct 12;11(10). PMID: 34677410
  • Wu B, Wu Y, Guo X, Yue Y et al. An Integrative Pan-Cancer Analysis of the Oncogenic Role of COPB2 in Human Tumors. Biomed Res Int 2021;2021:7405322. PMID: 34676262
  • Wei J, Chen Z, Hu M, He Z et al. Characterizing Intercellular Communication of Pan-Cancer Reveals SPP1+ Tumor-Associated Macrophage Expanded in Hypoxia and Promoting Cancer Malignancy Through Single-Cell RNA-Seq Data. Front Cell Dev Biol 2021;9:749210. PMID: 34676217
  • Chen Q, Yang X, Gong B, Xie W et al. SNHG10 Is a Prognostic Biomarker Correlated With Immune Infiltrates in Prostate Cancer. Front Cell Dev Biol 2021;9:731042. PMID: 34676212
  • Chatterjee S, Ugonotti J, Lee LY, Everest-Dass A et al. Trends in oligomannosylation and α1,2-mannosidase expression in human cancers. Oncotarget 2021 Oct 12;12(21):2188-2205. PMID: 34676051
  • Gao Y, Ma X, Wang H, Cui Y et al. The Bioinformatics Analysis of Aldosterone-Producing Adenoma and Verification of Differentially Expressed Genes. Int J Endocrinol 2021;2021:4926323. PMID: 34675975
  • Marti-Marimon M, Vialaneix N, Lahbib-Mansais Y, Zytnicki M et al. Major Reorganization of Chromosome Conformation During Muscle Development in Pig. Front Genet 2021;12:748239. PMID: 34675966
  • Wu X, Yang T, Qian L, Zhang D et al. Construction of a New Tumor Immunity-Related Signature to Assess and Classify the Prognostic Risk of Colorectal Cancer. Int J Gen Med 2021;14:6661-6676. PMID: 34675628
  • Qi M, Liu B, Li S, Ni Z et al. Construction and Investigation of Competing Endogenous RNA Networks and Candidate Genes Involved in SARS-CoV-2 Infection. Int J Gen Med 2021;14:6647-6659. PMID: 34675627
  • Shen HF, Liu Y, Qu PP, Tang Y et al. MiR-361-5p/abca1 and MiR-196-5p/arhgef12 Axis Involved in γ-Sitosterol Inducing Dual Anti-Proliferative Effects on Bronchial Epithelial Cells of Chronic Obstructive Pulmonary Disease. Int J Chron Obstruct Pulmon Dis 2021;16:2741-2753. PMID: 34675500
  • Wenzel J, Lampe J, Müller-Fielitz H, Schuster R et al. The SARS-CoV-2 main protease M(pro) causes microvascular brain pathology by cleaving NEMO in brain endothelial cells. Nat Neurosci 2021 Nov;24(11):1522-1533. PMID: 34675436
  • Bhattacharya D, Becker C, Readhead B, Goossens N et al. Repositioning of a novel GABA-B receptor agonist, AZD3355 (Lesogaberan), for the treatment of non-alcoholic steatohepatitis. Sci Rep 2021 Oct 21;11(1):20827. PMID: 34675338
  • De Intinis C, Bodini M, Maffione D, De Mot L et al. Systematic characterization of human response to H1N1 influenza vaccination through the construction and integration of personalized transcriptome response profiles. Sci Rep 2021 Oct 21;11(1):20821. PMID: 34675324
  • Garg M, Li X, Moreno P, Papatheodorou I et al. Meta-analysis of COVID-19 single-cell studies confirms eight key immune responses. Sci Rep 2021 Oct 21;11(1):20833. PMID: 34675242
  • Qin Y, Jia L, Liu H, Ma W et al. Macrophage deletion of Noc4l triggers endosomal TLR4/TRIF signal and leads to insulin resistance. Nat Commun 2021 Oct 21;12(1):6121. PMID: 34675215
  • Raman V, Van Dessel N, Hall CL, Wetherby VE et al. Intracellular delivery of protein drugs with an autonomously lysing bacterial system reduces tumor growth and metastases. Nat Commun 2021 Oct 21;12(1):6116. PMID: 34675204
  • Vinel C, Rosser G, Guglielmi L, Constantinou M et al. Comparative epigenetic analysis of tumour initiating cells and syngeneic EPSC-derived neural stem cells in glioblastoma. Nat Commun 2021 Oct 21;12(1):6130. PMID: 34675201
  • Katada S, Takouda J, Nakagawa T, Honda M et al. Neural stem/precursor cells dynamically change their epigenetic landscape to differentially respond to BMP signaling for fate switching during brain development. Genes Dev 2021 Nov 1;35(21-22):1431-1444. PMID: 34675062
  • Wang X, Guo Z, Zhu H, Xin J et al. Genetic variants in splicing factor genes and susceptibility to bladder cancer. Gene 2022 Jan 30;809:146022. PMID: 34673209
  • Zhang J, Wei J, Wang Y, Xu J et al. Identification and Validation of TREM2 in Intracranial Aneurysms. Genet Test Mol Biomarkers 2021 Oct;25(10):646-653. PMID: 34672769
  • Diao X, Guo C, Liu L, Wang G et al. Identification and validation of an individualized prognostic signature of lung squamous cell carcinoma based on ferroptosis-related genes. Thorac Cancer 2021 Dec;12(23):3236-3247. PMID: 34672420
  • Huang XY, Qin WT, Su QS, Qiu CC et al. A New Stemness-Related Prognostic Model for Predicting the Prognosis in Pancreatic Ductal Adenocarcinoma. Biomed Res Int 2021;2021:6669570. PMID: 34671679
  • Chen Y, Zhao H, Feng Y, Ye Q et al. Pan-Cancer Analysis of the Associations of TGFBI Expression With Prognosis and Immune Characteristics. Front Mol Biosci 2021;8:745649. PMID: 34671645
  • Xu Z, Jiang S, Ma J, Tang D et al. Comprehensive Analysis of Ferroptosis-Related LncRNAs in Breast Cancer Patients Reveals Prognostic Value and Relationship With Tumor Immune Microenvironment. Front Surg 2021;8:742360. PMID: 34671639
  • Li M, Wang K, Zhang Y, Fan M et al. Ferroptosis-Related Genes in Bronchoalveolar Lavage Fluid Serves as Prognostic Biomarkers for Idiopathic Pulmonary Fibrosis. Front Med (Lausanne) 2021;8:693959. PMID: 34671612
  • Yu J, Ma S, Tian S, Zhang M et al. Systematic Construction and Validation of a Prognostic Model for Hepatocellular Carcinoma Based on Immune-Related Genes. Front Cell Dev Biol 2021;9:700553. PMID: 34671598
  • Xie H, Xiao R, He Y, He L et al. MicroRNA-100 inhibits breast cancer cell proliferation, invasion and migration by targeting FOXA1. Oncol Lett 2021 Dec;22(6):816. PMID: 34671430
  • Seetharam AS, Yu Y, Bélanger S, Clark LG et al. The Streptochaeta Genome and the Evolution of the Grasses. Front Plant Sci 2021;12:710383. PMID: 34671369
  • Zhang Y, Ma M, Xie Z, Wu H et al. Bridging the Gap Between Morphometric Similarity Mapping and Gene Transcription in Alzheimer's Disease. Front Neurosci 2021;15:731292. PMID: 34671240
  • Andrade Barbosa B, van Asten SD, Oh JW, Farina-Sarasqueta A et al. Bayesian log-normal deconvolution for enhanced in silico microdissection of bulk gene expression data. Nat Commun 2021 Oct 20;12(1):6106. PMID: 34671028
  • Zheng H, Liu H, Ge Y, Wang X et al. Integrated single-cell and bulk RNA sequencing analysis identifies a cancer associated fibroblast-related signature for predicting prognosis and therapeutic responses in colorectal cancer. Cancer Cell Int 2021 Oct 20;21(1):552. PMID: 34670584
  • Ramirez P, Zuniga G, Sun W, Beckmann A et al. Pathogenic tau accelerates aging-associated activation of transposable elements in the mouse central nervous system. Prog Neurobiol 2022 Jan;208:102181. PMID: 34670118
  • Bhavya, Pathak E, Mishra R et al. Deciphering the link between Diabetes mellitus and SARS-CoV-2 infection through differential targeting of microRNAs in the human pancreas. J Endocrinol Invest 2022 Mar;45(3):537-550. PMID: 34669152
  • Belonwu SA, Li Y, Bunis D, Rao AA et al. Sex-Stratified Single-Cell RNA-Seq Analysis Identifies Sex-Specific and Cell Type-Specific Transcriptional Responses in Alzheimer's Disease Across Two Brain Regions. Mol Neurobiol 2022 Jan;59(1):276-293. PMID: 34669146
  • Zhang Q, Li K, Yang Y, Li B et al. Transcriptional differentiation driving Cucumis sativus-Botrytis cinerea interactions based on the Skellam model and Bayesian networks. AMB Express 2021 Oct 20;11(1):138. PMID: 34669064
  • Costello KR, Leung A, Trac C, Lee M et al. Sequence features of retrotransposons allow for epigenetic variability. Elife 2021 Oct 20;10. PMID: 34668484
  • Gns HS, Rajalekshmi SG, Burri RR et al. Revelation of Pivotal Genes Pertinent to Alzheimer's Pathogenesis: A Methodical Evaluation of 32 GEO Datasets. J Mol Neurosci 2022 Feb;72(2):303-322. PMID: 34668150
  • El-Huneidi W, Anjum S, Mohammed AK, Unnikannan H et al. Copine 3 "CPNE3" is a novel regulator for insulin secretion and glucose uptake in pancreatic β-cells. Sci Rep 2021 Oct 19;11(1):20692. PMID: 34667273
  • Appel LM, Franke V, Bruno M, Grishkovskaya I et al. PHF3 regulates neuronal gene expression through the Pol II CTD reader domain SPOC. Nat Commun 2021 Oct 19;12(1):6078. PMID: 34667177
  • Prudêncio P, Savisaar R, Rebelo K, Martinho RG et al. Transcription and splicing dynamics during early Drosophila development. RNA 2022 Feb;28(2):139-161. PMID: 34667107
  • Gao Y, Päivinen P, Tripathi S, Domènech-Moreno E et al. Inactivation of AMPK Leads to Attenuation of Antigen Presentation and Immune Evasion in Lung Adenocarcinoma. Clin Cancer Res 2022 Jan 1;28(1):227-237. PMID: 34667030
  • Ma X, Chen H, Li L, Yang F et al. CircGSK3B promotes RORA expression and suppresses gastric cancer progression through the prevention of EZH2 trans-inhibition. J Exp Clin Cancer Res 2021 Oct 19;40(1):330. PMID: 34666800
  • Lan F, Wang QQ, Zhang L et al. [Gene transcriptome analysis of nasal epithelial cells in chronic rhinosinusitis with nasal polyps]. Zhonghua Er Bi Yan Hou Tou Jing Wai Ke Za Zhi 2021 Oct 7;56(10):1066-1072. PMID: 34666467
  • Boccarelli A, Del Buono N, Esposito F et al. Analysis of fibroblast genes selected by NMF to reveal the potential crosstalk between ulcerative colitis and colorectal cancer. Exp Mol Pathol 2021 Dec;123:104713. PMID: 34666047
  • Lall S, Ray S, Bandyopadhyay S et al. RgCop-A regularized copula based method for gene selection in single-cell RNA-seq data. PLoS Comput Biol 2021 Oct;17(10):e1009464. PMID: 34665808
  • Fang L, Shi L, Wang W, Chen Q et al. Identifying key genes and small molecule compounds for nasopharyngeal carcinoma by various bioinformatic analysis. Medicine (Baltimore) 2021 Sep 17;100(37):e27257. PMID: 34664875
  • Hu Y, Qian X et al. Hsa_circ_0074491 regulates the malignance of cholesteatoma keratinocytes by modulating the PI3K/Akt pathway by binding to miR-22-3p and miR-125a-5p: An observational study. Medicine (Baltimore) 2021 Sep 17;100(37):e27122. PMID: 34664835
  • Lari A, Gholami Pourbadie H, Sharifi-Zarchi A, Aslani S et al. Evaluation of the Ankylosing Spondylitis Transcriptome for Oxidative Phosphorylation Pathway: The Shared Pathway with Neurodegenerative Diseases. Iran J Allergy Asthma Immunol 2021 Sep 28;20(5):563-573. PMID: 34664815
  • Xu G, Li Y, Zhang S, Peng H et al. SARS-CoV-2 promotes RIPK1 activation to facilitate viral propagation. Cell Res 2021 Dec;31(12):1230-1243. PMID: 34663909
  • Toufiq M, Huang SSY, Boughorbel S, Alfaki M et al. SysInflam HuDB, a Web Resource for Mining Human Blood Cells Transcriptomic Data Associated with Systemic Inflammatory Responses to Sepsis. J Immunol 2021 Nov 1;207(9):2195-2202. PMID: 34663591
  • Cheon Y, Han S, Kim T, Hwang D et al. The chromatin remodeler Ino80 mediates RNAPII pausing site determination. Genome Biol 2021 Oct 18;22(1):294. PMID: 34663418
  • Lu P, Shen YM, Hua T, Pan T et al. Overexpression of FGF2 delays the progression of osteonecrosis of the femoral head activating the PI3K/Akt signaling pathway. J Orthop Surg Res 2021 Oct 18;16(1):613. PMID: 34663382
  • Ye Y, Wang J, Liang F, Song P et al. Identification of key genes for HNSCC from public databases using bioinformatics analysis. Cancer Cell Int 2021 Oct 18;21(1):549. PMID: 34663338
  • Liu Z, Ma H, Lai Z et al. Revealing the potential mechanism of Astragalus membranaceus improving prognosis of hepatocellular carcinoma by combining transcriptomics and network pharmacology. BMC Complement Med Ther 2021 Oct 18;21(1):263. PMID: 34663301
  • Shi Y, Xu S, Ngoi NYL, Zeng Q et al. PRL-3 dephosphorylates p38 MAPK to promote cell survival under stress. Free Radic Biol Med 2021 Dec;177:72-87. PMID: 34662712
  • Hemmat N, Asadzadeh H, Asadzadeh Z, Shadbad MA et al. The Analysis of Herpes Simplex Virus Type 1 (HSV-1)-Encoded MicroRNAs Targets: A Likely Relationship of Alzheimer's Disease and HSV-1 Infection. Cell Mol Neurobiol 2022 Nov;42(8):2849-2861. PMID: 34661780
  • Ding K, Qiu W, Yu D, Ma H et al. Bioinformatics Analysis of ZBTB16 as a Prognostic Marker for Ewing's Sarcoma. Biomed Res Int 2021;2021:1989917. PMID: 34660783
  • Li Y, Wang J, Wang F, Gao C et al. Identification of Specific Cell Subpopulations and Marker Genes in Ovarian Cancer Using Single-Cell RNA Sequencing. Biomed Res Int 2021;2021:1005793. PMID: 34660776
  • Raef HS, Piedra-Mora C, Wong NB, Ma DJ et al. Gene Expression Analysis in Four Dogs With Canine Pemphigus Clinical Subtypes Reveals B Cell Signatures and Immune Activation Pathways Similar to Human Disease. Front Med (Lausanne) 2021;8:723982. PMID: 34660634
  • Sun Y, Yang Q, Shen J, Wei T et al. The Effect of Smoking on the Immune Microenvironment and Immunogenicity and Its Relationship With the Prognosis of Immune Checkpoint Inhibitors in Non-small Cell Lung Cancer. Front Cell Dev Biol 2021;9:745859. PMID: 34660603
  • Chai D, Zhang L, Guan Y, Yuan J et al. Prognostic Value and Immunological Role of MORF4-Related Gene-Binding Protein in Human Cancers. Front Cell Dev Biol 2021;9:703415. PMID: 34660575
  • Xiao S, Liu X, Yuan L, Chen X et al. Expression of Ferroptosis-Related Genes Shapes Tumor Microenvironment and Pharmacological Profile in Gastric Cancer. Front Cell Dev Biol 2021;9:694003. PMID: 34660573
  • Hunyenyiwa T, Hendee K, Matus K, Kyi P et al. Obesity Inhibits Angiogenesis Through TWIST1-SLIT2 Signaling. Front Cell Dev Biol 2021;9:693410. PMID: 34660572
  • Zhan C, Xu C, Chen J, Shen C et al. Development and Validation of an IL6/JAK/STAT3-Related Gene Signature to Predict Overall Survival in Clear Cell Renal Cell Carcinoma. Front Cell Dev Biol 2021;9:686907. PMID: 34660570
  • Nurzat Y, Su W, Min P, Li K et al. Identification of Therapeutic Targets and Prognostic Biomarkers Among Integrin Subunits in the Skin Cutaneous Melanoma Microenvironment. Front Oncol 2021;11:751875. PMID: 34660316
  • Si T, Huang Z, Jiang Y, Walker-Jacobs A et al. Expression Levels of Three Key Genes CCNB1, CDC20, and CENPF in HCC Are Associated With Antitumor Immunity. Front Oncol 2021;11:738841. PMID: 34660300
  • Zheng Y, Wang Y, Liu Y, Xie L et al. N6-Methyladenosine Modification of PTTG3P Contributes to Colorectal Cancer Proliferation via YAP1. Front Oncol 2021;11:669731. PMID: 34660259
  • Katsuta E, Huyser M, Yan L, Takabe K et al. A prognostic score based on long-term survivor unique transcriptomic signatures predicts patient survival in pancreatic ductal adenocarcinoma. Am J Cancer Res 2021;11(9):4294-4307. PMID: 34659888
  • Hamzeloo-Moghadam M, Rezaei Tavirani M, Jahani-Sherafat S, Rezaei Tavirani S et al. Side effects of omeprazole: a system biology study. Gastroenterol Hepatol Bed Bench 2021 Fall;14(4):334-341. PMID: 34659661
  • Wang H, Huang L, Chen L, Ji J et al. Identification of Novel Biomarkers Related to Lung Squamous Cell Carcinoma Using Integrated Bioinformatics Analysis. Comput Math Methods Med 2021;2021:9059116. PMID: 34659450
  • Wu J, Zhu Y, Luo M, Li L et al. Comprehensive Analysis of Pyroptosis-Related Genes and Tumor Microenvironment Infiltration Characterization in Breast Cancer. Front Immunol 2021;12:748221. PMID: 34659246
  • Wu H, Qin J, Zhao Q, Lu L et al. Microdissection of the Bulk Transcriptome at Single-Cell Resolution Reveals Clinical Significance and Myeloid Cells Heterogeneity in Lung Adenocarcinoma. Front Immunol 2021;12:723908. PMID: 34659209
  • Guo M, Gao M, Gao J, Zhang T et al. Identifying Risk Factors for Secondary Infection Post-SARS-CoV-2 Infection in Patients With Severe and Critical COVID-19. Front Immunol 2021;12:715023. PMID: 34659204
  • Suwanpradid J, Lee MJ, Hoang P, Kwock J et al. IL-27 Derived From Macrophages Facilitates IL-15 Production and T Cell Maintenance Following Allergic Hypersensitivity Responses. Front Immunol 2021;12:713304. PMID: 34659203
  • Paranjpe MD, Belonwu S, Wang JK, Oskotsky T et al. Sex-Specific Cross Tissue Meta-Analysis Identifies Immune Dysregulation in Women With Alzheimer's Disease. Front Aging Neurosci 2021;13:735611. PMID: 34658838
  • Lee MJ, Wang C, Carroll MJ, Brubaker DK et al. Computational Interspecies Translation Between Alzheimer's Disease Mouse Models and Human Subjects Identifies Innate Immune Complement, TYROBP, and TAM Receptor Agonist Signatures, Distinct From Influences of Aging. Front Neurosci 2021;15:727784. PMID: 34658769
  • Ye S, Boeter JWB, Mihajlovic M, van Steenbeek FG et al. A Chemically Defined Hydrogel for Human Liver Organoid Culture. Adv Funct Mater 2020 Nov 25;30(48):2000893. PMID: 34658689
  • Li J, Gao X, Tian S, Tang M et al. Exploring exosome data to identify prognostic gene signatures for lung adenocarcinoma. Future Oncol 2021 Dec;17(34):4745-4756. PMID: 34658257
  • Shen S, Sun Y, Matsumoto M, Shim WJ et al. Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation. Trends Mol Med 2021 Dec;27(12):1135-1158. PMID: 34657800
  • Guo JN, Chen D, Deng SH, Huang JR et al. Identification and quantification of immune infiltration landscape on therapy and prognosis in left- and right-sided colon cancer. Cancer Immunol Immunother 2022 Jun;71(6):1313-1330. PMID: 34657172
  • Xu C, Li YM, Sun B, Zhong FJ et al. GNA14's interaction with RACK1 inhibits hepatocellular carcinoma progression through reducing MAPK/JNK and PI3K/AKT signaling pathway. Carcinogenesis 2021 Nov 12;42(11):1357-1369. PMID: 34657150
  • Coulson-Gilmer C, Morgan RD, Nelson L, Barnes BM et al. Replication catastrophe is responsible for intrinsic PAR glycohydrolase inhibitor-sensitivity in patient-derived ovarian cancer models. J Exp Clin Cancer Res 2021 Oct 16;40(1):323. PMID: 34656146
  • Huang Z, Zhang H, Xing C, Zhang L et al. Identification and validation of CALCRL-associated prognostic genes in acute myeloid leukemia. Gene 2022 Jan 30;809:146009. PMID: 34655717
  • Graw S, Camerota M, Carter BS, Helderman J et al. NEOage clocks - epigenetic clocks to estimate post-menstrual and postnatal age in preterm infants. Aging (Albany NY) 2021 Oct 16;13(20):23527-23544. PMID: 34655469
  • Du K, Wei S, Wei Z, Frederick DT et al. Pathway signatures derived from on-treatment tumor specimens predict response to anti-PD1 blockade in metastatic melanoma. Nat Commun 2021 Oct 15;12(1):6023. PMID: 34654806
  • Lingjærde C, Lien TG, Borgan Ø, Bergholtz H et al. Tailored graphical lasso for data integration in gene network reconstruction. BMC Bioinformatics 2021 Oct 15;22(1):498. PMID: 34654363
  • Cao K, Liu M, Ma K, Jiang X et al. Prediction of prognosis and immunotherapy response with a robust immune-related lncRNA pair signature in lung adenocarcinoma. Cancer Immunol Immunother 2022 Jun;71(6):1295-1311. PMID: 34652523
  • Jaakkola MK, Elo LL et al. Estimating cell type-specific differential expression using deconvolution. Brief Bioinform 2022 Jan 17;23(1). PMID: 34651640
  • Staley JR, Windmeijer F, Suderman M, Lyon MS et al. A robust mean and variance test with application to high-dimensional phenotypes. Eur J Epidemiol 2022 Apr;37(4):377-387. PMID: 34651232
  • Yang Y, Qiu W, Meng Q, Liu M et al. GRB10 rs1800504 Polymorphism Is Associated With the Risk of Coronary Heart Disease in Patients With Type 2 Diabetes Mellitus. Front Cardiovasc Med 2021;8:728976. PMID: 34651026
  • Feng J, Chen Y, Feng Q, Ran Z et al. Novel Gene Signatures Predicting Primary Non-response to Infliximab in Ulcerative Colitis: Development and Validation Combining Random Forest With Artificial Neural Network. Front Med (Lausanne) 2021;8:678424. PMID: 34650991
  • Chen J, Hu Y, Teng Y, Yang B et al. Increased Nuclear Transporter Importin 7 Contributes to the Tumor Growth and Correlates With CD8 T Cell Infiltration in Cervical Cancer. Front Cell Dev Biol 2021;9:732786. PMID: 34650978
  • Lin C, Chen J, Su Z, Liu P et al. A Calcium-Related Immune Signature in Prognosis Prediction of Patients With Glioma. Front Cell Dev Biol 2021;9:723103. PMID: 34650975
  • Liu S, Zhou H, Wang G, Lian X et al. Comprehensive Transcriptomic Analysis of Critical RNA Regulation Associated With Metabolism and Prognosis in Clear Cell Renal Carcinoma. Front Cell Dev Biol 2021;9:709490. PMID: 34650970
  • Li Y, Zhao Y, Peng H, Zhang J et al. Histone Deacetylase Inhibitor Trichostatin A Reduces Endothelial Cell Proliferation by Suppressing STAT5A-Related Gene Transcription. Front Oncol 2021;11:746266. PMID: 34650929
  • Wang K, Zhang M, Wang J, Sun P et al. A Systematic Analysis Identifies Key Regulators Involved in Cell Proliferation and Potential Drugs for the Treatment of Human Lung Adenocarcinoma. Front Oncol 2021;11:737152. PMID: 34650921
  • Du M, Liang Y, Liu Z, Li X et al. Identification of Key Genes Related to CD8+ T-Cell Infiltration as Prognostic Biomarkers for Lung Adenocarcinoma. Front Oncol 2021;11:693353. PMID: 34650911
  • Zhang J, Wang Z, Lv H, Li G et al. Identification and Validation of Potential Candidate Genes of Colorectal Cancer in Response to Fusobacterium nucleatum Infection. Front Genet 2021;12:690990. PMID: 34650590
  • Zhou B, Gao S et al. Comprehensive Analysis of Clinical Significance, Immune Infiltration and Biological Role of m(6)A Regulators in Early-Stage Lung Adenocarcinoma. Front Immunol 2021;12:698236. PMID: 34650549
  • Groh S, Milton AV, Marinelli LK, Sickinger CV et al. Morc3 silences endogenous retroviruses by enabling Daxx-mediated histone H3.3 incorporation. Nat Commun 2021 Oct 14;12(1):5996. PMID: 34650047
  • Andersson A, Larsson L, Stenbeck L, Salmén F et al. Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions. Nat Commun 2021 Oct 14;12(1):6012. PMID: 34650042
  • Yun JH, Lee S, Srinivasa P, Morrow J et al. An interferon-inducible signature of airway disease from blood gene expression profiling. Eur Respir J 2022 May;59(5). PMID: 34649980
  • Ren Y, Huo Y, Li W, He M et al. A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation. Genome Biol 2021 Oct 14;22(1):290. PMID: 34649616
  • Potter ML, Smith K, Vyavahare S, Kumar S et al. Characterization of Differentially Expressed miRNAs by CXCL12/SDF-1 in Human Bone Marrow Stromal Cells. Biomol Concepts 2021 Oct 13;12(1):132-143. PMID: 34648701
  • Sato H, Hoshi M, Ikeda F, Fujiyuki T et al. Downregulation of mitochondrial biogenesis by virus infection triggers antiviral responses by cyclic GMP-AMP synthase. PLoS Pathog 2021 Oct;17(10):e1009841. PMID: 34648591
  • Richart L, Lapi E, Pancaldi V, Cuenca-Ardura M et al. STAG2 loss-of-function affects short-range genomic contacts and modulates the basal-luminal transcriptional program of bladder cancer cells. Nucleic Acids Res 2021 Nov 8;49(19):11005-11021. PMID: 34648034
  • Dong S, Boyle AP et al. Prioritization of regulatory variants with tissue-specific function in the non-coding regions of human genome. Nucleic Acids Res 2022 Jan 11;50(1):e6. PMID: 34648033
  • Li J, Sheng Q, Shyr Y, Liu Q et al. scMRMA: single cell multiresolution marker-based annotation. Nucleic Acids Res 2022 Jan 25;50(2):e7. PMID: 34648021
  • Fasolo F, Jin H, Winski G, Chernogubova E et al. Long Noncoding RNA MIAT Controls Advanced Atherosclerotic Lesion Formation and Plaque Destabilization. Circulation 2021 Nov 9;144(19):1567-1583. PMID: 34647815
  • Zhou W, Wu C, Zhao C, Huang Z et al. An Advanced Systems Pharmacology Strategy Reveals AKR1B1, MMP2, PTGER3 as Key Genes in the Competing Endogenous RNA Network of Compound Kushen Injection Treating Gastric Carcinoma by Integrated Bioinformatics and Experimental Verification. Front Cell Dev Biol 2021;9:742421. PMID: 34646828
  • Yang Z, Xue F, Li M, Zhu X et al. Extracellular Matrix Characterization in Gastric Cancer Helps to Predict Prognosis and Chemotherapy Response. Front Oncol 2021;11:753330. PMID: 34646782
  • Ren Z, Ma S, Cheng X, Guo Y et al. Expression and clinical significance of TIMELESS in glioma. Int J Clin Exp Pathol 2021;14(9):938-955. PMID: 34646412
  • Oliveira T, Zhang M, Joo EJ, Abdel-Azim H et al. Glycoproteome remodeling in MLL-rearranged B-cell precursor acute lymphoblastic leukemia. Theranostics 2021;11(19):9519-9537. PMID: 34646384
  • Ni Y, Hu BC, Wu GH, Shao ZQ et al. Interruption of neutrophil extracellular traps formation dictates host defense and tubular HOXA5 stability to augment efficacy of anti-Fn14 therapy against septic AKI. Theranostics 2021;11(19):9431-9451. PMID: 34646379
  • Zhang N, Guo Y, Wu C, Jiang B et al. Identification of the Molecular Subgroups in Idiopathic Pulmonary Fibrosis by Gene Expression Profiles. Comput Math Methods Med 2021;2021:7922594. PMID: 34646338
  • Peng H, Fan W, Fang C, Gao W et al. SCMAG: A Semisupervised Single-Cell Clustering Method Based on Matrix Aggregation Graph Convolutional Neural Network. Comput Math Methods Med 2021;2021:6842752. PMID: 34646337
  • Yu Y, Sung SK, Lee CH, Ha M et al. SOCS3 is Related to Cell Proliferation in Neuronal Tissue: An Integrated Analysis of Bioinformatics and Experiments. Front Genet 2021;12:743786. PMID: 34646310
  • Wu H, Zhou Y, Wu H, Xu L et al. CENPN Acts as a Novel Biomarker that Correlates With the Malignant Phenotypes of Glioma Cells. Front Genet 2021;12:732376. PMID: 34646306
  • Pang X, Cao J, Chen S, Gao Z et al. Unsupervised Clustering Reveals Distinct Subtypes of Biliary Atresia Based on Immune Cell Types and Gene Expression. Front Immunol 2021;12:720841. PMID: 34646264
  • Cleary CM, James S, Maher BJ, Mulkey DK et al. Disordered breathing in a Pitt-Hopkins syndrome model involves Phox2b-expressing parafacial neurons and aberrant Nav1.8 expression. Nat Commun 2021 Oct 13;12(1):5962. PMID: 34645823
  • Zhang L, Yu R, Li C, Dang Y et al. Circ_0026416 downregulation blocks the development of colorectal cancer through depleting MYO6 expression by enriching miR-545-3p. World J Surg Oncol 2021 Oct 14;19(1):299. PMID: 34645476
  • Cannons JL, Villarino AV, Kapnick SM, Preite S et al. PI3Kδ coordinates transcriptional, chromatin, and metabolic changes to promote effector CD8(+) T cells at the expense of central memory. Cell Rep 2021 Oct 12;37(2):109804. PMID: 34644563
  • Zeng J, Zhang Y, Shang Y, Mai J et al. CancerSCEM: a database of single-cell expression map across various human cancers. Nucleic Acids Res 2022 Jan 7;50(D1):D1147-D1155. PMID: 34643725
  • Jia L, Li Y, Huang F, Jiang Y et al. LIRBase: a comprehensive database of long inverted repeats in eukaryotic genomes. Nucleic Acids Res 2022 Jan 7;50(D1):D174-D182. PMID: 34643715
  • Xu C, Yin H, Jiang X, Sun C et al. Silencing long noncoding RNA LINC01138 inhibits aerobic glycolysis to reduce glioma cell proliferation by regulating the microRNA‑375/SP1 axis. Mol Med Rep 2021 Dec;24(6). PMID: 34643249
  • Rankin SA, Steimle JD, Yang XH, Rydeen AB et al. Tbx5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development. Elife 2021 Oct 13;10. PMID: 34643182
  • Massart J, Sjögren RJO, Egan B, Garde C et al. Endurance exercise training-responsive miR-19b-3p improves skeletal muscle glucose metabolism. Nat Commun 2021 Oct 12;12(1):5948. PMID: 34642330
  • Sun Z, Tang Y, Zhang Y, Fang Y et al. Joint single-cell multiomic analysis in Wnt3a induced asymmetric stem cell division. Nat Commun 2021 Oct 12;12(1):5941. PMID: 34642323
  • Qiao G, Zhuang W, Dong B, Li C et al. Discovery and validation of methylation signatures in circulating cell-free DNA for early detection of esophageal cancer: a case-control study. BMC Med 2021 Oct 13;19(1):243. PMID: 34641873
  • Pu Y, Li C, Yuan H, Wang X et al. Identification of prostate cancer specific methylation biomarkers from a multi-cancer analysis. BMC Bioinformatics 2021 Oct 12;22(1):492. PMID: 34641790
  • Chiarella E, Aloisio A, Scicchitano S, Todoerti K et al. ZNF521 Enhances MLL-AF9-Dependent Hematopoietic Stem Cell Transformation in Acute Myeloid Leukemias by Altering the Gene Expression Landscape. Int J Mol Sci 2021 Oct 6;22(19). PMID: 34639154
  • Kim BY, Lee SY, Chung SK et al. Differential Transcriptional Regulation of Polymorphic p53 Codon 72 in Metabolic Pathways. Int J Mol Sci 2021 Oct 6;22(19). PMID: 34639134
  • Zhou Y, Liu H, Zheng W, Chen Q et al. MMP14 Contributes to HDAC Inhibition-Induced Radiosensitization of Glioblastoma. Int J Mol Sci 2021 Sep 27;22(19). PMID: 34638754
  • Sugimoto J, Choi S, Sheridan MA, Koh I et al. Could the Human Endogenous Retrovirus-Derived Syncytialization Inhibitor, Suppressyn, Limit Heterotypic Cell Fusion Events in the Decidua? Int J Mol Sci 2021 Sep 23;22(19). PMID: 34638599
  • Martins JRB, Moraes LN, Cury SS, Capannacci J et al. MiR-125a-3p and MiR-320b Differentially Expressed in Patients with Chronic Myeloid Leukemia Treated with Allogeneic Hematopoietic Stem Cell Transplantation and Imatinib Mesylate. Int J Mol Sci 2021 Sep 23;22(19). PMID: 34638557
  • Chen CC, Hsu CC, Chen SL, Lin PH et al. RAS Mediates BET Inhibitor-Endued Repression of Lymphoma Migration and Prognosticates a Novel Proteomics-Based Subgroup of DLBCL through Its Negative Regulator IQGAP3. Cancers (Basel) 2021 Oct 7;13(19). PMID: 34638508
  • Chowdhury S, Hofree M, Lin K, Maru D et al. Implications of Intratumor Heterogeneity on Consensus Molecular Subtype (CMS) in Colorectal Cancer. Cancers (Basel) 2021 Sep 30;13(19). PMID: 34638407
  • Morimoto T, Nakazawa T, Matsuda R, Nishimura F et al. Evaluation of Comprehensive Gene Expression and NK Cell-Mediated Killing in Glioblastoma Cell Line-Derived Spheroids. Cancers (Basel) 2021 Sep 29;13(19). PMID: 34638384
  • Czerwinska P, Mackiewicz AA et al. Low Levels of TRIM28-Interacting KRAB-ZNF Genes Associate with Cancer Stemness and Predict Poor Prognosis of Kidney Renal Clear Cell Carcinoma Patients. Cancers (Basel) 2021 Sep 28;13(19). PMID: 34638319
  • Gherardini L, Inzalaco G, Imperatore F, D'Aurizio R et al. The FHP01 DDX3X Helicase Inhibitor Exerts Potent Anti-Tumor Activity In Vivo in Breast Cancer Pre-Clinical Models. Cancers (Basel) 2021 Sep 27;13(19). PMID: 34638314
  • Wang X, Yung MMH, Sharma R, Chen F et al. Epigenetic Silencing of miR-33b Promotes Peritoneal Metastases of Ovarian Cancer by Modulating the TAK1/FASN/CPT1A/NF-κB Axis. Cancers (Basel) 2021 Sep 24;13(19). PMID: 34638280
  • Furuya TK, Murta CB, Murillo Carrasco AG, Uno M et al. Disruption of miRNA-mRNA Networks Defines Novel Molecular Signatures for Penile Carcinogenesis. Cancers (Basel) 2021 Sep 23;13(19). PMID: 34638231
  • Zhang J, Wang F, Zhang H, Cao M et al. A novel circular RNA circ_HN1/miR-628-5p/Ecto-5'-nucleotidase competing endogenous RNA network regulates gastric cancer development. Bioengineered 2021 Dec;12(2):9739-9752. PMID: 34637682
  • Pradhan UK, Sharma NK, Kumar P, Kumar A et al. miRbiom: Machine-learning on Bayesian causal nets of RBP-miRNA interactions successfully predicts miRNA profiles. PLoS One 2021;16(10):e0258550. PMID: 34637468
  • Farmanullah F, Liang X, Khan FA, Salim M et al. Transcriptomic in silico analysis of bovine Escherichia coli mastitis highlights its immune-related expressed genes as an effective biomarker. J Genet Eng Biotechnol 2021 Oct 12;19(1):153. PMID: 34637035
  • Xia Y, Zhou K, Sun M, Shu R et al. The miR-223-3p Regulates Pyroptosis Through NLRP3-Caspase 1-GSDMD Signal Axis in Periodontitis. Inflammation 2021 Dec;44(6):2531-2542. PMID: 34637033
  • Li W, Du X, Yang Y, Yuan L et al. miRNA-34b/c regulates mucus secretion in RSV-infected airway epithelial cells by targeting FGFR1. J Cell Mol Med 2021 Nov;25(22):10565-10574. PMID: 34636482
  • Zhou B, Gao S et al. Construction and validation of a novel immune and tumor mutation burden-based prognostic model in lung adenocarcinoma. Cancer Immunol Immunother 2022 May;71(5):1183-1197. PMID: 34635925
  • Sheng T, Ho SWT, Ooi WF, Xu C et al. Integrative epigenomic and high-throughput functional enhancer profiling reveals determinants of enhancer heterogeneity in gastric cancer. Genome Med 2021 Oct 11;13(1):158. PMID: 34635154
  • Ge X, Chen YE, Song D, McDermott M et al. Clipper: p-value-free FDR control on high-throughput data from two conditions. Genome Biol 2021 Oct 11;22(1):288. PMID: 34635147
  • Xiao G, Lian G, Wang T, Chen W et al. Zinc-mediated activation of CREB pathway in proliferation of pulmonary artery smooth muscle cells in pulmonary hypertension. Cell Commun Signal 2021 Oct 11;19(1):103. PMID: 34635097
  • Fathinavid A, Ghobadi MZ, Najafi A, Masoudi-Nejad A et al. Identification of common microRNA between COPD and non-small cell lung cancer through pathway enrichment analysis. BMC Genom Data 2021 Oct 12;22(1):41. PMID: 34635059
  • Zhao X, Zhang XC, Zang K, Yu ZH et al. MicroRNA miR-19b-3p mediated G protein γ subunit 7 (GNG7) loss contributes lung adenocarcinoma progression through activating Hedgehog signaling. Bioengineered 2021 Dec;12(1):7849-7858. PMID: 34635014
  • Chen T, Lin YX, Zha Y, Sun Y et al. A Low-Producing Haplotype of Interleukin-6 Disrupting CTCF Binding Is Protective against Severe COVID-19. mBio 2021 Oct 26;12(5):e0137221. PMID: 34634929
  • Qi C, Wang C, Zhao L, Zhu Z et al. SCovid: single-cell atlases for exposing molecular characteristics of COVID-19 across 10 human tissues. Nucleic Acids Res 2022 Jan 7;50(D1):D867-D874. PMID: 34634820
  • Wang YY, Kang H, Xu T, Hao L et al. CeDR Atlas: a knowledgebase of cellular drug response. Nucleic Acids Res 2022 Jan 7;50(D1):D1164-D1171. PMID: 34634794
  • Kurz E, Chen S, Vucic E, Baptiste G et al. Integrated Systems Analysis of the Murine and Human Pancreatic Cancer Glycomes Reveals a Tumor-Promoting Role for ST6GAL1. Mol Cell Proteomics 2021;20:100160. PMID: 34634466
  • Li W, Zhao Y, Wang D, Ding Z et al. Transcriptome research identifies four hub genes related to primary myelofibrosis: a holistic research by weighted gene co-expression network analysis. Aging (Albany NY) 2021 Oct 11;13(19):23284-23307. PMID: 34633991
  • Gao P, Ren G et al. Identification of potential target genes of non-small cell lung cancer in response to resveratrol treatment by bioinformatics analysis. Aging (Albany NY) 2021 Oct 11;13(19):23245-23261. PMID: 34633989
  • Yuan X, He Y, Luo C, Wang W et al. Leukotriene B4 receptor 2 correlates with prognosis and immune infiltration in clear cell renal cell carcinoma. Invest New Drugs 2022 Apr;40(2):232-244. PMID: 34633577
  • Islam MR, Kaurani L, Berulava T, Heilbronner U et al. A microRNA signature that correlates with cognition and is a target against cognitive decline. EMBO Mol Med 2021 Nov 8;13(11):e13659. PMID: 34633146
  • Gao R, He B, Huang Q, Wang Z et al. Cancer cell immune mimicry delineates onco-immunologic modulation. iScience 2021 Oct 22;24(10):103133. PMID: 34632332
  • Basnakova A, Cheng RK, Chia JSM, D'Agostino G et al. The habenula clock influences response to a stressor. Neurobiol Stress 2021 Nov;15:100403. PMID: 34632007
  • Feng Z, Chen P, Li K, Lou J et al. A Novel Ferroptosis-Related Gene Signature Predicts Recurrence in Patients With Pancreatic Ductal Adenocarcinoma. Front Mol Biosci 2021;8:650264. PMID: 34631790
  • Feng C, Xu Y, Liu Y, Zhu L et al. Gene Expression Subtyping Reveals Immune alterations:TCGA Database for Prognosis in Ovarian Serous Cystadenocarcinoma. Front Mol Biosci 2021;8:619027. PMID: 34631788
  • Zheng H, Liu H, Lu Y, Li H et al. Identification of a Novel Signature Predicting Overall Survival in Head and Neck Squamous Cell Carcinoma. Front Surg 2021;8:717084. PMID: 34631779
  • Liang W, Zou X, Li G, Zhou S et al. Systematic Analysis of Monoallelic Gene Expression and Chromatin Accessibility Across Multiple Tissues in Hybrid Mice. Front Cell Dev Biol 2021;9:717555. PMID: 34631706
  • Li Q, Ren CC, Chen YN, Yang L et al. A Risk Score Model Incorporating Three m6A RNA Methylation Regulators and a Related Network of miRNAs-m6A Regulators-m6A Target Genes to Predict the Prognosis of Patients With Ovarian Cancer. Front Cell Dev Biol 2021;9:703969. PMID: 34631700
  • Li J, Li H, Zhang C, Zhang C et al. Identification of a Gene Signature Closely Related to Immunosuppressive Tumour Microenvironment Predicting Prognosis of Patients in EGFR Mutant Lung Adenocarcinoma. Front Oncol 2021;11:732841. PMID: 34631565
  • Zhu F, Yang T, Yao M, Shen T et al. HNRNPA2B1, as a m(6)A Reader, Promotes Tumorigenesis and Metastasis of Oral Squamous Cell Carcinoma. Front Oncol 2021;11:716921. PMID: 34631545
  • Li H, Wang G, Wang W, Pan J et al. A Focal Adhesion-Related Gene Signature Predicts Prognosis in Glioma and Correlates With Radiation Response and Immune Microenvironment. Front Oncol 2021;11:698278. PMID: 34631528
  • Liu L, He H, Peng Y, Yang Z et al. A four-gene prognostic signature for predicting the overall survival of patients with lung adenocarcinoma. PeerJ 2021;9:e11911. PMID: 34631307
  • Jiang L, Chen Q, Bei M, Shao M et al. Characterizing the tumor RBP-ncRNA circuits by integrating transcriptomics, interactomics and clinical data. Comput Struct Biotechnol J 2021;19:5235-5245. PMID: 34630941
  • Dong Z, Bian L, Wang M, Wang L et al. Identification of a Pyroptosis-Related Gene Signature for Prediction of Overall Survival in Lung Adenocarcinoma. J Oncol 2021;2021:6365459. PMID: 34630565
  • Liang M, Chen M, Zhong Y, Singh S et al. Construction of a Prognostic Model in Lung Adenocarcinoma Based on Ferroptosis-Related Genes. Front Genet 2021;12:739520. PMID: 34630529
  • Zhang H, Han B, Han X, Zhu Y et al. Comprehensive Analysis of Splicing Factor and Alternative Splicing Event to Construct Subtype-Specific Prognosis-Predicting Models for Breast Cancer. Front Genet 2021;12:736423. PMID: 34630526
  • Zheng D, Yang K, Chen X, Li Y et al. Analysis of Immune-Stromal Score-Based Gene Signature and Molecular Subtypes in Osteosarcoma: Implications for Prognosis and Tumor Immune Microenvironment. Front Genet 2021;12:699385. PMID: 34630511
  • Liu J, Lv W, Li S, Deng J et al. Regulation of Long Non-coding RNA KCNQ1OT1 Network in Colorectal Cancer Immunity. Front Genet 2021;12:684002. PMID: 34630508
  • Liu J, Lu J, Li W et al. A Comprehensive Prognostic and Immunological Analysis of a Six-Gene Signature Associated With Glycolysis and Immune Response in Uveal Melanoma. Front Immunol 2021;12:738068. PMID: 34630418
  • Song TZ, Zhang MX, Zhang HD, Wang XH et al. Glucose Metabolism Disorder Induces Spermatogenic Dysfunction in Northern Pig-Tailed Macaques (Macaca leonina) With Long-Term SIVmac239 Infection. Front Endocrinol (Lausanne) 2021;12:745984. PMID: 34630335
  • Song X, Liu Y, Pu J, Gui S et al. Transcriptomics Analysis Reveals Shared Pathways in Peripheral Blood Mononuclear Cells and Brain Tissues of Patients With Schizophrenia. Front Psychiatry 2021;12:716722. PMID: 34630179
  • Man G, Duan A, Liu W, Cheng J et al. Circular RNA-Related CeRNA Network and Prognostic Signature for Patients with Osteosarcoma. Cancer Manag Res 2021;13:7527-7541. PMID: 34629900
  • Li M, Yang B, Li X, Ren H et al. Identification of Prognostic Factors Related to Super Enhancer-Regulated ceRNA Network in Metastatic Lung Adenocarcinoma. Int J Gen Med 2021;14:6261-6275. PMID: 34629892
  • Rui Q, Lu C, Song S, Zhang L et al. Identification and validation of key long non-coding RNAs using co-expression network analysis in Crohn's disease. Ann Palliat Med 2021 Sep;10(9):9627-9639. PMID: 34628888
  • Yang C, Zhang Z, Tang X, Zhang X et al. Pan-cancer analysis reveals homologous recombination deficiency score as a predictive marker for immunotherapy responders. Hum Cell 2022 Jan;35(1):199-213. PMID: 34628623
  • Rashid NS, Hairr NS, Murray G, Olex AL et al. Identification of nuclear export inhibitor-based combination therapies in preclinical models of triple-negative breast cancer. Transl Oncol 2021 Dec;14(12):101235. PMID: 34628286
  • Xu J, Zhang W et al. EZR promotes pancreatic cancer proliferation and metastasis by activating FAK/AKT signaling pathway. Cancer Cell Int 2021 Oct 9;21(1):521. PMID: 34627255
  • Liu R, Dai W, Wu A, Li Y et al. CircCDC45 promotes the malignant progression of glioblastoma by modulating the miR-485-5p/CSF-1 axis. BMC Cancer 2021 Oct 9;21(1):1090. PMID: 34627193
  • Xu J, Li B, Song W, Cao L et al. Tumor suppressor functions of miRNA-375 in nasopharyngeal carcinoma through inhibition of ubiquitin-specific protease 1 expression. Int J Biochem Cell Biol 2021 Dec;141:106092. PMID: 34626803
  • Park JM, Jun MS, Kim JA, Mali NM et al. Restoration of Immune Privilege in Human Dermal Papillae Controlling Epithelial-Mesenchymal Interactions in Hair Formation. Tissue Eng Regen Med 2022 Feb;19(1):105-116. PMID: 34626334
  • Luo Z, Xu C, Zhang Z, Jin W et al. A topology-preserving dimensionality reduction method for single-cell RNA-seq data using graph autoencoder. Sci Rep 2021 Oct 8;11(1):20028. PMID: 34625592
  • Zuo W, Chen G, Gao Z, Li S et al. Stage-resolved Hi-C analyses reveal meiotic chromosome organizational features influencing homolog alignment. Nat Commun 2021 Oct 8;12(1):5827. PMID: 34625553
  • Hamaguchi Y, Zeng C, Hamada M et al. Impact of human gene annotations on RNA-seq differential expression analysis. BMC Genomics 2021 Oct 8;22(1):730. PMID: 34625021
  • Rooda I, Kaselt B, Liivrand M, Smolander OP et al. Hsa-mir-548 family expression in human reproductive tissues. BMC Genom Data 2021 Oct 8;22(1):40. PMID: 34625017
  • Chowdhury UN, Faruqe MO, Mehedy M, Ahmad S et al. Effects of Bacille Calmette Guerin (BCG) vaccination during COVID-19 infection. Comput Biol Med 2021 Nov;138:104891. PMID: 34624759
  • Wang F, Liu R, Yang J, Chen B et al. New insights into genetic characteristics between multiple myeloma and COVID-19: An integrative bioinformatics analysis of gene expression omnibus microarray and the cancer genome atlas data. Int J Lab Hematol 2021 Dec;43(6):1325-1333. PMID: 34623759
  • Anantha J, Goulding SR, Tuboly E, O'Mahony AG et al. NME1 Protects Against Neurotoxin-, α-Synuclein- and LRRK2-Induced Neurite Degeneration in Cell Models of Parkinson's Disease. Mol Neurobiol 2022 Jan;59(1):61-76. PMID: 34623600
  • Xu Y, Das P, McCord RP et al. SMILE: mutual information learning for integration of single-cell omics data. Bioinformatics 2022 Jan 3;38(2):476-486. PMID: 34623402
  • Mika K, Marinić M, Singh M, Muter J et al. Evolutionary transcriptomics implicates new genes and pathways in human pregnancy and adverse pregnancy outcomes. Elife 2021 Oct 8;10. PMID: 34623259
  • Lu Q, Hou Q, Cao K, Sun X et al. Complement factor B in high glucose-induced podocyte injury and diabetic kidney disease. JCI Insight 2021 Oct 8;6(19). PMID: 34622800
  • Hu M, Zou L, Lu J, Yang Z et al. Construction of a 5-feature gene model by support vector machine for classifying osteoporosis samples. Bioengineered 2021 Dec;12(1):6821-6830. PMID: 34622712
  • Di Persio S, Tekath T, Siebert-Kuss LM, Cremers JF et al. Single-cell RNA-seq unravels alterations of the human spermatogonial stem cell compartment in patients with impaired spermatogenesis. Cell Rep Med 2021 Sep 21;2(9):100395. PMID: 34622232
  • Li Y, Zhao Z, Ai L, Wang Y et al. Discovering a qualitative transcriptional signature of homologous recombination defectiveness for prostate cancer. iScience 2021 Oct 22;24(10):103135. PMID: 34622176
  • Vo DT, Fuller MR, Tindle C, Anandachar MS et al. SPT6 loss permits the transdifferentiation of keratinocytes into an intestinal fate that resembles Barrett's metaplasia. iScience 2021 Oct 22;24(10):103121. PMID: 34622168
  • Pillai M, Jolly MK et al. Systems-level network modeling deciphers the master regulators of phenotypic plasticity and heterogeneity in melanoma. iScience 2021 Oct 22;24(10):103111. PMID: 34622164
  • Zhang F, Huang H, Qin Y, Chen C et al. MTDH associates with m6A RNA methylation and predicts cancer response for immune checkpoint treatment. iScience 2021 Oct 22;24(10):103102. PMID: 34622157
  • Zhang Y, Li F, Fu K, Liu X et al. Potential Role of S-Palmitoylation in Cancer Stem Cells of Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:734897. PMID: 34621750
  • Wang Q, Zhong W, Deng L, Lin Q et al. The Expression and Prognostic Value of SUMO1-Activating Enzyme Subunit 1 and Its Potential Mechanism in Triple-Negative Breast Cancer. Front Cell Dev Biol 2021;9:729211. PMID: 34621746
  • Song S, Liu S, Wei Z, Jin X et al. Identification of an Immune-Related Long Noncoding RNA Pairs Model to Predict Survival and Immune Features in Gastric Cancer. Front Cell Dev Biol 2021;9:726716. PMID: 34621744
  • Ma X, Chen H, Yang M, Ke Z et al. Classification of Estrogen Receptor-Positive Breast Cancer Based on Immunogenomic Profiling and Validation at Single-Cell Resolution. Front Cell Dev Biol 2021;9:722841. PMID: 34621742
  • Yang J, Peng S, Zhang K et al. LncRNA RP11-499E18.1 Inhibits Proliferation, Migration, and Epithelial-Mesenchymal Transition Process of Ovarian Cancer Cells by Dissociating PAK2-SOX2 Interaction. Front Cell Dev Biol 2021;9:697831. PMID: 34621737
  • Liang L, Yu J, Li J, Li N et al. Integration of scRNA-Seq and Bulk RNA-Seq to Analyse the Heterogeneity of Ovarian Cancer Immune Cells and Establish a Molecular Risk Model. Front Oncol 2021;11:711020. PMID: 34621670
  • Li J, Du J, Wang Y, Jia H et al. A Coagulation-Related Gene-Based Prognostic Model for Invasive Ductal Carcinoma. Front Genet 2021;12:722992. PMID: 34621293
  • Liu Y, Liu Y, Hu J, He Z et al. Heterogeneous miRNA-mRNA Regulatory Networks of Visceral and Subcutaneous Adipose Tissue in the Relationship Between Obesity and Renal Clear Cell Carcinoma. Front Endocrinol (Lausanne) 2021;12:713357. PMID: 34621242
  • García-Valverde A, Rosell J, Sayols S, Gómez-Peregrina D et al. E3 ubiquitin ligase Atrogin-1 mediates adaptive resistance to KIT-targeted inhibition in gastrointestinal stromal tumor. Oncogene 2021 Dec;40(48):6614-6626. PMID: 34621020
  • Bandiera R, Wagner RE, Britto-Borges T, Dieterich C et al. RN7SK small nuclear RNA controls bidirectional transcription of highly expressed gene pairs in skin. Nat Commun 2021 Oct 7;12(1):5864. PMID: 34620876
  • Lu ZN, Song J, Sun TH, Sun G et al. UBE2C affects breast cancer proliferation through the AKT/mTOR signaling pathway. Chin Med J (Engl) 2021 Oct 7;134(20):2465-2474. PMID: 34620747
  • Suryawanshi GW, Arokium H, Kim S, Khamaikawin W et al. Longitudinal clonal tracking in humanized mice reveals sustained polyclonal repopulation of gene-modified human-HSPC despite vector integration bias. Stem Cell Res Ther 2021 Oct 7;12(1):528. PMID: 34620229
  • Rebboah E, Reese F, Williams K, Balderrama-Gutierrez G et al. Mapping and modeling the genomic basis of differential RNA isoform expression at single-cell resolution with LR-Split-seq. Genome Biol 2021 Oct 7;22(1):286. PMID: 34620214
  • Zhang H, Bian C, Tu S, Yin F et al. Integrated analysis of lncRNA-miRNA-mRNA ceRNA network in human aortic dissection. BMC Genomics 2021 Oct 7;22(1):724. PMID: 34620091
  • Preising GA, Faber-Hammond JJ, Renn SCP et al. Correspondence of aCGH and long-read genome assembly for detection of copy number differences: A proof-of-concept with cichlid genomes. PLoS One 2021;16(10):e0258193. PMID: 34618847
  • Tang YJ, Puviindran V, Xiang Y, Yahara Y et al. Tumor-propagating side population cells are a dynamic subpopulation in undifferentiated pleomorphic sarcoma. JCI Insight 2021 Nov 22;6(22). PMID: 34618689
  • Wang J, Liu X, Chu HJ, Li N et al. Centromere Protein I (CENP-I) Is Upregulated in Gastric Cancer, Predicts Poor Prognosis, and Promotes Tumor Cell Proliferation and Migration. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211045510. PMID: 34617858
  • Zhu Z, Huang R, Huang B et al. Predicting functional circular RNA-based competitive endogenous RNA network in gastric carcinoma using novel bioinformatics analysis. Exp Biol Med (Maywood) 2022 Jan;247(2):131-144. PMID: 34617801
  • Zhang J, Wang H, Wu H, Qiang G et al. The Functionalities and Clinical Significance of Tumor-Infiltrating Immune Cells in Esophageal Squamous Cell Carcinoma. Biomed Res Int 2021;2021:8635381. PMID: 34616847
  • Wang ZH, Li Y, Zhang P, Xiang X et al. Development and Validation of a Prognostic Autophagy-Related Gene Pair Index Related to Tumor-Infiltrating Lymphocytes in Early-Stage Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:719011. PMID: 34616731
  • Yadav S, Pant D, Samaiya A, Kalra N et al. ERK1/2-EGR1-SRSF10 Axis Mediated Alternative Splicing Plays a Critical Role in Head and Neck Cancer. Front Cell Dev Biol 2021;9:713661. PMID: 34616729
  • Wen W, Wu P, Zhang Y, Chen Z et al. Comprehensive Analysis of NAFLD and the Therapeutic Target Identified. Front Cell Dev Biol 2021;9:704704. PMID: 34616724
  • Liu M, Mo F, Song X, He Y et al. Exosomal hsa-miR-21-5p is a biomarker for breast cancer diagnosis. PeerJ 2021;9:e12147. PMID: 34616615
  • He Z, Xin Z, Peng Y, Zhao H et al. Construction of competing endogenous RNA interaction network as prognostic markers in metastatic melanoma. PeerJ 2021;9:e12143. PMID: 34616613
  • Gao Y, Fu X, Yu L, Zhang D et al. DNA Hypomethylation of DOCK1 Leading to High Expression Correlates with Neurologic Deterioration and Poor Function Outcomes after Spontaneous Intracerebral Hemorrhage. Evid Based Complement Alternat Med 2021;2021:1186458. PMID: 34616473
  • Sun M, Xie M, Zhang T, Wang Y et al. m(6)A Methylation Modification Patterns and Tumor Microenvironment Infiltration Characterization in Pancreatic Cancer. Front Immunol 2021;12:739768. PMID: 34616403
  • Dai L, Xie Y, Zhang W, Zhong X et al. Weighted Gene Co-Expression Network Analysis Identifies ANGPTL4 as a Key Regulator in Diabetic Cardiomyopathy via FAK/SIRT3/ROS Pathway in Cardiomyocyte. Front Endocrinol (Lausanne) 2021;12:705154. PMID: 34616362
  • Jian C, Wei L, Mo R, Li R et al. Microglia Mediate the Occurrence and Development of Alzheimer's Disease Through Ligand-Receptor Axis Communication. Front Aging Neurosci 2021;13:731180. PMID: 34616287
  • Jiang X, Zhong R, Dai W, Huang H et al. Exploring Diagnostic Biomarkers and Comorbid Pathogenesis for Osteoarthritis and Metabolic Syndrome via Bioinformatics Approach. Int J Gen Med 2021;14:6201-6213. PMID: 34616175
  • Lucchetta M, Pellegrini M et al. Drug repositioning by merging active subnetworks validated in cancer and COVID-19. Sci Rep 2021 Oct 6;11(1):19839. PMID: 34615934
  • Shan Q, Li X, Chen X, Zeng Z et al. Tcf1 and Lef1 provide constant supervision to mature CD8(+) T cell identity and function by organizing genomic architecture. Nat Commun 2021 Oct 6;12(1):5863. PMID: 34615872
  • Ranjan B, Sun W, Park J, Mishra K et al. DUBStepR is a scalable correlation-based feature selection method for accurately clustering single-cell data. Nat Commun 2021 Oct 6;12(1):5849. PMID: 34615861
  • Kameda T, Nakashima H, Takizawa T, Miura F et al. Neuronal activation modulates enhancer activity of genes for excitatory synaptogenesis through de novo DNA methylation. J Reprod Dev 2021 Dec 14;67(6):369-379. PMID: 34615840
  • Jing Y, Jiang X, Lei L, Peng M et al. Mutant NPM1-regulated lncRNA HOTAIRM1 promotes leukemia cell autophagy and proliferation by targeting EGR1 and ULK3. J Exp Clin Cancer Res 2021 Oct 6;40(1):312. PMID: 34615546
  • Tóth M, Wehling L, Thiess L, Rose F et al. Co-expression of YAP and TAZ associates with chromosomal instability in human cholangiocarcinoma. BMC Cancer 2021 Oct 6;21(1):1079. PMID: 34615513
  • Xiong R, He T, Wang Y, Liu S et al. Genome and transcriptome analysis to understand the role diversification of cytochrome P450 gene under excess nitrogen treatment. BMC Plant Biol 2021 Oct 6;21(1):447. PMID: 34615481
  • He X, Yuan J, Wang Y et al. G3BP1 binds to guanine quadruplexes in mRNAs to modulate their stabilities. Nucleic Acids Res 2021 Nov 8;49(19):11323-11336. PMID: 34614161
  • Zhou P, Wang L, Liu H, Li C et al. CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria. Nucleic Acids Res 2022 Jan 7;50(D1):D758-D764. PMID: 34614159
  • Valdebenito-Maturana B, Arancibia E, Riadi G, Tapia JC et al. Locus-specific analysis of Transposable Elements during the progression of ALS in the SOD1G93A mouse model. PLoS One 2021;16(10):e0258291. PMID: 34614020
  • Zhang H, Ma Y, Cheng X, Wu D et al. Targeting epigenetically maladapted vascular niche alleviates liver fibrosis in nonalcoholic steatohepatitis. Sci Transl Med 2021 Oct 6;13(614):eabd1206. PMID: 34613814
  • Navaratnarajah CK, Pease DR, Halfmann PJ, Taye B et al. Highly Efficient SARS-CoV-2 Infection of Human Cardiomyocytes: Spike Protein-Mediated Cell Fusion and Its Inhibition. J Virol 2021 Nov 23;95(24):e0136821. PMID: 34613786
  • Jiang W, Wu T, Shi X, Xu J et al. Overexpression of EWSR1 (Ewing sarcoma breakpoint region 1/EWS RNA binding protein 1) predicts poor survival in patients with hepatocellular carcinoma. Bioengineered 2021 Dec;12(1):7941-7949. PMID: 34612781
  • Wu W, Jia L, Zhang Y, Zhao J et al. Exploration of the prognostic signature reflecting tumor microenvironment of lung adenocarcinoma based on immunologically relevant genes. Bioengineered 2021 Dec;12(1):7417-7431. PMID: 34612148
  • Wu YY, Lai HF, Huang TC, Chen YG et al. Aberrantly reduced expression of miR-342-5p contributes to CCND1-associated chronic myeloid leukemia progression and imatinib resistance. Cell Death Dis 2021 Oct 5;12(10):908. PMID: 34611140
  • Burleson M, Deng JJ, Qin T, Duong TM et al. GLI3 Is Stabilized by SPOP Mutations and Promotes Castration Resistance via Functional Cooperation with Androgen Receptor in Prostate Cancer. Mol Cancer Res 2022 Jan;20(1):62-76. PMID: 34610962
  • Van Rechem C, Ji F, Chakraborty D, Black JC et al. Collective regulation of chromatin modifications predicts replication timing during cell cycle. Cell Rep 2021 Oct 5;37(1):109799. PMID: 34610305
  • Kuonen F, Li NY, Haensel D, Patel T et al. c-FOS drives reversible basal to squamous cell carcinoma transition. Cell Rep 2021 Oct 5;37(1):109774. PMID: 34610301
  • Yan H, Wang Z, Sun Y, Hu L et al. Cytoplasmic NEAT1 Suppresses AML Stem Cell Self-Renewal and Leukemogenesis through Inactivation of Wnt Signaling. Adv Sci (Weinh) 2021 Nov;8(22):e2100914. PMID: 34609794
  • Zhao C, Cui X, Zhao Y, Qian B et al. Impact of hepatocyte-specific deletion of staphylococcal nuclease and tudor domain containing 1 (SND1) on liver insulin resistance and acute liver failure of mice. Bioengineered 2021 Dec;12(1):7360-7375. PMID: 34608846
  • Kang CM, Li WK, Yu KW, Li XH et al. Long non‑coding RNA AL355711 promotes smooth muscle cell migration through the ABCG1/MMP3 pathway. Int J Mol Med 2021 Dec;48(6). PMID: 34608503
  • Avsec Ž, Agarwal V, Visentin D, Ledsam JR et al. Effective gene expression prediction from sequence by integrating long-range interactions. Nat Methods 2021 Oct;18(10):1196-1203. PMID: 34608324
  • Liu HT, Zou YX, Zhu WJ, Sen-Liu et al. lncRNA THAP7-AS1, transcriptionally activated by SP1 and post-transcriptionally stabilized by METTL3-mediated m6A modification, exerts oncogenic properties by improving CUL4B entry into the nucleus. Cell Death Differ 2022 Mar;29(3):627-641. PMID: 34608273
  • Damrauer JS, Smith MA, Walter V, Thennavan A et al. Genomic characterization of rare molecular subclasses of hepatocellular carcinoma. Commun Biol 2021 Oct 4;4(1):1150. PMID: 34608257
  • Zhang S, Qi H, Huang C, Yuan L et al. Interaction of Male Specific Lethal complex and genomic imbalance on global gene expression in Drosophila. Sci Rep 2021 Oct 4;11(1):19679. PMID: 34608252
  • Reiter T, Montpetit R, Runnebaum R, Brown CT et al. Charting Shifts in Saccharomyces cerevisiae Gene Expression across Asynchronous Time Trajectories with Diffusion Maps. mBio 2021 Oct 26;12(5):e0234521. PMID: 34607457
  • Zeng Z, Jiang X, Pan Z, Zhou R et al. Highly expressed centromere protein L indicates adverse survival and associates with immune infiltration in hepatocellular carcinoma. Aging (Albany NY) 2021 Oct 4;13(19):22802-22829. PMID: 34607313
  • Ge X, Jiang Y, Hu X, Yu X et al. MicroRNA-106a-5p alleviated the resistance of cisplatin in lung cancer cells by targeting Jumonji domain containing 6. Transpl Immunol 2021 Dec;69:101478. PMID: 34607003
  • Li J, Zhao YH, Tian SF, Xu CS et al. Genetic alteration and clonal evolution of primary glioblastoma into secondary gliosarcoma. CNS Neurosci Ther 2021 Dec;27(12):1483-1492. PMID: 34605602
  • Puri D, Koschorz B, Engist B, Onishi-Seebacher M et al. Foxd3 controls heterochromatin-mediated repression of repeat elements and 2-cell state transcription. EMBO Rep 2021 Dec 6;22(12):e53180. PMID: 34605600
  • Becker R, Vergarajauregui S, Billing F, Sharkova M et al. Myogenin controls via AKAP6 non-centrosomal microtubule-organizing center formation at the nuclear envelope. Elife 2021 Oct 4;10. PMID: 34605406
  • Lambert JT, Su-Feher L, Cichewicz K, Warren TL et al. Parallel functional testing identifies enhancers active in early postnatal mouse brain. Elife 2021 Oct 4;10. PMID: 34605404
  • Ryu B, Son MY, Jung KB, Kim U et al. Next-Generation Intestinal Toxicity Model of Human Embryonic Stem Cell-Derived Enterocyte-Like Cells. Front Vet Sci 2021;8:587659. PMID: 34604364
  • Gerstner N, Kehl T, Lenhof K, Eckhart L et al. GeneTrail: A Framework for the Analysis of High-Throughput Profiles. Front Mol Biosci 2021;8:716544. PMID: 34604304
  • Pan D, Du Y, Li R, Shen A et al. miR-29b-3p Increases Radiosensitivity in Stemness Cancer Cells via Modulating Oncogenes Axis. Front Cell Dev Biol 2021;9:741074. PMID: 34604239
  • Wang G, Yang L, Hu M, Hu R et al. Comprehensive Analysis of the Prognostic Significance of Hsa-miR-100-5p and Its Related Gene Signature in Stomach Adenocarcinoma. Front Cell Dev Biol 2021;9:736274. PMID: 34604236
  • Peeters MKR, Baggerman G, Gabriels R, Pepermans E et al. Ion Mobility Coupled to a Time-of-Flight Mass Analyzer Combined With Fragment Intensity Predictions Improves Identification of Classical Bioactive Peptides and Small Open Reading Frame-Encoded Peptides. Front Cell Dev Biol 2021;9:720570. PMID: 34604223
  • Wruck W, Graffmann N, Spitzhorn LS, Adjaye J et al. Human Induced Pluripotent Stem Cell-Derived Mesenchymal Stem Cells Acquire Rejuvenation and Reduced Heterogeneity. Front Cell Dev Biol 2021;9:717772. PMID: 34604216
  • Qin C, Lu R, Yuan M, Zhao R et al. Circular RNA 0006349 Augments Glycolysis and Malignance of Non-small Cell Lung Cancer Cells Through the microRNA-98/MKP1 Axis. Front Cell Dev Biol 2021;9:690307. PMID: 34604211
  • Liu X, Wu Y, Zhang Y, Bu D et al. High Throughput Transcriptome Data Analysis and Computational Verification Reveal Immunotherapy Biomarkers of Compound Kushen Injection for Treating Triple-Negative Breast Cancer. Front Oncol 2021;11:747300. PMID: 34604090
  • Zheng H, Shu T, Zhu S, Zhang C et al. Construction and Validation of a Platinum Sensitivity Predictive Model With Multiple Genomic Variations for Epithelial Ovarian Cancer. Front Oncol 2021;11:725264. PMID: 34604063
  • Zhu H, Jia X, Wang Y, Song Z et al. M6A Classification Combined With Tumor Microenvironment Immune Characteristics Analysis of Bladder Cancer. Front Oncol 2021;11:714267. PMID: 34604051
  • Nie Y, Li J, Wu W, Guo D et al. A Novel Nine-lncRNA Risk Signature Correlates With Immunotherapy in Hepatocellular Carcinoma. Front Oncol 2021;11:706915. PMID: 34604045
  • Dai P, Tang Z, Ruan P, Bajinka O et al. Gimap5 Inhibits Lung Cancer Growth by Interacting With M6PR. Front Oncol 2021;11:699847. PMID: 34604035
  • Peng L, Ma W, Xie Q, Chen B et al. Identification and validation of hub genes for diabetic retinopathy. PeerJ 2021;9:e12126. PMID: 34603851
  • Qiang R, Zhao Z, Tang L, Wang Q et al. Identification of 5 Hub Genes Related to the Early Diagnosis, Tumour Stage, and Poor Outcomes of Hepatitis B Virus-Related Hepatocellular Carcinoma by Bioinformatics Analysis. Comput Math Methods Med 2021;2021:9991255. PMID: 34603487
  • Xiao Z, Zhang W, Li G, Li W et al. Multiomics Analysis Reveals the Prognostic Non-tumor Cell Landscape in Glioblastoma Niches. Front Genet 2021;12:741325. PMID: 34603399
  • Xu D, Ding S, Cao M, Yu X et al. A Pan-Cancer Analysis of Cystatin E/M Reveals Its Dual Functional Effects and Positive Regulation of Epithelial Cell in Human Tumors. Front Genet 2021;12:733211. PMID: 34603393
  • Chen Z, Wang M, De Wilde RL, Feng R et al. A Machine Learning Model to Predict the Triple Negative Breast Cancer Immune Subtype. Front Immunol 2021;12:749459. PMID: 34603338
  • Wang J, Luo L, Ding Q, Wu Z et al. Development of a Multi-Target Strategy for the Treatment of Vitiligo via Machine Learning and Network Analysis Methods. Front Pharmacol 2021;12:754175. PMID: 34603063
  • Lu J, Bi Y, Zhu Y, Huipeng S et al. CD3D, GZMK, and KLRB1 Are Potential Markers for Early Diagnosis of Rheumatoid Arthritis, Especially in Anti-Citrullinated Protein Antibody-Negative Patients. Front Pharmacol 2021;12:726529. PMID: 34603038
  • He M, Hu C, Deng J, Ji H et al. Identification of a novel glycolysis-related signature to predict the prognosis of patients with breast cancer. World J Surg Oncol 2021 Oct 2;19(1):294. PMID: 34600547
  • Li C, Jin M, Luo Y, Jin Z et al. Integrated bioinformatics analysis of core regulatory elements involved in keloid formation. BMC Med Genomics 2021 Oct 2;14(1):239. PMID: 34600545
  • Campbell KM, Xu Y, Patel C, Rayl JM et al. Loss of TDP-43 in male germ cells causes meiotic failure and impairs fertility in mice. J Biol Chem 2021 Nov;297(5):101231. PMID: 34599968
  • Blanco E, González-Ramírez M, Di Croce L et al. Productive visualization of high-throughput sequencing data using the SeqCode open portable platform. Sci Rep 2021 Oct 1;11(1):19545. PMID: 34599234
  • Bleckwehl T, Crispatzu G, Schaaf K, Respuela P et al. Enhancer-associated H3K4 methylation safeguards in vitro germline competence. Nat Commun 2021 Oct 1;12(1):5771. PMID: 34599190
  • Jiang Y, Fu X, Zhang Y, Wang SF et al. Rett syndrome linked to defects in forming the MeCP2/Rbfox/LASR complex in mouse models. Nat Commun 2021 Oct 1;12(1):5767. PMID: 34599184
  • Cejas P, Xie Y, Font-Tello A, Lim K et al. Subtype heterogeneity and epigenetic convergence in neuroendocrine prostate cancer. Nat Commun 2021 Oct 1;12(1):5775. PMID: 34599169
  • Xu PL, Cheng CS, Jiao JY, Chen H et al. Matrine injection inhibits pancreatic cancer growth via modulating carbonic anhydrases- a network pharmacology-based study with in vitro validation. J Ethnopharmacol 2022 Apr 6;287:114691. PMID: 34597654
  • Watson RA, Tong O, Cooper R, Taylor CA et al. Immune checkpoint blockade sensitivity and progression-free survival associates with baseline CD8(+) T cell clone size and cytotoxicity. Sci Immunol 2021 Oct;6(64):eabj8825. PMID: 34597125
  • Huang J, Chen J, Huang Q et al. The profile analysis of circular RNAs in cervical cancer. Medicine (Baltimore) 2021 Oct 1;100(39):e27404. PMID: 34596168
  • Chen X, Xia Z, Wan Y, Huang P et al. Identification of hub genes and candidate drugs in hepatocellular carcinoma by integrated bioinformatics analysis. Medicine (Baltimore) 2021 Oct 1;100(39):e27117. PMID: 34596112
  • Feng W, Yang J, Song W, Xue Y et al. Crosstalk between Heart Failure and Cognitive Impairment via hsa-miR-933/RELB/CCL21 Pathway. Biomed Res Int 2021;2021:2291899. PMID: 34595235
  • Xue Z, Yang S, Luo Y, Cai H et al. A 41-Gene Pair Signature for Predicting the Pathological Response of Locally Advanced Rectal Cancer to Neoadjuvant Chemoradiation. Front Med (Lausanne) 2021;8:744295. PMID: 34595195
  • Zhu J, Luo C, Zhao J, Zhu X et al. Expression of LOX Suggests Poor Prognosis in Gastric Cancer. Front Med (Lausanne) 2021;8:718986. PMID: 34595188
  • Zhang P, Li S, Zhang T, Cui F et al. Characterization of Molecular Subtypes in Head and Neck Squamous Cell Carcinoma With Distinct Prognosis and Treatment Responsiveness. Front Cell Dev Biol 2021;9:711348. PMID: 34595167
  • Lin S, Lin Y, Wu Z, Xia W et al. circRPS16 Promotes Proliferation and Invasion of Hepatocellular Carcinoma by Sponging miR-876-5p to Upregulate SPINK1. Front Oncol 2021;11:724415. PMID: 34595116
  • Zhou Y, Li X, Morita Y, Hachimura S et al. Identification of the Effects of Chondroitin Sulfate on Inhibiting CDKs in Colorectal Cancer Based on Bioinformatic Analysis and Experimental Validation. Front Oncol 2021;11:705939. PMID: 34595111
  • Wang M, Zhu J, Zhao F, Xiao J et al. Transcriptome Analyses Identify a Metabolic Gene Signature Indicative of Antitumor Immunosuppression of EGFR Wild Type Lung Cancers With Low PD-L1 Expression. Front Oncol 2021;11:643503. PMID: 34595103
  • Guo K, Lai C, Shi J, Tang Z et al. A Novel Risk Factor Model Based on Glycolysis-Associated Genes for Predicting the Prognosis of Patients With Prostate Cancer. Front Oncol 2021;11:605810. PMID: 34595101
  • Chifu I, Detomas M, Dischinger U, Kimpel O et al. Management of Patients With Glucocorticoid-Related Diseases and COVID-19. Front Endocrinol (Lausanne) 2021;12:705214. PMID: 34594302
  • Tian S, Wang F, Zhang R, Chen G et al. Global Pattern of CD8(+) T-Cell Infiltration and Exhaustion in Colorectal Cancer Predicts Cancer Immunotherapy Response. Front Pharmacol 2021;12:715721. PMID: 34594218
  • Tian S, Chen S, Feng Y, Li Y et al. The Interactions of Small Proline-Rich Proteins with Late Cornified Envelope Proteins are Involved in the Pathogenesis of Psoriasis. Clin Cosmet Investig Dermatol 2021;14:1355-1365. PMID: 34594126
  • Qian Y, Zhang L, Sun Z, Zang G et al. Biomarkers of Blood from Patients with Atherosclerosis Based on Bioinformatics Analysis. Evol Bioinform Online 2021;17:11769343211046020. PMID: 34594098
  • Chaligne R, Gaiti F, Silverbush D, Schiffman JS et al. Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states. Nat Genet 2021 Oct;53(10):1469-1479. PMID: 34594037
  • Kosmidis K, Hütt MT et al. A minimal model for gene expression dynamics of bacterial type II toxin-antitoxin systems. Sci Rep 2021 Sep 30;11(1):19516. PMID: 34593858
  • Chadchan SB, Popli P, Ambati CR, Tycksen E et al. Gut microbiota-derived short-chain fatty acids protect against the progression of endometriosis. Life Sci Alliance 2021 Dec;4(12). PMID: 34593556
  • Yang W, Liu P, Zheng Y, Wang Z et al. Transcriptomic analyses and experimental verification reveal potential biomarkers and biological pathways of urinary tract infection. Bioengineered 2021 Dec;12(1):8529-8539. PMID: 34592898
  • Zhou Z, Cao J, Liu X, Li M et al. Evidence for the butyrate metabolism as key pathway improving ulcerative colitis in both pediatric and adult patients. Bioengineered 2021 Dec;12(1):8309-8324. PMID: 34592880
  • Cui X, Li X, He Y, Yu J et al. Slight up-regulation of Kir2.1 channel promotes endothelial progenitor cells to transdifferentiate into a pericyte phenotype by Akt/mTOR/Snail pathway. J Cell Mol Med 2021 Nov;25(21):10088-10100. PMID: 34592781
  • Zhang Y, Zou D, Zhu T, Xu T et al. Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels. Nucleic Acids Res 2022 Jan 7;50(D1):D1016-D1024. PMID: 34591957
  • Cao H, Wan Z, Wang F, Liu Z et al. Downregulation of KIF2C and TEKT2 is associated with male infertility and testicular carcinoma. Aging (Albany NY) 2021 Sep 30;13(19):22898-22911. PMID: 34591790
  • Zhu Y, Huang Y, Chen L, Guo L et al. Up-Regulation of SLC26A6 in Hepatocellular Carcinoma and Its Diagnostic and Prognostic Significance. Crit Rev Eukaryot Gene Expr 2021;31(5):79-94. PMID: 34591393
  • Gu Y, Zhang S et al. A Five-Gene Expression Signature Predicts Ovarian Cancer Metastasis. Crit Rev Eukaryot Gene Expr 2021;31(5):41-50. PMID: 34591389
  • Cong P, Wu T, Huang X, Liang H et al. Identification of the Role and Clinical Prognostic Value of Target Genes of m6A RNA Methylation Regulators in Glioma. Front Cell Dev Biol 2021;9:709022. PMID: 34589481
  • Kuo YH, Chan TC, Lai HY, Chen TJ et al. Overexpression of Pyruvate Dehydrogenase Kinase-3 Predicts Poor Prognosis in Urothelial Carcinoma. Front Oncol 2021;11:749142. PMID: 34589439
  • Zheng Y, Cai B, Ren C, Xu H et al. Identification of immune related cells and crucial genes in the peripheral blood of ankylosing spondylitis by integrated bioinformatics analysis. PeerJ 2021;9:e12125. PMID: 34589304
  • Albaradei S, Thafar M, Alsaedi A, Van Neste C et al. Machine learning and deep learning methods that use omics data for metastasis prediction. Comput Struct Biotechnol J 2021;19:5008-5018. PMID: 34589181
  • Tapak L, Kosorok MR, Sadeghifar M, Hamidi O et al. Regularized Weighted Nonparametric Likelihood Approach for High-Dimension Sparse Subdistribution Hazards Model for Competing Risk Data. Comput Math Methods Med 2021;2021:5169052. PMID: 34589136
  • Huang P, Du S, Lin Y, Huang Z et al. Identification of Three Potential circRNA Biomarkers of Polycystic Ovary Syndrome by Bioinformatics Analysis and Validation. Int J Gen Med 2021;14:5959-5968. PMID: 34588800
  • Jardine L, Webb S, Goh I, Quiroga Londoño M et al. Blood and immune development in human fetal bone marrow and Down syndrome. Nature 2021 Oct;598(7880):327-331. PMID: 34588693
  • Wang ZY, Keogh A, Waldt A, Cuttat R et al. Single-cell and bulk transcriptomics of the liver reveals potential targets of NASH with fibrosis. Sci Rep 2021 Sep 29;11(1):19396. PMID: 34588551
  • Reddy NC, Majidi SP, Kong L, Nemera M et al. CHARGE syndrome protein CHD7 regulates epigenomic activation of enhancers in granule cell precursors and gyrification of the cerebellum. Nat Commun 2021 Sep 29;12(1):5702. PMID: 34588434
  • Russ DE, Cross RBP, Li L, Koch SC et al. A harmonized atlas of mouse spinal cord cell types and their spatial organization. Nat Commun 2021 Sep 29;12(1):5722. PMID: 34588430
  • Chen M, Zhou S, Shi H, Gu H et al. Identification and validation of pivotal genes related to age-related meniscus degeneration based on gene expression profiling analysis and in vivo and in vitro models detection. BMC Med Genomics 2021 Sep 29;14(1):237. PMID: 34587952
  • Wang T, Zhang Y, Bai J, Xue Y et al. MMP1 and MMP9 are potential prognostic biomarkers and targets for uveal melanoma. BMC Cancer 2021 Sep 29;21(1):1068. PMID: 34587931
  • Shi J, Lu D, Gu R, Xie J et al. Integrated Analysis of Transcriptome and Differential Methylation of Neurofibromatosis Type 2 Vestibular Schwannomas. World Neurosurg 2022 Jan;157:e66-e76. PMID: 34587518
  • Kim DM, Kim Y, Seo JW, Lee J et al. Enhanced eosinophil-mediated inflammation associated with antibody and complement-dependent pneumonic insults in critical COVID-19. Cell Rep 2021 Oct 5;37(1):109798. PMID: 34587481
  • Zhang HJ, Chen G, Chen SW, Fu ZW et al. Overexpression of cyclin-dependent kinase 1 in esophageal squamous cell carcinoma and its clinical significance. FEBS Open Bio 2021 Nov;11(11):3126-3141. PMID: 34586751
  • Himadewi P, Wang XQD, Feng F, Gore H et al. 3'HS1 CTCF binding site in human β-globin locus regulates fetal hemoglobin expression. Elife 2021 Sep 29;10. PMID: 34585664
  • Zhang Y, Pan M, Li CY, Li JY et al. Exploration of the typical features of tubulovillous adenoma using in-depth quantitative proteomics analysis. Bioengineered 2021 Dec;12(1):6831-6843. PMID: 34585630
  • Li J, Sun S, Li J, Zhao X et al. NCAPG, mediated by miR-378a-3p, regulates cell proliferation, cell cycle progression, and apoptosis of oral squamous cell carcinoma through the GSK-3β/β-catenin signaling. Neoplasma 2021 Nov;68(6):1201-1211. PMID: 34585587
  • Pereverzeva L, Uhel F, Peters Sengers H, Cremer OL et al. Association between delay in intensive care unit admission and the host response in patients with community-acquired pneumonia. Ann Intensive Care 2021 Sep 28;11(1):142. PMID: 34585271
  • Cao J, Liu Z, Liu J, Li C et al. Bioinformatics Analysis and Identification of Genes and Pathways in Ischemic Cardiomyopathy. Int J Gen Med 2021;14:5927-5937. PMID: 34584445
  • Zhang Y, Huang K, Xie D, Lau JY et al. In vivo structure and dynamics of the SARS-CoV-2 RNA genome. Nat Commun 2021 Sep 28;12(1):5695. PMID: 34584097
  • Squair JW, Gautier M, Kathe C, Anderson MA et al. Confronting false discoveries in single-cell differential expression. Nat Commun 2021 Sep 28;12(1):5692. PMID: 34584091
  • Ottema S, Mulet-Lazaro R, Erpelinck-Verschueren C, van Herk S et al. The leukemic oncogene EVI1 hijacks a MYC super-enhancer by CTCF-facilitated loops. Nat Commun 2021 Sep 28;12(1):5679. PMID: 34584081
  • van Dongen J, Gordon SD, McRae AF, Odintsova VV et al. Identical twins carry a persistent epigenetic signature of early genome programming. Nat Commun 2021 Sep 28;12(1):5618. PMID: 34584077
  • Ahmadov U, Picard D, Bartl J, Silginer M et al. The long non-coding RNA HOTAIRM1 promotes tumor aggressiveness and radiotherapy resistance in glioblastoma. Cell Death Dis 2021 Sep 28;12(10):885. PMID: 34584066
  • Kasim M, Gencturk E, Ulgen KO et al. Real-Time Single-Cell Monitoring of Drug Effects Using Droplet-Based Microfluidic Technology: A Proof-of-Concept Study. OMICS 2021 Oct;25(10):641-651. PMID: 34582730
  • Keum S, Yang SJ, Park E, Kang T et al. Beta-Pix-dynamin 2 complex promotes colorectal cancer progression by facilitating membrane dynamics. Cell Oncol (Dordr) 2021 Dec;44(6):1287-1305. PMID: 34582006
  • Lu S, Conn DJ, Chen S, Johnson KD et al. MLG: multilayer graph clustering for multi-condition scRNA-seq data. Nucleic Acids Res 2021 Dec 16;49(22):e127. PMID: 34581807
  • Venis SM, Moon HR, Yang Y, Utturkar SM et al. Engineering of a functional pancreatic acinus with reprogrammed cancer cells by induced PTF1a expression. Lab Chip 2021 Sep 28;21(19):3675-3685. PMID: 34581719
  • Liu L, Shi W, Xiao X, Wu X et al. BCG immunotherapy inhibits cancer progression by promoting the M1 macrophage differentiation of THP‑1 cells via the Rb/E2F1 pathway in cervical carcinoma. Oncol Rep 2021 Nov;46(5). PMID: 34581419
  • Ye MS, Zhang JY, Yu DD, Xu M et al. Comprehensive annotation of the Chinese tree shrew genome by large-scale RNA sequencing and long-read isoform sequencing. Zool Res 2021 Nov 18;42(6):692-709. PMID: 34581030
  • Ouyang X, Zeng Y, Jiang X, Xu H et al. Identification of Vital Hub Genes and Potential Molecular Pathways of Dermatomyositis by Bioinformatics Analysis. Biomed Res Int 2021;2021:9991726. PMID: 34580642
  • Xiao Z, Ye Q, Duan X, Xiang T et al. Network Pharmacology Reveals That Resveratrol Can Alleviate COVID-19-Related Hyperinflammation. Dis Markers 2021;2021:4129993. PMID: 34580601
  • Ahn SH, Gu D, Koh Y, Lee HS et al. AGO CLIP-based imputation of potent siRNA sequences targeting SARS-CoV-2 with antifibrotic miRNA-like activity. Sci Rep 2021 Sep 27;11(1):19161. PMID: 34580386
  • Henkel ND, Smail MA, Wu X, Enright HA et al. Cellular, molecular, and therapeutic characterization of pilocarpine-induced temporal lobe epilepsy. Sci Rep 2021 Sep 27;11(1):19102. PMID: 34580351
  • Carlet M, Völse K, Vergalli J, Becker M et al. In vivo inducible reverse genetics in patients' tumors to identify individual therapeutic targets. Nat Commun 2021 Sep 27;12(1):5655. PMID: 34580292
  • Hammerl D, Martens JWM, Timmermans M, Smid M et al. Spatial immunophenotypes predict response to anti-PD1 treatment and capture distinct paths of T cell evasion in triple negative breast cancer. Nat Commun 2021 Sep 27;12(1):5668. PMID: 34580291
  • Huang YT, Cheng AC, Tang HC, Huang GC et al. USP7 facilitates SMAD3 autoregulation to repress cancer progression in p53-deficient lung cancer. Cell Death Dis 2021 Sep 27;12(10):880. PMID: 34580281
  • Zare A, Postovit LM, Githaka JM et al. Robust inflammatory breast cancer gene signature using nonparametric random forest analysis. Breast Cancer Res 2021 Sep 27;23(1):92. PMID: 34579745
  • Yang F, Hu A, Guo Y, Wang J et al. p113 isoform encoded by CUX1 circular RNA drives tumor progression via facilitating ZRF1/BRD4 transactivation. Mol Cancer 2021 Sep 27;20(1):123. PMID: 34579723
  • Yi SA, Nam KH, Lee MG, Oh H et al. Transcriptomics-Based Repositioning of Natural Compound, Eudesmin, as a PRC2 Modulator. Molecules 2021 Sep 18;26(18). PMID: 34577136
  • Gong S, Duan Y, Wu C, Osterhoff G et al. A Human Pan-Cancer System Analysis of Procollagen-Lysine, 2-Oxoglutarate 5-Dioxygenase 3 (PLOD3). Int J Mol Sci 2021 Sep 14;22(18). PMID: 34576068
  • Panov J, Kaphzan H et al. Angelman Syndrome and Angelman-like Syndromes Share the Same Calcium-Related Gene Signatures. Int J Mol Sci 2021 Sep 13;22(18). PMID: 34576033
  • Highsmith M, Cheng J et al. Four-Dimensional Chromosome Structure Prediction. Int J Mol Sci 2021 Sep 10;22(18). PMID: 34575948
  • Russo A, Viberti C, Mareschi K, Casalone E et al. Genetic and Epigenetic Characterization of a Discordant KMT2A/AFF1-Rearranged Infant Monozygotic Twin Pair. Int J Mol Sci 2021 Sep 9;22(18). PMID: 34575904
  • Sun J, Fahmi NA, Nassereddeen H, Cheng S et al. Computational Methods to Study Human Transcript Variants in COVID-19 Infected Lung Cancer Cells. Int J Mol Sci 2021 Sep 7;22(18). PMID: 34575842
  • Wang HC, Chan LP, Wu CC, Hsiao HH et al. Progression Risk Score Estimation Based on Immunostaining Data in Oral Cancer Using Unsupervised Hierarchical Clustering Analysis: A Retrospective Study in Taiwan. J Pers Med 2021 Sep 13;11(9). PMID: 34575686
  • Bissanum R, Chaichulee S, Kamolphiwong R, Navakanitworakul R et al. Molecular Classification Models for Triple Negative Breast Cancer Subtype Using Machine Learning. J Pers Med 2021 Sep 1;11(9). PMID: 34575658
  • Huang SW, Chen YC, Lin YH, Yeh CT et al. Clinical Limitations of Tissue Annexin A2 Level as a Predictor of Postoperative Overall Survival in Patients with Hepatocellular Carcinoma. J Clin Med 2021 Sep 15;10(18). PMID: 34575275
  • Huang GH, Zhang YH, Chen L, Li Y et al. Identifying Lung Cancer Cell Markers with Machine Learning Methods and Single-Cell RNA-Seq Data. Life (Basel) 2021 Sep 9;11(9). PMID: 34575089
  • Nami B, Ghanaeian A, Black C, Wang Z et al. Epigenetic Silencing of HER2 Expression during Epithelial-Mesenchymal Transition Leads to Trastuzumab Resistance in Breast Cancer. Life (Basel) 2021 Aug 24;11(9). PMID: 34575017
  • Li A, He J, Zhang Z, Jiang S et al. Integrated Bioinformatics Analysis Reveals Marker Genes and Potential Therapeutic Targets for Pulmonary Arterial Hypertension. Genes (Basel) 2021 Aug 28;12(9). PMID: 34573320
  • Maklad A, Sedeeq M, Milevskiy MJG, Azimi I et al. Calcium Signalling in Medulloblastoma: An In Silico Analysis of the Expression of Calcium Regulating Genes in Patient Samples. Genes (Basel) 2021 Aug 27;12(9). PMID: 34573310
  • Yuk H, Abdullah M, Kim DH, Lee H et al. Necrostatin-1 Prevents Ferroptosis in a RIPK1- and IDO-Independent Manner in Hepatocellular Carcinoma. Antioxidants (Basel) 2021 Aug 25;10(9). PMID: 34572979
  • Sapienza MR, Benvenuto G, Ferracin M, Mazzara S et al. Newly-Discovered Neural Features Expand the Pathobiological Knowledge of Blastic Plasmacytoid Dendritic Cell Neoplasm. Cancers (Basel) 2021 Sep 18;13(18). PMID: 34572907
  • Spaan I, van de Stolpe A, Raymakers RA, Peperzak V et al. Multiple Myeloma Relapse Is Associated with Increased NFκB Pathway Activity and Upregulation of the Pro-Survival BCL-2 Protein BFL-1. Cancers (Basel) 2021 Sep 17;13(18). PMID: 34572895
  • Franchi-Mendes T, Eduardo R, Domenici G, Brito C et al. 3D Cancer Models: Depicting Cellular Crosstalk within the Tumour Microenvironment. Cancers (Basel) 2021 Sep 14;13(18). PMID: 34572836
  • Troike KM, Acanda de la Rocha AM, Alban TJ, Grabowski MM et al. The Translocator Protein (TSPO) Genetic Polymorphism A147T Is Associated with Worse Survival in Male Glioblastoma Patients. Cancers (Basel) 2021 Sep 8;13(18). PMID: 34572751
  • Yang M, Li JC, Tao C, Wu S et al. PAQR6 Upregulation Is Associated with AR Signaling and Unfavorite Prognosis in Prostate Cancers. Biomolecules 2021 Sep 18;11(9). PMID: 34572596
  • Bamodu OA, Wang YH, Yeh CT, Ho CH et al. Concomitant High Apoptosis Inhibitor of Macrophage (AIM) and Low Prostate-Specific Antigen (PSA) Indicates Activated T Cell-Mediated Anticancer Immunity, Enhance Sensitivity to Pembrolizumab, and Elicit Good Prognosis in Prostate Cancer. Biomedicines 2021 Sep 15;9(9). PMID: 34572412
  • Skat-Rørdam J, Ipsen DH, Seemann SE, Latta M et al. Modelling Nonalcoholic Steatohepatitis In Vivo-A Close Transcriptomic Similarity Supports the Guinea Pig Disease Model. Biomedicines 2021 Sep 10;9(9). PMID: 34572384
  • Strawn M, Moraes JGN, Safranski TJ, Behura SK et al. Sexually Dimorphic Transcriptomic Changes of Developing Fetal Brain Reveal Signaling Pathways and Marker Genes of Brain Cells in Domestic Pigs. Cells 2021 Sep 16;10(9). PMID: 34572090
  • Spek CA, Aberson HL, Butler JM, de Vos AF et al. CEBPD Potentiates the Macrophage Inflammatory Response but CEBPD Knock-Out Macrophages Fail to Identify CEBPD-Dependent Pro-Inflammatory Transcriptional Programs. Cells 2021 Aug 28;10(9). PMID: 34571881
  • Cruz-Tapias P, Rubiano W, Rondón-Lagos M, Villegas VE et al. Intrinsic Subtypes and Androgen Receptor Gene Expression in Primary Breast Cancer. A Meta-Analysis. Biology (Basel) 2021 Aug 27;10(9). PMID: 34571711
  • Zong W, Kang H, Xiong Z, Ma Y et al. scMethBank: a database for single-cell whole genome DNA methylation maps. Nucleic Acids Res 2022 Jan 7;50(D1):D380-D386. PMID: 34570235
  • Chen YP, Ferguson LB, Salem NA, Zheng G et al. RNA Solutions: Synthesizing Information to Support Transcriptomics (RNASSIST). Bioinformatics 2022 Jan 3;38(2):397-403. PMID: 34570193
  • Wang Z, Huang Y, Chu F, Liao K et al. Integrated Analysis of DNA methylation and transcriptome profile to identify key features of age-related macular degeneration. Bioengineered 2021 Dec;12(1):7061-7078. PMID: 34569899
  • Bronder D, Tighe A, Wangsa D, Zong D et al. TP53 loss initiates chromosomal instability in fallopian tube epithelial cells. Dis Model Mech 2021 Nov 1;14(11). PMID: 34569598
  • Bozack AK, Colicino E, Just AC, Wright RO et al. Associations between infant sex and DNA methylation across umbilical cord blood, artery, and placenta samples. Epigenetics 2022 Oct;17(10):1080-1097. PMID: 34569420
  • Tian J, Zhang C, Kang N, Wang J et al. Attenuated monoamine oxidase a impairs endometrial receptivity in women with adenomyosis via downregulation of FOXO1†. Biol Reprod 2021 Dec 20;105(6):1443-1457. PMID: 34568943
  • Gulla A, Morelli E, Samur MK, Botta C et al. Bortezomib induces anti-multiple myeloma immune response mediated by cGAS/STING pathway activation. Blood Cancer Discov 2021 Sep;2(5):468-483. PMID: 34568832
  • Bharmal MM, Gega A, Schrader JM et al. A combination of mRNA features influence the efficiency of leaderless mRNA translation initiation. NAR Genom Bioinform 2021 Sep;3(3):lqab081. PMID: 34568822
  • Guo S, Huang Z, Liu X, Zhang J et al. Biodata Mining of Differentially Expressed Genes between Acute Myocardial Infarction and Unstable Angina Based on Integrated Bioinformatics. Biomed Res Int 2021;2021:5584681. PMID: 34568491
  • Liang J, Cao Y, He M, Li W et al. AKR1C3 and Its Transcription Factor HOXB4 Are Promising Diagnostic Biomarkers for Acute Myocardial Infarction. Front Cardiovasc Med 2021;8:694238. PMID: 34568444
  • Zhang C, Li YZ, Dai DQ et al. Aberrant DNA Methylation-Mediated FOXF2 Dysregulation Is a Prognostic Risk Factor for Gastric Cancer. Front Mol Biosci 2021;8:645470. PMID: 34568422
  • Tian D, Yu Y, Zhang L, Sun J et al. A Five-Gene-Based Prognostic Signature for Hepatocellular Carcinoma. Front Med (Lausanne) 2021;8:681388. PMID: 34568357
  • Lin Y, Zheng ZH, Wang JX, Zhao Z et al. Tumor Cell-Derived Exosomal Circ-0072088 Suppresses Migration and Invasion of Hepatic Carcinoma Cells Through Regulating MMP-16. Front Cell Dev Biol 2021;9:726323. PMID: 34568335
  • Ren Z, Yang Q, Guo J, Huang H et al. Circular RNA hsa_circ_0000073 Enhances Osteosarcoma Cells Malignant Behavior by Sponging miR-1252-5p and Modulating CCNE2 and MDM2. Front Cell Dev Biol 2021;9:714601. PMID: 34568326
  • Wu S, Zhang C, Xie J, Li S et al. A Five-MicroRNA Signature Predicts the Prognosis in Nasopharyngeal Carcinoma. Front Oncol 2021;11:723362. PMID: 34568051
  • Peng KY, Jiang SS, Lee YW, Tsai FY et al. Stromal Galectin-1 Promotes Colorectal Cancer Cancer-Initiating Cell Features and Disease Dissemination Through SOX9 and β-Catenin: Development of Niche-Based Biomarkers. Front Oncol 2021;11:716055. PMID: 34568045
  • Xiong Z, Lin Y, Yu Y, Zhou X et al. Exploration of Lipid Metabolism in Gastric Cancer: A Novel Prognostic Genes Expression Profile. Front Oncol 2021;11:712746. PMID: 34568042
  • Li R, Zhu L, Peng Y, Zhang X et al. TRIM50 Suppresses Pancreatic Cancer Progression and Reverses the Epithelial-Mesenchymal Transition via Facilitating the Ubiquitous Degradation of Snail1. Front Oncol 2021;11:695740. PMID: 34568024
  • Wu J, Huang Y, Yu C, Li X et al. The Key Gene Expression Patterns and Prognostic Factors in Malignant Transformation from Enchondroma to Chondrosarcoma. Front Oncol 2021;11:693034. PMID: 34568022
  • Lei X, Chen G, Li J, Wen W et al. Comprehensive analysis of abnormal expression, prognostic value and oncogenic role of the hub gene FN1 in pancreatic ductal adenocarcinoma via bioinformatic analysis and in vitro experiments. PeerJ 2021;9:e12141. PMID: 34567847
  • Shi D, Ao L, Yu H, Xia Y et al. Chromobox Homolog 8 (CBX8) in Human Tumor Carcinogenesis and Prognosis: A Pancancer Analysis Using Multiple Databases. Front Genet 2021;12:745277. PMID: 34567093
  • Xu L, Xu Y, Xue T, Zhang X et al. AdImpute: An Imputation Method for Single-Cell RNA-Seq Data Based on Semi-Supervised Autoencoders. Front Genet 2021;12:739677. PMID: 34567089
  • Zhang WM, Fang D, Cheng XZ, Cao J et al. Insights Into the Molecular Evolution of AT-Hook Motif Nuclear Localization Genes in Brassica napus. Front Plant Sci 2021;12:714305. PMID: 34567028
  • Wang P, Li J, Wu M, Ye M et al. Human Mitochondrial Ribosomal RNA Modification-Based Classification Contributes to Discriminate the Prognosis and Immunotherapy Response of Glioma Patients. Front Immunol 2021;12:722479. PMID: 34566979
  • Yong HJ, Xie G, Liu C, Wang W et al. Gene Signatures of NEUROGENIN3+ Endocrine Progenitor Cells in the Human Pancreas. Front Endocrinol (Lausanne) 2021;12:736286. PMID: 34566896
  • Wang YH, Li CX, Stephenson JM, Marrelli SP et al. NR4A3 and CCL20 clusters dominate the genetic networks in CD146(+) blood cells during acute myocardial infarction in humans. Eur J Med Res 2021 Sep 26;26(1):113. PMID: 34565470
  • Leeuwenburgh VC, Urzúa-Traslaviña CG, Bhattacharya A, Walvoort MTC et al. Robust metabolic transcriptional components in 34,494 patient-derived cancer-related samples and cell lines. Cancer Metab 2021 Sep 26;9(1):35. PMID: 34565468
  • Karikari AA, Wruck W, Adjaye J et al. Transcriptome-based analysis of blood samples reveals elevation of DNA damage response, neutrophil degranulation, cancer and neurodegenerative pathways in Plasmodium falciparum patients. Malar J 2021 Sep 26;20(1):383. PMID: 34565410
  • Paul KC, Binder AM, Horvath S, Kusters C et al. Accelerated hematopoietic mitotic aging measured by DNA methylation, blood cell lineage, and Parkinson's disease. BMC Genomics 2021 Sep 26;22(1):696. PMID: 34565328
  • Pei L, Lv X, Jia G, Tan X et al. Silencing circular RNA circ_0054537 and upregulating microRNA-640 suppress malignant progression of renal cell carcinoma via regulating neuronal pentraxin-2 (NPTX2). Bioengineered 2021 Dec;12(1):8279-8295. PMID: 34565284
  • Du Y, Hu Y, Wen N, Fu S et al. Abnormal expression of TGFBR2, EGF, LRP10, and IQGAP1 is involved in the pathogenesis of coronary artery disease. Rev Cardiovasc Med 2021 Sep 24;22(3):947-958. PMID: 34565095
  • Qiu C, Zhou X, Chen Z, Ren H et al. A nomogram concerning immune infiltration and radiosensitivity to predict biochemical recurrence after radical radiation therapy in prostate cancer. J BUON 2021 Jul-Aug;26(4):1612-1622. PMID: 34565026
  • Zhao F, Liu Y, Gu X, Zhang B et al. Identification of sixteen metabolic genes as potential biomarkers for colon adenocarcinoma. J BUON 2021 Jul-Aug;26(4):1252-1259. PMID: 34564978
  • Kotlyarov S, Kotlyarova A et al. Bioinformatic Analysis of ABCA1 Gene Expression in Smoking and Chronic Obstructive Pulmonary Disease. Membranes (Basel) 2021 Aug 31;11(9). PMID: 34564491
  • Zeng Z, Lin J, Zhang K, Guo X et al. Single cell RNA-seq data and bulk gene profiles reveal a novel signature of disease progression in multiple myeloma. Cancer Cell Int 2021 Sep 25;21(1):511. PMID: 34563174
  • Ferré Q, Chèneby J, Puthier D, Capponi C et al. Anomaly detection in genomic catalogues using unsupervised multi-view autoencoders. BMC Bioinformatics 2021 Sep 25;22(1):460. PMID: 34563116
  • Zhang LY, Jin Y, Xia PH, Lin J et al. Integrated analysis reveals distinct molecular, clinical, and immunological features of B7-H3 in acute myeloid leukemia. Cancer Med 2021 Nov;10(21):7831-7846. PMID: 34562306
  • Phan HV, van Gent M, Drayman N, Basu A et al. High-throughput RNA sequencing of paraformaldehyde-fixed single cells. Nat Commun 2021 Sep 24;12(1):5636. PMID: 34561439
  • Azoury ME, Samassa F, Buitinga M, Nigi L et al. CD8(+) T Cells Variably Recognize Native Versus Citrullinated GRP78 Epitopes in Type 1 Diabetes. Diabetes 2021 Dec;70(12):2879-2891. PMID: 34561224
  • Wang Y, Zhang J, Li YJ, Yu NN et al. MEST promotes lung cancer invasion and metastasis by interacting with VCP to activate NF-κB signaling. J Exp Clin Cancer Res 2021 Sep 24;40(1):301. PMID: 34560900
  • Lee KT, Chen BC, Liu SC, Lin YY et al. Nesfatin-1 facilitates IL-1β production in osteoarthritis synovial fibroblasts by suppressing miR-204-5p synthesis through the AP-1 and NF-κB pathways. Aging (Albany NY) 2021 Sep 24;13(18):22490-22501. PMID: 34560673
  • Smith CL, Lan Y, Jain R, Epstein JA et al. Global chromatin relabeling accompanies spatial inversion of chromatin in rod photoreceptors. Sci Adv 2021 Sep 24;7(39):eabj3035. PMID: 34559565
  • Zou A, Jian Q et al. CXCL10 and its related key genes as potential biomarkers for psoriasis: Evidence from bioinformatics and real-time quantitative polymerase chain reaction. Medicine (Baltimore) 2021 Sep 24;100(38):e27365. PMID: 34559160
  • Zhou N, Li S, Wu D, Zhang F et al. The lncRNA VPS9D1-AS1 Promotes Hepatocellular Carcinoma Cell Cycle Progression by Regulating the HuR/CDK4 Axis. DNA Cell Biol 2021 Oct;40(10):1278-1289. PMID: 34558987
  • Hung TH, Hung JT, Wu CE, Huang Y et al. Globo H Is a Promising Theranostic Marker for Intrahepatic Cholangiocarcinoma. Hepatol Commun 2022 Jan;6(1):194-208. PMID: 34558839
  • Zheng J, Zhao Z, Wan J, Guo M et al. N-6 methylation-related lncRNA is potential signature in lung adenocarcinoma and influences tumor microenvironment. J Clin Lab Anal 2021 Nov;35(11):e23951. PMID: 34558724
  • Yang Y, Zhu QY, Liu JL et al. Deciphering mouse uterine receptivity for embryo implantation at single-cell resolution. Cell Prolif 2021 Nov;54(11):e13128. PMID: 34558134
  • Lin JJ, Chen W, Gong M, Xu X et al. Expression and Functional Analysis of lncRNAs Involved in Platelet-Derived Growth Factor-BB-Induced Proliferation of Human Aortic Smooth Muscle Cells. Front Cardiovasc Med 2021;8:702718. PMID: 34557530
  • Zhao H, Pan S, Duan J, Liu F et al. Integrative Analysis of m(6)A Regulator-Mediated RNA Methylation Modification Patterns and Immune Characteristics in Lupus Nephritis. Front Cell Dev Biol 2021;9:724837. PMID: 34557492
  • Sun J, Yue W, You J, Wei X et al. Identification of a Novel Ferroptosis-Related Gene Prognostic Signature in Bladder Cancer. Front Oncol 2021;11:730716. PMID: 34557413
  • Yang Y, Gao L, Weng NN, Li JJ et al. Identification of Novel Molecular Therapeutic Targets and Their Potential Prognostic Biomarkers Among Kinesin Superfamily of Proteins in Pancreatic Ductal Adenocarcinoma. Front Oncol 2021;11:708900. PMID: 34557409
  • Lu X, Li C, Xu W, Wu Y et al. Malignant Tumor Purity Reveals the Driven and Prognostic Role of CD3E in Low-Grade Glioma Microenvironment. Front Oncol 2021;11:676124. PMID: 34557404
  • Zhao Y, Liu X, Xiao K, Wang L et al. Clinicopathological value of long non-coding RNA profiles in gastrointestinal stromal tumor. PeerJ 2021;9:e11946. PMID: 34557343
  • Zhang D, Wang Y, Zeng S, Zhang M et al. Integrated Analysis of Prognostic Genes Associated With Ischemia-Reperfusion Injury in Renal Transplantation. Front Immunol 2021;12:747020. PMID: 34557203
  • Gao Z, S A, Li XM, Li XL et al. Identification of Key Candidate Genes and Chemical Perturbagens in Diabetic Kidney Disease Using Integrated Bioinformatics Analysis. Front Endocrinol (Lausanne) 2021;12:721202. PMID: 34557161
  • Xu Q, Li B, Wang Y, Wang C et al. Identification of VCAN as Hub Gene for Diabetic Kidney Disease Immune Injury Using Integrated Bioinformatics Analysis. Front Physiol 2021;12:651690. PMID: 34557107
  • Wu J, Leng X, Pan Z, Xu L et al. Overexpression of IRF3 Predicts Poor Prognosis in Clear Cell Renal Cell Carcinoma. Int J Gen Med 2021;14:5675-5692. PMID: 34557022
  • Doane AS, Chu CS, Di Giammartino DC, Rivas MA et al. OCT2 pre-positioning facilitates cell fate transition and chromatin architecture changes in humoral immunity. Nat Immunol 2021 Oct;22(10):1327-1340. PMID: 34556886
  • Lebedev T, Vagapova E, Spirin P, Rubtsov P et al. Growth factor signaling predicts therapy resistance mechanisms and defines neuroblastoma subtypes. Oncogene 2021 Nov;40(44):6258-6272. PMID: 34556815
  • Han G, Yang G, Hao D, Lu Y et al. 9p21 loss confers a cold tumor immune microenvironment and primary resistance to immune checkpoint therapy. Nat Commun 2021 Sep 23;12(1):5606. PMID: 34556668
  • Zingone A, Sinha S, Ante M, Nguyen C et al. A comprehensive map of alternative polyadenylation in African American and European American lung cancer patients. Nat Commun 2021 Sep 23;12(1):5605. PMID: 34556645
  • Zhou P, Wang S, Li T, Nie Q et al. Dissecting transition cells from single-cell transcriptome data through multiscale stochastic dynamics. Nat Commun 2021 Sep 23;12(1):5609. PMID: 34556644
  • Fujihara Y, Herberg S, Blaha A, Panser K et al. The conserved fertility factor SPACA4/Bouncer has divergent modes of action in vertebrate fertilization. Proc Natl Acad Sci U S A 2021 Sep 28;118(39). PMID: 34556579
  • Rabin A, Zaffagni M, Ashwal-Fluss R, Patop IL et al. SRCP: a comprehensive pipeline for accurate annotation and quantification of circRNAs. Genome Biol 2021 Sep 23;22(1):277. PMID: 34556162
  • Jiang Z, Shi Y, Zhao W, Zhou L et al. Association between chronic periodontitis and the risk of Alzheimer's disease: combination of text mining and GEO dataset. BMC Oral Health 2021 Sep 23;21(1):466. PMID: 34556089
  • Zhu Y, Huang D, Zhao Z, Lu C et al. Bioinformatic analysis identifies potential key genes of epilepsy. PLoS One 2021;16(9):e0254326. PMID: 34555062
  • Li S, Chen B, Chen H, Hua Z et al. Analysis of potential genetic biomarkers and molecular mechanism of smoking-related postmenopausal osteoporosis using weighted gene co-expression network analysis and machine learning. PLoS One 2021;16(9):e0257343. PMID: 34555052
  • Gao ZY, Su LC, Wu QC, Sheng JE et al. Bioinformatics analyses of gene expression profile identify key genes and functional pathways involved in cutaneous lupus erythematosus. Clin Rheumatol 2022 Feb;41(2):437-452. PMID: 34553293
  • Leipzig J, Nüst D, Hoyt CT, Ram K et al. The role of metadata in reproducible computational research. Patterns (N Y) 2021 Sep 10;2(9):100322. PMID: 34553169
  • Tan P, Chen H, Huang Z, Huang M et al. MMP25-AS1/hsa-miR-10a-5p/SERPINE1 axis as a novel prognostic biomarker associated with immune cell infiltration in KIRC. Mol Ther Oncolytics 2021 Sep 24;22:307-325. PMID: 34553021
  • Zheng M, Hu Y, Gou R, Li S et al. Development of a seven-gene tumor immune microenvironment prognostic signature for high-risk grade III endometrial cancer. Mol Ther Oncolytics 2021 Sep 24;22:294-306. PMID: 34553020
  • Jiang ZY, Zhou Y, Zhou L, Li SW et al. Identification of Key Genes and Immune Infiltrate in Nonalcoholic Steatohepatitis: A Bioinformatic Analysis. Biomed Res Int 2021;2021:7561645. PMID: 34552988
  • Li M, Liu Y, Liu Y, Yang L et al. Downregulation of GNA15 Inhibits Cell Proliferation via P38 MAPK Pathway and Correlates with Prognosis of Adult Acute Myeloid Leukemia With Normal Karyotype. Front Oncol 2021;11:724435. PMID: 34552875
  • Zhao H, Zhang X, Guo L, Shi S et al. A Robust Seven-Gene Signature Associated With Tumor Microenvironment to Predict Survival Outcomes of Patients With Stage III-IV Lung Adenocarcinoma. Front Genet 2021;12:684281. PMID: 34552612
  • Liu J, Wang X, Lin J, Li S et al. Classifiers for Predicting Coronary Artery Disease Based on Gene Expression Profiles in Peripheral Blood Mononuclear Cells. Int J Gen Med 2021;14:5651-5663. PMID: 34552349
  • Losurdo A, Scirgolea C, Alvisi G, Brummelman J et al. Single-cell profiling defines the prognostic benefit of CD39(high) tissue resident memory CD8+ T cells in luminal-like breast cancer. Commun Biol 2021 Sep 22;4(1):1117. PMID: 34552178
  • Saha R, Pradhan SS, Shalimar, Das P et al. Inflammatory signature in acute-on-chronic liver failure includes increased expression of granulocyte genes ELANE, MPO and CD177. Sci Rep 2021 Sep 22;11(1):18849. PMID: 34552111
  • Fernandez Lahore G, Förster M, Johannesson M, Sabatier P et al. Polymorphic estrogen receptor binding site causes Cd2-dependent sex bias in the susceptibility to autoimmune diseases. Nat Commun 2021 Sep 22;12(1):5565. PMID: 34552089
  • Zhang Q, Zhang J, Ye J, Li X et al. Nuclear speckle specific hnRNP D-like prevents age- and AD-related cognitive decline by modulating RNA splicing. Mol Neurodegener 2021 Sep 22;16(1):66. PMID: 34551807
  • Cui T, Dou Y, Tan P, Ni Z et al. RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation. Nucleic Acids Res 2022 Jan 7;50(D1):D333-D339. PMID: 34551440
  • Li M, Tian X, Guo H, Xu X et al. A novel lncRNA-mRNA-miRNA signature predicts recurrence and disease-free survival in cervical cancer. Braz J Med Biol Res 2021;54(11):e11592. PMID: 34550275
  • Ma W, Cao Q, She W et al. Identification and clinical validation of gene signatures with grade and survival in head and neck carcinomas. Braz J Med Biol Res 2021;54(11):e11069. PMID: 34550272
  • Moon K, Sim M, Tai CH, Yoo K et al. Identification of BvgA-Dependent and BvgA-Independent Small RNAs (sRNAs) in Bordetella pertussis Using the Prokaryotic sRNA Prediction Toolkit ANNOgesic. Microbiol Spectr 2021 Oct 31;9(2):e0004421. PMID: 34550019
  • Winkler C, King M, Berthe J, Ferraioli D et al. SLFN11 captures cancer-immunity interactions associated with platinum sensitivity in high-grade serous ovarian cancer. JCI Insight 2021 Sep 22;6(18). PMID: 34549724
  • Dubois-Vedrenne I, Al Delbany D, De Henau O, Robert V et al. The antitumoral effects of chemerin are independent from leukocyte recruitment and mediated by inhibition of neoangiogenesis. Oncotarget 2021 Sep 14;12(19):1903-1919. PMID: 34548907
  • Zong L, Tanaka-Yano M, Park B, Yanai H et al. NAD(+) augmentation with nicotinamide riboside improves lymphoid potential of Atm(-/-) and old mice HSCs. NPJ Aging Mech Dis 2021 Sep 21;7(1):25. PMID: 34548492
  • Kim JH, Jeong K, Li J, Murphy JM et al. SON drives oncogenic RNA splicing in glioblastoma by regulating PTBP1/PTBP2 switching and RBFOX2 activity. Nat Commun 2021 Sep 21;12(1):5551. PMID: 34548489
  • Malkmus J, Ramos Martins L, Jhanwar S, Kircher B et al. Spatial regulation by multiple Gremlin1 enhancers provides digit development with cis-regulatory robustness and evolutionary plasticity. Nat Commun 2021 Sep 21;12(1):5557. PMID: 34548488
  • Nieto P, Elosua-Bayes M, Trincado JL, Marchese D et al. A single-cell tumor immune atlas for precision oncology. Genome Res 2021 Oct;31(10):1913-1926. PMID: 34548323
  • Morianos I, Tsitsopoulou A, Potaris K, Valakos D et al. Activin-A impedes the establishment of CD4(+) T cell exhaustion and enhances anti-tumor immunity in the lung. J Exp Clin Cancer Res 2021 Sep 21;40(1):295. PMID: 34548096
  • Planterose Jiménez B, Kayser M, Vidaki A et al. Revisiting genetic artifacts on DNA methylation microarrays exposes novel biological implications. Genome Biol 2021 Sep 21;22(1):274. PMID: 34548083
  • Yao Z, Chen P, Fan L, Chen P et al. CCL2 is a critical mechano-responsive mediator in crosstalk between osteoblasts and bone mesenchymal stromal cells. FASEB J 2021 Oct;35(10):e21851. PMID: 34547121
  • Tsukanov AV, Levitsky VG, Merkulova TI et al. Application of alternative de novo motif recognition models for analysis of structural heterogeneity of transcription factor binding sites: a case study of FOXA2 binding sites. Vavilovskii Zhurnal Genet Selektsii 2021 Feb;25(1):7. PMID: 34547062
  • Zhang S, Wang J, Chen T, Wang J et al. α-Actinin1 promotes tumorigenesis and epithelial-mesenchymal transition of gastric cancer via the AKT/GSK3β/β-Catenin pathway. Bioengineered 2021 Dec;12(1):5688-5704. PMID: 34546849
  • Li Q, Meng Y, Hu L, Charwudzi A et al. Integrative analysis of hub genes and key pathway in two subtypes of diffuse large B-cell lymphoma by bioinformatics and basic experiments. J Clin Lab Anal 2021 Nov;35(11):e23978. PMID: 34545634
  • He B, Xiao Y, Liang H, Huang Q et al. ASGARD: A Single-cell Guided pipeline to Aid Repurposing of Drugs. ArXiv 2021 Sep 14 PMID: 34545335
  • Chen Y, Yu X, Kong J et al. Identification of Neuropeptides as Potential Crosstalks Linking Down Syndrome and Periodontitis Revealed by Transcriptomic Analyses. Dis Markers 2021;2021:7331821. PMID: 34545294
  • Haro E, Petit F, Pira CU, Spady CD et al. Identification of limb-specific Lmx1b auto-regulatory modules with Nail-patella syndrome pathogenicity. Nat Commun 2021 Sep 20;12(1):5533. PMID: 34545091
  • Stassen SV, Yip GGK, Wong KKY, Ho JWK et al. Generalized and scalable trajectory inference in single-cell omics data with VIA. Nat Commun 2021 Sep 20;12(1):5528. PMID: 34545085
  • DeSisto J, Lucas JT Jr, Xu K, Donson A et al. Comprehensive molecular characterization of pediatric radiation-induced high-grade glioma. Nat Commun 2021 Sep 20;12(1):5531. PMID: 34545084
  • Huang L, Xu W, Yan D, Shi X et al. An insertion variant of MGMT disrupts a STAT1 binding site and confers susceptibility to glioma. Cancer Cell Int 2021 Sep 20;21(1):506. PMID: 34544433
  • Zhang Y, Zhang L, Sun H, Liu Y et al. Inhibitory immune checkpoints PDCD-1 and LAG-3 hypermethylation may reduce the risk of colorectal cancer. Mol Med 2021 Sep 20;27(1):114. PMID: 34544358
  • Tian H, Wu Z, Chen S, Ao K et al. Activation of TIR signalling boosts pattern-triggered immunity. Nature 2021 Oct;598(7881):500-503. PMID: 34544113
  • Piekos SN, Gaddam S, Bhardwaj P, Radhakrishnan P et al. Biomedical Data Commons (BMDC) prioritizes B-lymphocyte non-coding genetic variants in Type 1 Diabetes. PLoS Comput Biol 2021 Sep;17(9):e1009382. PMID: 34543288
  • Chen HC, Chien TC, Chen TY, Chiang MH et al. Overexpression of a Novel ERF-X-Type Transcription Factor, OsERF106MZ, Reduces Shoot Growth and Tolerance to Salinity Stress in Rice. Rice (N Y) 2021 Sep 20;14(1):82. PMID: 34542722
  • Gergei I, Zheng J, Andlauer TFM, Brandenburg V et al. GWAS meta-analysis followed by Mendelian randomization revealed potential control mechanisms for circulating α-Klotho levels. Hum Mol Genet 2022 Mar 3;31(5):792-802. PMID: 34542150
  • Zhang L, Wang L, Yang H, Li C et al. Identification of potential genes related to breast cancer brain metastasis in breast cancer patients. Biosci Rep 2021 Oct 29;41(10). PMID: 34541602
  • Xiao Z, Nie K, Han T, Cheng L et al. Development and Validation of a TNF Family-Based Signature for Predicting Prognosis, Tumor Immune Characteristics, and Immunotherapy Response in Colorectal Cancer Patients. J Immunol Res 2021;2021:6439975. PMID: 34541005
  • Yan T, Zhu S, Shi Y, Xie C et al. Pan-Cancer Analysis of Atrial-Fibrillation-Related Innate Immunity Gene ANXA4. Front Cardiovasc Med 2021;8:713983. PMID: 34540918
  • Sun L, He X, Zhang T, Tao G et al. Knockdown of lnc-KCNC3-3:1 Alleviates the Development of Atherosclerosis via Downregulation of JAK1/STAT3 Signaling Pathway. Front Cardiovasc Med 2021;8:701058. PMID: 34540913
  • Xu S, Li X, Tang L, Liu Z et al. CD74 Correlated With Malignancies and Immune Microenvironment in Gliomas. Front Mol Biosci 2021;8:706949. PMID: 34540893
  • Sun Z, Mao Y, Zhang X, Lu S et al. Identification of ARHGEF38, NETO2, GOLM1, and SAPCD2 Associated With Prostate Cancer Progression by Bioinformatic Analysis and Experimental Validation. Front Cell Dev Biol 2021;9:718638. PMID: 34540835
  • Zhong H, Wang J, Zhu Y, Shen Y et al. Comprehensive Analysis of a Nine-Gene Signature Related to Tumor Microenvironment in Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:700607. PMID: 34540825
  • Ding M, Wang P, Cheng L, Cheng P et al. The gene expression patterns of neuronal cells reveal the pathogenesis of autism. Am J Transl Res 2021;13(8):8977-8987. PMID: 34540009
  • Wang S, Cheng Z, Chen X, Lu G et al. CircUBXN7 mitigates H/R-induced cell apoptosis and inflammatory response through the miR-622-MCL1 axis. Am J Transl Res 2021;13(8):8711-8727. PMID: 34539989
  • Yang J, Tong Q, Zhang Y, Yuan S et al. Overexpression of Nicotinamide N-methyltransferase mainly covers stroma of colorectal cancer and correlates with unfavorable survival by its product 1-MNA. J Cancer 2021;12(20):6170-6181. PMID: 34539890
  • Li J, Tong Y, Wang Z, Liu Y et al. A Comprehensive Multiomics Analysis Identified Ubiquilin 4 as a Promising Prognostic Biomarker of Immune-Related Therapy in Pan-Cancer. J Oncol 2021;2021:7404927. PMID: 34539785
  • Liu Y, Wang X, Bi L, Huo H et al. Identification of Differentially Expressed Circular RNAs as miRNA Sponges in Lung Adenocarcinoma. J Oncol 2021;2021:5193913. PMID: 34539783
  • Li C, Wang X, Qin R, Zhong Z et al. Identification of a Ferroptosis Gene Set That Mediates the Prognosis of Squamous Cell Carcinoma of the Head and Neck. Front Genet 2021;12:698040. PMID: 34539737
  • Schmiedel D, Hezroni H, Hamburg A, Shulman Z et al. Brg1 Supports B Cell Proliferation and Germinal Center Formation Through Enhancer Activation. Front Immunol 2021;12:705848. PMID: 34539636
  • Wu XG, Chen JJ, Zhou HL, Wu Y et al. Identification and Validation of the Signatures of Infiltrating Immune Cells in the Eutopic Endometrium Endometria of Women With Endometriosis. Front Immunol 2021;12:671201. PMID: 34539624
  • Li M, Chen J, Liu S, Sun X et al. Spermine-Related DNA Hypermethylation and Elevated Expression of Genes for Collagen Formation are Susceptible Factors for Chemotherapy-Induced Hand-Foot Syndrome in Chinese Colorectal Cancer Patients. Front Pharmacol 2021;12:746910. PMID: 34539419
  • Sun J, Wei X, You J, Yue W et al. STC1 is a Novel Biomarker Associated with Immune Characteristics and Prognosis of Bladder Cancer. Int J Gen Med 2021;14:5505-5516. PMID: 34539184
  • Nagae G, Yamamoto S, Fujita M, Fujita T et al. Genetic and epigenetic basis of hepatoblastoma diversity. Nat Commun 2021 Sep 20;12(1):5423. PMID: 34538872
  • Li K, Li Q et al. LINC00323 mediates the role of M1 macrophage polarization in diabetic nephropathy through PI3K/AKT signaling pathway. Hum Immunol 2021 Dec;82(12):960-967. PMID: 34538530
  • Lin L, Sharma A, Yu Q et al. Recent amplification of microsatellite-associated miniature inverted-repeat transposable elements in the pineapple genome. BMC Plant Biol 2021 Sep 18;21(1):424. PMID: 34537020
  • Chen X, Cao W, Zhuang Y, Chen S et al. Integrative analysis of potential biomarkers and immune cell infiltration in Parkinson's disease. Brain Res Bull 2021 Dec;177:53-63. PMID: 34536521
  • Jakobczyk H, Jiang Y, Debaize L, Soubise B et al. ETV6-RUNX1 and RUNX1 directly regulate RAG1 expression: one more step in the understanding of childhood B-cell acute lymphoblastic leukemia leukemogenesis. Leukemia 2022 Feb;36(2):549-554. PMID: 34535762
  • Kao Y, Tsai WC, Chen SH, Hsu SY et al. Shugosin 2 is a biomarker for pathological grading and survival prediction in patients with gliomas. Sci Rep 2021 Sep 17;11(1):18541. PMID: 34535705
  • Karvelsson ST, Wang Q, Hilmarsdottir B, Sigurdsson A et al. Argininosuccinate lyase is a metabolic vulnerability in breast development and cancer. NPJ Syst Biol Appl 2021 Sep 17;7(1):36. PMID: 34535676
  • Song H, Song J, Cheng M, Zheng M et al. METTL3-mediated m(6)A RNA methylation promotes the anti-tumour immunity of natural killer cells. Nat Commun 2021 Sep 17;12(1):5522. PMID: 34535671
  • Brägelmann J, Lorenz C, Borchmann S, Nishii K et al. MAPK-pathway inhibition mediates inflammatory reprogramming and sensitizes tumors to targeted activation of innate immunity sensor RIG-I. Nat Commun 2021 Sep 17;12(1):5505. PMID: 34535668
  • Crouchet E, Bandiera S, Fujiwara N, Li S et al. A human liver cell-based system modeling a clinical prognostic liver signature for therapeutic discovery. Nat Commun 2021 Sep 17;12(1):5525. PMID: 34535664
  • Ansell BRE, Thomas SN, Bonelli R, Munro JE et al. A survey of RNA editing at single-cell resolution links interneurons to schizophrenia and autism. RNA 2021 Dec;27(12):1482-1496. PMID: 34535545
  • Ragaini S, Wagner S, Marconi G, Parisi S et al. An IDO1-related immune gene signature predicts overall survival in acute myeloid leukemia. Blood Adv 2022 Jan 11;6(1):87-99. PMID: 34535017
  • Hu S, Peng L, Xu C, Wang Z et al. SPT5 stabilizes RNA polymerase II, orchestrates transcription cycles, and maintains the enhancer landscape. Mol Cell 2021 Nov 4;81(21):4425-4439.e6. PMID: 34534457
  • Zeng Z, Wong CJ, Yang L, Ouardaoui N et al. TISMO: syngeneic mouse tumor database to model tumor immunity and immunotherapy response. Nucleic Acids Res 2022 Jan 7;50(D1):D1391-D1397. PMID: 34534350
  • Jin Z, Liu L, Yu Y, Li D et al. TRIM59: A potential diagnostic and prognostic biomarker in human tumors. PLoS One 2021;16(9):e0257445. PMID: 34534244
  • Palla G, Pollner P, Börcsök J, Major A et al. Hierarchy and control of ageing-related methylation networks. PLoS Comput Biol 2021 Sep;17(9):e1009327. PMID: 34534207
  • Shen W, Wang S, Wang R, Zhang Y et al. Analysis of the polarization states of the alveolar macrophages in chronic obstructive pulmonary disease samples based on miRNA-mRNA network signatures. Ann Transl Med 2021 Aug;9(16):1333. PMID: 34532470
  • Ye G, Liu Y, Huang L, Zhang C et al. miRNA-218/FANCI is associated with metastasis and poor prognosis in lung adenocarcinoma: a bioinformatics analysis. Ann Transl Med 2021 Aug;9(16):1298. PMID: 34532435
  • Wang Q, Liu L, Cao J, Abula M et al. Weighted gene co-expression network analysis reveals that CXCL10, IRF7, MX1, RSAD2, and STAT1 are related to the chronic stage of spinal cord injury. Ann Transl Med 2021 Aug;9(15):1248. PMID: 34532385
  • Chen Z, Zhou D, Zhang X, Wu Q et al. Diagnostic biomarkers and potential drug targets for coronary artery disease as revealed by systematic analysis of lncRNA characteristics. Ann Transl Med 2021 Aug;9(15):1243. PMID: 34532380
  • Zuo J, Xu M, Wang D, Bai W et al. Role of competitive endogenous RNA networks in the pathogenesis of coronary artery disease. Ann Transl Med 2021 Aug;9(15):1234. PMID: 34532371
  • Guo JN, Xia TY, Deng SH, Xue WN et al. Prognostic Immunity and Therapeutic Sensitivity Analyses Based on Differential Genomic Instability-Associated LncRNAs in Left- and Right-Sided Colon Adenocarcinoma. Front Mol Biosci 2021;8:668888. PMID: 34532341
  • Fang Y, Yang Y, Zhang X, Li N et al. A Co-Expression Network Reveals the Potential Regulatory Mechanism of lncRNAs in Relapsed Hepatocellular Carcinoma. Front Oncol 2021;11:745166. PMID: 34532296
  • Chen S, Wu H, Zhu L, Jiang M et al. MiR-199b-5p Promotes Gastric Cancer Progression by Regulating HHIP Expression. Front Oncol 2021;11:728393. PMID: 34532291
  • Gao LF, Li W, Liu YG, Zhang C et al. Inhibition of MIR4435-2HG on Invasion, Migration, and EMT of Gastric Carcinoma Cells by Mediating MiR-138-5p/Sox4 Axis. Front Oncol 2021;11:661288. PMID: 34532282
  • Zhou W, Fang DL, He Y et al. Screening potential prognostic biomarkers for portal vein emboli in patients with hepatocellular carcinoma. J Gastrointest Oncol 2021 Aug;12(4):1927-1938. PMID: 34532139
  • Wei J, Fang DL, Zhou W, He YF et al. N6-methyladenosine (m6A) regulatory gene divides hepatocellular carcinoma into three subtypes. J Gastrointest Oncol 2021 Aug;12(4):1860-1872. PMID: 34532134
  • Tan S, Gui W, Wang S, Sun C et al. A methylation-based prognostic model predicts survival in patients with colorectal cancer. J Gastrointest Oncol 2021 Aug;12(4):1590-1600. PMID: 34532113
  • Tian J, Ma C, Yang L, Sun Y et al. Prognostic Value and Immunological Characteristics of a Novel RNA Binding Protein Signature in Cutaneous Melanoma. Front Genet 2021;12:723796. PMID: 34531901
  • Huang Y, Tu WL, Yao YQ, Cai YL et al. Construction of a Novel Gene-Based Model for Survival Prediction of Hepatitis B Virus Carriers With HCC Development. Front Genet 2021;12:720888. PMID: 34531900
  • Yang Q, Nong X, Xu J, Huang F et al. Unraveling the Genetic Basis of Fertility Restoration for Cytoplasmic Male Sterile Line WNJ01A Originated From Brassica juncea in Brassica napus. Front Plant Sci 2021;12:721980. PMID: 34531887
  • Wei B, Yu M, Yao J, Jiang M et al. Multidimensional Analyses of Tumor Immune Microenvironment Reveal the Possible Rationality of Immunotherapy and Identify High Immunotherapy Response Subtypes for Renal Papillary Cell Carcinoma. Front Immunol 2021;12:657951. PMID: 34531849
  • Pushparaj PN, Abdulkareem AA, Naseer MI et al. Identification of Novel Gene Signatures using Next-Generation Sequencing Data from COVID-19 Infection Models: Focus on Neuro-COVID and Potential Therapeutics. Front Pharmacol 2021;12:688227. PMID: 34531741
  • Long S, Peng F, Song B, Wang L et al. Heat Shock Protein Beta 1 is a Prognostic Biomarker and Correlated with Immune Infiltrates in Hepatocellular Carcinoma. Int J Gen Med 2021;14:5483-5492. PMID: 34531676
  • Bidault G, Virtue S, Petkevicius K, Jolin HE et al. SREBP1-induced fatty acid synthesis depletes macrophages antioxidant defences to promote their alternative activation. Nat Metab 2021 Sep;3(9):1150-1162. PMID: 34531575
  • Liu W, Shen J, Li Y, Wu J et al. Pyroptosis inhibition improves the symptom of acute myocardial infarction. Cell Death Dis 2021 Sep 16;12(10):852. PMID: 34531373
  • Li J, Ohmura S, Marchetto A, Orth MF et al. Therapeutic targeting of the PLK1-PRC1-axis triggers cell death in genomically silent childhood cancer. Nat Commun 2021 Sep 16;12(1):5356. PMID: 34531368
  • Wei Y, Huang YH, Skopelitis DS, Iyer SV et al. SLC5A3-Dependent Myo-inositol Auxotrophy in Acute Myeloid Leukemia. Cancer Discov 2022 Feb;12(2):450-467. PMID: 34531253
  • Herviou L, Ovejero S, Izard F, Karmous-Gadacha O et al. Targeting the methyltransferase SETD8 impairs tumor cell survival and overcomes drug resistance independently of p53 status in multiple myeloma. Clin Epigenetics 2021 Sep 16;13(1):174. PMID: 34530900
  • Liu L, Zhang J, Wu M, Xu H et al. Identification of key miRNAs and mRNAs related to coronary artery disease by meta-analysis. BMC Cardiovasc Disord 2021 Sep 16;21(1):443. PMID: 34530741
  • Zhang W, Liu Y, Min Z, Liang G et al. circMine: a comprehensive database to integrate, analyze and visualize human disease-related circRNA transcriptome. Nucleic Acids Res 2022 Jan 7;50(D1):D83-D92. PMID: 34530446
  • Tian F, Cai D et al. Overexpressed GNAZ predicts poor outcome and promotes G0/G1 cell cycle progression in hepatocellular carcinoma. Gene 2022 Jan 10;807:145964. PMID: 34530087
  • Goepp M, Crittenden S, Zhou Y, Rossi AG et al. Prostaglandin E(2) directly inhibits the conversion of inducible regulatory T cells through EP2 and EP4 receptors via antagonizing TGF-β signalling. Immunology 2021 Dec;164(4):777-791. PMID: 34529833
  • Youngs J, Provine NM, Lim N, Sharpe HR et al. Identification of immune correlates of fatal outcomes in critically ill COVID-19 patients. PLoS Pathog 2021 Sep;17(9):e1009804. PMID: 34529726
  • Trincado JL, Reixachs-Solé M, Pérez-Granado J, Fugmann T et al. ISOTOPE: ISOform-guided prediction of epiTOPEs in cancer. PLoS Comput Biol 2021 Sep;17(9):e1009411. PMID: 34529669
  • Li L, Feng G, Chen T, Zhang L et al. Circ_0000514 promotes breast cancer progression by regulating the miR-296-5p/CXCL10 axis. J Biochem 2022 Jan 7;170(6):753-761. PMID: 34528678
  • Sharma D, Sehgal P, Sivasubbu S, Scaria V et al. A genome-wide circular RNA transcriptome in rat. Biol Methods Protoc 2021;6(1):bpab016. PMID: 34527809
  • Zhang L, Wang Z, Li M, Sun P et al. HCG18 Participates in Vascular Invasion of Hepatocellular Carcinoma by Regulating Macrophages and Tumor Stem Cells. Front Cell Dev Biol 2021;9:707073. PMID: 34527669
  • Xia X, Zhang H, Xia P, Zhu Y et al. Identification of Glycolysis-Related lncRNAs and the Novel lncRNA WAC-AS1 Promotes Glycolysis and Tumor Progression in Hepatocellular Carcinoma. Front Oncol 2021;11:733595. PMID: 34527595
  • Li X, Zuo H, Zhang L, Sun Q et al. Validating HMMR Expression and Its Prognostic Significance in Lung Adenocarcinoma Based on Data Mining and Bioinformatics Methods. Front Oncol 2021;11:720302. PMID: 34527588
  • Shaw PJ, Piriyapongsa J, Kaewprommal P, Wongsombat C et al. Identifying transcript 5' capped ends in Plasmodium falciparum. PeerJ 2021;9:e11983. PMID: 34527439
  • Lin BB, Lei HQ, Xiong HY, Fu X et al. MicroRNA-regulated transcriptome analysis identifies four major subtypes with prognostic and therapeutic implications in prostate cancer. Comput Struct Biotechnol J 2021;19:4941-4953. PMID: 34527198
  • Wang W, He L, Ouyang C, Chen C et al. Key Common Genes in Obstructive Sleep Apnea and Lung Cancer are Associated with Prognosis of Lung Cancer Patients. Int J Gen Med 2021;14:5381-5396. PMID: 34526807
  • Yi X, Cheng X et al. Understanding Competitive Endogenous RNA Network Mechanism in Type 1 Diabetes Mellitus Using Computational and Bioinformatics Approaches. Diabetes Metab Syndr Obes 2021;14:3865-3945. PMID: 34526791
  • Ohira T, Nakagawa S, Takeshita J, Aburatani H et al. PITX1 inhibits the growth and proliferation of melanoma cells through regulation of SOX family genes. Sci Rep 2021 Sep 15;11(1):18405. PMID: 34526609
  • Glaser F, Hundehege P, Bulk E, Todesca LM et al. K(Ca) channel blockers increase effectiveness of the EGF receptor TK inhibitor erlotinib in non-small cell lung cancer cells (A549). Sci Rep 2021 Sep 15;11(1):18330. PMID: 34526525
  • Zhi L, Zhao L, Zhang X, Liu W et al. SLCO1B3 promotes colorectal cancer tumorigenesis and metastasis through STAT3. Aging (Albany NY) 2021 Sep 15;13(18):22164-22175. PMID: 34526411
  • Kai Y, Li BE, Zhu M, Li GY et al. Mapping the evolving landscape of super-enhancers during cell differentiation. Genome Biol 2021 Sep 15;22(1):269. PMID: 34526084
  • Chen C, Chen Z, Huang L, Zhou L et al. TNFAIP3 mutation may be associated with favorable overall survival for patients with T-cell lymphoma. Cancer Cell Int 2021 Sep 15;21(1):490. PMID: 34526012
  • Chen R, Piao LZ, Liu L, Zhang XF et al. DNA methylation and gene expression profiles to identify childhood atopic asthma associated genes. BMC Pulm Med 2021 Sep 15;21(1):292. PMID: 34525985
  • Lu YJ, Barreira-Silva P, Boyce S, Powers J et al. CD4 T cell help prevents CD8 T cell exhaustion and promotes control of Mycobacterium tuberculosis infection. Cell Rep 2021 Sep 14;36(11):109696. PMID: 34525366
  • Banerjee H, Nieves-Rosado H, Kulkarni A, Murter B et al. Expression of Tim-3 drives phenotypic and functional changes in Treg cells in secondary lymphoid organs and the tumor microenvironment. Cell Rep 2021 Sep 14;36(11):109699. PMID: 34525351
  • Chen X, Tang Y, Chen S, Ling W et al. IGFBP-2 as a biomarker in NAFLD improves hepatic steatosis: an integrated bioinformatics and experimental study. Endocr Connect 2021 Oct 13;10(10):1315-1325. PMID: 34524971
  • Bi J, Cheng C, Zheng C, Huang C et al. TIPE2 is a checkpoint of natural killer cell maturation and antitumor immunity. Sci Adv 2021 Sep 17;7(38):eabi6515. PMID: 34524845
  • Kim A, Koo JH, Jin X, Kim W et al. Ablation of USP21 in skeletal muscle promotes oxidative fibre phenotype, inhibiting obesity and type 2 diabetes. J Cachexia Sarcopenia Muscle 2021 Dec;12(6):1669-1689. PMID: 34523817
  • Liu X, Wu A, Wang X, Liu Y et al. Identification of metabolism-associated molecular subtype in ovarian cancer. J Cell Mol Med 2021 Oct;25(20):9617-9626. PMID: 34523782
  • Shan L, Hou X et al. Circular RNA hsa_circ_0026552 inhibits the proliferation, migration and invasion of trophoblast cells via the miR‑331‑3p/TGF‑βR1 axis in pre‑eclampsia. Mol Med Rep 2021 Nov;24(5). PMID: 34523694
  • Lerrer S, Tocheva AS, Bukhari S, Adam K et al. PD-1-stimulated T cell subsets are transcriptionally and functionally distinct. iScience 2021 Sep 24;24(9):103020. PMID: 34522863
  • Suzuki SR, Kuno A, Ozaki H et al. Cell-to-cell interaction analysis of prognostic ligand-receptor pairs in human pancreatic ductal adenocarcinoma. Biochem Biophys Rep 2021 Dec;28:101126. PMID: 34522794
  • Xu J, Zhang Y, Liu C, Yan P et al. Roles of the miR-139-5p/CCT5 axis in hepatocellular carcinoma: a bioinformatic analysis. Int J Med Sci 2021;18(15):3556-3564. PMID: 34522182
  • Liu C, Pan Y, Li Q, Zhang Y et al. Bioinformatics analysis identified shared differentially expressed genes as potential biomarkers for Hashimoto's thyroiditis-related papillary thyroid cancer. Int J Med Sci 2021;18(15):3478-3487. PMID: 34522174
  • Wu J, Fang X, Xia X et al. Identification of Key Genes and Pathways associated with Endometriosis by Weighted Gene Co-expression Network Analysis. Int J Med Sci 2021;18(15):3425-3436. PMID: 34522169
  • Linggi B, Jairath V, Zou G, Shackelton LM et al. Meta-analysis of gene expression disease signatures in colonic biopsy tissue from patients with ulcerative colitis. Sci Rep 2021 Sep 14;11(1):18243. PMID: 34521888
  • Wang Z, Xie L, Ding G, Song S et al. Single-cell RNA sequencing of peripheral blood mononuclear cells from acute Kawasaki disease patients. Nat Commun 2021 Sep 14;12(1):5444. PMID: 34521850
  • Sun B, Zhong FJ, Xu C, Li YM et al. Programmed cell death 10 promotes metastasis and epithelial-mesenchymal transition of hepatocellular carcinoma via PP2Ac-mediated YAP activation. Cell Death Dis 2021 Sep 14;12(9):849. PMID: 34521817
  • Burri D, Zavolan M et al. Shortening of 3' UTRs in most cell types composing tumor tissues implicates alternative polyadenylation in protein metabolism. RNA 2021 Dec;27(12):1459-1470. PMID: 34521731
  • Lari A, Pourbadie HG, Sharifi-Zarchi A, Akhtari M et al. Dysregulation of ribosome-related genes in ankylosing spondylitis: a systems biology approach and experimental method. BMC Musculoskelet Disord 2021 Sep 14;22(1):789. PMID: 34521416
  • Yu H, Wang X, Cao H et al. Construction and investigation of a circRNA-associated ceRNA regulatory network in Tetralogy of Fallot. BMC Cardiovasc Disord 2021 Sep 14;21(1):437. PMID: 34521346
  • Shainer I, Stemmer M et al. Choice of pre-processing pipeline influences clustering quality of scRNA-seq datasets. BMC Genomics 2021 Sep 14;22(1):661. PMID: 34521337
  • Cheng Y, Li F, Zhang WS, Zou GY et al. Silencing BLNK protects against interleukin-1β-induced chondrocyte injury through the NF-κB signaling pathway. Cytokine 2021 Dec;148:155686. PMID: 34521030
  • Legge D, Li L, Moriarty W, Lee D et al. The epithelial splicing regulator ESRP2 is epigenetically repressed by DNA hypermethylation in Wilms tumour and acts as a tumour suppressor. Mol Oncol 2022 Feb;16(3):630-647. PMID: 34520622
  • Wen W, Chen Z, Bao J, Long Q et al. Genetic variations of DNA bindings of FOXA1 and co-factors in breast cancer susceptibility. Nat Commun 2021 Sep 13;12(1):5318. PMID: 34518541
  • Bakhoum MF, Francis JH, Agustinus A, Earlie EM et al. Loss of polycomb repressive complex 1 activity and chromosomal instability drive uveal melanoma progression. Nat Commun 2021 Sep 13;12(1):5402. PMID: 34518527
  • Xue Y, Morris JL, Yang K, Fu Z et al. SMARCA4/2 loss inhibits chemotherapy-induced apoptosis by restricting IP3R3-mediated Ca(2+) flux to mitochondria. Nat Commun 2021 Sep 13;12(1):5404. PMID: 34518526
  • Tsai CH, Chen CJ, Gong CL, Liu SC et al. CXCL13/CXCR5 axis facilitates endothelial progenitor cell homing and angiogenesis during rheumatoid arthritis progression. Cell Death Dis 2021 Sep 13;12(9):846. PMID: 34518512
  • Zavorka Thomas ME, Lu X, Talebi Z, Jeon JY et al. Gilteritinib Inhibits Glutamine Uptake and Utilization in FLT3-ITD-Positive AML. Mol Cancer Ther 2021 Nov;20(11):2207-2217. PMID: 34518298
  • Kinoshita M, Li MA, Barber M, Mansfield W et al. Disabling de novo DNA methylation in embryonic stem cells allows an illegitimate fate trajectory. Proc Natl Acad Sci U S A 2021 Sep 21;118(38). PMID: 34518230
  • Niu W, Jiang L et al. A seven-gene prognostic model related to immune checkpoint PD-1 revealing overall survival in patients with lung adenocarcinoma. Math Biosci Eng 2021 Jul 13;18(5):6136-6154. PMID: 34517527
  • He J, Zhang W, Li F, Yu Y et al. Development of metastasis-associated seven gene signature for predicting lung adenocarcinoma prognosis using single-cell RNA sequencing data. Math Biosci Eng 2021 Jul 1;18(5):5959-5977. PMID: 34517518
  • Wang JPrognostic score model-based signature genes for predicting the prognosis of metastatic skin cutaneous melanoma. Math Biosci Eng 2021 Jun 8;18(5):5125-5145. PMID: 34517481
  • Lee S, Yu Y, Trimpert J, Benthani F et al. Virus-induced senescence is a driver and therapeutic target in COVID-19. Nature 2021 Nov;599(7884):283-289. PMID: 34517409
  • Zhang P, Sui P, Chen S, Guo Y et al. INTS11 regulates hematopoiesis by promoting PRC2 function. Sci Adv 2021 Sep 3;7(36):eabh1684. PMID: 34516911
  • Lombardo MV, Eyler L, Pramparo T, Gazestani VH et al. Atypical genomic cortical patterning in autism with poor early language outcome. Sci Adv 2021 Sep 3;7(36):eabh1663. PMID: 34516910
  • Allanki S, Strilic B, Scheinberger L, Onderwater YL et al. Interleukin-11 signaling promotes cellular reprogramming and limits fibrotic scarring during tissue regeneration. Sci Adv 2021 Sep 10;7(37):eabg6497. PMID: 34516874
  • Wang C, Yang M, Gu X, Gu Y et al. Lemur tyrosine kinase-3 (LMTK3) induces chemoresistance to cetuximab in colorectal cancer via the ERK/MAPK pathway. Bioengineered 2021 Dec;12(1):6594-6605. PMID: 34516351
  • Lu N, Ren L et al. TTK (threonine tyrosine kinase) regulates the malignant behaviors of cancer cells and is regulated by microRNA-582-5p in ovarian cancer. Bioengineered 2021 Dec;12(1):5759-5768. PMID: 34516342
  • Chen Z, Ou D, Huang Z, Shen P et al. Identification of hsa_circ_0002024 as a prognostic competing endogenous RNA (ceRNA) through the hsa_miR_129-5p/Anti-Silencing Function 1B Histone Chaperone (ASF1B) axis in renal cell carcinoma. Bioengineered 2021 Dec;12(1):6579-6593. PMID: 34516341
  • Liu C, Chen S, Zhang H, Chen Y et al. Bioinformatic analysis for potential biological processes and key targets of heart failure-related stroke. J Zhejiang Univ Sci B 2021 Sept 15;22(9):718-732. PMID: 34514752
  • Sturm G, List M, Zhang JD et al. Tissue heterogeneity is prevalent in gene expression studies. NAR Genom Bioinform 2021 Sep;3(3):lqab077. PMID: 34514392
  • Qian L, Xia Z, Zhang M, Han Q et al. Integrated Bioinformatics-Based Identification of Potential Diagnostic Biomarkers Associated with Diabetic Foot Ulcer Development. J Diabetes Res 2021;2021:5445349. PMID: 34513999
  • Zhang L, Lou D, He D, Wang Y et al. Dysregulated Circulating Apoptosis- and Autophagy-Related lncRNAs as Diagnostic Markers in Coronary Artery Disease. Biomed Res Int 2021;2021:5517786. PMID: 34513991
  • Wu Z, He L, Yang L, Fang X et al. Potential Role of NEU1 in Hepatocellular Carcinoma: A Study Based on Comprehensive Bioinformatical Analysis. Front Mol Biosci 2021;8:651525. PMID: 34513919
  • Chen Y, Xia F, Jiang B, Wang W et al. Role of Immune Cell-Specific Hypermethylation Signatures in Classification and Risk Stratification of Breast Cancer. Front Med (Lausanne) 2021;8:674338. PMID: 34513864
  • Wang T, Song J, Qu M, Gao X et al. Integrative Epigenome Map of the Normal Human Prostate Provides Insights Into Prostate Cancer Predisposition. Front Cell Dev Biol 2021;9:723676. PMID: 34513844
  • Zhao H, Chen Y, Shen P, Gong L et al. Identification of Immune Cell Infiltration Landscape and Their Prognostic Significance in Uveal Melanoma. Front Cell Dev Biol 2021;9:713569. PMID: 34513843
  • Zhang J, Ding R, Wu T, Jia J et al. Autophagy-Related Genes and Long Noncoding RNAs Signatures as Predictive Biomarkers for Osteosarcoma Survival. Front Cell Dev Biol 2021;9:705291. PMID: 34513835
  • Zhou W, Bai C, Long C, Hu L et al. Construction and Characterization of Long Non-Coding RNA-Associated Networks to Reveal Potential Prognostic Biomarkers in Human Lung Adenocarcinoma. Front Oncol 2021;11:720400. PMID: 34513699
  • Zhao Y, Zhao B, Yan WH, Xia Y et al. Integrative Analysis Identified MCT4 as an Independent Prognostic Factor for Bladder Cancer. Front Oncol 2021;11:704857. PMID: 34513685
  • Xiao L, Zhou J, Liu H, Zhou Y et al. RNA Sequence Profiling Reveals Unique Immune and Metabolic Features of Breast Cancer Brain Metastases. Front Oncol 2021;11:679262. PMID: 34513670
  • Ma J, Hu X, Dai B, Wang Q et al. Prediction of the mechanism of miRNAs in laryngeal squamous cell carcinoma based on the miRNA-mRNA regulatory network. PeerJ 2021;9:e12075. PMID: 34513340
  • Zhang Q, Huang X et al. The modulatory properties of Astragalus membranaceus treatment on endometrial cancer: an integrated pharmacological method. PeerJ 2021;9:e11995. PMID: 34513331
  • Liu Y, Cui S, Sun J, Yan X et al. Identification of Potential Biomarkers for Psoriasis by DNA Methylation and Gene Expression Datasets. Front Genet 2021;12:722803. PMID: 34512732
  • Li S, Wang H, Zhang Y, Qiao R et al. COL3A1 and MMP9 Serve as Potential Diagnostic Biomarkers of Osteoarthritis and Are Associated With Immune Cell Infiltration. Front Genet 2021;12:721258. PMID: 34512730
  • Dong B, Liang J, Li D, Song W et al. Tumor Expression Profile Analysis Developed and Validated a Prognostic Model Based on Immune-Related Genes in Bladder Cancer. Front Genet 2021;12:696912. PMID: 34512722
  • Liu Z, Lian X, Zhang X, Zhu Y et al. ESPL1 Is a Novel Prognostic Biomarker Associated With the Malignant Features of Glioma. Front Genet 2021;12:666106. PMID: 34512713
  • Han S, Zhu W, Yang W, Guan Q et al. A Prognostic Signature Constructed by CTHRC1 and LRFN4 in Stomach Adenocarcinoma. Front Genet 2021;12:646818. PMID: 34512711
  • Zhang Y, Li X, Zhou R, Lin A et al. Glycogen Metabolism Predicts the Efficacy of Immunotherapy for Urothelial Carcinoma. Front Pharmacol 2021;12:723066. PMID: 34512351
  • Jiang SL, Wang ZB, Zhu T, Jiang T et al. The Downregulation of eIF3a Contributes to Vemurafenib Resistance in Melanoma by Activating ERK via PPP2R1B. Front Pharmacol 2021;12:720619. PMID: 34512348
  • Gu W, Kim M, Wang L, Yang Z et al. Multi-omics Analysis of Ferroptosis Regulation Patterns and Characterization of Tumor Microenvironment in Patients with Oral Squamous Cell Carcinoma. Int J Biol Sci 2021;17(13):3476-3492. PMID: 34512160
  • Zhao SJ, Jia H, Xu XL, Bu WB et al. Identification of the Role of Wnt/β-Catenin Pathway Through Integrated Analyses and in vivo Experiments in Vitiligo. Clin Cosmet Investig Dermatol 2021;14:1089-1103. PMID: 34511958
  • Shi X, Gao GY, Shen J et al. Identification of microRNA Signature and Key Genes Between Adenoma and Adenocarcinomas Using Bioinformatics Analysis. Onco Targets Ther 2021;14:4707-4720. PMID: 34511938
  • Che L, Yu C, Chen G, Lin J et al. The Inflammatory Response Induced by RELMβ Upregulates IL-8 and IL-1β Expression in Bronchial Epithelial Cells in COPD. Int J Chron Obstruct Pulmon Dis 2021;16:2503-2513. PMID: 34511895
  • Kwon RJ, Park EJ, Lee SY, Lee Y et al. Expression and prognostic significance of Niemann-Pick C1-Like 1 in colorectal cancer: a retrospective cohort study. Lipids Health Dis 2021 Sep 12;20(1):104. PMID: 34511128
  • Cui DJ, Chen C, Yuan WQ, Yang YH et al. Integrative analysis of ferroptosis-related genes in ulcerative colitis. J Int Med Res 2021 Sep;49(9):3000605211042975. PMID: 34510961
  • Chen W, Desert R, Ge X, Han H et al. The Matrisome Genes From Hepatitis B-Related Hepatocellular Carcinoma Unveiled. Hepatol Commun 2021 Sep;5(9):1571-1585. PMID: 34510837
  • Luo L, Li M, Su J, Yao X et al. FURIN correlated with immune infiltration serves as a potential biomarker in SARS-CoV-2 infection-related lung adenocarcinoma. Clin Exp Med 2022 Aug;22(3):371-384. PMID: 34510311
  • Dong Y, Ma N, Fan L, Yuan L et al. GADD45β stabilized by direct interaction with HSP72 ameliorates insulin resistance and lipid accumulation. Pharmacol Res 2021 Nov;173:105879. PMID: 34508810
  • Cheroni C, Manganaro L, Donnici L, Bevilacqua V et al. Novel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology. Sci Rep 2021 Sep 10;11(1):18043. PMID: 34508139
  • Sheybani N, Bakhtiarizadeh MR, Salehi A et al. An integrated analysis of mRNAs, lncRNAs, and miRNAs based on weighted gene co-expression network analysis involved in bovine endometritis. Sci Rep 2021 Sep 10;11(1):18050. PMID: 34508138
  • Harada I, Sasaki H, Murakami K, Nishiyama A et al. Compromised anti-tumor-immune features of myeloid cell components in chronic myeloid leukemia patients. Sci Rep 2021 Sep 10;11(1):18046. PMID: 34508131
  • Pantano L, Agyapong G, Shen Y, Zhuo Z et al. Molecular characterization and cell type composition deconvolution of fibrosis in NAFLD. Sci Rep 2021 Sep 10;11(1):18045. PMID: 34508113
  • Dang F, Nie L, Zhou J, Shimizu K et al. Inhibition of CK1ε potentiates the therapeutic efficacy of CDK4/6 inhibitor in breast cancer. Nat Commun 2021 Sep 10;12(1):5386. PMID: 34508104
  • Beebe-Wang N, Celik S, Weinberger E, Sturmfels P et al. Unified AI framework to uncover deep interrelationships between gene expression and Alzheimer's disease neuropathologies. Nat Commun 2021 Sep 10;12(1):5369. PMID: 34508095
  • Koncz B, Balogh GM, Papp BT, Asztalos L et al. Self-mediated positive selection of T cells sets an obstacle to the recognition of nonself. Proc Natl Acad Sci U S A 2021 Sep 14;118(37). PMID: 34507984
  • Bao J, Zhao X, Lu J, Hu Z et al. Platelet transcriptome profiles provide potential therapeutic targets for elderly acute myelocytic leukemia patients. J Transl Med 2021 Sep 10;19(1):388. PMID: 34507566
  • Du XW, Li G, Liu J, Zhang CY et al. Comprehensive analysis of the cancer driver genes in breast cancer demonstrates their roles in cancer prognosis and tumor microenvironment. World J Surg Oncol 2021 Sep 10;19(1):273. PMID: 34507558
  • Yan Y, Liu C, Zhang J, Li W et al. SMC4 knockdown inhibits malignant biological behaviors of endometrial cancer cells by regulation of FoxO1 activity. Arch Biochem Biophys 2021 Nov 15;712:109026. PMID: 34506757
  • Lei T, Qian H, Lei P, Hu Y et al. Ferroptosis-related gene signature associates with immunity and predicts prognosis accurately in patients with osteosarcoma. Cancer Sci 2021 Nov;112(11):4785-4798. PMID: 34506683
  • Zhao Y, Hu S, Zhang J, Cai Z et al. Glucoside xylosyltransferase 2 as a diagnostic and prognostic marker in gastric cancer via comprehensive analysis. Bioengineered 2021 Dec;12(1):5641-5654. PMID: 34506251
  • Song Y, Zhang J, Wang H, Guo D et al. A novel immune-related genes signature after bariatric surgery is histologically associated with non-alcoholic fatty liver disease. Adipocyte 2021 Dec;10(1):424-434. PMID: 34506234
  • Qu H, Zhu Y et al. SMPDL3B Predicts Poor Prognosis and Contributes to Development of Acute Myeloid Leukemia. Front Mol Biosci 2021;8:695601. PMID: 34504869
  • Mariottoni P, Jiang SW, Prestwood CA, Jain V et al. Single-Cell RNA Sequencing Reveals Cellular and Transcriptional Changes Associated With M1 Macrophage Polarization in Hidradenitis Suppurativa. Front Med (Lausanne) 2021;8:665873. PMID: 34504848
  • Li Q, Huang Z, Peng Y, Wang X et al. RanBP3 Regulates Proliferation, Apoptosis and Chemosensitivity of Chronic Myeloid Leukemia Cells via Mediating SMAD2/3 and ERK1/2 Nuclear Transport. Front Oncol 2021;11:698410. PMID: 34504783
  • Weerakoon H, Straube J, Lineburg K, Cooper L et al. Expression of CD49f defines subsets of human regulatory T cells with divergent transcriptional landscape and function that correlate with ulcerative colitis disease activity. Clin Transl Immunology 2021;10(9):e1334. PMID: 34504692
  • Du Y, Yuan S, Zhuang X, Zhang Q et al. Multiomics Differences in Lung Squamous Cell Carcinoma Patients with High Radiosensitivity Index Compared with Those with Low Radiosensitivity Index. Dis Markers 2021;2021:3766659. PMID: 34504628
  • Wang Y, Cui X, Ma S, Zhang H et al. Decreased expression of miR-3135b reduces sensitivity to 5-fluorouracil in colorectal cancer by direct repression of PIM1. Exp Ther Med 2021 Oct;22(4):1151. PMID: 34504596
  • Rudnik M, Hukara A, Kocherova I, Jordan S et al. Elevated Fibronectin Levels in Profibrotic CD14(+) Monocytes and CD14(+) Macrophages in Systemic Sclerosis. Front Immunol 2021;12:642891. PMID: 34504485
  • Zhou M, Qi L, Gu Y et al. GRIA2/ENPP3 Regulates the Proliferation and Migration of Vascular Smooth Muscle Cells in the Restenosis Process Post-PTA in Lower Extremity Arteries. Front Physiol 2021;12:712400. PMID: 34504438
  • Dong C, Cesarano A, Bombaci G, Reiter JL et al. Intron retention-induced neoantigen load correlates with unfavorable prognosis in multiple myeloma. Oncogene 2021 Oct;40(42):6130-6138. PMID: 34504297
  • Marion-Poll L, Forêt B, Zielinski D, Massip F et al. Locus specific epigenetic modalities of random allelic expression imbalance. Nat Commun 2021 Sep 9;12(1):5330. PMID: 34504093
  • Lazic D, Kromp F, Rifatbegovic F, Repiscak P et al. Landscape of Bone Marrow Metastasis in Human Neuroblastoma Unraveled by Transcriptomics and Deep Multiplex Imaging. Cancers (Basel) 2021 Aug 26;13(17). PMID: 34503120
  • Wang B, Huang M, Wang X, Tseng Y et al. CBX2 Expression in Colorectal Mucosa-adenoma-adenocarcinoma Sequence. J Coll Physicians Surg Pak 2021 Sep;31(9):1051-1056. PMID: 34500520
  • Li R, Qu H, Wang S, Chater JM et al. CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer. Nucleic Acids Res 2022 Jan 7;50(D1):D1139-D1146. PMID: 34500460
  • Zhou J, Wang X, Li Z, Jiang R et al. Construction and analysis of a novel ferroptosis-related gene signature predicting prognosis in lung adenocarcinoma. FEBS Open Bio 2021 Nov;11(11):3005-3018. PMID: 34499810
  • Fan X, Moustakas I, Torrens-Juaneda V, Lei Q et al. Transcriptional progression during meiotic prophase I reveals sex-specific features and X chromosome dynamics in human fetal female germline. PLoS Genet 2021 Sep;17(9):e1009773. PMID: 34499650
  • Chen S, He Z, Peng T, Zhou F et al. PRR11 promotes ccRCC tumorigenesis by regulating E2F1 stability. JCI Insight 2021 Oct 8;6(19). PMID: 34499617
  • Zhou X, Wang N, Zhang Y, Yu H et al. KAT2B is an immune infiltration-associated biomarker predicting prognosis and response to immunotherapy in non-small cell lung cancer. Invest New Drugs 2022 Feb;40(1):43-57. PMID: 34499335
  • Borella M, Martello G, Risso D, Romualdi C et al. PsiNorm: a scalable normalization for single-cell RNA-seq data. Bioinformatics 2021 Dec 22;38(1):164-172. PMID: 34499096
  • Bremm JM, Boquett JA, Silva Michels M, Kowalski TW et al. Investigating the role of EGF-CFC gene family in recurrent pregnancy loss through bioinformatics and molecular approaches. Syst Biol Reprod Med 2021 Dec;67(6):450-462. PMID: 34498535
  • Qu X, Shi Z, Guo J, Guo C et al. Identification of a novel six-gene signature with potential prognostic and therapeutic value in cervical cancer. Cancer Med 2021 Oct;10(19):6881-6896. PMID: 34498424
  • Zou C, Huang D, Wei H, Wu S et al. Identification of Immune-Related Risk Signatures for the Prognostic Prediction in Oral Squamous Cell Carcinoma. J Immunol Res 2021;2021:6203759. PMID: 34497859
  • Zhang XZ, Zhang S, Tang TT, Cheng X et al. Bioinformatics and Immune Infiltration Analyses Reveal the Key Pathway and Immune Cells in the Pathogenesis of Hypertrophic Cardiomyopathy. Front Cardiovasc Med 2021;8:696321. PMID: 34497835
  • Lu L, Zhuang L, Shen X, Yang L et al. Glucotoxicity Activation of IL6 and IL11 and Subsequent Induction of Fibrosis May Be Involved in the Pathogenesis of Islet Dysfunction. Front Mol Biosci 2021;8:708127. PMID: 34497830
  • Meng L, Qin H, Zhao J, He S et al. Transcriptomic Signatures of Airway Epithelium Infected With SARS-CoV-2: A Balance Between Anti-infection and Virus Load. Front Cell Dev Biol 2021;9:735307. PMID: 34497809
  • Zhao W, Li X, Nian W, Wang J et al. Ribosome Proteins Represented by RPL27A Mark the Development and Metastasis of Triple-Negative Breast Cancer in Mouse and Human. Front Cell Dev Biol 2021;9:716730. PMID: 34497807
  • Shao Y, Qi W, Zhang X, Ran N et al. Plasma Metabolomic and Intestinal Microbial Analyses of Patients With Severe Aplastic Anemia. Front Cell Dev Biol 2021;9:669887. PMID: 34497802
  • Guo T, Duan H, Chen J, Liu J et al. N6-Methyladenosine Writer Gene ZC3H13 Predicts Immune Phenotype and Therapeutic Opportunities in Kidney Renal Clear Cell Carcinoma. Front Oncol 2021;11:718644. PMID: 34497769
  • Zhao QY, Liu LP, Lu L, Gui R et al. A Novel Intercellular Communication-Associated Gene Signature for Prognostic Prediction and Clinical Value in Patients With Lung Adenocarcinoma. Front Genet 2021;12:702424. PMID: 34497634
  • Fan T, Pan S, Yang S, Hao B et al. Clinical Significance and Immunologic Landscape of a Five-IL(R)-Based Signature in Lung Adenocarcinoma. Front Immunol 2021;12:693062. PMID: 34497605
  • Chang L, Yao H, Yao Z, Ho KK et al. Comprehensive Analysis of Key Genes, Signaling Pathways and miRNAs in Human Knee Osteoarthritis: Based on Bioinformatics. Front Pharmacol 2021;12:730587. PMID: 34497524
  • Fu M, Zhu Y, Zhang J, Wu W et al. MicroRNA-221-3p Suppresses the Microglia Activation and Seizures by Inhibiting of HIF-1α in Valproic Acid-Resistant Epilepsy. Front Pharmacol 2021;12:714556. PMID: 34497517
  • VanInsberghe M, van den Berg J, Andersson-Rolf A, Clevers H et al. Single-cell Ribo-seq reveals cell cycle-dependent translational pausing. Nature 2021 Sep;597(7877):561-565. PMID: 34497418
  • Zhang H, Xu R, Li B, Xin Z et al. LncRNA NEAT1 controls the lineage fates of BMSCs during skeletal aging by impairing mitochondrial function and pluripotency maintenance. Cell Death Differ 2022 Feb;29(2):351-365. PMID: 34497381
  • Singh O, Pratt D, Aldape K et al. Immune cell deconvolution of bulk DNA methylation data reveals an association with methylation class, key somatic alterations, and cell state in glial/glioneuronal tumors. Acta Neuropathol Commun 2021 Sep 8;9(1):148. PMID: 34496929
  • Bi J, Bi F, Pan X, Yang Q et al. Establishment of a novel glycolysis-related prognostic gene signature for ovarian cancer and its relationships with immune infiltration of the tumor microenvironment. J Transl Med 2021 Sep 8;19(1):382. PMID: 34496868
  • Havukainen S, Pujol-Giménez J, Valkonen M, Hediger MA et al. Functional characterization of a highly specific L-arabinose transporter from Trichoderma reesei. Microb Cell Fact 2021 Sep 8;20(1):177. PMID: 34496831
  • Ohigashi I, Takahama Y et al. Specific impact of β5t on proteasome subunit composition in cortical thymic epithelial cells. Cell Rep 2021 Sep 7;36(10):109657. PMID: 34496235
  • Li T, Wang T, Zhao X et al. Profiles of immune infiltration in abdominal aortic aneurysm and their associated marker genes: a gene expression-based study. Braz J Med Biol Res 2021;54(11):e11372. PMID: 34495251
  • Hu M, Li Z, Qiu J, Zhang R et al. CKS2 (CDC28 protein kinase regulatory subunit 2) is a prognostic biomarker in lower grade glioma: a study based on bioinformatic analysis and immunohistochemistry. Bioengineered 2021 Dec;12(1):5996-6009. PMID: 34494924
  • Kerimov N, Hayhurst JD, Peikova K, Manning JR et al. A compendium of uniformly processed human gene expression and splicing quantitative trait loci. Nat Genet 2021 Sep;53(9):1290-1299. PMID: 34493866
  • Mehra C, Chung JH, He Y, Lara-Márquez M et al. CdGAP promotes prostate cancer metastasis by regulating epithelial-to-mesenchymal transition, cell cycle progression, and apoptosis. Commun Biol 2021 Sep 7;4(1):1042. PMID: 34493786
  • Goel S, Bhatia V, Kundu S, Biswas T et al. Transcriptional network involving ERG and AR orchestrates Distal-less homeobox-1 mediated prostate cancer progression. Nat Commun 2021 Sep 7;12(1):5325. PMID: 34493733
  • Bedoya-Reina OC, Li W, Arceo M, Plescher M et al. Single-nuclei transcriptomes from human adrenal gland reveal distinct cellular identities of low and high-risk neuroblastoma tumors. Nat Commun 2021 Sep 7;12(1):5309. PMID: 34493726
  • Yu F, Wang Z, Zhang T, Chen X et al. Deficiency of intestinal Bmal1 prevents obesity induced by high-fat feeding. Nat Commun 2021 Sep 7;12(1):5323. PMID: 34493722
  • Lv B, Gao G, Guo Y, Zhang Z et al. Serglycin promotes proliferation, migration, and invasion via the JAK/STAT signaling pathway in osteosarcoma. Aging (Albany NY) 2021 Sep 7;13(17):21142-21154. PMID: 34493692
  • Narendra G, Raju B, Verma H, Silakari O et al. Identification of potential genes associated with ALDH1A1 overexpression and cyclophosphamide resistance in chronic myelogenous leukemia using network analysis. Med Oncol 2021 Sep 7;38(10):123. PMID: 34491453
  • Tabone O, Verma R, Singhania A, Chakravarty P et al. Blood transcriptomics reveal the evolution and resolution of the immune response in tuberculosis. J Exp Med 2021 Oct 4;218(10). PMID: 34491266
  • Wu C, Qi X, Qiu Z, Deng G et al. Low expression of KIF20A suppresses cell proliferation, promotes chemosensitivity and is associated with better prognosis in HCC. Aging (Albany NY) 2021 Sep 6;13(18):22148-22163. PMID: 34491228
  • Mateus A, Shah M, Hevler J, Kurzawa N et al. Transcriptional and Post-Transcriptional Polar Effects in Bacterial Gene Deletion Libraries. mSystems 2021 Oct 26;6(5):e0081321. PMID: 34491080
  • Wang Q, Wu W, Gao Z, Li K et al. GADD45B Is a Potential Diagnostic and Therapeutic Target Gene in Chemotherapy-Resistant Prostate Cancer. Front Cell Dev Biol 2021;9:716501. PMID: 34490266
  • Yan Y, Cai J, Huang Z, Cao X et al. A Novel Ferroptosis-Related Prognostic Signature Reveals Macrophage Infiltration and EMT Status in Bladder Cancer. Front Cell Dev Biol 2021;9:712230. PMID: 34490263
  • Shen X, Liu Z, Wang C, Xu F et al. Inhibition of Postn Rescues Myogenesis Defects in Myotonic Dystrophy Type 1 Myoblast Model. Front Cell Dev Biol 2021;9:710112. PMID: 34490258
  • Liu S, Zhang Y, Zhang S, Qiu L et al. Identification of Hub Genes Related to Liver Metastasis of Colorectal Cancer by Integrative Analysis. Front Oncol 2021;11:714866. PMID: 34490113
  • Hu X, Chen Q, Guo H, Li K et al. Identification of Target PTEN-Based miR-425 and miR-576 as Potential Diagnostic and Immunotherapeutic Biomarkers of Colorectal Cancer With Liver Metastasis. Front Oncol 2021;11:657984. PMID: 34490081
  • Belpaire M, Ewbank B, Taminiau A, Bridoux L et al. HOXA1 Is an Antagonist of ERα in Breast Cancer. Front Oncol 2021;11:609521. PMID: 34490074
  • Wang Y, Zhang X, Duan M, Zhang C et al. Identification of Potential Biomarkers Associated with Acute Myocardial Infarction by Weighted Gene Coexpression Network Analysis. Oxid Med Cell Longev 2021;2021:5553811. PMID: 34490057
  • Agostinis C, Zorzet S, Balduit A, Zito G et al. The Inflammatory Feed-Forward Loop Triggered by the Complement Component C3 as a Potential Target in Endometriosis. Front Immunol 2021;12:693118. PMID: 34489939
  • Zhang PP, Han Q, Sheng MX, Du CY et al. Identification of Circular RNA Expression Profiles in White Adipocytes and Their Roles in Adipogenesis. Front Physiol 2021;12:728208. PMID: 34489740
  • Xiang M, Zhang HZ, Jing XY, Wang MQ et al. Sequencing, Expression, and Functional Analyses of Four Genes Related to Fatty Acid Biosynthesis During the Diapause Process in the Female Ladybird, Coccinella septempunctata L. Front Physiol 2021;12:706032. PMID: 34489726
  • Glasgow BJTear Lipocalin and Lipocalin-Interacting Membrane Receptor. Front Physiol 2021;12:684211. PMID: 34489718
  • Ricci F, Bassi M, McGeough CM, Jellema GL et al. A Novel Processing-Free Method for RNAseq Analysis of Spontaneous Sputum in Chronic Obstructive Pulmonary Disease. Front Pharmacol 2021;12:704969. PMID: 34489698
  • Loubalova Z, Fulka H, Horvat F, Pasulka J et al. Formation of spermatogonia and fertile oocytes in golden hamsters requires piRNAs. Nat Cell Biol 2021 Sep;23(9):992-1001. PMID: 34489573
  • Shah N, Hallur PM, Ganesh RA, Sonpatki P et al. Gelatin methacrylate hydrogels culture model for glioblastoma cells enriches for mesenchymal-like state and models interactions with immune cells. Sci Rep 2021 Sep 6;11(1):17727. PMID: 34489494
  • Shi J, Xu J, Chen YE, Li JS et al. The concurrence of DNA methylation and demethylation is associated with transcription regulation. Nat Commun 2021 Sep 6;12(1):5285. PMID: 34489442
  • Peng Y, Li S, Onufriev A, Landsman D et al. Binding of regulatory proteins to nucleosomes is modulated by dynamic histone tails. Nat Commun 2021 Sep 6;12(1):5280. PMID: 34489435
  • Cui M, Atmanli A, Morales MG, Tan W et al. Nrf1 promotes heart regeneration and repair by regulating proteostasis and redox balance. Nat Commun 2021 Sep 6;12(1):5270. PMID: 34489413
  • Zhao Y, Cai H, Zhang Z, Tang J et al. Learning interpretable cellular and gene signature embeddings from single-cell transcriptomic data. Nat Commun 2021 Sep 6;12(1):5261. PMID: 34489404
  • Lause J, Berens P, Kobak D et al. Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data. Genome Biol 2021 Sep 6;22(1):258. PMID: 34488842
  • Li R, Pang XF, Huang ZG, Yang LH et al. Overexpression of UBE2C in esophageal squamous cell carcinoma tissues and molecular analysis. BMC Cancer 2021 Sep 6;21(1):996. PMID: 34488675
  • Wang B, Gong S, Shao W, Han L et al. Comprehensive analysis of pivotal biomarkers, immune cell infiltration and therapeutic drugs for steroid-induced osteonecrosis of the femoral head. Bioengineered 2021 Dec;12(1):5971-5984. PMID: 34488536
  • Fang X, Zeng X, Wang M, Qin L et al. Enrichment analysis of differentially expressed genes in chronic heart failure. Ann Palliat Med 2021 Aug;10(8):9049-9056. PMID: 34488391
  • Chhabra NF, Amend AL, Bastidas-Ponce A, Sabrautzki S et al. A point mutation in the Pdia6 gene results in loss of pancreatic β-cell identity causing overt diabetes. Mol Metab 2021 Dec;54:101334. PMID: 34487921
  • Rawlings TM, Makwana K, Taylor DM, Molè MA et al. Modelling the impact of decidual senescence on embryo implantation in human endometrial assembloids. Elife 2021 Sep 6;10. PMID: 34487490
  • Lei L, Bai YH, Jiang HY, He T et al. A bioinformatics analysis of the contribution of m6A methylation to the occurrence of diabetes mellitus. Endocr Connect 2021 Oct 4;10(10):1253-1265. PMID: 34486983
  • Friedman RZ, Granas DM, Myers CA, Corbo JC et al. Information content differentiates enhancers from silencers in mouse photoreceptors. Elife 2021 Sep 6;10. PMID: 34486522
  • de Winde CM, George SL, Crosas-Molist E, Hari-Gupta Y et al. Podoplanin drives dedifferentiation and amoeboid invasion of melanoma. iScience 2021 Sep 24;24(9):102976. PMID: 34485858
  • Chen Y, Liu M, Jin H, Peng B et al. Synthetic Evaluation of MicroRNA-1-3p Expression in Head and Neck Squamous Cell Carcinoma Based on Microarray Chips and MicroRNA Sequencing. Biomed Res Int 2021;2021:6529255. PMID: 34485523
  • Leal K, Saavedra K, Rebolledo C, Salazar LA et al. MicroRNAs hsa-miR-618 and hsa-miR-297 Might Modulate the Pleiotropic Effects Exerted by Statins in Endothelial Cells Through the Inhibition of ROCK2 Kinase: in-silico Approach. Front Cardiovasc Med 2021;8:704175. PMID: 34485404
  • Chen Y, Wei X, Zhang Z, He Y et al. Downregulation of Filamin a Expression in the Aorta Is Correlated With Aortic Dissection. Front Cardiovasc Med 2021;8:690846. PMID: 34485398
  • Li Y, Qin J et al. A Two-Gene-Based Diagnostic Signature for Ruptured Intracranial Aneurysms. Front Cardiovasc Med 2021;8:671655. PMID: 34485395
  • Zhang Y, Gao Q, Wu Y, Peng Y et al. Hypermethylation and Downregulation of UTP6 Are Associated With Stemness Properties, Chemoradiotherapy Resistance, and Prognosis in Rectal Cancer: A Co-expression Network Analysis. Front Cell Dev Biol 2021;9:607782. PMID: 34485268
  • Xue K, Zheng H, Qian X, Chen Z et al. Identification of Key mRNAs as Prediction Models for Early Metastasis of Pancreatic Cancer Based on LASSO. Front Bioeng Biotechnol 2021;9:701039. PMID: 34485257
  • Yang F, Zhao J, Luo X, Li T et al. Transcriptome Profiling Reveals B-Lineage Cells Contribute to the Poor Prognosis and Metastasis of Clear Cell Renal Cell Carcinoma. Front Oncol 2021;11:731896. PMID: 34485161
  • Zhang X, Fu Y, Ding Z, Zhu N et al. Functional Heterogeneity of Reelin in the Oral Squamous Cell Carcinoma Microenvironment. Front Oncol 2021;11:692390. PMID: 34485127
  • Zhang Y, Wang H, Xu X, Liu H et al. Poor Prognosis and Therapeutic Responses in LILRB1-Expressing M2 Macrophages-Enriched Gastric Cancer Patients. Front Oncol 2021;11:668707. PMID: 34485116
  • Lu Y, Zhou X, Zhao W, Liao Z et al. Epigenetic Inactivation of Acetyl-CoA Acetyltransferase 1 Promotes the Proliferation and Metastasis in Nasopharyngeal Carcinoma by Blocking Ketogenesis. Front Oncol 2021;11:667673. PMID: 34485115
  • Shan MJ, Meng LB, Guo P, Zhang YM et al. Screening and Identification of Key Biomarkers of Gastric Cancer: Three Genes Jointly Predict Gastric Cancer. Front Oncol 2021;11:591893. PMID: 34485109
  • Manian M, Sohrabi E, Eskandari N, Assarehzadegan MA et al. An Integrated Bioinformatics Analysis of the Potential Regulatory Effects of miR-21 on T-cell Related Target Genes in Multiple Sclerosis. Avicenna J Med Biotechnol 2021 Jul-Sep;13(3):149-165. PMID: 34484645
  • Zou Z, Liu R, Liang Y, Zhou R et al. Identification and Validation of a PPP1R12A-Related Five-Gene Signature Associated With Metabolism to Predict the Prognosis of Patients With Prostate Cancer. Front Genet 2021;12:703210. PMID: 34484299
  • Ge S, Hua X, Chen J, Xiao H et al. Identification of a Costimulatory Molecule-Related Signature for Predicting Prognostic Risk in Prostate Cancer. Front Genet 2021;12:666300. PMID: 34484286
  • Liu Z, Tang Q, Qi T, Othmane B et al. A Robust Hypoxia Risk Score Predicts the Clinical Outcomes and Tumor Microenvironment Immune Characters in Bladder Cancer. Front Immunol 2021;12:725223. PMID: 34484235
  • Chen L, Wang Z, Xu T, Ge H et al. The Role of graRS in Regulating Virulence and Antimicrobial Resistance in Methicillin-Resistant Staphylococcus aureus. Front Microbiol 2021;12:727104. PMID: 34484169
  • Cheng Y, Cao X, Zhang J, Chen D et al. Dysregulated lncRNAs are Involved in the Progress of Sepsis by Constructing Regulatory Networks in Whole Blood Cells. Front Pharmacol 2021;12:678256. PMID: 34483898
  • Sun Y, Wang J, Han B, Meng K et al. Elucidating the Molecular Mechanism of Ischemic Stroke Using Integrated Analysis of miRNA, mRNA, and lncRNA Expression Profiles. Front Integr Neurosci 2021;15:638114. PMID: 34483854
  • Xie Y, Liu Z, Zhu H et al. Knockdown of hsa_circ_0091994 constrains gastric cancer progression by suppressing the miR-324-5p/HMGA1 axis. Aging (Albany NY) 2021 Aug 24;13(16):20598-20608. PMID: 34483139
  • Shi K, Zhu X, Wu J, Chen Y et al. Centromere protein E as a novel biomarker and potential therapeutic target for retinoblastoma. Bioengineered 2021 Dec;12(1):5950-5970. PMID: 34482803
  • Li Z, Wang J, Ji Y, Song F et al. Expression Characteristics and Clinical Correlations of BRD1 in Colorectal Cancer Samples. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211039678. PMID: 34482774
  • Ye Y, Ma J, Zhang Q, Xiong K et al. A CTL/M2 macrophage-related four-gene signature predicting metastasis-free survival in triple-negative breast cancer treated with adjuvant radiotherapy. Breast Cancer Res Treat 2021 Nov;190(2):329-341. PMID: 34482483
  • Xia J, Zhang J, Wang L, Liu H et al. Non-apoptotic function of caspase-8 confers prostate cancer enzalutamide resistance via NF-κB activation. Cell Death Dis 2021 Sep 4;12(9):833. PMID: 34482382
  • Xie M, Fu XG, Jiang K et al. Notch1/TAZ axis promotes aerobic glycolysis and immune escape in lung cancer. Cell Death Dis 2021 Sep 4;12(9):832. PMID: 34482375
  • Xiong TW, Liu B, Wu Q, Xu YY et al. Beneficial effects of Dendrobium nobile Lindl. Alkaloids (DNLA) on anxiety and depression induced by chronic unpredictable stress in rats. Brain Res 2021 Nov 15;1771:147647. PMID: 34481787
  • Li W, Zhang Y, Wang Y, Rong Z et al. Candidate gene prioritization for chronic obstructive pulmonary disease using expression information in protein-protein interaction networks. BMC Pulm Med 2021 Sep 4;21(1):280. PMID: 34481483
  • Tseng PY, Hoon MA et al. Specific β-Defensins Stimulate Pruritus through Activation of Sensory Neurons. J Invest Dermatol 2022 Mar;142(3 Pt A):594-602. PMID: 34480893
  • Qi F, Qin W, Zhang Y, Luo Y et al. Sulfarotene, a synthetic retinoid, overcomes stemness and sorafenib resistance of hepatocellular carcinoma via suppressing SOS2-RAS pathway. J Exp Clin Cancer Res 2021 Sep 4;40(1):280. PMID: 34479623
  • Wang X, Zheng J et al. Velo-Predictor: an ensemble learning pipeline for RNA velocity prediction. BMC Bioinformatics 2021 Sep 3;22(Suppl 10):419. PMID: 34479487
  • Hasan MZ, Islam S, Matsumoto K, Kawai T et al. Meta-analysis of single-cell RNA-seq data reveals phenotypic switching of immune cells in severe COVID-19 patients. Comput Biol Med 2021 Oct;137:104792. PMID: 34478921
  • Li L, Li L, Hu L, Li T et al. Long non‑coding RNA HAND2‑AS1/miR‑106a/PTEN axis re‑sensitizes cisplatin‑resistant ovarian cells to cisplatin treatment. Mol Med Rep 2021 Nov;24(5). PMID: 34476500
  • Su F, Duan J, Zhu J, Fu H et al. Long non‑coding RNA nuclear paraspeckle assembly transcript 1 regulates ionizing radiation‑induced pyroptosis via microRNA‑448/gasdermin E in colorectal cancer cells. Int J Oncol 2021 Oct;59(4). PMID: 34476497
  • Wan H, Huang X, Cong P, He M et al. Identification of Hub Genes and Pathways Associated With Idiopathic Pulmonary Fibrosis via Bioinformatics Analysis. Front Mol Biosci 2021;8:711239. PMID: 34476240
  • Sun Z, Qin X, Fang J, Tang Y et al. Multi-Omics Analysis of the Expression and Prognosis for FKBP Gene Family in Renal Cancer. Front Oncol 2021;11:697534. PMID: 34476212
  • Chen S, Gong Y, Shen Y, Liu Y et al. INHBA is a novel mediator regulating cellular senescence and immune evasion in colorectal cancer. J Cancer 2021;12(19):5938-5949. PMID: 34476008
  • Zhang C, Shen B, Chen X, Gao S et al. Identification of a prognostic 4-mRNA signature in laryngeal squamous cell carcinoma. J Cancer 2021;12(19):5807-5816. PMID: 34475994
  • Chen L, Lu D, Yu K, He S et al. Bioinformatics Analysis for Identification of Key Genes in Salivary Gland and the Potential of a Combination of Biomarkers for the Diagnosis of SS. J Inflamm Res 2021;14:4143-4153. PMID: 34475773
  • Qin YF, Li GM, Wang G, Kong DJ et al. Identification of Hub Gene TIMP1 and Relative ceRNAs Regulatory Network in Colorectal Cancer. Ther Clin Risk Manag 2021;17:889-901. PMID: 34475758
  • Ayaz G, Turan G, Olgun ÇE, Kars G et al. A prelude to the proximity interaction mapping of CXXC5. Sci Rep 2021 Sep 2;11(1):17587. PMID: 34475492
  • Liu Y, Zhang P, Wu Q, Fang H et al. Long non-coding RNA NR2F1-AS1 induces breast cancer lung metastatic dormancy by regulating NR2F1 and ΔNp63. Nat Commun 2021 Sep 2;12(1):5232. PMID: 34475402
  • Mahmood SR, Xie X, Hosny El Said N, Venit T et al. β-actin dependent chromatin remodeling mediates compartment level changes in 3D genome architecture. Nat Commun 2021 Sep 2;12(1):5240. PMID: 34475390
  • Zhao Z, Xu Q, Wei R, Wang W et al. Cancer-associated dynamics and potential regulators of intronic polyadenylation revealed by IPAFinder using standard RNA-seq data. Genome Res 2021 Nov;31(11):2095-2106. PMID: 34475268
  • Wang X, Li H, Zhang A, Zhang Y et al. Diversity among differentially expressed genes in atrial appendages of atrial fibrillation: The role and mechanism of SPP1 in atrial fibrosis. Int J Biochem Cell Biol 2021 Dec;141:106074. PMID: 34474184
  • Foss EJ, Sripathy S, Gatbonton-Schwager T, Kwak H et al. Chromosomal Mcm2-7 distribution and the genome replication program in species from yeast to humans. PLoS Genet 2021 Sep;17(9):e1009714. PMID: 34473702
  • González-Ramírez M, Ballaré C, Mugianesi F, Beringer M et al. Differential contribution to gene expression prediction of histone modifications at enhancers or promoters. PLoS Comput Biol 2021 Sep;17(9):e1009368. PMID: 34473698
  • Ruan H, Wang Z, Zhai Y, Xu Y et al. Single-cell transcriptome analysis of diffuse large B cells in cerebrospinal fluid of central nervous system lymphoma. iScience 2021 Sep 24;24(9):102972. PMID: 34471864
  • Chen K, Zhang L, Qu Z, Wan F et al. Uncovering the Mechanisms and Molecular Targets of Weibing Formula 1 against Gastritis: Coupling Network Pharmacology with GEO Database. Biomed Res Int 2021;2021:5533946. PMID: 34471638
  • Zhang H, Luo YB, Wu W, Zhang L et al. The molecular feature of macrophages in tumor immune microenvironment of glioma patients. Comput Struct Biotechnol J 2021;19:4603-4618. PMID: 34471502
  • Carracedo-Reboredo P, Liñares-Blanco J, Rodríguez-Fernández N, Cedrón F et al. A review on machine learning approaches and trends in drug discovery. Comput Struct Biotechnol J 2021;19:4538-4558. PMID: 34471498
  • Jain Y, Chandradoss KR, A V A, Bhattacharya J et al. Convergent evolution of a genomic rearrangement may explain cancer resistance in hystrico- and sciuromorpha rodents. NPJ Aging Mech Dis 2021 Sep 1;7(1):20. PMID: 34471123
  • Danese A, Richter ML, Chaichoompu K, Fischer DS et al. EpiScanpy: integrated single-cell epigenomic analysis. Nat Commun 2021 Sep 1;12(1):5228. PMID: 34471111
  • Moosavi SH, Eide PW, Eilertsen IA, Brunsell TH et al. De novo transcriptomic subtyping of colorectal cancer liver metastases in the context of tumor heterogeneity. Genome Med 2021 Sep 1;13(1):143. PMID: 34470666
  • Pastore B, Hertz HL, Price IF, Tang W et al. pre-piRNA trimming and 2'-O-methylation protect piRNAs from 3' tailing and degradation in C. elegans. Cell Rep 2021 Aug 31;36(9):109640. PMID: 34469728
  • Kim SP, Srivatsan SN, Chavez M, Shirai CL et al. Mutant U2AF1-induced alternative splicing of H2afy (macroH2A1) regulates B-lymphopoiesis in mice. Cell Rep 2021 Aug 31;36(9):109626. PMID: 34469727
  • Brooks JF, Tan C, Mueller JL, Hibiya K et al. Negative feedback by NUR77/Nr4a1 restrains B cell clonal dominance during early T-dependent immune responses. Cell Rep 2021 Aug 31;36(9):109645. PMID: 34469720
  • Rothi MH, Tsuzuki M, Sethuraman S, Wierzbicki AT et al. Reinforcement of transcriptional silencing by a positive feedback between DNA methylation and non-coding transcription. Nucleic Acids Res 2021 Sep 27;49(17):9799-9808. PMID: 34469565
  • Kavakiotis I, Alexiou A, Tastsoglou S, Vlachos IS et al. DIANA-miTED: a microRNA tissue expression database. Nucleic Acids Res 2022 Jan 7;50(D1):D1055-D1061. PMID: 34469540
  • Pan LJ, Chen JL, Wu ZX, Wu YM et al. Exportin-T: A Novel Prognostic Predictor and Potential Therapeutic Target for Neuroblastoma. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211039132. PMID: 34469238
  • Dai B, Hackney JA, Ichikawa R, Nguyen A et al. Dual targeting of lymphocyte homing and retention through α4β7 and αEβ7 inhibition in inflammatory bowel disease. Cell Rep Med 2021 Aug 17;2(8):100381. PMID: 34467254
  • Pozo K, Kollipara RK, Kelenis DP, Rodarte KE et al. ASCL1, NKX2-1, and PROX1 co-regulate subtype-specific genes in small-cell lung cancer. iScience 2021 Sep 24;24(9):102953. PMID: 34466783
  • Rostami-Nejad M, Vafaee R, Ehsani-Ardakani MJ, Aghamohammadi N et al. The Screening of Critical Related Genes in Celiac Disease Based on Intraepithelial Lymphocytes Investigation: A Bioinformatics Analysis. Galen Med J 2019;8:e1407. PMID: 34466507
  • Zamanian Azodi M, Rezaei Tavirani M, Rezaei Tavirani M et al. Identification of the Key Genes of Autism Spectrum Disorder Through Protein-Protein Interaction Network. Galen Med J 2019;8:e1367. PMID: 34466502
  • Zamanian Azodi M, Rezaei Tavirani M, Rostami-Nejad M, Rezaei-Tavirani M et al. Comparative Bioinformatics Characteristic of Bladder Cancer Stage 2 from Stage 4 Expression Profile: A Network-Based Study. Galen Med J 2018;7:e1279. PMID: 34466446
  • Zamanian Azodi M, Rezaei Tavirani M, Rezaei Tavirani M, Rostami-Nejad M et al. Structural and Functional Analysis of Crucial Protein Complex in Basal Cell Skin Carcinoma via Network Construction. Galen Med J 2018;7:e1271. PMID: 34466445
  • Li X, Zhang S, Zhang Y, Liu P et al. Myoblast differentiation of C2C12 cell may related with oxidative stress. Intractable Rare Dis Res 2021 Aug;10(3):173-178. PMID: 34466339
  • Noor F, Saleem MH, Aslam MF, Ahmad A et al. Construction of miRNA-mRNA network for the identification of key biological markers and their associated pathways in IgA nephropathy by employing the integrated bioinformatics analysis. Saudi J Biol Sci 2021 Sep;28(9):4938-4945. PMID: 34466069
  • Wu K, Feng J, Lyu F, Xing F et al. Exosomal miR-19a and IBSP cooperate to induce osteolytic bone metastasis of estrogen receptor-positive breast cancer. Nat Commun 2021 Aug 31;12(1):5196. PMID: 34465793
  • Thibodeau A, Eroglu A, McGinnis CS, Lawlor N et al. AMULET: a novel read count-based method for effective multiplet detection from single nucleus ATAC-seq data. Genome Biol 2021 Sep 1;22(1):252. PMID: 34465366
  • Liao G, Jiang Z, Yang Y, Zhang C et al. Combined homologous recombination repair deficiency and immune activation analysis for predicting intensified responses of anthracycline, cyclophosphamide and taxane chemotherapy in triple-negative breast cancer. BMC Med 2021 Sep 1;19(1):190. PMID: 34465315
  • Kitamura S, Yamaguchi K, Murakami R, Furutake Y et al. PDK2 leads to cisplatin resistance through suppression of mitochondrial function in ovarian clear cell carcinoma. Cancer Sci 2021 Nov;112(11):4627-4640. PMID: 34464482
  • Liu K, Sun Q et al. Intragenic tRNA-promoted R-loops orchestrate transcription interference for plant oxidative stress responses. Plant Cell 2021 Nov 4;33(11):3574-3591. PMID: 34463741
  • La Rocca G, King B, Shui B, Li X et al. Inducible and reversible inhibition of miRNA-mediated gene repression in vivo. Elife 2021 Aug 31;10. PMID: 34463618
  • Tindle C, Fuller M, Fonseca A, Taheri S et al. Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19. Elife 2021 Aug 13;10. PMID: 34463615
  • Zheng W, D'Aiuto L, Demers MJ, Muralidaran V et al. Insights into bioinformatic approaches for repurposing compounds as anti-viral drugs. Antivir Chem Chemother 2021 Jan-Dec;29:20402066211036822. PMID: 34463534
  • Osnato A, Brown S, Krueger C, Andrews S et al. TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells. Elife 2021 Aug 31;10. PMID: 34463252
  • Cao F, Wang C, Long D, Deng Y et al. Network-Based Integrated Analysis of Transcriptomic Studies in Dissecting Gene Signatures for LPS-Induced Acute Lung Injury. Inflammation 2021 Dec;44(6):2486-2498. PMID: 34462829
  • Lotfollahi M, Naghipourfar M, Luecken MD, Khajavi M et al. Mapping single-cell data to reference atlases by transfer learning. Nat Biotechnol 2022 Jan;40(1):121-130. PMID: 34462589
  • Fain JS, Loriot A, Diacofotaki A, Van Tongelen A et al. Transcriptional overlap links DNA hypomethylation with DNA hypermethylation at adjacent promoters in cancer. Sci Rep 2021 Aug 30;11(1):17346. PMID: 34462486
  • Sato K, Nishiyama K, Taguchi K, Jiromaru R et al. Genetic and transcriptomic analyses in a rare case of human papillomavirus-related oropharyngeal squamous-cell carcinoma combined with small-cell carcinoma. Cold Spring Harb Mol Case Stud 2021 Oct;7(5). PMID: 34462366
  • Liu J, Rebecca VW, Kossenkov AV, Connelly T et al. Neural Crest-Like Stem Cell Transcriptome Analysis Identifies LPAR1 in Melanoma Progression and Therapy Resistance. Cancer Res 2021 Oct 15;81(20):5230-5241. PMID: 34462276
  • Yue P, Zhang H, Tong X, Peng T et al. Genome-wide identification and expression profiling of thes MAPK, MAPKK, and MAPKKK gene families in Ophiocordyceps sinensis. Gene 2022 Jan 10;807:145930. PMID: 34461151
  • Zhang Z, Liu X, Li L, Yang Y et al. SNP rs4971059 predisposes to breast carcinogenesis and chemoresistance via TRIM46-mediated HDAC1 degradation. EMBO J 2021 Oct 1;40(19):e107974. PMID: 34459501
  • Vafaee R, Tavirani MR, Tavirani SR, Razzaghi M et al. Assessment of cancer prevention effect of exercise. Hum Antibodies 2022;30(1):31-36. PMID: 34459390
  • Mukherjee S, Detroja R, Balamurali D, Matveishina E et al. Computational analysis of sense-antisense chimeric transcripts reveals their potential regulatory features and the landscape of expression in human cells. NAR Genom Bioinform 2021 Sep;3(3):lqab074. PMID: 34458728
  • Naik HC, Hari K, Chandel D, Mandal S et al. Semicoordinated allelic-bursting shape dynamic random monoallelic expression in pregastrulation embryos. iScience 2021 Sep 24;24(9):102954. PMID: 34458702
  • Schaafsma E, Jiang C, Cheng C et al. B cell infiltration is highly associated with prognosis and an immune-infiltrated tumor microenvironment in neuroblastoma. J Cancer Metastasis Treat 2021;7(34). PMID: 34458583
  • Zhuang L, Mao Y, Liu Z, Li C et al. FABP3 Deficiency Exacerbates Metabolic Derangement in Cardiac Hypertrophy and Heart Failure via PPARα Pathway. Front Cardiovasc Med 2021;8:722908. PMID: 34458345
  • Li H, Li T, Wang H, He X et al. Diabetes Promotes Retinal Vascular Endothelial Cell Injury by Inducing CCN1 Expression. Front Cardiovasc Med 2021;8:689318. PMID: 34458333
  • Yang R, Wang Z, Li J, Pi X et al. The Identification of the Metabolism Subtypes of Skin Cutaneous Melanoma Associated With the Tumor Microenvironment and the Immunotherapy. Front Cell Dev Biol 2021;9:707677. PMID: 34458265
  • Tillie RJHA, De Bruijn J, Perales-Patón J, Temmerman L et al. Partial Inhibition of the 6-Phosphofructo-2-Kinase/Fructose-2,6-Bisphosphatase-3 (PFKFB3) Enzyme in Myeloid Cells Does Not Affect Atherosclerosis. Front Cell Dev Biol 2021;9:695684. PMID: 34458258
  • Huang X, Glessner JT, Huang J, Zhou D et al. Discovery of Novel Host Molecular Factors Underlying HBV/HCV Infection. Front Cell Dev Biol 2021;9:690882. PMID: 34458256
  • Hong Q, Li B, Cai X, Lv Z et al. Transcriptomic Analyses of the Adenoma-Carcinoma Sequence Identify Hallmarks Associated With the Onset of Colorectal Cancer. Front Oncol 2021;11:704531. PMID: 34458146
  • Zhu J, Patra BG, Yaseen A et al. Recommender system of scholarly papers using public datasets. AMIA Jt Summits Transl Sci Proc 2021;2021:672-679. PMID: 34457183
  • Diwadkar AR, Yoon S, Shim J, Gonzalez M et al. Integrating Biomedical Informatics Training into Existing High School Curricula. AMIA Jt Summits Transl Sci Proc 2021;2021:190-199. PMID: 34457133
  • Wu JY, Qin J, Li L, Zhang KD et al. Roles of the Immune/Methylation/Autophagy Landscape on Single-Cell Genotypes and Stroke Risk in Breast Cancer Microenvironment. Oxid Med Cell Longev 2021;2021:5633514. PMID: 34457116
  • Xu XL, Liu H, Zhang Y, Zhang SX et al. SPP1 and FN1 are significant gene biomarkers of tongue squamous cell carcinoma. Oncol Lett 2021 Oct;22(4):713. PMID: 34457068
  • Shen Z, Chen M, Luo F, Xu H et al. Identification of Key Genes and Pathways Associated With Paclitaxel Resistance in Esophageal Squamous Cell Carcinoma Based on Bioinformatics Analysis. Front Genet 2021;12:671639. PMID: 34456964
  • Lin P, Gao RZ, Wen R, He Y et al. DNA Damage Repair Profiles Alteration Characterize a Hepatocellular Carcinoma Subtype With Unique Molecular and Clinicopathologic Features. Front Immunol 2021;12:715460. PMID: 34456923
  • Chen Z, Na H, Wu A et al. ImmuCellDB: An Indicative Database of Immune Cell Composition From Different Tissues and Disease Conditions in Mouse and Human. Front Immunol 2021;12:670070. PMID: 34456903
  • Maude H, Lau W, Maniatis N, Andrew T et al. New Insights Into Mitochondrial Dysfunction at Disease Susceptibility Loci in the Development of Type 2 Diabetes. Front Endocrinol (Lausanne) 2021;12:694893. PMID: 34456865
  • Jin X, Yin J, Zhu H, Li W et al. SMG9 Serves as an Oncogene to Promote the Tumor Progression via EMT and Wnt/β-Catenin Signaling Pathway in Hepatocellular Carcinoma. Front Pharmacol 2021;12:701454. PMID: 34456727
  • Hao M, Zan J et al. The Identification of Childhood Asthma Progression-Related lncRNAs and mRNAs Suitable as Biomarkers Using Weighted Gene Coexpression Network Analysis. Genet Res (Camb) 2021;2021:5511507. PMID: 34456632
  • Moradpoor R, Zali H, Gharebaghian A, Akbari ME et al. Identification of CCNB2 as A Potential Non-Invasive Breast Cancer Biomarker in Peripheral Blood Mononuclear Cells Using The Systems Biology Approach. Cell J 2021 Sep;23(4):406-413. PMID: 34455715
  • Hernández DC, Juelke K, Müller NC, Durek P et al. An in vitro platform supports generation of human innate lymphoid cells from CD34(+) hematopoietic progenitors that recapitulate ex vivo identity. Immunity 2021 Oct 12;54(10):2417-2432.e5. PMID: 34453879
  • Su Q, Liu Z, Chen C, Gao H et al. Gene signatures predict biochemical recurrence-free survival in primary prostate cancer patients after radical therapy. Cancer Med 2021 Sep;10(18):6492-6502. PMID: 34453418
  • Hou P, Lin Y, Li Z, Lu R et al. Autophagy receptor CCDC50 tunes the STING-mediated interferon response in viral infections and autoimmune diseases. Cell Mol Immunol 2021 Oct;18(10):2358-2371. PMID: 34453126
  • Liu P, Sun H, Zhou X, Wang Q et al. CXCL12/CXCR4 axis as a key mediator in atrial fibrillation via bioinformatics analysis and functional identification. Cell Death Dis 2021 Aug 27;12(9):813. PMID: 34453039
  • Zhang C, Li J, Guo Y, Wang R et al. Ese-3 Inhibits the Proliferation, Migration, and Invasion of HaCaT Cells by Downregulating PSIP1 and NUCKS1. Ann Clin Lab Sci 2021 Jul;51(4):470-486. PMID: 34452885
  • Huang Y, Sanguinetti G et al. BRIE2: computational identification of splicing phenotypes from single-cell transcriptomic experiments. Genome Biol 2021 Aug 27;22(1):251. PMID: 34452629
  • Sierra B, Magalhães AC, Soares D, Cavadas B et al. Multi-Tissue Transcriptomic-Informed In Silico Investigation of Drugs for the Treatment of Dengue Fever Disease. Viruses 2021 Aug 4;13(8). PMID: 34452405
  • Gao Y, Zhang E, Fei X, Kong L et al. Identification of Novel Metabolism-Associated Subtypes for Pancreatic Cancer to Establish an Eighteen-Gene Risk Prediction Model. Front Cell Dev Biol 2021;9:691161. PMID: 34447748
  • Aili A, Wen J, Xue L, Wang J et al. Mutational Analysis of PBRM1 and Significance of PBRM1 Mutation in Anti-PD-1 Immunotherapy of Clear Cell Renal Cell Carcinoma. Front Oncol 2021;11:712765. PMID: 34447697
  • Luo C, Zhou X, Wang L, Zeng Q et al. Screening and identification of NOTCH1, CDKN2A, and NOS3 as differentially expressed autophagy-related genes in erectile dysfunction. PeerJ 2021;9:e11986. PMID: 34447638
  • Huang L, Lin L, Fu X, Meng C et al. Development and validation of a novel survival model for acute myeloid leukemia based on autophagy-related genes. PeerJ 2021;9:e11968. PMID: 34447636
  • Charab W, Rosenberger MG, Shivram H, Mirazee JM et al. IgG Immune Complexes Inhibit Naïve T Cell Proliferation and Suppress Effector Function in Cytotoxic T Cells. Front Immunol 2021;12:713704. PMID: 34447380
  • Giovannoni F, Li Z, Remes-Lenicov F, Dávola ME et al. AHR signaling is induced by infection with coronaviruses. Nat Commun 2021 Aug 26;12(1):5148. PMID: 34446714
  • Sarma A, Christenson SA, Byrne A, Mick E et al. Tracheal aspirate RNA sequencing identifies distinct immunological features of COVID-19 ARDS. Nat Commun 2021 Aug 26;12(1):5152. PMID: 34446707
  • Lewis-Israeli YR, Wasserman AH, Gabalski MA, Volmert BD et al. Self-assembling human heart organoids for the modeling of cardiac development and congenital heart disease. Nat Commun 2021 Aug 26;12(1):5142. PMID: 34446706
  • Bothe M, Buschow R, Meijsing SH et al. Glucocorticoid signaling induces transcriptional memory and universally reversible chromatin changes. Life Sci Alliance 2021 Oct;4(10). PMID: 34446533
  • Oh J, Lee HH, Jeong Y, Yoon S et al. Paradoxical Pro-angiogenic Effect of Low-Dose Ellipticine Identified by In Silico Drug Repurposing. Int J Mol Sci 2021 Aug 23;22(16). PMID: 34445773
  • Li G, Luan C, Dong Y, Xie Y et al. ExpressHeart: Web Portal to Visualize Transcriptome Profiles of Non-Cardiomyocyte Cells. Int J Mol Sci 2021 Aug 19;22(16). PMID: 34445647
  • Vaganova AN, Murtazina RZ, Shemyakova TS, Prjibelski AD et al. Pattern of TAAR5 Expression in the Human Brain Based on Transcriptome Datasets Analysis. Int J Mol Sci 2021 Aug 16;22(16). PMID: 34445502
  • Benoot T, Piccioni E, De Ridder K, Goyvaerts C et al. TNFα and Immune Checkpoint Inhibition: Friend or Foe for Lung Cancer? Int J Mol Sci 2021 Aug 13;22(16). PMID: 34445397
  • Yang H, Ma Z, Peng L, Kuhn C et al. Comparison of Histone H3K4me3 between IVF and ICSI Technologies and between Boy and Girl Offspring. Int J Mol Sci 2021 Aug 9;22(16). PMID: 34445278
  • Bonilla DA, Moreno Y, Rawson ES, Forero DA et al. A Convergent Functional Genomics Analysis to Identify Biological Regulators Mediating Effects of Creatine Supplementation. Nutrients 2021 Jul 23;13(8). PMID: 34444681
  • Zhou X, Li J, Tang N, Xie H et al. Genome-Wide Analysis of Nutrient Signaling Pathways Conserved in Arbuscular Mycorrhizal Fungi. Microorganisms 2021 Jul 22;9(8). PMID: 34442636
  • Seok J, Gil M, Dayem AA, Saha SK et al. Multi-Omics Analysis of SOX4, SOX11, and SOX12 Expression and the Associated Pathways in Human Cancers. J Pers Med 2021 Aug 23;11(8). PMID: 34442467
  • Meehan J, Gray M, Martínez-Pérez C, Kay C et al. A Novel Approach for the Discovery of Biomarkers of Radiotherapy Response in Breast Cancer. J Pers Med 2021 Aug 14;11(8). PMID: 34442440
  • He YD, Wohlford EM, Uhle F, Buturovic L et al. The Optimization and Biological Significance of a 29-Host-Immune-mRNA Panel for the Diagnosis of Acute Infections and Sepsis. J Pers Med 2021 Jul 28;11(8). PMID: 34442377
  • Derakhshani A, Asadzadeh Z, Safarpour H, Leone P et al. Regulation of CTLA-4 and PD-L1 Expression in Relapsing-Remitting Multiple Sclerosis Patients after Treatment with Fingolimod, IFNβ-1α, Glatiramer Acetate, and Dimethyl Fumarate Drugs. J Pers Med 2021 Jul 27;11(8). PMID: 34442365
  • Karami H, Derakhshani A, Ghasemigol M, Fereidouni M et al. Weighted Gene Co-Expression Network Analysis Combined with Machine Learning Validation to Identify Key Modules and Hub Genes Associated with SARS-CoV-2 Infection. J Clin Med 2021 Aug 13;10(16). PMID: 34441862
  • Roy N, Kshattry M, Mandal S, Jolly MK et al. An Integrative Systems Biology Approach Identifies Molecular Signatures Associated with Gallbladder Cancer Pathogenesis. J Clin Med 2021 Aug 10;10(16). PMID: 34441816
  • Das S, Rai SN et al. Statistical Approach of Gene Set Analysis with Quantitative Trait Loci for Crop Gene Expression Studies. Entropy (Basel) 2021 Jul 23;23(8). PMID: 34441085
  • Chen Y, Shen J, Kasmani MY, Topchyan P et al. Single-Cell Transcriptomics Reveals Core Regulatory Programs That Determine the Heterogeneity of Circulating and Tissue-Resident Memory CD8(+) T Cells. Cells 2021 Aug 20;10(8). PMID: 34440912
  • Yergöz F, Friebel J, Kränkel N, Rauch-Kroehnert U et al. Adenine Nucleotide Translocase 1 Expression Modulates the Immune Response in Ischemic Hearts. Cells 2021 Aug 19;10(8). PMID: 34440901
  • Arora S, Singh P, Ahmad S, Ahmad T et al. Comprehensive Integrative Analysis Reveals the Association of KLF4 with Macrophage Infiltration and Polarization in Lung Cancer Microenvironment. Cells 2021 Aug 14;10(8). PMID: 34440860
  • Martin-Inaraja M, Ferreira M, Taelman J, Eguizabal C et al. Improving In Vitro Culture of Human Male Fetal Germ Cells. Cells 2021 Aug 9;10(8). PMID: 34440801
  • Mukherjee S, Kar A, Khatun N, Datta P et al. Familiarity Breeds Strategy: In Silico Untangling of the Molecular Complexity on Course of Autoimmune Liver Disease-to-Hepatocellular Carcinoma Transition Predicts Novel Transcriptional Signatures. Cells 2021 Jul 29;10(8). PMID: 34440687
  • Cussonneau L, Boyer C, Brun C, Deval C et al. Concurrent BMP Signaling Maintenance and TGF-β Signaling Inhibition Is a Hallmark of Natural Resistance to Muscle Atrophy in the Hibernating Bear. Cells 2021 Jul 23;10(8). PMID: 34440643
  • Lin GW, Lai YC, Liang YC, Widelitz RB et al. Regional Specific Differentiation of Integumentary Organs: Regulation of Gene Clusters within the Avian Epidermal Differentiation Complex and Impacts of SATB2 Overexpression. Genes (Basel) 2021 Aug 23;12(8). PMID: 34440465
  • Verma P, Waterbury CKM, Duncan EM et al. Set1 Targets Genes with Essential Identity and Tumor-Suppressing Functions in Planarian Stem Cells. Genes (Basel) 2021 Jul 29;12(8). PMID: 34440355
  • Sekino Y, Pham QT, Kobatake K, Kitano H et al. HOXB5 Overexpression Is Associated with Neuroendocrine Differentiation and Poor Prognosis in Prostate Cancer. Biomedicines 2021 Jul 26;9(8). PMID: 34440097
  • Singh P, Rai A, Verma AK, Alsahli MA et al. Survival-Based Biomarker Module Identification Associated with Oral Squamous Cell Carcinoma (OSCC). Biology (Basel) 2021 Aug 8;10(8). PMID: 34439992
  • Huang SSY, Toufiq M, Saraiva LR, Van Panhuys N et al. Transcriptome and Literature Mining Highlight the Differential Expression of ERLIN1 in Immune Cells during Sepsis. Biology (Basel) 2021 Aug 5;10(8). PMID: 34439987
  • Baltoumas FA, Zafeiropoulou S, Karatzas E, Koutrouli M et al. Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review. Biomolecules 2021 Aug 20;11(8). PMID: 34439912
  • Yeager R, Bushkin GG, Singer E, Fu R et al. Post-Transcriptional Control of Mating-Type Gene Expression during Gametogenesis in Saccharomyces cerevisiae. Biomolecules 2021 Aug 17;11(8). PMID: 34439889
  • Duitman J, Hartl L, Roelofs JJTH, Bijlsma MF et al. Non-Tumor CCAAT/Enhancer-Binding Protein Delta Potentiates Tumor Cell Extravasation and Pancreatic Cancer Metastasis Formation. Biomolecules 2021 Jul 22;11(8). PMID: 34439745
  • Tsai JC, Saad OA, Magesh S, Xu J et al. Tobacco Smoke and Electronic Cigarette Vapor Alter Enhancer RNA Expression That Can Regulate the Pathogenesis of Lung Squamous Cell Carcinoma. Cancers (Basel) 2021 Aug 23;13(16). PMID: 34439379
  • Souri Z, Jochemsen AG, Wierenga APA, Kroes WGM et al. Expression of HDACs 1, 3 and 8 Is Upregulated in the Presence of Infiltrating Lymphocytes in Uveal Melanoma. Cancers (Basel) 2021 Aug 18;13(16). PMID: 34439300
  • Zolotovskaia M, Tkachev V, Sorokin M, Garazha A et al. Algorithmically Deduced FREM2 Molecular Pathway Is a Potent Grade and Survival Biomarker of Human Gliomas. Cancers (Basel) 2021 Aug 16;13(16). PMID: 34439271
  • Yonekura S, Ueda K et al. EVI2B Is a New Prognostic Biomarker in Metastatic Melanoma with IFNgamma Associated Immune Infiltration. Cancers (Basel) 2021 Aug 15;13(16). PMID: 34439264
  • Messa L, Celegato M, Bertagnin C, Mercorelli B et al. The Dimeric Form of HPV16 E6 Is Crucial to Drive YAP/TAZ Upregulation through the Targeting of hScrib. Cancers (Basel) 2021 Aug 13;13(16). PMID: 34439242
  • Souri Z, Wierenga APA, Kiliç E, Brosens E et al. MiRNAs Correlate with HLA Expression in Uveal Melanoma: Both Up- and Downregulation Are Related to Monosomy 3. Cancers (Basel) 2021 Aug 10;13(16). PMID: 34439175
  • Kang H, Choi MC, Kim S, Jeong JY et al. USP19 and RPL23 as Candidate Prognostic Markers for Advanced-Stage High-Grade Serous Ovarian Carcinoma. Cancers (Basel) 2021 Aug 6;13(16). PMID: 34439131
  • Bamodu OA, Wang YH, Ho CH, Hu SW et al. Genetic Suppressor Element 1 (GSE1) Promotes the Oncogenic and Recurrent Phenotypes of Castration-Resistant Prostate Cancer by Targeting Tumor-Associated Calcium Signal Transducer 2 (TACSTD2). Cancers (Basel) 2021 Aug 5;13(16). PMID: 34439112
  • Quayle LA, Spicer A, Ottewell PD, Holen I et al. Transcriptomic Profiling Reveals Novel Candidate Genes and Signalling Programs in Breast Cancer Quiescence and Dormancy. Cancers (Basel) 2021 Aug 4;13(16). PMID: 34439077
  • Toral KJ, Wuenschel MA, Black EP et al. Genomic data from NSCLC tumors reveals correlation between SHP-2 activity and PD-L1 expression and suggests synergy in combining SHP-2 and PD-1/PD-L1 inhibitors. PLoS One 2021;16(8):e0256416. PMID: 34437586
  • Etxebeste OTranscription Factors in the Fungus Aspergillus nidulans: Markers of Genetic Innovation, Network Rewiring and Conflict between Genomics and Transcriptomics. J Fungi (Basel) 2021 Jul 25;7(8). PMID: 34436139
  • Hoang CV, Bhaskar CK, Ma LS et al. A Novel Core Effector Vp1 Promotes Fungal Colonization and Virulence of Ustilago maydis. J Fungi (Basel) 2021 Jul 23;7(8). PMID: 34436129
  • Bergen V, Soldatov RA, Kharchenko PV, Theis FJ et al. RNA velocity-current challenges and future perspectives. Mol Syst Biol 2021 Aug;17(8):e10282. PMID: 34435732
  • Liu S, Yang J, Sun G, Zhang Y et al. RUNX1 Upregulates CENPE to Promote Leukemic Cell Proliferation. Front Mol Biosci 2021;8:692880. PMID: 34434964
  • Hu Y, Pan Q, Wang M, Ai X et al. m(6)A RNA Methylation Regulator YTHDF1 Correlated With Immune Microenvironment Predicts Clinical Outcomes and Therapeutic Efficacy in Breast Cancer. Front Med (Lausanne) 2021;8:667543. PMID: 34434939
  • Aye L, Song X, Yang J, Hu L et al. Identification of a Costimulatory Molecule Gene Signature to Predict Survival and Immunotherapy Response in Head and Neck Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:695533. PMID: 34434928
  • Cui X, Wang Q, Zhou J, Wang Y et al. Single-Cell Transcriptomics of Glioblastoma Reveals a Unique Tumor Microenvironment and Potential Immunotherapeutic Target Against Tumor-Associated Macrophage. Front Oncol 2021;11:710695. PMID: 34434898
  • Cai J, Li C, Li H, Wang X et al. Establishment of a ferroptosis-related gene signature for prognosis in lung adenocarcinoma patients. PeerJ 2021;9:e11931. PMID: 34434660
  • Liu Z, Xu L, Lin Y, Hong H et al. Identification of Biomarkers Related to Prognosis of Bladder Transitional Cell Carcinoma. Front Genet 2021;12:682237. PMID: 34434217
  • Li H, Wang J, Zhang L et al. Construction of a circRNA-Related Prognostic Risk Score Model for Predicting the Immune Landscape of Lung Adenocarcinoma. Front Genet 2021;12:668311. PMID: 34434213
  • Janelle V, Neault M, Lebel MÈ, De Sousa DM et al. p16(INK4a) Regulates Cellular Senescence in PD-1-Expressing Human T Cells. Front Immunol 2021;12:698565. PMID: 34434190
  • Basso PJ, Sales-Campos H, Nardini V, Duarte-Silva M et al. Peroxisome Proliferator-Activated Receptor Alpha Mediates the Beneficial Effects of Atorvastatin in Experimental Colitis. Front Immunol 2021;12:618365. PMID: 34434187
  • Cao P, Yang A, Li P, Xia X et al. Genomic gain of RRS1 promotes hepatocellular carcinoma through reducing the RPL11-MDM2-p53 signaling. Sci Adv 2021 Aug;7(35). PMID: 34433556
  • Liu T, Yang M, Xia Y, Jiang C et al. Microarray-based analysis of renal complement components reveals a therapeutic target for lupus nephritis. Arthritis Res Ther 2021 Aug 25;23(1):223. PMID: 34433493
  • Zhang Z, Liu ZP et al. Robust biomarker discovery for hepatocellular carcinoma from high-throughput data by multiple feature selection methods. BMC Med Genomics 2021 Aug 25;14(Suppl 1):112. PMID: 34433487
  • Ge X, Frank-Bertoncelj M, Klein K, McGovern A et al. Functional genomics atlas of synovial fibroblasts defining rheumatoid arthritis heritability. Genome Biol 2021 Aug 25;22(1):247. PMID: 34433485
  • Bukhari SAC, Pawar S, Mandell J, Kleinstein SH et al. LinkedImm: a linked data graph database for integrating immunological data. BMC Bioinformatics 2021 Aug 25;22(Suppl 9):105. PMID: 34433410
  • Wu H, Ning Y, Yu Q, Luo S et al. Identification of Key Molecules in Recurrent Miscarriage Based on Bioinformatics Analysis. Comb Chem High Throughput Screen 2022;25(10):1745-1755. PMID: 34433394
  • Feng H, Sun SZ, Cheng F, Zhang NQ et al. Mediation of circ_RPPH1 on miR-146b-3p/E2F2 pathway to hinder the growth and metastasis of breast carcinoma cells. Aging (Albany NY) 2021 Aug 25;13(16):20552-20568. PMID: 34433131
  • Schwartz GW, Zhou Y, Petrovic J, Pear WS et al. TooManyPeaks identifies drug-resistant-specific regulatory elements from single-cell leukemic epigenomes. Cell Rep 2021 Aug 24;36(8):109575. PMID: 34433064
  • Gupta B, Errington AC, Jimenez-Pascual A, Eftychidis V et al. The transcription factor ZEB1 regulates stem cell self-renewal and cell fate in the adult hippocampus. Cell Rep 2021 Aug 24;36(8):109588. PMID: 34433050
  • Javeed N, Her TK, Brown MR, Vanderboom P et al. Pro-inflammatory β cell small extracellular vesicles induce β cell failure through activation of the CXCL10/CXCR3 axis in diabetes. Cell Rep 2021 Aug 24;36(8):109613. PMID: 34433033
  • Siolas D, Vucic E, Kurz E, Hajdu C et al. Gain-of-function p53(R172H) mutation drives accumulation of neutrophils in pancreatic tumors, promoting resistance to immunotherapy. Cell Rep 2021 Aug 24;36(8):109578. PMID: 34433022
  • Manoochehri H, Jalali A, Tanzadehpanah H, Taherkhani A et al. Identification of Key Gene Targets for Sensitizing Colorectal Cancer to Chemoradiation: an Integrative Network Analysis on Multiple Transcriptomics Data. J Gastrointest Cancer 2022 Sep;53(3):649-668. PMID: 34432208
  • Brown JM, Bentsen MA, Rausch DM, Phan BA et al. Role of hypothalamic MAPK/ERK signaling and central action of FGF1 in diabetes remission. iScience 2021 Sep 24;24(9):102944. PMID: 34430821
  • Chen Z, Kong H, Cai Z, Chen K et al. Identification of MAP3K15 as a potential prognostic biomarker and correlation with immune infiltrates in osteosarcoma. Ann Transl Med 2021 Jul;9(14):1179. PMID: 34430620
  • Luo X, Xiang T, Huang H, Ye L et al. Identification of significant immune-related genes for epilepsy via bioinformatics analysis. Ann Transl Med 2021 Jul;9(14):1161. PMID: 34430602
  • Chen H, Cheng S, Xiong W, Tan X et al. The lncRNA-miRNA-mRNA ceRNA network in mural granulosa cells of patients with polycystic ovary syndrome: an analysis of Gene Expression Omnibus data. Ann Transl Med 2021 Jul;9(14):1156. PMID: 34430597
  • Liu T, Huang J, Xu D, Li Y et al. Identifying a possible new target for diagnosis and treatment of postmenopausal osteoporosis through bioinformatics and clinical sample analysis. Ann Transl Med 2021 Jul;9(14):1154. PMID: 34430595
  • Han P, Yue J, Kong K, Hu S et al. Signature identification of relapse-related overall survival of early lung adenocarcinoma after radical surgery. PeerJ 2021;9:e11923. PMID: 34430085
  • Lim G, Lim CJ, Lee JH, Lee BH et al. Identification of new target proteins of a Urotensin-II receptor antagonist using transcriptome-based drug repositioning approach. Sci Rep 2021 Aug 24;11(1):17138. PMID: 34429474
  • Zhang M, Wang J, Zhang K, Lu G et al. Ten-eleven translocation 1 mediated-DNA hydroxymethylation is required for myelination and remyelination in the mouse brain. Nat Commun 2021 Aug 24;12(1):5091. PMID: 34429415
  • Chun KHDiscovery of Cellular RhoA Functions by the Integrated Application of Gene Set Enrichment Analysis. Biomol Ther (Seoul) 2022 Jan 1;30(1):98-116. PMID: 34429388
  • Gong Y, Yang J, Li X, Zhou C et al. A systematic dissection of human primary osteoblasts in vivo at single-cell resolution. Aging (Albany NY) 2021 Aug 24;13(16):20629-20650. PMID: 34428745
  • Dahl H, Eide DM, Tengs T, Duale N et al. Perturbed transcriptional profiles after chronic low dose rate radiation in mice. PLoS One 2021;16(8):e0256667. PMID: 34428250
  • Shrestha S, Saunders DC, Walker JT, Camunas-Soler J et al. Combinatorial transcription factor profiles predict mature and functional human islet α and β cells. JCI Insight 2021 Sep 22;6(18). PMID: 34428183
  • Zhang B, Hu X, Li Y, Ni Y et al. Identification of methylation markers for diagnosis of autism spectrum disorder. Metab Brain Dis 2022 Jan;37(1):219-228. PMID: 34427843
  • Luo W, Lin Z, Chen J, Chen G et al. TMEM182 interacts with integrin beta 1 and regulates myoblast differentiation and muscle regeneration. J Cachexia Sarcopenia Muscle 2021 Dec;12(6):1704-1723. PMID: 34427057
  • Hu H, Zhang W, Zhi T, Li J et al. Genotypic Characteristics of Hepatoblastoma as Detected by Next Generation Sequencing and Their Correlation With Clinical Efficacy. Front Oncol 2021;11:628531. PMID: 34426785
  • Li L, Huang J, Zhao Z, Wen Z et al. Decreased Spp1 Expression in Acute Myocardial Infarction after Ischemia and Reperfusion Injury. Cardiol Res Pract 2021;2021:3925136. PMID: 34426769
  • Wang Z, Du Y et al. Identification of a novel mutation gene signature HAMP for cholangiocarcinoma through comprehensive TCGA and GEO data mining. Int Immunopharmacol 2021 Oct;99:108039. PMID: 34426102
  • Chen W, Weng Z, Xie Z, Xie Y et al. Sequencing of methylase-accessible regions in integral circular extrachromosomal DNA reveals differences in chromatin structure. Epigenetics Chromatin 2021 Aug 23;14(1):40. PMID: 34425889
  • Kasela S, Daniloski Z, Bollepalli S, Jordan TX et al. Integrative approach identifies SLC6A20 and CXCR6 as putative causal genes for the COVID-19 GWAS signal in the 3p21.31 locus. Genome Biol 2021 Aug 23;22(1):242. PMID: 34425859
  • Lai X, Chen J et al. C-X-C motif chemokine ligand 12: a potential therapeutic target in Duchenne muscular dystrophy. Bioengineered 2021 Dec;12(1):5428-5439. PMID: 34424816
  • Yang B, Wang T, Li N, Zhang W et al. The High Expression of RRM2 Can Predict the Malignant Transformation of Endometriosis. Adv Ther 2021 Oct;38(10):5178-5190. PMID: 34424503
  • Kim MY, Cooper ML, Jacobs MT, Ritchey JK et al. CD7-deleted hematopoietic stem cells can restore immunity after CAR T cell therapy. JCI Insight 2021 Aug 23;6(16). PMID: 34423790
  • Williams JB, Cao Q, Yan Z et al. Transcriptomic analysis of human brains with Alzheimer's disease reveals the altered expression of synaptic genes linked to cognitive deficits. Brain Commun 2021;3(3):fcab123. PMID: 34423299
  • Shahjaman M, Rezanur Rahman M, Rabiul Auwul M et al. A network-based systems biology approach for identification of shared Gene signatures between male and female in COVID-19 datasets. Inform Med Unlocked 2021;25:100702. PMID: 34423108
  • Feng F, Zhao Z, Zhou Y, Cheng Y et al. CUX1 Facilitates the Development of Oncogenic Properties Via Activating Wnt/β-Catenin Signaling Pathway in Glioma. Front Mol Biosci 2021;8:705008. PMID: 34422906
  • Zimu Z, Jia Z, Xian F, Rui M et al. Decreased Expression of PACSIN1 in Brain Glioma Samples Predicts Poor Prognosis. Front Mol Biosci 2021;8:696072. PMID: 34422904
  • Huan C, Xu W, Liu Y, Ruan K et al. Gremlin2 Activates Fibroblasts to Promote Pulmonary Fibrosis Through the Bone Morphogenic Protein Pathway. Front Mol Biosci 2021;8:683267. PMID: 34422900
  • Helle E, Ampuja M, Dainis A, Antola L et al. HiPS-Endothelial Cells Acquire Cardiac Endothelial Phenotype in Co-culture With hiPS-Cardiomyocytes. Front Cell Dev Biol 2021;9:715093. PMID: 34422835
  • Liu X, Shang X, Li J, Zhang S et al. The Prognosis and Immune Checkpoint Blockade Efficacy Prediction of Tumor-Infiltrating Immune Cells in Lung Cancer. Front Cell Dev Biol 2021;9:707143. PMID: 34422829
  • Zhu J, Zhao L, Hu Y, Cui G et al. Hypoxia-Inducible Factor 2-Alpha Mediated Gene Sets Differentiate Pulmonary Arterial Hypertension. Front Cell Dev Biol 2021;9:701247. PMID: 34422822
  • Chen Y, Lei J, He S et al. m(6)A Modification Mediates Mucosal Immune Microenvironment and Therapeutic Response in Inflammatory Bowel Disease. Front Cell Dev Biol 2021;9:692160. PMID: 34422815
  • Liang Y, Wang M, Liu Y, Wang C et al. Meta-Analysis-Assisted Detection of Gravity-Sensitive Genes in Human Vascular Endothelial Cells. Front Cell Dev Biol 2021;9:689662. PMID: 34422812
  • Chen T, Tian L, Chen J, Zhao X et al. A Comprehensive Genomic Analysis Constructs miRNA-mRNA Interaction Network in Hepatoblastoma. Front Cell Dev Biol 2021;9:655703. PMID: 34422793
  • Soares-Lima SC, Gonzaga IM, Camuzi D, Nicolau-Neto P et al. IL6 and BCL3 Expression Are Potential Biomarkers in Esophageal Squamous Cell Carcinoma. Front Oncol 2021;11:722417. PMID: 34422669
  • Abbas HA, Mohanty V, Wang R, Huang Y et al. Decoupling Lineage-Associated Genes in Acute Myeloid Leukemia Reveals Inflammatory and Metabolic Signatures Associated With Outcomes. Front Oncol 2021;11:705627. PMID: 34422660
  • Yang L, Li C, Qin Y, Zhang G et al. A Novel Prognostic Model Based on Ferroptosis-Related Gene Signature for Bladder Cancer. Front Oncol 2021;11:686044. PMID: 34422642
  • Yang J, Li X, Wei S, Peng L et al. Evaluation of the Diagnostic Potential of a Plasma Exosomal miRNAs Panel for Gastric Cancer. Front Oncol 2021;11:683465. PMID: 34422636
  • Zhang T, Yuan K, Wang Y, Xu M et al. Identification of Candidate Biomarkers and Prognostic Analysis in Colorectal Cancer Liver Metastases. Front Oncol 2021;11:652354. PMID: 34422629
  • Wu J, Deng T, Huang Y, Cheng H et al. Basic Pan-Cancer Analysis of the Carcinogenic Effects of Cyclin-Dependent Kinase 4 (CDK4) in Human Surface Tumors. J Healthc Eng 2021;2021:8493572. PMID: 34422248
  • Zhang F, Maswikiti EP, Wei Y, Wu W et al. Construction and Validation of a Novel Prognostic Signature for Intestinal Type of Gastric Cancer. Dis Markers 2021;2021:5567392. PMID: 34422135
  • You S, Xu J, Wu B, Wu S et al. Comprehensive Bioinformatics Analysis Identifies POLR2I as a Key Gene in the Pathogenesis of Hypertensive Nephropathy. Front Genet 2021;12:698570. PMID: 34422001
  • Dong Y, Shang T, Ji H, Zhou X et al. Identification of Distinct Molecular Patterns and a Four-Gene Signature in Colon Cancer Based on Invasion-Related Genes. Front Genet 2021;12:685371. PMID: 34421995
  • Peng Y, Peng C, Fang Z, Chen G et al. Bioinformatics Analysis Identifies Molecular Markers Regulating Development and Progression of Endometriosis and Potential Therapeutic Drugs. Front Genet 2021;12:622683. PMID: 34421979
  • Mizuguchi S, Gotoh K, Nakashima Y, Setoyama D et al. Mitochondrial Reactive Oxygen Species Are Essential for the Development of Psoriatic Inflammation. Front Immunol 2021;12:714897. PMID: 34421919
  • Korinfskaya S, Parameswaran S, Weirauch MT, Barski A et al. Runx Transcription Factors in T Cells-What Is Beyond Thymic Development? Front Immunol 2021;12:701924. PMID: 34421907
  • Domaszewska T, Zyla J, Otto R, Kaufmann SHE et al. Gene Set Enrichment Analysis Reveals Individual Variability in Host Responses in Tuberculosis Patients. Front Immunol 2021;12:694680. PMID: 34421903
  • Jiang S, Zhang Y, Zhang X, Lu B et al. GARP Correlates With Tumor-Infiltrating T-Cells and Predicts the Outcome of Gastric Cancer. Front Immunol 2021;12:660397. PMID: 34421887
  • Zhao Z, Fu Q, Hu L, Liu Y et al. Identification of the Crucial Gene in Overflow Arteriovenous Fistula by Bioinformatics Analysis. Front Physiol 2021;12:621830. PMID: 34421628
  • Gäbel G, Northoff BH, Balboa A, Becirovic-Agic M et al. Parallel Murine and Human Aortic Wall Genomics Reveals Metabolic Reprogramming as Key Driver of Abdominal Aortic Aneurysm Progression. J Am Heart Assoc 2021 Sep 7;10(17):e020231. PMID: 34420357
  • Yue T, Sun F, Wang F, Yang C et al. MBD2 acts as a repressor to maintain the homeostasis of the Th1 program in type 1 diabetes by regulating the STAT1-IFN-γ axis. Cell Death Differ 2022 Jan;29(1):218-229. PMID: 34420035
  • Xing Q, Liu S, Luan J, Wang Y et al. A novel 13 RNA binding proteins (RBPs) signature could predict prostate cancer biochemical recurrence. Pathol Res Pract 2021 Sep;225:153587. PMID: 34419719
  • Jiang L, Chen Y, Min G, Wang J et al. Bcl2-associated athanogene 4 promotes the invasion and metastasis of gastric cancer cells by activating the PI3K/AKT/NF-κB/ZEB1 axis. Cancer Lett 2021 Nov 1;520:409-421. PMID: 34419501
  • Li J, Zhang X, Yang M, Yang H et al. DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A(2) in human vulnerable atherosclerotic plaque. Clin Epigenetics 2021 Aug 21;13(1):161. PMID: 34419168
  • Di Persio S, Leitão E, Wöste M, Tekath T et al. Whole-genome methylation analysis of testicular germ cells from cryptozoospermic men points to recurrent and functionally relevant DNA methylation changes. Clin Epigenetics 2021 Aug 21;13(1):160. PMID: 34419158
  • Park HH, Kim HR, Park SY, Hwang SM et al. RIPK3 activation induces TRIM28 derepression in cancer cells and enhances the anti-tumor microenvironment. Mol Cancer 2021 Aug 21;20(1):107. PMID: 34419074
  • Rong Z, Shi S, Tan Z, Xu J et al. Circular RNA CircEYA3 induces energy production to promote pancreatic ductal adenocarcinoma progression through the miR-1294/c-Myc axis. Mol Cancer 2021 Aug 21;20(1):106. PMID: 34419070
  • Yang X, Wei W, Tan S, Guo L et al. Identification and verification of HCAR3 and INSL5 as new potential therapeutic targets of colorectal cancer. World J Surg Oncol 2021 Aug 21;19(1):248. PMID: 34419055
  • Dai YH, Wang YF, Shen PC, Lo CH et al. Gene-associated methylation status of ST14 as a predictor of survival and hormone receptor positivity in breast Cancer. BMC Cancer 2021 Aug 21;21(1):945. PMID: 34418985
  • Wu M, Ma L, Xue L, Zhu Q et al. Co-expression of the SARS-CoV-2 entry molecules ACE2 and TMPRSS2 in human ovaries: Identification of cell types and trends with age. Genomics 2021 Nov;113(6):3449-3460. PMID: 34418496
  • Song S, He X, Wang J, Wang R et al. ELF3-AS1 contributes to gastric cancer progression by binding to hnRNPK and induces thrombocytosis in peripheral blood. Cancer Sci 2021 Nov;112(11):4553-4569. PMID: 34418240
  • Levy JJ, Chen Y, Azizgolshani N, Petersen CL et al. MethylSPWNet and MethylCapsNet: Biologically Motivated Organization of DNAm Neural Networks, Inspired by Capsule Networks. NPJ Syst Biol Appl 2021 Aug 20;7(1):33. PMID: 34417465
  • Mathios D, Johansen JS, Cristiano S, Medina JE et al. Detection and characterization of lung cancer using cell-free DNA fragmentomes. Nat Commun 2021 Aug 20;12(1):5060. PMID: 34417454
  • Lim WF, Forouhan M, Roberts TC, Dabney J et al. Gene therapy with AR isoform 2 rescues spinal and bulbar muscular atrophy phenotype by modulating AR transcriptional activity. Sci Adv 2021 Aug;7(34). PMID: 34417184
  • Wang Y, Wang S, Che Y, Chen D et al. Exploring new targets for the treatment of hepatitis-B virus and hepatitis-B virus-associated hepatocellular carcinoma: A new perspective in bioinformatics. Medicine (Baltimore) 2021 Aug 20;100(33):e26917. PMID: 34414947
  • Zhong W, Wang D, Yao B, Chen X et al. Integrative analysis of prognostic long non-coding RNAs with copy number variation in bladder cancer. J Zhejiang Univ Sci B 2021 Aug 15;22(8):664-681. PMID: 34414701
  • Li R, Grimm SA, Wade PA et al. A simple and robust method for simultaneous dual-omics profiling with limited numbers of cells. Cell Rep Methods 2021 Jul 26;1(3). PMID: 34414388
  • Wang M, Li C, Liu Y, Wang Z et al. Effect of LAMA4 on Prognosis and Its Correlation with Immune Infiltration in Gastric Cancer. Biomed Res Int 2021;2021:6428873. PMID: 34414238
  • Li S, Wu L, Zhang H, Liu X et al. GINS1 Induced Sorafenib Resistance by Promoting Cancer Stem Properties in Human Hepatocellular Cancer Cells. Front Cell Dev Biol 2021;9:711894. PMID: 34414190
  • Yue T, Zuo S, Zhu J, Guo S et al. Two Similar Signatures for Predicting the Prognosis and Immunotherapy Efficacy of Stomach Adenocarcinoma Patients. Front Cell Dev Biol 2021;9:704242. PMID: 34414187
  • Wang J, Lei M, Xu Z et al. Aberrant expression of PROS1 correlates with human papillary thyroid cancer progression. PeerJ 2021;9:e11813. PMID: 34414029
  • Liu W, Guan Y, Qiao S, Wang J et al. Antiaging Effects of Vicatia thibetica de Boiss Root Extract on Caenorhabditis elegans and Doxorubicin-Induced Premature Aging in Adult Mice. Oxid Med Cell Longev 2021;2021:9942090. PMID: 34413931
  • Lou S, Meng F, Yin X, Zhang Y et al. Comprehensive Characterization of RNA Processing Factors in Gastric Cancer Identifies a Prognostic Signature for Predicting Clinical Outcomes and Therapeutic Responses. Front Immunol 2021;12:719628. PMID: 34413861
  • Zhu L, Zhu L, Tan J, Chen K et al. Suppression of miR-130a-3p Attenuates Oxygen-Glucose Deprivation/Reoxygenation-Induced Dendritic Spine Loss by Promoting APP. Front Neurosci 2021;15:601850. PMID: 34413720
  • Li C, Liu Z et al. Bioinformatic Analysis for Potential Biomarkers and Therapeutic Targets of T2DM-related MI. Int J Gen Med 2021;14:4337-4347. PMID: 34413670
  • Hasan MZ, Islam S, Matsumoto K, Kawai T et al. SARS-CoV-2 infection initiates interleukin-17-enriched transcriptional response in different cells from multiple organs. Sci Rep 2021 Aug 19;11(1):16814. PMID: 34413339
  • Taguchi J, Shibata H, Kabata M, Kato M et al. DMRT1-mediated reprogramming drives development of cancer resembling human germ cell tumors with features of totipotency. Nat Commun 2021 Aug 19;12(1):5041. PMID: 34413299
  • Cai G, Zhou Y, Wen M et al. [Clinical importance of screening differential gene set of monocytes based on single-cell sequencing and digital polymerase chain reaction technology for early diagnosis of sepsis]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2021 Jul;33(7):779-785. PMID: 34412744
  • Lin CJ, Mecham RP et al. Tissue-specific smooth muscle cell subtypes identified by transcriptional profiling. Int J Biochem Cell Biol 2021 Oct;139:106055. PMID: 34411694
  • Zhang Y, Liu D, Li F, Zhao Z et al. Identification of biomarkers for acute leukemia via machine learning-based stemness index. Gene 2021 Dec 15;804:145903. PMID: 34411647
  • Liu C, Lee MK, Naqvi S, Hoskens H et al. Genome scans of facial features in East Africans and cross-population comparisons reveal novel associations. PLoS Genet 2021 Aug;17(8):e1009695. PMID: 34411106
  • Nozawa K, Chen J, Jiang J, Leichter SM et al. DNA methyltransferase CHROMOMETHYLASE3 prevents ONSEN transposon silencing under heat stress. PLoS Genet 2021 Aug;17(8):e1009710. PMID: 34411103
  • Reynoso S, Castillo V, Katkar GD, Lopez-Sanchez I et al. GIV/Girdin, a non-receptor modulator for Gαi/s, regulates spatiotemporal signaling during sperm capacitation and is required for male fertility. Elife 2021 Aug 19;10. PMID: 34409938
  • Zhang L, Ren R, Yang X, Ge Y et al. Oncogenic role of early growth response-1 in liver cancer through the regulation of the microRNA-675/sestrin 3 and the Wnt/β-catenin signaling pathway. Bioengineered 2021 Dec;12(1):5305-5322. PMID: 34409922
  • Lu Z, Gao Y et al. Screening differentially expressed genes between endometriosis and ovarian cancer to find new biomarkers for endometriosis. Ann Med 2021 Dec;53(1):1377-1389. PMID: 34409913
  • van Wageningen TA, Gerrits E, Palacin I Bonson S, Huitinga I et al. Exploring reported genes of microglia RNA-sequencing data: Uses and considerations. Glia 2021 Dec;69(12):2933-2946. PMID: 34409652
  • Tang H, Yuan S, Chen T, Ji P et al. Development of an immune-related lncRNA-miRNA-mRNA network based on competing endogenous RNA in periodontitis. J Clin Periodontol 2021 Nov;48(11):1470-1479. PMID: 34409632
  • Pereira V, Torrejon J, Kariyawasam D, Berlanga P et al. Clinical and molecular analysis of smoothened inhibitors in Sonic Hedgehog medulloblastoma. Neurooncol Adv 2021 Jan-Dec;3(1):vdab097. PMID: 34409296
  • Liu TT, Li R, Huo C, Li JP et al. Identification of CDK2-Related Immune Forecast Model and ceRNA in Lung Adenocarcinoma, a Pan-Cancer Analysis. Front Cell Dev Biol 2021;9:682002. PMID: 34409029
  • Yuan L, Li F, Wang S, Yi H et al. Identification of Tumor Microenvironment-Related Prognostic lncRNAs in Lung Adenocarcinoma. Front Oncol 2021;11:719812. PMID: 34408984
  • Peng M, Cheng X, Xiong W, Yi L et al. Integrated Analysis of a Competing Endogenous RNA Network Reveals a Prognostic lncRNA Signature in Bladder Cancer. Front Oncol 2021;11:684242. PMID: 34408977
  • Kim YJ, Kim K, Seo SY, Yu J et al. Time-sequential change in immune-related gene expression after irradiation in glioblastoma: next-generation sequencing analysis. Anim Cells Syst (Seoul) 2021;25(4):245-254. PMID: 34408813
  • Wang N, Gu Y, Chi J, Liu X et al. Screening of DNA Damage Repair Genes Involved in the Prognosis of Triple-Negative Breast Cancer Patients Based on Bioinformatics. Front Genet 2021;12:721873. PMID: 34408776
  • Bolt CC, Lopez-Delisle L, Mascrez B, Duboule D et al. Mesomelic dysplasias associated with the HOXD locus are caused by regulatory reallocations. Nat Commun 2021 Aug 18;12(1):5013. PMID: 34408147
  • Santos-Barriopedro I, van Mierlo G, Vermeulen M et al. Off-the-shelf proximity biotinylation for interaction proteomics. Nat Commun 2021 Aug 18;12(1):5015. PMID: 34408139
  • Inde Z, Croker BA, Yapp C, Joshi GN et al. Age-dependent regulation of SARS-CoV-2 cell entry genes and cell death programs correlates with COVID-19 severity. Sci Adv 2021 Aug;7(34). PMID: 34407940
  • Feng G, Xu Y, Ma N, Midorikawa K et al. Influence of Epstein-Barr virus and human papillomavirus infection on macrophage migration inhibitory factor and macrophage polarization in nasopharyngeal carcinoma. BMC Cancer 2021 Aug 18;21(1):929. PMID: 34407796
  • Fan Y, Wang L, Ding Y, Sheng Q et al. Long non-coding RNA RP4-694A7.2 Promotes Hepatocellular Carcinoma Cell Proliferation and Metastasis through the Regulation of PSAT1. J Cancer 2021;12(18):5633-5643. PMID: 34405023
  • Huang F, Wang H, Xiao J, Shao C et al. SLC34A2 Up-regulation And SLC4A4 Down-regulation Correlates With Invasion, Metastasis, And The MAPK Signaling Pathway In Papillary Thyroid Carcinomas. J Cancer 2021;12(18):5439-5453. PMID: 34405007
  • Chen H, Pan Y, Jin X, Chen G et al. An immune cell infiltration-related gene signature predicts prognosis for bladder cancer. Sci Rep 2021 Aug 17;11(1):16679. PMID: 34404901
  • Feng Z, Qu J, Liu X, Liang J et al. Integrated bioinformatics analysis of differentially expressed genes and immune cell infiltration characteristics in Esophageal Squamous cell carcinoma. Sci Rep 2021 Aug 17;11(1):16696. PMID: 34404882
  • Tan JJ, Guyette JP, Miki K, Xiao L et al. Human iPS-derived pre-epicardial cells direct cardiomyocyte aggregation expansion and organization in vitro. Nat Commun 2021 Aug 17;12(1):4997. PMID: 34404774
  • Tang D, Luo Y, Jiang Y, Hu P et al. LncRNA KCNQ1OT1 activated by c-Myc promotes cell proliferation via interacting with FUS to stabilize MAP3K1 in acute promyelocytic leukemia. Cell Death Dis 2021 Aug 17;12(9):795. PMID: 34404765
  • Shi M, You K, Chen T, Hou C et al. Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index. Genome Biol 2021 Aug 17;22(1):229. PMID: 34404448
  • Wang Q, Bao X, Chen S, Zhong H et al. AtHDA6 functions as an H3K18ac eraser to maintain pericentromeric CHG methylation in Arabidopsis thaliana. Nucleic Acids Res 2021 Sep 27;49(17):9755-9767. PMID: 34403482
  • Kaiser R, Leunig A, Pekayvaz K, Popp O et al. Self-sustaining IL-8 loops drive a prothrombotic neutrophil phenotype in severe COVID-19. JCI Insight 2021 Sep 22;6(18). PMID: 34403366
  • Mackinlay KM, Weatherbee BA, Souza Rosa V, Handford CE et al. An in vitro stem cell model of human epiblast and yolk sac interaction. Elife 2021 Aug 17;10. PMID: 34403333
  • Tutino VM, Zebraski HR, Rajabzadeh-Oghaz H, Chaves L et al. RNA Sequencing Data from Human Intracranial Aneurysm Tissue Reveals a Complex Inflammatory Environment Associated with Rupture. Mol Diagn Ther 2021 Nov;25(6):775-790. PMID: 34403136
  • Zhan J, Wang S, Wei X, Feng M et al. Systematic analysis of Long non-coding RNAs reveals diagnostic biomarkers and potential therapeutic drugs for intervertebral disc degeneration. Bioengineered 2021 Dec;12(1):5069-5084. PMID: 34402383
  • Calvert BA, Quiroz EJ, Lorenzana Z, Doan N et al. Neutrophilic inflammation promotes SARS-CoV-2 infectivity and augments the inflammatory responses in airway epithelial cells. bioRxiv 2022 Jun 6 PMID: 34401877
  • Manivannan J, Sundaresan L et al. Systems level insights into the impact of airborne exposure on SARS-CoV-2 pathogenesis and COVID-19 outcome - A multi-omics big data study. Gene Rep 2021 Dec;25:101312. PMID: 34401607
  • Zhuang W, Sun H, Zhang S, Zhou Y et al. An immunogenomic signature for molecular classification in hepatocellular carcinoma. Mol Ther Nucleic Acids 2021 Sep 3;25:105-115. PMID: 34401208
  • Liu BHM, Tey SK, Mao X, Ma APY et al. TPI1-reduced extracellular vesicles mediated by Rab20 downregulation promotes aerobic glycolysis to drive hepatocarcinogenesis. J Extracell Vesicles 2021 Aug;10(10):e12135. PMID: 34401050
  • Liu D, Ma X et al. MiR-508-3p promotes proliferation and inhibits apoptosis of middle ear cholesteatoma cells by targeting PTEN/PI3K/AKT pathway. Int J Med Sci 2021;18(14):3224-3235. PMID: 34400892
  • Tudek A, Krawczyk PS, Mroczek S, Tomecki R et al. Global view on the metabolism of RNA poly(A) tails in yeast Saccharomyces cerevisiae. Nat Commun 2021 Aug 16;12(1):4951. PMID: 34400637
  • Forrow A, Schiebinger G et al. LineageOT is a unified framework for lineage tracing and trajectory inference. Nat Commun 2021 Aug 16;12(1):4940. PMID: 34400634
  • Lee S, Hwang C, Marini S, Tower RJ et al. NGF-TrkA signaling dictates neural ingrowth and aberrant osteochondral differentiation after soft tissue trauma. Nat Commun 2021 Aug 16;12(1):4939. PMID: 34400627
  • Marques C, Unterkircher T, Kroon P, Oldrini B et al. NF1 regulates mesenchymal glioblastoma plasticity and aggressiveness through the AP-1 transcription factor FOSL1. Elife 2021 Aug 17;10. PMID: 34399888
  • Brands X, Haak BW, Klarenbeek AM, Butler J et al. An epigenetic and transcriptomic signature of immune tolerance in human monocytes through multi-omics integration. Genome Med 2021 Aug 16;13(1):131. PMID: 34399830
  • Lu K, Wei S, Wang Z, Wu K et al. Identification of novel biomarkers in Hunner's interstitial cystitis using the CIBERSORT, an algorithm based on machine learning. BMC Urol 2021 Aug 16;21(1):109. PMID: 34399738
  • Lahiri A, Zhou L, He P, Datta A et al. Detecting drought regulators using stochastic inference in Bayesian networks. PLoS One 2021;16(8):e0255486. PMID: 34398879
  • Wang J, Li J, Zhang L, Qin Y et al. Comprehensive analysis of ubiquitin-proteasome system genes related to prognosis and immunosuppression in head and neck squamous cell carcinoma. Aging (Albany NY) 2021 Aug 16;13(16):20277-20301. PMID: 34398824
  • Wang X, Meng Q, Wang Y, Gao Y et al. Overexpression of MMP14 predicts the poor prognosis in gastric cancer: Meta-analysis and database validation. Medicine (Baltimore) 2021 Aug 13;100(32):e26545. PMID: 34397871
  • Yi X, Zhou Y, Zheng H, Wang L et al. Prognostic targets recognition of rectal adenocarcinoma based on transcriptomics. Medicine (Baltimore) 2021 Aug 13;100(32):e25909. PMID: 34397867
  • Ye T, Haoyuan Z, Bei Z, Kangyong X et al. Exploration of biomarkers in osteoarthritis based on bioinformatics. Medicine (Baltimore) 2021 Aug 6;100(31):e26730. PMID: 34397812
  • Zelong Y, Han Y, Ting G, Yifei W et al. Increased expression of Cyclin F in liver cancer predicts poor prognosis: A study based on TCGA database. Medicine (Baltimore) 2021 Aug 6;100(31):e26623. PMID: 34397798
  • Chen J, Liu C, Liang T, Xu G et al. Comprehensive analyses of potential key genes in active tuberculosis: A systematic review. Medicine (Baltimore) 2021 Jul 30;100(30):e26582. PMID: 34397688
  • Jiang Y, Miao Q, Hu L, Zhou T et al. FYN and CD247: Key Genes for Septic Shock Based on Bioinformatics and Meta-Analysis. Comb Chem High Throughput Screen 2022;25(10):1722-1730. PMID: 34397323
  • Festuccia N, Owens N, Chervova A, Dubois A et al. The combined action of Esrrb and Nr5a2 is essential for murine naïve pluripotency. Development 2021 Sep 1;148(17). PMID: 34397088
  • Tang D, Huang W, Yang Z, Wu X et al. Identification and validation of 12 immune-related genes as a prognostic signature for colon adenocarcinoma. J Biochem Mol Toxicol 2021 Sep;35(9):e22852. PMID: 34396630
  • Huo Z, Li H, Tian L, Li J et al. Construction of a Potentially Functional circRNA-miRNA-mRNA Network in Intervertebral Disc Degeneration by Bioinformatics Analysis. Biomed Res Int 2021;2021:8352683. PMID: 34395625
  • Wang Y, Chen W, Zhu M, Xian L et al. Ferroptosis-Related Gene Signature and Patterns of Immune Infiltration Predict the Overall Survival in Patients With Lung Adenocarcinoma. Front Mol Biosci 2021;8:692530. PMID: 34395526
  • Liu Y, Xue J, Zhong M, Wang Z et al. Prognostic Prediction, Immune Microenvironment, and Drug Resistance Value of Collagen Type I Alpha 1 Chain: From Gastrointestinal Cancers to Pan-Cancer Analysis. Front Mol Biosci 2021;8:692120. PMID: 34395525
  • Wang Y, Hu S, Shen L, Liu S et al. Dynamic Observation of Autophagy and Transcriptome Profiles in a Mouse Model of Bleomycin-Induced Pulmonary Fibrosis. Front Mol Biosci 2021;8:664913. PMID: 34395518
  • Liu D, Wen J, Chen J, Wang B et al. A Comparative Analysis of the Gene Expression Profiles of Small Cell Esophageal Carcinoma, Small Cell Lung Cancer, and Esophageal Adeno/Squamous Carcinoma. Front Surg 2021;8:655159. PMID: 34395507
  • Xiang Y, Zhou C, Zeng Y, Guo Q et al. NAT10-Mediated N4-Acetylcytidine of RNA Contributes to Post-transcriptional Regulation of Mouse Oocyte Maturation in vitro. Front Cell Dev Biol 2021;9:704341. PMID: 34395433
  • Chen H, Bao L, Hu J, Wu D et al. ORC6, Negatively Regulated by miR-1-3p, Promotes Proliferation, Migration, and Invasion of Hepatocellular Carcinoma Cells. Front Cell Dev Biol 2021;9:652292. PMID: 34395415
  • Yang H, Pan Y, Zhang J, Jin L et al. LncRNA FOXD3-AS1 Promotes the Malignant Progression of Nasopharyngeal Carcinoma Through Enhancing the Transcription of YBX1 by H3K27Ac Modification. Front Oncol 2021;11:715635. PMID: 34395290
  • Wang C, Li X, Ren L, Ma C et al. Gankyrin as Potential Biomarker for Colorectal Cancer With Occult Liver Metastases. Front Oncol 2021;11:656852. PMID: 34395241
  • Li L, Xie R, Wei Q et al. Network analysis of miRNA targeting m6A-related genes in patients with esophageal cancer. PeerJ 2021;9:e11893. PMID: 34395102
  • Cao M, Fan Y, Peng Q et al. Bayesian Gene Selection Based on Pathway Information and Network-Constrained Regularization. Comput Math Methods Med 2021;2021:7471516. PMID: 34394707
  • Qi D, Chen K et al. Bioinformatics Analysis of Potential Biomarkers and Pathway Identification for Major Depressive Disorder. Comput Math Methods Med 2021;2021:3036741. PMID: 34394704
  • Liu Z, Lu T, Li J, Wang L et al. Clinical Significance and Inflammatory Landscape of aNovel Recurrence-Associated Immune Signature in Stage II/III Colorectal Cancer. Front Immunol 2021;12:702594. PMID: 34394098
  • Guo Q, Li D, Luo X, Yuan Y et al. The Regulatory Network and Potential Role of LINC00973-miRNA-mRNA ceRNA in the Progression of Non-Small-Cell Lung Cancer. Front Immunol 2021;12:684807. PMID: 34394080
  • Sun X, Ji G, Li P, Li W et al. miR-344-5p Modulates Cholesterol-Induced β-Cell Apoptosis and Dysfunction Through Regulating Caveolin-1 Expression. Front Endocrinol (Lausanne) 2021;12:695164. PMID: 34394002
  • Xu N, Guo H, Li X, Zhao Q et al. A Five-Genes Based Diagnostic Signature for Sepsis-Induced ARDS. Pathol Oncol Res 2021;27:580801. PMID: 34393665
  • Biji A, Khatun O, Swaraj S, Narayan R et al. Identification of COVID-19 prognostic markers and therapeutic targets through meta-analysis and validation of Omics data from nasopharyngeal samples. EBioMedicine 2021 Aug;70:103525. PMID: 34392148
  • Hikino K, Koido M, Tomizuka K, Liu X et al. Susceptibility loci and polygenic architecture highlight population specific and common genetic features in inguinal hernias: genetics in inguinal hernias. EBioMedicine 2021 Aug;70:103532. PMID: 34392144
  • He S, Deng Z, Li Z, Gao W et al. Signatures of 4 autophagy-related genes as diagnostic markers of MDD and their correlation with immune infiltration. J Affect Disord 2021 Dec 1;295:11-20. PMID: 34391068
  • Yi H, Liang L, Wang H, Luo S et al. Albendazole inhibits NF-κB signaling pathway to overcome tumor stemness and bortezomib resistance in multiple myeloma. Cancer Lett 2021 Nov 1;520:307-320. PMID: 34390764
  • Ebadfardzadeh J, Kazemi M, Aghazadeh A, Rezaei M et al. Employing bioinformatics analysis to identify hub genes and microRNAs involved in colorectal cancer. Med Oncol 2021 Aug 14;38(9):114. PMID: 34390411
  • Huang B, Cui DJ, Yan F, Yang LC et al. Circ_0087862 promotes the progression of colorectal cancer by sponging miR-142-3p and up-regulating BACH1 expression. Kaohsiung J Med Sci 2021 Dec;37(12):1048-1057. PMID: 34390174
  • Tang X, Wu H, Xie J, Wang N et al. The combination of dextran sulphate and polyvinyl alcohol prevents excess aggregation and promotes proliferation of pluripotent stem cells in suspension culture. Cell Prolif 2021 Sep;54(9):e13112. PMID: 34390064
  • Nagalingam A, Siddharth S, Parida S, Muniraj N et al. Hyperleptinemia in obese state renders luminal breast cancers refractory to tamoxifen by coordinating a crosstalk between Med1, miR205 and ErbB. NPJ Breast Cancer 2021 Aug 13;7(1):105. PMID: 34389732
  • Moreira TG, Mangani D, Cox LM, Leibowitz J et al. PD-L1(+) and XCR1(+) dendritic cells are region-specific regulators of gut homeostasis. Nat Commun 2021 Aug 13;12(1):4907. PMID: 34389726
  • Oh S, Bournique E, Bowen D, Jalili P et al. Genotoxic stress and viral infection induce transient expression of APOBEC3A and pro-inflammatory genes through two distinct pathways. Nat Commun 2021 Aug 13;12(1):4917. PMID: 34389714
  • Nilsson KH, Henning P, El Shahawy M, Nethander M et al. RSPO3 is important for trabecular bone and fracture risk in mice and humans. Nat Commun 2021 Aug 13;12(1):4923. PMID: 34389713
  • Fukumura K, Yoshimoto R, Sperotto L, Kang HS et al. SPF45/RBM17-dependent, but not U2AF-dependent, splicing in a distinct subset of human short introns. Nat Commun 2021 Aug 13;12(1):4910. PMID: 34389706
  • Zhao L, Giannou AD, Xu Y, Shiri AM et al. Efferocytosis fuels malignant pleural effusion through TIMP1. Sci Adv 2021 Aug;7(33). PMID: 34389533
  • Yang Z, Liu D, Guan R, Li X et al. Potential genes and pathways associated with heterotopic ossification derived from analyses of gene expression profiles. J Orthop Surg Res 2021 Aug 14;16(1):499. PMID: 34389038
  • Zhang Y, Zhang D, Meng Q, Liu Z et al. Precision treatment exploration of breast cancer based on heterogeneity analysis of lncRNAs at the single-cell level. BMC Cancer 2021 Aug 13;21(1):918. PMID: 34388989
  • Shuaib M, Prajapati KS, Singh AK, Kushwaha PP et al. Identification of miRNAs and related hub genes associated with the triple negative breast cancer using integrated bioinformatics analysis and in vitro approach. J Biomol Struct Dyn 2022;40(22):11676-11690. PMID: 34387138
  • Wang Z, Chen K, Jia Y, Chuang JC et al. Dual ARID1A/ARID1B loss leads to rapid carcinogenesis and disruptive redistribution of BAF complexes. Nat Cancer 2020 Sep;1(9):909-922. PMID: 34386776
  • Jin Y, Wang Z, He D, Zhu Y et al. Analysis of Ferroptosis-Mediated Modification Patterns and Tumor Immune Microenvironment Characterization in Uveal Melanoma. Front Cell Dev Biol 2021;9:685120. PMID: 34386492
  • Naidoo M, Levine F, Gillot T, Orunmuyi AT et al. MicroRNA-1205 Regulation of FRYL in Prostate Cancer. Front Cell Dev Biol 2021;9:647485. PMID: 34386489
  • Li K, Liu T et al. Evaluation of Oncogene NUP37 as a Potential Novel Biomarker in Breast Cancer. Front Oncol 2021;11:669655. PMID: 34386417
  • Hao L, Li S, Peng Q, Guo Y et al. Anti-malarial drug dihydroartemisinin downregulates the expression levels of CDK1 and CCNB1 in liver cancer. Oncol Lett 2021 Sep;22(3):653. PMID: 34386075
  • Jin J, Li Y, Muluh TA, Zhi L et al. Identification of CXCL10-Relevant Tumor Microenvironment Characterization and Clinical Outcome in Ovarian Cancer. Front Genet 2021;12:678747. PMID: 34386037
  • Yang G, Huang L, Jia H, Aikemu B et al. NDRG1 enhances the sensitivity of cetuximab by modulating EGFR trafficking in colorectal cancer. Oncogene 2021 Oct;40(41):5993-6006. PMID: 34385595
  • Gouin KH 3rd, Ing N, Plummer JT, Rosser CJ et al. An N-Cadherin 2 expressing epithelial cell subpopulation predicts response to surgery, chemotherapy and immunotherapy in bladder cancer. Nat Commun 2021 Aug 12;12(1):4906. PMID: 34385456
  • Scagliola A, Miluzio A, Ventura G, Oliveto S et al. Targeting of eIF6-driven translation induces a metabolic rewiring that reduces NAFLD and the consequent evolution to hepatocellular carcinoma. Nat Commun 2021 Aug 12;12(1):4878. PMID: 34385447
  • Wu HJ, Landshammer A, Stamenova EK, Bolondi A et al. Topological isolation of developmental regulators in mammalian genomes. Nat Commun 2021 Aug 12;12(1):4897. PMID: 34385432
  • Gaine ME, Bahl E, Chatterjee S, Michaelson JJ et al. Altered hippocampal transcriptome dynamics following sleep deprivation. Mol Brain 2021 Aug 12;14(1):125. PMID: 34384474
  • Pan L, Cheng C, Duan P, Chen K et al. XPO1/CRM1 is a promising prognostic indicator for neuroblastoma and represented a therapeutic target by selective inhibitor verdinexor. J Exp Clin Cancer Res 2021 Aug 12;40(1):255. PMID: 34384466
  • Reyimu A, Chen Y, Song X, Zhou W et al. Identification of latent biomarkers in connection with progression and prognosis in oral cancer by comprehensive bioinformatics analysis. World J Surg Oncol 2021 Aug 12;19(1):240. PMID: 34384424
  • Duan L, Wang Z, Zheng X, Li J et al. Excavating the pathogenic gene of breast cancer based on high throughput data of tumor and somatic reprogramming. Cell Cycle 2021 Sep;20(17):1708-1722. PMID: 34384323
  • Chen G, Yu M, Cao J, Zhao H et al. Identification of candidate biomarkers correlated with poor prognosis of breast cancer based on bioinformatics analysis. Bioengineered 2021 Dec;12(1):5149-5161. PMID: 34384030
  • Nikolaienko O, Lønning PE, Knappskog S et al. ramr: an R/Bioconductor package for detection of rare aberrantly methylated regions. Bioinformatics 2021 Dec 22;38(1):133-140. PMID: 34383893
  • Zenere A, Rundquist O, Gustafsson M, Altafini C et al. Using high-throughput multi-omics data to investigate structural balance in elementary gene regulatory network motifs. Bioinformatics 2021 Dec 22;38(1):173-178. PMID: 34383882
  • Rocher V, Genais M, Nassereddine E, Mourad R et al. DeepG4: A deep learning approach to predict cell-type specific active G-quadruplex regions. PLoS Comput Biol 2021 Aug;17(8):e1009308. PMID: 34383754
  • Dreos R, Sloutskin A, Malachi N, Ideses D et al. Computational identification and experimental characterization of preferred downstream positions in human core promoters. PLoS Comput Biol 2021 Aug;17(8):e1009256. PMID: 34383743
  • Srinivasa S, Garcia-Martin R, Torriani M, Fitch KV et al. Altered pattern of circulating miRNAs in HIV lipodystrophy perturbs key adipose differentiation and inflammation pathways. JCI Insight 2021 Sep 22;6(18). PMID: 34383714
  • Teng YY, Yu HJ, Ni LY, Lu GR et al. IncRNA LUCAT1 acts as a Potential Biomarker and Demonstrates Malignant Biological Behaviors in Gastric Cancer. Clin Lab 2021 Aug 1;67(8). PMID: 34383427
  • Allen AM, B Sokolowski M et al. Expression of the foraging gene in adult Drosophila melanogaster. J Neurogenet 2021 Sep;35(3):192-212. PMID: 34382904
  • Zhang L, Ge JY, Zheng YW, Sun Z et al. Survival-Assured Liver Injury Preconditioning (SALIC) Enables Robust Expansion of Human Hepatocytes in Fah(-/-) Rag2(-/-) IL2rg(-/-) Rats. Adv Sci (Weinh) 2021 Oct;8(19):e2101188. PMID: 34382351
  • Chen T, Yang C, Dou R, Xiong B et al. Identification of a novel 10 immune-related genes signature as a prognostic biomarker panel for gastric cancer. Cancer Med 2021 Sep;10(18):6546-6560. PMID: 34382341
  • Zhao Y, Dukler N, Barshad G, Toneyan S et al. Deconvolution of expression for nascent RNA-sequencing data (DENR) highlights pre-RNA isoform diversity in human cells. Bioinformatics 2021 Dec 11;37(24):4727-4736. PMID: 34382072
  • Sun Q, Peng Y, Liu J et al. A reference-free approach for cell type classification with scRNA-seq. iScience 2021 Aug 20;24(8):102855. PMID: 34381979
  • Zhang D, Wang Y, Yang Q et al. A High Epigenetic Risk Score Shapes the Non-Inflamed Tumor Microenvironment in Breast Cancer. Front Mol Biosci 2021;8:675198. PMID: 34381812
  • Cen S, Liu K, Zheng Y, Shan J et al. BRAF Mutation as a Potential Therapeutic Target for Checkpoint Inhibitors: A Comprehensive Analysis of Immune Microenvironment in BRAF Mutated Colon Cancer. Front Cell Dev Biol 2021;9:705060. PMID: 34381786
  • Yu Y, Lei X et al. CircFAM120B Blocks the Development of Colorectal Cancer by Activating TGF-Beta Receptor II Expression via Targeting miR-645. Front Cell Dev Biol 2021;9:682543. PMID: 34381772
  • Garai S, Citu, Singla-Pareek SL, Sopory SK et al. Complex Networks of Prion-Like Proteins Reveal Cross Talk Between Stress and Memory Pathways in Plants. Front Plant Sci 2021;12:707286. PMID: 34381483
  • Wu Q, Yin G, Luo J, Zhang Y et al. Comprehensive Analysis of the Expression and Prognostic Value of SPINT1/2 in Breast Carcinoma. Front Endocrinol (Lausanne) 2021;12:665666. PMID: 34381422
  • Feng Y, Mei L, Wang M, Huang Q et al. Anti-inflammatory and Pro-apoptotic Effects of 18beta-Glycyrrhetinic Acid In Vitro and In Vivo Models of Rheumatoid Arthritis. Front Pharmacol 2021;12:681525. PMID: 34381358
  • Consonni M, Garavaglia C, Grilli A, de Lalla C et al. Human T cells engineered with a leukemia lipid-specific TCR enables donor-unrestricted recognition of CD1c-expressing leukemia. Nat Commun 2021 Aug 11;12(1):4844. PMID: 34381053
  • Bulut-Karslioglu A, Jin H, Kim YK, Cho B et al. Chd1 protects genome integrity at promoters to sustain hypertranscription in embryonic stem cells. Nat Commun 2021 Aug 11;12(1):4859. PMID: 34381042
  • Olbrich T, Vega-Sendino M, Tillo D, Wu W et al. CTCF is a barrier for 2C-like reprogramming. Nat Commun 2021 Aug 11;12(1):4856. PMID: 34381034
  • Taftaf R, Liu X, Singh S, Jia Y et al. ICAM1 initiates CTC cluster formation and trans-endothelial migration in lung metastasis of breast cancer. Nat Commun 2021 Aug 11;12(1):4867. PMID: 34381029
  • Yang Z, Xu G, Wang B, Liu Y et al. USP12 downregulation orchestrates a protumourigenic microenvironment and enhances lung tumour resistance to PD-1 blockade. Nat Commun 2021 Aug 11;12(1):4852. PMID: 34381028
  • Jung SM, Park KS, Kim KJ et al. Integrative analysis of lung molecular signatures reveals key drivers of systemic sclerosis-associated interstitial lung disease. Ann Rheum Dis 2022 Jan;81(1):108-116. PMID: 34380701
  • Wang J, Xu P, Hao Y, Yu T et al. Interaction between DNMT3B and MYH11 via hypermethylation regulates gastric cancer progression. BMC Cancer 2021 Aug 12;21(1):914. PMID: 34380460
  • Morrow AK, Hughes JW, Singh J, Joseph AD et al. Epitome: predicting epigenetic events in novel cell types with multi-cell deep ensemble learning. Nucleic Acids Res 2021 Nov 8;49(19):e110. PMID: 34379786
  • Li X, Chen M, Liu B, Lu P et al. Transcriptional silencing of fetal hemoglobin expression by NonO. Nucleic Acids Res 2021 Sep 27;49(17):9711-9723. PMID: 34379783
  • Huang R, Hu Z, Chen X, Cao Y et al. The Transcription Factor SUB1 Is a Master Regulator of the Macrophage TLR Response in Atherosclerosis. Adv Sci (Weinh) 2021 Oct;8(19):e2004162. PMID: 34378353
  • Li Y, Zhang X, Akinyemiju T, Ojesina AI et al. A two-stage approach for combining gene expression and mutation with clinical data improves survival prediction in myelodysplastic syndromes and ovarian cancer. J Bioinform Genom 2016 Sep;1(1). PMID: 34377946
  • Neves I, Dinis-Oliveira RJ, Magalhães T et al. Epigenomic mediation after adverse childhood experiences: a systematic review and meta-analysis. Forensic Sci Res 2021;6(2):103-114. PMID: 34377567
  • Kadota T, Fujita Y, Araya J, Watanabe N et al. Human bronchial epithelial cell-derived extracellular vesicle therapy for pulmonary fibrosis via inhibition of TGF-β-WNT crosstalk. J Extracell Vesicles 2021 Aug;10(10):e12124. PMID: 34377373
  • Lu Y, Gao Z, Liu C, Long M et al. Integrative analysis of lncRNA-miRNA-mRNA-associated competing endogenous RNA regulatory network involved in EV71 infection. Am J Transl Res 2021;13(7):7440-7457. PMID: 34377228
  • Shang X, Shi LE, Taule D, Zhu ZZ et al. A Novel miRNA-mRNA Axis Involves in Regulating Transcriptional Disorders in Pancreatic Adenocarcinoma. Cancer Manag Res 2021;13:5989-6004. PMID: 34377019
  • Hu L, Liu Y, Wei C, Jin H et al. SERPINH1, Targeted by miR-29b, Modulated Proliferation and Migration of Human Retinal Endothelial Cells Under High Glucose Conditions. Diabetes Metab Syndr Obes 2021;14:3471-3483. PMID: 34377003
  • Chandrashekar DS, Athar M, Manne U, Varambally S et al. Comparative transcriptome analyses reveal genes associated with SARS-CoV-2 infection of human lung epithelial cells. Sci Rep 2021 Aug 10;11(1):16212. PMID: 34376762
  • Vidal V, Gutierrez O, Talamillo A, Velasquez C et al. Glioblastoma invasion factor ODZ1 is induced by microenvironmental signals through activation of a Stat3-dependent transcriptional pathway. Sci Rep 2021 Aug 10;11(1):16196. PMID: 34376733
  • Yamagishi M, Kubokawa M, Kuze Y, Suzuki A et al. Chronological genome and single-cell transcriptome integration characterizes the evolutionary process of adult T cell leukemia-lymphoma. Nat Commun 2021 Aug 10;12(1):4821. PMID: 34376672
  • Na D, Chae J, Cho SY, Kang W et al. Predictive biomarkers for 5-fluorouracil and oxaliplatin-based chemotherapy in gastric cancers via profiling of patient-derived xenografts. Nat Commun 2021 Aug 10;12(1):4840. PMID: 34376661
  • Castelli LM, Cutillo L, Souza CDS, Sanchez-Martinez A et al. SRSF1-dependent inhibition of C9ORF72-repeat RNA nuclear export: genome-wide mechanisms for neuroprotection in amyotrophic lateral sclerosis. Mol Neurodegener 2021 Aug 10;16(1):53. PMID: 34376242
  • Basile G, Kahraman S, Dirice E, Pan H et al. Using single-nucleus RNA-sequencing to interrogate transcriptomic profiles of archived human pancreatic islets. Genome Med 2021 Aug 10;13(1):128. PMID: 34376240
  • Davis-Marcisak EF, Fitzgerald AA, Kessler MD, Danilova L et al. Transfer learning between preclinical models and human tumors identifies a conserved NK cell activation signature in anti-CTLA-4 responsive tumors. Genome Med 2021 Aug 11;13(1):129. PMID: 34376232
  • Li GW, Nan F, Yuan GH, Liu CX et al. SCAPTURE: a deep learning-embedded pipeline that captures polyadenylation information from 3' tag-based RNA-seq of single cells. Genome Biol 2021 Aug 10;22(1):221. PMID: 34376223
  • Yang L, Li Z, Liu G, Li X et al. Developmental Origins of Human Cortical Oligodendrocytes and Astrocytes. Neurosci Bull 2022 Jan;38(1):47-68. PMID: 34374948
  • Yuan G, Ding W, Sun B, Zhu L et al. Upregulated circRNA_102231 promotes gastric cancer progression and its clinical significance. Bioengineered 2021 Dec;12(1):4936-4945. PMID: 34374630
  • Chuah S, Chew V et al. Immune implication of an autophagy-related prognostic signature in uveal melanoma. Biosci Rep 2021 Aug 27;41(8). PMID: 34374416
  • Liu Z, Meng M, Zhang S, Qiu H et al. Rhythmic Component Analysis Tool (RCAT): A Precise, Efficient and User-Friendly Tool for Circadian Clock Genes Analysis. Interdiscip Sci 2022 Mar;14(1):269-278. PMID: 34374039
  • Wu F, Nie S, Yao Y, Huo T et al. Small-molecule inhibitor of AF9/ENL-DOT1L/AF4/AFF4 interactions suppresses malignant gene expression and tumor growth. Theranostics 2021;11(17):8172-8184. PMID: 34373735
  • Li MX, Sun XM, Cheng WG, Ruan HJ et al. Using a machine learning approach to identify key prognostic molecules for esophageal squamous cell carcinoma. BMC Cancer 2021 Aug 9;21(1):906. PMID: 34372798
  • Mediati DG, Lalaouna D, Tree JJ et al. Burning the Candle at Both Ends: Have Exoribonucleases Driven Divergence of Regulatory RNA Mechanisms in Bacteria? mBio 2021 Aug 31;12(4):e0104121. PMID: 34372700
  • Zhang Y, Hu G, Zhang Z, Jing Y et al. CircRNA_0043691 sponges miR-873-3p to promote metastasis of gastric cancer. Mamm Genome 2021 Dec;32(6):476-487. PMID: 34370061
  • Zheng Z, Qiu X, Wu H, Chang L et al. TIPS: trajectory inference of pathway significance through pseudotime comparison for functional assessment of single-cell RNAseq data. Brief Bioinform 2021 Sep 2;22(5). PMID: 34370020
  • Xu AL, Wang WS, Zhao MY, Sun JN et al. Circular RNA circ_0011385 promotes cervical cancer progression through competitively binding to miR-149-5p and up-regulating SOX4 expression. Kaohsiung J Med Sci 2021 Dec;37(12):1058-1068. PMID: 34369654
  • Shi J, Chen N, Wang Z, Wang F et al. Cholinergic receptor nicotinic beta 3 subunit polymorphisms and smoking in male Chinese patients with schizophrenia. EC Psychol Psychiatr 2021;10(7):11-23. PMID: 34368810
  • Wen Y, Englund DA, Peck BD, Murach KA et al. Myonuclear transcriptional dynamics in response to exercise following satellite cell depletion. iScience 2021 Aug 20;24(8):102838. PMID: 34368654
  • Wang LJ, Ma XB, Xia HY, Sun X et al. Identification of Biomarkers for Predicting Allograft Rejection following Kidney Transplantation Based on the Weighted Gene Coexpression Network Analysis. Biomed Res Int 2021;2021:9933136. PMID: 34368360
  • Liu M, Wu N, Xu K, Saaoud F et al. Organelle Crosstalk Regulators Are Regulated in Diseases, Tumors, and Regulatory T Cells: Novel Classification of Organelle Crosstalk Regulators. Front Cardiovasc Med 2021;8:713170. PMID: 34368262
  • Dong B, Liang J, Li D, Song W et al. Identification of a Prognostic Signature Associated With the Homeobox Gene Family for Bladder Cancer. Front Mol Biosci 2021;8:688298. PMID: 34368227
  • Lu Y, Chen J, Tang K, Wang S et al. Development and Validation of the Prognostic Index Based on Inflammation-Related Gene Analysis in Idiopathic Pulmonary Fibrosis. Front Mol Biosci 2021;8:667459. PMID: 34368225
  • Luo C, Huang B, Wu Y, Xu Y et al. Identification of Lymph Node Metastasis-Related Key Genes and Prognostic Risk Model in Bladder Cancer by Co-Expression Analysis. Front Mol Biosci 2021;8:633299. PMID: 34368222
  • Zheng D, Xia K, Yu L, Gong C et al. A Novel Six Metastasis-Related Prognostic Gene Signature for Patients With Osteosarcoma. Front Cell Dev Biol 2021;9:699212. PMID: 34368151
  • Abreu de Oliveira WA, Moens S, El Laithy Y, van der Veer BK et al. Wnt/β-Catenin Inhibition Disrupts Carboplatin Resistance in Isogenic Models of Triple-Negative Breast Cancer. Front Oncol 2021;11:705384. PMID: 34367990
  • Tan Z, Lei Y, Zhang B, Shi S et al. Analysis of Immune-Related Signatures Related to CD4+ T Cell Infiltration With Gene Co-Expression Network in Pancreatic Adenocarcinoma. Front Oncol 2021;11:674897. PMID: 34367961
  • Zhang S, Guo K, Liang Y, Wang K et al. ADGRG1 Is a Predictor of Chemoresistance and Poor Survival in Cervical Squamous Carcinoma. Front Oncol 2021;11:671895. PMID: 34367958
  • Chen P, Li T, Guo Y, Jia L et al. Construction of Circulating MicroRNAs-Based Non-invasive Prediction Models of Recurrent Implantation Failure by Network Analysis. Front Genet 2021;12:712150. PMID: 34367263
  • Pan X, Bi F et al. A Potential Immune-Related Long Non-coding RNA Prognostic Signature for Ovarian Cancer. Front Genet 2021;12:694009. PMID: 34367253
  • Light D, Haas R, Yazbak M, Elfand T et al. RESIC: A Tool for Comprehensive Adenosine to Inosine RNA Editing Site Identification and Classification. Front Genet 2021;12:686851. PMID: 34367244
  • Zheng J, Guo J, Zhang H, Cao B et al. Four Prognosis-Associated lncRNAs Serve as Biomarkers in Ovarian Cancer. Front Genet 2021;12:672674. PMID: 34367239
  • Parks C, Rogers CM, Prins P, Williams RW et al. Genetic Modulation of Initial Sensitivity to Δ9-Tetrahydrocannabinol (THC) Among the BXD Family of Mice. Front Genet 2021;12:659012. PMID: 34367237
  • Yang Y, Chen J, Qin H, Jin Y et al. A Novel Germline Compound Heterozygous Mutation of BRCA2 Gene Associated With Familial Peripheral Neuroblastic Tumors in Two Siblings. Front Genet 2021;12:652718. PMID: 34367235
  • Bolourani S, Sari E, Brenner M, Wang P et al. Extracellular CIRP Induces an Inflammatory Phenotype in Pulmonary Fibroblasts via TLR4. Front Immunol 2021;12:721970. PMID: 34367191
  • Li N, Li L, Wu M, Li Y et al. Integrated Bioinformatics and Validation Reveal Potential Biomarkers Associated With Progression of Primary Sjögren's Syndrome. Front Immunol 2021;12:697157. PMID: 34367157
  • Zhou A, Dong X, Liu M, Tang B et al. Comprehensive Transcriptomic Analysis Identifies Novel Antiviral Factors Against Influenza A Virus Infection. Front Immunol 2021;12:632798. PMID: 34367124
  • Yao X, Jing T, Wang T, Gu C et al. Molecular Characterization and Elucidation of Pathways to Identify Novel Therapeutic Targets in Pulmonary Arterial Hypertension. Front Physiol 2021;12:694702. PMID: 34366885
  • Xu M, Yuan L, Wang Y, Chen S et al. Integrative Analysis of DNA Methylation and Gene Expression Profiles Identifies Colorectal Cancer-Related Diagnostic Biomarkers. Pathol Oncol Res 2021;27:1609784. PMID: 34366718
  • Zhao H, Zhang Q, Chen H, Rahman MR et al. Integrated multi-omics approach identified molecular mechanism and pathogenetic processes of COVID-19 that affect patient with Parkinson's disorder. Saudi J Biol Sci 2021 Dec;28(12):6939-6945. PMID: 34366686
  • Li Y, Xu F, Chen F, Chen Y et al. Transcriptomics based multi-dimensional characterization and drug screen in esophageal squamous cell carcinoma. EBioMedicine 2021 Aug;70:103510. PMID: 34365093
  • Hu W, Li M, Zhang Q, Liu C et al. Establishment of a novel CNV-related prognostic signature predicting prognosis in patients with breast cancer. J Ovarian Res 2021 Aug 8;14(1):103. PMID: 34364397
  • Jimenez-García MP, Lucena-Cacace A, Otero-Albiol D, Carnero A et al. Empty spiracles homeobox genes EMX1 and EMX2 regulate WNT pathway activation in sarcomagenesis. J Exp Clin Cancer Res 2021 Aug 7;40(1):247. PMID: 34364391
  • Kumar Dev P, Gray AJ, Scott-Hamilton J, Hagstrom AD et al. Co-expression analysis identifies networks of miRNAs implicated in biological ageing and modulated by short-term interval training. Mech Ageing Dev 2021 Oct;199:111552. PMID: 34363832
  • Sun H, Li K, Zhang X, Liu J et al. m(6)Am-seq reveals the dynamic m(6)Am methylation in the human transcriptome. Nat Commun 2021 Aug 6;12(1):4778. PMID: 34362929
  • Duren Z, Lu WS, Arthur JG, Shah P et al. Sc-compReg enables the comparison of gene regulatory networks between conditions using single-cell data. Nat Commun 2021 Aug 6;12(1):4763. PMID: 34362918
  • Petley EV, Koay HF, Henderson MA, Sek K et al. MAIT cells regulate NK cell-mediated tumor immunity. Nat Commun 2021 Aug 6;12(1):4746. PMID: 34362900
  • Ashok C, Ahuja N, Natua S, Mishra J et al. E2F1 and epigenetic modifiers orchestrate breast cancer progression by regulating oxygen-dependent ESRP1 expression. Oncogenesis 2021 Aug 6;10(8):58. PMID: 34362878
  • Pessoa Rodrigues C, Akhtar A et al. Differential H4K16ac levels ensure a balance between quiescence and activation in hematopoietic stem cells. Sci Adv 2021 Aug;7(32). PMID: 34362741
  • Tao W, Tian G, Xu S, Li J et al. NAT10 as a potential prognostic biomarker and therapeutic target for HNSCC. Cancer Cell Int 2021 Aug 6;21(1):413. PMID: 34362389
  • Qin X, Huang L, Chen S, Chen S et al. Multi-factor regulatory network and different clusters in hypertrophic obstructive cardiomyopathy. BMC Med Genomics 2021 Aug 6;14(1):199. PMID: 34362365
  • Barnes T, Korber P et al. The Active Mechanism of Nucleosome Depletion by Poly(dA:dT) Tracts In Vivo. Int J Mol Sci 2021 Jul 30;22(15). PMID: 34360997
  • Long C, Li H, Li X, Yang W et al. Nuclear Transfer Arrest Embryos Show Massive Dysregulation of Genes Involved in Transcription Pathways. Int J Mol Sci 2021 Jul 30;22(15). PMID: 34360962
  • Janisiak J, Kopytko P, Tkacz M, Rogińska D et al. Protein Arginine Methyltransferase (PRMT) Inhibitors-AMI-1 and SAH Are Effective in Attenuating Rhabdomyosarcoma Growth and Proliferation in Cell Cultures. Int J Mol Sci 2021 Jul 27;22(15). PMID: 34360791
  • Rojek J, Tucker MR, Rychłowski M, Nowakowska J et al. The Rab Geranylgeranyl Transferase Beta Subunit Is Essential for Embryo and Seed Development in Arabidopsis thaliana. Int J Mol Sci 2021 Jul 24;22(15). PMID: 34360673
  • Piao Y, Xu W, Park KH, Ryu KH et al. Comprehensive Evaluation of Differential Methylation Analysis Methods for Bisulfite Sequencing Data. Int J Environ Res Public Health 2021 Jul 28;18(15). PMID: 34360271
  • Meng F, Siu GK, Mok BW, Sun J et al. Viral MicroRNAs Encoded by Nucleocapsid Gene of SARS-CoV-2 Are Detected during Infection, and Targeting Metabolic Pathways in Host Cells. Cells 2021 Jul 12;10(7). PMID: 34359932
  • Pagin M, Pernebrink M, Pitasi M, Malighetti F et al. FOS Rescues Neuronal Differentiation of Sox2-Deleted Neural Stem Cells by Genome-Wide Regulation of Common SOX2 and AP1(FOS-JUN) Target Genes. Cells 2021 Jul 12;10(7). PMID: 34359927
  • Elazezy M, Schwentesius S, Stegat L, Wikman H et al. Emerging Insights into Keratin 16 Expression during Metastatic Progression of Breast Cancer. Cancers (Basel) 2021 Jul 31;13(15). PMID: 34359774
  • Modhukur V, Sharma S, Mondal M, Lawarde A et al. Machine Learning Approaches to Classify Primary and Metastatic Cancers Using Tissue of Origin-Based DNA Methylation Profiles. Cancers (Basel) 2021 Jul 27;13(15). PMID: 34359669
  • Ma S, Ren N, Huang Q et al. rs10514231 Leads to Breast Cancer Predisposition by Altering ATP6AP1L Gene Expression. Cancers (Basel) 2021 Jul 26;13(15). PMID: 34359652
  • Gong S, Tetti M, Reincke M, Williams TA et al. Primary Aldosteronism: Metabolic Reprogramming and the Pathogenesis of Aldosterone-Producing Adenomas. Cancers (Basel) 2021 Jul 23;13(15). PMID: 34359615
  • Cho HJ, Baek GO, Yoon MG, Ahn HR et al. Overexpressed Proteins in HCC Cell-Derived Exosomes, CCT8, and Cofilin-1 Are Potential Biomarkers for Patients with HCC. Diagnostics (Basel) 2021 Jul 6;11(7). PMID: 34359304
  • Ramakrishnan AB, Chen L, Burby PE, Cadigan KM et al. Wnt target enhancer regulation by a CDX/TCF transcription factor collective and a novel DNA motif. Nucleic Acids Res 2021 Sep 7;49(15):8625-8641. PMID: 34358319
  • Xu Y, Kong D, Li Z, Qian L et al. Screening and identification of key biomarkers of papillary renal cell carcinoma by bioinformatic analysis. PLoS One 2021;16(8):e0254868. PMID: 34358255
  • Huang CJ, Wang LH, Wang YC et al. Identification of Therapeutic Targets for the Selective Killing of HBV-Positive Hepatocytes. J Pers Med 2021 Jul 10;11(7). PMID: 34357116
  • Minati MA, Libert M, Dahou H, Jacquemin P et al. N-Acetylcysteine Reduces the Pro-Oxidant and Inflammatory Responses during Pancreatitis and Pancreas Tumorigenesis. Antioxidants (Basel) 2021 Jul 11;10(7). PMID: 34356340
  • Alatan H, Chen Y, Zhou J, Wang L et al. Extracellular Matrix-Related Hubs Genes Have Adverse Effects on Gastric Adenocarcinoma Prognosis Based on Bioinformatics Analysis. Genes (Basel) 2021 Jul 20;12(7). PMID: 34356118
  • Tarek M, Abdelzaher H, Kobeissy F, El-Fawal HAN et al. Bioinformatics Analysis of Allele Frequencies and Expression Patterns of ACE2, TMPRSS2 and FURIN in Different Populations and Susceptibility to SARS-CoV-2. Genes (Basel) 2021 Jul 5;12(7). PMID: 34356057
  • Xie X, Wang EC, Xu D, Shu X et al. Bioinformatics Analysis Reveals the Potential Diagnostic Biomarkers for Abdominal Aortic Aneurysm. Front Cardiovasc Med 2021;8:656263. PMID: 34355024
  • Xu D, Li T, Wang R, Mu R et al. Expression and Pathogenic Analysis of Integrin Family Genes in Systemic Sclerosis. Front Med (Lausanne) 2021;8:674523. PMID: 34355002
  • Zhu W, Xu J, Chen Z, Jiang J et al. Analyzing Roles of NUSAP1 From Clinical, Molecular Mechanism and Immune Perspectives in Hepatocellular Carcinoma. Front Genet 2021;12:689159. PMID: 34354737
  • Wang X, Yuan X, Su Y, Hu J et al. Targeting Purinergic Receptor P2RX1 Modulates Intestinal Microbiota and Alleviates Inflammation in Colitis. Front Immunol 2021;12:696766. PMID: 34354708
  • Liu L, Wang C, Li S, Qu Y et al. ERO1L Is a Novel and Potential Biomarker in Lung Adenocarcinoma and Shapes the Immune-Suppressive Tumor Microenvironment. Front Immunol 2021;12:677169. PMID: 34354701
  • Liu S, Ren W, Yu J, Li C et al. Identification of Hub Genes Associated with Diabetes Mellitus and Tuberculosis Using Bioinformatic Analysis. Int J Gen Med 2021;14:4061-4072. PMID: 34354368
  • Zhong A, Ding N, Zhou Y, Yang G et al. Identification of Hub Genes Associated with the Pathogenesis of Intracranial Aneurysm via Integrated Bioinformatics Analysis. Int J Gen Med 2021;14:4039-4050. PMID: 34354366
  • Zhang B, Chen G, Chen X, Yang X et al. Integrating Bioinformatic Strategies with Real-World Data to Infer Distinctive Immunocyte Infiltration Landscape and Immunologically Relevant Transcriptome Fingerprints in Ossification of Ligamentum Flavum. J Inflamm Res 2021;14:3665-3685. PMID: 34354364
  • McCarthy RL, Kaeding KE, Keller SH, Zhong Y et al. Diverse heterochromatin-associated proteins repress distinct classes of genes and repetitive elements. Nat Cell Biol 2021 Aug;23(8):905-914. PMID: 34354237
  • Golovina E, Fadason T, Lints TJ, Walker C et al. Understanding the impact of SNPs associated with autism spectrum disorder on biological pathways in the human fetal and adult cortex. Sci Rep 2021 Aug 5;11(1):15867. PMID: 34354167
  • Subramanian C, Cohen MS et al. Identification of novel lipid metabolic biomarkers associated with poor adrenocortical carcinoma prognosis using integrated bioinformatics. Surgery 2022 Jan;171(1):119-129. PMID: 34353633
  • Jiang M, Qi L, Jin K, Li L et al. eEF2K as a novel metastatic and prognostic biomarker in gastric cancer patients. Pathol Res Pract 2021 Sep;225:153568. PMID: 34352439
  • Schreiber V, Mercier R, Jiménez S, Ye T et al. Extensive NEUROG3 occupancy in the human pancreatic endocrine gene regulatory network. Mol Metab 2021 Nov;53:101313. PMID: 34352411
  • Cirillo PDR, Margiotti K, Fabiani M, Barros-Filho MC et al. Multi-analytical test based on serum miRNAs and proteins quantification for ovarian cancer early detection. PLoS One 2021;16(8):e0255804. PMID: 34352040
  • Menzel M, Akbarshahi H, Mahmutovic Persson I, Andersson C et al. NFκB1 Dichotomously Regulates Pro-Inflammatory and Antiviral Responses in Asthma. J Innate Immun 2022;14(3):182-191. PMID: 34350857
  • Lahmann I, Griger J, Chen JS, Zhang Y et al. Met and Cxcr4 cooperate to protect skeletal muscle stem cells against inflammation-induced damage during regeneration. Elife 2021 Aug 5;10. PMID: 34350830
  • Gong J, Tang W, Lv B, Zhang S et al. ARHGEF3 Associated with Invasion, Metastasis, and Proliferation in Human Osteosarcoma. Biomed Res Int 2021;2021:3381957. PMID: 34350290
  • Cheng L, Yuan M, Li S, Lian Z et al. Identification of an IFN-β-associated gene signature for the prediction of overall survival among glioblastoma patients. Ann Transl Med 2021 Jun;9(11):925. PMID: 34350240
  • Sui Y, Liu J, Zhang J, Zheng Z et al. Expression and Gene Regulation Network of Adenosine Receptor A2B in Lung Adenocarcinoma: A Potential Diagnostic and Prognostic Biomarker. Front Mol Biosci 2021;8:663011. PMID: 34350210
  • Li Y, Liu M, Zhang Z, Deng L et al. QSOX2 Is an E2F1 Target Gene and a Novel Serum Biomarker for Monitoring Tumor Growth and Predicting Survival in Advanced NSCLC. Front Cell Dev Biol 2021;9:688798. PMID: 34350181
  • Rao B, Li J, Ren T, Yang J et al. RPL19 Is a Prognostic Biomarker and Promotes Tumor Progression in Hepatocellular Carcinoma. Front Cell Dev Biol 2021;9:686547. PMID: 34350180
  • Wu Y, Liang X, Ni J, Zhao R et al. Effect of ISM1 on the Immune Microenvironment and Epithelial-Mesenchymal Transition in Colorectal Cancer. Front Cell Dev Biol 2021;9:681240. PMID: 34350177
  • Xian D, Niu L, Zeng J, Wang L et al. LncRNA KCNQ1OT1 Secreted by Tumor Cell-Derived Exosomes Mediates Immune Escape in Colorectal Cancer by Regulating PD-L1 Ubiquitination via MiR-30a-5p/USP22. Front Cell Dev Biol 2021;9:653808. PMID: 34350172
  • Wei FZ, Mei SW, Wang ZJ, Chen JN et al. Development and Validation of a Nomogram and a Comprehensive Prognostic Analysis of an LncRNA-Associated Competitive Endogenous RNA Network Based on Immune-Related Genes for Locally Advanced Rectal Cancer With Neoadjuvant Therapy. Front Oncol 2021;11:697948. PMID: 34350117
  • Orita F, Ishikawa T, Ishiguro M, Okazaki S et al. PHLDA1 expression in ulcerative colitis: A potential role in the management of dysplasia. Mol Clin Oncol 2021 Sep;15(3):192. PMID: 34349991
  • Jin F, Li L, Hao Y, Tang L et al. Identification of Candidate Blood mRNA Biomarkers in Intracerebral Hemorrhage Using Integrated Microarray and Weighted Gene Co-expression Network Analysis. Front Genet 2021;12:707713. PMID: 34349791
  • Liang Q, Chang Y, Liu J, Yu Y et al. P-Rex1 Cooperates With TGFβR2 to Drive Lung Fibroblast Migration in Pulmonary Fibrosis. Front Pharmacol 2021;12:678733. PMID: 34349645
  • Ren B, Yang J, Wang C, Yang G et al. High-resolution Hi-C maps highlight multiscale 3D epigenome reprogramming during pancreatic cancer metastasis. J Hematol Oncol 2021 Aug 4;14(1):120. PMID: 34348759
  • Xiong F, Wu GH, Wang B, Chen YJ et al. Plastin-3 is a diagnostic and prognostic marker for pancreatic adenocarcinoma and distinguishes from diffuse large B-cell lymphoma. Cancer Cell Int 2021 Aug 4;21(1):411. PMID: 34348730
  • Jiang J, Gao G, Wang Q et al. Levels of SERPIN family proteins in peri-implant crevicular fluid in patients with peri-implantitis. J Clin Lab Anal 2021 Sep;35(9):e23926. PMID: 34347896
  • Xie LM, Yin X, Bi J, Luo HM et al. Identification of potential biomarkers in dengue via integrated bioinformatic analysis. PLoS Negl Trop Dis 2021 Aug;15(8):e0009633. PMID: 34347790
  • Wang P, Wang B, Zhang Z, Wang Z et al. Identification of inflammation-related DNA methylation biomarkers in periodontitis patients based on weighted co-expression analysis. Aging (Albany NY) 2021 Aug 4;13(15):19678-19695. PMID: 34347624
  • Silva-Gomes R, Mapelli SN, Boutet MA, Mattiola I et al. Differential expression and regulation of MS4A family members in myeloid cells in physiological and pathological conditions. J Leukoc Biol 2022 Apr;111(4):817-836. PMID: 34346525
  • Xiong H, Yu J, Jia G, Su Y et al. Emerging roles of circUBAP2 targeting miR-370-3p in proliferation, apoptosis, and invasion of papillary thyroid cancer cells. Hum Cell 2021 Nov;34(6):1866-1877. PMID: 34346032
  • Zhang W, Zeng B, Lin H, Guan W et al. CanImmunother: a manually curated database for identification of cancer immunotherapies associating with biomarkers, targets, and clinical effects. Oncoimmunology 2021;10(1):1944553. PMID: 34345532
  • Jia Y, Li HY, Wang Y, Wang J et al. Crosstalk between hypoxia-sensing ULK1/2 and YAP-driven glycolysis fuels pancreatic ductal adenocarcinoma development. Int J Biol Sci 2021;17(11):2772-2794. PMID: 34345207
  • Liu F, Dong J, Zhou D, Zhang Q et al. Identification of Key Candidate Genes Related to Inflammatory Osteolysis Associated with Vitamin E-Blended UHMWPE Debris of Orthopedic Implants by Integrated Bioinformatics Analysis and Experimental Confirmation. J Inflamm Res 2021;14:3537-3554. PMID: 34345178
  • Zeng Z, Li J, Zhang J, Li Y et al. Immune and stromal scoring system associated with tumor microenvironment and prognosis: a gene-based multi-cancer analysis. J Transl Med 2021 Aug 3;19(1):330. PMID: 34344410
  • Lubbers RJM, Dilokpimol A, Nousiainen PA, Cioc RC et al. Vanillic acid and methoxyhydroquinone production from guaiacyl units and related aromatic compounds using Aspergillus niger cell factories. Microb Cell Fact 2021 Aug 3;20(1):151. PMID: 34344380
  • Xu Y, Zhang Z, Xu D, Yang X et al. Identification and integrative analysis of ACLY and related gene panels associated with immune microenvironment reveal prognostic significance in hepatocellular carcinoma. Cancer Cell Int 2021 Aug 3;21(1):409. PMID: 34344378
  • Lu Y, Wang W, Liu Z, Ma J et al. Long non-coding RNA profile study identifies a metabolism-related signature for colorectal cancer. Mol Med 2021 Aug 3;27(1):83. PMID: 34344319
  • Yang Z, Sun H, Ma W, Wu K et al. Down-regulation of Polo-like kinase 4 (PLK4) induces G1 arrest via activation of the p38/p53/p21 signaling pathway in bladder cancer. FEBS Open Bio 2021 Sep;11(9):2631-2646. PMID: 34342940
  • Duan J, Rieder L, Colonnetta MM, Huang A et al. CLAMP and Zelda function together to promote Drosophila zygotic genome activation. Elife 2021 Aug 3;10. PMID: 34342574
  • Jog R, Chen G, Wang J, Leff T et al. Hormonal regulation of glycine decarboxylase and its relationship to oxidative stress. Physiol Rep 2021 Aug;9(15):e14991. PMID: 34342168
  • Zirbes A, Joseph J, Lopez JC, Sayaman RW et al. Changes in Immune Cell Types with Age in Breast are Consistent with a Decline in Immune Surveillance and Increased Immunosuppression. J Mammary Gland Biol Neoplasia 2021 Sep;26(3):247-261. PMID: 34341887
  • Malato J, Sotzny F, Bauer S, Freitag H et al. The SARS-CoV-2 receptor angiotensin-converting enzyme 2 (ACE2) in myalgic encephalomyelitis/chronic fatigue syndrome: A meta-analysis of public DNA methylation and gene expression data. Heliyon 2021 Aug;7(8):e07665. PMID: 34341773
  • Galkin F, Mamoshina P, Kochetov K, Sidorenko D et al. DeepMAge: A Methylation Aging Clock Developed with Deep Learning. Aging Dis 2021 Aug;12(5):1252-1262. PMID: 34341706
  • Lyu Y, Zauhar R, Dana N, Strang CE et al. Implication of specific retinal cell-type involvement and gene expression changes in AMD progression using integrative analysis of single-cell and bulk RNA-seq profiling. Sci Rep 2021 Aug 2;11(1):15612. PMID: 34341398
  • Pan P, Shen M, Yu Z, Ge W et al. SARS-CoV-2 N protein promotes NLRP3 inflammasome activation to induce hyperinflammation. Nat Commun 2021 Aug 2;12(1):4664. PMID: 34341353
  • Shaker MR, Aguado J, Chaggar HK, Wolvetang EJ et al. Klotho inhibits neuronal senescence in human brain organoids. NPJ Aging Mech Dis 2021 Aug 2;7(1):18. PMID: 34341344
  • Gunasekara CJ, Hannon E, MacKay H, Coarfa C et al. A machine learning case-control classifier for schizophrenia based on DNA methylation in blood. Transl Psychiatry 2021 Aug 3;11(1):412. PMID: 34341337
  • Yang X, Weng X, Yang Y, Zhang M et al. A combined hypoxia and immune gene signature for predicting survival and risk stratification in triple-negative breast cancer. Aging (Albany NY) 2021 Aug 2;13(15):19486-19509. PMID: 34341184
  • Zhao Z, Szczepanski AP, Tsuboyama N, Abdala-Valencia H et al. PAX9 Determines Epigenetic State Transition and Cell Fate in Cancer. Cancer Res 2021 Sep 15;81(18):4696-4708. PMID: 34341073
  • Udhaya Kumar S, Madhana Priya N, Thirumal Kumar D, Anu Preethi V et al. An integrative analysis to distinguish between emphysema (EML) and alpha-1 antitrypsin deficiency-related emphysema (ADL)-A systems biology approach. Adv Protein Chem Struct Biol 2021;127:315-342. PMID: 34340772
  • Pan DZ, Miao Z, Comenho C, Rajkumar S et al. Identification of TBX15 as an adipose master trans regulator of abdominal obesity genes. Genome Med 2021 Aug 2;13(1):123. PMID: 34340684
  • Yu Q, Wang X, Yang Y, Chi P et al. Upregulated NLGN1 predicts poor survival in colorectal cancer. BMC Cancer 2021 Aug 2;21(1):884. PMID: 34340665
  • Oropeza D, Cigliola V, Romero A, Chera S et al. Stage-specific transcriptomic changes in pancreatic α-cells after massive β-cell loss. BMC Genomics 2021 Aug 2;22(1):585. PMID: 34340653
  • Zhu X, Guo W et al. Meta-Analyses of Multiple Gene Expression Profiles to Screen Hub Genes Related to Osteoarthritis. Public Health Genomics 2021;24(5-6):267-279. PMID: 34340232
  • Sisakht M, Solhjoo A, Mahmoodzadeh A, Fathalipour M et al. Potential inhibitors of the main protease of SARS-CoV-2 and modulators of arachidonic acid pathway: Non-steroidal anti-inflammatory drugs against COVID-19. Comput Biol Med 2021 Sep;136:104686. PMID: 34340125
  • Islam MB, Chowdhury UN, Nain Z, Uddin S et al. Identifying molecular insight of synergistic complexities for SARS-CoV-2 infection with pre-existing type 2 diabetes. Comput Biol Med 2021 Sep;136:104668. PMID: 34340124
  • Pfaff J, Reinwald H, Ayobahan SU, Alvincz J et al. Toxicogenomic differentiation of functional responses to fipronil and imidacloprid in Daphnia magna. Aquat Toxicol 2021 Jul 27;238:105927. PMID: 34340001
  • Ren J, Wang A, Liu J, Yuan Q et al. Identification and validation of a novel redox-related lncRNA prognostic signature in lung adenocarcinoma. Bioengineered 2021 Dec;12(1):4331-4348. PMID: 34338158
  • Chen X, Sun G, Tian E, Zhang M et al. Modeling Sporadic Alzheimer's Disease in Human Brain Organoids under Serum Exposure. Adv Sci (Weinh) 2021 Sep;8(18):e2101462. PMID: 34337898
  • Miralaei N, Majd A, Ghaedi K, Peymani M et al. Integrated pan-cancer of AURKA expression and drug sensitivity analysis reveals increased expression of AURKA is responsible for drug resistance. Cancer Med 2021 Sep;10(18):6428-6441. PMID: 34337875
  • Raman S, Buongervino SN, Lane MV, Zhelev DV et al. A GPC2 antibody-drug conjugate is efficacious against neuroblastoma and small-cell lung cancer via binding a conformational epitope. Cell Rep Med 2021 Jul 20;2(7):100344. PMID: 34337560
  • Van Wyngene L, Vanderhaeghen T, Petta I, Timmermans S et al. ZBTB32 performs crosstalk with the glucocorticoid receptor and is crucial in glucocorticoid responses to starvation. iScience 2021 Jul 23;24(7):102790. PMID: 34337361
  • Moss A, Robbins S, Achanta S, Kuttippurathu L et al. A single cell transcriptomics map of paracrine networks in the intrinsic cardiac nervous system. iScience 2021 Jul 23;24(7):102713. PMID: 34337356
  • Jiang F, Miao XL, Zhang XT, Yan F et al. A Hypoxia Gene-Based Signature to Predict the Survival and Affect the Tumor Immune Microenvironment of Osteosarcoma in Children. J Immunol Res 2021;2021:5523832. PMID: 34337075
  • Liu J, Han F, Ding J, Liang X et al. Identification of Multiple Hub Genes and Pathways in Hepatocellular Carcinoma: A Bioinformatics Analysis. Biomed Res Int 2021;2021:8849415. PMID: 34337056
  • Wang Y, Zhang L, Wang B, Cheng Y et al. Construction of Immune-Associated Nomogram for Predicting the Recurrence Survival Risk of Stage I Cervical Cancer. Biomed Res Int 2021;2021:6699131. PMID: 34337046
  • Zhang M, Dai R, Zhao Q, Zhou L et al. Identification of Key Biomarkers and Immune Infiltration in Systemic Juvenile Idiopathic Arthritis by Integrated Bioinformatic Analysis. Front Mol Biosci 2021;8:681526. PMID: 34336925
  • Qiu Z, Jiang H, Ju K, Liu X et al. A Novel RNA-Binding Protein Signature to Predict Clinical Outcomes and Guide Clinical Therapy in Gastric Cancer. Front Med (Lausanne) 2021;8:670141. PMID: 34336882
  • Peng B, Li H, Na R, Lu T et al. Identification of a Novel Prognostic Signature of Genome Instability-Related LncRNAs in Early Stage Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:706454. PMID: 34336859
  • Zhang P, Liu G, Lu L et al. N6-Methylandenosine-Related lncRNA Signature Is a Novel Biomarkers of Prognosis and Immune Response in Colon Adenocarcinoma Patients. Front Cell Dev Biol 2021;9:703629. PMID: 34336856
  • Wang X, Wang L, Xu W, Wang X et al. Classification of Osteosarcoma Based on Immunogenomic Profiling. Front Cell Dev Biol 2021;9:696878. PMID: 34336848
  • Wang W, Jiang Z, Zhang D, Fu L et al. Comparative Transcriptional Analysis of Pulmonary Arterial Hypertension Associated With Three Different Diseases. Front Cell Dev Biol 2021;9:672159. PMID: 34336829
  • Wei J, Wang B, Gao X, Sun D et al. Prognostic Value of a Novel Signature With Nine Hepatitis C Virus-Induced Genes in Hepatic Cancer by Mining GEO and TCGA Databases. Front Cell Dev Biol 2021;9:648279. PMID: 34336819
  • Yu D, Yang X, Lin J, Cao Z et al. Super-Enhancer Induced IL-20RA Promotes Proliferation/Metastasis and Immune Evasion in Colorectal Cancer. Front Oncol 2021;11:724655. PMID: 34336707
  • Li Z, Chen C, Chen L, Hu D et al. STAT5a Confers Doxorubicin Resistance to Breast Cancer by Regulating ABCB1. Front Oncol 2021;11:697950. PMID: 34336684
  • Cui H, Weng Y, Ding N, Cheng C et al. Autophagy-Related Three-Gene Prognostic Signature for Predicting Survival in Esophageal Squamous Cell Carcinoma. Front Oncol 2021;11:650891. PMID: 34336650
  • Su L, Zhang G, Kong X et al. A Novel Five-Gene Signature for Prognosis Prediction in Hepatocellular Carcinoma. Front Oncol 2021;11:642563. PMID: 34336648
  • Zhan T, Gao X, Wang G, Li F et al. Construction of Novel lncRNA-miRNA-mRNA Network Associated With Recurrence and Identification of Immune-Related Potential Regulatory Axis in Hepatocellular Carcinoma. Front Oncol 2021;11:626663. PMID: 34336642
  • Sun B, Guo X, Wen X, Xie YB et al. Application of weighted gene co-expression network analysis to identify the hub genes in H1N1. Int J Physiol Pathophysiol Pharmacol 2021;13(3):69-85. PMID: 34336131
  • Huang F, Tang W, Lei Y et al. MicroRNA-107 promotes apoptosis of acute myelocytic leukemia cells by targeting RAD51. Arch Med Sci 2021;17(4):1044-1055. PMID: 34336032
  • Mukha A, Kahya U, Linge A, Chen O et al. GLS-driven glutamine catabolism contributes to prostate cancer radiosensitivity by regulating the redox state, stemness and ATG5-mediated autophagy. Theranostics 2021;11(16):7844-7868. PMID: 34335968
  • Meng F, Du N, Xu D, Kuai L et al. Bioinformatics Analysis of the Molecular Mechanism and Potential Treatment Target of Ankylosing Spondylitis. Comput Math Methods Med 2021;2021:7471291. PMID: 34335866
  • Liu XS, Zhou LM, Yuan LL, Gao Y et al. NPM1 Is a Prognostic Biomarker Involved in Immune Infiltration of Lung Adenocarcinoma and Associated With m6A Modification and Glycolysis. Front Immunol 2021;12:724741. PMID: 34335635
  • Yang C, Cao F, Huang S, Zheng Y et al. Follistatin-Like 3 Correlates With Lymph Node Metastasis and Serves as a Biomarker of Extracellular Matrix Remodeling in Colorectal Cancer. Front Immunol 2021;12:717505. PMID: 34335633
  • Li R, He Y, Zhang H, Wang J et al. Identification and Validation of Immune Molecular Subtypes in Pancreatic Ductal Adenocarcinoma: Implications for Prognosis and Immunotherapy. Front Immunol 2021;12:690056. PMID: 34335594
  • Rocque B, Barbetta A, Singh P, Goldbeck C et al. Creation of a Single Cell RNASeq Meta-Atlas to Define Human Liver Immune Homeostasis. Front Immunol 2021;12:679521. PMID: 34335581
  • Yao M, Zhang C, Gao C, Wang Q et al. Exploration of the Shared Gene Signatures and Molecular Mechanisms Between Systemic Lupus Erythematosus and Pulmonary Arterial Hypertension: Evidence From Transcriptome Data. Front Immunol 2021;12:658341. PMID: 34335565
  • Li G, Du X, Wu X, Wu S et al. Large-Scale Transcriptome Analysis Identified a Novel Cancer Driver Genes Signature for Predicting the Prognostic of Patients With Hepatocellular Carcinoma. Front Pharmacol 2021;12:638622. PMID: 34335239
  • MacDonald A, Lu B, Caron M, Caporicci-Dinucci N et al. Single Cell Transcriptomics of Ependymal Cells Across Age, Region and Species Reveals Cilia-Related and Metal Ion Regulatory Roles as Major Conserved Ependymal Cell Functions. Front Cell Neurosci 2021;15:703951. PMID: 34335193
  • Chou TW, Chang NP, Krishnagiri M, Patel AP et al. Fibrillar α-synuclein induces neurotoxic astrocyte activation via RIP kinase signaling and NF-κB. Cell Death Dis 2021 Jul 31;12(8):756. PMID: 34333522
  • Moolamalla STR, Balasubramanian R, Chauhan R, Priyakumar UD et al. Host metabolic reprogramming in response to SARS-CoV-2 infection: A systems biology approach. Microb Pathog 2021 Sep;158:105114. PMID: 34333072
  • Liu X, Yao L, Qu J, Liu L et al. Cancer-associated fibroblast infiltration in gastric cancer: the discrepancy in subtypes pathways and immunosuppression. J Transl Med 2021 Jul 31;19(1):325. PMID: 34332586
  • Cheng X, Wang J, Lu S, Fan W et al. Aurora kinase A (AURKA) promotes the progression and imatinib resistance of advanced gastrointestinal stromal tumors. Cancer Cell Int 2021 Jul 31;21(1):407. PMID: 34332577
  • Zhang T, Zhai J, Zhang X, Ling L et al. Interactive Web-based Annotation of Plant MicroRNAs with iwa-miRNA. Genomics Proteomics Bioinformatics 2022 Jun;20(3):557-567. PMID: 34332120
  • Wang J, Sun Z, Wang J, Tian Q et al. Expression and prognostic potential of PLEK2 in head and neck squamous cell carcinoma based on bioinformatics analysis. Cancer Med 2021 Sep;10(18):6515-6533. PMID: 34331382
  • Thomson-Luque R, Votborg-Novél L, Ndovie W, Andrade CM et al. Plasmodium falciparum transcription in different clinical presentations of malaria associates with circulation time of infected erythrocytes. Nat Commun 2021 Jul 30;12(1):4711. PMID: 34330920
  • Laliotis GI, Chavdoula E, Paraskevopoulou MD, Kaba A et al. AKT3-mediated IWS1 phosphorylation promotes the proliferation of EGFR-mutant lung adenocarcinomas through cell cycle-regulated U2AF2 RNA splicing. Nat Commun 2021 Jul 30;12(1):4624. PMID: 34330897
  • Menon S, Salhotra A, Shailendra S, Tevlin R et al. Skeletal stem and progenitor cells maintain cranial suture patency and prevent craniosynostosis. Nat Commun 2021 Jul 30;12(1):4640. PMID: 34330896
  • Ferreira M, Francisco S, Soares AR, Nobre A et al. Integration of segmented regression analysis with weighted gene correlation network analysis identifies genes whose expression is remodeled throughout physiological aging in mouse tissues. Aging (Albany NY) 2021 Jul 29;13(14):18150-18190. PMID: 34330884
  • Liang Y, Lu Q, Li W, Zhang D et al. Reactivation of tumour suppressor in breast cancer by enhancer switching through NamiRNA network. Nucleic Acids Res 2021 Sep 7;49(15):8556-8572. PMID: 34329471
  • Yuan W, Al-Hadid Q, Wang Z, Shen L et al. TDRD3 promotes DHX9 chromatin recruitment and R-loop resolution. Nucleic Acids Res 2021 Sep 7;49(15):8573-8591. PMID: 34329467
  • Charlesworth AG, Seroussi U, Lehrbach NJ, Renaud MS et al. Two isoforms of the essential C. elegans Argonaute CSR-1 differentially regulate sperm and oocyte fertility. Nucleic Acids Res 2021 Sep 7;49(15):8836-8865. PMID: 34329465
  • Jiang Y, Zhang C, Shen W, Li Y et al. Identification of serum prognostic marker miRNAs and construction of microRNA-mRNA networks of esophageal cancer. PLoS One 2021;16(7):e0255479. PMID: 34329340
  • Fu Q, Lee KM, Huai G, Deng K et al. Properties of regulatory B cells regulating B cell targets. Am J Transplant 2021 Dec;21(12):3847-3857. PMID: 34327838
  • Blanco E, Di Croce L, Aranda S et al. SpikChIP: a novel computational methodology to compare multiple ChIP-seq using spike-in chromatin. NAR Genom Bioinform 2021 Sep;3(3):lqab064. PMID: 34327329
  • Yin J, Li X, Lv C, He X et al. Immune-Related lncRNA Signature for Predicting the Immune Landscape of Head and Neck Squamous Cell Carcinoma. Front Mol Biosci 2021;8:689224. PMID: 34327215
  • Mihailovic MK, Ekdahl AM, Chen A, Leistra AN et al. Uncovering Transcriptional Regulators and Targets of sRNAs Using an Integrative Data-Mining Approach: H-NS-Regulated RseX as a Case Study. Front Cell Infect Microbiol 2021;11:696533. PMID: 34327153
  • Gui H, Gong Q, Jiang J, Liu M et al. Identification of the Hub Genes in Alzheimer's Disease. Comput Math Methods Med 2021;2021:6329041. PMID: 34326892
  • Qing M, Zhou J, Chen W, Cheng L et al. Highly Expressed CYBRD1 Associated with Glioma Recurrence Regulates the Immune Response of Glioma Cells to Interferon. Evid Based Complement Alternat Med 2021;2021:2793222. PMID: 34326882
  • Hu C, Cao Y, Li P, Tang X et al. Oleanolic Acid Induces Autophagy and Apoptosis via the AMPK-mTOR Signaling Pathway in Colon Cancer. J Oncol 2021;2021:8281718. PMID: 34326874
  • Jiang Q, Shi L et al. Coordination of the Uptake and Metabolism of Amino Acids in Mycobacterium tuberculosis-Infected Macrophages. Front Immunol 2021;12:711462. PMID: 34326848
  • Zhu T, Su Q, Wang C, Shen L et al. SDF4 Is a Prognostic Factor for 28-Days Mortality in Patients With Sepsis via Negatively Regulating ER Stress. Front Immunol 2021;12:659193. PMID: 34326834
  • Zhao X, Li H, Lyu S, Zhai J et al. Single-cell transcriptomics reveals heterogeneous progression and EGFR activation in pancreatic adenosquamous carcinoma. Int J Biol Sci 2021;17(10):2590-2605. PMID: 34326696
  • Li Q, Lu M, Zhang Z, Zhang R et al. Single-Cell Sequencing to Identify Six Heat Shock Protein (HSP) Genes-Mediated Progression Subtypes of Clear Cell Renal Cell Carcinoma. Int J Gen Med 2021;14:3761-3773. PMID: 34326662
  • Meiler A, Marchiano F, Haering M, Weitkunat M et al. AnnoMiner is a new web-tool to integrate epigenetics, transcription factor occupancy and transcriptomics data to predict transcriptional regulators. Sci Rep 2021 Jul 29;11(1):15463. PMID: 34326396
  • Vishnubalaji R, Alajez NM et al. Epigenetic regulation of triple negative breast cancer (TNBC) by TGF-β signaling. Sci Rep 2021 Jul 29;11(1):15410. PMID: 34326372
  • Zhang Y, Brown K, Yu Y, Ibrahim Z et al. Nuclear condensates of p300 formed though the structured catalytic core can act as a storage pool of p300 with reduced HAT activity. Nat Commun 2021 Jul 29;12(1):4618. PMID: 34326347
  • Herbrich S, Baran N, Cai T, Weng C et al. Overexpression of CD200 is a Stem Cell-Specific Mechanism of Immune Evasion in AML. J Immunother Cancer 2021 Jul;9(7). PMID: 34326171
  • Arnold M, Bressin A, Jasnovidova O, Meierhofer D et al. A BRD4-mediated elongation control point primes transcribing RNA polymerase II for 3'-processing and termination. Mol Cell 2021 Sep 2;81(17):3589-3603.e13. PMID: 34324863
  • He Y, Xu R, Peng L, Hu X et al. Tumor infiltrating lymphocytes associated competitive endogenous RNA networks as predictors of outcome in hepatic carcinoma based on WGCNA analysis. PLoS One 2021;16(7):e0254829. PMID: 34324544
  • Master A, Kontzias A, Huang L, Huang W et al. The transcriptome of rabbit conjunctiva in dry eye disease: Large-scale changes and similarity to the human dry eye. PLoS One 2021;16(7):e0254036. PMID: 34324523
  • Qin J, Xu Z, Deng K, Qin F et al. Development of a gene signature associated with iron metabolism in lung adenocarcinoma. Bioengineered 2021 Dec;12(1):4556-4568. PMID: 34323652
  • Kim S, Reed E, Monti S, Schlezinger JJ et al. A Data-Driven Transcriptional Taxonomy of Adipogenic Chemicals to Identify White and Brite Adipogens. Environ Health Perspect 2021 Jul;129(7):77006. PMID: 34323617
  • Chung HC, Cho EJ, Lee H, Kim WK et al. Integrated single-cell RNA sequencing analyses suggest developmental paths of cancer-associated fibroblasts with gene expression dynamics. Clin Transl Med 2021 Jul;11(7):e487. PMID: 34323427
  • Shi L, Hou J, Wang L, Fu H et al. Regulatory roles of osteopontin in human lung cancer cell epithelial-to-mesenchymal transitions and responses. Clin Transl Med 2021 Jul;11(7):e486. PMID: 34323425
  • Lau CI, Rowell J, Yanez DC, Solanki A et al. The pioneer transcription factors Foxa1 and Foxa2 regulate alternative RNA splicing during thymocyte positive selection. Development 2021 Aug 1;148(15). PMID: 34323272
  • Blazie SM, Takayanagi-Kiya S, McCulloch KA, Jin Y et al. Eukaryotic initiation factor EIF-3.G augments mRNA translation efficiency to regulate neuronal activity. Elife 2021 Jul 29;10. PMID: 34323215
  • Tang X, Wu Y, Yang J, Zhu W et al. Regulating COX10-AS1 / miR-142-5p / PAICS axis inhibits the proliferation of non-small cell lung cancer. Bioengineered 2021 Dec;12(1):4643-4653. PMID: 34323174
  • Zhang L, Sun W, Ren W, Zhang J et al. Predicting Panel of Metabolism and Immune-Related Genes for the Prognosis of Human Ovarian Cancer. Front Cell Dev Biol 2021;9:690542. PMID: 34322485
  • Lu L, Zhang S, Song Z, Lu W et al. Long Non-Coding RNA LINC01410 Promoted Tumor Progression via the ErbB Signaling Pathway by Targeting STAT5 in Gallbladder Cancer. Front Oncol 2021;11:659123. PMID: 34322379
  • Ruffner MA, Zhang Z, Maurer K, Muir AB et al. RNA sequencing identifies global transcriptional changes in peripheral CD4(+) cells during active oesophagitis and following epicutaneous immunotherapy in eosinophilic oesophagitis. Clin Transl Immunology 2021;10(7):e1314. PMID: 34322233
  • Chen X, Zhang Q, Chekouo T et al. Filtering High-Dimensional Methylation Marks With Extremely Small Sample Size: An Application to Gastric Cancer Data. Front Genet 2021;12:705708. PMID: 34322159
  • Shen Y, Li L, Lu Y, Zhang M et al. Establishment and Validation of a Comprehensive Prognostic Model for Patients With HNSCC Metastasis. Front Genet 2021;12:685104. PMID: 34322156
  • Liu S, Cai Y, Changyong E, Sheng J et al. Screening and Validation of Independent Predictors of Poor Survival in Pancreatic Cancer. Pathol Oncol Res 2021;27:1609868. PMID: 34321959
  • Belaish S, Israel-Elgali I, Shapira G, Krieger I et al. Genome wide analysis implicates upregulation of proteasome pathway in major depressive disorder. Transl Psychiatry 2021 Jul 28;11(1):409. PMID: 34321460
  • Sun Y, Chen W, Torphy RJ, Yao S et al. Blockade of the CD93 pathway normalizes tumor vasculature to facilitate drug delivery and immunotherapy. Sci Transl Med 2021 Jul 28;13(604). PMID: 34321321
  • Lee JH, Hong J, Zhang Z, de la Peña Avalos B et al. Regulation of telomere homeostasis and genomic stability in cancer by N (6)-adenosine methylation (m(6)A). Sci Adv 2021 Jul;7(31). PMID: 34321211
  • Karlsson M, Zhang C, Méar L, Zhong W et al. A single-cell type transcriptomics map of human tissues. Sci Adv 2021 Jul;7(31). PMID: 34321199
  • Achinko DA, Dormer A, Narayanan M, Norman EF et al. Targeted immune epitope prediction to HHLA2 and MAGEB5 protein variants as therapeutic approach to related viral diseases. BMC Immunol 2021 Jul 28;22(1):49. PMID: 34320928
  • Zhao J, Zhao Y, Ding S, Liu T et al. Low CBS expression can identify patients who benefit from adjuvant chemotherapy in gastric cancer. Expert Rev Anticancer Ther 2021 Nov;21(11):1287-1298. PMID: 34320879
  • Rahaman M, Komanapalli J, Mukherjee M, Byram PK et al. Decrypting the role of predicted SARS-CoV-2 miRNAs in COVID-19 pathogenesis: A bioinformatics approach. Comput Biol Med 2021 Sep;136:104669. PMID: 34320442
  • Jochems F, Thijssen B, De Conti G, Jansen R et al. The Cancer SENESCopedia: A delineation of cancer cell senescence. Cell Rep 2021 Jul 27;36(4):109441. PMID: 34320349
  • Huang B, Wu G, Peng C, Peng X et al. miR-126 regulates the proliferation, migration, invasion, and apoptosis of non-small lung cancer cells via AKT2/HK2 axis. IUBMB Life 2023 Mar;75(3):186-195. PMID: 34320278
  • Kollmann S, Grausenburger R, Klampfl T, Prchal-Murphy M et al. A STAT5B-CD9 axis determines self-renewal in hematopoietic and leukemic stem cells. Blood 2021 Dec 9;138(23):2347-2359. PMID: 34320169
  • Sahoo S, Mishra A, Kaur H, Hari K et al. A mechanistic model captures the emergence and implications of non-genetic heterogeneity and reversible drug resistance in ER+ breast cancer cells. NAR Cancer 2021 Sep;3(3):zcab027. PMID: 34316714
  • Beneventi G, Munita R, Cao Thi Ngoc P, Madej M et al. The small Cajal body-specific RNA 15 (SCARNA15) directs p53 and redox homeostasis via selective splicing in cancer cells. NAR Cancer 2021 Sep;3(3):zcab026. PMID: 34316713
  • Sun X, Yang J, Yu M, Yao D et al. Global identification and characterization of tRNA-derived RNA fragment landscapes across human cancers. NAR Cancer 2020 Dec;2(4):zcaa031. PMID: 34316691
  • Bertorello J, Sesen J, Gilhodes J, Evrard S et al. Translation reprogramming by eIF3 linked to glioblastoma resistance. NAR Cancer 2020 Sep;2(3):zcaa020. PMID: 34316689
  • Rahmatpanah F, Robles G, Lilly M, Keane T et al. RNA expression differences in prostate tumors and tumor-adjacent stroma between Black and White Americans. Oncotarget 2021 Jul 20;12(15):1457-1469. PMID: 34316327
  • Zhang M, Wang C, Oberstaller J, Thomas P et al. The apicoplast link to fever-survival and artemisinin-resistance in the malaria parasite. Nat Commun 2021 Jul 27;12(1):4563. PMID: 34315897
  • Lee JS, Koh JY, Yi K, Kim YI et al. Single-cell transcriptome of bronchoalveolar lavage fluid reveals sequential change of macrophages during SARS-CoV-2 infection in ferrets. Nat Commun 2021 Jul 27;12(1):4567. PMID: 34315893
  • Norrie JL, Nityanandam A, Lai K, Chen X et al. Retinoblastoma from human stem cell-derived retinal organoids. Nat Commun 2021 Jul 27;12(1):4535. PMID: 34315877
  • Wang X, Gao G, Chen Z, Chen Z et al. Identification of the miRNA signature and key genes in colorectal cancer lymph node metastasis. Cancer Cell Int 2021 Jul 7;21(1):358. PMID: 34315491
  • Li J, Cao J, Li P, Yao Z et al. Construction of a novel mRNA-signature prediction model for prognosis of bladder cancer based on a statistical analysis. BMC Cancer 2021 Jul 27;21(1):858. PMID: 34315402
  • Wang J, Wang Y, Xu J, Song Q et al. Global analysis of gene expression signature and diagnostic/prognostic biomarker identification of hepatocellular carcinoma. Sci Prog 2021 Jul-Sep;104(3):368504211029429. PMID: 34315286
  • Yang X, Wang P, Yan S, Wang G et al. Study on potential differentially expressed genes in stroke by bioinformatics analysis. Neurol Sci 2022 Feb;43(2):1155-1166. PMID: 34313877
  • Han M, Liu X, Zhang W, Wang M et al. TSMiner: a novel framework for generating time-specific gene regulatory networks from time-series expression profiles. Nucleic Acids Res 2021 Oct 11;49(18):e108. PMID: 34313778
  • Ahmed SSSJ, Paramasivam P, Kamath M, Sharma A et al. Genetic Exchange of Lung-Derived Exosome to Brain Causing Neuronal Changes on COVID-19 Infection. Mol Neurobiol 2021 Oct;58(10):5356-5368. PMID: 34312772
  • Fischer DS, Ansari M, Wagner KI, Jarosch S et al. Single-cell RNA sequencing reveals ex vivo signatures of SARS-CoV-2-reactive T cells through 'reverse phenotyping'. Nat Commun 2021 Jul 26;12(1):4515. PMID: 34312385
  • Zhang Y, Ma Y, Wu G, Xie M et al. SENP1 promotes MCL pathogenesis through regulating JAK-STAT5 pathway and SOCS2 expression. Cell Death Discov 2021 Jul 26;7(1):192. PMID: 34312374
  • Ou B, Liu Y, Yang X, Xu X et al. C5aR1-positive neutrophils promote breast cancer glycolysis through WTAP-dependent m6A methylation of ENO1. Cell Death Dis 2021 Jul 26;12(8):737. PMID: 34312368
  • Lin J, Lu Y, Wang B, Jiao P et al. Analysis of immune cell components and immune-related gene expression profiles in peripheral blood of patients with type 1 diabetes mellitus. J Transl Med 2021 Jul 26;19(1):319. PMID: 34311758
  • Skinnider MA, Squair JW, Courtine G et al. Enabling reproducible re-analysis of single-cell data. Genome Biol 2021 Jul 26;22(1):215. PMID: 34311752
  • Lin W, Sun Y, Qiu X, Huang Q et al. VMP1, a novel prognostic biomarker, contributes to glioma development by regulating autophagy. J Neuroinflammation 2021 Jul 26;18(1):165. PMID: 34311746
  • Li X, Zeng G, Li A, Zhang Z et al. DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell. Genome Biol 2021 Jul 27;22(1):217. PMID: 34311744
  • Imada EL, Sanchez DF, Dinalankara W, Vidotto T et al. Transcriptional landscape of PTEN loss in primary prostate cancer. BMC Cancer 2021 Jul 26;21(1):856. PMID: 34311724
  • Chen H, Liu W, Wang Y, Liu D et al. SARS-CoV-2 activates lung epithelial cell proinflammatory signaling and leads to immune dysregulation in COVID-19 patients. EBioMedicine 2021 Aug;70:103500. PMID: 34311326
  • Huang TH, Suen DF et al. Iron insufficiency in floral buds impairs pollen development by disrupting tapetum function. Plant J 2021 Oct;108(1):244-267. PMID: 34310779
  • Triana S, Stanifer ML, Metz-Zumaran C, Shahraz M et al. Single-cell transcriptomics reveals immune response of intestinal cell types to viral infection. Mol Syst Biol 2021 Jul;17(7):e9833. PMID: 34309190
  • Lin N, Lin JZ et al. Identification of long non-coding RNA biomarkers and signature scoring, with competing endogenous RNA networks- targeted drug candidates for recurrent implantation failure. Hum Fertil (Camb) 2022 Dec;25(5):983-992. PMID: 34308739
  • Bergsneider B, Bailey E, Ahmed Y, Gogineni N et al. Analysis of SARS-CoV-2 infection associated cell entry proteins ACE2, CD147, PPIA, and PPIB in datasets from non SARS-CoV-2 infected neuroblastoma patients, as potential prognostic and infection biomarkers in neuroblastoma. Biochem Biophys Rep 2021 Sep;27:101081. PMID: 34307909
  • Chen L, Li Z, Zeng T, Zhang YH et al. Identifying COVID-19-Specific Transcriptomic Biomarkers with Machine Learning Methods. Biomed Res Int 2021;2021:9939134. PMID: 34307679
  • Cai P, Lu Y, Yin Z, Wang X et al. Trophinin Is an Important Biomarker and Prognostic Factor in Osteosarcoma: Data Mining from Oncomine and the Cancer Genome Atlas Databases. Biomed Res Int 2021;2021:6885897. PMID: 34307667
  • Liu B, Ma X, Cai J et al. Construction and Analysis of Coexpression Network to Understand Biological Responses in Chickens Infected by Eimeria tenella. Front Vet Sci 2021;8:688684. PMID: 34307529
  • Yi X, Zhou Y, Chen Y, Feng X et al. The Expression Patterns and Roles of Lysyl Oxidases in Aortic Dissection. Front Cardiovasc Med 2021;8:692856. PMID: 34307505
  • Zhu F, Zuo L, Hu R, Wang J et al. Effect of Immune Cell Infiltration on Occurrence of Pulmonary Hypertension in Pulmonary Fibrosis Patients Based on Gene Expression Profiles. Front Med (Lausanne) 2021;8:671617. PMID: 34307406
  • Tian Q, Zhou Y, Zhu L, Gao H et al. Development and Validation of a Ferroptosis-Related Gene Signature for Overall Survival Prediction in Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:684259. PMID: 34307361
  • Yi X, Tang X et al. Exosomes From miR-19b-3p-Modified ADSCs Inhibit Ferroptosis in Intracerebral Hemorrhage Mice. Front Cell Dev Biol 2021;9:661317. PMID: 34307348
  • Lv L, Wei Q, Wang Z, Zhao Y et al. Clinical and Molecular Correlates of NLRC5 Expression in Patients With Melanoma. Front Bioeng Biotechnol 2021;9:690186. PMID: 34307322
  • Chen Y, Zeng A, He S, He S et al. Autophagy-Related Genes in Atherosclerosis. J Healthc Eng 2021;2021:6402206. PMID: 34306596
  • Xie S, Zeng Q, Ouyang S, Liang Y et al. Bioinformatics analysis of epigenetic and SNP-related molecular markers in systemic lupus erythematosus. Am J Transl Res 2021;13(6):6312-6329. PMID: 34306371
  • Xu Y, Cai J, Li W, Miao J et al. Examining the Effector Mechanisms of the Feishu Acupoint (BL13) in the Treatment of Pneumonia Based on Systematic Acupuncture and Moxibustion Research. Evid Based Complement Alternat Med 2021;2021:5578104. PMID: 34306143
  • Chen ZA, Sun YF, Wang QX, Ma HH et al. Integrated Analysis of Multiple Microarray Studies to Identify Novel Gene Signatures in Ulcerative Colitis. Front Genet 2021;12:697514. PMID: 34306038
  • Wei Y, Chen X, Ren X, Wang B et al. Identification of MX2 as a Novel Prognostic Biomarker for Sunitinib Resistance in Clear Cell Renal Cell Carcinoma. Front Genet 2021;12:680369. PMID: 34306023
  • Duan X, Qiao S, Li D, Li S et al. Circulating miRNAs in Serum as Biomarkers for Early Diagnosis of Non-small Cell Lung Cancer. Front Genet 2021;12:673926. PMID: 34306018
  • Zuo H, Li X, Zheng X, Sun Q et al. A Novel circRNA-miRNA-mRNA Hub Regulatory Network in Lung Adenocarcinoma. Front Genet 2021;12:673501. PMID: 34306017
  • Zhou G, Sun S, Yuan Q, Zhang R et al. Multiple-Tissue and Multilevel Analysis on Differentially Expressed Genes and Differentially Correlated Gene Pairs for HFpEF. Front Genet 2021;12:668702. PMID: 34306013
  • Ghafouri F, Bahrami A, Sadeghi M, Miraei-Ashtiani SR et al. Omics Multi-Layers Networks Provide Novel Mechanistic and Functional Insights Into Fat Storage and Lipid Metabolism in Poultry. Front Genet 2021;12:646297. PMID: 34306005
  • Guo X, Liang X, Wang Y, Cheng A et al. Significance of Tumor Mutation Burden Combined With Immune Infiltrates in the Progression and Prognosis of Advanced Gastric Cancer. Front Genet 2021;12:642608. PMID: 34306002
  • Lu W, Dong Y, Cui Q, Wang Y et al. High Expression of Citron Kinase Contributes to the Development of Esophageal Squamous Cell Carcinoma. Front Genet 2021;12:628547. PMID: 34305997
  • Shi L, Ding R, Zhang T, Wu W et al. Comparative Characterization and Risk Stratification of Asymptomatic and Presymptomatic Patients With COVID-19. Front Immunol 2021;12:700449. PMID: 34305939
  • Fu Q, Agarwal D, Deng K, Matheson R et al. An Unbiased Machine Learning Exploration Reveals Gene Sets Predictive of Allograft Tolerance After Kidney Transplantation. Front Immunol 2021;12:695806. PMID: 34305931
  • Patel S, Howard D, French L et al. A pH-eQTL Interaction at the RIT2-SYT4 Parkinson's Disease Risk Locus in the Substantia Nigra. Front Aging Neurosci 2021;13:690632. PMID: 34305570
  • Cui M, Li T, Yan X, Wang C et al. Blood Genomics Identifies Three Subtypes of Systemic Lupus Erythematosus: "IFN-High," "NE-High," and "Mixed". Mediators Inflamm 2021;2021:6660164. PMID: 34305454
  • Wu X, Li J, Yan T, Ke X et al. HOXB7 acts as an oncogenic biomarker in head and neck squamous cell carcinoma. Cancer Cell Int 2021 Jul 24;21(1):393. PMID: 34303375
  • Liao Y, He D, Wen F et al. Analyzing the characteristics of immune cell infiltration in lung adenocarcinoma via bioinformatics to predict the effect of immunotherapy. Immunogenetics 2021 Oct;73(5):369-380. PMID: 34302518
  • Nazio F, Po A, Abballe L, Ballabio C et al. Targeting cancer stem cells in medulloblastoma by inhibiting AMBRA1 dual function in autophagy and STAT3 signalling. Acta Neuropathol 2021 Sep;142(3):537-564. PMID: 34302498
  • Sahu B, Pihlajamaa P, Zhang K, Palin K et al. Human cell transformation by combined lineage conversion and oncogene expression. Oncogene 2021 Sep;40(36):5533-5547. PMID: 34302118
  • Kar SK, Schokker D, Harms AC, Kruijt L et al. Local intestinal microbiota response and systemic effects of feeding black soldier fly larvae to replace soybean meal in growing pigs. Sci Rep 2021 Jul 23;11(1):15088. PMID: 34302029
  • Lee MO, Lee SG, Jung CR, Son YS et al. Development of a quantitative prediction algorithm for target organ-specific similarity of human pluripotent stem cell-derived organoids and cells. Nat Commun 2021 Jul 23;12(1):4492. PMID: 34301945
  • Meng Y, Zhang Q, Wang K, Zhang X et al. RBM15-mediated N6-methyladenosine modification affects COVID-19 severity by regulating the expression of multitarget genes. Cell Death Dis 2021 Jul 23;12(8):732. PMID: 34301919
  • Van de Velde LA, Allen EK, Crawford JC, Wilson TL et al. Neuroblastoma Formation Requires Unconventional CD4 T Cells and Arginase-1-Dependent Myeloid Cells. Cancer Res 2021 Oct 1;81(19):5047-5059. PMID: 34301764
  • Alghamdi N, Chang W, Dang P, Lu X et al. A graph neural network model to estimate cell-wise metabolic flux using single-cell RNA-seq data. Genome Res 2021 Oct;31(10):1867-1884. PMID: 34301623
  • Runcie DE, Qu J, Cheng H, Crawford L et al. MegaLMM: Mega-scale linear mixed models for genomic predictions with thousands of traits. Genome Biol 2021 Jul 23;22(1):213. PMID: 34301310
  • Yang Y, Paul A, Bach TN, Huang ZJ et al. Single-cell alternative polyadenylation analysis delineates GABAergic neuron types. BMC Biol 2021 Jul 23;19(1):144. PMID: 34301239
  • Gao L, Zhang L et al. Construction and comprehensive analysis of a ceRNA network to reveal potential prognostic biomarkers for lung adenocarcinoma. BMC Cancer 2021 Jul 23;21(1):849. PMID: 34301211
  • Fan Z, Peng W, Wang Z, Zhang L et al. Identification of biomarkers associated with metabolic cardiovascular disease using mRNA-SNP-miRNA regulatory network analysis. BMC Cardiovasc Disord 2021 Jul 23;21(1):351. PMID: 34301176
  • Ye Q, Putila J, Raese R, Dong C et al. Identification of Prognostic and Chemopredictive microRNAs for Non-Small-Cell Lung Cancer by Integrating SEER-Medicare Data. Int J Mol Sci 2021 Jul 17;22(14). PMID: 34299277
  • Saeed M, Ibáñez-Costa A, Patiño-Trives AM, Muñoz-Barrera L et al. Expression of DDX11 and DNM1L at the 12p11 Locus Modulates Systemic Lupus Erythematosus Susceptibility. Int J Mol Sci 2021 Jul 16;22(14). PMID: 34299244
  • Eisenhardt KMH, Remes B, Grützner J, Spanka DT et al. A Complex Network of Sigma Factors and sRNA StsR Regulates Stress Responses in R. sphaeroides. Int J Mol Sci 2021 Jul 14;22(14). PMID: 34299177
  • Chu YC, Tsai TY, Yadav VK, Deng L et al. 4-Acetyl-Antroquinonol B Improves the Sensitization of Cetuximab on Both Kras Mutant and Wild Type Colorectal Cancer by Modulating the Expression of Ras/Raf/miR-193a-3p Signaling Axis. Int J Mol Sci 2021 Jul 14;22(14). PMID: 34299137
  • Zhukov IS, Kubarskaya LG, Karpova IV, Vaganova AN et al. Minor Changes in Erythrocyte Osmotic Fragility in Trace Amine-Associated Receptor 5 (TAAR5) Knockout Mice. Int J Mol Sci 2021 Jul 7;22(14). PMID: 34298937
  • Luna-Yolba R, Marmoiton J, Gigo V, Marechal X et al. Disrupting Mitochondrial Electron Transfer Chain Complex I Decreases Immune Checkpoints in Murine and Human Acute Myeloid Leukemic Cells. Cancers (Basel) 2021 Jul 13;13(14). PMID: 34298712
  • Sorokin M, Raevskiy M, Zottel A, Šamec N et al. Large-Scale Transcriptomics-Driven Approach Revealed Overexpression of CRNDE as a Poor Survival Prognosis Biomarker in Glioblastoma. Cancers (Basel) 2021 Jul 8;13(14). PMID: 34298634
  • Okubo C, Narita M, Inagaki A, Nishikawa M et al. Expression dynamics of HAND1/2 in in vitro human cardiomyocyte differentiation. Stem Cell Reports 2021 Aug 10;16(8):1906-1922. PMID: 34297940
  • Hutton C, Heider F, Blanco-Gomez A, Banyard A et al. Single-cell analysis defines a pancreatic fibroblast lineage that supports anti-tumor immunity. Cancer Cell 2021 Sep 13;39(9):1227-1244.e20. PMID: 34297917
  • Papareddy RK, Páldi K, Smolka AD, Hüther P et al. Repression of CHROMOMETHYLASE 3 prevents epigenetic collateral damage in Arabidopsis. Elife 2021 Jul 23;10. PMID: 34296996
  • Berico P, Cigrang M, Davidson G, Braun C et al. CDK7 and MITF repress a transcription program involved in survival and drug tolerance in melanoma. EMBO Rep 2021 Sep 6;22(9):e51683. PMID: 34296805
  • Chen C, Li L, Zhao C, Zhen J et al. [Analysis of sepsis-related genes through weighted gene co-expression network]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2021 Jun;33(6):659-664. PMID: 34296682
  • Wei WZ, Li B, Lin JX, Zhao J et al. Analysis of long non-coding RNA expression profiles in disuse osteoporosis using microarray and bioinformatics. J Biol Regul Homeost Agents 2021 Aug 27;35(4). PMID: 34296590
  • Asnaashari S, Amjad E, Sokouti B et al. A comprehensive investigation on liver regeneration: a meta-analysis and systems biology approach. Clin Exp Hepatol 2021 Jun;7(2):183-190. PMID: 34295986
  • Lin G, Wang H, Wu Y, Wang K et al. Hub Long Noncoding RNAs with m6A Modification for Signatures and Prognostic Values in Kidney Renal Clear Cell Carcinoma. Front Mol Biosci 2021;8:682471. PMID: 34295922
  • Cui Z, Bhandari R, Lei Q, Lu M et al. Identification and Exploration of Novel Macrophage M2-Related Biomarkers and Potential Therapeutic Agents in Endometriosis. Front Mol Biosci 2021;8:656145. PMID: 34295919
  • Wang F, Zhang Y, Hao Y, Li X et al. Characterizing the Metabolic and Immune Landscape of Non-small Cell Lung Cancer Reveals Prognostic Biomarkers Through Omics Data Integration. Front Cell Dev Biol 2021;9:702112. PMID: 34295900
  • Zou J, Huang R, Chen Y, Huang X et al. Dihydropyrimidinase Like 2 Promotes Bladder Cancer Progression via Pyruvate Kinase M2-Induced Aerobic Glycolysis and Epithelial-Mesenchymal Transition. Front Cell Dev Biol 2021;9:641432. PMID: 34295887
  • Yang F, Yuan C, Wu D, Zhang J et al. IRE1α Expedites the Progression of Castration-Resistant Prostate Cancers via the Positive Feedback Loop of IRE1α/IL-6/AR. Front Oncol 2021;11:671141. PMID: 34295814
  • Chen S, Wang C, Su X, Dai X et al. KCNN4 is a potential prognostic marker and critical factor affecting the immune status of the tumor microenvironment in kidney renal clear cell carcinoma. Transl Androl Urol 2021 Jun;10(6):2454-2470. PMID: 34295732
  • Zhou W, Fang D, He Y, Wei J et al. Correlation analysis of tumor mutation burden of hepatocellular carcinoma based on data mining. J Gastrointest Oncol 2021 Jun;12(3):1117-1131. PMID: 34295561
  • He MQ, Wan JF, Zeng HF, Tang YY et al. miR-133a-5p suppresses gastric cancer through TCF4 down-regulation. J Gastrointest Oncol 2021 Jun;12(3):1007-1019. PMID: 34295552
  • Wen L, Han Z, Du Y et al. Identification of gene biomarkers and immune cell infiltration characteristics in rectal cancer. J Gastrointest Oncol 2021 Jun;12(3):964-980. PMID: 34295549
  • Goodwin LR, Zapata G, Timpano S, Marenger J et al. Impaired SNF2L Chromatin Remodeling Prolongs Accessibility at Promoters Enriched for Fos/Jun Binding Sites and Delays Granule Neuron Differentiation. Front Mol Neurosci 2021;14:680280. PMID: 34295220
  • Ye B, Fan D, Xiong W, Li M et al. Oncogenic enhancers drive esophageal squamous cell carcinogenesis and metastasis. Nat Commun 2021 Jul 22;12(1):4457. PMID: 34294701
  • Perez-Frances M, van Gurp L, Abate MV, Cigliola V et al. Pancreatic Ppy-expressing γ-cells display mixed phenotypic traits and the adaptive plasticity to engage insulin production. Nat Commun 2021 Jul 22;12(1):4458. PMID: 34294685
  • Huang S, Liang S, Chen G, Chen J et al. Overexpression of glycosyltransferase 8 domain containing 2 confers ovarian cancer to CDDP resistance by activating FGFR/PI3K signalling axis. Oncogenesis 2021 Jul 22;10(7):55. PMID: 34294681
  • Mulvey B, Dougherty JD et al. Transcriptional-regulatory convergence across functional MDD risk variants identified by massively parallel reporter assays. Transl Psychiatry 2021 Jul 22;11(1):403. PMID: 34294677
  • Sharma K, Singh P, Amjad Beg M, Dohare R et al. Revealing new therapeutic opportunities in hypertension through network-driven integrative genetic analysis and drug target prediction approach. Gene 2021 Oct 30;801:145856. PMID: 34293449
  • Davis JL, Thaler R, Cox L, Ricci B et al. Constitutive activation of NF-κB inducing kinase (NIK) in the mesenchymal lineage using Osterix (Sp7)- or Fibroblast-specific protein 1 (S100a4)-Cre drives spontaneous soft tissue sarcoma. PLoS One 2021;16(7):e0254426. PMID: 34292968
  • Chen X, Neuwald AF, Hilakivi-Clarke L, Clarke R et al. ChIP-GSM: Inferring active transcription factor modules to predict functional regulatory elements. PLoS Comput Biol 2021 Jul;17(7):e1009203. PMID: 34292930
  • Isles HM, Loynes CA, Alasmari S, Kon FC et al. Pioneer neutrophils release chromatin within in vivo swarms. Elife 2021 Jul 21;10. PMID: 34292151
  • Zeppilli S, Ackels T, Attey R, Klimpert N et al. Molecular characterization of projection neuron subtypes in the mouse olfactory bulb. Elife 2021 Jul 22;10. PMID: 34292150
  • Tian Q, Gao H, Zhao W, Zhou Y et al. Development and validation of an immune gene set-based prognostic signature in cutaneous melanoma. Future Oncol 2021 Nov;17(31):4115-4129. PMID: 34291650
  • Zhang X, Ping P, Hutvagner G, Blumenstein M et al. Aberration-corrected ultrafine analysis of miRNA reads at single-base resolution: a k-mer lattice approach. Nucleic Acids Res 2021 Oct 11;49(18):e106. PMID: 34291293
  • Li Y, Wang S, Zhang X, Yang R et al. Expression Characteristics and Significant Prognostic Values of PGK1 in Breast Cancer. Front Mol Biosci 2021;8:695420. PMID: 34291087
  • Yang H, Han X, Hao Z et al. An Immune-Gene-Based Classifier Predicts Prognosis in Patients With Cervical Squamous Cell Carcinoma. Front Mol Biosci 2021;8:679474. PMID: 34291084
  • Song J, Liu Y, Guan X, Zhang X et al. A Novel Ferroptosis-Related Biomarker Signature to Predict Overall Survival of Esophageal Squamous Cell Carcinoma. Front Mol Biosci 2021;8:675193. PMID: 34291083
  • Feng ZY, Wang T, Su X, Guo S et al. Identification of the m(6)A RNA Methylation Regulators WTAP as a Novel Prognostic Biomarker and Genomic Alterations in Cutaneous Melanoma. Front Mol Biosci 2021;8:665222. PMID: 34291082
  • Wang S, Chen S, Ying Y, Ma X et al. Comprehensive Analysis of Ferroptosis Regulators With Regard to PD-L1 and Immune Infiltration in Clear Cell Renal Cell Carcinoma. Front Cell Dev Biol 2021;9:676142. PMID: 34291048
  • Xiong L, Feng Y, Hu W, Tan J et al. Expression of AOX1 Predicts Prognosis of Clear Cell Renal Cell Carcinoma. Front Genet 2021;12:683173. PMID: 34290740
  • Heidari M, Pakdel A, Bakhtiarizadeh MR, Dehghanian F et al. Integrated Analysis of lncRNAs, mRNAs, and TFs to Identify Regulatory Networks Underlying MAP Infection in Cattle. Front Genet 2021;12:668448. PMID: 34290737
  • Chen B, Xu X, Lin DD, Chen X et al. KRT18 Modulates Alternative Splicing of Genes Involved in Proliferation and Apoptosis Processes in Both Gastric Cancer Cells and Clinical Samples. Front Genet 2021;12:635429. PMID: 34290732
  • Yan YM, Zheng JN, Wu LW, Rao QW et al. Prediction of a Competing Endogenous RNA Co-expression Network by Comprehensive Methods in Systemic Sclerosis-Related Interstitial Lung Disease. Front Genet 2021;12:633059. PMID: 34290731
  • Mo Z, Li P, Cao Z, Zhang S et al. A Comprehensive Pan-Cancer Analysis of 33 Human Cancers Reveals the Immunotherapeutic Value of Aryl Hydrocarbon Receptor. Front Immunol 2021;12:564948. PMID: 34290693
  • Patarat R, Riku S, Kunadirek P, Chuaypen N et al. The expression of FLNA and CLU in PBMCs as a novel screening marker for hepatocellular carcinoma. Sci Rep 2021 Jul 21;11(1):14838. PMID: 34290294
  • Fonseca TL, Garcia T, Fernandes GW, Nair TM et al. Neonatal thyroxine activation modifies epigenetic programming of the liver. Nat Commun 2021 Jul 21;12(1):4446. PMID: 34290257
  • Wang W, Tang YA, Xiao Q, Lee WC et al. Stromal induction of BRD4 phosphorylation Results in Chromatin Remodeling and BET inhibitor Resistance in Colorectal Cancer. Nat Commun 2021 Jul 21;12(1):4441. PMID: 34290255
  • King AJ, Songdej D, Downes DJ, Beagrie RA et al. Reactivation of a developmentally silenced embryonic globin gene. Nat Commun 2021 Jul 21;12(1):4439. PMID: 34290235
  • Gao S, Ma W, Lin X, Huang S et al. Identification of Key Genes and Underlying Mechanisms in Acute Kawasaki Disease Based on Bioinformatics Analysis. Med Sci Monit 2021 Jul 22;27:e930547. PMID: 34290221
  • Jühling F, Saviano A, Ponsolles C, Heydmann L et al. Hepatitis B virus compartmentalization and single-cell differentiation in hepatocellular carcinoma. Life Sci Alliance 2021 Sep;4(9). PMID: 34290079
  • Wang W, Gao L, Ye Y, Gao Y et al. CCIP: predicting CTCF-mediated chromatin loops with transitivity. Bioinformatics 2021 Dec 11;37(24):4635-4642. PMID: 34289010
  • Stang A, Weilert H, Lipp MJ, Oldhafer KJ et al. MicroRNAs in blood act as biomarkers of colorectal cancer and indicate potential therapeutic targets. Mol Oncol 2021 Sep;15(9):2480-2490. PMID: 34288395
  • Zhang Q, Kuang M, An H, Zhang Y et al. Peripheral blood transcriptome heterogeneity and prognostic potential in lung cancer revealed by RNA-Seq. J Cell Mol Med 2021 Sep;25(17):8271-8284. PMID: 34288383
  • Chen D, Wu Y, Chen Y, Chen Q et al. Exploration of the molecular targets and mechanisms of suxiao xintong dropping pills for myocardial infarction by network pharmacology method. Biosci Rep 2021 Aug 27;41(8). PMID: 34286341
  • Mehranfard D, Perez G, Rodriguez A, Ladna JM et al. Alterations in Gene Expression of Renin-Angiotensin System Components and Related Proteins in Colorectal Cancer. J Renin Angiotensin Aldosterone Syst 2021;2021:9987115. PMID: 34285715
  • Cheng CL, Tsang FH, Wei L, Chen M et al. Bromodomain-containing protein BRPF1 is a therapeutic target for liver cancer. Commun Biol 2021 Jul 20;4(1):888. PMID: 34285329
  • Osamor VC, Okezie AF et al. Enhancing the weighted voting ensemble algorithm for tuberculosis predictive diagnosis. Sci Rep 2021 Jul 20;11(1):14806. PMID: 34285324
  • Xu J, Yang X, Deng Q, Yang C et al. TEM8 marks neovasculogenic tumor-initiating cells in triple-negative breast cancer. Nat Commun 2021 Jul 20;12(1):4413. PMID: 34285210
  • Verstraeten B, Atighi MR, Ruiz-Ferrer V, Escobar C et al. Non-coding RNAs in the interaction between rice and Meloidogyne graminicola. BMC Genomics 2021 Jul 20;22(1):560. PMID: 34284724
  • Deng Y, Zheng Y, Li D, Hong Q et al. Expression characteristics of interferon-stimulated genes and possible regulatory mechanisms in lupus patients using transcriptomics analyses. EBioMedicine 2021 Aug;70:103477. PMID: 34284174
  • Qiu X, Feit AS, Feiglin A, Xie Y et al. CoBRA: Containerized Bioinformatics Workflow for Reproducible ChIP/ATAC-seq Analysis. Genomics Proteomics Bioinformatics 2021 Aug;19(4):652-661. PMID: 34284136
  • Schroeder CM, Tomlin SA, Mejia Natividad I, Valenzuela JR et al. An actin-related protein that is most highly expressed in Drosophila testes is critical for embryonic development. Elife 2021 Jul 20;10. PMID: 34282725
  • Jiang F, Mao Y, Lu B, Zhou G et al. A hypoxia risk signature for the tumor immune microenvironment evaluation and prognosis prediction in acute myeloid leukemia. Sci Rep 2021 Jul 19;11(1):14657. PMID: 34282207
  • Ban T, Kikuchi M, Sato GR, Manabe A et al. Genetic and chemical inhibition of IRF5 suppresses pre-existing mouse lupus-like disease. Nat Commun 2021 Jul 19;12(1):4379. PMID: 34282144
  • Altman MC, Rinchai D, Baldwin N, Toufiq M et al. Development of a fixed module repertoire for the analysis and interpretation of blood transcriptome data. Nat Commun 2021 Jul 19;12(1):4385. PMID: 34282143
  • Ilic K, Mlinac-Jerkovic K, Sedmak G, Rosenzweig I et al. Neuroplastin in human cognition: review of literature and future perspectives. Transl Psychiatry 2021 Jul 16;11(1):394. PMID: 34282131
  • Wang P, Yao L, Luo M, Zhou W et al. Single-cell transcriptome and TCR profiling reveal activated and expanded T cell populations in Parkinson's disease. Cell Discov 2021 Jul 20;7(1):52. PMID: 34282123
  • Toutonji A, Mandava M, Guglietta S, Tomlinson S et al. Chronic complement dysregulation drives neuroinflammation after traumatic brain injury: a transcriptomic study. Acta Neuropathol Commun 2021 Jul 19;9(1):126. PMID: 34281628
  • Song W, Bai Y, Zhu J, Zeng F et al. A novel prognostic model based on epithelial-mesenchymal transition-related genes predicts patient survival in gastric cancer. World J Surg Oncol 2021 Jul 19;19(1):216. PMID: 34281542
  • Day K, Dordevic AL, Truby H, Southey MC et al. Transcriptomic changes in peripheral blood mononuclear cells with weight loss: systematic literature review and primary data synthesis. Genes Nutr 2021 Jul 19;16(1):12. PMID: 34281497
  • Park SI, Kwon HJ, Cho MH, Song JS et al. The OsERF115/AP2EREBP110 Transcription Factor Is Involved in the Multiple Stress Tolerance to Heat and Drought in Rice Plants. Int J Mol Sci 2021 Jul 2;22(13). PMID: 34281241
  • Peck AB, Nguyen CQ, Ambrus JL et al. Upregulated Chemokine and Rho-GTPase Genes Define Immune Cell Emigration into Salivary Glands of Sjögren's Syndrome-Susceptible C57BL/6.NOD-Aec1Aec2 Mice. Int J Mol Sci 2021 Jul 2;22(13). PMID: 34281229
  • Degani N, Lubelsky Y, Perry RB, Ainbinder E et al. Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage. PLoS Genet 2021 Jul;17(7):e1009681. PMID: 34280202
  • Zhuang H, Chen X, Wang Y, Huang S et al. Identification of LIPH as an unfavorable biomarkers correlated with immune suppression or evasion in pancreatic cancer based on RNA-seq. Cancer Immunol Immunother 2022 Mar;71(3):601-612. PMID: 34279685
  • Handunnetthi L, Knezevic B, Kasela S, Burnham KL et al. Genomic Insights into Myasthenia Gravis Identify Distinct Immunological Mechanisms in Early and Late Onset Disease. Ann Neurol 2021 Sep;90(3):455-463. PMID: 34279044
  • Sui X, Wang Y, Liu H et al. hsa_circ_0101119 facilitates the progression of cervical cancer via an interaction with EIF4A3 to inhibit TCEAL6 expression. Mol Med Rep 2021 Sep;24(3). PMID: 34278492
  • Codino A, Turowski T, van de Lagemaat LN, Ivanova I et al. NANOS2 is a sequence-specific mRNA-binding protein that promotes transcript degradation in spermatogonial stem cells. iScience 2021 Jul 23;24(7):102762. PMID: 34278268
  • Ravel-Godreuil C, Massiani-Beaudoin O, Mailly P, Prochiantz A et al. Perturbed DNA methylation by Gadd45b induces chromatin disorganization, DNA strand breaks and dopaminergic neuron death. iScience 2021 Jul 23;24(7):102756. PMID: 34278264
  • Ntostis P, Swanson G, Kokkali G, Iles D et al. The effects of aging on molecular modulators of human embryo implantation. iScience 2021 Jul 23;24(7):102751. PMID: 34278260
  • Liu Y, Lai S, Liang L, Zhang D et al. Study on the interaction mechanism between C-reactive protein and platelets in the development of acute myocardial infarction. Ann Transl Med 2021 Jun;9(12):1012. PMID: 34277812
  • Zhang D, Li B, Guo R, Wu J et al. RAB5C, SYNJ1, and RNF19B promote male ankylosing spondylitis by regulating immune cell infiltration. Ann Transl Med 2021 Jun;9(12):1011. PMID: 34277811
  • Li H, Li M, Tang C, Xu L et al. Screening and prognostic value of potential biomarkers for ovarian cancer. Ann Transl Med 2021 Jun;9(12):1007. PMID: 34277807
  • Liang A, Zhong S, Xi B, Zhou C et al. High expression of PYCARD is an independent predictor of unfavorable prognosis and chemotherapy resistance in glioma. Ann Transl Med 2021 Jun;9(12):986. PMID: 34277786
  • Sha M, Cao J, Zong ZP, Xu N et al. Identification of genes predicting unfavorable prognosis in hepatitis B virus-associated hepatocellular carcinoma. Ann Transl Med 2021 Jun;9(12):975. PMID: 34277775
  • Gao H, Sun X, Liu Y, Liang S et al. Analysis of Hub Genes and the Mechanism of Immune Infiltration in Stanford Type a Aortic Dissection. Front Cardiovasc Med 2021;8:680065. PMID: 34277731
  • Wei XL, Luo TQ, Li JN, Xue ZC et al. Development and Validation of a Prognostic Classifier Based on Lipid Metabolism-Related Genes in Gastric Cancer. Front Mol Biosci 2021;8:691143. PMID: 34277706
  • Qi Z, Zhao Y, Su Y, Cao B et al. Serum Extracellular Vesicle-Derived miR-124-3p as a Diagnostic and Predictive Marker for Early-Stage Acute Ischemic Stroke. Front Mol Biosci 2021;8:685088. PMID: 34277703
  • Li W, Duan A, Xing Y, Xu L et al. Transcription-Based Multidimensional Regulation of Fatty Acid Metabolism by HIF1α in Renal Tubules. Front Cell Dev Biol 2021;9:690079. PMID: 34277635
  • Li J, Wang W, Zhou Y, Liu L et al. m6A Regulator-Associated Modification Patterns and Immune Infiltration of the Tumor Microenvironment in Hepatocarcinoma. Front Cell Dev Biol 2021;9:687756. PMID: 34277630
  • Zhang X, Shen L, Cai R, Yu X et al. Comprehensive Analysis of the Immune-Oncology Targets and Immune Infiltrates of N (6)-Methyladenosine-Related Long Noncoding RNA Regulators in Breast Cancer. Front Cell Dev Biol 2021;9:686675. PMID: 34277627
  • Xu Q, Chen Y et al. An Aging-Related Gene Signature-Based Model for Risk Stratification and Prognosis Prediction in Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:685379. PMID: 34277626
  • Li K, Chen J, Lou X, Li Y et al. HNRNPA2B1 Affects the Prognosis of Esophageal Cancer by Regulating the miR-17-92 Cluster. Front Cell Dev Biol 2021;9:658642. PMID: 34277606
  • Zhang Y, Mi K, Li Z, Qiang L et al. Identification of Prognostic miRNAs Associated With Immune Cell Tumor Infiltration Predictive of Clinical Outcomes in Patients With Non-Small Cell Lung Cancer. Front Oncol 2021;11:705869. PMID: 34277450
  • Bhingarkar A, Vangapandu HV, Rathod S, Hoshitsuki K et al. Amino Acid Metabolic Vulnerabilities in Acute and Chronic Myeloid Leukemias. Front Oncol 2021;11:694526. PMID: 34277440
  • Wang D, Qu X, Lu W, Wang Y et al. N(6)-Methyladenosine RNA Demethylase FTO Promotes Gastric Cancer Metastasis by Down-Regulating the m6A Methylation of ITGB1. Front Oncol 2021;11:681280. PMID: 34277426
  • Wang A, Zhang T, Wei W, Wang H et al. The Long Noncoding RNA LINC00665 Facilitates c-Myc Transcriptional Activity via the miR-195-5p MYCBP Axis to Promote Progression of Lung Adenocarcinoma. Front Oncol 2021;11:666551. PMID: 34277412
  • Wang S, Song Z, Tan B, Zhang J et al. Identification and Validation of Hub Genes Associated With Hepatocellular Carcinoma Via Integrated Bioinformatics Analysis. Front Oncol 2021;11:614531. PMID: 34277395
  • Tu G, Peng W, Cai Q, Zhao Z et al. Construction and validation of a 15-gene ferroptosis signature in lung adenocarcinoma. PeerJ 2021;9:e11687. PMID: 34277151
  • Meng X, Nie Y, Wang K, Fan C et al. Identification of Atrial Fibrillation-Associated Genes ERBB2 and MYPN Using Genome-Wide Association and Transcriptome Expression Profile Data on Left-Right Atrial Appendages. Front Genet 2021;12:696591. PMID: 34276800
  • Qi X, Wang R, Lin Y, Yan D et al. A Ferroptosis-Related Gene Signature Identified as a Novel Prognostic Biomarker for Colon Cancer. Front Genet 2021;12:692426. PMID: 34276794
  • Li Y, Zeng W, Li T, Guo Y et al. Integrative Single-Cell Transcriptomic Analysis of Human Fetal Thymocyte Development. Front Genet 2021;12:679616. PMID: 34276782
  • Liu Z, Li H, Pan S et al. Discovery and Validation of Key Biomarkers Based on Immune Infiltrates in Alzheimer's Disease. Front Genet 2021;12:658323. PMID: 34276768
  • Tahmasebi A, Niazi A et al. Comparison of Transcriptional Response of C(3) and C(4) Plants to Drought Stress Using Meta-Analysis and Systems Biology Approach. Front Plant Sci 2021;12:668736. PMID: 34276729
  • Saheb Sharif-Askari N, Saheb Sharif-Askari F, Ahmed SBM, Hannawi S et al. Enhanced Expression of Autoantigens During SARS-CoV-2 Viral Infection. Front Immunol 2021;12:686462. PMID: 34276672
  • Doni A, Mantovani A, Bottazzi B, Russo RC et al. PTX3 Regulation of Inflammation, Hemostatic Response, Tissue Repair, and Resolution of Fibrosis Favors a Role in Limiting Idiopathic Pulmonary Fibrosis. Front Immunol 2021;12:676702. PMID: 34276664
  • Bade P, Simonetti F, Sans S, Laboudie P et al. Integrative Analysis of Human Macrophage Inflammatory Response Related to Mycobacterium tuberculosis Virulence. Front Immunol 2021;12:668060. PMID: 34276658
  • Tagawa T, Oh D, Santos J, Dremel S et al. Characterizing Expression and Regulation of Gamma-Herpesviral Circular RNAs. Front Microbiol 2021;12:670542. PMID: 34276603
  • Orench-Rivera N, Kuehn MJ et al. Differential Packaging Into Outer Membrane Vesicles Upon Oxidative Stress Reveals a General Mechanism for Cargo Selectivity. Front Microbiol 2021;12:561863. PMID: 34276573
  • Malendowicz LK, Rucinski M et al. Neuromedins NMU and NMS: An Updated Overview of Their Functions. Front Endocrinol (Lausanne) 2021;12:713961. PMID: 34276571
  • Chatterton Z, Mendelev N, Chen S, Carr W et al. Bisulfite Amplicon Sequencing Can Detect Glia and Neuron Cell-Free DNA in Blood Plasma. Front Mol Neurosci 2021;14:672614. PMID: 34276305
  • Ishrat R, Ahmed MM, Tazyeen S, Alam A et al. In Silico Integrative Approach Revealed Key MicroRNAs and Associated Target Genes in Cardiorenal Syndrome. Bioinform Biol Insights 2021;15:11779322211027396. PMID: 34276211
  • Qian X, Yang J, Qiu Q, Li X et al. LCAT3, a novel m6A-regulated long non-coding RNA, plays an oncogenic role in lung cancer via binding with FUBP1 to activate c-MYC. J Hematol Oncol 2021 Jul 17;14(1):112. PMID: 34274028
  • Feng Z, Duan Z, Shi G, Wang Q et al. Pharmacological inhibition of IRAK1 attenuates colitis-induced tumorigenesis in mice by inhibiting the inflammatory response and epithelial-mesenchymal transition. J Biochem Mol Toxicol 2021 Sep;35(9):e22838. PMID: 34273909
  • Fan J, Ding Y, Ren C, Song Z et al. Cytosine and adenine deaminase base-editors induce broad and nonspecific changes in gene expression and splicing. Commun Biol 2021 Jul 16;4(1):882. PMID: 34272468
  • Meng L, Wang C, Shi Y, Luo Q et al. Si-C is a method for inferring super-resolution intact genome structure from single-cell Hi-C data. Nat Commun 2021 Jul 16;12(1):4369. PMID: 34272403
  • Li LY, Yang Q, Jiang YY, Yang W et al. Interplay and cooperation between SREBF1 and master transcription factors regulate lipid metabolism and tumor-promoting pathways in squamous cancer. Nat Commun 2021 Jul 16;12(1):4362. PMID: 34272396
  • Prekovic S, Schuurman K, Mayayo-Peralta I, Manjón AG et al. Glucocorticoid receptor triggers a reversible drug-tolerant dormancy state with acquired therapeutic vulnerabilities in lung cancer. Nat Commun 2021 Jul 16;12(1):4360. PMID: 34272384
  • Wu R, Long L, Zhou Q, Su J et al. Identification of hub genes in rheumatoid arthritis through an integrated bioinformatics approach. J Orthop Surg Res 2021 Jul 16;16(1):458. PMID: 34271942
  • Rowhanimanesh AA novel approach for the analysis of time-course gene expression data based on computing with words. J Biomed Inform 2021 Aug;120:103868. PMID: 34271172
  • Mahmoudian M, Venäläinen MS, Klén R, Elo LL et al. Stable Iterative Variable Selection. Bioinformatics 2021 Dec 11;37(24):4810-4817. PMID: 34270690
  • Lv QY, Zou HZ, Xu YY, Shao ZY et al. Expression levels of chemokine (C-X-C motif) ligands CXCL1 and CXCL3 as prognostic biomarkers in rectal adenocarcinoma: evidence from Gene Expression Omnibus (GEO) analyses. Bioengineered 2021 Dec;12(1):3711-3725. PMID: 34269159
  • Liu X, Pu K, Wang Y, Chen Y et al. Gastric cancer-associated microRNA expression signatures: integrated bioinformatics analysis, validation, and clinical significance. Ann Transl Med 2021 May;9(9):797. PMID: 34268410
  • Pan S, Liu R, Wu X, Ma K et al. LncRNA NEAT1 mediates intestinal inflammation by regulating TNFRSF1B. Ann Transl Med 2021 May;9(9):773. PMID: 34268386
  • Li B, Duan H, Wang S, Wang Y et al. Hierarchical cluster analysis in the study of the effect of cytokine expression patterns on endometrial repair and receptivity after hysteroscopic adhesiolysis. Ann Transl Med 2021 May;9(9):746. PMID: 34268359
  • Johnson J, von Stade D, Regan D, Easley J et al. Enthesis trauma as a means for the development of translatable chronic rotator cuff degeneration in an ovine model. Ann Transl Med 2021 May;9(9):741. PMID: 34268354
  • Guo Y, Liu B, Liu Y, Sun W et al. Oncogenic Chromatin Modifier KAT2A Activates MCT1 to Drive the Glycolytic Process and Tumor Progression in Renal Cell Carcinoma. Front Cell Dev Biol 2021;9:690796. PMID: 34268311
  • van Heerden A, van Wyk R, Birkholtz LM et al. Machine Learning Uses Chemo-Transcriptomic Profiles to Stratify Antimalarial Compounds With Similar Mode of Action. Front Cell Infect Microbiol 2021;11:688256. PMID: 34268139
  • Xu J, Yu N, Zhao P, Wang F et al. Intratumor Heterogeneity of MIF Expression Correlates With Extramedullary Involvement of Multiple Myeloma. Front Oncol 2021;11:694331. PMID: 34268123
  • Ding YF, Wen YC, Chuang CY, Lin CW et al. Combined Impacts of Genetic Variants of Long Non-Coding RNA MALAT1 and the Environmental Carcinogen on the Susceptibility to and Progression of Oral Squamous Cell Carcinoma. Front Oncol 2021;11:684941. PMID: 34268119
  • Fan S, Wang Z, Zhao L, Zhao C et al. A Robust Prognostic Gene Signature Based on eRNAs-Driven Genes in Prostate Cancer. Front Genet 2021;12:676845. PMID: 34267780
  • Adil S, Paracha RZ, Tariq S, Nisar M et al. A Computational Systems Analyses to Identify Biomarkers and Mechanistic Link in Psoriasis and Cutaneous Squamous Cell Carcinoma. Front Immunol 2021;12:662528. PMID: 34267747
  • Wang J, Wu Y, Uddin MN, Chen R et al. Identification of Potential Key Genes and Regulatory Markers in Essential Thrombocythemia Through Integrated Bioinformatics Analysis and Clinical Validation. Pharmgenomics Pers Med 2021;14:767-784. PMID: 34267539
  • Lattke M, Goldstone R, Ellis JK, Boeing S et al. Extensive transcriptional and chromatin changes underlie astrocyte maturation in vivo and in culture. Nat Commun 2021 Jul 15;12(1):4335. PMID: 34267208
  • Fu Y, Sun S, Bi J, Kong C et al. A novel immune-related gene pair prognostic signature for predicting overall survival in bladder cancer. BMC Cancer 2021 Jul 15;21(1):810. PMID: 34266411
  • Quan J, Bai Y, Yang Y, Han EL et al. Bioinformatics analysis of C3 and CXCR4 demonstrates their potential as prognostic biomarkers in clear cell renal cell carcinoma (ccRCC). BMC Cancer 2021 Jul 15;21(1):814. PMID: 34266404
  • de Melo Costa VR, Pfeuffer J, Louloupi A, Ørom UAV et al. SPLICE-q: a Python tool for genome-wide quantification of splicing efficiency. BMC Bioinformatics 2021 Jul 15;22(1):368. PMID: 34266387
  • Sun X, Liu Q, Huang J, Diao G et al. Transcriptome-based stemness indices analysis reveals platinum-based chemo-theraputic response indicators in advanced-stage serous ovarian cancer. Bioengineered 2021 Dec;12(1):3753-3771. PMID: 34266348
  • Shepard A, Hoxha S, Troutman S, Harbaugh D et al. Transcriptional regulation of miR-30a by YAP impacts PTPN13 and KLF9 levels and Schwann cell proliferation. J Biol Chem 2021 Aug;297(2):100962. PMID: 34265306
  • Zhang Y, Cai Y, Roca X, Kwoh CK et al. Chromatin loop anchors predict transcript and exon usage. Brief Bioinform 2021 Nov 5;22(6). PMID: 34263910
  • Yifan C, Jianfeng S, Jun P et al. Development and Validation of a Random Forest Diagnostic Model of Acute Myocardial Infarction Based on Ferroptosis-Related Genes in Circulating Endothelial Cells. Front Cardiovasc Med 2021;8:663509. PMID: 34262953
  • Li N, Zeng Y, Tai M, Lin B et al. Analysis of the Prognostic Value and Gene Expression Mechanism of SHOX2 in Lung Adenocarcinoma. Front Mol Biosci 2021;8:688274. PMID: 34262939
  • Shi Y, Chen G, Teng J et al. Network-Based Expression Analyses and Experimental Verifications Reveal the Involvement of STUB1 in Acute Kidney Injury. Front Mol Biosci 2021;8:655361. PMID: 34262937
  • Sararols P, Stévant I, Neirijnck Y, Rebourcet D et al. Specific Transcriptomic Signatures and Dual Regulation of Steroidogenesis Between Fetal and Adult Mouse Leydig Cells. Front Cell Dev Biol 2021;9:695546. PMID: 34262907
  • Yin X, Wang Z, Wang J, Xu Y et al. Development of a novel gene signature to predict prognosis and response to PD-1 blockade in clear cell renal cell carcinoma. Oncoimmunology 2021;10(1):1933332. PMID: 34262797
  • Peng X, Li Y, Kong X, Zhu X et al. Investigating Different DNA Methylation Patterns at the Resolution of Methylation Haplotypes. Front Genet 2021;12:697279. PMID: 34262601
  • Nisar M, Paracha RZ, Arshad I, Adil S et al. Integrated Analysis of Microarray and RNA-Seq Data for the Identification of Hub Genes and Networks Involved in the Pancreatic Cancer. Front Genet 2021;12:663787. PMID: 34262595
  • Wang Z, Zhu M, Wang M, Gao Y et al. Integrated Multiomic Analysis Reveals the High-Fat Diet Induced Activation of the MAPK Signaling and Inflammation Associated Metabolic Cascades via Histone Modification in Adipose Tissues. Front Genet 2021;12:650863. PMID: 34262592
  • Hammoudeh SM, Hammoudeh AM, Bhamidimarri PM, Al Safar H et al. Systems Immunology Analysis Reveals the Contribution of Pulmonary and Extrapulmonary Tissues to the Immunopathogenesis of Severe COVID-19 Patients. Front Immunol 2021;12:595150. PMID: 34262555
  • Nalamalapu RR, Yue M, Stone AR, Murphy S et al. The tweety Gene Family: From Embryo to Disease. Front Mol Neurosci 2021;14:672511. PMID: 34262434
  • Yu J, Lang Q, Zhong C, Wang S et al. Genome-Wide Identification of Autophagy Prognostic Signature in Pancreatic Cancer. Dose Response 2021 Apr-Jun;19(2):15593258211023260. PMID: 34262410
  • Ma M, Xie W, Li X et al. Identification of Autophagy-Related Genes in the Progression from Non-Alcoholic Fatty Liver to Non-Alcoholic Steatohepatitis. Int J Gen Med 2021;14:3163-3176. PMID: 34262330
  • Guo H, Yan Z, Hu Y, Huang X et al. Complement C7 is Specifically Expressed in Mesangial Cells and is a Potential Diagnostic Biomarker for Diabetic Nephropathy and is Regulated by miR-494-3p and miR-574-5p. Diabetes Metab Syndr Obes 2021;14:3077-3088. PMID: 34262312
  • Meijer AJM, Diepstraten FA, Langer T, Broer L et al. TCERG1L allelic variation is associated with cisplatin-induced hearing loss in childhood cancer, a PanCareLIFE study. NPJ Precis Oncol 2021 Jul 14;5(1):64. PMID: 34262104
  • Bui LT, Winters NI, Chung MI, Joseph C et al. Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity. Nat Commun 2021 Jul 14;12(1):4314. PMID: 34262047
  • Eide PW, Moosavi SH, Eilertsen IA, Brunsell TH et al. Metastatic heterogeneity of the consensus molecular subtypes of colorectal cancer. NPJ Genom Med 2021 Jul 14;6(1):59. PMID: 34262039
  • Moon EJ, Mello SS, Li CG, Chi JT et al. The HIF target MAFF promotes tumor invasion and metastasis through IL11 and STAT3 signaling. Nat Commun 2021 Jul 14;12(1):4308. PMID: 34262028
  • Liang L, Gu W, Li M, Gao R et al. The long noncoding RNA HOTAIRM1 controlled by AML1 enhances glucocorticoid resistance by activating RHOA/ROCK1 pathway through suppressing ARHGAP18. Cell Death Dis 2021 Jul 14;12(7):702. PMID: 34262023
  • Chesnokov MS, Halasi M, Borhani S, Arbieva Z et al. Novel FOXM1 inhibitor identified via gene network analysis induces autophagic FOXM1 degradation to overcome chemoresistance of human cancer cells. Cell Death Dis 2021 Jul 14;12(7):704. PMID: 34262016
  • Poirion OB, Jing Z, Chaudhary K, Huang S et al. DeepProg: an ensemble of deep-learning and machine-learning models for prognosis prediction using multi-omics data. Genome Med 2021 Jul 14;13(1):112. PMID: 34261540
  • Jing C, Liu D, Lai Q, Li L et al. JOSD1 promotes proliferation and chemoresistance of head and neck squamous cell carcinoma under the epigenetic regulation of BRD4. Cancer Cell Int 2021 Jul 14;21(1):375. PMID: 34261480
  • Li W, Ding Z, Wang D, Li C et al. Ten-gene signature reveals the significance of clinical prognosis and immuno-correlation of osteosarcoma and study on novel skeleton inhibitors regarding MMP9. Cancer Cell Int 2021 Jul 14;21(1):377. PMID: 34261456
  • Pan X, Liu JH et al. Identification of four key biomarkers and small molecule drugs in nasopharyngeal carcinoma by weighted gene co-expression network analysis. Bioengineered 2021 Dec;12(1):3647-3661. PMID: 34261404
  • Kotipalli A, Banerjee R, Kasibhatla SM, Joshi R et al. Analysis of H3K4me3-ChIP-Seq and RNA-Seq data to understand the putative role of miRNAs and their target genes in breast cancer cell lines. Genomics Inform 2021 Jun;19(2):e17. PMID: 34261302
  • Mahfuz AMUB, Zubair-Bin-Mahfuj AM, Podder DJ et al. A network-biology approach for identification of key genes and pathways involved in malignant peritoneal mesothelioma. Genomics Inform 2021 Jun;19(2):e16. PMID: 34261301
  • Bharne DA protein interactions map of multiple organ systems associated with COVID-19 disease. Genomics Inform 2021 Jun;19(2):e14. PMID: 34261299
  • Kim B, Luo Y, Zhan X, Zhang Z et al. Neuronal activity-induced BRG1 phosphorylation regulates enhancer activation. Cell Rep 2021 Jul 13;36(2):109357. PMID: 34260936
  • Xin J, Wu Y, Ben S, Li S et al. CoSMeD: a user-friendly web server to estimate 5-year survival probability of left-sided and right-sided colorectal cancer patients using molecular data. Bioinformatics 2021 Dec 22;38(1):278-281. PMID: 34260718
  • Rahman MR, Islam T, Shahjaman M, Islam MR et al. Discovering common pathogenetic processes between COVID-19 and diabetes mellitus by differential gene expression pattern analysis. Brief Bioinform 2021 Nov 5;22(6). PMID: 34260684
  • Menga A, Favia M, Spera I, Vegliante MC et al. N-acetylaspartate release by glutaminolytic ovarian cancer cells sustains protumoral macrophages. EMBO Rep 2021 Sep 6;22(9):e51981. PMID: 34260142
  • Novačić A, Šupljika N, Bekavac N, Žunar B et al. Interplay of the RNA Exosome Complex and RNA-Binding Protein Ssd1 in Maintaining Cell Wall Stability in Yeast. Microbiol Spectr 2021 Sep 3;9(1):e0029521. PMID: 34259554
  • Davidson CD, Bolf EL, Gillis NE, Cozzens LM et al. Thyroid Hormone Receptor Beta Inhibits PI3K-Akt-mTOR Signaling Axis in Anaplastic Thyroid Cancer via Genomic Mechanisms. J Endocr Soc 2021 Aug 1;5(8):bvab102. PMID: 34258492
  • Urbanellis P, McEvoy CM, Škrtić M, Kaths JM et al. Transcriptome Analysis of Kidney Grafts Subjected to Normothermic Ex Vivo Perfusion Demonstrates an Enrichment of Mitochondrial Metabolism Genes. Transplant Direct 2021 Aug;7(8):e719. PMID: 34258386
  • Jia L, Wang Y, Wang CY et al. circFAT1 Promotes Cancer Stemness and Immune Evasion by Promoting STAT3 Activation. Adv Sci (Weinh) 2021 Jul;8(13):2003376. PMID: 34258151
  • Rong Y, Dong SS, Hu WX, Guo Y et al. DDRS: Detection of drug response SNPs specifically in patients receiving drug treatment. Comput Struct Biotechnol J 2021;19:3650-3657. PMID: 34257842
  • Spiecker L, Witte I, Mehlig J, Shah V et al. Deficiency of Antioxidative Paraoxonase 2 (Pon2) Leads to Increased Number of Phenotypic LT-HSCs and Disturbed Erythropoiesis. Oxid Med Cell Longev 2021;2021:3917028. PMID: 34257800
  • Xu P, Xu X, Zhang L, Li Z et al. hsa_circ_0060975 is highly expressed and predicts a poor prognosis in gastric cancer. Oncol Lett 2021 Aug;22(2):619. PMID: 34257727
  • Jin X, Zhou H, Song J, Cui H et al. P3H4 Overexpression Serves as a Prognostic Factor in Lung Adenocarcinoma. Comput Math Methods Med 2021;2021:9971353. PMID: 34257701
  • Liu J, Zhang SQ, Chen J, Li ZB et al. Identifying Prognostic Significance of RCL1 and Four-Gene Signature as Novel Potential Biomarkers in HCC Patients. J Oncol 2021;2021:5574150. PMID: 34257652
  • Wang X, Liu Y, Leng X, Cao K et al. UBE2T Contributes to the Prognosis of Esophageal Squamous Cell Carcinoma. Pathol Oncol Res 2021;27:632531. PMID: 34257599
  • Lee S, Kim KM, Lee SY, Jung J et al. Estrogen Aggravates Tumor Growth in a Diffuse Gastric Cancer Xenograft Model. Pathol Oncol Res 2021;27:622733. PMID: 34257587
  • Feng D, Lin J, Wang W, Yan K et al. Wnt3a/β-Catenin/CBP Activation in the Progression of Cervical Intraepithelial Neoplasia. Pathol Oncol Res 2021;27:609620. PMID: 34257574
  • Zhou W, Chen Y, Luo R, Li Z et al. Identification of Biomarkers Related to Immune Cell Infiltration in Hepatocellular Carcinoma Using Gene Co-Expression Network. Pathol Oncol Res 2021;27:601693. PMID: 34257558
  • Zhang R, Huang M, Wang H, Wu S et al. Identification of Potential Biomarkers From Hepatocellular Carcinoma With MT1 Deletion. Pathol Oncol Res 2021;27:597527. PMID: 34257549
  • Wang L, Li X, Zhao L, Jiang L et al. Identification of DNA-Repair-Related Five-Gene Signature to Predict Prognosis in Patients with Esophageal Cancer. Pathol Oncol Res 2021;27:596899. PMID: 34257547
  • Zhang P, Feng J, Wu X, Chu W et al. Bioinformatics Analysis of Candidate Genes and Pathways Related to Hepatocellular Carcinoma in China: A Study Based on Public Databases. Pathol Oncol Res 2021;27:588532. PMID: 34257537
  • Xin W, Zhao C, Jiang L, Pei D et al. Identification of a Novel Epithelial-Mesenchymal Transition Gene Signature Predicting Survival in Patients With HNSCC. Pathol Oncol Res 2021;27:585192. PMID: 34257533
  • Chen WC, To MD, Westcott PMK, Delrosario R et al. Targeting KRAS4A splicing through the RBM39/DCAF15 pathway inhibits cancer stem cells. Nat Commun 2021 Jul 13;12(1):4288. PMID: 34257283
  • Krasniqi E, Sacconi A, Marinelli D, Pizzuti L et al. MicroRNA-based signatures impacting clinical course and biology of ovarian cancer: a miRNOmics study. Biomark Res 2021 Jul 13;9(1):57. PMID: 34256855
  • Padhi EM, Hayeck TJ, Cheng Z, Chatterjee S et al. Coding and noncoding variants in EBF3 are involved in HADDS and simplex autism. Hum Genomics 2021 Jul 13;15(1):44. PMID: 34256850
  • Cho EJ, Kim M, Jo D, Kim J et al. Immuno-genomic classification of colorectal cancer organoids reveals cancer cells with intrinsic immunogenic properties associated with patient survival. J Exp Clin Cancer Res 2021 Jul 13;40(1):230. PMID: 34256801
  • Zhang Y, Huang X, Liu J, Chen G et al. New insight into long non-coding RNAs associated with bone metastasis of breast cancer based on an integrated analysis. Cancer Cell Int 2021 Jul 13;21(1):372. PMID: 34256750
  • Guo X, Song Y, Liu S, Gao M et al. Linking genotype to phenotype in multi-omics data of small sample. BMC Genomics 2021 Jul 13;22(1):537. PMID: 34256701
  • Mitra S, Zhong J, Tran TQ, MacAlpine DM et al. RoboCOP: jointly computing chromatin occupancy profiles for numerous factors from chromatin accessibility data. Nucleic Acids Res 2021 Aug 20;49(14):7925-7938. PMID: 34255854
  • França TT, Al-Sbiei A, Bashir G, Mohamed YA et al. CD40L modulates transcriptional signatures of neutrophils in the bone marrow associated with development and trafficking. JCI Insight 2021 Aug 23;6(16). PMID: 34255742
  • Fang Y, Chen G, Chen F, Hu E et al. Accurate transcriptome assembly by Nanopore RNA sequencing reveals novel functional transcripts in hepatocellular carcinoma. Cancer Sci 2021 Sep;112(9):3555-3568. PMID: 34255396
  • Ko S, Li GX, Choi H, Won JH et al. Computationally scalable regression modeling for ultrahigh-dimensional omics data with ParProx. Brief Bioinform 2021 Nov 5;22(6). PMID: 34254998
  • Zhang Q, Kang L, Li X, Li Z et al. Bioinformatics Analysis Predicts hsa_circ_0026337/miR-197-3p as a Potential Oncogenic ceRNA Network for Non-Small Cell Lung Cancers. Anticancer Agents Med Chem 2022;22(5):874-886. PMID: 34254931
  • Friedrich M, Kehl N, Engelke N, Kraus J et al. Intrathecal activation of CD8(+) memory T cells in IgG4-related disease of the brain parenchyma. EMBO Mol Med 2021 Aug 9;13(8):e13953. PMID: 34254741
  • Jones AR, Iacoangeli A, Adey BN, Bowles H et al. A HML6 endogenous retrovirus on chromosome 3 is upregulated in amyotrophic lateral sclerosis motor cortex. Sci Rep 2021 Jul 12;11(1):14283. PMID: 34253796
  • Richter ML, Deligiannis IK, Yin K, Danese A et al. Single-nucleus RNA-seq2 reveals functional crosstalk between liver zonation and ploidy. Nat Commun 2021 Jul 12;12(1):4264. PMID: 34253736
  • He B, Zhang C, Zhang X, Fan Y et al. Tissue-specific 5-hydroxymethylcytosine landscape of the human genome. Nat Commun 2021 Jul 12;12(1):4249. PMID: 34253716
  • Dong C, Tian X, He F, Zhang J et al. Integrative analysis of key candidate genes and signaling pathways in ovarian cancer by bioinformatics. J Ovarian Res 2021 Jul 12;14(1):92. PMID: 34253236
  • Das S, Marin ND, Esaulova E, Ahmed M et al. Lung Epithelial Signaling Mediates Early Vaccine-Induced CD4(+) T Cell Activation and Mycobacterium tuberculosis Control. mBio 2021 Aug 31;12(4):e0146821. PMID: 34253059
  • Shengquan C, Boheng Z, Xiaoyang C, Xuegong Z et al. stPlus: a reference-based method for the accurate enhancement of spatial transcriptomics. Bioinformatics 2021 Jul 12;37(Suppl_1):i299-i307. PMID: 34252941
  • Jang G, Park S, Lee S, Kim S et al. Predicting mechanism of action of novel compounds using compound structure and transcriptomic signature coembedding. Bioinformatics 2021 Jul 12;37(Suppl_1):i376-i382. PMID: 34252937
  • Cao B, Guo X, Huang L, Wang B et al. Methylation silencing CDH23 is a poor prognostic marker in diffuse large B-cell lymphoma. Aging (Albany NY) 2021 Jul 12;13(13):17768-17788. PMID: 34252883
  • Williams K, Carrasquilla GD, Ingerslev LR, Hochreuter MY et al. Epigenetic rewiring of skeletal muscle enhancers after exercise training supports a role in whole-body function and human health. Mol Metab 2021 Nov;53:101290. PMID: 34252634
  • Xu K, Zhang P, Zhang J, Quan H et al. Identification of potential micro-messenger RNAs (miRNA-mRNA) interaction network of osteosarcoma. Bioengineered 2021 Dec;12(1):3275-3293. PMID: 34252359
  • Duan L, Cao L, Zhang R, Niu L et al. Development and validation of a survival model for esophageal adenocarcinoma based on autophagy-associated genes. Bioengineered 2021 Dec;12(1):3434-3454. PMID: 34252349
  • Zhao HB, Zeng YR, Han ZD, Zhuo YJ et al. Novel immune-related signature for risk stratification and prognosis in prostatic adenocarcinoma. Cancer Sci 2021 Oct;112(10):4365-4376. PMID: 34252262
  • Liu G, Ma JY, Hu G, Jin H et al. Identification and validation of a novel ferroptosis-related gene model for predicting the prognosis of gastric cancer patients. PLoS One 2021;16(7):e0254368. PMID: 34252149
  • Zhao Y, Li M, Yang Y, Wu T et al. Identification of Macrophage Polarization-Related Genes as Biomarkers of Chronic Obstructive Pulmonary Disease Based on Bioinformatics Analyses. Biomed Res Int 2021;2021:9921012. PMID: 34250093
  • Jia H, Zhang X, Liu X, Qiao R et al. FABP5, a Novel Immune-Related mRNA Prognostic Marker and a Target of Immunotherapy for Multiple Myeloma. Front Med (Lausanne) 2021;8:667525. PMID: 34249967
  • Gu L, Ren F, Fang X, Yuan L et al. Exosomal MicroRNA-181a Derived From Mesenchymal Stem Cells Improves Gut Microbiota Composition, Barrier Function, and Inflammatory Status in an Experimental Colitis Model. Front Med (Lausanne) 2021;8:660614. PMID: 34249964
  • Yao X, Shen H, Cao F, He H et al. Bioinformatics Analysis Reveals Crosstalk Among Platelets, Immune Cells, and the Glomerulus That May Play an Important Role in the Development of Diabetic Nephropathy. Front Med (Lausanne) 2021;8:657918. PMID: 34249963
  • Qian H, Li H, Xie J, Lu X et al. Immunity-Related Gene Signature Identifies Subtypes Benefitting From Adjuvant Chemotherapy or Potentially Responding to PD1/PD-L1 Blockage in Pancreatic Cancer. Front Cell Dev Biol 2021;9:682261. PMID: 34249934
  • Jiang Y, Zhang X, Zhang X, Zhao K et al. Comprehensive Analysis of the Transcriptome-Wide m6A Methylome in Pterygium by MeRIP Sequencing. Front Cell Dev Biol 2021;9:670528. PMID: 34249924
  • Dom G, Dmitriev P, Lambot MA, Van Vliet G et al. Transcriptomic Signature of Human Embryonic Thyroid Reveals Transition From Differentiation to Functional Maturation. Front Cell Dev Biol 2021;9:669354. PMID: 34249923
  • Yang W, Li Y, Bai J, You T et al. A Functional Variant Rs492554 Associated With Congenital Heart Defects Modulates SESN2 Expression Through POU2F1. Front Cell Dev Biol 2021;9:668474. PMID: 34249922
  • He X, Liu L, Chen B, Wu C et al. Using Cell Type-Specific Genes to Identify Cell-Type Transitions Between Different in vitro Culture Conditions. Front Cell Dev Biol 2021;9:644261. PMID: 34249906
  • Zhang A, Yang J, Ma C, Li F et al. Development and Validation of a Robust Ferroptosis-Related Prognostic Signature in Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:616271. PMID: 34249899
  • Shao Y, Jia H, Huang L, Li S et al. An Original Ferroptosis-Related Gene Signature Effectively Predicts the Prognosis and Clinical Status for Colorectal Cancer Patients. Front Oncol 2021;11:711776. PMID: 34249766
  • Dong Y, Ma WM, Shi ZD, Zhang ZG et al. Role of NRP1 in Bladder Cancer Pathogenesis and Progression. Front Oncol 2021;11:685980. PMID: 34249735
  • Lu L, Liu LP, Zhao QQ, Gui R et al. Identification of a Ferroptosis-Related LncRNA Signature as a Novel Prognosis Model for Lung Adenocarcinoma. Front Oncol 2021;11:675545. PMID: 34249715
  • Liu J, Liu Z, Zhou Y, Zeng M et al. Identification of a Novel Transcription Factor Prognostic Index for Breast Cancer. Front Oncol 2021;11:666505. PMID: 34249704
  • Cheng Y, Hou K, Wang Y, Chen Y et al. Identification of Prognostic Signature and Gliclazide as Candidate Drugs in Lung Adenocarcinoma. Front Oncol 2021;11:665276. PMID: 34249701
  • Piran M, Sepahi N, Moattari A, Rahimi A et al. Systems Biomedicine of Primary and Metastatic Colorectal Cancer Reveals Potential Therapeutic Targets. Front Oncol 2021;11:597536. PMID: 34249670
  • Du XF, Cui HT, Pan HH, Long J et al. Role of the miR-133a-5p/FBXO6 axis in the regulation of intervertebral disc degeneration. J Orthop Translat 2021 Jul;29:123-133. PMID: 34249610
  • Pan Y, Meng Y, Zhai Z, Xiong S et al. Identification of a three-gene-based prognostic model in multiple myeloma using bioinformatics analysis. PeerJ 2021;9:e11320. PMID: 34249481
  • Kowalski TW, Caldas-Garcia GB, Gomes JDA, Fraga LR et al. Comparative Genomics Identifies Putative Interspecies Mechanisms Underlying Crbn-Sall4-Linked Thalidomide Embryopathy. Front Genet 2021;12:680217. PMID: 34249098
  • Zhao J, Yu SZ, Cai Q, Ma D et al. Identifying the Key Genes in Mouse Liver Regeneration After Partial Hepatectomy by Bioinformatics Analysis and in vitro/vivo Experiments. Front Genet 2021;12:670706. PMID: 34249092
  • Dai W, Xiao Y, Tang W, Li J et al. Identification of an EMT-Related Gene Signature for Predicting Overall Survival in Gastric Cancer. Front Genet 2021;12:661306. PMID: 34249086
  • Gupta C, Ramegowda V, Basu S, Pereira A et al. Using Network-Based Machine Learning to Predict Transcription Factors Involved in Drought Resistance. Front Genet 2021;12:652189. PMID: 34249082
  • Zhao Y, Lv J, Zhang H, Xie J et al. Gene Expression Profiles Analyzed Using Integrating RNA Sequencing, and Microarray Reveals Increased Inflammatory Response, Proliferation, and Osteoclastogenesis in Pigmented Villonodular Synovitis. Front Immunol 2021;12:665442. PMID: 34248943
  • Shao Y, Saredy J, Xu K, Sun Y et al. Endothelial Immunity Trained by Coronavirus Infections, DAMP Stimulations and Regulated by Anti-Oxidant NRF2 May Contribute to Inflammations, Myelopoiesis, COVID-19 Cytokine Storms and Thromboembolism. Front Immunol 2021;12:653110. PMID: 34248940
  • Liu J, Liao X, Zhou J, Li B et al. A Rare Variant of ANK3 Is Associated With Intracranial Aneurysm. Front Neurol 2021;12:672570. PMID: 34248821
  • Zhou D, Xue J, Miyamoto Y, Poulsen O et al. Microbiota Modulates Cardiac Transcriptional Responses to Intermittent Hypoxia and Hypercapnia. Front Physiol 2021;12:680275. PMID: 34248668
  • Du Y, Ma Y, Zhu Q, Liu T et al. An m6A-Related Prognostic Biomarker Associated With the Hepatocellular Carcinoma Immune Microenvironment. Front Pharmacol 2021;12:707930. PMID: 34248650
  • Cao J, Gong J, Li X, Hu Z et al. Unsupervised Hierarchical Clustering Identifies Immune Gene Subtypes in Gastric Cancer. Front Pharmacol 2021;12:692454. PMID: 34248641
  • You YA, Kwon EJ, Hwang HS, Choi SJ et al. Elevated methylation of the vault RNA2-1 promoter in maternal blood is associated with preterm birth. BMC Genomics 2021 Jul 10;22(1):528. PMID: 34246240
  • Xu Q, Georgiou G, Frölich S, van der Sande M et al. ANANSE: an enhancer network-based computational approach for predicting key transcription factors in cell fate determination. Nucleic Acids Res 2021 Aug 20;49(14):7966-7985. PMID: 34244796
  • Bao Z, Liu Y, Chen B, Miao Z et al. Prokineticin-2 prevents neuronal cell deaths in a model of traumatic brain injury. Nat Commun 2021 Jul 9;12(1):4220. PMID: 34244497
  • Xia P, Zhang H, Xu K, Jiang X et al. MYC-targeted WDR4 promotes proliferation, metastasis, and sorafenib resistance by inducing CCNB1 translation in hepatocellular carcinoma. Cell Death Dis 2021 Jul 9;12(7):691. PMID: 34244479
  • Fu H, Zhang W, Li N, Yang J et al. Elevated retrotransposon activity and genomic instability in primed pluripotent stem cells. Genome Biol 2021 Jul 9;22(1):201. PMID: 34243810
  • Uddin J, Tomar S, Sharma A, Waggoner L et al. PIR-B Regulates CD4(+) IL17a(+) T-Cell Survival and Restricts T-Cell-Dependent Intestinal Inflammatory Responses. Cell Mol Gastroenterol Hepatol 2021;12(4):1479-1502. PMID: 34242819
  • Murphy F, Bar-Sinai M, Martone ME et al. A tool for assessing alignment of biomedical data repositories with open, FAIR, citation and trustworthy principles. PLoS One 2021;16(7):e0253538. PMID: 34242248
  • Babasaki T, Sentani K, Sekino Y, Kobayashi G et al. Overexpression of claspin promotes docetaxel resistance and is associated with prostate-specific antigen recurrence in prostate cancer. Cancer Med 2021 Aug;10(16):5574-5588. PMID: 34240817
  • Liu B, Tian Y, Chen M, Shen H et al. CircUBAP2 Promotes MMP9-Mediated Oncogenic Effect via Sponging miR-194-3p in Hepatocellular Carcinoma. Front Cell Dev Biol 2021;9:675043. PMID: 34239873
  • Eloranta K, Nousiainen R, Cairo S, Pakarinen MP et al. Neuropilin-2 Is Associated With Increased Hepatoblastoma Cell Viability and Motility. Front Pediatr 2021;9:660482. PMID: 34239847
  • Xu Y, Zuo W, Wang X, Zhang Q et al. Deciphering the effects of PYCR1 on cell function and its associated mechanism in hepatocellular carcinoma. Int J Biol Sci 2021;17(9):2223-2239. PMID: 34239351
  • Xu W, Liu WR, Xu Y, Tian X et al. Hexokinase 3 dysfunction promotes tumorigenesis and immune escape by upregulating monocyte/macrophage infiltration into the clear cell renal cell carcinoma microenvironment. Int J Biol Sci 2021;17(9):2205-2222. PMID: 34239350
  • Wiedenmann S, Breunig M, Merkle J, von Toerne C et al. Single-cell-resolved differentiation of human induced pluripotent stem cells into pancreatic duct-like organoids on a microwell chip. Nat Biomed Eng 2021 Aug;5(8):897-913. PMID: 34239116
  • Lee H, Park J, Im HJ, Na KJ et al. Discovery of potential imaging and therapeutic targets for severe inflammation in COVID-19 patients. Sci Rep 2021 Jul 8;11(1):14151. PMID: 34239034
  • Shi Y, Jiang Z, Jiang L, Xu J et al. Integrative analysis of key candidate genes and signaling pathways in acute coronary syndrome related to obstructive sleep apnea by bioinformatics. Sci Rep 2021 Jul 8;11(1):14153. PMID: 34239024
  • Iqbal MM, Serralha M, Kaur P, Martino D et al. Mapping the landscape of chromatin dynamics during naïve CD4+ T-cell activation. Sci Rep 2021 Jul 8;11(1):14101. PMID: 34238961
  • Zhou Y, Liu L, Liu Y, Zhou P et al. Implication of human endogenous retrovirus W family envelope in hepatocellular carcinoma promotes MEK/ERK-mediated metastatic invasiveness and doxorubicin resistance. Cell Death Discov 2021 Jul 8;7(1):177. PMID: 34238921
  • Zhang G, Dong R, Kong D, Liu B et al. The Effect of GLUT1 on the Survival Rate and Immune Cell Infiltration of Lung Adenocarcinoma and Squamous Cell Carcinoma: A Meta and Bioinformatics Analysis. Anticancer Agents Med Chem 2022;22(2):223-238. PMID: 34238200
  • Zhao J, Gao H, He Y et al. Data Mining of Differentially Expressed Genes in Ovarian Epithelial Carcinoma: Implications in Precise Medicine. Curr Top Med Chem 2021 Oct 5;21(14):1285-1300. PMID: 34238161
  • Lin P, Zhao Y, Li X, Liang Z et al. KIAA0101 in Malignant Pleural Mesothelioma: A Potential Diagnostic and Prognostic Marker. Comb Chem High Throughput Screen 2022;25(9):1498-1506. PMID: 34238152
  • Ma H, Liu J, Li Z, Xiong H et al. Expression profile analysis reveals hub genes that are associated with immune system dysregulation in primary myelofibrosis. Hematology 2021 Dec;26(1):478-490. PMID: 34238135
  • Ren P, Wang J, Li L, Lin X et al. Identification of key genes involved in the recurrence of glioblastoma multiforme using weighted gene co-expression network analysis and differential expression analysis. Bioengineered 2021 Dec;12(1):3188-3200. PMID: 34238116
  • Zeng L, Li X, Preusch CB, He GJ et al. Nuclear receptors NHR-49 and NHR-79 promote peroxisome proliferation to compensate for aldehyde dehydrogenase deficiency in C. elegans. PLoS Genet 2021 Jul;17(7):e1009635. PMID: 34237064
  • Faux T, Rytkönen KT, Mahmoudian M, Paulin N et al. Differential ATAC-seq and ChIP-seq peak detection using ROTS. NAR Genom Bioinform 2021 Sep;3(3):lqab059. PMID: 34235431
  • Cordova AF, Ritchie C, Böhnert V, Li L et al. Human SLC46A2 Is the Dominant cGAMP Importer in Extracellular cGAMP-Sensing Macrophages and Monocytes. ACS Cent Sci 2021 Jun 23;7(6):1073-1088. PMID: 34235268
  • Wasson MD, Brown JM, Venkatesh J, Fernando W et al. Datasets exploring putative lncRNA-miRNA-mRNA axes in breast cancer cell lines. Data Brief 2021 Aug;37:107241. PMID: 34235238
  • Ye Z, Zheng M, Zeng Y, Wei S et al. A 13-Gene Metabolic Prognostic Signature Is Associated With Clinical and Immune Features in Stomach Adenocarcinoma. Front Oncol 2021;11:612952. PMID: 34235071
  • Wei XL, Liu QW, Liu FR, Yuan SS et al. The clinicopathological significance and predictive value for immunotherapy of programmed death ligand-1 expression in Epstein-Barr virus-associated gastric cancer. Oncoimmunology 2021;10(1):1938381. PMID: 34235004
  • Li W, Liu J, Ma Z, Zhai X et al. m(6)A RNA Methylation Regulators Elicit Malignant Progression and Predict Clinical Outcome in Hepatocellular Carcinoma. Dis Markers 2021;2021:8859590. PMID: 34234878
  • Gu S, Fu X, Ye G, Chen C et al. High L-Carnitine Levels Impede Viral Control in Chronic Hepatitis B Virus Infection. Front Immunol 2021;12:649197. PMID: 34234772
  • Saddozai UAK, Wang F, Akbar MU, Zhang L et al. Identification of Clinical Relevant Molecular Subtypes of Pheochromocytoma. Front Endocrinol (Lausanne) 2021;12:605797. PMID: 34234737
  • Baek SJ, Ban HJ, Park SM, Lee B et al. Circulating microRNAs as Potential Diagnostic Biomarkers for Poor Sleep Quality. Nat Sci Sleep 2021;13:1001-1012. PMID: 34234603
  • Gao G, Shi X, Shen J et al. HS3ST2 and Its Related Molecules as Potential Biomarkers for Predicting Lymph Node Metastasis in Patients with Colorectal Cancer. Onco Targets Ther 2021;14:3881-3894. PMID: 34234457
  • Madar IH, Sultan G, Tayubi IA, Hasan AN et al. Identification of marker genes in Alzheimer's disease using a machine-learning model. Bioinformation 2021;17(2):348-355. PMID: 34234395
  • Magalhaes J, Tresse E, Ejlerskov P, Hu E et al. PIAS2-mediated blockade of IFN-β signaling: a basis for sporadic Parkinson disease dementia. Mol Psychiatry 2021 Oct;26(10):6083-6099. PMID: 34234281
  • Fa B, Wei T, Zhou Y, Johnston L et al. GapClust is a light-weight approach distinguishing rare cells from voluminous single cell expression profiles. Nat Commun 2021 Jul 7;12(1):4197. PMID: 34234139
  • Liu Q, Guo L, Qi H, Lou M et al. A MYBL2 complex for RRM2 transactivation and the synthetic effect of MYBL2 knockdown with WEE1 inhibition against colorectal cancer. Cell Death Dis 2021 Jul 7;12(7):683. PMID: 34234118
  • Xiao X, Xu C, Yang W, Yu R et al. Inconsistent prediction capability of ImmuneCells.Sig across different RNA-seq datasets. Nat Commun 2021 Jul 7;12(1):4167. PMID: 34234113
  • Delgir S, Ilkhani K, Safi A, Rahmati Y et al. The expression of miR-513c and miR-3163 was downregulated in tumor tissues compared with normal adjacent tissue of patients with breast cancer. BMC Med Genomics 2021 Jul 7;14(1):180. PMID: 34233668
  • Gu Y, Hu X, Liu X, Cheng C et al. MCM6 indicates adverse tumor features and poor outcomes and promotes G1/S cell cycle progression in neuroblastoma. BMC Cancer 2021 Jul 7;21(1):784. PMID: 34233647
  • Hu X, Zuo J et al. The CCCH zinc finger family of soybean (Glycine max L.): genome-wide identification, expression, domestication, GWAS and haplotype analysis. BMC Genomics 2021 Jul 7;22(1):511. PMID: 34233625
  • Zeng Y, Li N, Zheng Z, Chen R et al. Screening of key biomarkers and immune infiltration in Pulmonary Arterial Hypertension via integrated bioinformatics analysis. Bioengineered 2021 Dec;12(1):2576-2591. PMID: 34233597
  • He L, Wang X, Jin Y, Xu W et al. Identification and validation of the miRNA-mRNA regulatory network in fetoplacental arterial endothelial cells of gestational diabetes mellitus. Bioengineered 2021 Dec;12(1):3503-3515. PMID: 34233591
  • Hou K, Shen J, Yan J, Zhai C et al. Loss of TRIM21 alleviates cardiotoxicity by suppressing ferroptosis induced by the chemotherapeutic agent doxorubicin. EBioMedicine 2021 Jul;69:103456. PMID: 34233258
  • Molina LM, Zhu J, Li Q, Pradhan-Sundd T et al. Compensatory hepatic adaptation accompanies permanent absence of intrahepatic biliary network due to YAP1 loss in liver progenitors. Cell Rep 2021 Jul 6;36(1):109310. PMID: 34233187
  • Wang T, Jiang R, Yao Y, Qian L et al. Identification of endometriosis-associated genes and pathways based on bioinformatic analysis. Medicine (Baltimore) 2021 Jul 9;100(27):e26530. PMID: 34232189
  • Yang X, Tian M, Zhang W, Chai T et al. Identification of potential core genes in esophageal carcinoma using bioinformatics analysis. Medicine (Baltimore) 2021 Jul 9;100(27):e26428. PMID: 34232175
  • van Tilburg AY, Fülleborn JA, Reder A, Völker U et al. Unchaining miniBacillus Strain PG10: Relief of FlgM-Mediated Repression of Autolysin Genes. Appl Environ Microbiol 2021 Aug 26;87(18):e0112321. PMID: 34232062
  • Bai WY, Xia JW, Rong XL, Cong PK et al. Integrative analysis of genomic and epigenomic data reveal underlying superenhancer-mediated microRNA regulatory network for human bone mineral density. Hum Mol Genet 2021 Nov 1;30(22):2177-2189. PMID: 34230965
  • Cao J, Novoa EM, Zhang Z, Chen WCW et al. High-throughput 5' UTR engineering for enhanced protein production in non-viral gene therapies. Nat Commun 2021 Jul 6;12(1):4138. PMID: 34230498
  • Xiong Q, Jiang L, Liu K, Jiang X et al. miR-133b targets NCAPH to promote β-catenin degradation and reduce cancer stem cell maintenance in non-small cell lung cancer. Signal Transduct Target Ther 2021 Jul 7;6(1):252. PMID: 34230450
  • Kan J, Hu Y, Ge Y, Zhang W et al. Declined expressions of vast mitochondria-related genes represented by CYCS and transcription factor ESRRA in skeletal muscle aging. Bioengineered 2021 Dec;12(1):3485-3502. PMID: 34229541
  • Du J, Gu J, Deng J, Kong L et al. The Expression and Survival Significance of Glucose Transporter-1 in Pancreatic Cancer: Meta-Analysis, Bioinformatics Analysis and Retrospective Study. Cancer Invest 2021 Oct;39(9):741-755. PMID: 34229540
  • Meng F, Han X, Min Z, He X et al. Prognostic signatures associated with high infiltration of Tregs in bone metastatic prostate cancer. Aging (Albany NY) 2021 Jul 6;13(13):17442-17461. PMID: 34229299
  • Lee LA, Broadwell LJ, Buvoli M, Leinwand LA et al. Nonproductive Splicing Prevents Expression of MYH7b Protein in the Mammalian Heart. J Am Heart Assoc 2021 Jul 20;10(14):e020965. PMID: 34227390
  • Nan FY, Gu Y, Xu ZJ, Sun GK et al. Abnormal expression and methylation of PRR34-AS1 are associated with adverse outcomes in acute myeloid leukemia. Cancer Med 2021 Aug;10(15):5283-5296. PMID: 34227248
  • Reed ER, Monti S et al. Multi-resolution characterization of molecular taxonomies in bulk and single-cell transcriptomics data. Nucleic Acids Res 2021 Sep 27;49(17):e98. PMID: 34226941
  • Ichihara K, Matsumoto A, Nishida H, Kito Y et al. Combinatorial analysis of translation dynamics reveals eIF2 dependence of translation initiation at near-cognate codons. Nucleic Acids Res 2021 Jul 21;49(13):7298-7317. PMID: 34226921
  • Lampis A, Hahne JC, Gasparini P, Cascione L et al. MIR21-induced loss of junctional adhesion molecule A promotes activation of oncogenic pathways, progression and metastasis in colorectal cancer. Cell Death Differ 2021 Oct;28(10):2970-2982. PMID: 34226680
  • Lin CH, Huang RY, Lu TP, Kuo KT et al. High prevalence of APOA1/C3/A4/A5 alterations in luminal breast cancers among young women in East Asia. NPJ Breast Cancer 2021 Jul 5;7(1):88. PMID: 34226567
  • Zhou B, Ge Y, Shao Q, Yang L et al. Long noncoding RNA LINC00284 facilitates cell proliferation in papillary thyroid cancer via impairing miR-3127-5p targeted E2F7 suppression. Cell Death Discov 2021 Jun 26;7(1):156. PMID: 34226533
  • Zhou PL, Wu Z, Zhang W, Xu M et al. Circular RNA hsa_circ_0000277 sequesters miR-4766-5p to upregulate LAMA1 and promote esophageal carcinoma progression. Cell Death Dis 2021 Jul 5;12(7):676. PMID: 34226522
  • Wang H, Han X, Gao S et al. Identification of potential biomarkers for pathogenesis of Alzheimer's disease. Hereditas 2021 Jul 5;158(1):23. PMID: 34225819
  • Steinbrink JM, Myers RA, Hua K, Johnson MD et al. The host transcriptional response to Candidemia is dominated by neutrophil activation and heme biosynthesis and supports novel diagnostic approaches. Genome Med 2021 Jul 5;13(1):108. PMID: 34225776
  • Barile M, Imaz-Rosshandler I, Inzani I, Ghazanfar S et al. Coordinated changes in gene expression kinetics underlie both mouse and human erythroid maturation. Genome Biol 2021 Jul 5;22(1):197. PMID: 34225769
  • Xu J, Liu X, Dai Q et al. Integration of transcriptomic data identifies key hallmark genes in hypertrophic cardiomyopathy. BMC Cardiovasc Disord 2021 Jul 6;21(1):330. PMID: 34225646
  • Lin F, Zhang H, Bao J, Li L et al. Identification of Potential Diagnostic miRNAs Biomarkers for Alzheimer Disease Based on Weighted Gene Coexpression Network Analysis. World Neurosurg 2021 Sep;153:e315-e328. PMID: 34224891
  • Zhao Y, Huang J, Chen J et al. The integration of differentially expressed genes based on multiple microarray datasets for prediction of the prognosis in oral squamous cell carcinoma. Bioengineered 2021 Dec;12(1):3309-3321. PMID: 34224327
  • Vega-Tapia F, Peñaloza E, Krause BJ et al. Specific arterio-venous transcriptomic and ncRNA-RNA interactions in human umbilical endothelial cells: A meta-analysis. iScience 2021 Jun 25;24(6):102675. PMID: 34222842
  • Yin TF, Zhao DY, Zhou YC, Wang QQ et al. Identification of the circRNA-miRNA-mRNA regulatory network and its prognostic effect in colorectal cancer. World J Clin Cases 2021 Jun 26;9(18):4520-4541. PMID: 34222420
  • Lu X, Fan Y, Li M, Chang X et al. HTR2B and SLC5A3 Are Specific Markers in Age-Related Osteoarthritis and Involved in Apoptosis and Inflammation of Osteoarthritis Synovial Cells. Front Mol Biosci 2021;8:691602. PMID: 34222340
  • Li T, Shen K, Li J, Leung SWS et al. Glomerular Endothelial Cells Are the Coordinator in the Development of Diabetic Nephropathy. Front Med (Lausanne) 2021;8:655639. PMID: 34222276
  • Liu QF, Feng ZY, Jiang LL, Xu TT et al. Immune Cell Infiltration as Signatures for the Diagnosis and Prognosis of Malignant Gynecological Tumors. Front Cell Dev Biol 2021;9:702451. PMID: 34222265
  • Overeem AW, Chang YW, Spruit J, Roelse CM et al. Ligand-Receptor Interactions Elucidate Sex-Specific Pathways in the Trajectory From Primordial Germ Cells to Gonia During Human Development. Front Cell Dev Biol 2021;9:661243. PMID: 34222234
  • Wu Q, Liu Y, Xie Y, Wei S et al. Identification of Potential ceRNA Network and Patterns of Immune Cell Infiltration in Systemic Sclerosis-Associated Interstitial Lung Disease. Front Cell Dev Biol 2021;9:622021. PMID: 34222222
  • Wang K, Dong S, Higazy D, Jin L et al. Inflammatory Environment Promotes the Adhesion of Tumor Cells to Brain Microvascular Endothelial Cells. Front Oncol 2021;11:691771. PMID: 34222020
  • Shen J, Liu T, Bei Q, Xu S et al. Comprehensive Landscape of Ovarian Cancer Immune Microenvironment Based on Integrated Multi-Omics Analysis. Front Oncol 2021;11:685065. PMID: 34222009
  • Yan X, Wu HH, Chen Z, Du GW et al. Construction and Validation of an Autophagy-Related Prognostic Signature and a Nomogram for Bladder Cancer. Front Oncol 2021;11:632387. PMID: 34221960
  • Ji Z, Zhang R, Yang M, Zuo W et al. Accuracy of triggering receptor expressed on myeloid cells 1 in diagnosis and prognosis of acute myocardial infarction: a prospective cohort study. PeerJ 2021;9:e11655. PMID: 34221733
  • Huang C, Leng D, Zheng P, Deng M et al. Comprehensive transcriptome analysis of peripheral blood unravels key lncRNAs implicated in ABPA and asthma. PeerJ 2021;9:e11453. PMID: 34221710
  • Ruchong P, Haiping T, Xiang W et al. A Five-Gene Prognostic Nomogram Predicting Disease-Free Survival of Differentiated Thyroid Cancer. Dis Markers 2021;2021:5510780. PMID: 34221185
  • Wang Z, Ding Z, Guan Y, Liu C et al. Altered Gene Expression in the Testis of Infertile Patients with Nonobstructive Azoospermia. Comput Math Methods Med 2021;2021:5533483. PMID: 34221106
  • Ni X, Wan W, Ma J, Liu X et al. A Novel Prognostic Biomarker of Luminal Breast Cancer: High CD39 Expression Is Related to Poor Survival. Front Genet 2021;12:682503. PMID: 34220957
  • Li J, Tian S, Guo Y, Dong W et al. Oncological Effects and Prognostic Value of AMAP1 in Gastric Cancer. Front Genet 2021;12:675100. PMID: 34220948
  • Huang L, Yu X, Jiang Z, Zeng P et al. Novel Autophagy-Related Gene Signature Investigation for Patients With Oral Squamous Cell Carcinoma. Front Genet 2021;12:673319. PMID: 34220946
  • Zhong Q, Yang F, Chen X, Li J et al. Patterns of Immune Infiltration in Endometriosis and Their Relationship to r-AFS Stages. Front Genet 2021;12:631715. PMID: 34220927
  • Zhang Y, Chen P, Zhou Q, Wang H et al. A Novel Immune-Related Prognostic Signature in Head and Neck Squamous Cell Carcinoma. Front Genet 2021;12:570336. PMID: 34220923
  • Lhamo D, Luan S et al. Potential Networks of Nitrogen-Phosphorus-Potassium Channels and Transporters in Arabidopsis Roots at a Single Cell Resolution. Front Plant Sci 2021;12:689545. PMID: 34220911
  • Xu T, Wang X, Ma H, Su L et al. Functional Characterization of VDACs in Grape and Its Putative Role in Response to Pathogen Stress. Front Plant Sci 2021;12:670505. PMID: 34220892
  • Spinelli L, Marchingo JM, Nomura A, Damasio MP et al. Phosphoinositide 3-Kinase p110 Delta Differentially Restrains and Directs Naïve Versus Effector CD8(+) T Cell Transcriptional Programs. Front Immunol 2021;12:691997. PMID: 34220851
  • You Y, Zhao X, Wu Y, Mao J et al. Integrated Transcriptome Profiling Revealed That Elevated Long Non-Coding RNA-AC007278.2 Expression Repressed CCR7 Transcription in Systemic Lupus Erythematosus. Front Immunol 2021;12:615859. PMID: 34220794
  • Zhao S, Bao Z, Zhao X, Xu M et al. Identification of Diagnostic Markers for Major Depressive Disorder Using Machine Learning Methods. Front Neurosci 2021;15:645998. PMID: 34220416
  • Zhang Y, Qazi S, Raza K et al. Differential expression analysis in ovarian cancer: A functional genomics and systems biology approach. Saudi J Biol Sci 2021 Jul;28(7):4069-4081. PMID: 34220265
  • Du M, Gong P, Zhang Y, Liu Y et al. Histone methyltransferase SETD1A participates in lung cancer progression. Thorac Cancer 2021 Aug;12(16):2247-2257. PMID: 34219384
  • Qin R, Cao L, Ye C, Wang J et al. Screening of genes related to survival prognosis of cervical squamous cell carcinoma and construction of prognosis prediction model. J Obstet Gynaecol Res 2021 Sep;47(9):3310-3321. PMID: 34219322
  • Kolur V, Vastrad B, Vastrad C, Kotturshetti S et al. Identification of candidate biomarkers and therapeutic agents for heart failure by bioinformatics analysis. BMC Cardiovasc Disord 2021 Jul 4;21(1):329. PMID: 34218797
  • Paranjapye A, NandyMazumdar M, Browne JA, Leir SH et al. Krüppel-like factor 5 regulates wound repair and the innate immune response in human airway epithelial cells. J Biol Chem 2021 Aug;297(2):100932. PMID: 34217701
  • Huang R, Meng T, Zha Q, Cheng K et al. The predicting roles of carcinoembryonic antigen and its underlying mechanism in the progression of coronavirus disease 2019. Crit Care 2021 Jul 3;25(1):234. PMID: 34217339
  • Ghorbani M, Azghandi M, Kerachian MA et al. Aberrantly methylated-differentially genes and pathways among Iranian patients with colorectal cancer. Cancer Cell Int 2021 Jul 3;21(1):346. PMID: 34217303
  • Yao J, Chen X, Liu X, Li R et al. Characterization of a ferroptosis and iron-metabolism related lncRNA signature in lung adenocarcinoma. Cancer Cell Int 2021 Jul 3;21(1):340. PMID: 34217273
  • Yang C, Pang J, Xu J, Pan H et al. LRRK2 is a candidate prognostic biomarker for clear cell renal cell carcinoma. Cancer Cell Int 2021 Jul 3;21(1):343. PMID: 34217264
  • Tao T, Li J, Hang T, Duan P et al. Association of the key genes in the pathophysiology between the Type 2 diabetes and Lung cancer. Neuro Endocrinol Lett 2021 May 4;42(2):63-69. PMID: 34217162
  • Liu B, Huang J, Ashraf A, Rahaman O et al. The RNase MCPIP3 promotes skin inflammation by orchestrating myeloid cytokine response. Nat Commun 2021 Jul 2;12(1):4105. PMID: 34215755
  • Deng J, Luo K, Xu P, Jiang Q et al. High-efficiency c-Myc-mediated induction of functional hepatoblasts from the human umbilical cord mesenchymal stem cells. Stem Cell Res Ther 2021 Jul 2;12(1):375. PMID: 34215318
  • Uğurlu-Çimen D, Odluyurt D, Sevinç K, Özkan-Küçük NE et al. AF10 (MLLT10) prevents somatic cell reprogramming through regulation of DOT1L-mediated H3K79 methylation. Epigenetics Chromatin 2021 Jul 2;14(1):32. PMID: 34215314
  • Kananen L, Marttila S et al. Ageing-associated changes in DNA methylation in X and Y chromosomes. Epigenetics Chromatin 2021 Jul 2;14(1):33. PMID: 34215292
  • Cai W, Yang L, Zhang R, Yang Y et al. Abnormally increased DNA methylation in chorionic tissue might play an important role in development of ectopic pregnancy. Reprod Biol Endocrinol 2021 Jul 2;19(1):101. PMID: 34215268
  • Liu L, Pang H, He Q, Pan B et al. A novel strategy to identify candidate diagnostic and prognostic biomarkers for gastric cancer. Cancer Cell Int 2021 Jul 2;21(1):335. PMID: 34215253
  • Zheng R, Geng T, Wu DY, Zhang T et al. Derivation of feeder-free human extended pluripotent stem cells. Stem Cell Reports 2021 Jul 13;16(7):1686-1696. PMID: 34214484
  • Rawle DJ, Le TT, Dumenil T, Yan K et al. ACE2-lentiviral transduction enables mouse SARS-CoV-2 infection and mapping of receptor interactions. PLoS Pathog 2021 Jul;17(7):e1009723. PMID: 34214142
  • Wu L, Cheng Q, Wen Z, Song Y et al. IRF1 as a potential biomarker in Mycobacterium tuberculosis infection. J Cell Mol Med 2021 Aug;25(15):7270-7279. PMID: 34213077
  • Fu M, Chen H, Cai Z, Yang Y et al. Forkhead box family transcription factors as versatile regulators for cellular reprogramming to pluripotency. Cell Regen 2021 Jul 2;10(1):17. PMID: 34212295
  • Wang M, Zhang Z, Pan D, Xin Z et al. Circulating lncRNA UCA1 and lncRNA PGM5-AS1 act as potential diagnostic biomarkers for early-stage colorectal cancer. Biosci Rep 2021 Jul 30;41(7). PMID: 34212174
  • Young WC, Carpp LN, Chaudhury S, Regules JA et al. Comprehensive Data Integration Approach to Assess Immune Responses and Correlates of RTS,S/AS01-Mediated Protection From Malaria Infection in Controlled Human Malaria Infection Trials. Front Big Data 2021;4:672460. PMID: 34212134
  • Liang XJ, Fu RY, Wang HN, Yang J et al. An Immune-Related Prognostic Classifier Is Associated with Diffuse Large B Cell Lymphoma Microenvironment. J Immunol Res 2021;2021:5564568. PMID: 34212052
  • Chen YF, Yu ZL, Lv MY, Zheng B et al. Genome-Wide Analysis Reveals Hypoxic Microenvironment Is Associated With Immunosuppression in Poor Survival of Stage II/III Colorectal Cancer Patients. Front Med (Lausanne) 2021;8:686885. PMID: 34211990
  • Mo S, Dai W, Zhou Z, Gu R et al. Comprehensive Transcriptomic Analysis Reveals Prognostic Value of an EMT-Related Gene Signature in Colorectal Cancer. Front Cell Dev Biol 2021;9:681431. PMID: 34211976
  • Wang MY, Huang M, Wang CY, Tang XY et al. Transcriptome Analysis Reveals MFGE8-HAPLN3 Fusion as a Novel Biomarker in Triple-Negative Breast Cancer. Front Oncol 2021;11:682021. PMID: 34211850
  • Gao H, Liang J, Duan J, Chen L et al. A Prognosis Marker SLC2A3 Correlates With EMT and Immune Signature in Colorectal Cancer. Front Oncol 2021;11:638099. PMID: 34211835
  • Kalya M, Kel A, Wlochowitz D, Wingender E et al. IGFBP2 Is a Potential Master Regulator Driving the Dysregulated Gene Network Responsible for Short Survival in Glioblastoma Multiforme. Front Genet 2021;12:670240. PMID: 34211498
  • Li RA, Talikka M, Gubian S, Vom Berg C et al. Systems Toxicology Approach for Assessing Developmental Neurotoxicity in Larval Zebrafish. Front Genet 2021;12:652632. PMID: 34211495
  • Li H, Qu L, Zhang H, Liu J et al. A comprehensive transcriptomic landscape of cholangiocarcinoma based on bioinformatics analysis from large cohort of patients. Sci Rep 2021 Jul 1;11(1):13713. PMID: 34211100
  • Pierrelée M, Reynders A, Lopez F, Moqrich A et al. Introducing the novel Cytoscape app TimeNexus to analyze time-series data using temporal MultiLayer Networks (tMLNs). Sci Rep 2021 Jul 1;11(1):13691. PMID: 34211067
  • Han Y, Xia K, Su T et al. Exploration of the Important Role of Microfibril-Associated Protein 4 Gene in Oral Squamous Cell Carcinoma. Med Sci Monit 2021 Jul 2;27:e931238. PMID: 34210950
  • Luo W, Lin GN, Song W, Zhang Y et al. Single-cell spatial transcriptomic analysis reveals common and divergent features of developing postnatal granule cerebellar cells and medulloblastoma. BMC Biol 2021 Jul 1;19(1):135. PMID: 34210306
  • Mollo N, Esposito M, Aurilia M, Scognamiglio R et al. Human Trisomic iPSCs from Down Syndrome Fibroblasts Manifest Mitochondrial Alterations Early during Neuronal Differentiation. Biology (Basel) 2021 Jun 30;10(7). PMID: 34209429
  • Ibrahim AGAE, Vêncio RZN, Lorenzetti APR, Koide T et al. Halobacterium salinarum and Haloferax volcanii Comparative Transcriptomics Reveals Conserved Transcriptional Processing Sites. Genes (Basel) 2021 Jun 30;12(7). PMID: 34209065
  • Kuscu C, Kiran M, Mohammed A, Kuscu C et al. Integrative Analyses of Circulating Small RNAs and Kidney Graft Transcriptome in Transplant Glomerulopathy. Int J Mol Sci 2021 Jun 9;22(12). PMID: 34207555
  • Shannon NB, Tan QX, Tan JW, Hendrikson J et al. Gene Expression Changes Associated with Dedifferentiation in Liposarcoma Predict Overall Survival. Cancers (Basel) 2021 Jun 18;13(12). PMID: 34207401
  • Zhang X, Xing Y, Sun K, Guo Y et al. OmiEmbed: A Unified Multi-Task Deep Learning Framework for Multi-Omics Data. Cancers (Basel) 2021 Jun 18;13(12). PMID: 34207255
  • Fagone P, Mangano K, Di Marco R, Reyes-Castillo Z et al. Altered Expression of TSPAN32 during B Cell Activation and Systemic Lupus Erythematosus. Genes (Basel) 2021 Jun 18;12(6). PMID: 34207245
  • Li J, Ko JM, Dai W, Yu VZ et al. Depletion of DNA Polymerase Theta Inhibits Tumor Growth and Promotes Genome Instability through the cGAS-STING-ISG Pathway in Esophageal Squamous Cell Carcinoma. Cancers (Basel) 2021 Jun 26;13(13). PMID: 34206946
  • Willscher E, Hopp L, Kreuz M, Schmidt M et al. High-Resolution Cartography of the Transcriptome and Methylome Landscapes of Diffuse Gliomas. Cancers (Basel) 2021 Jun 26;13(13). PMID: 34206856
  • Alfaro R, Legaz I, Jimenez-Coll V, El Kaaoui El Band J et al. MicroRNA Expression Changes in Kidney Transplant: Diagnostic Efficacy of miR-150-5p as Potential Rejection Biomarker, Pilot Study. J Clin Med 2021 Jun 22;10(13). PMID: 34206682
  • Yang YL, Tsai MC, Chang YH, Wang CC et al. MIR29A Impedes Metastatic Behaviors in Hepatocellular Carcinoma via Targeting LOX, LOXL2, and VEGFA. Int J Mol Sci 2021 Jun 1;22(11). PMID: 34206143
  • Stanzani E, Pedrosa L, Bourmeau G, Anezo O et al. Dual Role of Integrin Alpha-6 in Glioblastoma: Supporting Stemness in Proneural Stem-Like Cells While Inducing Radioresistance in Mesenchymal Stem-Like Cells. Cancers (Basel) 2021 Jun 19;13(12). PMID: 34205341
  • Cieza RJ, Golob JL, Colacino JA, Wobus CE et al. Comparative Analysis of Public RNA-Sequencing Data from Human Intestinal Enteroid (HIEs) Infected with Enteric RNA Viruses Identifies Universal and Virus-Specific Epithelial Responses. Viruses 2021 Jun 3;13(6). PMID: 34205050
  • Kasuya Y, Kim JD, Hatano M, Tatsumi K et al. Pathophysiological Roles of Stress-Activated Protein Kinases in Pulmonary Fibrosis. Int J Mol Sci 2021 Jun 3;22(11). PMID: 34204949
  • Pedrosa RMSM, Wismans LV, Sinke R, van der Weiden M et al. Differential Expression of BOC, SPOCK2, and GJD3 Is Associated with Brain Metastasis of ER-Negative Breast Cancers. Cancers (Basel) 2021 Jun 15;13(12). PMID: 34203581
  • Oh C, Kim HR, Oh S, Ko JY et al. Epigenetic Upregulation of MAGE-A Isoforms Promotes Breast Cancer Cell Aggressiveness. Cancers (Basel) 2021 Jun 25;13(13). PMID: 34202157
  • Huang D, Liu AYN, Leung KS, Tang NLS et al. Direct Measurement of B Lymphocyte Gene Expression Biomarkers in Peripheral Blood Transcriptomics Enables Early Prediction of Vaccine Seroconversion. Genes (Basel) 2021 Jun 25;12(7). PMID: 34202032
  • da Silva EMG, Santos LGC, de Oliveira FS, Freitas FCP et al. Proteogenomics Reveals Orthologous Alternatively Spliced Proteoforms in the Same Human and Mouse Brain Regions with Differential Abundance in an Alzheimer's Disease Mouse Model. Cells 2021 Jun 23;10(7). PMID: 34201730
  • Franceschini N, Oosting J, Tamsma M, Niessen B et al. Targeting the NAD Salvage Synthesis Pathway as a Novel Therapeutic Strategy for Osteosarcomas with Low NAPRT Expression. Int J Mol Sci 2021 Jun 10;22(12). PMID: 34200964
  • Sebastian A, McCool JL, Hum NR, Murugesh DK et al. Single-Cell RNA-Seq Reveals Transcriptomic Heterogeneity and Post-Traumatic Osteoarthritis-Associated Early Molecular Changes in Mouse Articular Chondrocytes. Cells 2021 Jun 10;10(6). PMID: 34200880
  • Gargiuli C, Sepe P, Tessari A, Sheetz T et al. Integrative Transcriptomic Analysis Reveals Distinctive Molecular Traits and Novel Subtypes of Collecting Duct Carcinoma. Cancers (Basel) 2021 Jun 10;13(12). PMID: 34200770
  • Dereschuk K, Apostol L, Ranjan I, Chakladar J et al. Identification of Lung and Blood Microbiota Implicated in COVID-19 Prognosis. Cells 2021 Jun 10;10(6). PMID: 34200572
  • Uva P, Bosco MC, Eva A, Conte M et al. Connectivity Map Analysis Indicates PI3K/Akt/mTOR Inhibitors as Potential Anti-Hypoxia Drugs in Neuroblastoma. Cancers (Basel) 2021 Jun 4;13(11). PMID: 34199959
  • Hozaka Y, Seki N, Tanaka T, Asai S et al. Molecular Pathogenesis and Regulation of the miR-29-3p-Family: Involvement of ITGA6 and ITGB1 in Intra-Hepatic Cholangiocarcinoma. Cancers (Basel) 2021 Jun 4;13(11). PMID: 34199886
  • Waddell A, Mahmud I, Ding H, Huo Z et al. Pharmacological Inhibition of CBP/p300 Blocks Estrogen Receptor Alpha (ERα) Function through Suppressing Enhancer H3K27 Acetylation in Luminal Breast Cancer. Cancers (Basel) 2021 Jun 4;13(11). PMID: 34199844
  • Gómez A, Pato ML, Bujanda L, Sala N et al. Follow-Up Study Confirms the Presence of Gastric Cancer DNA Methylation Hallmarks in High-Risk Precursor Lesions. Cancers (Basel) 2021 Jun 2;13(11). PMID: 34199386
  • De La Cruz Minyety J, Shuboni-Mulligan DD, Briceno N, Young D Jr et al. Association of Circadian Clock Gene Expression with Glioma Tumor Microenvironment and Patient Survival. Cancers (Basel) 2021 Jun 2;13(11). PMID: 34199348
  • Elzamzamy OM, Johnson BE, Chen WC, Hu G et al. Transient Receptor Potential C 1/4/5 Is a Determinant of MTI-101 Induced Calcium Influx and Cell Death in Multiple Myeloma. Cells 2021 Jun 13;10(6). PMID: 34199280
  • Moritz MNO, Merkel AR, Feldman EG, Selistre-de-Araujo HS et al. Biphasic α2β1 Integrin Expression in Breast Cancer Metastasis to Bone. Int J Mol Sci 2021 Jun 27;22(13). PMID: 34199096
  • Coden ME, Loffredo LF, Abdala-Valencia H, Berdnikovs S et al. Comparative Study of SARS-CoV-2, SARS-CoV-1, MERS-CoV, HCoV-229E and Influenza Host Gene Expression in Asthma: Importance of Sex, Disease Severity, and Epithelial Heterogeneity. Viruses 2021 Jun 5;13(6). PMID: 34198852
  • Watanabe A, Miyake K, Akahane K, Goi K et al. Epigenetic Modification of Death Receptor Genes for TRAIL and TRAIL Resistance in Childhood B-Cell Precursor Acute Lymphoblastic Leukemia. Genes (Basel) 2021 Jun 5;12(6). PMID: 34198757
  • Marshall AS, Jones NS et al. Discovering Cellular Mitochondrial Heteroplasmy Heterogeneity with Single Cell RNA and ATAC Sequencing. Biology (Basel) 2021 Jun 5;10(6). PMID: 34198745
  • Ohmori S, Sawada Y, Saito-Sasaki N, Sato S et al. A Positive Dermcidin Expression Is an Unfavorable Prognostic Marker for Extramammary Paget's Disease. Diagnostics (Basel) 2021 Jun 14;11(6). PMID: 34198581
  • Xiao S, Zhou Y, Liu A, Wu Q et al. Uncovering potential novel biomarkers and immune infiltration characteristics in persistent atrial fibrillation using integrated bioinformatics analysis. Math Biosci Eng 2021 May 27;18(4):4696-4712. PMID: 34198460
  • Chen T, Hua W, Xu B, Chen H et al. Robust rank aggregation and cibersort algorithm applied to the identification of key genes in head and neck squamous cell cancer. Math Biosci Eng 2021 May 25;18(4):4491-4507. PMID: 34198450
  • Coronel L, Riege K, Schwab K, Förste S et al. Transcription factor RFX7 governs a tumor suppressor network in response to p53 and stress. Nucleic Acids Res 2021 Jul 21;49(13):7437-7456. PMID: 34197623
  • Figueiredo RQ, Raschka T, Kodamullil AT, Hofmann-Apitius M et al. Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms. Nucleic Acids Res 2021 Aug 20;49(14):7939-7953. PMID: 34197603
  • Stott RT, Kritsky O, Tsai LH et al. Profiling DNA break sites and transcriptional changes in response to contextual fear learning. PLoS One 2021;16(7):e0249691. PMID: 34197463
  • Mao Y, Wang L, Zhong B, Yang N et al. Continuous expression of reprogramming factors induces and maintains mouse pluripotency without specific growth factors and signaling inhibitors. Cell Prolif 2021 Aug;54(8):e13090. PMID: 34197016
  • Kobow K, Baulac S, von Deimling A, Lee JH et al. Molecular diagnostics in drug-resistant focal epilepsy define new disease entities. Brain Pathol 2021 Jul;31(4):e12963. PMID: 34196984
  • Tarca AL, Pataki BÁ, Romero R, Sirota M et al. Crowdsourcing assessment of maternal blood multi-omics for predicting gestational age and preterm birth. Cell Rep Med 2021 Jun 15;2(6):100323. PMID: 34195686
  • Sacher F, Feregrino C, Tschopp P, Ewald CY et al. Extracellular matrix gene expression signatures as cell type and cell state identifiers. Matrix Biol Plus 2021 Jun;10:100069. PMID: 34195598
  • Li X, Zhai S, Zhang J, Zhang D et al. Interferon Regulatory Factor 4 Correlated With Immune Cells Infiltration Could Predict Prognosis for Patients With Lung Adenocarcinoma. Front Oncol 2021;11:698465. PMID: 34195096
  • Pan J, Huang Z, Xu Y et al. m5C RNA Methylation Regulators Predict Prognosis and Regulate the Immune Microenvironment in Lung Squamous Cell Carcinoma. Front Oncol 2021;11:657466. PMID: 34195072
  • Walakira A, Rozman D, Režen T, Mraz M et al. Guided extraction of genome-scale metabolic models for the integration and analysis of omics data. Comput Struct Biotechnol J 2021;19:3521-3530. PMID: 34194675
  • Zhang Y, Li CY, Ge W, Xiao Y et al. Exploration of the Key Proteins in the Normal-Adenoma-Carcinoma Sequence of Colorectal Cancer Evolution Using In-Depth Quantitative Proteomics. J Oncol 2021;2021:5570058. PMID: 34194496
  • Gong Z, Gu Y, Xiong K, Niu J et al. The Evaluation and Validation of Blood-Derived Novel Biomarkers for Precise and Rapid Diagnosis of Tuberculosis in Areas With High-TB Burden. Front Microbiol 2021;12:650567. PMID: 34194403
  • Yu W, Yu W, Yang Y, Lü Y et al. Exploring the Key Genes and Identification of Potential Diagnosis Biomarkers in Alzheimer's Disease Using Bioinformatics Analysis. Front Aging Neurosci 2021;13:602781. PMID: 34194312
  • Gao S, Dai Y, Rehman J et al. A Bayesian inference transcription factor activity model for the analysis of single-cell transcriptomes. Genome Res 2021 Jun 30;31(7):1296-311. PMID: 34193535
  • Zheng Q, Yang Q, Zhou J, Gu X et al. Immune signature-based hepatocellular carcinoma subtypes may provide novel insights into therapy and prognosis predictions. Cancer Cell Int 2021 Jun 30;21(1):330. PMID: 34193146
  • Zhu HJ, Fan M, Gao W et al. Identification of potential hub genes associated with skin wound healing based on time course bioinformatic analyses. BMC Surg 2021 Jun 30;21(1):303. PMID: 34193119
  • Zheng W, Zhang S, Jiang S, Huang Z et al. Evaluation of immune status in testis and macrophage polarization associated with testicular damage in patients with nonobstructive azoospermia. Am J Reprod Immunol 2021 Nov;86(5):e13481. PMID: 34192390
  • Liu L, Yang Y, Yu D et al. Identification of key miRNAs and their targets in peripheral blood mononuclear cells of IgA nephropathy using bioinformatics analysis. Medicine (Baltimore) 2021 Jul 2;100(26):e26495. PMID: 34190177
  • Behring M, Ye Y, Elkholy A, Bajpai P et al. Immunophenotype-associated gene signature in ductal breast tumors varies by receptor subtype, but the expression of individual signature genes remains consistent. Cancer Med 2021 Aug;10(16):5712-5720. PMID: 34189853
  • Stupnikov A, McInerney CE, Savage KI, McIntosh SA et al. Robustness of differential gene expression analysis of RNA-seq. Comput Struct Biotechnol J 2021;19:3470-3481. PMID: 34188784
  • Wu Y, Zhang X, Wang J, Ji R et al. P4HA2 promotes cell proliferation and migration in glioblastoma. Oncol Lett 2021 Aug;22(2):601. PMID: 34188703
  • Xiao KW, Liu ZB, Zeng ZH, Yan FF et al. Construction and Validation of a Macrophage-Associated Risk Model for Predicting the Prognosis of Osteosarcoma. J Oncol 2021;2021:9967954. PMID: 34188683
  • Jin F, Ou W, Wei B, Fan H et al. Transcriptome-Wide Analysis to Identify the Inflammatory Role of lncRNA Neat1 in Experimental Ischemic Stroke. J Inflamm Res 2021;14:2667-2680. PMID: 34188516
  • Yu J, Sun S, Mao W, Xu B et al. Identification of Enzalutamide Resistance-Related circRNA-miRNA-mRNA Regulatory Networks in Patients with Prostate Cancer. Onco Targets Ther 2021;14:3833-3848. PMID: 34188491
  • Park JH, Ryu SJ, Kim BJ, Cho HJ et al. Disruption of nucleocytoplasmic trafficking as a cellular senescence driver. Exp Mol Med 2021 Jun;53(6):1092-1108. PMID: 34188179
  • Runge K, Mathieu R, Bugeon S, Lafi S et al. Disruption of NEUROD2 causes a neurodevelopmental syndrome with autistic features via cell-autonomous defects in forebrain glutamatergic neurons. Mol Psychiatry 2021 Nov;26(11):6125-6148. PMID: 34188164
  • Toyonaga T, Araba KC, Kennedy MM, Keith BP et al. Increased colonic expression of ACE2 associates with poor prognosis in Crohn's disease. Sci Rep 2021 Jun 29;11(1):13533. PMID: 34188154
  • Song Z, Huang D, Song B, Chen K et al. Attention-based multi-label neural networks for integrated prediction and interpretation of twelve widely occurring RNA modifications. Nat Commun 2021 Jun 29;12(1):4011. PMID: 34188054
  • Lin CC, Shen YR, Chang CC, Guo XY et al. Terminal uridyltransferase 7 regulates TLR4-triggered inflammation by controlling Regnase-1 mRNA uridylation and degradation. Nat Commun 2021 Jun 29;12(1):3878. PMID: 34188032
  • Choi C, Son Y, Kim J, Cho YK et al. TM4SF5 Knockout Protects Mice From Diet-Induced Obesity Partly by Regulating Autophagy in Adipose Tissue. Diabetes 2021 Sep;70(9):2000-2013. PMID: 34187836
  • Zhao XM, Li YB, Sun P, Pu YD et al. Bioinformatics analysis of key biomarkers for retinoblastoma. J Int Med Res 2021 Jun;49(6):3000605211022210. PMID: 34187205
  • Errington N, Iremonger J, Pickworth JA, Kariotis S et al. A diagnostic miRNA signature for pulmonary arterial hypertension using a consensus machine learning approach. EBioMedicine 2021 Jul;69:103444. PMID: 34186489
  • Chen P, Wang Y, Li J, Bo X et al. Diversity and intratumoral heterogeneity in human gallbladder cancer progression revealed by single-cell RNA sequencing. Clin Transl Med 2021 Jun;11(6):e462. PMID: 34185421
  • Kakisaka T, Fukai M, Banwait JK, Kamiyama T et al. Genomewide transcriptomic profiling identifies a gene signature for predicting recurrence in early-stage hepatocellular carcinoma. Clin Transl Med 2021 Jun;11(6):e405. PMID: 34185415
  • Zhou L, Zhang C, Yang X, Liu L et al. Melatonin inhibits lipid accumulation to repress prostate cancer progression by mediating the epigenetic modification of CES1. Clin Transl Med 2021 Jun;11(6):e449. PMID: 34185414
  • Jin H, Goossens P, Juhasz P, Eijgelaar W et al. Integrative multiomics analysis of human atherosclerosis reveals a serum response factor-driven network associated with intraplaque hemorrhage. Clin Transl Med 2021 Jun;11(6):e458. PMID: 34185408
  • Guerra-Urzola R, Van Deun K, Vera JC, Sijtsma K et al. A Guide for Sparse PCA: Model Comparison and Applications. Psychometrika 2021 Dec;86(4):893-919. PMID: 34185214
  • Guebel DV, Torres NV, Acebes Á et al. Mapping the transcriptomic changes of endothelial compartment in human hippocampus across aging and mild cognitive impairment. Biol Open 2021 May 15;10(5). PMID: 34184731
  • Ichinose M, Suzuki N, Wang T, Kobayashi H et al. The BMP antagonist gremlin 1 contributes to the development of cortical excitatory neurons, motor balance and fear responses. Development 2021 Jul 15;148(14). PMID: 34184027
  • Moreno-Smith M, Milazzo G, Tao L, Fekry B et al. Restoration of the molecular clock is tumor suppressive in neuroblastoma. Nat Commun 2021 Jun 28;12(1):4006. PMID: 34183658
  • Toulmin SA, Bhadiadra C, Paris AJ, Lin JH et al. Type II alveolar cell MHCII improves respiratory viral disease outcomes while exhibiting limited antigen presentation. Nat Commun 2021 Jun 28;12(1):3993. PMID: 34183650
  • Zhu Y, Song D, Guo J, Jin J et al. U2AF1 mutation promotes tumorigenicity through facilitating autophagy flux mediated by FOXO3a activation in myelodysplastic syndromes. Cell Death Dis 2021 Jun 28;12(7):655. PMID: 34183647
  • Gillen AE, Goering R, Taliaferro JM et al. Quantifying alternative polyadenylation in RNAseq data with LABRAT. Methods Enzymol 2021;655:245-263. PMID: 34183124
  • Witte F, Ruiz-Orera J, Mattioli CC, Blachut S et al. A trans locus causes a ribosomopathy in hypertrophic hearts that affects mRNA translation in a protein length-dependent fashion. Genome Biol 2021 Jun 28;22(1):191. PMID: 34183069
  • Zhang C, Tong T, Miao DC, Wang LF et al. Vitamin D inhibits TNF-α induced apoptosis of human nucleus pulposus cells through regulation of NF-kB signaling pathway. J Orthop Surg Res 2021 Jun 28;16(1):411. PMID: 34183042
  • Duan RN, Yang CL, Du T, Liu A et al. Smek1 deficiency exacerbates experimental autoimmune encephalomyelitis by activating proinflammatory microglia and suppressing the IDO1-AhR pathway. J Neuroinflammation 2021 Jun 28;18(1):145. PMID: 34183017
  • Wang G, Sun D, Li W, Xin Y et al. CircRNA_100290 promotes GC cell proliferation and invasion via the miR-29b-3p/ITGA11 axis and is regulated by EIF4A3. Cancer Cell Int 2021 Jun 28;21(1):324. PMID: 34182990
  • Huang B, Huang Z, Ma R, Ramakrishnan M et al. Genome-wide identification and expression analysis of LBD transcription factor genes in Moso bamboo (Phyllostachys edulis). BMC Plant Biol 2021 Jun 28;21(1):296. PMID: 34182934
  • Wang Y, Hannon E, Grant OA, Gorrie-Stone TJ et al. DNA methylation-based sex classifier to predict sex and identify sex chromosome aneuploidy. BMC Genomics 2021 Jun 28;22(1):484. PMID: 34182928
  • Wu H, Zhang B, Zhao J, Zhao Y et al. Weighted Gene Co-expression Network Analysis Identifies Five Hub Genes Associated with Metastasis in Synovial Sarcoma. Comb Chem High Throughput Screen 2022;25(10):1767-1777. PMID: 34182903
  • Zhu L, Sun H, Tian G, Wang J et al. Development and validation of a risk prediction model and nomogram for colon adenocarcinoma based on methylation-driven genes. Aging (Albany NY) 2021 Jun 28;13(12):16600-16619. PMID: 34182539
  • Yang G, Xu Q, Wan Y, Zhang L et al. Circ-CSPP1 knockdown suppresses hepatocellular carcinoma progression through miR-493-5p releasing-mediated HMGB1 downregulation. Cell Signal 2021 Oct;86:110065. PMID: 34182091
  • Park SH, Bennett-Baker P, Ahmed S, Arlt MF et al. Locus-specific transcription silencing at the FHIT gene suppresses replication stress-induced copy number variant formation and associated replication delay. Nucleic Acids Res 2021 Jul 21;49(13):7507-7524. PMID: 34181717
  • McGuirk S, Audet-Delage Y, Annis MG, Xue Y et al. Resistance to different anthracycline chemotherapeutics elicits distinct and actionable primary metabolic dependencies in breast cancer. Elife 2021 Jun 28;10. PMID: 34181531
  • Wang YL, Liang RH, Wang CY, Zhang RP et al. MicroRNA-543 inhibits the proliferation, migration, invasion, and epithelial-mesenchymal transition of triple-negative breast cancer cells via down-regulation of ACTL6A gene. Clin Transl Oncol 2022 Jan;24(1):84-92. PMID: 34181232
  • Seok HSEnhancing performance of gene expression value prediction with cluster-based regression. Genes Genomics 2021 Sep;43(9):1059-1064. PMID: 34181214
  • Sannino S, Yates ME, Schurdak ME, Oesterreich S et al. Unique integrated stress response sensors regulate cancer cell susceptibility when Hsp70 activity is compromised. Elife 2021 Jun 28;10. PMID: 34180400
  • Luo CL, Xu XC, Liu CJ, He S et al. RBFOX2/GOLIM4 Splicing Axis Activates Vesicular Transport Pathway to Promote Nasopharyngeal Carcinogenesis. Adv Sci (Weinh) 2021 Aug;8(16):e2004852. PMID: 34180133
  • Sun N, Yang Y, Wang S, Zhang J et al. DCX and CRABP2 are candidate genes for differential diagnosis between pre-chemotherapy embryonic and alveolar rhabdomyosarcoma in pediatric patients. Pediatr Investig 2021 Jun;5(2):106-111. PMID: 34179706
  • Pasquier C, Robichon A et al. Computational search of hybrid human/SARS-CoV-2 dsRNA reveals unique viral sequences that diverge from those of other coronavirus strains. Heliyon 2021 Jun;7(6):e07284. PMID: 34179538
  • Wei Z, Yang Y, Li Q, Yin Y et al. The transcriptome of circulating cells indicates potential biomarkers and therapeutic targets in the course of hypertension-related myocardial infarction. Genes Dis 2021 Jul;8(4):555-568. PMID: 34179317
  • Ye Z, Li Y, Xie J, Feng Z et al. Integrated bioinformatics identifies the dysregulation induced by aberrant gene methylation in colorectal carcinoma. Genes Dis 2021 Jul;8(4):521-530. PMID: 34179314
  • Adorno-Cruz V, Hoffmann AD, Liu X, Dashzeveg NK et al. ITGA2 promotes expression of ACLY and CCND1 in enhancing breast cancer stemness and metastasis. Genes Dis 2021 Jul;8(4):493-508. PMID: 34179312
  • Najafzadeh L, Mahmoudi M, Ebadi M, Dehghan Shasaltaneh M et al. Co-expression Network Analysis Reveals Key Genes Related to Ankylosing spondylitis Arthritis Disease: Computational and Experimental Validation. Iran J Biotechnol 2021 Jan;19(1):e2630. PMID: 34179194
  • Feng P, Ge Z, Guo Z, Lin L et al. A Comprehensive Analysis of the Downregulation of miRNA-1827 and Its Prognostic Significance by Targeting SPTBN2 and BCL2L1 in Ovarian Cancer. Front Mol Biosci 2021;8:687576. PMID: 34179092
  • Liu J, Li Y, Gan Y, Xiao Q et al. Identification of ZNF26 as a Prognostic Biomarker in Colorectal Cancer by an Integrated Bioinformatic Analysis. Front Cell Dev Biol 2021;9:671211. PMID: 34178996
  • Hwang JW, Desterke C, Loisel-Duwattez J, Griscelli F et al. Detection of Hematopoietic Stem Cell Transcriptome in Human Fetal Kidneys and Kidney Organoids Derived From Human Induced Pluripotent Stem Cells. Front Cell Dev Biol 2021;9:668833. PMID: 34178994
  • Liu Q, Bao Q, Xu Y, Fu Y et al. MCM4 Is a Novel Biomarker Associated With Genomic Instability, BRCAness Phenotype, and Therapeutic Potentials in Soft-Tissue Sarcoma. Front Cell Dev Biol 2021;9:666376. PMID: 34178990
  • Zheng X, Wang F, Hu X, Li H et al. PDGFRα-Signaling Is Dispensable for the Development of the Sinoatrial Node After Its Fate Commitment. Front Cell Dev Biol 2021;9:647165. PMID: 34178981
  • Zhang H, Zhao L, Li S, Wang J et al. N6-Methylandenosine-Related lncRNAs in Tumor Microenvironment Are Potential Prognostic Biomarkers in Colon Cancer. Front Oncol 2021;11:697949. PMID: 34178697
  • Feng G, Xue F, He Y, Wang T et al. The Identification of Stemness-Related Genes in the Risk of Head and Neck Squamous Cell Carcinoma. Front Oncol 2021;11:688545. PMID: 34178686
  • Mock A, Plath M, Moratin J, Tapken MJ et al. EGFR and PI3K Pathway Activities Might Guide Drug Repurposing in HPV-Negative Head and Neck Cancers. Front Oncol 2021;11:678966. PMID: 34178665
  • Huo J, Wu L, Zang Y et al. Construction and Validation of a Universal Applicable Prognostic Signature for Gastric Cancer Based on Seven Immune-Related Gene Correlated With Tumor Associated Macrophages. Front Oncol 2021;11:635324. PMID: 34178625
  • Huang H, Fu J, Zhang L, Xu J et al. Integrative Analysis of Identifying Methylation-Driven Genes Signature Predicts Prognosis in Colorectal Carcinoma. Front Oncol 2021;11:629860. PMID: 34178621
  • Liang J, Zhi Y, Deng W, Zhou W et al. Development and validation of ferroptosis-related lncRNAs signature for hepatocellular carcinoma. PeerJ 2021;9:e11627. PMID: 34178478
  • Chen Z, Wang X, Wang G, Xiao B et al. A seven-lncRNA signature for predicting Ewing's sarcoma. PeerJ 2021;9:e11599. PMID: 34178467
  • Pan M, Yang P, Wang F, Luo X et al. Whole Transcriptome Data Analysis Reveals Prognostic Signature Genes for Overall Survival Prediction in Diffuse Large B Cell Lymphoma. Front Genet 2021;12:648800. PMID: 34178023
  • Fan T, Lu Z, Liu Y, Wang L et al. A Novel Immune-Related Seventeen-Gene Signature for Predicting Early Stage Lung Squamous Cell Carcinoma Prognosis. Front Immunol 2021;12:665407. PMID: 34177903
  • Rychkov D, Neely J, Oskotsky T, Yu S et al. Cross-Tissue Transcriptomic Analysis Leveraging Machine Learning Approaches Identifies New Biomarkers for Rheumatoid Arthritis. Front Immunol 2021;12:638066. PMID: 34177888
  • Zhao CY, Hua CH, Li CH, Zheng RZ et al. High PYGL Expression Predicts Poor Prognosis in Human Gliomas. Front Neurol 2021;12:652931. PMID: 34177761
  • Ness-Cohn E, Braun R et al. TimeCycle: topology inspired method for the detection of cycling transcripts in circadian time-series data. Bioinformatics 2021 Dec 7;37(23):4405-4413. PMID: 34175927
  • Niu M, Li L, Su Z, Wei L et al. An integrative transcriptome study reveals Ddit4/Redd1 as a key regulator of cancer cachexia in rodent models. Cell Death Dis 2021 Jun 26;12(7):652. PMID: 34175899
  • Li J, Huang G, Ren C, Wang N et al. Identification of differentially expressed genes-related prognostic risk model for survival prediction in breast carcinoma patients. Aging (Albany NY) 2021 Jun 26;13(12):16577-16599. PMID: 34175839
  • Zhou G, Zeng Y, Luo Y, Guo S et al. Urine miR-93-5p is a promising biomarker for early detection of HBV-related hepatocellular carcinoma. Eur J Surg Oncol 2022 Jan;48(1):95-102. PMID: 34175168
  • Steg LC, Shireby GL, Imm J, Davies JP et al. Novel epigenetic clock for fetal brain development predicts prenatal age for cellular stem cell models and derived neurons. Mol Brain 2021 Jun 26;14(1):98. PMID: 34174924
  • Wu B, Xi S et al. Bioinformatics analysis of differentially expressed genes and pathways in the development of cervical cancer. BMC Cancer 2021 Jun 26;21(1):733. PMID: 34174849
  • Zhou Y, Yang B, Wang J, Zhu J et al. A scaling-free minimum enclosing ball method to detect differentially expressed genes for RNA-seq data. BMC Genomics 2021 Jun 26;22(1):479. PMID: 34174824
  • Goering R, Engel KL, Gillen AE, Fong N et al. LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival. BMC Genomics 2021 Jun 26;22(1):476. PMID: 34174817
  • Sena K, Furue K, Setoguchi F, Noguchi K et al. Altered expression of SARS-CoV-2 entry and processing genes by Porphyromonas gingivalis-derived lipopolysaccharide, inflammatory cytokines and prostaglandin E(2) in human gingival fibroblasts. Arch Oral Biol 2021 Sep;129:105201. PMID: 34174588
  • Du B, Zhang Z, Di W, Xu W et al. PAICS is related to glioma grade and can promote glioma growth and migration. J Cell Mol Med 2021 Aug;25(16):7720-7733. PMID: 34173716
  • Shi Y, Liang Y, Wang W, Zhang G et al. SEC61G identified as a prognostic biomarker of head and neck squamous cell carcinoma. Eur Arch Otorhinolaryngol 2022 Apr;279(4):2039-2048. PMID: 34173014
  • Maiques O, Fanshawe B, Crosas-Molist E, Rodriguez-Hernandez I et al. A preclinical pipeline to evaluate migrastatics as therapeutic agents in metastatic melanoma. Br J Cancer 2021 Aug;125(5):699-713. PMID: 34172930
  • Boehm V, Kueckelmann S, Gerbracht JV, Kallabis S et al. SMG5-SMG7 authorize nonsense-mediated mRNA decay by enabling SMG6 endonucleolytic activity. Nat Commun 2021 Jun 25;12(1):3965. PMID: 34172724
  • Nimmakayala RK, Rauth S, Chirravuri Venkata R, Marimuthu S et al. PGC1α-Mediated Metabolic Reprogramming Drives the Stemness of Pancreatic Precursor Lesions. Clin Cancer Res 2021 Oct 1;27(19):5415-5429. PMID: 34172498
  • Kerepesi C, Zhang B, Lee SG, Trapp A et al. Epigenetic clocks reveal a rejuvenation event during embryogenesis followed by aging. Sci Adv 2021 Jun;7(26). PMID: 34172448
  • Wei H, Dong X, You Y, Hai B et al. OLIG2 regulates lncRNAs and its own expression during oligodendrocyte lineage formation. BMC Biol 2021 Jun 25;19(1):132. PMID: 34172044
  • Chen B, Gao L, Shang X et al. A two-way rectification method for identifying differentially expressed genes by maximizing the co-function relationship. BMC Genomics 2021 Jun 25;22(Suppl 1):471. PMID: 34171992
  • Bidar N, Rezaei T, Amini M, Jebelli A et al. ZNF677 downregulation by promoter hypermethylation as a driver event through gastric tumorigenesis. Exp Mol Pathol 2021 Aug;121:104663. PMID: 34171355
  • Perez-Garcia V, Lea G, Lopez-Jimenez P, Okkenhaug H et al. BAP1/ASXL complex modulation regulates epithelial-mesenchymal transition during trophoblast differentiation and invasion. Elife 2021 Jun 25;10. PMID: 34170818
  • Shani O, Raz Y, Monteran L, Scharff Y et al. Evolution of fibroblasts in the lung metastatic microenvironment is driven by stage-specific transcriptional plasticity. Elife 2021 Jun 25;10. PMID: 34169837
  • Doostparast Torshizi A, Duan J, Wang K et al. A computational method for direct imputation of cell type-specific expression profiles and cellular compositions from bulk-tissue RNA-Seq in brain disorders. NAR Genom Bioinform 2021 Jun;3(2):lqab056. PMID: 34169279
  • Zhang C, Ding J, Xu X, Liu Y et al. Tumor Microenvironment Characteristics of Pancreatic Cancer to Determine Prognosis and Immune-Related Gene Signatures. Front Mol Biosci 2021;8:645024. PMID: 34169093
  • Wang W, Xia X, Chen K, Chen M et al. Reduced PHLPP Expression Leads to EGFR-TKI Resistance in Lung Cancer by Activating PI3K-AKT and MAPK-ERK Dual Signaling. Front Oncol 2021;11:665045. PMID: 34168988
  • Gai Z, Wang Y, Tian L, Gong G et al. Whole Genome Level Analysis of the Wnt and DIX Gene Families in Mice and Their Coordination Relationship in Regulating Cardiac Hypertrophy. Front Genet 2021;12:608936. PMID: 34168671
  • Pellin D, Claudio N, Guo Z, Ziglari T et al. Gene Expression Profiling of Lymph Node Sub-Capsular Sinus Macrophages in Cancer. Front Immunol 2021;12:672123. PMID: 34168645
  • Yang X, Zhu L, Zhao B, Hu J et al. Screening and Identification of Key Genes, Pathways, and Drugs Associated with Neuropathic Pain in Dorsal Horn: Evidence from Bioinformatic Analysis. J Pain Res 2021;14:1813-1826. PMID: 34168490
  • Wang Y, Zhang M, Gong Y, Wu Q et al. Bioinformatic Analysis of Hepatocellular Carcinoma Cell Lines to the Efficacy of Nimotuzumab. Int J Gen Med 2021;14:2611-2621. PMID: 34168487
  • Scheibner K, Schirge S, Burtscher I, Büttner M et al. Epithelial cell plasticity drives endoderm formation during gastrulation. Nat Cell Biol 2021 Jul;23(7):692-703. PMID: 34168324
  • Nakasuka F, Tabata S, Sakamoto T, Hirayama A et al. TGF-β-dependent reprogramming of amino acid metabolism induces epithelial-mesenchymal transition in non-small cell lung cancers. Commun Biol 2021 Jun 24;4(1):782. PMID: 34168290
  • Yu Y, Wang Z, Zheng Q, Li J et al. GREB1L overexpression correlates with prognosis and immune cell infiltration in lung adenocarcinoma. Sci Rep 2021 Jun 24;11(1):13281. PMID: 34168239
  • Martorell-Marugán J, López-Domínguez R, García-Moreno A, Toro-Domínguez D et al. A comprehensive database for integrated analysis of omics data in autoimmune diseases. BMC Bioinformatics 2021 Jun 24;22(1):343. PMID: 34167460
  • Pan Y, Wu L, He S, Wu J et al. Identification of hub genes in thyroid carcinoma to predict prognosis by integrated bioinformatics analysis. Bioengineered 2021 Dec;12(1):2928-2940. PMID: 34167437
  • Liu Y, Pal M, Bao W, Shi PA et al. Type I interferon is induced by hemolysis and drives antibody-mediated erythrophagocytosis in sickle cell disease. Blood 2021 Sep 30;138(13):1162-1171. PMID: 34166491
  • Alaimo S, Rapicavoli RV, Marceca GP, La Ferlita A et al. PHENSIM: Phenotype Simulator. PLoS Comput Biol 2021 Jun;17(6):e1009069. PMID: 34166365
  • Wang N, Lefaudeux D, Mazumder A, Li JJ et al. Identifying the combinatorial control of signal-dependent transcription factors. PLoS Comput Biol 2021 Jun;17(6):e1009095. PMID: 34166361
  • Terp MG, Gammelgaard OL, Vever H, Gjerstorff MF et al. Sustained compensatory p38 MAPK signaling following treatment with MAPK inhibitors induces the immunosuppressive protein CD73 in cancer: combined targeting could improve outcomes. Mol Oncol 2021 Dec;15(12):3299-3316. PMID: 34165921
  • Cao J, Li J, Yang X, Li P et al. Integrative analysis of immune molecular subtypes and microenvironment characteristics of bladder cancer. Cancer Med 2021 Aug;10(15):5375-5391. PMID: 34165261
  • Yang J, Wang F, Zhong S, Chen B et al. Identification of hub genes with prognostic values in multiple myeloma by bioinformatics analysis. Hematology 2021 Dec;26(1):453-459. PMID: 34165034
  • Strazza M, Bukhari S, Tocheva AS, Mor A et al. PD-1-induced proliferating T cells exhibit a distinct transcriptional signature. Immunology 2021 Nov;164(3):555-568. PMID: 34164813
  • Yi J, Tian M, Hu L, Kang N et al. The mechanisms of celastrol in treating papillary thyroid carcinoma based on network pharmacology and experiment verification. Ann Transl Med 2021 May;9(10):866. PMID: 34164500
  • Shi H, Sun F, Yang T, Peng M et al. Construction of a ceRNA immunoregulatory network related to the development of vascular dementia through a weighted gene coexpression network analysis. Ann Transl Med 2021 May;9(10):858. PMID: 34164492
  • Chen Y, Shen L, Chen B, Han X et al. The predictive prognostic values of CBFA2T3, STX3, DENR, EGLN1, FUT4, and PCDH7 in lung cancer. Ann Transl Med 2021 May;9(10):843. PMID: 34164477
  • Yan X, Guo ZX, Yu DH, Chen C et al. Identification and Validation of a Novel Prognosis Prediction Model in Adrenocortical Carcinoma by Integrative Bioinformatics Analysis, Statistics, and Machine Learning. Front Cell Dev Biol 2021;9:671359. PMID: 34164395
  • Huang Z, Wang S, Zhang HJ, Zhou YL et al. Characteristics of hypoxic tumor microenvironment in non-small cell lung cancer, involving molecular patterns and prognostic signature. Transl Lung Cancer Res 2021 May;10(5):2132-2147. PMID: 34164265
  • Sabbatino F, Conti V, Franci G, Sellitto C et al. PD-L1 Dysregulation in COVID-19 Patients. Front Immunol 2021;12:695242. PMID: 34163490
  • Liu T, Li X, Cui Y, Meng P et al. Bioinformatics Analysis Identifies Potential Ferroptosis Key Genes in the Pathogenesis of Intracerebral Hemorrhage. Front Neurosci 2021;15:661663. PMID: 34163322
  • Wang Z, Zhang M, Xu Y, Gu Y et al. Identification of Independent and Communal Differentially Expressed Genes as Well as Potential Therapeutic Targets in Ischemic Heart Failure and Non-Ischemic Heart Failure. Pharmgenomics Pers Med 2021;14:683-693. PMID: 34163213
  • Zhang J, Guan W, Xu X, Wang F et al. A novel homeostatic loop of sorcin drives paclitaxel-resistance and malignant progression via Smad4/ZEB1/miR-142-5p in human ovarian cancer. Oncogene 2021 Jul;40(30):4906-4918. PMID: 34163033
  • Leng S, Huang W, Chen Y, Yang Y et al. SIRT1 coordinates with the CRL4B complex to regulate pancreatic cancer stem cells to promote tumorigenesis. Cell Death Differ 2021 Dec;28(12):3329-3343. PMID: 34163012
  • Quan P, Wang K, Yan S, Wen S et al. Integrated network analysis identifying potential novel drug candidates and targets for Parkinson's disease. Sci Rep 2021 Jun 23;11(1):13154. PMID: 34162989
  • Hong J, Gunasekara C, He C, Liu S et al. Identification of biological pathway and process regulators using sparse partial least squares and triple-gene mutual interaction. Sci Rep 2021 Jun 23;11(1):13174. PMID: 34162988
  • Vakrou S, Liu Y, Zhu L, Greenland GV et al. Differences in molecular phenotype in mouse and human hypertrophic cardiomyopathy. Sci Rep 2021 Jun 23;11(1):13163. PMID: 34162896
  • Lago S, Nadai M, Cernilogar FM, Kazerani M et al. Promoter G-quadruplexes and transcription factors cooperate to shape the cell type-specific transcriptome. Nat Commun 2021 Jun 23;12(1):3885. PMID: 34162892
  • Teng YC, Sundaresan A, O'Hara R, Gant VU et al. ATRX promotes heterochromatin formation to protect cells from G-quadruplex DNA-mediated stress. Nat Commun 2021 Jun 23;12(1):3887. PMID: 34162889
  • Roper N, Velez MJ, Chiappori A, Kim YS et al. Notch signaling and efficacy of PD-1/PD-L1 blockade in relapsed small cell lung cancer. Nat Commun 2021 Jun 23;12(1):3880. PMID: 34162872
  • Pietilä EA, Gonzalez-Molina J, Moyano-Galceran L, Jamalzadeh S et al. Co-evolution of matrisome and adaptive adhesion dynamics drives ovarian cancer chemoresistance. Nat Commun 2021 Jun 23;12(1):3904. PMID: 34162871
  • Liang M, Yao W, Shi B, Zhu X et al. Circular RNA hsa_circ_0110389 promotes gastric cancer progression through upregulating SORT1 via sponging miR-127-5p and miR-136-5p. Cell Death Dis 2021 Jun 23;12(7):639. PMID: 34162830
  • Zhao Y, Yang J, Liu J, Cai Y et al. Inhibition of Polo-like kinase 4 induces mitotic defects and DNA damage in diffuse large B-cell lymphoma. Cell Death Dis 2021 Jun 23;12(7):640. PMID: 34162828
  • Xu C, Du Z, Ren S, Pian Y et al. Downregulation of GSK3B by miR-132-3p Enhances Etoposide-Induced Breast Cancer Cell Apoptosis. Ann Clin Lab Sci 2021 May;51(3):285-294. PMID: 34162557
  • Lei S, Zhang Y et al. Identification of survival-related genes and a novel gene-based prognostic signature involving the tumor microenvironment of uveal melanoma. Int Immunopharmacol 2021 Jul;96:107816. PMID: 34162166
  • Pingili AK, Chaib M, Sipe LM, Miller EJ et al. Immune checkpoint blockade reprograms systemic immune landscape and tumor microenvironment in obesity-associated breast cancer. Cell Rep 2021 Jun 22;35(12):109285. PMID: 34161764
  • Wang Y, Ma Q, Huo Z et al. Identification of hub genes, pathways, and related transcription factors in systemic lupus erythematosus: A preliminary bioinformatics analysis. Medicine (Baltimore) 2021 Jun 25;100(25):e26499. PMID: 34160465
  • Wang Z, Yang H, Zhang R, Luo B et al. MEOX2 serves as a novel biomarker associated with macrophage infiltration in oesophageal squamous cell carcinoma and other digestive system carcinomas. Autoimmunity 2021 Sep;54(6):373-383. PMID: 34160343
  • Karimi E, Azari H, Yari M, Tahmasebi A et al. Interplay between SARS-CoV-2-derived miRNAs, immune system, vitamin D pathway and respiratory system. J Cell Mol Med 2021 Aug;25(16):7825-7839. PMID: 34159729
  • Shi Z, Shen J, Qiu J, Zhao Q et al. CXCL10 potentiates immune checkpoint blockade therapy in homologous recombination-deficient tumors. Theranostics 2021;11(15):7175-7187. PMID: 34158843
  • Corvaisier M, Zhou J, Malycheva D, Cornella N et al. The γ-tubulin meshwork assists in the recruitment of PCNA to chromatin in mammalian cells. Commun Biol 2021 Jun 22;4(1):767. PMID: 34158617
  • Song Q, Su J, Zhang W et al. scGCN is a graph convolutional networks algorithm for knowledge transfer in single cell omics. Nat Commun 2021 Jun 22;12(1):3826. PMID: 34158507
  • Werner A, Clark JE, Samaranayake C, Casement J et al. Widespread formation of double-stranded RNAs in testis. Genome Res 2021 Jun 22;31(7):1174-86. PMID: 34158368
  • Juan Guardela BM, Sun J, Zhang T, Xu B et al. 50-gene risk profiles in peripheral blood predict COVID-19 outcomes: A retrospective, multicenter cohort study. EBioMedicine 2021 Jul;69:103439. PMID: 34157486
  • Li F, Li J, Yu J, Pan T et al. Identification of ARGLU1 as a potential therapeutic target for gastric cancer based on genome-wide functional screening data. EBioMedicine 2021 Jul;69:103436. PMID: 34157484
  • Banaganapalli B, Al-Rayes N, Awan ZA, Alsulaimany FA et al. Multilevel systems biology analysis of lung transcriptomics data identifies key miRNAs and potential miRNA target genes for SARS-CoV-2 infection. Comput Biol Med 2021 Aug;135:104570. PMID: 34157472
  • Han Q, Li H, Jia M, Wang L et al. Age-related changes in metabolites in young donor livers and old recipient sera after liver transplantation from young to old rats. Aging Cell 2021 Jul;20(7):e13425. PMID: 34157207
  • Knupp D, Cooper DA, Saito Y, Darnell RB et al. NOVA2 regulates neural circRNA biogenesis. Nucleic Acids Res 2021 Jul 9;49(12):6849-6862. PMID: 34157123
  • Li W, Gong M, Park YP, Elshikha AS et al. Lupus susceptibility gene Esrrg modulates regulatory T cells through mitochondrial metabolism. JCI Insight 2021 Jul 22;6(14). PMID: 34156979
  • Lupan AM, Rusu EG, Preda MB, Marinescu CI et al. miRNAs generated from Meg3-Mirg locus are downregulated during aging. Aging (Albany NY) 2021 Jun 22;13(12):15875-15897. PMID: 34156971
  • Zeng L, Liu HQ, Tu XL, Ji CM et al. Genomes reveal selective sweeps in kiang and donkey for high-altitude adaptation. Zool Res 2021 Jul 18;42(4):450-460. PMID: 34156172
  • Miki K, Deguchi K, Nakanishi-Koakutsu M, Lucena-Cacace A et al. ERRγ enhances cardiac maturation with T-tubule formation in human iPSC-derived cardiomyocytes. Nat Commun 2021 Jun 21;12(1):3596. PMID: 34155205
  • Wang W, Shao F, Yang X, Wang J et al. METTL3 promotes tumour development by decreasing APC expression mediated by APC mRNA N(6)-methyladenosine-dependent YTHDF binding. Nat Commun 2021 Jun 21;12(1):3803. PMID: 34155197
  • Signore M, Alfonsi R, Federici G, Nanni S et al. Diagnostic and prognostic potential of the proteomic profiling of serum-derived extracellular vesicles in prostate cancer. Cell Death Dis 2021 Jun 21;12(7):636. PMID: 34155195
  • Chen Z, Wang X, Li L, Han M et al. Construction of an autophagy interaction network based on competitive endogenous RNA reveals the key pathways and central genes of SARS-CoV-2 infection in vivo. Microb Pathog 2021 Sep;158:105051. PMID: 34153417
  • Huo M, Yu K, Zheng Y, Liu L et al. Integrated bioinformatics analysis revealed the regulation of angiogenesis by tumor cells in hepatocellular carcinoma. Biosci Rep 2021 Jul 30;41(7). PMID: 34151937
  • Tu S, Zhang H, Yang X, Wen W et al. Screening of cervical cancer-related hub genes based on comprehensive bioinformatics analysis. Cancer Biomark 2021;32(3):303-315. PMID: 34151839
  • Kang S, Gim J, Lee J, Gunasekaran TI et al. Potential Novel Genes for Late-Onset Alzheimer's Disease in East-Asian Descent Identified by APOE-Stratified Genome-Wide Association Study. J Alzheimers Dis 2021;82(4):1451-1460. PMID: 34151794
  • Liu C, Medina P, Thomas D, Chen IY et al. A protocol for transdifferentiation of human cardiac fibroblasts into endothelial cells via activation of innate immunity. STAR Protoc 2021 Jun 18;2(2):100556. PMID: 34151292
  • Liu X, Rowan SC, Liang J, Yao C et al. Categorization of lung mesenchymal cells in development and fibrosis. iScience 2021 Jun 25;24(6):102551. PMID: 34151224
  • Marquardt S, Pavlopoulou A, Takan I, Dhar P et al. A Systems-Based Key Innovation-Driven Approach Infers Co-option of Jaw Developmental Programs During Cancer Progression. Front Cell Dev Biol 2021;9:682619. PMID: 34150777
  • Sanegre S, Eritja N, de Andrea C, Diaz-Martin J et al. Characterizing the Invasive Tumor Front of Aggressive Uterine Adenocarcinoma and Leiomyosarcoma. Front Cell Dev Biol 2021;9:670185. PMID: 34150764
  • Ji Y, Ma Y, Shen J, Ni H et al. TBX20 Contributes to Balancing the Differentiation of Perivascular Adipose-Derived Stem Cells to Vascular Lineages and Neointimal Hyperplasia. Front Cell Dev Biol 2021;9:662704. PMID: 34150759
  • Koufaris C, Kirmizis A et al. Identification of NAA40 as a Potential Prognostic Marker for Aggressive Liver Cancer Subtypes. Front Oncol 2021;11:691950. PMID: 34150665
  • Meng L, Tang Q, Zhao J, Wang Z et al. S100A9 Derived From Myeloma Associated Myeloid Cells Promotes TNFSF13B/TNFRSF13B-Dependent Proliferation and Survival of Myeloma Cells. Front Oncol 2021;11:691705. PMID: 34150664
  • Simonetti G, Angeli D, Petracci E, Fonzi E et al. Adrenomedullin Expression Characterizes Leukemia Stem Cells and Associates With an Inflammatory Signature in Acute Myeloid Leukemia. Front Oncol 2021;11:684396. PMID: 34150648
  • Chen F, Song J, Ye Z, Xu B et al. Integrated Analysis of Cell Cycle-Related and Immunity-Related Biomarker Signatures to Improve the Prognosis Prediction of Lung Adenocarcinoma. Front Oncol 2021;11:666826. PMID: 34150632
  • Cao G, Li P, He X, Jin M et al. FHL3 Contributes to EMT and Chemotherapy Resistance Through Up-Regulation of Slug and Activation of TGFβ/Smad-Independent Pathways in Gastric Cancer. Front Oncol 2021;11:649029. PMID: 34150617
  • Gu Y, Ma X, Li J, Ma Y et al. Identification of candidate targets for the diagnosis and treatment of atherosclerosis by bioinformatics analysis. Am J Transl Res 2021;13(5):4137-4151. PMID: 34150004
  • Zhang S, Pei L, Qu J, Sun L et al. CRISPLD2 attenuates pro-inflammatory cytokines production in HMGB1-stimulated monocytes and septic mice. Am J Transl Res 2021;13(5):4080-4091. PMID: 34150000
  • Pan X, Jin X, Wang J, Hu Q et al. Placenta inflammation is closely associated with gestational diabetes mellitus. Am J Transl Res 2021;13(5):4068-4079. PMID: 34149999
  • Zhai J, Li S, Li Y, Du Y et al. Data mining analysis of the prognostic impact of N(6)-methyladenosine regulators in patients with endometrial adenocarcinoma. J Cancer 2021;12(15):4729-4738. PMID: 34149936
  • Yang H, Wang H, Zhang X, Yang Y et al. Upregulated LINC00319 aggravates neuronal injury induced by oxygen-glucose deprivation via modulating miR-200a-3p. Exp Ther Med 2021 Aug;22(2):844. PMID: 34149890
  • Zhang P, Yang Q et al. Overexpression of SHMT2 Predicts a Poor Prognosis and Promotes Tumor Cell Growth in Bladder Cancer. Front Genet 2021;12:682856. PMID: 34149818
  • Zhu T, Yu Y, Liu J, Ren K et al. Identification of a Competing Endogenous RNA Network Related to Immune Signature in Lung Adenocarcinoma. Front Genet 2021;12:665555. PMID: 34149807
  • Nikulin S, Zakharova G, Poloznikov A, Raigorodskaya M et al. Effect of the Expression of ELOVL5 and IGFBP6 Genes on the Metastatic Potential of Breast Cancer Cells. Front Genet 2021;12:662843. PMID: 34149804
  • Pang J, Luo Y, Wei D, Cao Z et al. Comparative Transcriptome Analyses Reveal a Transcriptional Landscape of Human Silicosis Lungs and Provide Potential Strategies for Silicosis Treatment. Front Genet 2021;12:652901. PMID: 34149803
  • Wei Q, Yang D, Liu X, Zhao H et al. Exploration of the Role of m(6) A RNA Methylation Regulators in Malignant Progression and Clinical Prognosis of Ovarian Cancer. Front Genet 2021;12:650554. PMID: 34149801
  • Wang L, Sun X, Jin C, Fan Y et al. Identification of Tumor Microenvironment-Related Prognostic Biomarkers for Ovarian Serous Cancer 3-Year Mortality Using Targeted Maximum Likelihood Estimation: A TCGA Data Mining Study. Front Genet 2021;12:625145. PMID: 34149794
  • Chen Y, Wang S, Cho WC, Zhou X et al. Prognostic Implication of the m(6)A RNA Methylation Regulators in Rectal Cancer. Front Genet 2021;12:604229. PMID: 34149792
  • Rasouli J, Casella G, Ishikawa LLW, Thome R et al. IFN-β Acts on Monocytes to Ameliorate CNS Autoimmunity by Inhibiting Proinflammatory Cross-Talk Between Monocytes and Th Cells. Front Immunol 2021;12:679498. PMID: 34149716
  • Kazachenka A, Kassiotis G et al. SARS-CoV-2-Host Chimeric RNA-Sequencing Reads Do Not Necessarily Arise From Virus Integration Into the Host DNA. Front Microbiol 2021;12:676693. PMID: 34149667
  • Sun J, Cai J, Chen J, Li S et al. Krüppel-Like Factor 6 Silencing Prevents Oxidative Stress and Neurological Dysfunction Following Intracerebral Hemorrhage via Sirtuin 5/Nrf2/HO-1 Axis. Front Aging Neurosci 2021;13:646729. PMID: 34149393
  • Yu Y, Cao F, Xiong Y, Zhou H et al. SP1 transcriptionally activates NLRP6 inflammasome and induces immune evasion and radioresistance in glioma cells. Int Immunopharmacol 2021 Sep;98:107858. PMID: 34147913
  • Patel JC, Singh A, Tulswani R, Sharma YK et al. Identification of VEGFA-centric temporal hypoxia-responsive dynamic cardiopulmonary network biomarkers. Life Sci 2021 Sep 15;281:119718. PMID: 34147483
  • Soares LDF, Villalba Silva GC, Kubaski F, Giugliani R et al. MPSBase: Comprehensive repository of differentially expressed genes for mucopolysaccharidoses. Mol Genet Metab 2021 Aug;133(4):372-377. PMID: 34147352
  • Zhang RK, Liu JL et al. Screening the genome for HCC-specific CpG methylation signatures as biomarkers for diagnosis and prognosis evaluation. BMC Med Genomics 2021 Jun 19;14(1):163. PMID: 34147096
  • Hong L, Zhou Y, Xie X, Wu W et al. A stemness-based eleven-gene signature correlates with the clinical outcome of hepatocellular carcinoma. BMC Cancer 2021 Jun 19;21(1):716. PMID: 34147074
  • Žumer K, Maier KC, Farnung L, Jaeger MG et al. Two distinct mechanisms of RNA polymerase II elongation stimulation in vivo. Mol Cell 2021 Aug 5;81(15):3096-3109.e8. PMID: 34146481
  • Lin Y, Yao X, Yan M, Zhou L et al. Integrated analysis of transcriptomics to identify hub genes in primary Sjögren's syndrome. Oral Dis 2022 Oct;28(7):1831-1845. PMID: 34145926
  • Ding X, Cai M, Wang S, Yang Q et al. Gene-based association analysis identified a novel gene associated with systemic lupus erythematosus. Ann Hum Genet 2021 Nov;85(6):213-220. PMID: 34145571
  • Takayama KI, Kosaka T, Suzuki T, Hongo H et al. Subtype-specific collaborative transcription factor networks are promoted by OCT4 in the progression of prostate cancer. Nat Commun 2021 Jun 18;12(1):3766. PMID: 34145268
  • Doni A, Parente R, Laface I, Magrini E et al. Serum amyloid P component is an essential element of resistance against Aspergillus fumigatus. Nat Commun 2021 Jun 18;12(1):3739. PMID: 34145258
  • Rädler PD, Wehde BL, Triplett AA, Shrestha H et al. Highly metastatic claudin-low mammary cancers can originate from luminal epithelial cells. Nat Commun 2021 Jun 18;12(1):3742. PMID: 34145248
  • Shah A, Ratkowski M, Rosa A, Feinstein P et al. Olfactory expression of trace amine-associated receptors requires cooperative cis-acting enhancers. Nat Commun 2021 Jun 18;12(1):3797. PMID: 34145232
  • Dutta A, Nath D, Yang Y, Le BT et al. CDK6 Is a Therapeutic Target in Myelofibrosis. Cancer Res 2021 Aug 15;81(16):4332-4345. PMID: 34145036
  • Gui T, Yao C, Jia B, Shen K et al. Identification and analysis of genes associated with epithelial ovarian cancer by integrated bioinformatics methods. PLoS One 2021;16(6):e0253136. PMID: 34143800
  • Yao XQ, Liu ZY, Chen JY, Huang ZC et al. Proteomics and bioinformatics reveal insights into neuroinflammation in the acute to subacute phases in rat models of spinal cord contusion injury. FASEB J 2021 Jul;35(7):e21735. PMID: 34143440
  • Liu B, Fu T, He P, Du C et al. Construction of a five-gene prognostic model based on immune-related genes for the prediction of survival in pancreatic cancer. Biosci Rep 2021 Jul 30;41(7). PMID: 34143198
  • Jordan PM, Andreas N, Groth M, Wegner P et al. ATP/IL-33-triggered hyperactivation of mast cells results in an amplified production of pro-inflammatory cytokines and eicosanoids. Immunology 2021 Nov;164(3):541-554. PMID: 34142370
  • Garrido AM, Kaistha A, Uryga AK, Oc S et al. Efficacy and limitations of senolysis in atherosclerosis. Cardiovasc Res 2022 Jun 22;118(7):1713-1727. PMID: 34142149
  • Ebata T, Terkawi MA, Hamasaki M, Matsumae G et al. Flightless I is a catabolic factor of chondrocytes that promotes hypertrophy and cartilage degeneration in osteoarthritis. iScience 2021 Jun 25;24(6):102643. PMID: 34142066
  • Zhuang A, Calkin AC, Lau S, Kiriazis H et al. Loss of the long non-coding RNA OIP5-AS1 exacerbates heart failure in a sex-specific manner. iScience 2021 Jun 25;24(6):102537. PMID: 34142046
  • Sangaletti S, Botti L, Gulino A, Lecis D et al. SPARC regulation of PMN clearance protects from pristane-induced lupus and rheumatoid arthritis. iScience 2021 Jun 25;24(6):102510. PMID: 34142027
  • Shen HY, Wei FZ, Liu Q et al. Differential analysis revealing APOC1 to be a diagnostic and prognostic marker for liver metastases of colorectal cancer. World J Clin Cases 2021 Jun 6;9(16):3880-3894. PMID: 34141744
  • Wang X, Zhang W, Yang Y, Wang J et al. A MicroRNA-Based Network Provides Potential Predictive Signatures and Reveals the Crucial Role of PI3K/AKT Signaling for Hepatic Lineage Maturation. Front Cell Dev Biol 2021;9:670059. PMID: 34141708
  • Lu JL, Xia QD, Sun Y, Xun Y et al. Toll-Like Receptor 4 as a Favorable Prognostic Marker in Bladder Cancer: A Multi-Omics Analysis. Front Cell Dev Biol 2021;9:651560. PMID: 34141706
  • Huang Q, Liu J, Wu S, Zhang X et al. Spi-B Promotes the Recruitment of Tumor-Associated Macrophages via Enhancing CCL4 Expression in Lung Cancer. Front Oncol 2021;11:659131. PMID: 34141615
  • Bayoumi A, Elsayed A, Han S, Petta S et al. Mistranslation Drives Alterations in Protein Levels and the Effects of a Synonymous Variant at the Fibroblast Growth Factor 21 Locus. Adv Sci (Weinh) 2021 Jun;8(11):2004168. PMID: 34141520
  • Zhong S, Lin Z, Chen H, Mao L et al. The m(6)A-related gene signature for predicting the prognosis of breast cancer. PeerJ 2021;9:e11561. PMID: 34141492
  • Jie Y, Yang X, Chen W et al. Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining. PeerJ 2021;9:e11368. PMID: 34141464
  • Haggerty C, Kretzmer H, Riemenschneider C, Kumar AS et al. Dnmt1 has de novo activity targeted to transposable elements. Nat Struct Mol Biol 2021 Jul;28(7):594-603. PMID: 34140676
  • Huang H, Zhang S, Li Y, Liu Z et al. Suppression of mitochondrial ROS by prohibitin drives glioblastoma progression and therapeutic resistance. Nat Commun 2021 Jun 17;12(1):3720. PMID: 34140524
  • Deng CC, Hu YF, Zhu DH, Cheng Q et al. Single-cell RNA-seq reveals fibroblast heterogeneity and increased mesenchymal fibroblasts in human fibrotic skin diseases. Nat Commun 2021 Jun 17;12(1):3709. PMID: 34140509
  • Yang L, Chen F, Zhu H, Chen Y et al. 3D genome alterations associated with dysregulated HOXA13 expression in high-risk T-lineage acute lymphoblastic leukemia. Nat Commun 2021 Jun 17;12(1):3708. PMID: 34140506
  • Okochi Y, Sakaguchi S, Nakae K, Kondo T et al. Model-based prediction of spatial gene expression via generative linear mapping. Nat Commun 2021 Jun 17;12(1):3731. PMID: 34140477
  • Molè MA, Coorens THH, Shahbazi MN, Weberling A et al. A single cell characterisation of human embryogenesis identifies pluripotency transitions and putative anterior hypoblast centre. Nat Commun 2021 Jun 17;12(1):3679. PMID: 34140473
  • Hu Y, Fang L, Chen X, Zhong JF et al. LIQA: long-read isoform quantification and analysis. Genome Biol 2021 Jun 17;22(1):182. PMID: 34140043
  • Wang G, Qiu C, Zhang C, Hou S et al. Construction of a DLBCL Prognostic Signature Based on Tumor Microenvironment. Expert Rev Hematol 2021 Jul;14(7):679-686. PMID: 34139942
  • Su Z, Gu Y et al. Identification of key genes and pathways involved in abdominal aortic aneurysm initiation and progression. Vascular 2022 Aug;30(4):639-649. PMID: 34139912
  • Yu H, Wang J, Lackford B, Bennett B et al. INO80 promotes H2A.Z occupancy to regulate cell fate transition in pluripotent stem cells. Nucleic Acids Res 2021 Jul 9;49(12):6739-6755. PMID: 34139016
  • Choe E, Ko Y, Williams MM 2nd et al. Transcriptional analysis of sweet corn hybrids in response to crowding stress. PLoS One 2021;16(6):e0253190. PMID: 34138910
  • Qi J, Zhou Y, Zhao Z, Jin S et al. SDImpute: A statistical block imputation method based on cell-level and gene-level information for dropouts in single-cell RNA-seq data. PLoS Comput Biol 2021 Jun;17(6):e1009118. PMID: 34138847
  • Kim SK, Liu X, Park J, Um D et al. Functional coordination of BET family proteins underlies altered transcription associated with memory impairment in fragile X syndrome. Sci Adv 2021 May;7(21). PMID: 34138732
  • Dash L, McEwan RE, Montes C, Mejia L et al. slim shady is a novel allele of PHYTOCHROME B present in the T-DNA line SALK_015201. Plant Direct 2021 Jun;5(6):e00326. PMID: 34136747
  • Wang L, Lu F, Xu J et al. Identification of Potential miRNA-mRNA Regulatory Network Contributing to Hypertrophic Cardiomyopathy (HCM). Front Cardiovasc Med 2021;8:660372. PMID: 34136543
  • Gonzalez Acera M, Patankar JV, Diemand L, Siegmund B et al. Comparative Transcriptomics of IBD Patients Indicates Induction of Type 2 Immunity Irrespective of the Disease Ideotype. Front Med (Lausanne) 2021;8:664045. PMID: 34136502
  • Zhang J, Yin J, Luo L, Huang D et al. Integrative Analysis of DNA Methylation and Transcriptome Identifies a Predictive Epigenetic Signature Associated With Immune Infiltration in Gliomas. Front Cell Dev Biol 2021;9:670854. PMID: 34136486
  • Wang Y, Ren F, Sun D, Liu J et al. CircKEAP1 Suppresses the Progression of Lung Adenocarcinoma via the miR-141-3p/KEAP1/NRF2 Axis. Front Oncol 2021;11:672586. PMID: 34136401
  • Yu D, Wang T, Liang D, Mei Y et al. The Landscape of Microbial Composition and Associated Factors in Pancreatic Ductal Adenocarcinoma Using RNA-Seq Data. Front Oncol 2021;11:651350. PMID: 34136388
  • Liu C, Zhang L, Liu Y, Zhao Q et al. Value of Pyruvate Carboxylase in Thyroid Fine-Needle Aspiration Wash-Out Fluid for Predicting Papillary Thyroid Cancer Lymph Node Metastasis. Front Oncol 2021;11:643416. PMID: 34136384
  • Huang SS, Liao WY, Hsu CC, Chan TS et al. A Novel Invadopodia-Specific Marker for Invasive and Pro-Metastatic Cancer Stem Cells. Front Oncol 2021;11:638311. PMID: 34136381
  • Fu D, Zhang B, Wu S, Zhang Y et al. Prognosis and Characterization of Immune Microenvironment in Acute Myeloid Leukemia Through Identification of an Autophagy-Related Signature. Front Immunol 2021;12:695865. PMID: 34135913
  • Yan SL, Hwang IY, Kamenyeva O, Kabat J et al. Unrestrained Gα(i2) Signaling Disrupts Neutrophil Trafficking, Aging, and Clearance. Front Immunol 2021;12:679856. PMID: 34135907
  • Wang Z, Pei H, Liang H, Zhang Q et al. Construction and Analysis of a circRNA-Mediated ceRNA Network in Lung Adenocarcinoma. Onco Targets Ther 2021;14:3659-3669. PMID: 34135596
  • Bharadwaj T, Schrauwen I, Rehman S, Liaqat K et al. ADAMTS1, MPDZ, MVD, and SEZ6: candidate genes for autosomal recessive nonsyndromic hearing impairment. Eur J Hum Genet 2022 Jan;30(1):22-33. PMID: 34135477
  • Michi AN, Yipp BG, Dufour A, Lopes F et al. PGC-1α mediates a metabolic host defense response in human airway epithelium during rhinovirus infections. Nat Commun 2021 Jun 16;12(1):3669. PMID: 34135327
  • Wang H, Chen W, He J, Xu W et al. Network analysis of potential risk genes for psoriasis. Hereditas 2021 Jun 16;158(1):21. PMID: 34134787
  • Wu J, Zhang M, Faruq O, Zacksenhaus E et al. SMAD1 as a biomarker and potential therapeutic target in drug-resistant multiple myeloma. Biomark Res 2021 Jun 16;9(1):48. PMID: 34134766
  • Poppenberg KE, Zebraski HR, Avasthi N, Waqas M et al. Epigenetic landscapes of intracranial aneurysm risk haplotypes implicate enhancer function of endothelial cells and fibroblasts in dysregulated gene expression. BMC Med Genomics 2021 Jun 16;14(1):162. PMID: 34134708
  • Cheng B, Tian J, Chen Y et al. Identification of RNA binding protein interacting with circular RNA and hub candidate network for hepatocellular carcinoma. Aging (Albany NY) 2021 Jun 16;13(12):16124-16143. PMID: 34133325
  • Sun X, Wang L, Li H, Jin C et al. Identification of microenvironment related potential biomarkers of biochemical recurrence at 3 years after prostatectomy in prostate adenocarcinoma. Aging (Albany NY) 2021 Jun 16;13(12):16024-16042. PMID: 34133324
  • Sun T, Duan L, Li J, Guo H et al. Gypenoside XVII protects against spinal cord injury in mice by regulating the microRNA‑21‑mediated PTEN/AKT/mTOR pathway. Int J Mol Med 2021 Aug;48(2). PMID: 34132355
  • Henry E, Barroca V, Lopez CK, Aurrand-Lions M et al. JAM-C/Jam-C Expression Is Primarily Expressed in Mouse Hematopoietic Stem Cells. Hemasphere 2021 Jul;5(7):e594. PMID: 34131634
  • Ceylan HA bioinformatics approach for identifying potential molecular mechanisms and key genes involved in COVID-19 associated cardiac remodeling. Gene Rep 2021 Sep;24:101246. PMID: 34131597
  • Lai F, Cheng Y, Zou J, Wang H et al. Identification of Histone Modifications Reveals a Role of H2b Monoubiquitination in Transcriptional Regulation of dmrt1 in Monopterus albus. Int J Biol Sci 2021;17(8):2009-2020. PMID: 34131402
  • Huangfu L, He Q, Han J, Shi J et al. MicroRNA-135b/CAMK2D Axis Contribute to Malignant Progression of Gastric Cancer through EMT Process Remodeling. Int J Biol Sci 2021;17(8):1940-1952. PMID: 34131397
  • Tang Q, Wang Y, Ou L, Li J et al. Downregulation of ACE2 expression by SARS-CoV-2 worsens the prognosis of KIRC and KIRP patients via metabolism and immunoregulation. Int J Biol Sci 2021;17(8):1925-1939. PMID: 34131396
  • Zhao Z, Guo Y, Liu Y, Sun L et al. Individualized lncRNA differential expression profile reveals heterogeneity of breast cancer. Oncogene 2021 Jul;40(27):4604-4614. PMID: 34131286
  • Cheng P, Ma J, Zheng X, Zhou C et al. Bioinformatic profiling identifies prognosis-related genes in the immune microenvironment of endometrial carcinoma. Sci Rep 2021 Jun 15;11(1):12608. PMID: 34131259
  • Jones A, Bernabé BP, Padmanabhan V, Li J et al. Capitalizing on transcriptome profiling to optimize and identify targets for promoting early murine folliculogenesis in vitro. Sci Rep 2021 Jun 15;11(1):12517. PMID: 34131220
  • Stępniak K, Machnicka MA, Mieczkowski J, Macioszek A et al. Mapping chromatin accessibility and active regulatory elements reveals pathological mechanisms in human gliomas. Nat Commun 2021 Jun 15;12(1):3621. PMID: 34131149
  • Yu H, Lu L, Chen M, Li C et al. Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet. NPJ Genom Med 2021 Jun 15;6(1):50. PMID: 34131148
  • Gu W, Gong L, Wu X, Yao X et al. Hypoxic TAM-derived exosomal miR-155-5p promotes RCC progression through HuR-dependent IGF1R/AKT/PI3K pathway. Cell Death Discov 2021 Jun 15;7(1):147. PMID: 34131104
  • Xiao L, Zou G, Cheng R, Wang P et al. Alternative splicing associated with cancer stemness in kidney renal clear cell carcinoma. BMC Cancer 2021 Jun 15;21(1):703. PMID: 34130646
  • Lyu C, Liu K, Jiang Y, Wang T et al. Integrated analysis on mRNA microarray and microRNA microarray to screen immune-related biomarkers and pathways in myelodysplastic syndrome. Hematology 2021 Dec;26(1):417-431. PMID: 34130612
  • Yao Y, Zhao J, Zhou X, Hu J et al. Potential role of a three-gene signature in predicting diagnosis in patients with myocardial infarction. Bioengineered 2021 Dec;12(1):2734-2749. PMID: 34130601
  • Li L, Zhang J, Cao S et al. Lysine Acetyltransferase 2B predicts favorable prognosis and functions as anti-oncogene in cervical carcinoma. Bioengineered 2021 Dec;12(1):2563-2575. PMID: 34130593
  • Zhou W, Zhang Y, Zhang S, Yang Z et al. Absent in melanoma 1-like (AIM1L) serves as a novel candidate for overall survival in hepatocellular carcinoma. Bioengineered 2021 Dec;12(1):2750-2762. PMID: 34130591
  • Zhang Q, Wu E, Tang Y, Cai T et al. Deeply Mining a Universe of Peptides Encoded by Long Noncoding RNAs. Mol Cell Proteomics 2021;20:100109. PMID: 34129944
  • Cilenti F, Barbiera G, Caronni N, Iodice D et al. A PGE(2)-MEF2A axis enables context-dependent control of inflammatory gene expression. Immunity 2021 Aug 10;54(8):1665-1682.e14. PMID: 34129840
  • Adane B, Alexe G, Seong BKA, Lu D et al. STAG2 loss rewires oncogenic and developmental programs to promote metastasis in Ewing sarcoma. Cancer Cell 2021 Jun 14;39(6):827-844.e10. PMID: 34129824
  • Wang H, Shao R, Liu W, Tang H et al. Identification of a prognostic metabolic gene signature in diffuse large B-cell lymphoma. J Cell Mol Med 2021 Jul;25(14):7066-7077. PMID: 34128320
  • Zhang S, Li J, Gao H, Tong Y et al. lncRNA Profiles Enable Prognosis Prediction and Subtyping for Esophageal Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:656554. PMID: 34127945
  • Auwul MR, Zhang C, Rahman MR, Shahjaman M et al. Network-based transcriptomic analysis identifies the genetic effect of COVID-19 to chronic kidney disease patients: A bioinformatics approach. Saudi J Biol Sci 2021 Oct;28(10):5647-5656. PMID: 34127904
  • Willis-Owen SAG, Domingo-Sabugo C, Starren E, Liang L et al. Y disruption, autosomal hypomethylation and poor male lung cancer survival. Sci Rep 2021 Jun 14;11(1):12453. PMID: 34127738
  • Modarres P, Mohamadi Farsani F, Nekouie AA, Vallian S et al. Meta-analysis of gene signatures and key pathways indicates suppression of JNK pathway as a regulator of chemo-resistance in AML. Sci Rep 2021 Jun 14;11(1):12485. PMID: 34127725
  • Rao S, Hoskins I, Tonn T, Garcia PD et al. Genes with 5' terminal oligopyrimidine tracts preferentially escape global suppression of translation by the SARS-CoV-2 Nsp1 protein. RNA 2021 Sep;27(9):1025-1045. PMID: 34127534
  • Sahoo D, Katkar GD, Khandelwal S, Behroozikhah M et al. AI-guided discovery of the invariant host response to viral pandemics. EBioMedicine 2021 Jun;68:103390. PMID: 34127431
  • Conard AM, Goodman N, Hu Y, Perrimon N et al. TIMEOR: a web-based tool to uncover temporal regulatory mechanisms from multi-omics data. Nucleic Acids Res 2021 Jul 2;49(W1):W641-W653. PMID: 34125906
  • Jin J, Chen B, Zhan X, Zhou Z et al. Network pharmacology and molecular docking study on the mechanism of colorectal cancer treatment using Xiao-Chai-Hu-Tang. PLoS One 2021;16(6):e0252508. PMID: 34125845
  • Xu S, Yuan H, Li L, Bai F et al. Identification potential epigenetic biomarkers of a human immunodeficiency virus/tuberculosis co-infection based on weighted gene co-expression network analysis. Microbiol Immunol 2021 Oct;65(10):422-431. PMID: 34125446
  • Hinman MN, Richardson JI, Sockol RA, Aronson ED et al. Zebrafish mbnl mutants model physical and molecular phenotypes of myotonic dystrophy. Dis Model Mech 2021 Jun 1;14(6). PMID: 34125183
  • Minderman M, Amir A, Kraan W, Schilder-Tol EJM et al. Immune evasion in primary testicular and central nervous system lymphomas: HLA loss rather than 9p24.1/PD-L1/PD-L2 alterations. Blood 2021 Sep 30;138(13):1194-1197. PMID: 34125179
  • Green DJ, Lenassi E, Manning CS, McGaughey D et al. North Carolina Macular Dystrophy: Phenotypic Variability and Computational Analysis of Disease-Associated Noncoding Variants. Invest Ophthalmol Vis Sci 2021 Jun 1;62(7):16. PMID: 34125159
  • Wang WH, Chen SK, Huang HC, Juan HF et al. Proteomic Analysis Reveals That Metformin Suppresses PSMD2, STIP1, and CAP1 for Preventing Gastric Cancer AGS Cell Proliferation and Migration. ACS Omega 2021 Jun 8;6(22):14208-14219. PMID: 34124444
  • Xu B, Wang L, Zhan H, Zhao L et al. Investigation of the Mechanism of Complement System in Diabetic Nephropathy via Bioinformatics Analysis. J Diabetes Res 2021;2021:5546199. PMID: 34124269
  • Zhang Q, Feng Z, Zhang Y, Shi S et al. Identification and Verification of a 17 Immune-Related Gene Pair Prognostic Signature for Colon Cancer. Biomed Res Int 2021;2021:6057948. PMID: 34124251
  • Shi H, Huang S, Qin M, Xue X et al. Exosomal circ_0088300 Derived From Cancer-Associated Fibroblasts Acts as a miR-1305 Sponge and Promotes Gastric Carcinoma Cell Tumorigenesis. Front Cell Dev Biol 2021;9:676319. PMID: 34124064
  • Wang F, Zhang L, Xu Y, Xie Y et al. Comprehensive Analysis and Identification of Key Driver Genes for Distinguishing Between Esophageal Adenocarcinoma and Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:676156. PMID: 34124063
  • Sun Y, Wu J, Yuan Y, Lu Y et al. Construction of a Promising Tumor-Infiltrating CD8+ T Cells Gene Signature to Improve Prediction of the Prognosis and Immune Response of Uveal Melanoma. Front Cell Dev Biol 2021;9:673838. PMID: 34124058
  • Guan Y, Du Y, Wang G, Gou H et al. Overexpression of PLXDC2 in Stromal Cell-Associated M2 Macrophages Is Related to EMT and the Progression of Gastric Cancer. Front Cell Dev Biol 2021;9:673295. PMID: 34124056
  • Zhang Z, Su J, Li L, Du W et al. Identification of Precise Therapeutic Targets and Characteristic Prognostic Genes Based on Immune Gene Characteristics in Uveal Melanoma. Front Cell Dev Biol 2021;9:666462. PMID: 34124047
  • Zhang F, Zhong W, Li H, Huang K et al. TP53 Mutational Status-Based Genomic Signature for Prognosis and Predicting Therapeutic Response in Pancreatic Cancer. Front Cell Dev Biol 2021;9:665265. PMID: 34124046
  • Ren EH, Deng YJ, Yuan WH, Zhang GZ et al. An Immune-Related Long Non-Coding RNA Signature to Predict the Prognosis of Ewing's Sarcoma Based on a Machine Learning Iterative Lasso Regression. Front Cell Dev Biol 2021;9:651593. PMID: 34124041
  • Wang G, Zhou H, Tian L, Yan T et al. A Prognostic DNA Damage Repair Genes Signature and Its Impact on Immune Cell Infiltration in Glioma. Front Oncol 2021;11:682932. PMID: 34123852
  • Lei K, Li J, Tu Z, Liu F et al. Prognostic and Predictive Value of Immune-Related Gene Pair Signature in Primary Lower-Grade Glioma Patients. Front Oncol 2021;11:665870. PMID: 34123829
  • Li TH, Qin C, Zhao BB, Cao HT et al. Identification METTL18 as a Potential Prognosis Biomarker and Associated With Immune Infiltrates in Hepatocellular Carcinoma. Front Oncol 2021;11:665192. PMID: 34123827
  • Jia Y, Liu Y, Han Z, Tian R et al. Identification of potential gene signatures associated with osteosarcoma by integrated bioinformatics analysis. PeerJ 2021;9:e11496. PMID: 34123594
  • Idso MN, Akhade AS, Arrieta-Ortiz ML, Lai BT et al. Antibody-recruiting protein-catalyzed capture agents to combat antibiotic-resistant bacteria. Chem Sci 2020 Feb 12;11(11):3054-3067. PMID: 34122810
  • Zhang F, Wang X, Bai Y, Hu H et al. Development and Validation of a Hypoxia-Related Signature for Predicting Survival Outcomes in Patients With Bladder Cancer. Front Genet 2021;12:670384. PMID: 34122523
  • Zhou Y, Xu B, Wu S, Liu Y et al. Prognostic Immune-Related Genes of Patients With Ewing's Sarcoma. Front Genet 2021;12:669549. PMID: 34122521
  • Zhao Y, Dong Y, Sun Y, Cheng C et al. AutoEncoder-Based Computational Framework for Tumor Microenvironment Decomposition and Biomarker Identification in Metastatic Melanoma. Front Genet 2021;12:665065. PMID: 34122516
  • Chen X, Wu T, Li L, Lin Y et al. Transcriptional Start Site Coverage Analysis in Plasma Cell-Free DNA Reveals Disease Severity and Tissue Specificity of COVID-19 Patients. Front Genet 2021;12:663098. PMID: 34122515
  • Huo J, Wu L, Zang Y et al. Development and Validation of a Novel Metabolic-Related Signature Predicting Overall Survival for Pancreatic Cancer. Front Genet 2021;12:561254. PMID: 34122496
  • Su W, Zhao Y, Wei Y, Zhang X et al. Exploring the Pathogenesis of Psoriasis Complicated With Atherosclerosis via Microarray Data Analysis. Front Immunol 2021;12:667690. PMID: 34122426
  • Wang L, He T, Liu J, Tai J et al. Revealing the Immune Infiltration Landscape and Identifying Diagnostic Biomarkers for Lumbar Disc Herniation. Front Immunol 2021;12:666355. PMID: 34122424
  • Lin Y, Wang F, Cheng L, Fang Z et al. Identification of Key Biomarkers and Immune Infiltration in Sciatic Nerve of Diabetic Neuropathy BKS-db/db Mice by Bioinformatics Analysis. Front Pharmacol 2021;12:682005. PMID: 34122109
  • Inoue Y, Nikolic A, Farnsworth D, Shi R et al. Extracellular signal-regulated kinase mediates chromatin rewiring and lineage transformation in lung cancer. Elife 2021 Jun 14;10. PMID: 34121659
  • Yuan Y, Cao W, Zhou H, Qian H et al. H2A.Z acetylation by lincZNF337-AS1 via KAT5 implicated in the transcriptional misregulation in cancer signaling pathway in hepatocellular carcinoma. Cell Death Dis 2021 Jun 12;12(6):609. PMID: 34120148
  • Park SR, Kim SK, Kim SR, Kim D et al. Noncanonical functions of glucocorticoids: A novel role for glucocorticoids in performing multiple beneficial functions in endometrial stem cells. Cell Death Dis 2021 Jun 12;12(6):612. PMID: 34120144
  • Mazzocchi M, Goulding SR, Wyatt SL, Collins LM et al. LMK235, a small molecule inhibitor of HDAC4/5, protects dopaminergic neurons against neurotoxin- and α-synuclein-induced degeneration in cellular models of Parkinson's disease. Mol Cell Neurosci 2021 Sep;115:103642. PMID: 34119632
  • Wang M, Liu H, Wu W, Zhao J et al. Identification of Differentially Expressed Plasma lncRNAs As Potential Biomarkers for Breast Cancer. Clin Breast Cancer 2022 Feb;22(2):e135-e141. PMID: 34119428
  • Salloum S, Jeyarajan AJ, Kruger AJ, Holmes JA et al. Fatty Acids Activate the Transcriptional Coactivator YAP1 to Promote Liver Fibrosis via p38 Mitogen-Activated Protein Kinase. Cell Mol Gastroenterol Hepatol 2021;12(4):1297-1310. PMID: 34118488
  • Ramesh P, Lannagan TRM, Jackstadt R, Atencia Taboada L et al. BCL-XL is crucial for progression through the adenoma-to-carcinoma sequence of colorectal cancer. Cell Death Differ 2021 Dec;28(12):3282-3296. PMID: 34117376
  • Lee SH, Veeriah V, Levine F et al. Liver fat storage is controlled by HNF4α through induction of lipophagy and is reversed by a potent HNF4α agonist. Cell Death Dis 2021 Jun 11;12(6):603. PMID: 34117215
  • Wang L, Ren C, Xu Y, Yang L et al. The LINC00922 aggravates ovarian cancer progression via sponging miR-361-3p. J Ovarian Res 2021 Jun 11;14(1):77. PMID: 34116704
  • Wang H, Wang X, Xu L, Zhang J et al. Age related gene DST represents an independent prognostic factor for MYCN non-amplified neuroblastoma. BMC Pediatr 2021 Jun 11;21(1):272. PMID: 34116676
  • Jiang P, Cao Y, Gao F, Sun W et al. SNX10 and PTGDS are associated with the progression and prognosis of cervical squamous cell carcinoma. BMC Cancer 2021 Jun 11;21(1):694. PMID: 34116656
  • Zhao S, Lu J, Chen Y, Wang Z et al. Exploration of the potential roles of m6A regulators in the uterus in pregnancy and infertility. J Reprod Immunol 2021 Aug;146:103341. PMID: 34116483
  • Fan R, Dong L, Li P, Wang X et al. Integrated bioinformatics analysis and screening of hub genes in papillary thyroid carcinoma. PLoS One 2021;16(6):e0251962. PMID: 34115774
  • Zhuang X, Gao F, Shi L, Liu W et al. MicroRNA-146b-3p regulates the dysfunction of vascular smooth muscle cells via repressing phosphoinositide-3 kinase catalytic subunit gamma. Bioengineered 2021 Dec;12(1):2627-2638. PMID: 34115567
  • Sidibé H, Khalfallah Y, Xiao S, Gómez NB et al. TDP-43 stabilizes G3BP1 mRNA: relevance to amyotrophic lateral sclerosis/frontotemporal dementia. Brain 2021 Dec 16;144(11):3461-3476. PMID: 34115105
  • Feregrino C, Tschopp P et al. Assessing evolutionary and developmental transcriptome dynamics in homologous cell types. Dev Dyn 2022 Sep;251(9):1472-1489. PMID: 34114716
  • Szeglin BC, Wu C, Marco MR, Park HS et al. A SMAD4-modulated gene profile predicts disease-free survival in stage II and III colorectal cancer. Cancer Rep (Hoboken) 2022 Jan;5(1):e1423. PMID: 34114372
  • Rouers A, Appanna R, Chevrier M, Lum J et al. CD27(hi)CD38(hi) plasmablasts are activated B cells of mixed origin with distinct function. iScience 2021 May 21;24(5):102482. PMID: 34113823
  • Maat H, Atsma TJ, Hogeling SM, Rodríguez López A et al. The USP7-TRIM27 axis mediates non-canonical PRC1.1 function and is a druggable target in leukemia. iScience 2021 May 21;24(5):102435. PMID: 34113809
  • Cao P, Yang W, Wang P, Li X et al. Characterization of DNA Methylation and Screening of Epigenetic Markers in Polycystic Ovary Syndrome. Front Cell Dev Biol 2021;9:664843. PMID: 34113617
  • Huo G, Wang Y, Chen J, Song Y et al. A Pan-Cancer Analysis of the Oncogenic Role of Twinfilin Actin Binding Protein 1 in Human Tumors. Front Oncol 2021;11:692136. PMID: 34113576
  • Xu L, Xu Y, Zheng J, Zhao Y et al. Dacomitinib improves chemosensitivity of cisplatin-resistant human ovarian cancer cells. Oncol Lett 2021 Jul;22(1):569. PMID: 34113397
  • Kim EJ, Hong WJ, Tun W, An G et al. Interaction of OsRopGEF3 Protein With OsRac3 to Regulate Root Hair Elongation and Reactive Oxygen Species Formation in Rice (Oryza sativa). Front Plant Sci 2021;12:661352. PMID: 34113363
  • Li K, Han F, Wu Y, Wang X et al. miR-340 Promotes Retinoblastoma Cell Proliferation, Migration and Invasion Through Targeting WIF1. Onco Targets Ther 2021;14:3635-3648. PMID: 34113129
  • Sun X, Ding S, Lu S, Wang Z et al. Identification of Ten Mitosis Genes Associated with Tamoxifen Resistance in Breast Cancer. Onco Targets Ther 2021;14:3611-3624. PMID: 34113127
  • Huang J, Lin L, Dong Z, Yang L et al. A porcine brain-wide RNA editing landscape. Commun Biol 2021 Jun 10;4(1):717. PMID: 34112917
  • Ueta E, Tsutsumi K, Kato H, Matsushita H et al. Extracellular vesicle-shuttled miRNAs as a diagnostic and prognostic biomarker and their potential roles in gallbladder cancer patients. Sci Rep 2021 Jun 10;11(1):12298. PMID: 34112884
  • Le BL, Andreoletti G, Oskotsky T, Vallejo-Gracia A et al. Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19. Sci Rep 2021 Jun 10;11(1):12310. PMID: 34112877
  • Xu X, Ni K, He Y, Ren J et al. The epigenetic regulator LSH maintains fork protection and genomic stability via MacroH2A deposition and RAD51 filament formation. Nat Commun 2021 Jun 10;12(1):3520. PMID: 34112784
  • Jungwirth U, van Weverwijk A, Evans RJ, Jenkins L et al. Impairment of a distinct cancer-associated fibroblast population limits tumour growth and metastasis. Nat Commun 2021 Jun 10;12(1):3516. PMID: 34112782
  • Wang YC, Wang X, Yu J, Ma F et al. Targeting monoamine oxidase A-regulated tumor-associated macrophage polarization for cancer immunotherapy. Nat Commun 2021 Jun 10;12(1):3530. PMID: 34112755
  • Huang X, Chen C, Zhong M, Geng S et al. Lower BCL11B expression is associated with adverse clinical outcome for patients with myelodysplastic syndrome. Biomark Res 2021 Jun 10;9(1):46. PMID: 34112264
  • Wu R, Guo S, Lai S, Pan G et al. A stable gene set for prediction of prognosis and efficacy of chemotherapy in gastric cancer. BMC Cancer 2021 Jun 10;21(1):684. PMID: 34112138
  • Huo L, Jiao Li J, Chen L, Yu Z et al. Single-cell multi-omics sequencing: application trends, COVID-19, data analysis issues and prospects. Brief Bioinform 2021 Nov 5;22(6). PMID: 34111889
  • Seefelder M, Kochanek S et al. A meta-analysis of transcriptomic profiles of Huntington's disease patients. PLoS One 2021;16(6):e0253037. PMID: 34111223
  • Dong X, Zhang M, Chen Y, Li C et al. A comparison expression analysis of CXCR4, CXCL9 and Caspase-9 in dermal vascular endothelial cells between keloids and normal skin on chemotaxis and apoptosis. J Plast Surg Hand Surg 2022 Apr;56(2):93-102. PMID: 34110956
  • Zou Z, Zhou S, Liang G, Tang Z et al. The pan-cancer analysis of the two types of uterine cancer uncovered clinical and prognostic associations with m6A RNA methylation regulators. Mol Omics 2021 Jun 14;17(3):438-453. PMID: 34110327
  • Wang J, Yao R, Luo Q, Tan L et al. miR‑200b upregulation promotes migration of BEAS‑2B cells following long‑term exposure to cigarette smoke by targeting ETS1. Mol Med Rep 2021 Aug;24(2). PMID: 34109431
  • Jia R, Sui Z, Zhang H, Yu Z et al. Identification and Validation of Immune-Related Gene Signature for Predicting Lymph Node Metastasis and Prognosis in Lung Adenocarcinoma. Front Mol Biosci 2021;8:679031. PMID: 34109216
  • Huang C, Jiang X, Huang Y, Zhao L et al. Identifying Dendritic Cell-Related Genes Through a Co-Expression Network to Construct a 12-Gene Risk-Scoring Model for Predicting Hepatocellular Carcinoma Prognosis. Front Mol Biosci 2021;8:636991. PMID: 34109210
  • He J, Fang X, Han M et al. Discovery and Verification of an Immune-Related Gene Pairs Signature for Predicting Prognosis in Head and Neck Squamous Cell Carcinoma. Front Genet 2021;12:654657. PMID: 34108990
  • Chilunda V, Martinez-Aguado P, Xia LC, Cheney L et al. Transcriptional Changes in CD16+ Monocytes May Contribute to the Pathogenesis of COVID-19. Front Immunol 2021;12:665773. PMID: 34108966
  • Bevington SL, Fiancette R, Gajdasik DW, Keane P et al. Stable Epigenetic Programming of Effector and Central Memory CD4 T Cells Occurs Within 7 Days of Antigen Exposure In Vivo. Front Immunol 2021;12:642807. PMID: 34108962
  • Ji L, Chen S, Gu G, Zhou J et al. Exploration of Crucial Mediators for Carotid Atherosclerosis Pathogenesis Through Integration of Microbiome, Metabolome, and Transcriptome. Front Physiol 2021;12:645212. PMID: 34108883
  • Hua P, Badat M, Hanssen LLP, Hentges LD et al. Defining genome architecture at base-pair resolution. Nature 2021 Jul;595(7865):125-129. PMID: 34108683
  • Wu J, Li L, Zhang H, Zhao Y et al. A risk model developed based on tumor microenvironment predicts overall survival and associates with tumor immunity of patients with lung adenocarcinoma. Oncogene 2021 Jul;40(26):4413-4424. PMID: 34108619
  • Li X, Fang T, Xu S, Jin P et al. PARP inhibitors promote stromal fibroblast activation by enhancing CCL5 autocrine signaling in ovarian cancer. NPJ Precis Oncol 2021 Jun 9;5(1):49. PMID: 34108603
  • Sanna PP, Fu Y, Masliah E, Lefebvre C et al. Central nervous system (CNS) transcriptomic correlates of human immunodeficiency virus (HIV) brain RNA load in HIV-infected individuals. Sci Rep 2021 Jun 9;11(1):12176. PMID: 34108514
  • Yang B, Fan J, Huang J, Guo E et al. Clinical and molecular characteristics of COVID-19 patients with persistent SARS-CoV-2 infection. Nat Commun 2021 Jun 9;12(1):3501. PMID: 34108465
  • Xie T, Kulur V, Liu N, Deng N et al. Mesenchymal growth hormone receptor deficiency leads to failure of alveolar progenitor cell function and severe pulmonary fibrosis. Sci Adv 2021 Jun;7(24). PMID: 34108218
  • Yoshioka K, Nagahisa H, Miura F, Araki H et al. Hoxa10 mediates positional memory to govern stem cell function in adult skeletal muscle. Sci Adv 2021 Jun;7(24). PMID: 34108202
  • Liu Y, Ai C, Gan T, Wu J et al. Transcription shapes DNA replication initiation to preserve genome integrity. Genome Biol 2021 Jun 9;22(1):176. PMID: 34108027
  • Boemo MADNAscent v2: detecting replication forks in nanopore sequencing data with deep learning. BMC Genomics 2021 Jun 9;22(1):430. PMID: 34107894
  • Zhang J, Yu R, Guo X, Zou Y et al. Identification of TYR, TYRP1, DCT and LARP7 as related biomarkers and immune infiltration characteristics of vitiligo via comprehensive strategies. Bioengineered 2021 Dec;12(1):2214-2227. PMID: 34107850
  • Mana MD, Hussey AM, Tzouanas CN, Imada S et al. High-fat diet-activated fatty acid oxidation mediates intestinal stemness and tumorigenicity. Cell Rep 2021 Jun 8;35(10):109212. PMID: 34107251
  • Naveh NSS, Deegan DF, Huhn J, Traxler E et al. The role of CTCF in the organization of the centromeric 11p15 imprinted domain interactome. Nucleic Acids Res 2021 Jun 21;49(11):6315-6330. PMID: 34107024
  • Zhang JD, Yang B, Chen HR, Chi XH et al. [Bioinformatics Analysis of the Influence of Coronavirus Infection on Hematopoietic System and Potential Intervention Drugs and Their Significance for COVID-19]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2021 Jun;29(3):975-982. PMID: 34105503
  • Li SZ, Yao YB, Tang ZY, Shi ZY et al. [Exploring the Mechanism of Paclitaxel Inhibiting T-cell Lymphoma based on High-throughput Sequencing and Public Databases]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2021 Jun;29(3):741-750. PMID: 34105467
  • Xu H, Li Y, Li J, Huo Z et al. Identification of Differentially Expressed circRNAs, miRNAs, and Genes in Patients Associated with Cartilaginous Endplate Degeneration. Biomed Res Int 2021;2021:2545459. PMID: 34104646
  • Zhao C, Mo J, Zheng X, Wu Z et al. Identification of an Alveolar Macrophage-Related Core Gene Set in Acute Respiratory Distress Syndrome. J Inflamm Res 2021;14:2353-2361. PMID: 34103966
  • Ma R, Qu X, Che X, Yang B et al. Comparative Analysis and in vitro Experiments of Signatures and Prognostic Value of Immune Checkpoint Genes in Colorectal Cancer. Onco Targets Ther 2021;14:3517-3534. PMID: 34103942
  • Sun G, Qi X, Wang W, Li X et al. High Mobility Group Box 1/Toll-like Receptor 4 Signaling Increases GABRB3 Expression in Alcohol Exposure. Neuropsychiatr Dis Treat 2021;17:1725-1732. PMID: 34103917
  • Wang X, Dong J, Li X, Cheng Z et al. CPSF4 regulates circRNA formation and microRNA mediated gene silencing in hepatocellular carcinoma. Oncogene 2021 Jun;40(25):4338-4351. PMID: 34103682
  • Valette K, Li Z, Bon-Baret V, Chignon A et al. Prioritization of candidate causal genes for asthma in susceptibility loci derived from UK Biobank. Commun Biol 2021 Jun 8;4(1):700. PMID: 34103634
  • Niogret J, Berger H, Rebe C, Mary R et al. Follicular helper-T cells restore CD8(+)-dependent antitumor immunity and anti-PD-L1/PD-1 efficacy. J Immunother Cancer 2021 Jun;9(6). PMID: 34103351
  • Maksimovic J, Oshlack A, Phipson B et al. Gene set enrichment analysis for genome-wide DNA methylation data. Genome Biol 2021 Jun 8;22(1):173. PMID: 34103055
  • Munk R, Anerillas C, Rossi M, Tsitsipatis D et al. Acid ceramidase promotes senescent cell survival. Aging (Albany NY) 2021 Jun 8;13(12):15750-15769. PMID: 34102611
  • Wang L, Wang F, Liu K, Long C et al. αB-crystallin/HSPB2 is critical for hyperactive mTOR-induced cardiomyopathy. J Cell Physiol 2021 Dec;236(12):8110-8121. PMID: 34101831
  • Yu W, Wang W, Yu X et al. Investigation of lncRNA-mRNA co-expression network in ETV6-RUNX1-positive pediatric B-cell acute lymphoblastic leukemia. PLoS One 2021;16(6):e0253012. PMID: 34101758
  • Wang Q, Liang J, Hu X, Gu S et al. Early B-cell factors involve in the tumorigenesis and predict the overall survival of gastric cancer. Biosci Rep 2021 Jul 30;41(7). PMID: 34100918
  • Prater M, Hamilton RS, Wa Yung H, Sharkey AM et al. RNA-Seq reveals changes in human placental metabolism, transport and endocrinology across the first-second trimester transition. Biol Open 2021 Jun 15;10(6). PMID: 34100896
  • Cao Y, Cui L et al. Identifying the key microRNAs implicated in atrial fibrillation. Anatol J Cardiol 2021 Jun;25(6):429-436. PMID: 34100730
  • Niu L, Shen W, Shi Z, Tan Y et al. Three-dimensional folding dynamics of the Xenopus tropicalis genome. Nat Genet 2021 Jul;53(7):1075-1087. PMID: 34099928
  • Kim HJ, Shim JH, Park JH, Shin HT et al. Single-cell RNA sequencing of human nail unit defines RSPO4 onychofibroblasts and SPINK6 nail epithelium. Commun Biol 2021 Jun 7;4(1):692. PMID: 34099859
  • Blythe MJ, Kocer A, Rubio-Roldan A, Giles T et al. LINE-1 transcription in round spermatids is associated with accretion of 5-carboxylcytosine in their open reading frames. Commun Biol 2021 Jun 7;4(1):691. PMID: 34099857
  • Yu L, Shen H, Ren X, Wang A et al. Multi-omics analysis reveals the interaction between the complement system and the coagulation cascade in the development of endometriosis. Sci Rep 2021 Jun 7;11(1):11926. PMID: 34099740
  • Nielsen SR, Strøbech JE, Horton ER, Jackstadt R et al. Suppression of tumor-associated neutrophils by lorlatinib attenuates pancreatic cancer growth and improves treatment with immune checkpoint blockade. Nat Commun 2021 Jun 7;12(1):3414. PMID: 34099731
  • Al-Barghouthi BM, Mesner LD, Calabrese GM, Brooks D et al. Systems genetics in diversity outbred mice inform BMD GWAS and identify determinants of bone strength. Nat Commun 2021 Jun 7;12(1):3408. PMID: 34099702
  • Slaff B, Radens CM, Jewell P, Jha A et al. MOCCASIN: a method for correcting for known and unknown confounders in RNA splicing analysis. Nat Commun 2021 Jun 7;12(1):3353. PMID: 34099673
  • Janmaat VT, Nesteruk K, Spaander MCW, Verhaar AP et al. HOXA13 in etiology and oncogenic potential of Barrett's esophagus. Nat Commun 2021 Jun 7;12(1):3354. PMID: 34099670
  • Heredia F, Volonté Y, Pereirinha J, Fernandez-Acosta M et al. The steroid-hormone ecdysone coordinates parallel pupariation neuromotor and morphogenetic subprograms via epidermis-to-neuron Dilp8-Lgr3 signal induction. Nat Commun 2021 Jun 7;12(1):3328. PMID: 34099654
  • Li D, San M, Zhang J, Yang A et al. Oxytocin receptor induces mammary tumorigenesis through prolactin/p-STAT5 pathway. Cell Death Dis 2021 Jun 7;12(6):588. PMID: 34099636
  • Park I, Jung J, Lee S, Park K et al. Characterization of terminal-ileal and colonic Crohn's disease in treatment-naïve paediatric patients based on transcriptomic profile using logistic regression. J Transl Med 2021 Jun 7;19(1):250. PMID: 34098982
  • Zhang W, Liu Z, Liu B, Jiang M et al. GNG5 is a novel oncogene associated with cell migration, proliferation, and poor prognosis in glioma. Cancer Cell Int 2021 Jun 7;21(1):297. PMID: 34098960
  • Feng L, Sun YD, Li C, Li YX et al. Pan-cancer network disorders revealed by overall and local signaling entropy. J Mol Cell Biol 2021 Dec 6;13(9):622-635. PMID: 34097054
  • Arita Y, Kim G, Li Z, Friesen H et al. A genome-scale yeast library with inducible expression of individual genes. Mol Syst Biol 2021 Jun;17(6):e10207. PMID: 34096681
  • Lindeman RE, Murphy MW, Agrimson KS, Gewiss RL et al. The conserved sex regulator DMRT1 recruits SOX9 in sexual cell fate reprogramming. Nucleic Acids Res 2021 Jun 21;49(11):6144-6164. PMID: 34096593
  • Nitta T, Ota A, Iguchi T, Muro R et al. The fibroblast: An emerging key player in thymic T cell selection. Immunol Rev 2021 Jul;302(1):68-85. PMID: 34096078
  • Herati RS, Silva LV, Vella LA, Muselman A et al. Vaccine-induced ICOS(+)CD38(+) circulating Tfh are sensitive biosensors of age-related changes in inflammatory pathways. Cell Rep Med 2021 May 18;2(5):100262. PMID: 34095875
  • Advani D, Kumar P et al. Therapeutic Targeting of Repurposed Anticancer Drugs in Alzheimer's Disease: Using the Multiomics Approach. ACS Omega 2021 Jun 1;6(21):13870-13887. PMID: 34095679
  • Wang Y, Tian X, Ai D et al. Cell Heterogeneity Analysis in Single-Cell RNA-seq Data Using Mixture Exponential Graph and Markov Random Field Model. Biomed Res Int 2021;2021:9919080. PMID: 34095314
  • Xia M, Wu Q, Chen P, Qian C et al. Regulatory T Cell-Related Gene Biomarkers in the Deterioration of Atherosclerosis. Front Cardiovasc Med 2021;8:661709. PMID: 34095251
  • Liu J, Ma H, Meng L, Liu X et al. Construction and External Validation of a Ferroptosis-Related Gene Signature of Predictive Value for the Overall Survival in Bladder Cancer. Front Mol Biosci 2021;8:675651. PMID: 34095228
  • Liu J, Xu M, Wu Z, Yang Y et al. Low Expression of RILPL2 Predicts Poor Prognosis and Correlates With Immune Infiltration in Endometrial Carcinoma. Front Mol Biosci 2021;8:670893. PMID: 34095226
  • Zhang GZ, Wu ZL, Li CY, Ren EH et al. Development of a Machine Learning-Based Autophagy-Related lncRNA Signature to Improve Prognosis Prediction in Osteosarcoma Patients. Front Mol Biosci 2021;8:615084. PMID: 34095215
  • Weng CY, Zhu MH, Dai KL, Mi ZY et al. Gene Cascade Shift and Pathway Enrichment in Rat Kidney Induced by Acarbose Through Comparative Analysis. Front Bioeng Biotechnol 2021;9:659700. PMID: 34095098
  • Park N, Marquez J, Garcia MVF, Shimizu I et al. Phosphorylation in Novel Mitochondrial Creatine Kinase Tyrosine Residues Render Cardioprotection against Hypoxia/Reoxygenation Injury. J Lipid Atheroscler 2021 May;10(2):223-239. PMID: 34095014
  • Ye X, An L, Wang X, Zhang C et al. ALOX5AP Predicts Poor Prognosis by Enhancing M2 Macrophages Polarization and Immunosuppression in Serous Ovarian Cancer Microenvironment. Front Oncol 2021;11:675104. PMID: 34094977
  • Chen S, Gao C, Yu T, Qu Y et al. Bioinformatics Analysis of a Prognostic miRNA Signature and Potential Key Genes in Pancreatic Cancer. Front Oncol 2021;11:641289. PMID: 34094925
  • Fang Z, Sun Q, Yang H, Zheng J et al. SDHB Suppresses the Tumorigenesis and Development of ccRCC by Inhibiting Glycolysis. Front Oncol 2021;11:639408. PMID: 34094922
  • Chyr J, Zhang Z, Chen X, Zhou X et al. PredTAD: A machine learning framework that models 3D chromatin organization alterations leading to oncogene dysregulation in breast cancer cell lines. Comput Struct Biotechnol J 2021;19:2870-2880. PMID: 34093998
  • Liu MJ, Jin H, Chen YB, Yu JJ et al. Screening of non-alcoholic steatohepatitis (NASH)-related datasets and identification of NASH-related genes. Int J Clin Exp Pathol 2021;14(5):567-581. PMID: 34093943
  • Liu Z, Liu X, Cai R, Liu M et al. Identification of a tumor microenvironment-associated prognostic gene signature in bladder cancer by integrated bioinformatic analysis. Int J Clin Exp Pathol 2021;14(5):551-566. PMID: 34093942
  • Huang Y, Yu SH, Zhen WX, Cheng T et al. Tanshinone I, a new EZH2 inhibitor restricts normal and malignant hematopoiesis through upregulation of MMP9 and ABCG2. Theranostics 2021;11(14):6891-6904. PMID: 34093860
  • Kang X, Chen Y, Yi B, Yan X et al. An integrative microenvironment approach for laryngeal carcinoma: the role of immune/methylation/autophagy signatures on disease clinical prognosis and single-cell genotypes. J Cancer 2021;12(14):4148-4171. PMID: 34093817
  • Zhou Y, Wang X, Lv P, Yu H et al. CDK5 Knockdown inhibits proliferation and induces apoptosis and Cell Cycle Arrest in Human Glioblastoma. J Cancer 2021;12(13):3958-3966. PMID: 34093802
  • Lei C, Chen W, Wang Y, Zhao B et al. Prognostic Prediction Model for Glioblastoma: A Metabolic Gene Signature and Independent External Validation. J Cancer 2021;12(13):3796-3808. PMID: 34093788
  • Liu D, Peng S, Li Y, Guo T et al. Circ-MFN2 Positively Regulates the Proliferation, Metastasis, and Radioresistance of Colorectal Cancer by Regulating the miR-574-3p/IGF1R Signaling Axis. Front Genet 2021;12:671337. PMID: 34093664
  • Shi F, He Y, Chen Y, Yin X et al. Comparative Analysis of Multiple Neurodegenerative Diseases Based on Advanced Epigenetic Aging Brain. Front Genet 2021;12:657636. PMID: 34093653
  • Lu Z, Meng L, Sun Z, Shi X et al. Differentially Expressed Genes and Enriched Signaling Pathways in the Adipose Tissue of Obese People. Front Genet 2021;12:620740. PMID: 34093637
  • Deng M, Yin Y, Zhang Q, Zhou X et al. Identification of Inflammation-Related Biomarker Lp-PLA2 for Patients With COPD by Comprehensive Analysis. Front Immunol 2021;12:670971. PMID: 34093570
  • Delaidelli A, Richner M, Jiang L, van der Laan A et al. α-Synuclein pathology in Parkinson disease activates homeostatic NRF2 anti-oxidant response. Acta Neuropathol Commun 2021 Jun 6;9(1):105. PMID: 34092244
  • Chen Y, Xu R, Ruze R, Yang J et al. Construction of a prognostic model with histone modification-related genes and identification of potential drugs in pancreatic cancer. Cancer Cell Int 2021 Jun 5;21(1):291. PMID: 34090418
  • Wang X, Yu L, Wu AR et al. The effect of methanol fixation on single-cell RNA sequencing data. BMC Genomics 2021 Jun 5;22(1):420. PMID: 34090348
  • Luo M, Peng T, Lin R, Gu L et al. Hsa_circ_0031787 promotes cell proliferation and invasion in colorectal cancer. J Clin Lab Anal 2021 Jul;35(7):e23807. PMID: 34089272
  • Blavet N, Yang H, Su H, Solanský P et al. Sequence of the supernumerary B chromosome of maize provides insight into its drive mechanism and evolution. Proc Natl Acad Sci U S A 2021 Jun 8;118(23). PMID: 34088847
  • Aevermann B, Zhang Y, Novotny M, Keshk M et al. A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing. Genome Res 2021 Oct;31(10):1767-1780. PMID: 34088715
  • Fafard-Couture É, Bergeron D, Couture S, Abou-Elela S et al. Annotation of snoRNA abundance across human tissues reveals complex snoRNA-host gene relationships. Genome Biol 2021 Jun 4;22(1):172. PMID: 34088344
  • Riquier S, Mathieu M, Bessiere C, Boureux A et al. Long non-coding RNA exploration for mesenchymal stem cell characterisation. BMC Genomics 2021 Jun 4;22(1):412. PMID: 34088266
  • Ding Y, Wu W, Ma Z, Shao X et al. Potential value of MicroRNA-21 as a biomarker for predicting the prognosis of patients with breast cancer: A protocol for meta-analysis and bioinformatics analysis. Medicine (Baltimore) 2021 Jun 4;100(22):e25964. PMID: 34087839
  • Chen L, Liu J, Mei G, Chen H et al. Quercetin and non-alcoholic fatty liver disease: A review based on experimental data and bioinformatic analysis. Food Chem Toxicol 2021 Aug;154:112314. PMID: 34087406
  • Hara T, Chanoch-Myers R, Mathewson ND, Myskiw C et al. Interactions between cancer cells and immune cells drive transitions to mesenchymal-like states in glioblastoma. Cancer Cell 2021 Jun 14;39(6):779-792.e11. PMID: 34087162
  • Nabeel-Shah S, Garg J, Saettone A, Ashraf K et al. Functional characterization of RebL1 highlights the evolutionary conservation of oncogenic activities of the RBBP4/7 orthologue in Tetrahymena thermophila. Nucleic Acids Res 2021 Jun 21;49(11):6196-6212. PMID: 34086947
  • Batsché E, Yi J, Mauger O, Kornobis E et al. CD44 alternative splicing senses intragenic DNA methylation in tumors via direct and indirect mechanisms. Nucleic Acids Res 2021 Jun 21;49(11):6213-6237. PMID: 34086943
  • Prahm KP, Høgdall CK, Karlsen MA, Christensen IJ et al. MicroRNA characteristics in epithelial ovarian cancer. PLoS One 2021;16(6):e0252401. PMID: 34086724
  • Hückesfeld S, Schlegel P, Miroschnikow A, Schoofs A et al. Unveiling the sensory and interneuronal pathways of the neuroendocrine connectome in Drosophila. Elife 2021 Jun 4;10. PMID: 34085637
  • Liu Q, Lang X, Gregory RI et al. An Informatics Pipeline for Profiling and Annotating RNA Modifications. Methods Mol Biol 2021;2298:15-27. PMID: 34085236
  • Farhadi S, Shodja Ghias J, Hasanpur K, Mohammadi SA et al. Molecular mechanisms of fat deposition: IL-6 is a hub gene in fat lipolysis, comparing thin-tailed with fat-tailed sheep breeds. Arch Anim Breed 2021;64(1):53-68. PMID: 34084904
  • Chen C, Xiang Q, Liu W, Liang S et al. Co-expression Network Revealed Roles of RNA m(6)A Methylation in Human β-Cell of Type 2 Diabetes Mellitus. Front Cell Dev Biol 2021;9:651142. PMID: 34084770
  • Li S, Cheng Y, Cheng G, Xu T et al. High SAA1 Expression Predicts Advanced Tumors in Renal Cancer. Front Oncol 2021;11:649761. PMID: 34084746
  • Feng H, Wu H et al. Differential methylation analysis for bisulfite sequencing using DSS. Quant Biol 2019 Dec 31;7(4):327-334. PMID: 34084562
  • Yang Y, Wang Y, Che X, Hou K et al. Integrin α5 promotes migration and invasion through the FAK/STAT3/AKT signaling pathway in icotinib-resistant non-small cell lung cancer cells. Oncol Lett 2021 Jul;22(1):556. PMID: 34084223
  • Ni D, Tang T, Lu Y, Xu K et al. Canonical Secretomes, Innate Immune Caspase-1-, 4/11-Gasdermin D Non-Canonical Secretomes and Exosomes May Contribute to Maintain Treg-Ness for Treg Immunosuppression, Tissue Repair and Modulate Anti-Tumor Immunity via ROS Pathways. Front Immunol 2021;12:678201. PMID: 34084175
  • Wang H, Duan A, Zhang J, Wang Q et al. Glucocorticoid receptor wields chromatin interactions to tune transcription for cytoskeleton stabilization in podocytes. Commun Biol 2021 Jun 3;4(1):675. PMID: 34083716
  • Dumbović G, Braunschweig U, Langner HK, Smallegan M et al. Nuclear compartmentalization of TERT mRNA and TUG1 lncRNA is driven by intron retention. Nat Commun 2021 Jun 3;12(1):3308. PMID: 34083519
  • Klopfenstein Q, Derangère V, Arnould L, Thibaudin M et al. Evaluation of tumor immune contexture among intrinsic molecular subtypes helps to predict outcome in early breast cancer. J Immunother Cancer 2021 Jun;9(6). PMID: 34083415
  • Vivori C, Papasaikas P, Stadhouders R, Di Stefano B et al. Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1. Genome Biol 2021 Jun 3;22(1):171. PMID: 34082786
  • Yang Z, Ge X, Li W, Jin Y et al. Cotton D genome assemblies built with long-read data unveil mechanisms of centromere evolution and stress tolerance divergence. BMC Biol 2021 Jun 3;19(1):115. PMID: 34082735
  • Qi Y, Ma G et al. Withdrawal Notice: Identification of Potential Genes Associated with Vemurafenib Efficacy and Melanoma Prognosis. Comb Chem High Throughput Screen 2021 Jun 3 PMID: 34082668
  • Guo H, Zhang Z, Wang Y, Xue S et al. Identification of crucial genes and pathways associated with prostate cancer in multiple databases. J Int Med Res 2021 Jun;49(6):3000605211016624. PMID: 34082608
  • Xie L, Jiang X, Chen Y, Huang C et al. 3 CpG Methylation Biomarkers for the Diagnosis of Polycystic Ovary Syndrome (PCOS) in Blood Samples. Comb Chem High Throughput Screen 2022;25(8):1304-1313. PMID: 34080962
  • Wang K, Du H, Zhuang Q, Lu H et al. Cyclin-dependent kinase 1 shows to be a potential genetic target for chemical cystitis. Immun Inflamm Dis 2021 Sep;9(3):950-958. PMID: 34080795
  • Yao W, Xu L, Jia X, Li S et al. MicroRNA‑129 plays a protective role in sepsis‑induced acute lung injury through the suppression of pulmonary inflammation via the modulation of the TAK1/NF‑κB pathway. Int J Mol Med 2021 Jul;48(1). PMID: 34080641
  • Chen CG, Luo BS, Wang C et al. Potential role of miR-425, miR-155 and miR-33 in Streptococcus pneumoniae pneumonia by using bioinformatics analysis and experimental validation. J Biol Regul Homeost Agents 2021 May-Jun;35(3):953-964. PMID: 34080404
  • Lin J, Li X, Zhang F, Zhu L et al. Transcriptome wide analysis of long non-coding RNA-associated ceRNA regulatory circuits in psoriasis. J Cell Mol Med 2021 Jul;25(14):6925-6935. PMID: 34080300
  • Garnar-Wortzel L, Bishop TR, Kitamura S, Milosevich N et al. Chemical Inhibition of ENL/AF9 YEATS Domains in Acute Leukemia. ACS Cent Sci 2021 May 26;7(5):815-830. PMID: 34079898
  • Sweet DR, Lam C, Jain MK et al. Evolutionary Protection of Krüppel-Like Factors 2 and 4 in the Development of the Mature Hemovascular System. Front Cardiovasc Med 2021;8:645719. PMID: 34079826
  • He Y, Zhou H, Wang W, Xu H et al. Construction of a circRNA-miRNA-mRNA Regulatory Network Reveals Potential Mechanism and Treatment Options for Osteosarcoma. Front Genet 2021;12:632359. PMID: 34079579
  • Jia D, Chen C, Chen C, Chen F et al. Breast Cancer Case Identification Based on Deep Learning and Bioinformatics Analysis. Front Genet 2021;12:628136. PMID: 34079578
  • Wu S, Yang S, Ou M, Chen J et al. Transcriptome Analysis Reveals the Role of Cellular Calcium Disorder in Varicella Zoster Virus-Induced Post-Herpetic Neuralgia. Front Mol Neurosci 2021;14:665931. PMID: 34079439
  • Qiao LY, Li HB, Zhang Y, Shen D et al. CD24 Contributes to Treatment Effect in ABC-DLBCL Patients with R-CHOP Resistance. Pharmgenomics Pers Med 2021;14:591-599. PMID: 34079334
  • Saeki K, Chang G, Kanaya N, Wu X et al. Mammary cell gene expression atlas links epithelial cell remodeling events to breast carcinogenesis. Commun Biol 2021 Jun 2;4(1):660. PMID: 34079055
  • Rubin JD, Stanley JT, Sigauke RF, Levandowski CB et al. Transcription factor enrichment analysis (TFEA) quantifies the activity of multiple transcription factors from a single experiment. Commun Biol 2021 Jun 2;4(1):661. PMID: 34079046
  • Elghetany MT, Ho JM, Shi-Qi LH, Karthik S et al. Maximizing the potential of aggressive mouse tumor models in preclinical drug testing. Sci Rep 2021 Jun 2;11(1):11580. PMID: 34079014
  • Dai YH, Wang YF, Shen PC, Lo CH et al. Radiosensitivity index emerges as a potential biomarker for combined radiotherapy and immunotherapy. NPJ Genom Med 2021 Jun 2;6(1):40. PMID: 34078917
  • Fu YK, Tan Y, Wu B, Dai YT et al. Gata2-L359V impairs primitive and definitive hematopoiesis and blocks cell differentiation in murine chronic myelogenous leukemia model. Cell Death Dis 2021 Jun 2;12(6):568. PMID: 34078881
  • Li RY, Guan J, Zhou S et al. Boosting scRNA-seq data clustering by cluster-aware feature weighting. BMC Bioinformatics 2021 Jun 2;22(Suppl 6):130. PMID: 34078287
  • Zhang PC, Zhong XR, Zheng H, Li L et al. [Prognostic values of spindle checkpoint protein BUB1B in triple negative breast cancer]. Zhonghua Bing Li Xue Za Zhi 2021 Jun 8;50(6):645-649. PMID: 34078054
  • Ten Hoorn S, de Back TR, Sommeijer DW, Vermeulen L et al. Clinical Value of Consensus Molecular Subtypes in Colorectal Cancer: A Systematic Review and Meta-Analysis. J Natl Cancer Inst 2022 Apr 11;114(4):503-516. PMID: 34077519
  • Abid HA, Inoue A, Gorvin CM et al. Heterogeneity of G protein activation by the calcium-sensing receptor. J Mol Endocrinol 2021 Jun 21;67(2):41-53. PMID: 34077389
  • Liu RJ, Li SY, Liu LQ, Xu B et al. Identification of biomarkers, pathways and potential therapeutic target for docetaxel resistant prostate cancer. Bioengineered 2021 Dec;12(1):2377-2388. PMID: 34077304
  • Liu D, Wei Y, Liu Y, Wu T et al. The Long Non-coding RNA NEAT1/miR-224-5p/IL-33 Axis Modulates Macrophage M2a Polarization and A1 Astrocyte Activation. Mol Neurobiol 2021 Sep;58(9):4506-4519. PMID: 34076838
  • Shi Z, Zhao X, Su Y, Wang C et al. Screening of Biological Target Molecules Related to Glucocorticoid-Induced Cataract (GIC) on the Basis of Constructing ceRNA Network. Biochem Genet 2022 Feb;60(1):24-38. PMID: 34076796
  • Nain Z, Barman SK, Sheam MM, Syed SB et al. Transcriptomic studies revealed pathophysiological impact of COVID-19 to predominant health conditions. Brief Bioinform 2021 Nov 5;22(6). PMID: 34076249
  • Moutsopoulos I, Maischak L, Lauzikaite E, Vasquez Urbina SA et al. noisyR: enhancing biological signal in sequencing datasets by characterizing random technical noise. Nucleic Acids Res 2021 Aug 20;49(14):e83. PMID: 34076236
  • Ho JS, Di Tullio F, Schwarz M, Low D et al. HNRNPM controls circRNA biogenesis and splicing fidelity to sustain cancer cell fitness. Elife 2021 Jun 2;10. PMID: 34075878
  • Djekidel MN, Rosikiewicz W, Peng JC, Kanneganti TD et al. CovidExpress: an interactive portal for intuitive investigation on SARS-CoV-2 related transcriptomes. bioRxiv 2021 Aug 5 PMID: 34075382
  • Long MD, Dhiman VK, Affronti HC, Hu Q et al. Dynamic patterns of DNA methylation in the normal prostate epithelial differentiation program are targets of aberrant methylation in prostate cancer. Sci Rep 2021 Jun 1;11(1):11405. PMID: 34075163
  • Julià A, Bonafonte-Pardàs I, Gómez A, López-Lasanta M et al. Targeting of the CD80/86 proinflammatory axis as a therapeutic strategy to prevent severe COVID-19. Sci Rep 2021 Jun 1;11(1):11462. PMID: 34075090
  • Horisawa-Takada Y, Kodera C, Takemoto K, Sakashita A et al. Meiosis-specific ZFP541 repressor complex promotes developmental progression of meiotic prophase towards completion during mouse spermatogenesis. Nat Commun 2021 Jun 1;12(1):3184. PMID: 34075040
  • Zhuang YY, Zhong W, Xia ZS, Lin SZ et al. miR-5000-3p confers oxaliplatin resistance by targeting ubiquitin-specific peptidase 49 in colorectal cancer. Cell Death Discov 2021 Jun 1;7(1):129. PMID: 34075026
  • Yan Q, Zhang W, Lin M, Teymournejad O et al. Iron robbery by intracellular pathogen via bacterial effector-induced ferritinophagy. Proc Natl Acad Sci U S A 2021 Jun 8;118(23). PMID: 34074773
  • Kang SG, Lee SE, Choi MJ, Chang JY et al. Th2 Cytokines Increase the Expression of Fibroblast Growth Factor 21 in the Liver. Cells 2021 May 24;10(6). PMID: 34073755
  • Jackson H, Menikou S, Hamilton S, McArdle A et al. Kawasaki Disease Patient Stratification and Pathway Analysis Based on Host Transcriptomic and Proteomic Profiles. Int J Mol Sci 2021 May 26;22(11). PMID: 34073389
  • Riddell N, Murphy MJ, Crewther SG et al. Electroretinography and Gene Expression Measures Implicate Phototransduction and Metabolic Shifts in Chick Myopia and Hyperopia Models. Life (Basel) 2021 May 29;11(6). PMID: 34072440
  • Bonaldi E, Gargiuli C, De Cecco L, Micali A et al. BRAF Inhibitors Induce Feedback Activation of RAS Pathway in Thyroid Cancer Cells. Int J Mol Sci 2021 May 27;22(11). PMID: 34072194
  • Wang J, Chen L, Zhang X, Tong Y et al. OCRDetector: Accurately Detecting Open Chromatin Regions via Plasma Cell-Free DNA Sequencing Data. Int J Mol Sci 2021 May 28;22(11). PMID: 34071577
  • Ryu HG, Jung Y, Lee N, Seo JY et al. HNRNP A1 Promotes Lung Cancer Cell Proliferation by Modulating VRK1 Translation. Int J Mol Sci 2021 May 23;22(11). PMID: 34071140
  • Patil AR, Leung MY, Roy S et al. Identification of Hub Genes in Different Stages of Colorectal Cancer through an Integrated Bioinformatics Approach. Int J Environ Res Public Health 2021 May 23;18(11). PMID: 34070979
  • Cheng Q, Tang A, Wang Z, Fang N et al. CALD1 Modulates Gliomas Progression via Facilitating Tumor Angiogenesis. Cancers (Basel) 2021 May 30;13(11). PMID: 34070840
  • Beirith I, Renz BW, Mudusetti S, Ring NS et al. Identification of the Neurokinin-1 Receptor as Targetable Stratification Factor for Drug Repurposing in Pancreatic Cancer. Cancers (Basel) 2021 May 30;13(11). PMID: 34070805
  • Joo JE, Clendenning M, Wong EM, Rosty C et al. DNA Methylation Signatures and the Contribution of Age-Associated Methylomic Drift to Carcinogenesis in Early-Onset Colorectal Cancer. Cancers (Basel) 2021 May 25;13(11). PMID: 34070516
  • Tsai CY, Ko HJ, Huang CF, Lin CY et al. Ionizing Radiation Induces Resistant Glioblastoma Stem-Like Cells by Promoting Autophagy via the Wnt/β-Catenin Pathway. Life (Basel) 2021 May 18;11(5). PMID: 34069945
  • Srivastava T, Heruth DP, Duncan RS, Rezaiekhaligh MH et al. Transcription Factor β-Catenin Plays a Key Role in Fluid Flow Shear Stress-Mediated Glomerular Injury in Solitary Kidney. Cells 2021 May 19;10(5). PMID: 34069476
  • Li Y, Cook KL, Yu W, Jin L et al. Inhibition of Antiestrogen-Promoted Pro-Survival Autophagy and Tamoxifen Resistance in Breast Cancer through Vitamin D Receptor. Nutrients 2021 May 19;13(5). PMID: 34069442
  • Wang P, Li L, Wei H, Sun W et al. Genome-Wide and Comprehensive Analysis of the Multiple Stress-Related CAF1 (CCR4-Associated Factor 1) Family and Its Expression in Poplar. Plants (Basel) 2021 May 14;10(5). PMID: 34068989
  • Garand M, Toufiq M, Singh P, Huang SSY et al. Immunomodulatory Effects of Vitamin D Supplementation in a Deficient Population. Int J Mol Sci 2021 May 10;22(9). PMID: 34068701
  • Kan KJ, Guo F, Zhu L, Pallavi P et al. Weighted Gene Co-Expression Network Analysis Reveals Key Genes and Potential Drugs in Abdominal Aortic Aneurysm. Biomedicines 2021 May 13;9(5). PMID: 34068179
  • Bollaert E, Claus M, Vandewalle V, Lenglez S et al. MiR-15a-5p Confers Chemoresistance in Acute Myeloid Leukemia by Inhibiting Autophagy Induced by Daunorubicin. Int J Mol Sci 2021 May 13;22(10). PMID: 34068078
  • Regua AT, Aguayo NR, Jalboush SA, Doheny DL et al. TrkA Interacts with and Phosphorylates STAT3 to Enhance Gene Transcription and Promote Breast Cancer Stem Cells in Triple-Negative and HER2-Enriched Breast Cancers. Cancers (Basel) 2021 May 12;13(10). PMID: 34066153
  • Chen SH, Lin HH, Li YF, Tsai WC et al. Clinical Significance and Systematic Expression Analysis of the Thyroid Receptor Interacting Protein 13 (TRIP13) as Human Gliomas Biomarker. Cancers (Basel) 2021 May 12;13(10). PMID: 34066132
  • Fairchild CK Jr, Floros KV, Jacob S, Coon CM et al. Unmasking BCL-2 Addiction in Synovial Sarcoma by Overcoming Low NOXA. Cancers (Basel) 2021 May 12;13(10). PMID: 34065859
  • Mishra S, Taelman J, Chang YW, Boel A et al. Sex-Specific Isolation and Propagation of Human Premeiotic Fetal Germ Cells and Germ Cell-Like Cells. Cells 2021 May 16;10(5). PMID: 34065661
  • Lidak T, Baloghova N, Korinek V, Sedlacek R et al. CRL4-DCAF12 Ubiquitin Ligase Controls MOV10 RNA Helicase during Spermatogenesis and T Cell Activation. Int J Mol Sci 2021 May 20;22(10). PMID: 34065512
  • Ono Y, Bono H et al. Multi-Omic Meta-Analysis of Transcriptomes and the Bibliome Uncovers Novel Hypoxia-Inducible Genes. Biomedicines 2021 May 20;9(5). PMID: 34065451
  • Finke D, Heckmann MB, Salatzki J, Riffel J et al. Comparative Transcriptomics of Immune Checkpoint Inhibitor Myocarditis Identifies Guanylate Binding Protein 5 and 6 Dysregulation. Cancers (Basel) 2021 May 20;13(10). PMID: 34065419
  • Garikipati VNS, Uchida S et al. Elucidating the Functions of Non-Coding RNAs from the Perspective of RNA Modifications. Noncoding RNA 2021 May 11;7(2). PMID: 34065036
  • Saito-Sasaki N, Sawada Y, Okada E, Nakamura M et al. Cell Adhesion Molecule 1 (CADM1) Is an Independent Prognostic Factor in Patients with Cutaneous Squamous Cell Carcinoma. Diagnostics (Basel) 2021 May 4;11(5). PMID: 34064472
  • Shen Y, Liu L, Wang M, Xu B et al. TET2 Inhibits PD-L1 Gene Expression in Breast Cancer Cells through Histone Deacetylation. Cancers (Basel) 2021 May 4;13(9). PMID: 34064441
  • Wu D, Yang XO et al. Dysregulation of Pulmonary Responses in Severe COVID-19. Viruses 2021 May 21;13(6). PMID: 34064104
  • Fernando F, Veenboer GJM, Oudijk MA, Kampman MAM et al. TBX2, a Novel Regulator of Labour. Medicina (Kaunas) 2021 May 21;57(6). PMID: 34064060
  • Seime T, Akbulut AC, Liljeqvist ML, Siika A et al. Proteoglycan 4 Modulates Osteogenic Smooth Muscle Cell Differentiation during Vascular Remodeling and Intimal Calcification. Cells 2021 May 21;10(6). PMID: 34063989
  • Wang HC, Chou MC, Wu CC, Chan LP et al. Application of the Interaction between Tissue Immunohistochemistry Staining and Clinicopathological Factors for Evaluating the Risk of Oral Cancer Progression by Hierarchical Clustering Analysis: A Case-Control Study in a Taiwanese Population. Diagnostics (Basel) 2021 May 21;11(6). PMID: 34063938
  • Ahn J, Hwang IS, Park MR, Hwang S et al. Genomic Imprinting at the Porcine DIRAS3 Locus. Animals (Basel) 2021 May 3;11(5). PMID: 34063661
  • Mikac S, Rychłowski M, Dziadosz A, Szabelska-Beresewicz A et al. Identification of a Stable, Non-Canonically Regulated Nrf2 Form in Lung Cancer Cells. Antioxidants (Basel) 2021 May 15;10(5). PMID: 34063559
  • McEvoy MJ, Sinderewicz E, Creedon L, McAfee M et al. Death Processes in Bovine Theca and Granulosa Cells Modelled and Analysed Using a Systems Biology Approach. Int J Mol Sci 2021 May 5;22(9). PMID: 34063056
  • Pisano MP, Grandi N, Tramontano E et al. Human Endogenous Retroviruses (HERVs) and Mammalian Apparent LTRs Retrotransposons (MaLRs) Are Dynamically Modulated in Different Stages of Immunity. Biology (Basel) 2021 May 5;10(5). PMID: 34062989
  • Qin D, Yue R, Deng P, Wang X et al. 8-Formylophiopogonanone B antagonizes doxorubicin-induced cardiotoxicity by suppressing heme oxygenase-1-dependent myocardial inflammation and fibrosis. Biomed Pharmacother 2021 Aug;140:111779. PMID: 34062415
  • Hao Y, Hao S, Andersen-Nissen E, Mauck WM 3rd et al. Integrated analysis of multimodal single-cell data. Cell 2021 Jun 24;184(13):3573-3587.e29. PMID: 34062119
  • Grimm SL, Dong X, Zhang Y, Carisey AF et al. Effect of sex chromosomes versus hormones in neonatal lung injury. JCI Insight 2021 Jul 8;6(13). PMID: 34061778
  • Zhang J, Gao FF, Xie J et al. LncRNA linc00152/NF-κB feedback loop promotes fibroblast-like synovial cells inflammation in rheumatoid arthritis via regulating miR-103a/TAK1 axis and YY1 expression. Immun Inflamm Dis 2021 Sep;9(3):681-693. PMID: 34061447
  • Staquicini FI, Hajitou A, Driessen WH, Proneth B et al. Targeting a cell surface vitamin D receptor on tumor-associated macrophages in triple-negative breast cancer. Elife 2021 Jun 1;10. PMID: 34060472
  • Kantzer CG, Parmigiani E, Cerrato V, Tomiuk S et al. ACSA-2 and GLAST classify subpopulations of multipotent and glial-restricted cerebellar precursors. J Neurosci Res 2021 Sep;99(9):2228-2249. PMID: 34060113
  • Fei M, Li Z, Cao Y, Jiang C et al. MicroRNA-182 improves spinal cord injury in mice by modulating apoptosis and the inflammatory response via IKKβ/NF-κB. Lab Invest 2021 Sep;101(9):1238-1253. PMID: 34059758
  • Tu Z, Schmoellerl J, Mariani O, Zheng Y et al. The LINC01119-SOCS5 axis as a critical theranostic in triple-negative breast cancer. NPJ Breast Cancer 2021 May 31;7(1):69. PMID: 34059683
  • Wang B, Mou H, Liu M, Ran Z et al. Multiomics characteristics of neurogenesis-related gene are dysregulated in tumor immune microenvironment. NPJ Genom Med 2021 May 31;6(1):37. PMID: 34059678
  • Guo C, Gao YY, Ju QQ, Wang M et al. MAPK14 over-expression is a transcriptomic feature of polycythemia vera and correlates with adverse clinical outcomes. J Transl Med 2021 May 31;19(1):233. PMID: 34059095
  • Lyu X, Wang P, Qiao Q, Jiang Y et al. Genomic stratification based on microenvironment immune types and PD-L1 for tailoring therapeutic strategies in bladder cancer. BMC Cancer 2021 May 31;21(1):646. PMID: 34059019
  • Wang D, Wei G, Ma J, Cheng S et al. Identification of the prognostic value of ferroptosis-related gene signature in breast cancer patients. BMC Cancer 2021 May 31;21(1):645. PMID: 34059009
  • Ivanov M, Sandelin A, Marquardt S et al. TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes. BMC Bioinformatics 2021 May 31;22(1):290. PMID: 34058980
  • Zeng S, Hua Y, Zhang Y, Liu G et al. GLEANER: a web server for GermLine cycle Expression ANalysis and Epigenetic Roadmap visualization. BMC Bioinformatics 2021 May 31;22(1):289. PMID: 34058973
  • Wang T, Zhou M, Guo J, Guo YY et al. Analysis of selection signatures on the Z chromosome of bidirectional selection broiler lines for the assessment of abdominal fat content. BMC Genom Data 2021 May 31;22(1):18. PMID: 34058970
  • Zheng J, Gao Y, Lin H, Yuan C et al. Enhanced autophagy suppresses inflammation-mediated bone loss through ROCK1 signaling in bone marrow mesenchymal stem cells. Cells Dev 2021 Sep;167:203687. PMID: 34058434
  • Policard M, Jain S, Rego S, Dakshanamurthy S et al. Immune characterization and profiles of SARS-CoV-2 infected patients reveals potential host therapeutic targets and SARS-CoV-2 oncogenesis mechanism. Virus Res 2021 Aug;301:198464. PMID: 34058265
  • Wang X, Qian T, Bao S, Zhao H et al. Circulating exosomal miR-363-5p inhibits lymph node metastasis by downregulating PDGFB and serves as a potential noninvasive biomarker for breast cancer. Mol Oncol 2021 Sep;15(9):2466-2479. PMID: 34058065
  • Tran V, Kim R, Maertens M, Hartung T et al. Similarities and Differences in Gene Expression Networks Between the Breast Cancer Cell Line Michigan Cancer Foundation-7 and Invasive Human Breast Cancer Tissues. Front Artif Intell 2021;4:674370. PMID: 34056582
  • Zhang J, Zhang Z et al. Mechanisms of circular RNA circ_0066147 on pancreatic cancer progression. Open Life Sci 2021;16(1):495-510. PMID: 34056113
  • Chen N, Miao L, Lin W, Zou D et al. Integrated DNA Methylation and Gene Expression Analysis Identified S100A8 and S100A9 in the Pathogenesis of Obesity. Front Cardiovasc Med 2021;8:631650. PMID: 34055926
  • Zhou P, Lu Y, Xun Y, Xu J et al. Ubiquitin Modification Patterns of Clear Cell Renal Cell Carcinoma and the Ubiquitin Score to Aid Immunotherapy and Targeted Therapy. Front Cell Dev Biol 2021;9:659294. PMID: 34055790
  • Apicella C, Ruano CSM, Jacques S, Gascoin G et al. Urothelial Cancer Associated 1 (UCA1) and miR-193 Are Two Non-coding RNAs Involved in Trophoblast Fusion and Placental Diseases. Front Cell Dev Biol 2021;9:633937. PMID: 34055770
  • Luo D, Kuang F, Du J, Zhou M et al. Characterization of the Immune Cell Infiltration Profile in Pancreatic Carcinoma to Aid in Immunotherapy. Front Oncol 2021;11:677609. PMID: 34055645
  • Guo C, Li X, Xie J, Liu D et al. Long Noncoding RNA SNHG1 Activates Autophagy and Promotes Cell Invasion in Bladder Cancer. Front Oncol 2021;11:660551. PMID: 34055628
  • Pan H, Diao H, Zhong W, Wang T et al. A Cancer Cell Cluster Marked by LincRNA MEG3 Leads Pancreatic Ductal Adenocarcinoma Metastasis. Front Oncol 2021;11:656564. PMID: 34055623
  • Yousef M, Goy G, Mitra R, Eischen CM et al. miRcorrNet: machine learning-based integration of miRNA and mRNA expression profiles, combined with feature grouping and ranking. PeerJ 2021;9:e11458. PMID: 34055490
  • Chen R, Yang M, Huang W, Wang B et al. Cascades between miRNAs, lncRNAs and the NF-κB signaling pathway in gastric cancer (Review). Exp Ther Med 2021 Jul;22(1):769. PMID: 34055068
  • Xie J, Wang M, Xu S, Huang Z et al. The Unsupervised Feature Selection Algorithms Based on Standard Deviation and Cosine Similarity for Genomic Data Analysis. Front Genet 2021;12:684100. PMID: 34054930
  • Tan Z, Wu L, Fang Y, Chen P et al. Systemic Bioinformatic Analyses of Nuclear-Encoded Mitochondrial Genes in Hypertrophic Cardiomyopathy. Front Genet 2021;12:670787. PMID: 34054926
  • Li H, Zhao C, Li Z, Yao K et al. Identification of Potential Pathogenic Super-Enhancers-Driven Genes in Pulmonary Fibrosis. Front Genet 2021;12:644143. PMID: 34054916
  • Hsiao CC, Sankowski R, Prinz M, Smolders J et al. GPCRomics of Homeostatic and Disease-Associated Human Microglia. Front Immunol 2021;12:674189. PMID: 34054860
  • Chen Y, Hu J, Liu S, Chen B et al. RDUR, a lncRNA, Promotes Innate Antiviral Responses and Provides Feedback Control of NF-κB Activation. Front Immunol 2021;12:672165. PMID: 34054851
  • Xiao H, Zhang J, Wang K, Song K et al. A Cancer-Specific Qualitative Method for Estimating the Proportion of Tumor-Infiltrating Immune Cells. Front Immunol 2021;12:672031. PMID: 34054849
  • Guo W, Tan F, Huai Q, Wang Z et al. Comprehensive Analysis of PD-L1 Expression, Immune Infiltrates, and m6A RNA Methylation Regulators in Esophageal Squamous Cell Carcinoma. Front Immunol 2021;12:669750. PMID: 34054840
  • Vallania F, Zisman L, Macaubas C, Hung SC et al. Multicohort Analysis Identifies Monocyte Gene Signatures to Accurately Monitor Subset-Specific Changes in Human Diseases. Front Immunol 2021;12:659255. PMID: 34054824
  • Rong M, Yan X, Zhang H, Zhou C et al. Dysfunction of Decidual Macrophages Is a Potential Risk Factor in the Occurrence of Preeclampsia. Front Immunol 2021;12:655655. PMID: 34054819
  • Zhang C, Li D, Yu R, Li C et al. Immune Landscape of Gastric Carcinoma Tumor Microenvironment Identifies a Peritoneal Relapse Relevant Immune Signature. Front Immunol 2021;12:651033. PMID: 34054812
  • Aihaiti Y, Song Cai Y, Tuerhong X, Ni Yang Y et al. Therapeutic Effects of Naringin in Rheumatoid Arthritis: Network Pharmacology and Experimental Validation. Front Pharmacol 2021;12:672054. PMID: 34054546
  • Liu Y, Liu Y, Zhang X, Chen M et al. [Hepatitis A virus cell membrane protein receptor 2 promotes endotoxin tolerance in mouse macrophages]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2021 Apr;33(4):472-477. PMID: 34053493
  • Mo J, Zhang Z, Chen M, Mao H et al. [Construction of sepsis-associated competing endogenous RNA network based on Gene Expression Omnibus datasets and bioinformatic analysis]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2021 Apr;33(4):427-432. PMID: 34053485
  • Liu Y, Teng L, Fu S, Wang G et al. Highly heterogeneous-related genes of triple-negative breast cancer: potential diagnostic and prognostic biomarkers. BMC Cancer 2021 May 31;21(1):644. PMID: 34053447
  • Zhang H, Wang P, Song T, Bonnette UL et al. Screening and identification of key genes in imatinib-resistant chronic myelogenous leukemia cells: a bioinformatics study. Hematology 2021 Dec;26(1):408-414. PMID: 34053416
  • Feng S, Heath E, Jefferson B, Joslyn C et al. Hypergraph models of biological networks to identify genes critical to pathogenic viral response. BMC Bioinformatics 2021 May 29;22(1):287. PMID: 34051754
  • Zhao L, Wang B, Yang C, Lin Y et al. TDO2 knockdown inhibits colorectal cancer progression via TDO2-KYNU-AhR pathway. Gene 2021 Aug 5;792:145736. PMID: 34051337
  • Schmidt IM, Colona MR, Kestenbaum BR, Alexopoulos LG et al. Cadherin-11, Sparc-related modular calcium binding protein-2, and Pigment epithelium-derived factor are promising non-invasive biomarkers of kidney fibrosis. Kidney Int 2021 Sep;100(3):672-683. PMID: 34051265
  • Oberbeckmann E, Niebauer V, Watanabe S, Farnung L et al. Ruler elements in chromatin remodelers set nucleosome array spacing and phasing. Nat Commun 2021 May 28;12(1):3232. PMID: 34050140
  • Jiang W, He Y, Ma Z, Zhang Y et al. hsa_circ_0008234 inhibits the progression of lung adenocarcinoma by sponging miR-574-5p. Cell Death Discov 2021 May 28;7(1):123. PMID: 34050132
  • Zhang K, Liu D, Zhao J, Shi S et al. Nuclear exosome HMGB3 secreted by nasopharyngeal carcinoma cells promotes tumour metastasis by inducing angiogenesis. Cell Death Dis 2021 May 28;12(6):554. PMID: 34050127
  • Yoo S, Kim J, Lyu P, Hoang TV et al. Control of neurogenic competence in mammalian hypothalamic tanycytes. Sci Adv 2021 May;7(22). PMID: 34049878
  • Ramaker RC, Hardigan AA, Gordon ER, Wright CA et al. Pooled CRISPR screening in pancreatic cancer cells implicates co-repressor complexes as a cause of multiple drug resistance via regulation of epithelial-to-mesenchymal transition. BMC Cancer 2021 May 29;21(1):632. PMID: 34049503
  • Zhang L, Tao H, Li J, Zhang E et al. Comprehensive analysis of the competing endogenous circRNA-lncRNA-miRNA-mRNA network and identification of a novel potential biomarker for hepatocellular carcinoma. Aging (Albany NY) 2021 May 28;13(12):15990-16008. PMID: 34049287
  • Mitsuzawa S, Suzuki N, Akiyama T, Ishikawa M et al. Reduced PHOX2B stability causes axonal growth impairment in motor neurons with TARDBP mutations. Stem Cell Reports 2021 Jun 8;16(6):1527-1541. PMID: 34048688
  • Ding J, Blencowe M, Nghiem T, Ha SM et al. Mergeomics 2.0: a web server for multi-omics data integration to elucidate disease networks and predict therapeutics. Nucleic Acids Res 2021 Jul 2;49(W1):W375-W387. PMID: 34048577
  • Shi Y, Xiang Z, Yang H, Khan S et al. Pharmacological targeting of TNS3 with histone deacetylase inhibitor as a therapeutic strategy in esophageal squamous cell carcinoma. Aging (Albany NY) 2021 May 28;13(11):15336-15352. PMID: 34047714
  • Yang Y, Long X, Li G, Yu X et al. Prediction of clinical prognosis in cutaneous melanoma using an immune-related gene pair signature. Bioengineered 2021 Dec;12(1):1803-1812. PMID: 34047683
  • Trigos AS, Goudey BW, Bedő J, Conway TC et al. Collateral Sensitivity to β-Lactam Drugs in Drug-Resistant Tuberculosis Is Driven by the Transcriptional Wiring of BlaI Operon Genes. mSphere 2021 Jun 30;6(3):e0024521. PMID: 34047652
  • Sun D, Xie N, Wang X, Wu W et al. Serum RelB is correlated with renal fibrosis and predicts chronic kidney disease progression. Clin Transl Med 2021 May;11(5):e362. PMID: 34047463
  • Ma C, Hunt JB, Kovalenko A, Liang H et al. Myeloid Arginase 1 Insufficiency Exacerbates Amyloid-β Associated Neurodegenerative Pathways and Glial Signatures in a Mouse Model of Alzheimer's Disease: A Targeted Transcriptome Analysis. Front Immunol 2021;12:628156. PMID: 34046031
  • Li H, Hou X, Liang Y, Xu F et al. Gene-Based Tests of a Genome-Wide Association Study Dataset Highlight Novel Multiple Sclerosis Risk Genes. Front Neurosci 2021;15:614528. PMID: 34045940
  • Wu Q, Zhao Y, Shi R, Wang T et al. LncRNA SNHG16 Facilitates Nasopharyngeal Carcinoma Progression by Acting as ceRNA to Sponge miR-520a-3p and Upregulate MAPK1 Expression. Cancer Manag Res 2021;13:4103-4114. PMID: 34045897
  • Monie DD, Correia C, Zhang C, Ung CY et al. Modular network mechanism of CCN1-associated resistance to HSV-1-derived oncolytic immunovirotherapies for glioblastomas. Sci Rep 2021 May 27;11(1):11198. PMID: 34045642
  • Klooster JPT, Bol-Schoenmakers M, van Summeren K, van Vliet ALW et al. Enterocytes, fibroblasts and myeloid cells synergize in anti-bacterial and anti-viral pathways with IL22 as the central cytokine. Commun Biol 2021 May 27;4(1):631. PMID: 34045640
  • Williams MM, Christenson JL, O'Neill KI, Hafeez SA et al. MicroRNA-200c restoration reveals a cytokine profile to enhance M1 macrophage polarization in breast cancer. NPJ Breast Cancer 2021 May 27;7(1):64. PMID: 34045467
  • van Dijk E, van den Bosch T, Lenos KJ, El Makrini K et al. Chromosomal copy number heterogeneity predicts survival rates across cancers. Nat Commun 2021 May 27;12(1):3188. PMID: 34045449
  • Inkster AM, Yuan V, Konwar C, Matthews AM et al. A cross-cohort analysis of autosomal DNA methylation sex differences in the term placenta. Biol Sex Differ 2021 May 27;12(1):38. PMID: 34044884
  • Wang W, Liao K, Guo HC, Zhou S et al. Integrated transcriptomics explored the cancer-promoting genes CDKN3 in esophageal squamous cell cancer. J Cardiothorac Surg 2021 May 27;16(1):148. PMID: 34044866
  • Liu ZK, Li C, Zhang RY, Wei D et al. EYA2 suppresses the progression of hepatocellular carcinoma via SOCS3-mediated blockade of JAK/STAT signaling. Mol Cancer 2021 May 27;20(1):79. PMID: 34044846
  • McGowan MT, Zhang Z, Ficklin SP et al. Chromosomal characteristics of salt stress heritable gene expression in the rice genome. BMC Genom Data 2021 May 27;22(1):17. PMID: 34044788
  • Chen Y, Zhou X, Guo K, Chen SN et al. Transcriptomic insights into the effects of CytCo, a novel nematotoxic protein, on the pine wood nematode Bursaphelenchus xylophilus. BMC Genomics 2021 May 27;22(1):394. PMID: 34044778
  • Hao Q, Yang L, Fan D, Zeng B et al. The transcriptomic response to heat stress of a jujube (Ziziphus jujuba Mill.) cultivar is featured with changed expression of long noncoding RNAs. PLoS One 2021;16(5):e0249663. PMID: 34043642
  • Shamseddin M, De Martino F, Constantin C, Scabia V et al. Contraceptive progestins with androgenic properties stimulate breast epithelial cell proliferation. EMBO Mol Med 2021 Jul 7;13(7):e14314. PMID: 34042278
  • Zhang L, Zhang N, Li X, Wu W et al. High expression of USP18 is associated with the growth of colorectal carcinoma. Histol Histopathol 2021 Jun;36(6):697-704. PMID: 34042164
  • Cucinotta CE, Dell RH, Braceros KC, Tsukiyama T et al. RSC primes the quiescent genome for hypertranscription upon cell-cycle re-entry. Elife 2021 May 27;10. PMID: 34042048
  • Huang R, Zheng Z, Liu S, Yan P et al. Identification of prognostic and bone metastasis​-related alternative splicing signatures in mesothelioma. Cancer Med 2021 Jul;10(13):4478-4492. PMID: 34041868
  • He Y, Zhou Y, Wang H, Yin J et al. Identifying potential biomarkers in hepatitis B virus infection and its response to the antiviral therapy by integrated bioinformatic analysis. J Cell Mol Med 2021 Jul;25(14):6558-6572. PMID: 34041839
  • Xiao Y, Lai Y, Yu Y, Jiang P et al. The Exocrine Differentiation and Proliferation Factor (EXDPF) Gene Promotes Ovarian Cancer Tumorigenesis by Up-Regulating DNA Replication Pathway. Front Oncol 2021;11:669603. PMID: 34041032
  • Forni MF, Domínguez-Amorocho OA, de Assis LVM, Kinker GS et al. An Immunometabolic Shift Modulates Cytotoxic Lymphocyte Activation During Melanoma Progression in TRPA1 Channel Null Mice. Front Oncol 2021;11:667715. PMID: 34041030
  • Tian L, Zhou H, Wang G, Wang WY et al. The relationship between PLOD1 expression level and glioma prognosis investigated using public databases. PeerJ 2021;9:e11422. PMID: 34040895
  • Jia J, Qiu D, Lu C, Wang W et al. Transcriptome Analysis of Choroid and Retina From Tree Shrew With Choroidal Neovascularization Reveals Key Signaling Moieties. Front Genet 2021;12:654955. PMID: 34040635
  • Tang C, MacCarthy T et al. Characterization of DNA G-Quadruplex Structures in Human Immunoglobulin Heavy Variable (IGHV) Genes. Front Immunol 2021;12:671944. PMID: 34040612
  • Boothby MR, Raybuck A, Cho SH, Stengel KR et al. Over-Generalizing About GC (Hypoxia): Pitfalls of Limiting Breadth of Experimental Systems and Analyses in Framing Informatics Conclusions. Front Immunol 2021;12:664249. PMID: 34040610
  • Chen YY, Kao TW, Chiu YL, Peng TC et al. Association Between Interleukin-12 and Sarcopenia. J Inflamm Res 2021;14:2019-2029. PMID: 34040414
  • Warnat-Herresthal S, Schultze H, Shastry KL, Manamohan S et al. Swarm Learning for decentralized and confidential clinical machine learning. Nature 2021 Jun;594(7862):265-270. PMID: 34040261
  • Katiyar A, Kaur G, Rani L, Jena L et al. Genome-wide identification of potential biomarkers in multiple myeloma using meta-analysis of mRNA and miRNA expression data. Sci Rep 2021 May 26;11(1):10957. PMID: 34040057
  • Bellanti F, di Bello G, Iannelli G, Pannone G et al. Inhibition of nuclear factor (erythroid-derived 2)-like 2 promotes hepatic progenitor cell activation and differentiation. NPJ Regen Med 2021 May 26;6(1):28. PMID: 34039998
  • Wang Q, Hernández-Ochoa EO, Viswanathan MC, Blum ID et al. CaMKII oxidation is a critical performance/disease trade-off acquired at the dawn of vertebrate evolution. Nat Commun 2021 May 26;12(1):3175. PMID: 34039988
  • Shi Z, Kong X, Li C, Liu H et al. Bioinformatic analysis of differentially expressed genes as prognostic markers in pheochromocytoma and paraganglioma tumors. Genes Genet Syst 2021 Jul 14;96(2):55-69. PMID: 34039789
  • Vershinin Z, Feldman M, Werner T, Weil LE et al. BRD4 methylation by the methyltransferase SETD6 regulates selective transcription to control mRNA translation. Sci Adv 2021 May;7(22). PMID: 34039605
  • Cassan O, Lèbre S, Martin A et al. Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite. BMC Genomics 2021 May 26;22(1):387. PMID: 34039282
  • Volberding PJ, Xin G, Kasmani MY, Khatun A et al. Suppressive neutrophils require PIM1 for metabolic fitness and survival during chronic viral infection. Cell Rep 2021 May 25;35(8):109160. PMID: 34038722
  • Inverso D, Shi J, Lee KH, Jakab M et al. A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver. Dev Cell 2021 Jun 7;56(11):1677-1693.e10. PMID: 34038707
  • Di Lena P, Sala C, Nardini C et al. Estimage: a webserver hub for the computation of methylation age. Nucleic Acids Res 2021 Jul 2;49(W1):W199-W206. PMID: 34038548
  • Nguyen H, Tran D, Galazka JM, Costes SV et al. CPA: a web-based platform for consensus pathway analysis and interactive visualization. Nucleic Acids Res 2021 Jul 2;49(W1):W114-W124. PMID: 34037798
  • Leon KE, Buj R, Lesko E, Dahl ES et al. DOT1L modulates the senescence-associated secretory phenotype through epigenetic regulation of IL1A. J Cell Biol 2021 Aug 2;220(8). PMID: 34037658
  • Abboud HS, Camuzi D, Rapozo DC, Fernandes PV et al. MET overexpression and intratumor heterogeneity in esophageal squamous cell carcinoma. Braz J Med Biol Res 2021;54(8):e10877. PMID: 34037097
  • Ma M, Guo D, Tan Z, Du J et al. Fucosyltransferase 8 regulation and breast cancer suppression by transcription factor activator protein 2γ. Cancer Sci 2021 Aug;112(8):3190-3204. PMID: 34036684
  • Guo L, Bai Y, Ni T, Li Y et al. MicroRNA‑153‑3p suppresses retinoblastoma cell growth and invasion via targeting the IGF1R/Raf/MEK and IGF1R/PI3K/AKT signaling pathways. Int J Oncol 2021 Jul;59(1). PMID: 34036380
  • Bissig-Choisat B, Alves-Bezerra M, Zorman B, Ochsner SA et al. A human liver chimeric mouse model for non-alcoholic fatty liver disease. JHEP Rep 2021 Jun;3(3):100281. PMID: 34036256
  • Chen F, Han J, Li X, Zhang Z et al. Identification of the biological function of miR-9 in spinal cord ischemia-reperfusion injury in rats. PeerJ 2021;9:e11440. PMID: 34035993
  • Wang J, Li R, Cao Y, Gu Y et al. Intratumoral CXCR5(+)CD8(+)T associates with favorable clinical outcomes and immunogenic contexture in gastric cancer. Nat Commun 2021 May 25;12(1):3080. PMID: 34035252
  • Liu W, Gallego-Bartolomé J, Zhou Y, Zhong Z et al. Ectopic targeting of CG DNA methylation in Arabidopsis with the bacterial SssI methyltransferase. Nat Commun 2021 May 25;12(1):3130. PMID: 34035251
  • Vaz S, Ferreira FJ, Macedo JC, Leor G et al. FOXM1 repression increases mitotic death upon antimitotic chemotherapy through BMF upregulation. Cell Death Dis 2021 May 25;12(6):542. PMID: 34035233
  • Huang Z, Yan Y, Zhu Z, Liu J et al. CBX7 suppresses urinary bladder cancer progression via modulating AKR1B10-ERK signaling. Cell Death Dis 2021 May 25;12(6):537. PMID: 34035231
  • Karnan S, Hanamura I, Ota A, Takasugi S et al. CD52 is a novel target for the treatment of FLT3-ITD-mutated myeloid leukemia. Cell Death Discov 2021 May 25;7(1):121. PMID: 34035227
  • Lakkis J, Wang D, Zhang Y, Hu G et al. A joint deep learning model enables simultaneous batch effect correction, denoising, and clustering in single-cell transcriptomics. Genome Res 2021 Oct;31(10):1753-1766. PMID: 34035047
  • Lee DI, Roy S et al. GRiNCH: simultaneous smoothing and detection of topological units of genome organization from sparse chromatin contact count matrices with matrix factorization. Genome Biol 2021 May 25;22(1):164. PMID: 34034791
  • Sun T, Song D, Li WV, Li JJ et al. scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured. Genome Biol 2021 May 25;22(1):163. PMID: 34034771
  • Yin W, Zhu H, Tan J, Xin Z et al. Identification of collagen genes related to immune infiltration and epithelial-mesenchymal transition in glioma. Cancer Cell Int 2021 May 25;21(1):276. PMID: 34034744
  • Hammad A, Zheng ZH, Namani A, Elshaer M et al. Transcriptome analysis of potential candidate genes and molecular pathways in colitis-associated colorectal cancer of Mkp-1-deficient mice. BMC Cancer 2021 May 25;21(1):607. PMID: 34034704
  • Lei S, Zhang Y et al. Identification of the key genes and pathways involved in B cells in primary Sjögren' s syndrome. Bioengineered 2021 Dec;12(1):2055-2073. PMID: 34034637
  • Ma JH, Huang Y, Liu LY, Feng Z et al. An 8-gene DNA methylation signature predicts the recurrence risk of cervical cancer. J Int Med Res 2021 May;49(5):3000605211018443. PMID: 34034542
  • Du M, Garcia JGN, Christie JD, Xin J et al. Integrative omics provide biological and clinical insights into acute respiratory distress syndrome. Intensive Care Med 2021 Jul;47(7):761-771. PMID: 34032881
  • Du C, Zhang J, Zhang L, Zhang Y et al. Hsa_circRNA_102229 facilitates the progression of triple-negative breast cancer via regulating the miR-152-3p/PFTK1 pathway. J Gene Med 2021 Sep;23(9):e3365. PMID: 34031947
  • Ding RB, Chen P, Rajendran BK, Lyu X et al. Molecular landscape and subtype-specific therapeutic response of nasopharyngeal carcinoma revealed by integrative pharmacogenomics. Nat Commun 2021 May 24;12(1):3046. PMID: 34031426
  • Manco R, Averbukh I, Porat Z, Bahar Halpern K et al. Clump sequencing exposes the spatial expression programs of intestinal secretory cells. Nat Commun 2021 May 24;12(1):3074. PMID: 34031373
  • Zhang T, Shen Y, Guo Y, Yao J et al. Identification of key transcriptome biomarkers based on a vital gene module associated with pathological changes in Alzheimer's disease. Aging (Albany NY) 2021 May 24;13(11):14940-14967. PMID: 34031265
  • Lunazzi G, Buxadé M, Riera-Borrull M, Higuera L et al. NFAT5 Amplifies Antipathogen Responses by Enhancing Chromatin Accessibility, H3K27 Demethylation, and Transcription Factor Recruitment. J Immunol 2021 Jun 1;206(11):2652-2667. PMID: 34031145
  • Riahi H, Fenckova M, Goruk KJ, Schenck A et al. The epigenetic regulator G9a attenuates stress-induced resistance and metabolic transcriptional programs across different stressors and species. BMC Biol 2021 May 24;19(1):112. PMID: 34030685
  • Bickler SW, Cauvi DM, Fisch KM, Prieto JM et al. Extremes of age are associated with differences in the expression of selected pattern recognition receptor genes and ACE2, the receptor for SARS-CoV-2: implications for the epidemiology of COVID-19 disease. BMC Med Genomics 2021 May 24;14(1):138. PMID: 34030677
  • Rabaglino MB, O'Doherty A, Bojsen-Møller Secher J, Lonergan P et al. Application of multi-omics data integration and machine learning approaches to identify epigenetic and transcriptomic differences between in vitro and in vivo produced bovine embryos. PLoS One 2021;16(5):e0252096. PMID: 34029343
  • Wang K, Li Y, Wang J, Chen R et al. A novel 12-gene signature as independent prognostic model in stage IA and IB lung squamous cell carcinoma patients. Clin Transl Oncol 2021 Nov;23(11):2368-2381. PMID: 34028782
  • Liu L, Zhang R, Deng J, Dai X et al. Construction of TME and Identification of crosstalk between malignant cells and macrophages by SPP1 in hepatocellular carcinoma. Cancer Immunol Immunother 2022 Jan;71(1):121-136. PMID: 34028567
  • Freire PP, Marques AH, Baiocchi GC, Schimke LF et al. The relationship between cytokine and neutrophil gene network distinguishes SARS-CoV-2-infected patients by sex and age. JCI Insight 2021 May 24;6(10). PMID: 34027897
  • Hasan F, Chiu Y, Shaw RM, Wang J et al. Hypoxia acts as an environmental cue for the human tissue-resident memory T cell differentiation program. JCI Insight 2021 May 24;6(10). PMID: 34027895
  • Payen VL, Lavergne A, Alevra Sarika N, Colonval M et al. Single-cell RNA sequencing of human liver reveals hepatic stellate cell heterogeneity. JHEP Rep 2021 Jun;3(3):100278. PMID: 34027339
  • Hao S, Jiang P, Xie L, Xiang G et al. Essential Genes and MiRNA-mRNA Network Contributing to the Pathogenesis of Idiopathic Pulmonary Arterial Hypertension. Front Cardiovasc Med 2021;8:627873. PMID: 34026864
  • Santiago-Carvalho I, de Almeida-Santos G, Bomfim CCB, de Souza PC et al. P2x7 Receptor Signaling Blockade Reduces Lung Inflammation and Necrosis During Severe Experimental Tuberculosis. Front Cell Infect Microbiol 2021;11:672472. PMID: 34026666
  • Zeng Y, Shi Y, Xu L, Zeng Y et al. Prognostic Value and Related Regulatory Networks of MRPL15 in Non-Small-Cell Lung Cancer. Front Oncol 2021;11:656172. PMID: 34026630
  • Lin Q, Luo L, Wang H et al. A New Oxaliplatin Resistance-Related Gene Signature With Strong Predicting Ability in Colon Cancer Identified by Comprehensive Profiling. Front Oncol 2021;11:644956. PMID: 34026619
  • Hu J, Qiu D, Yu A, Hu J et al. YTHDF1 Is a Potential Pan-Cancer Biomarker for Prognosis and Immunotherapy. Front Oncol 2021;11:607224. PMID: 34026603
  • Zhang Z, He T, Huang L, Li J et al. Immune gene prognostic signature for disease free survival of gastric cancer: Translational research of an artificial intelligence survival predictive system. Comput Struct Biotechnol J 2021;19:2329-2346. PMID: 34025929
  • Li E, Yang X, Du Y, Wang G et al. CXCL8 Associated Dendritic Cell Activation Marker Expression and Recruitment as Indicators of Favorable Outcomes in Colorectal Cancer. Front Immunol 2021;12:667177. PMID: 34025668
  • Liu D, Yang X, Wu X et al. Tumor Immune Microenvironment Characterization Identifies Prognosis and Immunotherapy-Related Gene Signatures in Melanoma. Front Immunol 2021;12:663495. PMID: 34025664
  • Li R, Ding Z, Jin P, Wu S et al. Development and Validation of a Novel Prognostic Model for Acute Myeloid Leukemia Based on Immune-Related Genes. Front Immunol 2021;12:639634. PMID: 34025649
  • Törőcsik D, Fazekas F, Póliska S, Gregus A et al. Epidermal Growth Factor Modulates Palmitic Acid-Induced Inflammatory and Lipid Signaling Pathways in SZ95 Sebocytes. Front Immunol 2021;12:600017. PMID: 34025636
  • Zhai M, Yang S, Lin S, Zhu H et al. Distinct Gene Expression Patterns of Ion Channels and Cytokines in Rat Primary Sensory Neurons During Development of Bone Cancer and Cancer Pain. Front Mol Neurosci 2021;14:665085. PMID: 34025351
  • Lin CQ, Chen LK et al. Effect of differential hypoxia-related gene expression on glioblastoma. J Int Med Res 2021 May;49(5):3000605211013774. PMID: 34024193
  • Hou Y, Zhang Q, Pang W, Hou L et al. YTHDC1-mediated augmentation of miR-30d in repressing pancreatic tumorigenesis via attenuation of RUNX1-induced transcriptional activation of Warburg effect. Cell Death Differ 2021 Nov;28(11):3105-3124. PMID: 34021267
  • Iturria-Medina Y, Carbonell F, Assadi A, Adewale Q et al. Integrating molecular, histopathological, neuroimaging and clinical neuroscience data with NeuroPM-box. Commun Biol 2021 May 21;4(1):614. PMID: 34021244
  • Li L, Xia S, Shi X, Chen X et al. The novel immune-related genes predict the prognosis of patients with hepatocellular carcinoma. Sci Rep 2021 May 21;11(1):10728. PMID: 34021184
  • Liu M, Rao H, Liu J, Li X et al. The histone methyltransferase SETD2 modulates oxidative stress to attenuate experimental colitis. Redox Biol 2021 Jul;43:102004. PMID: 34020310
  • Wang H, Zhou L, Yang Y, Luo B et al. Screening and identification of key genes in EBV-associated gastric carcinoma based on bioinformatics analysis. Pathol Res Pract 2021 Jun;222:153439. PMID: 34020134
  • Liu SC, Huang CS, Huang CM, Hsieh MS et al. Isoorientin inhibits epithelial-to-mesenchymal properties and cancer stem-cell-like features in oral squamous cell carcinoma by blocking Wnt/β-catenin/STAT3 axis. Toxicol Appl Pharmacol 2021 Aug 1;424:115581. PMID: 34019859
  • Yu Q, Kilik U, Holloway EM, Tsai YH et al. Charting human development using a multi-endodermal organ atlas and organoid models. Cell 2021 Jun 10;184(12):3281-3298.e22. PMID: 34019796
  • Cheng X, Yan J, Liu Y, Wang J et al. eVITTA: a web-based visualization and inference toolbox for transcriptome analysis. Nucleic Acids Res 2021 Jul 2;49(W1):W207-W215. PMID: 34019643
  • Chen D, Yan Y, Wang X, Li S et al. Chronic alcohol exposure promotes HCC stemness and metastasis through β-catenin/miR-22-3p/TET2 axis. Aging (Albany NY) 2021 May 21;13(10):14433-14455. PMID: 34019487
  • Affinati AH, Sabatini PV, True C, Tomlinson AJ et al. Cross-species analysis defines the conservation of anatomically segregated VMH neuron populations. Elife 2021 May 21;10. PMID: 34018926
  • Cui K, Chen JH, Zou YF, Zhang SY et al. Hub biomarkers for the diagnosis and treatment of glioblastoma based on microarray technology. Technol Cancer Res Treat 2021 Jan-Dec;20:1533033821990368. PMID: 34018447
  • Zhang B, Li B, Sun C, Tu T et al. Identification of key gene modules and pathways of human platelet transcriptome in acute myocardial infarction patients through co-expression network. Am J Transl Res 2021;13(4):3890-3905. PMID: 34017580
  • Li W, Qin Y, Zhou R, Liu Y et al. High expression of SIX1 is an independent predictor of poor prognosis in endometrial cancer. Am J Transl Res 2021;13(4):2840-2848. PMID: 34017447
  • Chen M, Dong H, Deng S, Zhou Y et al. Development and validation of a prognostic nomogram for patients with lung adenocarcinoma based on a novel 6-DNA repair-related gene signature. Am J Transl Res 2021;13(4):1952-1970. PMID: 34017369
  • Li X, Xie M, Yin S, Xiong Z et al. Identification and Validation of a Six Immune-Related Genes Signature for Predicting Prognosis in Patients With Stage II Colorectal Cancer. Front Genet 2021;12:666003. PMID: 34017356
  • Sun H, Wang Y, Jing HY, Yang XY et al. Chaperonin-Containing TCP1 Subunit 6A Is a Prognostic Potential Biomarker That Correlates With the Presence of Immune Infiltrates in Colorectal Cancer. Front Genet 2021;12:629856. PMID: 34017352
  • Li Y, Ping X, Zhang Y, Li G et al. Comparative Transcriptome Profiling of Cold Exposure and β3-AR Agonist CL316,243-Induced Browning of White Fat. Front Physiol 2021;12:667698. PMID: 34017267
  • Andreatta M, Corria-Osorio J, Müller S, Cubas R et al. Interpretation of T cell states from single-cell transcriptomics data using reference atlases. Nat Commun 2021 May 20;12(1):2965. PMID: 34017005
  • Chen WY, Chen H, Hamada K, Gatta E et al. Transcriptomics identifies STAT3 as a key regulator of hippocampal gene expression and anhedonia during withdrawal from chronic alcohol exposure. Transl Psychiatry 2021 May 20;11(1):298. PMID: 34016951
  • Li H, Zhao J, Sun J, Tian C et al. Demethylation of the SFRP4 Promoter Drives Gastric Cancer Progression via the Wnt Pathway. Mol Cancer Res 2021 Sep;19(9):1454-1464. PMID: 34016745
  • Seier JA, Reinhardt J, Saraf K, Ng SS et al. Druggable epigenetic suppression of interferon-induced chemokine expression linked to MYCN amplification in neuroblastoma. J Immunother Cancer 2021 May;9(5). PMID: 34016720
  • Olsen RR, Ireland AS, Kastner DW, Groves SM et al. ASCL1 represses a SOX9(+) neural crest stem-like state in small cell lung cancer. Genes Dev 2021 Jun;35(11-12):847-869. PMID: 34016693
  • Sun L, Liu S, Wang X, Zheng X et al. eIF6 promotes the malignant progression of human hepatocellular carcinoma via the mTOR signaling pathway. J Transl Med 2021 May 20;19(1):216. PMID: 34016142
  • Peng Y, Meng G, Sheng X, Gao H et al. Transcriptome and DNA methylation analysis reveals molecular mechanisms underlying intrahepatic cholangiocarcinoma progression. J Cell Mol Med 2021 May 19;25(13):6373-87. PMID: 34013637
  • Chiu YJ, Tsai FJ, Bau DT, Chang LC et al. Next‑generation sequencing analysis reveals that MTH‑3, a novel curcuminoid derivative, suppresses the invasion of MDA‑MB‑231 triple‑negative breast adenocarcinoma cells. Oncol Rep 2021 Jul;46(1). PMID: 34013378
  • Lu J, Wang X, Sun K, Lan X et al. Chrom-Lasso: a lasso regression-based model to detect functional interactions using Hi-C data. Brief Bioinform 2021 Nov 5;22(6). PMID: 34013331
  • Yu Y, Wang S, Zhang X, Xu S et al. Clinical implications of TPO and AOX1 in pediatric papillary thyroid carcinoma. Transl Pediatr 2021 Apr;10(4):723-732. PMID: 34012822
  • Peng W, Tu G, Zhao Z, He B et al. DNA methylome and transcriptome analysis established a model of four differentially methylated positions (DMPs) as a diagnostic marker in esophageal adenocarcinoma early detection. PeerJ 2021;9:e11355. PMID: 34012728
  • Sun J, Zhao J, Yang Z, Zhou Z et al. Identification of gene signatures and potential therapeutic targets for acquired chemotherapy resistance in gastric cancer patients. J Gastrointest Oncol 2021 Apr;12(2):407-422. PMID: 34012635
  • Xia C, Xu X, Ding Y, Yu C et al. Abnormal spindle-like microcephaly-associated protein enhances cell invasion through Wnt/β-catenin-dependent regulation of epithelial-mesenchymal transition in non-small cell lung cancer cells. J Thorac Dis 2021 Apr;13(4):2460-2474. PMID: 34012593
  • Bai Z, Xu L, Dai Y, Yuan Q et al. ECM2 and GLT8D2 in human pulmonary artery hypertension: fruits from weighted gene co-expression network analysis. J Thorac Dis 2021 Apr;13(4):2242-2254. PMID: 34012575
  • Li Q, Jiang S, Feng T, Zhu T et al. Identification of the EMT-Related Genes Signature for Predicting Occurrence and Progression in Thyroid Cancer. Onco Targets Ther 2021;14:3119-3131. PMID: 34012269
  • Lee YT, Ayoub A, Park SH, Sha L et al. Mechanism for DPY30 and ASH2L intrinsically disordered regions to modulate the MLL/SET1 activity on chromatin. Nat Commun 2021 May 19;12(1):2953. PMID: 34012049
  • Blauensteiner J, Bertinat R, León LE, Riederer M et al. Altered endothelial dysfunction-related miRs in plasma from ME/CFS patients. Sci Rep 2021 May 19;11(1):10604. PMID: 34011981
  • Franzen J, Georgomanolis T, Selich A, Kuo CC et al. DNA methylation changes during long-term in vitro cell culture are caused by epigenetic drift. Commun Biol 2021 May 19;4(1):598. PMID: 34011964
  • Zhang W, Wang L, Zhang P, Zhang Q et al. m6A regulators are associated with osteosarcoma metastasis and have prognostic significance: A study based on public databases. Medicine (Baltimore) 2021 May 21;100(20):e25952. PMID: 34011074
  • Foley S, Ku C, Arshinoff B, Lotay V et al. Integration of 1:1 orthology maps and updated datasets into Echinobase. Database (Oxford) 2021 May 19;2021. PMID: 34010390
  • Kucuk B, Yilmaz E, Cacan E et al. Expression profiles of Natural Killer Group 2D Ligands (NGK2DLs) in colorectal carcinoma and changes in response to chemotherapeutic agents. Mol Biol Rep 2021 May;48(5):3999-4008. PMID: 34009568
  • Saulnier O, Guedri-Idjouadiene K, Aynaud MM, Chakraborty A et al. ERG transcription factors have a splicing regulatory function involving RBFOX2 that is altered in the EWS-FLI1 oncogenic fusion. Nucleic Acids Res 2021 May 21;49(9):5038-5056. PMID: 34009296
  • Hendley AM, Rao AA, Leonhardt L, Ashe S et al. Single-cell transcriptome analysis defines heterogeneity of the murine pancreatic ductal tree. Elife 2021 May 19;10. PMID: 34009124
  • Santos MP, Pereira JN, Delabio RW, Smith MAC et al. Increased expression of interleukin-6 gene in gastritis and gastric cancer. Braz J Med Biol Res 2021;54(7):e10687. PMID: 34008757
  • Delmonico L, Obenauer JC, Stockfisch TP, Fournier MV et al. Housekeeping genes involved in non-malignant breast phenotypes are widely expressed in multiple cancers and provide novel biomarkers of tumor classification. Braz J Med Biol Res 2021;54(7):e10388. PMID: 34008752
  • Widner DB, Liu C, Zhao Q, Sharp S et al. Activated mast cells in skeletal muscle can be a potential mediator for cancer-associated cachexia. J Cachexia Sarcopenia Muscle 2021 Aug;12(4):1079-1097. PMID: 34008339
  • Yi P, Xu X, Yao J, Qiu B et al. Effect of DNA methylation on gene transcription is associated with the distribution of methylation sites across the genome in osteoarthritis. Exp Ther Med 2021 Jul;22(1):719. PMID: 34007328
  • Luo CK, Chou PH, Ng SK, Lin WY et al. Cannabinoids orchestrate cross-talk between cancer cells and endothelial cells in colorectal cancer. Cancer Gene Ther 2022 May;29(5):597-611. PMID: 34007062
  • Becker K, Klein H, Simon E, Viollet C et al. In-depth transcriptomic analysis of human retina reveals molecular mechanisms underlying diabetic retinopathy. Sci Rep 2021 May 18;11(1):10494. PMID: 34006945
  • Weiss FD, Calderon L, Wang YF, Georgieva R et al. Neuronal genes deregulated in Cornelia de Lange Syndrome respond to removal and re-expression of cohesin. Nat Commun 2021 May 18;12(1):2919. PMID: 34006846
  • Shi Q, Yao H et al. Signature RNAS and related regulatory roles in type 1 diabetes mellitus based on competing endogenous RNA regulatory network analysis. BMC Med Genomics 2021 May 18;14(1):133. PMID: 34006268
  • Zhang Y, Asad S, Weber Z, Tallman D et al. Genomic features of rapid versus late relapse in triple negative breast cancer. BMC Cancer 2021 May 18;21(1):568. PMID: 34006255
  • Li Y, Luo P, Lu Y, Wu FX et al. Identifying cell types from single-cell data based on similarities and dissimilarities between cells. BMC Bioinformatics 2021 May 18;22(Suppl 3):255. PMID: 34006217
  • Lin P, Lai X, Wu L, Liu W et al. Network analysis reveals important genes in human placenta. J Obstet Gynaecol Res 2021 Aug;47(8):2607-2615. PMID: 34005840
  • Zhang T, Nie Y et al. Prediction of the Risk of Alopecia Areata Progressing to Alopecia Totalis and Alopecia Universalis: Biomarker Development with Bioinformatics Analysis and Machine Learning. Dermatology 2022;238(2):386-396. PMID: 34004600
  • Wilkerson BA, Zebroski HL, Finkbeiner CR, Chitsazan AD et al. Novel cell types and developmental lineages revealed by single-cell RNA-seq analysis of the mouse crista ampullaris. Elife 2021 May 18;10. PMID: 34003106
  • Xiang Z, Shen E, Li M, Hu D et al. Potential prognostic biomarkers related to immunity in clear cell renal cell carcinoma using bioinformatic strategy. Bioengineered 2021 Dec;12(1):1773-1790. PMID: 34002666
  • Amjad E, Asnaashari S, Sokouti B et al. The role of PI3K signaling pathway and its associated genes in papillary thyroid cancer. J Egypt Natl Canc Inst 2021 May 17;33(1):11. PMID: 34002322
  • Ferrarini MG, Lal A, Rebollo R, Gruber AJ et al. Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis. Commun Biol 2021 May 17;4(1):590. PMID: 34002013
  • Thomas J, Zimmerlin L, Huo JS, Considine M et al. Running the full human developmental clock in interspecies chimeras using alternative human stem cells with expanded embryonic potential. NPJ Regen Med 2021 May 17;6(1):25. PMID: 34001907
  • Paul R, Giraud G, Domsch K, Duffraisse M et al. Hox dosage contributes to flight appendage morphology in Drosophila. Nat Commun 2021 May 17;12(1):2892. PMID: 34001903
  • Chen L, Luo S, Dupre A, Vasoya RP et al. The nuclear receptor HNF4 drives a brush border gene program conserved across murine intestine, kidney, and embryonic yolk sac. Nat Commun 2021 May 17;12(1):2886. PMID: 34001900
  • Grieshaber-Bouyer R, Radtke FA, Cunin P, Stifano G et al. The neutrotime transcriptional signature defines a single continuum of neutrophils across biological compartments. Nat Commun 2021 May 17;12(1):2856. PMID: 34001893
  • Liu L, Wu Y, Wang B, Jiang Y et al. DA-DRD5 signaling controls colitis by regulating colonic M1/M2 macrophage polarization. Cell Death Dis 2021 May 17;12(6):500. PMID: 34001860
  • Schneider L, Herkt S, Wang L, Feld C et al. PRMT6 activates cyclin D1 expression in conjunction with the transcription factor LEF1. Oncogenesis 2021 May 17;10(5):42. PMID: 34001852
  • Verma RX, Kannan S, Lin BL, Fomchenko KM et al. Single cell RNA-seq analysis of the flexor digitorum brevis mouse myofibers. Skelet Muscle 2021 May 17;11(1):13. PMID: 34001262
  • Huang R, Soneson C, Germain PL, Schmidt TSB et al. treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses. Genome Biol 2021 May 17;22(1):157. PMID: 34001188
  • Wang L, Liu Y, Yu Z, Gong J et al. Mir-139-5p inhibits glioma cell proliferation and progression by targeting GABRA1. J Transl Med 2021 May 17;19(1):213. PMID: 34001135
  • Hu L, Wu C et al. In silico analysis suggests disruption of interactions between HAMP from hepatocytes and SLC40A1 from macrophages in hepatocellular carcinoma. BMC Med Genomics 2021 May 17;14(1):128. PMID: 34001107
  • Fernandes AC, da Silva VH, Goes CP, Moreira GCM et al. Genome-wide detection of CNVs and their association with performance traits in broilers. BMC Genomics 2021 May 17;22(1):354. PMID: 34001004
  • Li XT, Zhang MW, Zhang ZZ, Cao YD et al. Abnormal apelin-ACE2 and SGLT2 signaling contribute to adverse cardiorenal injury in patients with COVID-19. Int J Cardiol 2021 Aug 1;336:123-129. PMID: 34000358
  • Suteau V, Seegers V, Munier M, Ben Boubaker R et al. G Protein-coupled Receptors in Radioiodine-refractory Thyroid Cancer in the Era of Precision Medicine. J Clin Endocrinol Metab 2021 Jul 13;106(8):2221-2232. PMID: 34000025
  • Wu XY, Xie Y, Zhou LY, Zhao YY et al. Long noncoding RNA POU6F2-AS1 regulates lung cancer aggressiveness through sponging miR-34c-5p to modulate KCNJ4 expression. Genet Mol Biol 2021;44(2):e20200050. PMID: 33999092
  • Zheng X, Wu Q, Wu H, Leung KS et al. Evaluating the Consistency of Gene Methylation in Liver Cancer Using Bisulfite Sequencing Data. Front Cell Dev Biol 2021;9:671302. PMID: 33996828
  • Du MG, Peng ZQ, Gai WB, Liu F et al. The Absence of PTEN in Breast Cancer Is a Driver of MLN4924 Resistance. Front Cell Dev Biol 2021;9:667435. PMID: 33996822
  • García-Montolio M, Ballaré C, Blanco E, Gutiérrez A et al. Polycomb Factor PHF19 Controls Cell Growth and Differentiation Toward Erythroid Pathway in Chronic Myeloid Leukemia Cells. Front Cell Dev Biol 2021;9:655201. PMID: 33996816
  • Tang H, Chen J, Han X, Feng Y et al. Upregulation of SPP1 Is a Marker for Poor Lung Cancer Prognosis and Contributes to Cancer Progression and Cisplatin Resistance. Front Cell Dev Biol 2021;9:646390. PMID: 33996808
  • Hu J, Yu H, Sun L, Yan Y et al. Identification of an Individualized Metabolism Prognostic Signature and Related Therapy Regimens in Early Stage Lung Adenocarcinoma. Front Oncol 2021;11:650853. PMID: 33996569
  • Xu W, Li C, Ma B, Lu Z et al. Identification of Key Functional Gene Signatures Indicative of Dedifferentiation in Papillary Thyroid Cancer. Front Oncol 2021;11:641851. PMID: 33996555
  • Lv Y, Wang X, Ren Y, Fu X et al. Construction of an immune-related signature with prognostic value for colon cancer. PeerJ 2021;9:e10812. PMID: 33996273
  • Li J, Pan T, Chen L, Wang Q et al. Alternative splicing perturbation landscape identifies RNA binding proteins as potential therapeutic targets in cancer. Mol Ther Nucleic Acids 2021 Jun 4;24:792-806. PMID: 33996260
  • Vafaee R, Nikzamir A, Razzaghi M, Rezaei Tavirani S et al. An Investigation of Post-radiation Gene Expression Profiles: A System Biology Study. J Lasers Med Sci 2020 Fall;11(Suppl 1):S101-S106. PMID: 33995977
  • Nikzamir A, Rezaei-Tavirani M, Razzaghi Z, Rostami-Nejad M et al. Gene Activation as a Cell Protection Mechanism Against Gamma-Ray radiation. J Lasers Med Sci 2020 Fall;11(Suppl 1):S80-S84. PMID: 33995974
  • Arjmand B, Rezaei Tavirani M, Razzaghi M, Rostami-Nejad M et al. Role of Flt4 in Skin Protection against UVB Radiation: A System Biology Approach. J Lasers Med Sci 2020 Fall;11(Suppl 1):S30-S36. PMID: 33995966
  • Turunen T, Hernández de Sande A, Pölönen P, Heinäniemi M et al. Genome-wide analysis of primary microRNA expression using H3K36me3 ChIP-seq data. Comput Struct Biotechnol J 2021;19:1944-1955. PMID: 33995896
  • Luan JC, Zhang QJ, Zhao K, Zhou X et al. A Novel Set of Immune-associated Gene Signature predicts Biochemical Recurrence in Localized Prostate Cancer Patients after Radical Prostatectomy. J Cancer 2021;12(12):3715-3725. PMID: 33995646
  • Zhang L, Li Y, Wang X, Ping Y et al. Five-gene signature associating with Gleason score serve as novel biomarkers for identifying early recurring events and contributing to early diagnosis for Prostate Adenocarcinoma. J Cancer 2021;12(12):3626-3647. PMID: 33995639
  • Du C, Shen L, Ma Z, Du J et al. Bioinformatic Analysis of Crosstalk Between circRNA, miRNA, and Target Gene Network in NAFLD. Front Genet 2021;12:671523. PMID: 33995497
  • Qiu X, Lin J, Liang B, Chen Y et al. Identification of Hub Genes and MicroRNAs Associated With Idiopathic Pulmonary Arterial Hypertension by Integrated Bioinformatics Analyses. Front Genet 2021;12:667406. PMID: 33995494
  • Huang R, Liu J, Li H, Zheng L et al. Identification of Hub Genes and Their Correlation With Immune Infiltration Cells in Hepatocellular Carcinoma Based on GEO and TCGA Databases. Front Genet 2021;12:647353. PMID: 33995482
  • Wang J, Wang J, Gu Q, Yang Y et al. TGFβ1: An Indicator for Tumor Immune Microenvironment of Colon Cancer From a Comprehensive Analysis of TCGA. Front Genet 2021;12:612011. PMID: 33995472
  • Baumgaertner P, Sankar M, Herrera F, Benedetti F et al. Unsupervised Analysis of Flow Cytometry Data in a Clinical Setting Captures Cell Diversity and Allows Population Discovery. Front Immunol 2021;12:633910. PMID: 33995353
  • Goel S, Saheb Sharif-Askari F, Saheb Sharif Askari N, Madkhana B et al. SARS-CoV-2 Switches 'on' MAPK and NFκB Signaling via the Reduction of Nuclear DUSP1 and DUSP5 Expression. Front Pharmacol 2021;12:631879. PMID: 33995033
  • Xie Y, Luo X, He H, Tang M et al. Novel Insight Into the Role of Immune Dysregulation in Amyotrophic Lateral Sclerosis Based on Bioinformatic Analysis. Front Neurosci 2021;15:657465. PMID: 33994932
  • Huang WK, Chen Y, Su H, Chen TY et al. ARHGAP25 Inhibits Pancreatic Adenocarcinoma Growth by Suppressing Glycolysis via AKT/mTOR Pathway. Int J Biol Sci 2021;17(7):1808-1820. PMID: 33994864
  • Peng S, Chen M, Yin M, Feng H et al. Identifying the Potential Therapeutic Targets for Atopic Dermatitis Through the Immune Infiltration Analysis and Construction of a ceRNA Network. Clin Cosmet Investig Dermatol 2021;14:437-453. PMID: 33994801
  • Yang H, Su J, Meng W, Chen X et al. MiR-518a-5p Targets GZMB to Extenuate Vascular Endothelial Cell Injury Induced by Hypoxia-Reoxygenation and Thereby Improves Myocardial Ischemia. Int Heart J 2021 May 29;62(3):658-665. PMID: 33994508
  • Zhao ZW, Zhang M, Zou J, Wan XJ et al. TIGAR mitigates atherosclerosis by promoting cholesterol efflux from macrophages. Atherosclerosis 2021 Jun;327:76-86. PMID: 33994201
  • Urban LA, Trinh A, Pearlman E, Siryaporn A et al. The impact of age-related hypomethylated DNA on immune signaling upon cellular demise. Trends Immunol 2021 Jun;42(6):464-468. PMID: 33994111
  • Luo L, Zhou H, Su H et al. Identification of 4-genes model in papillary renal cell tumor microenvironment based on comprehensive analysis. BMC Cancer 2021 May 17;21(1):553. PMID: 33993869
  • Nashiry MA, Sumi SS, Sharif Shohan MU, Alyami SA et al. Bioinformatics and system biology approaches to identify the diseasome and comorbidities complexities of SARS-CoV-2 infection with the digestive tract disorders. Brief Bioinform 2021 Nov 5;22(6). PMID: 33993223
  • Smith JP, Dutta AB, Sathyan KM, Guertin MJ et al. PEPPRO: quality control and processing of nascent RNA profiling data. Genome Biol 2021 May 15;22(1):155. PMID: 33992117
  • Li L, Zhou D, Liu Q, Li D et al. Network analysis indicating the pharmacological mechanism of Yunpi-Qufeng-Chushi-prescription in prophylactic treatment of rheumatoid arthritis. BMC Complement Med Ther 2021 May 15;21(1):142. PMID: 33992108
  • Qi J, Pan L, Yu Z, Ni W et al. The lncRNA RP3-439F8.1 promotes GBM cell proliferation and progression by sponging miR-139-5p to upregulate NR5A2. Pathol Res Pract 2021 Jul;223:153319. PMID: 33991848
  • Khalid M, Paracha RZ, Nisar M, Malik S et al. Long non-coding RNAs and their targets as potential biomarkers in breast cancer. IET Syst Biol 2021 Jul;15(5):137-147. PMID: 33991433
  • Rahman CR, Amin R, Shatabda S, Toaha MSI et al. A convolution based computational approach towards DNA N6-methyladenine site identification and motif extraction in rice genome. Sci Rep 2021 May 14;11(1):10357. PMID: 33990665
  • Shi W, Zhang G, Ma Z, Li L et al. Hyperactivation of HER2-SHCBP1-PLK1 axis promotes tumor cell mitosis and impairs trastuzumab sensitivity to gastric cancer. Nat Commun 2021 May 14;12(1):2812. PMID: 33990570
  • Chen L, Tong Q, Chen X, Jiang P et al. PHC1 maintains pluripotency by organizing genome-wide chromatin interactions of the Nanog locus. Nat Commun 2021 May 14;12(1):2829. PMID: 33990559
  • Leng W, Fan D, Ren Z, Li Q et al. Identification of upregulated NF-κB inhibitor alpha and IRAK3 targeting lncRNA following intracranial aneurysm rupture-induced subarachnoid hemorrhage. BMC Neurol 2021 May 14;21(1):197. PMID: 33990177
  • Chai H, Zhou X, Zhang Z, Rao J et al. Integrating multi-omics data through deep learning for accurate cancer prognosis prediction. Comput Biol Med 2021 Jul;134:104481. PMID: 33989895
  • Ji X, Yue H, Li G, Sang N et al. Maternal smoking-induced lung injuries in dams and offspring via inflammatory cytokines. Environ Int 2021 Nov;156:106618. PMID: 33989842
  • Blatt P, Wong-Deyrup SW, McCarthy A, Breznak S et al. RNA degradation is required for the germ-cell to maternal transition in Drosophila. Curr Biol 2021 Jul 26;31(14):2984-2994.e7. PMID: 33989522
  • Badmos H, Cobbe N, Campbell A, Jackson R et al. Drosophila USP22/nonstop polarizes the actin cytoskeleton during collective border cell migration. J Cell Biol 2021 Jul 5;220(7). PMID: 33988679
  • Huang Q, Zhong J, Gao H, Li K et al. Subgrouping by gene expression profiles to improve relapse risk prediction in paediatric B-precursor acute lymphoblastic leukaemia. Cancer Med 2021 Jun;10(11):3782-3793. PMID: 33987975
  • Yang Z, Yang Z, Hu Z, Li B et al. UAP1L1 plays an oncogene-like role in glioma through promoting proliferation and inhibiting apoptosis. Ann Transl Med 2021 Apr;9(7):542. PMID: 33987240
  • Zhou Z, Gao Z, Yan W, Zhang Y et al. Adenosine A3 receptor activated in H(2)O(2) oxidative stress of primary open-angle glaucoma. Ann Transl Med 2021 Apr;9(7):526. PMID: 33987224
  • Chen X, Xu J, Zeng F, Yang C et al. Inferring Cell Subtypes and LncRNA Function by a Cell-Specific CeRNA Network in Breast Cancer. Front Oncol 2021;11:656675. PMID: 33987091
  • Lee HY, Li CC, Li WM, Hsu YL et al. Identification of potential genes in upper tract urothelial carcinoma using next-generation sequencing with bioinformatics and in vitro analyses. PeerJ 2021;9:e11343. PMID: 33987019
  • Wang Q, Yu X, Zheng Z, Chen F et al. Centromere protein N may be a novel malignant prognostic biomarker for hepatocellular carcinoma. PeerJ 2021;9:e11342. PMID: 33987018
  • Zhang D, Yan P, Han T, Cheng X et al. Identification of key genes and biological processes contributing to colitis associated dysplasia in ulcerative colitis. PeerJ 2021;9:e11321. PMID: 33987007
  • Yang L, Yin W, Liu X, Li F et al. Identification of a five-gene signature in association with overall survival for hepatocellular carcinoma. PeerJ 2021;9:e11273. PMID: 33986994
  • Liu S, Wang K, Svoboda LK, Rygiel CA et al. Perinatal DEHP exposure induces sex- and tissue-specific DNA methylation changes in both juvenile and adult mice. Environ Epigenet 2021;7(1):dvab004. PMID: 33986952
  • Jiang F, Wang XY, Wang MY, Mao Y et al. An Immune Checkpoint-Related Gene Signature for Predicting Survival of Pediatric Acute Myeloid Leukemia. J Oncol 2021;2021:5550116. PMID: 33986802
  • Wang D, Wang L, Han J, Zhang Z et al. Bioinformatics-Based Analysis of the lncRNA-miRNA-mRNA Network and TF Regulatory Network to Explore the Regulation Mechanism in Spinal Cord Ischemia/Reperfusion Injury. Front Genet 2021;12:650180. PMID: 33986769
  • Liu X, Zhang Y, Fu C, Zhang R et al. EnRank: An Ensemble Method to Detect Pulmonary Hypertension Biomarkers Based on Feature Selection and Machine Learning Models. Front Genet 2021;12:636429. PMID: 33986767
  • Adaskaveg JA, Silva CJ, Huang P, Blanco-Ulate B et al. Single and Double Mutations in Tomato Ripening Transcription Factors Have Distinct Effects on Fruit Development and Quality Traits. Front Plant Sci 2021;12:647035. PMID: 33986762
  • Peng Y, Yu H, Jin Y, Qu F et al. Construction and Validation of an Immune Infiltration-Related Gene Signature for the Prediction of Prognosis and Therapeutic Response in Breast Cancer. Front Immunol 2021;12:666137. PMID: 33986754
  • de Koning W, Latifi D, Li Y, van Eijck CHJ et al. Identification, Validation, and Utilization of Immune Cells in Pancreatic Ductal Adenocarcinoma Based on Marker Genes. Front Immunol 2021;12:649061. PMID: 33986743
  • Fukuda K, Shimura C, Miura H, Tanigawa A et al. Regulation of mammalian 3D genome organization and histone H3K9 dimethylation by H3K9 methyltransferases. Commun Biol 2021 May 13;4(1):571. PMID: 33986449
  • Roessler FK, Benedikter BJ, Schmeck B, Bar N et al. Novel computational analysis of large transcriptome datasets identifies sets of genes distinguishing chronic obstructive pulmonary disease from healthy lung samples. Sci Rep 2021 May 13;11(1):10258. PMID: 33986404
  • Wagle MV, Vervoort SJ, Kelly MJ, Van Der Byl W et al. Antigen-driven EGR2 expression is required for exhausted CD8(+) T cell stability and maintenance. Nat Commun 2021 May 13;12(1):2782. PMID: 33986293
  • Liu Z, Sun T, Piao C, Zhang Z et al. METTL13 inhibits progression of clear cell renal cell carcinoma with repression on PI3K/AKT/mTOR/HIF-1α pathway and c-Myc expression. J Transl Med 2021 May 13;19(1):209. PMID: 33985542
  • Liu J, Liu X, Zhang S, Liang S et al. TarDB: an online database for plant miRNA targets and miRNA-triggered phased siRNAs. BMC Genomics 2021 May 13;22(1):348. PMID: 33985427
  • Zhao J, Wang Y, Gao J, Wang Y et al. A nine-gene signature to improve prognosis prediction of colon carcinoma. Cell Cycle 2021 May;20(10):1021-1032. PMID: 33985413
  • Johnson KR, Mallon BS, Fann YC, Chen KG et al. Multivariate meta-analysis reveals global transcriptomic signatures underlying distinct human naive-like pluripotent states. PLoS One 2021;16(5):e0251461. PMID: 33984026
  • Evans JM, Parker HG, Rutteman GR, Plassais J et al. Multi-omics approach identifies germline regulatory variants associated with hematopoietic malignancies in retriever dog breeds. PLoS Genet 2021 May;17(5):e1009543. PMID: 33983928
  • Zhang Y, Li J, Wang HH, Li J et al. Phytohemagglutinin ameliorates HFD-induced obesity by increasing energy expenditure. J Mol Endocrinol 2021 Jun 17;67(1):1-14. PMID: 33983894
  • Kempers L, Wakayama Y, van der Bijl I, Furumaya C et al. The endosomal RIN2/Rab5C machinery prevents VEGFR2 degradation to control gene expression and tip cell identity during angiogenesis. Angiogenesis 2021 Aug;24(3):695-714. PMID: 33983539
  • Zhou X, Zhu X, Yao J, Wang X et al. Comprehensive analysis of clinical prognosis and molecular immune characterization of tropomyosin 4 in pancreatic cancer. Invest New Drugs 2021 Dec;39(6):1469-1483. PMID: 33983530
  • Liu Z, Liu H, Yu D, Gao J et al. Downregulation of miR‑29b‑3p promotes α‑tubulin deacetylation by targeting the interaction of matrix metalloproteinase‑9 with integrin β1 in nasal polyps. Int J Mol Med 2021 Jul;48(1). PMID: 33982786
  • Zhang J, Li Y, Liu Y, Xu G et al. Long non‑coding RNA NEAT1 regulates glioma cell proliferation and apoptosis by competitively binding to microRNA‑324‑5p and upregulating KCTD20 expression. Oncol Rep 2021 Jul;46(1). PMID: 33982764
  • Wang M, Zhong B, Li M, Wang Y et al. Identification of potential core genes and pathways predicting pathogenesis in head and neck squamous cell carcinoma. Biosci Rep 2021 May 28;41(5). PMID: 33982750
  • Chen B, Ramirez-Solano MA, Heiser CN, Liu Q et al. Processing single-cell RNA-seq data for dimension reduction-based analyses using open-source tools. STAR Protoc 2021 Jun 18;2(2):100450. PMID: 33982010
  • Lu T, Xu R, Li Q, Zhao JY et al. Systematic profiling of ferroptosis gene signatures predicts prognostic factors in esophageal squamous cell carcinoma. Mol Ther Oncolytics 2021 Jun 25;21:134-143. PMID: 33981829
  • Hu D, Xiao L, Li S, Hu S et al. Prediction of HF-Related Mortality Risk Using Genetic Risk Score Alone and in Combination With Traditional Risk Factors. Front Cardiovasc Med 2021;8:634966. PMID: 33981732
  • Wang N, Yuan J, Liu F, Wei J et al. NFIB promotes the migration and progression of kidney renal clear cell carcinoma by regulating PINK1 transcription. PeerJ 2021;9:e10848. PMID: 33981484
  • Wang W, Xu SW, Zhu XY, Guo QY et al. Identification and Validation of a Novel RNA-Binding Protein-Related Gene-Based Prognostic Model for Multiple Myeloma. Front Genet 2021;12:665173. PMID: 33981333
  • Verberk SGS, van der Zande HJP, Baardman J, de Goede KE et al. Myeloid ATP Citrate Lyase Regulates Macrophage Inflammatory Responses In Vitro Without Altering Inflammatory Disease Outcomes. Front Immunol 2021;12:669920. PMID: 33981315
  • Jiang M, Sun X, Liu S, Tang Y et al. Caspase-11-Gasdermin D-Mediated Pyroptosis Is Involved in the Pathogenesis of Atherosclerosis. Front Pharmacol 2021;12:657486. PMID: 33981234
  • Zegarra-Ruiz DF, Kim DV, Norwood K, Kim M et al. Thymic development of gut-microbiota-specific T cells. Nature 2021 Jun;594(7863):413-417. PMID: 33981034
  • Stuart WD, Fink-Baldauf IM, Tomoshige K, Guo M et al. CRISPRi-mediated functional analysis of NKX2-1-binding sites in the lung. Commun Biol 2021 May 12;4(1):568. PMID: 33980985
  • Abramov S, Boytsov A, Bykova D, Penzar DD et al. Landscape of allele-specific transcription factor binding in the human genome. Nat Commun 2021 May 12;12(1):2751. PMID: 33980847
  • Li Y, Sheng H, Ma F, Wu Q et al. RNA m(6)A reader YTHDF2 facilitates lung adenocarcinoma cell proliferation and metastasis by targeting the AXIN1/Wnt/β-catenin signaling. Cell Death Dis 2021 May 13;12(5):479. PMID: 33980824
  • Cueto FJ, Del Fresno C, Brandi P, Combes AJ et al. DNGR-1 limits Flt3L-mediated antitumor immunity by restraining tumor-infiltrating type I conventional dendritic cells. J Immunother Cancer 2021 May;9(5). PMID: 33980589
  • Simon M, Mughal SS, Horak P, Uhrig S et al. Deconvolution of sarcoma methylomes reveals varying degrees of immune cell infiltrates with association to genomic aberrations. J Transl Med 2021 May 12;19(1):204. PMID: 33980253
  • Zhu G, Huang H, Xu S, Shi R et al. Prognostic value of ferroptosis-related genes in patients with lung adenocarcinoma. Thorac Cancer 2021 Jun;12(12):1890-1899. PMID: 33979897
  • Mall R, Saad M, Roelands J, Rinchai D et al. Network-based identification of key master regulators associated with an immune-silent cancer phenotype. Brief Bioinform 2021 Nov 5;22(6). PMID: 33979427
  • Wang Z, Li X, Chen H, Han L et al. Decreased HLF Expression Predicts Poor Survival in Lung Adenocarcinoma. Med Sci Monit 2021 May 12;27:e929333. PMID: 33979320
  • Fan K, Moore JE, Zhang XO, Weng Z et al. Genetic and epigenetic features of promoters with ubiquitous chromatin accessibility support ubiquitous transcription of cell-essential genes. Nucleic Acids Res 2021 Jun 4;49(10):5705-5725. PMID: 33978759
  • Fan T, Liu Y, Liu H, Wang L et al. Comprehensive analysis of a chemokine- and chemokine receptor family-based signature for patients with lung adenocarcinoma. Cancer Immunol Immunother 2021 Dec;70(12):3651-3667. PMID: 33977344
  • Shen HF, Zhang WJ, Huang Y, He YH et al. The Dual Function of KDM5C in Both Gene Transcriptional Activation and Repression Promotes Breast Cancer Cell Growth and Tumorigenesis. Adv Sci (Weinh) 2021 May;8(9):2004635. PMID: 33977073
  • Sui Y, Lu K, Fu L et al. Prediction and analysis of novel key genes ITGAX, LAPTM5, SERPINE1 in clear cell renal cell carcinoma through bioinformatics analysis. PeerJ 2021;9:e11272. PMID: 33976979
  • Yang Y, Long X, Li K, Li G et al. Development and validation of an oxidative stress-associated prognostic risk model for melanoma. PeerJ 2021;9:e11258. PMID: 33976978
  • Duan J, Lei Y, Lv G, Liu Y et al. Identification of a novel autophagy signature for predicting survival in patients with lung adenocarcinoma. PeerJ 2021;9:e11074. PMID: 33976960
  • Arvizu Hernández I, Hernández Flores JL, Caballero Pérez J, Gutiérrez Sánchez H et al. Analysis of tRNA (Cys) processing under salt stress in Bacillus subtilis spore outgrowth using RNA sequencing data. F1000Res 2020;9:501. PMID: 33976872
  • Wang G, Zhan T, Li F, Shen J et al. The prediction of survival in Gastric Cancer based on a Robust 13-Gene Signature. J Cancer 2021;12(11):3344-3353. PMID: 33976744
  • Li C, Hou X, Yuan S, Zhang Y et al. High expression of TREM2 promotes EMT via the PI3K/AKT pathway in gastric cancer: bioinformatics analysis and experimental verification. J Cancer 2021;12(11):3277-3290. PMID: 33976737
  • Mijnheer G, Lutter L, Mokry M, van der Wal M et al. Conserved human effector Treg cell transcriptomic and epigenetic signature in arthritic joint inflammation. Nat Commun 2021 May 11;12(1):2710. PMID: 33976194
  • Yang CS, Jividen K, Kamata T, Dworak N et al. Androgen signaling uses a writer and a reader of ADP-ribosylation to regulate protein complex assembly. Nat Commun 2021 May 11;12(1):2705. PMID: 33976187
  • Dejima H, Hu X, Chen R, Zhang J et al. Immune evolution from preneoplasia to invasive lung adenocarcinomas and underlying molecular features. Nat Commun 2021 May 11;12(1):2722. PMID: 33976164
  • Huang Y, Zhang HL, Li ZL, Du T et al. FUT8-mediated aberrant N-glycosylation of B7H3 suppresses the immune response in triple-negative breast cancer. Nat Commun 2021 May 11;12(1):2672. PMID: 33976130
  • Torres Fernández LA, Mitschka S, Ulas T, Weise S et al. The stem cell-specific protein TRIM71 inhibits maturation and activity of the pro-differentiation miRNA let-7 via two independent molecular mechanisms. RNA 2021 May 11;27(7):805-28. PMID: 33975917
  • Huang CF, Lingadahalli S, Morova T, Ozturan D et al. Functional mapping of androgen receptor enhancer activity. Genome Biol 2021 May 11;22(1):149. PMID: 33975627
  • Ma Z, Ahn J et al. Feature-weighted ordinal classification for predicting drug response in multiple myeloma. Bioinformatics 2021 Oct 11;37(19):3270-3276. PMID: 33974007
  • Jakobsson JET, Spjuth O, Lagerström MC et al. scConnect: a method for exploratory analysis of cell-cell communication based on single-cell RNA-sequencing data. Bioinformatics 2021 Oct 25;37(20):3501-3508. PMID: 33974001
  • Gui D, Dong Z, Peng W, Jiang W et al. Ubiquitin-specific peptidase 53 inhibits the occurrence and development of clear cell renal cell carcinoma through NF-κB pathway inactivation. Cancer Med 2021 Jun;10(11):3674-3688. PMID: 33973730
  • Yue E, Tao H, Xu J et al. Genome-wide analysis of microRNA156 and its targets, the genes encoding SQUAMOSA promoter-binding protein-like (SPL) transcription factors, in the grass family Poaceae. J Zhejiang Univ Sci B 2021 May 15;22(5):366-382. PMID: 33973419
  • Soo VWC, Warnecke T et al. Slaying the last unicorn: discovery of histones in the microalga Nanochlorum eucaryotum. R Soc Open Sci 2021 Feb 10;8(2):202023. PMID: 33972876
  • Peng DH, Rodriguez BL, Diao L, Gaudreau PO et al. Th17 cells contribute to combination MEK inhibitor and anti-PD-L1 therapy resistance in KRAS/p53 mutant lung cancers. Nat Commun 2021 May 10;12(1):2606. PMID: 33972557
  • Tsutsui K, Machida H, Nakagawa A, Ahn K et al. Mapping the molecular and structural specialization of the skin basement membrane for inter-tissue interactions. Nat Commun 2021 May 10;12(1):2577. PMID: 33972551
  • Tyler M, Tirosh I et al. Decoupling epithelial-mesenchymal transitions from stromal profiles by integrative expression analysis. Nat Commun 2021 May 10;12(1):2592. PMID: 33972543
  • Harn HI, Wang SP, Lai YC, Van Handel B et al. Symmetry breaking of tissue mechanics in wound induced hair follicle regeneration of laboratory and spiny mice. Nat Commun 2021 May 10;12(1):2595. PMID: 33972536
  • Shin HY, Han KS, Park HW, Hong YH et al. Tumor Spheroids of an Aggressive Form of Central Neurocytoma Have Transit-Amplifying Progenitor Characteristics with Enhanced EGFR and Tumor Stem Cell Signaling. Exp Neurobiol 2021 Apr 30;30(2):120-143. PMID: 33972466
  • Litvinov IV, Xie P, Gunn S, Sasseville D et al. The transcriptional landscape analysis of basal cell carcinomas reveals novel signalling pathways and actionable targets. Life Sci Alliance 2021 Jul;4(7). PMID: 33972406
  • Wang L, He T, Liu J, Tai J et al. Pan-cancer analysis reveals tumor-associated macrophage communication in the tumor microenvironment. Exp Hematol Oncol 2021 May 10;10(1):31. PMID: 33971970
  • Ma C, Zheng H, Kingsford C et al. Exact transcript quantification over splice graphs. Algorithms Mol Biol 2021 May 10;16(1):5. PMID: 33971903
  • Bhattacharya A, Champramary S, Tripathi T, Thakur D et al. Identification of the conserved long non-coding RNAs in myogenesis. BMC Genomics 2021 May 10;22(1):336. PMID: 33971818
  • Shi Y, He Z, Bei L, Tao H et al. High expression of TARP correlates with inferior FLT3 mutations in non-adolescents and young adults with acute myeloid leukaemia. Hematology 2021 Dec;26(1):380-387. PMID: 33971801
  • Li J, Du H, Chen W, Qiu M et al. Identification of potential autophagy-associated lncRNA in prostate cancer. Aging (Albany NY) 2021 May 10;13(9):13153-13165. PMID: 33971627
  • Trinh BQ, Ummarino S, Zhang Y, Ebralidze AK et al. Myeloid lncRNA LOUP mediates opposing regulatory effects of RUNX1 and RUNX1-ETO in t(8;21) AML. Blood 2021 Oct 14;138(15):1331-1344. PMID: 33971010
  • Thurman AL, Ratcliff JA, Chimenti MS, Pezzulo AA et al. Differential gene expression analysis for multi-subject single-cell RNA-sequencing studies with aggregateBioVar. Bioinformatics 2021 Oct 11;37(19):3243-3251. PMID: 33970215
  • Tachiwana H, Dacher M, Maehara K, Harada A et al. Chromatin structure-dependent histone incorporation revealed by a genome-wide deposition assay. Elife 2021 May 10;10. PMID: 33970102
  • Crooke PS 3rd, Tossberg JT, Porter KP, Aune TM et al. Reduced A-to-I editing of endogenous Alu RNAs in lung after SARS-CoV-2 infection. Curr Res Immunol 2021;2:52-59. PMID: 33969287
  • Li Y, Li R, Wang X, Yuan Y et al. A Robust Circular RNA-Associated Three-Gene Prognostic Signature for Patients with Gastric Cancer. Biomed Res Int 2021;2021:6633289. PMID: 33969120
  • Aa N, Lu Y, Yu M, Tang H et al. Plasma Metabolites Alert Patients With Chest Pain to Occurrence of Myocardial Infarction. Front Cardiovasc Med 2021;8:652746. PMID: 33969016
  • Sun L, Zheng W, Liu QD, Ge L et al. Valproic Acid Protects Chondrocytes from LPS-Stimulated Damage via Regulating miR-302d-3p/ITGB4 Axis and Mediating the PI3K-AKT Signaling Pathway. Front Mol Biosci 2021;8:633315. PMID: 33968981
  • Zhan C, Wang Z, Xu C, Huang X et al. Development and Validation of a Prognostic Gene Signature in Clear Cell Renal Cell Carcinoma. Front Mol Biosci 2021;8:609865. PMID: 33968978
  • Wei Y, Gao X, Li A, Liang M et al. Single-Nucleus Transcriptomic Analysis Reveals Important Cell Cross-Talk in Diabetic Kidney Disease. Front Med (Lausanne) 2021;8:657956. PMID: 33968963
  • Yang L, Qin Y, Jian C et al. Screening for Core Genes Related to Pathogenesis of Alzheimer's Disease. Front Cell Dev Biol 2021;9:668738. PMID: 33968940
  • Hwang JY, Nawaz S, Choi J, Wang H et al. Genetic Defects in DNAH2 Underlie Male Infertility With Multiple Morphological Abnormalities of the Sperm Flagella in Humans and Mice. Front Cell Dev Biol 2021;9:662903. PMID: 33968937
  • Li Z, Yu B, Qi F, Li F et al. KIF11 Serves as an Independent Prognostic Factor and Therapeutic Target for Patients With Lung Adenocarcinoma. Front Oncol 2021;11:670218. PMID: 33968780
  • He Y, Liu R, Yang M, Bi W et al. Identification of VWF as a Novel Biomarker in Lung Adenocarcinoma by Comprehensive Analysis. Front Oncol 2021;11:639600. PMID: 33968738
  • Zhou Y, Wang X, Zhang W, Liu H et al. The Immune-Related Gene HCST as a Novel Biomarker for the Diagnosis and Prognosis of Clear Cell Renal Cell Carcinoma. Front Oncol 2021;11:630706. PMID: 33968730
  • Jiang Y, Wang B, Li Y, Shen J et al. DDX19A Promotes Metastasis of Cervical Squamous Cell Carcinoma by Inducing NOX1-Mediated ROS Production. Front Oncol 2021;11:629974. PMID: 33968728
  • Yang B, Xie J, Li Z, Su D et al. Seven-gene signature on tumor microenvironment for predicting the prognosis of patients with pancreatic cancer. Gland Surg 2021 Apr;10(4):1397-1409. PMID: 33968691
  • Huang H, Tang Y, Li P, Ye X et al. Significance of TP53 and immune-related genes to prostate cancer. Transl Androl Urol 2021 Apr;10(4):1754-1768. PMID: 33968663
  • Kadkhoda S, Darbeheshti F, Rezaei N, Azizi-Tabesh G et al. Investigation of circRNA-miRNA-mRNA network in colorectal cancer using an integrative bioinformatics approach. Gastroenterol Hepatol Bed Bench 2021 Spring;14(2):141-153. PMID: 33968341
  • Zhang J, Gao J, Lin D, Xiong J et al. Potential Networks Regulated by MSCs in Acute-On-Chronic Liver Failure: Exosomal miRNAs and Intracellular Target Genes. Front Genet 2021;12:650536. PMID: 33968135
  • Wei M, Xu J, Hua J, Meng Q et al. From the Immune Profile to the Immunoscore: Signatures for Improving Postsurgical Prognostic Prediction of Pancreatic Neuroendocrine Tumors. Front Immunol 2021;12:654660. PMID: 33968055
  • Li B, Dou Z, Zhang L, Zhu L et al. Ghrelin Alleviates Intestinal Dysfunction in Sepsis Through the KLF4/MMP2 Regulatory Axis by Activating SIRT1. Front Immunol 2021;12:646775. PMID: 33968038
  • Liu Z, Chen X, Roberts R, Huang R et al. Unraveling Gene Fusions for Drug Repositioning in High-Risk Neuroblastoma. Front Pharmacol 2021;12:608778. PMID: 33967751
  • Yang X, Cao JL, Yang FN, Li XF et al. Decreased expression of CLCA2 and the correlating with immune infiltrates in patients with cervical squamous cell carcinoma: A bioinformatics analysis. Taiwan J Obstet Gynecol 2021 May;60(3):480-486. PMID: 33966732
  • Di Giorgio E, Paluvai H, Dalla E, Ranzino L et al. HDAC4 degradation during senescence unleashes an epigenetic program driven by AP-1/p300 at selected enhancers and super-enhancers. Genome Biol 2021 May 10;22(1):129. PMID: 33966634
  • Satyananda V, Oshi M, Endo I, Takabe K et al. High BRCA2 Gene Expression is Associated with Aggressive and Highly Proliferative Breast Cancer. Ann Surg Oncol 2021 Nov;28(12):7356-7365. PMID: 33966140
  • Denkena J, Johannes F, Colomé-Tatché M et al. Region-level epimutation rates in Arabidopsis thaliana. Heredity (Edinb) 2021 Aug;127(2):190-202. PMID: 33966050
  • Gu SY, Cao XJ, Feng Y, Wei QQ et al. Identification of hub genes and signaling pathways related to gastric cells infected by Helicobacter pylori. Microb Pathog 2021 Jul;156:104932. PMID: 33964417
  • Al-Natour B, Rankin R, McKenna R, McMillan H et al. Identification and validation of novel biomarkers and therapeutics for pulpitis using connectivity mapping. Int Endod J 2021 Sep;54(9):1571-1580. PMID: 33964033
  • Brannan KW, Chaim IA, Marina RJ, Yee BA et al. Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes. Nat Methods 2021 May;18(5):507-519. PMID: 33963355
  • Jang HR, Shin SB, Kim CH, Won JY et al. PLK1/vimentin signaling facilitates immune escape by recruiting Smad2/3 to PD-L1 promoter in metastatic lung adenocarcinoma. Cell Death Differ 2021 Sep;28(9):2745-2764. PMID: 33963314
  • Li Y, Wang Z, Wu X, Wang G et al. Intestinal mucosa-derived DNA methylation signatures in the penetrating intestinal mucosal lesions of Crohn's disease. Sci Rep 2021 May 7;11(1):9771. PMID: 33963246
  • Pulukool SK, Bhagavatham SKS, Kannan V, Sukumar P et al. Elevated dimethylarginine, ATP, cytokines, metabolic remodeling involving tryptophan metabolism and potential microglial inflammation characterize primary open angle glaucoma. Sci Rep 2021 May 7;11(1):9766. PMID: 33963197
  • Shen J, Varshney D, Simeone A, Zhang X et al. Promoter G-quadruplex folding precedes transcription and is controlled by chromatin. Genome Biol 2021 May 7;22(1):143. PMID: 33962653
  • Sun X, Zhou Z, Zhang Y, Wang J et al. Identification and validation of a hypoxia-related prognostic and immune microenvironment signature in bladder cancer. Cancer Cell Int 2021 May 7;21(1):251. PMID: 33962639
  • Dai ZT, Xiang Y, Wang Y, Bao LY et al. Prognostic value of members of NFAT family for pan-cancer and a prediction model based on NFAT2 in bladder cancer. Aging (Albany NY) 2021 May 7;13(10):13876-13897. PMID: 33962392
  • Fang Z, Kim HG, Huang M, Chowdhury K et al. Sestrin Proteins Protect Against Lipotoxicity-Induced Oxidative Stress in the Liver via Suppression of C-Jun N-Terminal Kinases. Cell Mol Gastroenterol Hepatol 2021;12(3):921-942. PMID: 33962074
  • Hu J, Wang J, Li C, Shang Y et al. Fructose-1,6-bisphosphatase aggravates oxidative stress-induced apoptosis in asthma by suppressing the Nrf2 pathway. J Cell Mol Med 2021 Jun;25(11):5001-5014. PMID: 33960626
  • Hara A, Kato K, Ishihara T, Kobayashi H et al. Meflin defines mesenchymal stem cells and/or their early progenitors with multilineage differentiation capacity. Genes Cells 2021 Jul;26(7):495-512. PMID: 33960573
  • Davies P, Jones M, Liu J, Hebenstreit D et al. Anti-bias training for (sc)RNA-seq: experimental and computational approaches to improve precision. Brief Bioinform 2021 Nov 5;22(6). PMID: 33959753
  • Liu Z, Chen Y, Pan T, Liu J et al. Comprehensive Analysis of Common Different Gene Expression Signatures in the Neutrophils of Sepsis. Biomed Res Int 2021;2021:6655425. PMID: 33959663
  • Zhang Y, Yang F, Peng X, Li X et al. Hypoxia Constructing the Prognostic Model of Colorectal Adenocarcinoma and Related to the Immune Microenvironment. Front Cell Dev Biol 2021;9:665364. PMID: 33959617
  • Liu B, Wang Z, Gu M, Zhao C et al. GEO Data Mining Identifies OLR1 as a Potential Biomarker in NSCLC Immunotherapy. Front Oncol 2021;11:629333. PMID: 33959497
  • Tognacca RS, Carabelli M, Morelli G, Ruberti I et al. ATHB2 is a negative regulator of germination in Arabidopsis thaliana seeds. Sci Rep 2021 May 6;11(1):9688. PMID: 33958633
  • Tiago T, Hummel B, Morelli FF, Basile V et al. Small heat-shock protein HSPB3 promotes myogenesis by regulating the lamin B receptor. Cell Death Dis 2021 May 6;12(5):452. PMID: 33958580
  • Zhang L, Richards A, Barrasa MI, Hughes SH et al. Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues. Proc Natl Acad Sci U S A 2021 May 25;118(21). PMID: 33958444
  • Baduel P, Leduque B, Ignace A, Gy I et al. Genetic and environmental modulation of transposition shapes the evolutionary potential of Arabidopsis thaliana. Genome Biol 2021 May 6;22(1):138. PMID: 33957946
  • Wang Z, Butel N, Santos-González J, Simon L et al. Transgenerational effect of mutants in the RNA-directed DNA methylation pathway on the triploid block in Arabidopsis. Genome Biol 2021 May 6;22(1):141. PMID: 33957942
  • Xu Y, Zhang Y, Lopez IA, Hilbers J et al. Identification of a genetic variant underlying familial cases of recurrent benign paroxysmal positional vertigo. PLoS One 2021;16(5):e0251386. PMID: 33956893
  • Chowdhury UN, Ahmad S, Islam MB, Alyami SA et al. System biology and bioinformatics pipeline to identify comorbidities risk association: Neurodegenerative disorder case study. PLoS One 2021;16(5):e0250660. PMID: 33956862
  • Zhou D, Wang M, Zhang Y, Wang K et al. Screening and identification of LMNB1 and DLGAP5, two key biomarkers in gliomas. Biosci Rep 2021 May 28;41(5). PMID: 33956061
  • Pacharne S, Dovey OM, Cooper JL, Gu M et al. SETBP1 overexpression acts in the place of class-defining mutations to drive FLT3-ITD-mutant AML. Blood Adv 2021 May 11;5(9):2412-2425. PMID: 33956058
  • Singh R, Demetci P, Bonora G, Ramani V et al. Unsupervised manifold alignment for single-cell multi-omics data. ACM BCB 2020 Sep;2020:1-10. PMID: 33954299
  • Xu X, Chen D, Feng X, Hu J et al. Apolipoprotein B Is Associated With the Microenvironment of Cholangiocarcinoma. Front Oncol 2021;11:654689. PMID: 33954113
  • Xu Z, Xu L, Liu L, Li H et al. A Glycolysis-Related Five-Gene Signature Predicts Biochemical Recurrence-Free Survival in Patients With Prostate Adenocarcinoma. Front Oncol 2021;11:625452. PMID: 33954109
  • Ebrahimpour Gorji A, Roudbari Z, Ebrahimpour Gorji F, Sadeghi B et al. Computational study of zebrafish immune-targeted microarray data for prediction of preventive drug candidates. Vet Res Forum 2021 Winter;12(1):87-93. PMID: 33953878
  • Dai B, Jiang J et al. Increased miR-188-3p in Ovarian Granulosa Cells of Patients with Polycystic Ovary Syndrome. Comput Math Methods Med 2021;2021:5587412. PMID: 33953792
  • Zhao ZJ, Wei DP, Zheng RZ, Peng T et al. The Gene Coexpression Analysis Identifies Functional Modules Dynamically Changed After Traumatic Brain Injury. Comput Math Methods Med 2021;2021:5511598. PMID: 33953790
  • Gao J, Liu R, Feng D, Huang W et al. Snail/PRMT5/NuRD complex contributes to DNA hypermethylation in cervical cancer by TET1 inhibition. Cell Death Differ 2021 Sep;28(9):2818-2836. PMID: 33953349
  • Venkatesh I, Mehra V, Wang Z, Simpson MT et al. Co-occupancy identifies transcription factor co-operation for axon growth. Nat Commun 2021 May 5;12(1):2555. PMID: 33953205
  • Goncalves A, Finetti P, Birnbaum D, Bertucci F et al. The CINSARC signature predicts the clinical outcome in patients with Luminal B breast cancer. NPJ Breast Cancer 2021 May 5;7(1):48. PMID: 33953185
  • Youlten SE, Kemp JP, Logan JG, Ghirardello EJ et al. Osteocyte transcriptome mapping identifies a molecular landscape controlling skeletal homeostasis and susceptibility to skeletal disease. Nat Commun 2021 May 5;12(1):2444. PMID: 33953184
  • Wu F, Fan J, He Y, Xiong A et al. Single-cell profiling of tumor heterogeneity and the microenvironment in advanced non-small cell lung cancer. Nat Commun 2021 May 5;12(1):2540. PMID: 33953163
  • Pollara G, Turner CT, Rosenheim J, Chandran A et al. Exaggerated IL-17A activity in human in vivo recall responses discriminates active tuberculosis from latent infection and cured disease. Sci Transl Med 2021 May 5;13(592). PMID: 33952677
  • Liu H, Qin G, Ji Y, Wang X et al. Potential role of m6A RNA methylation regulators in osteosarcoma and its clinical prognostic value. J Orthop Surg Res 2021 May 5;16(1):294. PMID: 33952279
  • Deane CS, Willis CRG, Phillips BE, Atherton PJ et al. Transcriptomic meta-analysis of disuse muscle atrophy vs. resistance exercise-induced hypertrophy in young and older humans. J Cachexia Sarcopenia Muscle 2021 Jun;12(3):629-645. PMID: 33951310
  • Sheng LP, Han CQ, Nie C, Xu T et al. Identification of potential serum exosomal microRNAs involved in acinar-ductal metaplasia that is a precursor of pancreatic cancer associated with chronic pancreatitis. Medicine (Baltimore) 2021 May 7;100(18):e25753. PMID: 33950960
  • Català-Moll F, Ferreté-Bonastre AG, Li T, Weichenhan D et al. Activation-induced deaminase is critical for the establishment of DNA methylation patterns prior to the germinal center reaction. Nucleic Acids Res 2021 May 21;49(9):5057-5073. PMID: 33950194
  • Jiang PF, Zhang XJ, Song CY, Zhang YX et al. S100P acts as a target of miR-495 in pancreatic cancer through bioinformatics analysis and experimental verification. Kaohsiung J Med Sci 2021 Jul;37(7):562-571. PMID: 33949774
  • Li C, Liu T, Liu Y, Zhang J et al. Prognostic value of tumour microenvironment-related genes by TCGA database in rectal cancer. J Cell Mol Med 2021 Jun;25(12):5811-5822. PMID: 33949771
  • Zhang X, Cui Y, Ding X, Liu S et al. Analysis of mRNA‑lncRNA and mRNA‑lncRNA-pathway co‑expression networks based on WGCNA in developing pediatric sepsis. Bioengineered 2021 Dec;12(1):1457-1470. PMID: 33949285
  • Li X, Liu C, Zhu Y, Rao H et al. SETD2 epidermal deficiency promotes cutaneous wound healing via activation of AKT/mTOR Signalling. Cell Prolif 2021 Jun;54(6):e13045. PMID: 33949020
  • Pinsach-Abuin ML, Del Olmo B, Pérez-Agustin A, Mates J et al. Analysis of Brugada syndrome loci reveals that fine-mapping clustered GWAS hits enhances the annotation of disease-relevant variants. Cell Rep Med 2021 Apr 20;2(4):100250. PMID: 33948580
  • Zhang Y, Di X, Chen G, Liu J et al. An immune-related signature that to improve prognosis prediction of breast cancer. Am J Cancer Res 2021;11(4):1267-1285. PMID: 33948357
  • Vignolo SM, Diray-Arce J, McEnaney K, Rao S et al. A cloud-based bioinformatic analytic infrastructure and Data Management Core for the Expanded Program on Immunization Consortium. J Clin Transl Sci 2020 Sep 22;5(1):e52. PMID: 33948273
  • Franciosa G, Smits JGA, Minuzzo S, Martinez-Val A et al. Proteomics of resistance to Notch1 inhibition in acute lymphoblastic leukemia reveals targetable kinase signatures. Nat Commun 2021 May 4;12(1):2507. PMID: 33947863
  • Liu B, Zhou M, Li X, Zhang X et al. Interrogation of gender disparity uncovers androgen receptor as the transcriptional activator for oncogenic miR-125b in gastric cancer. Cell Death Dis 2021 May 4;12(5):441. PMID: 33947843
  • Börcsök J, Diossy M, Sztupinszki Z, Prosz A et al. Detection of Molecular Signatures of Homologous Recombination Deficiency in Bladder Cancer. Clin Cancer Res 2021 Jul 1;27(13):3734-3743. PMID: 33947694
  • Zhang X, Shetty M, Clemente V, Linder S et al. Targeting Mitochondrial Metabolism in Clear Cell Carcinoma of the Ovaries. Int J Mol Sci 2021 Apr 29;22(9). PMID: 33947138
  • Choueiry F, Singh S, Sircar A, Laliotis G et al. Integration of Metabolomics and Gene Expression Profiling Elucidates IL4I1 as Modulator of Ibrutinib Resistance in ABC-Diffuse Large B Cell Lymphoma. Cancers (Basel) 2021 Apr 29;13(9). PMID: 33946867
  • Zhang Y, Tang Y, Guo C, Li G et al. Integrative analysis identifies key mRNA biomarkers for diagnosis, prognosis, and therapeutic targets of HCV-associated hepatocellular carcinoma. Aging (Albany NY) 2021 May 4;13(9):12865-12895. PMID: 33946043
  • Ackerman WE 4th, Buhimschi CS, Snedden A, Summerfield TL et al. Molecular signatures of labor and nonlabor myometrium with parsimonious classification from 2 calcium transporter genes. JCI Insight 2021 Jun 8;6(11). PMID: 33945511
  • Poulsen KL, Fan X, Kibler CD, Huang E et al. Role of MIF in coordinated expression of hepatic chemokines in patients with alcohol-associated hepatitis. JCI Insight 2021 Jun 8;6(11). PMID: 33945507
  • Liu J, Deng Y, Wang Z, Mo B et al. A nonsynonymous polymorphism (rs117179004, T392M) of hyaluronidase 1 (HYAL1) is associated with increased risk of idiopathic pulmonary fibrosis in Southern Han Chinese. J Clin Lab Anal 2021 Jun;35(6):e23782. PMID: 33942374
  • Xiong C, Wang Z, Wang G, Zhang C et al. Identification of CDC20 as an immune infiltration-correlated prognostic biomarker in hepatocellular carcinoma. Invest New Drugs 2021 Oct;39(5):1439-1453. PMID: 33942202
  • Garry GA, Bezprozvannaya S, Chen K, Zhou H et al. The histone reader PHF7 cooperates with the SWI/SNF complex at cardiac super enhancers to promote direct reprogramming. Nat Cell Biol 2021 May;23(5):467-475. PMID: 33941892
  • Verginelli F, Pisacane A, Gambardella G, D'Ambrosio A et al. Cancer of unknown primary stem-like cells model multi-organ metastasis and unveil liability to MEK inhibition. Nat Commun 2021 May 3;12(1):2498. PMID: 33941777
  • Do VH, Canzar S et al. A generalization of t-SNE and UMAP to single-cell multimodal omics. Genome Biol 2021 May 3;22(1):130. PMID: 33941244
  • Kovalak C, Donovan S, Bicknell AA, Metkar M et al. Deep sequencing of pre-translational mRNPs reveals hidden flux through evolutionarily conserved alternative splicing nonsense-mediated decay pathways. Genome Biol 2021 May 3;22(1):132. PMID: 33941243
  • Singh R, Hie BL, Narayan A, Berger B et al. Schema: metric learning enables interpretable synthesis of heterogeneous single-cell modalities. Genome Biol 2021 May 3;22(1):131. PMID: 33941239
  • Yang Y, Xu X et al. Bioinformatic identification of hub genes and related transcription factors in low shear stress treated endothelial cells. BMC Med Genomics 2021 May 3;14(1):120. PMID: 33941187
  • Zhao C, Zhou Y, Ma H, Wang J et al. A four-hypoxia-genes-based prognostic signature for oral squamous cell carcinoma. BMC Oral Health 2021 May 3;21(1):232. PMID: 33941139
  • Wilfinger WW, Miller R, Eghbalnia HR, Mackey K et al. Strategies for detecting and identifying biological signals amidst the variation commonly found in RNA sequencing data. BMC Genomics 2021 May 3;22(1):322. PMID: 33941086
  • Hanaki S, Habara M, Masaki T, Maeda K et al. PP1 regulatory subunit NIPP1 regulates transcription of E2F1 target genes following DNA damage. Cancer Sci 2021 Jul;112(7):2739-2752. PMID: 33939241
  • Deng X, Iwagawa T, Fukushima M, Suzuki Y et al. Setd1a Plays Pivotal Roles for the Survival and Proliferation of Retinal Progenitors via Histone Modifications of Uhrf1. Invest Ophthalmol Vis Sci 2021 May 3;62(6):1. PMID: 33938913
  • Dong X, Tian L, Gouil Q, Kariyawasam H et al. The long and the short of it: unlocking nanopore long-read RNA sequencing data with short-read differential expression analysis tools. NAR Genom Bioinform 2021 Jun;3(2):lqab028. PMID: 33937765
  • Maden SK, Thompson RF, Hansen KD, Nellore A et al. Human methylome variation across Infinium 450K data on the Gene Expression Omnibus. NAR Genom Bioinform 2021 Jun;3(2):lqab025. PMID: 33937763
  • Zhang Y, Lu W, Chen X, Cao Y et al. A Bioinformatic Analysis of Correlations between Polymeric Immunoglobulin Receptor (PIGR) and Liver Fibrosis Progression. Biomed Res Int 2021;2021:5541780. PMID: 33937393
  • Qian H, Lei T, Hu Y, Lei P et al. Expression of Lipid-Metabolism Genes Is Correlated With Immune Microenvironment and Predicts Prognosis in Osteosarcoma. Front Cell Dev Biol 2021;9:673827. PMID: 33937273
  • Gu Y, Niu X, Yin L, Wang Y et al. Enhancing Fatty Acid Catabolism of Macrophages Within Aberrant Breast Cancer Tumor Microenvironment Can Re-establish Antitumor Function. Front Cell Dev Biol 2021;9:665869. PMID: 33937269
  • Shen H, Huang C, Wu J, Li J et al. SCRIB Promotes Proliferation and Metastasis by Targeting Hippo/YAP Signalling in Colorectal Cancer. Front Cell Dev Biol 2021;9:656359. PMID: 33937255
  • Borisov N, Sergeeva A, Suntsova M, Raevskiy M et al. Machine Learning Applicability for Classification of PAD/VCD Chemotherapy Response Using 53 Multiple Myeloma RNA Sequencing Profiles. Front Oncol 2021;11:652063. PMID: 33937058
  • Yang X, Cheng QN, Wu JF, Ai WB et al. Analysis of key genes and related transcription factors in liver fibrosis based on bioinformatic technology. Int J Clin Exp Pathol 2021;14(4):444-454. PMID: 33936366
  • Jia S, Li L, Xie L, Zhang W et al. Transcriptome Based Estrogen Related Genes Biomarkers for Diagnosis and Prognosis in Non-small Cell Lung Cancer. Front Genet 2021;12:666396. PMID: 33936178
  • Fu K, Li Y, Song J, Cai W et al. Identification of a MicroRNA Signature Associated With Lymph Node Metastasis in Endometrial Endometrioid Cancer. Front Genet 2021;12:650102. PMID: 33936173
  • Wang HC, Chiang CJ, Liu TC, Wu CC et al. Immunohistochemical Expression of Five Protein Combinations Revealed as Prognostic Markers in Asian Oral Cancer. Front Genet 2021;12:643461. PMID: 33936170
  • Zhao X, Yao H, Li X et al. Unearthing of Key Genes Driving the Pathogenesis of Alzheimer's Disease via Bioinformatics. Front Genet 2021;12:641100. PMID: 33936168
  • Wang T, Guo Y, Liu S, Zhang C et al. KLF4, a Key Regulator of a Transitive Triplet, Acts on the TGF-β Signaling Pathway and Contributes to High-Altitude Adaptation of Tibetan Pigs. Front Genet 2021;12:628192. PMID: 33936161
  • Yi P, Xu X, Yao J, Qiu B et al. Analysis of mRNA Expression and DNA Methylation Datasets According to the Genomic Distribution of CpG Sites in Osteoarthritis. Front Genet 2021;12:618803. PMID: 33936160
  • Patro CPK, Nousome D, Glioma International Case Control Study (GICC), Lai RK et al. Meta-Analyses of Splicing and Expression Quantitative Trait Loci Identified Susceptibility Genes of Glioma. Front Genet 2021;12:609657. PMID: 33936159
  • Liu J, Wei Y, Wu Y, Li J et al. ATP2C2 Has Potential to Define Tumor Microenvironment in Breast Cancer. Front Immunol 2021;12:657950. PMID: 33936088
  • Qi F, Zhang W, Huang J, Fu L et al. Single-Cell RNA Sequencing Analysis of the Immunometabolic Rewiring and Immunopathogenesis of Coronavirus Disease 2019. Front Immunol 2021;12:651656. PMID: 33936072
  • Akiyama M, Suzuki K, Yoshimoto K, Yasuoka H et al. Peripheral TIGIT+ T Follicular Helper Cells That Produce High Levels of Interleukin-21 via OX40 Represent Disease Activity in IgG4-Related Disease. Front Immunol 2021;12:651357. PMID: 33936071
  • Leal-Calvo T, Martins BL, Bertoluci DF, Rosa PS et al. Large-Scale Gene Expression Signatures Reveal a Microbicidal Pattern of Activation in Mycobacterium leprae-Infected Monocyte-Derived Macrophages With Low Multiplicity of Infection. Front Immunol 2021;12:647832. PMID: 33936067
  • Xu L, Ge F, Hu Y, Yu Y et al. Sevoflurane Postconditioning Attenuates Hepatic Ischemia-Reperfusion Injury by Limiting HMGB1/TLR4/NF-κB Pathway via Modulating microRNA-142 in vivo and in vitro. Front Pharmacol 2021;12:646307. PMID: 33935744
  • Wang J, Yu P, Luo J, Sun Z et al. Transcriptomic and microRNA Expression Profiles Identify Biomarkers for Predicting Neo-Chemoradiotherapy Response in Esophageal Squamous Cell Carcinomas (ESCC). Front Pharmacol 2021;12:626972. PMID: 33935718
  • Lucas-Dominguez R, Alonso-Arroyo A, Vidal-Infer A, Aleixandre-Benavent R et al. The sharing of research data facing the COVID-19 pandemic. Scientometrics 2021;126(6):4975-4990. PMID: 33935332
  • Zhang Y, Qiu J, Zuo D, Yuan Y et al. SNRPC promotes hepatocellular carcinoma cell motility by inducing epithelial-mesenchymal transition. FEBS Open Bio 2021 Jun;11(6):1757-1770. PMID: 33934562
  • Wang Z, Pan L, Guo D, Luo X et al. A novel five-gene signature predicts overall survival of patients with hepatocellular carcinoma. Cancer Med 2021 Jun;10(11):3808-3821. PMID: 33934539
  • Zhou L, Li SH, Wu Y, Xin L et al. Establishment of a prognostic model of four genes in gastric cancer based on multiple data sets. Cancer Med 2021 May;10(10):3309-3322. PMID: 33934516
  • Sultan M, Nearing JT, Brown JM, Huynh TT et al. An in vivo genome-wide shRNA screen identifies BCL6 as a targetable biomarker of paclitaxel resistance in breast cancer. Mol Oncol 2021 Aug;15(8):2046-2064. PMID: 33932086
  • Miao L, Zhuo Z, Tang J, Huang X et al. FABP4 deactivates NF-κB-IL1α pathway by ubiquitinating ATPB in tumor-associated macrophages and promotes neuroblastoma progression. Clin Transl Med 2021 Apr;11(4):e395. PMID: 33931964
  • Zheng Y, Huang G, Silva TC, Yang Q et al. A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes. Nat Commun 2021 Apr 30;12(1):2485. PMID: 33931649
  • Huang FY, Wong DK, Seto WK, Mak LY et al. Tumor suppressive role of mitochondrial sirtuin 4 in induction of G2/M cell cycle arrest and apoptosis in hepatitis B virus-related hepatocellular carcinoma. Cell Death Discov 2021 Apr 30;7(1):88. PMID: 33931611
  • Han C, Li H, Ma Z, Dong G et al. MIR99AHG is a noncoding tumor suppressor gene in lung adenocarcinoma. Cell Death Dis 2021 Apr 30;12(5):424. PMID: 33931593
  • Yang R, Wang M, Zhang G, Li Y et al. POU2F2 regulates glycolytic reprogramming and glioblastoma progression via PDPK1-dependent activation of PI3K/AKT/mTOR pathway. Cell Death Dis 2021 Apr 30;12(5):433. PMID: 33931589
  • Xu L, Chen Y, Huang Y, Sandanaraj E et al. Topography of transcriptionally active chromatin in glioblastoma. Sci Adv 2021 Apr;7(18). PMID: 33931443
  • Zhu C, Dixon KO, Newcomer K, Gu G et al. Tim-3 adaptor protein Bat3 is a molecular checkpoint of T cell terminal differentiation and exhaustion. Sci Adv 2021 Apr;7(18). PMID: 33931442
  • Morgani SM, Su J, Nichols J, Massagué J et al. The transcription factor Rreb1 regulates epithelial architecture, invasiveness, and vasculogenesis in early mouse embryos. Elife 2021 Apr 30;10. PMID: 33929320
  • Zhou Y, Mu T et al. LncRNA LINC00958 promotes tumor progression through miR-4306/CEMIP axis in osteosarcoma. Eur Rev Med Pharmacol Sci 2021 Apr;25(8):3182-3199. PMID: 33928604
  • Yu S, Hu Q, Fan K, Yang C et al. CSNK2B contributes to colorectal cancer cell proliferation by activating the mTOR signaling. J Cell Commun Signal 2021 Sep;15(3):383-392. PMID: 33928514
  • Zhou Y, Zhou YN, Liu SX, Wang J et al. Effects of PIM3 in prognosis of colon cancer. Clin Transl Oncol 2021 Oct;23(10):2163-2170. PMID: 33928496
  • Tian S, Wang C, Suarez-Farinas M et al. GEE-TGDR: A Longitudinal Feature Selection Algorithm and Its Application to lncRNA Expression Profiles for Psoriasis Patients Treated with Immune Therapies. Biomed Res Int 2021;2021:8862895. PMID: 33928163
  • Ou Y, Deng Y, Wang H, Zhang Q et al. Targeting Antisense lncRNA PRKAG2-AS1, as a Therapeutic Target, Suppresses Malignant Behaviors of Hepatocellular Carcinoma Cells. Front Med (Lausanne) 2021;8:649279. PMID: 33928106
  • Huang Z, Pan J, Wang H, Du X et al. Prognostic Significance and Tumor Immune Microenvironment Heterogenicity of m5C RNA Methylation Regulators in Triple-Negative Breast Cancer. Front Cell Dev Biol 2021;9:657547. PMID: 33928086
  • Li Z, Zhu G, Zhou C, Wang H et al. Transcriptome-Wide Gene Expression in a Murine Model of Ventilator-Induced Lung Injury. Dis Markers 2021;2021:5535890. PMID: 33927789
  • Lee SK, Hong WJ, Silva J, Kim EJ et al. Global Identification of ANTH Genes Involved in Rice Pollen Germination and Functional Characterization of a Key Member, OsANTH3. Front Plant Sci 2021;12:609473. PMID: 33927731
  • Gui Z, Suo C, Wang Z, Zheng M et al. Impaired ATG16L-Dependent Autophagy Promotes Renal Interstitial Fibrosis in Chronic Renal Graft Dysfunction Through Inducing EndMT by NF-κB Signal Pathway. Front Immunol 2021;12:650424. PMID: 33927720
  • Cai C, Chen DZ, Tu HX, Chen WK et al. MicroRNA-29c Acting on FOS Plays a Significant Role in Nonalcoholic Steatohepatitis Through the Interleukin-17 Signaling Pathway. Front Physiol 2021;12:597449. PMID: 33927635
  • Wang T, Dong J, Yuan X, Wen H et al. A New Chalcone Derivative C49 Reverses Doxorubicin Resistance in MCF-7/DOX Cells by Inhibiting P-Glycoprotein Expression. Front Pharmacol 2021;12:653306. PMID: 33927626
  • Marinov GK, Trevino AE, Xiang T, Kundaje A et al. Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum. Nat Genet 2021 May;53(5):613-617. PMID: 33927397
  • Flamini S, Sergeev P, Viana de Barros Z, Mello T et al. Glucocorticoid-induced leucine zipper regulates liver fibrosis by suppressing CCL2-mediated leukocyte recruitment. Cell Death Dis 2021 Apr 29;12(5):421. PMID: 33927191
  • Yan Z, Chu L, Jia X, Lin L et al. Myelin basic protein enhances axonal regeneration from neural progenitor cells. Cell Biosci 2021 Apr 29;11(1):80. PMID: 33926552
  • Kim H, Kang Y, Li Y, Chen L et al. Ten-eleven translocation protein 1 modulates medulloblastoma progression. Genome Biol 2021 Apr 29;22(1):125. PMID: 33926529
  • Song D, Li JJ et al. PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data. Genome Biol 2021 Apr 29;22(1):124. PMID: 33926517
  • Aure MR, Fleischer T, Bjørklund S, Ankill J et al. Crosstalk between microRNA expression and DNA methylation drives the hormone-dependent phenotype of breast cancer. Genome Med 2021 Apr 29;13(1):72. PMID: 33926515
  • Huo J, Wu L, Zang Y et al. Eleven immune-gene pairs signature associated with TP53 predicting the overall survival of gastric cancer: a retrospective analysis of large sample and multicenter from public database. J Transl Med 2021 Apr 29;19(1):183. PMID: 33926488
  • Li J, Ge Z et al. High HSPA8 expression predicts adverse outcomes of acute myeloid leukemia. BMC Cancer 2021 Apr 29;21(1):475. PMID: 33926391
  • Panebianco C, Trivieri N, Villani A, Terracciano F et al. Improving Gemcitabine Sensitivity in Pancreatic Cancer Cells by Restoring miRNA-217 Levels. Biomolecules 2021 Apr 26;11(5). PMID: 33925948
  • Cabañas Morafraile E, Pérez-Peña J, Fuentes-Antrás J, Manzano A et al. Genomic Correlates of DNA Damage in Breast Cancer Subtypes. Cancers (Basel) 2021 Apr 27;13(9). PMID: 33925616
  • Anuraga G, Tang WC, Phan NN, Ta HDK et al. Comprehensive Analysis of Prognostic and Genetic Signatures for General Transcription Factor III (GTF3) in Clinical Colorectal Cancer Patients Using Bioinformatics Approaches. Curr Issues Mol Biol 2021 Apr 27;43(1):2-20. PMID: 33925358
  • Ribeiro-Dantas MDC, Oliveira Imparato D, Dalmolin MGS, de Farias CB et al. Reverse Engineering of Ewing Sarcoma Regulatory Network Uncovers PAX7 and RUNX3 as Master Regulators Associated with Good Prognosis. Cancers (Basel) 2021 Apr 13;13(8). PMID: 33924679
  • Madeira A, Serena C, Ejarque M, Maymó-Masip E et al. Crohn's Disease Increases the Mesothelial Properties of Adipocyte Progenitors in the Creeping Fat. Int J Mol Sci 2021 Apr 20;22(8). PMID: 33924264
  • Narasimhan A, Zhong X, Au EP, Ceppa EP et al. Profiling of Adipose and Skeletal Muscle in Human Pancreatic Cancer Cachexia Reveals Distinct Gene Profiles with Convergent Pathways. Cancers (Basel) 2021 Apr 20;13(8). PMID: 33923976
  • Fuhrmann L, Lindner S, Hauser AT, Höse C et al. Effects of Environmental Conditions on Nephron Number: Modeling Maternal Disease and Epigenetic Regulation in Renal Development. Int J Mol Sci 2021 Apr 16;22(8). PMID: 33923831
  • Caudai C, Zoppè M, Tonazzini A, Merelli I et al. Integration of Multiple Resolution Data in 3D Chromatin Reconstruction Using ChromStruct. Biology (Basel) 2021 Apr 16;10(4). PMID: 33923796
  • Hovenga V, Oluwadare O et al. CBCR: A Curriculum Based Strategy For Chromosome Reconstruction. Int J Mol Sci 2021 Apr 16;22(8). PMID: 33923653
  • Xiao T, Luo Z, Guo Z, Wang X et al. Multiple Roles of Black Raspberry Anthocyanins Protecting against Alcoholic Liver Disease. Molecules 2021 Apr 16;26(8). PMID: 33923467
  • Chen W, Zhang J, Fu H, Hou X et al. KLF5 Is Activated by Gene Amplification in Gastric Cancer and Is Essential for Gastric Cell Proliferation. Cells 2021 Apr 24;10(5). PMID: 33923166
  • Crespo-Garcia S, Reichhart N, Kociok N, Skosyrski S et al. Anti-Inflammatory Role of Netrin-4 in Diabetic Retinopathy. Int J Mol Sci 2021 Apr 25;22(9). PMID: 33923095
  • Lan Y, Li M, Mi S et al. Identification of Potential Key lncRNAs in the Context of Mouse Myeloid Differentiation by Systematic Transcriptomics Analysis. Genes (Basel) 2021 Apr 23;12(5). PMID: 33922442
  • Zhang P, Lim SB, Jiang K, Chew TW et al. Distinct mRNAs in Cancer Extracellular Vesicles Activate Angiogenesis and Alter Transcriptome of Vascular Endothelial Cells. Cancers (Basel) 2021 Apr 22;13(9). PMID: 33921957
  • García-Sánchez S, Gala M, Žoldák G et al. Nanoimpact in Plants: Lessons from the Transcriptome. Plants (Basel) 2021 Apr 12;10(4). PMID: 33921390
  • Siaw JT, Gabre JL, Uçkun E, Vigny M et al. Loss of RET Promotes Mesenchymal Identity in Neuroblastoma Cells. Cancers (Basel) 2021 Apr 15;13(8). PMID: 33921066
  • Nowak JK, Dybska E, Dworacka M, Tsikhan N et al. Ileal Lactase Expression Associates with Lactase Persistence Genotypes. Nutrients 2021 Apr 17;13(4). PMID: 33920682
  • Lüttich L, Besso MJ, Heiden S, Koi L et al. Tyrosine Kinase c-MET as Therapeutic Target for Radiosensitization of Head and Neck Squamous Cell Carcinomas. Cancers (Basel) 2021 Apr 14;13(8). PMID: 33919702
  • Lv B, Xu X, Zhang X, Qi L et al. Activation of Blood Vessel Development in Endometrial Stromal Cells In Vitro Cocultured with Human Peri-Implantation Embryos Revealed by Single-Cell RNA-Seq. Life (Basel) 2021 Apr 21;11(5). PMID: 33919335
  • Gao S, Wu Z, Kannan J, Mathews L et al. Comparative Transcriptomic Analysis of the Hematopoietic System between Human and Mouse by Single Cell RNA Sequencing. Cells 2021 Apr 21;10(5). PMID: 33919312
  • Ferreira AV, Koeken VACM, Matzaraki V, Kostidis S et al. Glutathione Metabolism Contributes to the Induction of Trained Immunity. Cells 2021 Apr 21;10(5). PMID: 33919212
  • Lombardo SD, Basile MS, Ciurleo R, Bramanti A et al. A Network Medicine Approach for Drug Repurposing in Duchenne Muscular Dystrophy. Genes (Basel) 2021 Apr 9;12(4). PMID: 33918694
  • Pérez-Moraga R, Forés-Martos J, Suay-García B, Duval JL et al. A COVID-19 Drug Repurposing Strategy through Quantitative Homological Similarities Using a Topological Data Analysis-Based Framework. Pharmaceutics 2021 Apr 2;13(4). PMID: 33918313
  • Ahn J, Hwang IS, Park MR, Hwang S et al. Genomic Imprinting at the Porcine PLAGL1 Locus and the Orthologous Locus in the Human. Genes (Basel) 2021 Apr 8;12(4). PMID: 33918057
  • Sung JY, Cheong JH et al. Pan-Cancer Analysis Reveals Distinct Metabolic Reprogramming in Different Epithelial-Mesenchymal Transition Activity States. Cancers (Basel) 2021 Apr 8;13(8). PMID: 33917859
  • Fontana MC, Nanni J, Ghelli Luserna di Rorà A, Petracci E et al. Pharmacological Inhibition of WIP1 Sensitizes Acute Myeloid Leukemia Cells to the MDM2 Inhibitor Nutlin-3a. Biomedicines 2021 Apr 6;9(4). PMID: 33917342
  • Mohr T, Katz S, Paulitschke V, Aizarani N et al. Systematic Analysis of the Transcriptome Profiles and Co-Expression Networks of Tumour Endothelial Cells Identifies Several Tumour-Associated Modules and Potential Therapeutic Targets in Hepatocellular Carcinoma. Cancers (Basel) 2021 Apr 7;13(8). PMID: 33917186
  • Noblejas-López MDM, Baliu-Piqué M, Nieto-Jiménez C, Cimas FJ et al. Transcriptomic Profiles of CD47 in Breast Tumors Predict Outcome and Are Associated with Immune Activation. Int J Mol Sci 2021 Apr 7;22(8). PMID: 33917174
  • Termine A, Fabrizio C, Strafella C, Caputo V et al. Multi-Layer Picture of Neurodegenerative Diseases: Lessons from the Use of Big Data through Artificial Intelligence. J Pers Med 2021 Apr 7;11(4). PMID: 33917161
  • Sun MS, Yuan LT, Kuei CH, Lin HY et al. RGL2 Drives the Metastatic Progression of Colorectal Cancer via Preventing the Protein Degradation of β-Catenin and KRAS. Cancers (Basel) 2021 Apr 7;13(8). PMID: 33917100
  • Velasco G, Ulveling D, Rondeau S, Marzin P et al. Interplay between Histone and DNA Methylation Seen through Comparative Methylomes in Rare Mendelian Disorders. Int J Mol Sci 2021 Apr 3;22(7). PMID: 33916664
  • Ye Q, Mohamed R, Dakhlallah D, Gencheva M et al. Molecular Analysis of ZNF71 KRAB in Non-Small-Cell Lung Cancer. Int J Mol Sci 2021 Apr 4;22(7). PMID: 33916522
  • Giaimo BD, Robert-Finestra T, Oswald F, Gribnau J et al. Chromatin Regulator SPEN/SHARP in X Inactivation and Disease. Cancers (Basel) 2021 Apr 1;13(7). PMID: 33916248
  • Baltussen TJH, Coolen JPM, Verweij PE, Dijksterhuis J et al. Identifying Conserved Generic Aspergillus spp. Co-Expressed Gene Modules Associated with Germination Using Cross-Platform and Cross-Species Transcriptomics. J Fungi (Basel) 2021 Apr 1;7(4). PMID: 33916245
  • Lewis EMA, Kaushik K, Sandoval LA, Antony I et al. Epigenetic regulation during human cortical development: Seq-ing answers from the brain to the organoid. Neurochem Int 2021 Jul;147:105039. PMID: 33915225
  • Liu D, McIntyre RS, Li R, Yang M et al. Genetic association between major depressive disorder and type 2 diabetes mellitus: Shared pathways and protein networks. Prog Neuropsychopharmacol Biol Psychiatry 2021 Dec 20;111:110339. PMID: 33915220
  • Cui L, Wang P, Ning D, Shao J et al. Identification of a Novel Prognostic Signature for Gastric Cancer Based on Multiple Level Integration and Global Network Optimization. Front Cell Dev Biol 2021;9:631534. PMID: 33912555
  • Tang R, Liu X, Wang W, Hua J et al. Identification of the Roles of a Stemness Index Based on mRNA Expression in the Prognosis and Metabolic Reprograming of Pancreatic Ductal Adenocarcinoma. Front Oncol 2021;11:643465. PMID: 33912458
  • Zhang J, Hu J, Li W, Zhang C et al. Rapamycin Antagonizes BCRP-Mediated Drug Resistance Through the PI3K/Akt/mTOR Signaling Pathway in mPRα-Positive Breast Cancer. Front Oncol 2021;11:608570. PMID: 33912444
  • Dou M, Zhou X, Li L, Zhang M et al. Illumination of Molecular Pathways in Multiple Sclerosis Lesions and the Immune Mechanism of Matrine Treatment in EAE, a Mouse Model of MS. Front Immunol 2021;12:640778. PMID: 33912166
  • Zhang Y, Chen X, Cao Y, Yang Z et al. C8B in Complement and Coagulation Cascades Signaling Pathway is a predictor for Survival in HBV-Related Hepatocellular Carcinoma Patients. Cancer Manag Res 2021;13:3503-3515. PMID: 33911900
  • Li X, Li Z, Han Z, Zhang L et al. Gene Expression Patterns of Cutaneous Squamous Cell Carcinoma and Actinic Keratosis: Biomarkers Screening for Skin Disease Diagnosis. Ann Dermatol 2018 Oct;30(5):536-543. PMID: 33911475
  • Pruss KM, Sonnenburg JL et al. C. difficile exploits a host metabolite produced during toxin-mediated disease. Nature 2021 May;593(7858):261-265. PMID: 33911281
  • Patty BJ, Hainer SJ et al. Transcription factor chromatin profiling genome-wide using uliCUT&RUN in single cells and individual blastocysts. Nat Protoc 2021 May;16(5):2633-2666. PMID: 33911257
  • Nielsen MM, Pedersen JS et al. miRNA activity inferred from single cell mRNA expression. Sci Rep 2021 Apr 28;11(1):9170. PMID: 33911110
  • Haigh JL, Adhikari A, Copping NA, Stradleigh T et al. Deletion of a non-canonical regulatory sequence causes loss of Scn1a expression and epileptic phenotypes in mice. Genome Med 2021 Apr 26;13(1):69. PMID: 33910599
  • Zhang Z, Bao Y, Zhou L, Ye Y et al. DOCK8 Serves as a Prognostic Biomarker and Is Related to Immune Infiltration in Patients With HPV Positive Head and Neck Squamous Cell Carcinoma. Cancer Control 2021 Jan-Dec;28:10732748211011951. PMID: 33910393
  • Wang W, Liu Q, Wang Y, Piao H et al. LINC01278 Sponges miR-500b-5p to Regulate the Expression of ACTG2 to Control Phenotypic Switching in Human Vascular Smooth Muscle Cells During Aortic Dissection. J Am Heart Assoc 2021 May 4;10(9):e018062. PMID: 33910387
  • Zhou J, Huang X, Xue B, Wei Y et al. Bioinformatics analysis of the molecular mechanism of obesity in polycystic ovary syndrome. Aging (Albany NY) 2021 Apr 27;13(9):12631-12640. PMID: 33910166
  • Kimmel JC, Yi N, Roy M, Hendrickson DG et al. Differentiation reveals latent features of aging and an energy barrier in murine myogenesis. Cell Rep 2021 Apr 27;35(4):109046. PMID: 33910007
  • Wei Z, Qi X, Zhai S, Chen Y et al. Down-regulation of SORL1 is associated with Alzheimer's disease through activating ABC transporter pathway. Z Naturforsch C J Biosci 2021 May 26;76(5-6):187-192. PMID: 33909958
  • Park J, Lee S, Park G, Cho H et al. CYTOKININ-RESPONSIVE GROWTH REGULATOR regulates cell expansion and cytokinin-mediated cell cycle progression. Plant Physiol 2021 Jul 6;186(3):1734-1746. PMID: 33909905
  • Zhou D, Park JG, Wu Z, Huang H et al. FACT subunit SUPT16H associates with BRD4 and contributes to silencing of antiviral interferon signaling. bioRxiv 2021 Apr 21 PMID: 33907746
  • Zhu H, Lu Q, Lu Q, Shen X et al. Matrine Regulates Proliferation, Apoptosis, Cell Cycle, Migration, and Invasion of Non-Small Cell Lung Cancer Cells Through the circFUT8/miR-944/YES1 Axis. Cancer Manag Res 2021;13:3429-3442. PMID: 33907466
  • Yan D, Chen Y et al. Tumor mutation burden (TMB)-associated signature constructed to predict survival of lung squamous cell carcinoma patients. Sci Rep 2021 Apr 27;11(1):9020. PMID: 33907270
  • Penrose HM, Iftikhar R, Collins ME, Toraih E et al. Ulcerative colitis immune cell landscapes and differentially expressed gene signatures determine novel regulators and predict clinical response to biologic therapy. Sci Rep 2021 Apr 27;11(1):9010. PMID: 33907256
  • Liu B, Gan W, Jin Z, Wang M et al. The Role of miR-34c-5p in Osteogenic Differentiation of Bone Marrow Mesenchymal Stem Cells. Int J Stem Cells 2021 Aug 30;14(3):286-297. PMID: 33906980
  • Li Q, Liang J, Zhang S, An N et al. Overexpression of centromere protein K (CENPK) gene in Differentiated Thyroid Carcinoma promote cell Proliferation and Migration. Bioengineered 2021 Dec;12(1):1299-1310. PMID: 33904381
  • Pirrò S, Matic I, Colizzi V, Galgani A et al. The microRNA analysis portal is a next-generation tool for exploring and analyzing miRNA-focused data in the literature. Sci Rep 2021 Apr 26;11(1):9007. PMID: 33903708
  • Li P, Wu W, Zhang T, Wang Z et al. Implications of cardiac markers in risk-stratification and management for COVID-19 patients. Crit Care 2021 Apr 26;25(1):158. PMID: 33902676
  • Wang G, Jia Y, Ye Y, Kang E et al. Identification of key methylation differentially expressed genes in posterior fossa ependymoma based on epigenomic and transcriptome analysis. J Transl Med 2021 Apr 26;19(1):174. PMID: 33902636
  • Liu N, Wu Y, Cheng W, Wu Y et al. Identification of novel prognostic biomarkers by integrating multi-omics data in gastric cancer. BMC Cancer 2021 Apr 26;21(1):460. PMID: 33902514
  • D'Agostino D, Liò P, Aldinucci M, Merelli I et al. Advantages of using graph databases to explore chromatin conformation capture experiments. BMC Bioinformatics 2021 Apr 26;22(Suppl 2):43. PMID: 33902433
  • Yuan X, Bian X, Wei W, Bao Q et al. miR-34a regulates phenotypic modulation of vascular smooth muscle cells in intracranial aneurysm by targeting CXCR3 and MMP-2. Genet Mol Biol 2021;44(2):e20200124. PMID: 33901269
  • Contursi A, Arconzo M, Cariello M, Piglionica M et al. let-7e downregulation characterizes early phase colonic adenoma in APCMin/+ mice and human FAP subjects. PLoS One 2021;16(4):e0249238. PMID: 33901189
  • Ceylan HIdentification of hub genes associated with obesity-induced hepatocellular carcinoma risk based on integrated bioinformatics analysis. Med Oncol 2021 Apr 26;38(6):63. PMID: 33900477
  • Morel KL, Sheahan AV, Burkhart DL, Baca SC et al. EZH2 inhibition activates a dsRNA-STING-interferon stress axis that potentiates response to PD-1 checkpoint blockade in prostate cancer. Nat Cancer 2021 Apr;2(4):444-456. PMID: 33899001
  • Xu J, Liu H, Lan Y, Jiang R et al. Cis-Repression of Foxq1 Expression Affects Foxf2-Mediated Gene Expression in Palate Development. Front Cell Dev Biol 2021;9:665109. PMID: 33898467
  • Mancinelli S, Vitiello M, Donnini M, Mantile F et al. The Transcription Regulator Patz1 Is Essential for Neural Stem Cell Maintenance and Proliferation. Front Cell Dev Biol 2021;9:657149. PMID: 33898458
  • Chen F, Chen J, Wang H, Tang H et al. Histone Lysine Methyltransferase SETD2 Regulates Coronary Vascular Development in Embryonic Mouse Hearts. Front Cell Dev Biol 2021;9:651655. PMID: 33898448
  • Wang Y, Cen A, Yang Y, Ye H et al. miR-181a, delivered by hypoxic PTC-secreted exosomes, inhibits DACT2 by downregulating MLL3, leading to YAP-VEGF-mediated angiogenesis. Mol Ther Nucleic Acids 2021 Jun 4;24:610-621. PMID: 33898109
  • Li W, Huang K, Wen F, Cui G et al. Intermittent hypoxia-induced downregulation of microRNA-320b promotes lung cancer tumorigenesis by increasing CDT1 via USP37. Mol Ther Nucleic Acids 2021 Jun 4;24:528-541. PMID: 33898105
  • Wang G, Wang S, Chai X, Zhang J et al. A strategy for complete telomere-to-telomere assembly of ciliate macronuclear genome using ultra-high coverage Nanopore data. Comput Struct Biotechnol J 2021;19:1928-1932. PMID: 33897985
  • Nersisyan L, Simonyan A, Binder H, Arakelyan A et al. Telomere Maintenance Pathway Activity Analysis Enables Tissue- and Gene-Level Inferences. Front Genet 2021;12:662464. PMID: 33897770
  • Wu Z, Su K, Wu H et al. Non-linear Normalization for Non-UMI Single Cell RNA-Seq. Front Genet 2021;12:612670. PMID: 33897755
  • Xi X, Hu Z, Nie X, Meng M et al. Cross Inhibition of MPK10 and WRKY10 Participating in the Growth of Endosperm in Arabidopsis thaliana. Front Plant Sci 2021;12:640346. PMID: 33897728
  • Zhao Y, Ma S, Cui Z, Li S et al. The relationship between LncRNAs and lung adenocarcinoma as well as their ceRNA network. Cancer Biomark 2021;31(2):165-176. PMID: 33896828
  • Broadwell LJ, Smallegan MJ, Rigby KM, Navarro-Arriola JS et al. Myosin 7b is a regulatory long noncoding RNA (lncMYH7b) in the human heart. J Biol Chem 2021 Jan-Jun;296:100694. PMID: 33895132
  • Katz S, Song J, Webb KP, Lounsbury NW et al. SIGNAL: A web-based iterative analysis platform integrating pathway and network approaches optimizes hit selection from genome-scale assays. Cell Syst 2021 Apr 21;12(4):338-352.e5. PMID: 33894945
  • Wu S, Yue Y, Gu Y, Wang Q et al. MUC15 loss facilitates epithelial-mesenchymal transition and cancer stemness for prostate cancer metastasis through GSK3β/β-catenin signaling. Cell Signal 2021 Aug;84:110015. PMID: 33894313
  • Lottini T, Iorio J, Lastraioli E, Carraresi L et al. Transgenic mice overexpressing the LH receptor in the female reproductive system spontaneously develop endometrial tumour masses. Sci Rep 2021 Apr 23;11(1):8847. PMID: 33893331
  • Yin J, Spillman E, Cheng ES, Short J et al. Brain-specific lipoprotein receptors interact with astrocyte derived apolipoprotein and mediate neuron-glia lipid shuttling. Nat Commun 2021 Apr 23;12(1):2408. PMID: 33893307
  • Bevacqua RJ, Dai X, Lam JY, Gu X et al. CRISPR-based genome editing in primary human pancreatic islet cells. Nat Commun 2021 Apr 23;12(1):2397. PMID: 33893274
  • Gershanov S, Toledano H, Pernicone N, Fichman S et al. Differences in RNA and microRNA Expression Between PTCH1- and SUFU-mutated Medulloblastoma. Cancer Genomics Proteomics 2021 May-Jun;18(3):335-347. PMID: 33893086
  • Yang W, Zhou W, Zhao X, Wang X et al. Prognostic biomarkers and therapeutic targets in oral squamous cell carcinoma: a study based on cross-database analysis. Hereditas 2021 Apr 23;158(1):15. PMID: 33892811
  • Segú-Vergés C, Coma M, Kessel C, Smeets S et al. Application of systems biology-based in silico tools to optimize treatment strategy identification in Still's disease. Arthritis Res Ther 2021 Apr 23;23(1):126. PMID: 33892792
  • Xue B, Li S, Jin X, Liu L et al. Bioinformatics analysis of mRNA and miRNA microarray to identify the key miRNA-mRNA pairs in cisplatin-resistant ovarian cancer. BMC Cancer 2021 Apr 23;21(1):452. PMID: 33892654
  • Zhang M, Zhang Q, Bai J, Zhao Z et al. Transcriptome analysis revealed CENPF associated with glioma prognosis. Math Biosci Eng 2021 Mar 2;18(3):2077-2096. PMID: 33892537
  • Tomoda K, Hu H, Sahara Y, Sanyal H et al. Reprogramming epiblast stem cells into pre-implantation blastocyst cell-like cells. Stem Cell Reports 2021 May 11;16(5):1197-1209. PMID: 33891866
  • Abdel-Motaleb AI, Azzazy HM, Moustafa A et al. Toward Colorectal Cancer Biomarkers: The Role of Genetic Variation, Wnt Pathway, and Long Noncoding RNAs. OMICS 2021 May;25(5):302-312. PMID: 33891491
  • Barger CJ, Chee L, Albahrani M, Munoz-Trujillo C et al. Co-regulation and function of FOXM1/RHNO1 bidirectional genes in cancer. Elife 2021 Apr 23;10. PMID: 33890574
  • Xin H, Deng F, Zhou M, Huang R et al. A multi-tissue multi-omics analysis reveals distinct kineztics in entrainment of diurnal transcriptomes by inverted feeding. iScience 2021 Apr 23;24(4):102335. PMID: 33889826
  • Huang W, Duan Y, Yang X, Shang C et al. Identification of Novel Prognostic Risk Signatures of Soft Tissue Sarcoma Based on Ferroptosis-Related Genes. Front Oncol 2021;11:629868. PMID: 33889544
  • Devall MAM, Casey G et al. Controlling for cellular heterogeneity using single-cell deconvolution of gene expression reveals novel markers of colorectal tumors exhibiting microsatellite instability. Oncotarget 2021 Apr 13;12(8):767-782. PMID: 33889300
  • Liu C, Zheng S, Wang S, Wang X et al. Development and external validation of a composite immune-clinical prognostic model associated with EGFR mutation in East-Asian patients with lung adenocarcinoma. Ther Adv Med Oncol 2021;13:17588359211006949. PMID: 33889215
  • Fauteux F, Surendra A, McComb S, Pan Y et al. Identification of transcriptional subtypes in lung adenocarcinoma and squamous cell carcinoma through integrative analysis of microarray and RNA sequencing data. Sci Rep 2021 Apr 22;11(1):8709. PMID: 33888829
  • Sobel J, Guay C, Elhanani O, Rodriguez-Trejo A et al. Scrt1, a transcriptional regulator of β-cell proliferation identified by differential chromatin accessibility during islet maturation. Sci Rep 2021 Apr 22;11(1):8800. PMID: 33888791
  • Fursova NA, Turberfield AH, Blackledge NP, Findlater EL et al. BAP1 constrains pervasive H2AK119ub1 to control the transcriptional potential of the genome. Genes Dev 2021 May 1;35(9-10):749-770. PMID: 33888563
  • Jang Y, Park YK, Lee JE, Wan D et al. MED1 is a lipogenesis coactivator required for postnatal adipose expansion. Genes Dev 2021 May 1;35(9-10):713-728. PMID: 33888555
  • Zhang T, Liu Q, Yu M, Lan Y et al. Expression Profiles Reveal Involvement of VEGF, IGF1, BIRC5, and MMP1 in Vulvar Carcinogenesis. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211004922. PMID: 33888009
  • Tran MTMT, Yeh KT, Chuang YM, Hsu PY et al. Methylomic analysis identifies C11orf87 as a novel epigenetic biomarker for GI cancers. PLoS One 2021;16(4):e0250499. PMID: 33886682
  • Chen C, Liu W, Guo J, Liu Y et al. Nuclear m(6)A reader YTHDC1 regulates the scaffold function of LINE1 RNA in mouse ESCs and early embryos. Protein Cell 2021 Jun;12(6):455-474. PMID: 33886094
  • Pavlov MY, Ullman G, Ignatova Z, Ehrenberg M et al. Estimation of peptide elongation times from ribosome profiling spectra. Nucleic Acids Res 2021 May 21;49(9):5124-5142. PMID: 33885812
  • Weiss CV, Harshman L, Inoue F, Fraser HB et al. The cis-regulatory effects of modern human-specific variants. Elife 2021 Apr 22;10. PMID: 33885362
  • Dong W, Zhang H, Dai Y, Zhou Y et al. circRNA circFAT1(e2) Elevates the Development of Non-Small-Cell Lung Cancer by Regulating miR-30e-5p and USP22. Biomed Res Int 2021;2021:6653387. PMID: 33884267
  • Xu X, Hao Y, Wu J, Zhao J et al. Assessment of Weighted Gene Co-Expression Network Analysis to Explore Key Pathways and Novel Biomarkers in Muscular Dystrophy. Pharmgenomics Pers Med 2021;14:431-444. PMID: 33883925
  • George B, Amjesh R, Paul AM, Santhoshkumar TR et al. Evidence of a dysregulated vitamin D endocrine system in SARS-CoV-2 infected patient's lung cells. Sci Rep 2021 Apr 21;11(1):8570. PMID: 33883570
  • Li JY, Sun F, Yang CL, Zhou HF et al. GEO data mining and TCGA analysis reveal altered branched chain amino acid metabolism in pancreatic cancer patients. Aging (Albany NY) 2021 Apr 21;13(8):11907-11918. PMID: 33882453
  • Alnahhas I, LaHaye S, Giglio P, Mardis E et al. An evaluation of MGMT promoter methylation within the methylation subclasses of glioblastoma. Neurooncol Adv 2020 Jan-Dec;2(1):vdaa117. PMID: 33880446
  • Gao G, Yao Z, Shen J, Liu Y et al. Identification of Key miRNAs in the Treatment of Dabrafenib-Resistant Melanoma. Biomed Res Int 2021;2021:5524486. PMID: 33880366
  • Stephenson E, Reynolds G, Botting RA, Calero-Nieto FJ et al. Single-cell multi-omics analysis of the immune response in COVID-19. Nat Med 2021 May;27(5):904-916. PMID: 33879890
  • Wang Y, Khan A, Antonopoulos A, Bouché L et al. Loss of α2-6 sialylation promotes the transformation of synovial fibroblasts into a pro-inflammatory phenotype in arthritis. Nat Commun 2021 Apr 20;12(1):2343. PMID: 33879788
  • Della Chiara G, Gervasoni F, Fakiola M, Godano C et al. Epigenomic landscape of human colorectal cancer unveils an aberrant core of pan-cancer enhancers orchestrated by YAP/TAZ. Nat Commun 2021 Apr 20;12(1):2340. PMID: 33879786
  • Tian S, Wang C et al. An ensemble of the iCluster method to analyze longitudinal lncRNA expression data for psoriasis patients. Hum Genomics 2021 Apr 20;15(1):23. PMID: 33879268
  • Barretto SA, Lasserre F, Huillet M, Régnier M et al. The pregnane X receptor drives sexually dimorphic hepatic changes in lipid and xenobiotic metabolism in response to gut microbiota in mice. Microbiome 2021 Apr 20;9(1):93. PMID: 33879258
  • Kim JW, Yi J, Park J, Jeong JH et al. Transcriptomic profiling of three-dimensional cholangiocyte spheroids long term exposed to repetitive Clonorchis sinensis excretory-secretory products. Parasit Vectors 2021 Apr 20;14(1):213. PMID: 33879231
  • Wu JQ, Mao LB, Liu LF, Li YM et al. Identification of key genes and pathways of BMP-9-induced osteogenic differentiation of mesenchymal stem cells by integrated bioinformatics analysis. J Orthop Surg Res 2021 Apr 20;16(1):273. PMID: 33879213
  • Zhang H, Yu Z, Sun F, Jin J et al. Overexpression of CRABP2 inhibits dexamethasone-induced apoptosis in human osteoblast cells. J Orthop Surg Res 2021 Apr 20;16(1):272. PMID: 33879199
  • Kapourani CA, Argelaguet R, Sanguinetti G, Vallejos CA et al. scMET: Bayesian modeling of DNA methylation heterogeneity at single-cell resolution. Genome Biol 2021 Apr 20;22(1):114. PMID: 33879195
  • Kan G, Wang Z, Sheng C, Yao C et al. Inhibition of DKC1 induces telomere-related senescence and apoptosis in lung adenocarcinoma. J Transl Med 2021 Apr 20;19(1):161. PMID: 33879171
  • Zhao J, Liao Y, Miller-Little W, Xiao J et al. STEAP4 expression in CNS resident cells promotes Th17 cell-induced autoimmune encephalomyelitis. J Neuroinflammation 2021 Apr 20;18(1):98. PMID: 33879167
  • Zhao C, Liu J, Zhou H, Qian X et al. NEIL3 may act as a potential prognostic biomarker for lung adenocarcinoma. Cancer Cell Int 2021 Apr 20;21(1):228. PMID: 33879165
  • Yan P, Huang Z, Mou T, Luo Y et al. Comprehensive analyses of competing endogenous RNA networks reveal potential biomarkers for predicting hepatocellular carcinoma recurrence. BMC Cancer 2021 Apr 20;21(1):436. PMID: 33879119
  • Guo S, Huang S, Jiang X, Hu H et al. Variation of microRNA expression in the human placenta driven by population identity and sex of the newborn. BMC Genomics 2021 Apr 20;22(1):286. PMID: 33879051
  • Lin T, Lin Z, Mai P, Zhang E et al. Identification of prognostic biomarkers associated with the occurrence of portal vein tumor thrombus in hepatocellular carcinoma. Aging (Albany NY) 2021 Apr 20;13(8):11786-11807. PMID: 33878734
  • Guo C, Zhou S, Yi W, Yang P et al. Long non-coding RNA muskelin 1 antisense RNA (MKLN1-AS) is a potential diagnostic and prognostic biomarker and therapeutic target for hepatocellular carcinoma. Exp Mol Pathol 2021 Jun;120:104638. PMID: 33878313
  • Ren TY, Zhang YX, Hu W et al. Identification of hub prognosis-associated oxidative stress genes in skin cutaneous melanoma using integrated bioinformatic analysis. Eur Rev Med Pharmacol Sci 2021 Apr;25(7):2927-2940. PMID: 33877656
  • Clemens Z, Sivakumar S, Pius A, Sahu A et al. The biphasic and age-dependent impact of klotho on hallmarks of aging and skeletal muscle function. Elife 2021 Apr 20;10. PMID: 33876724
  • Chen M, Wei R, Wei G, Xu M et al. Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes. Genome Res 2021 May;31(5):890-899. PMID: 33875481
  • Patel N, Bush WS et al. Modeling transcriptional regulation using gene regulatory networks based on multi-omics data sources. BMC Bioinformatics 2021 Apr 19;22(1):200. PMID: 33874910
  • Zhu I, Song W, Ovcharenko I, Landsman D et al. A model of active transcription hubs that unifies the roles of active promoters and enhancers. Nucleic Acids Res 2021 May 7;49(8):4493-4505. PMID: 33872375
  • Buchumenski I, Holler K, Appelbaum L, Eisenberg E et al. Systematic identification of A-to-I RNA editing in zebrafish development and adult organs. Nucleic Acids Res 2021 May 7;49(8):4325-4337. PMID: 33872356
  • Alfeghaly C, Sanchez A, Rouget R, Thuillier Q et al. Implication of repeat insertion domains in the trans-activity of the long non-coding RNA ANRIL. Nucleic Acids Res 2021 May 21;49(9):4954-4970. PMID: 33872355
  • Shah RN, Ruthenburg AJ et al. Sequence deeper without sequencing more: Bayesian resolution of ambiguously mapped reads. PLoS Comput Biol 2021 Apr;17(4):e1008926. PMID: 33872311
  • Muyle A, Ross-Ibarra J, Seymour DK, Gaut BS et al. Gene body methylation is under selection in Arabidopsis thaliana. Genetics 2021 Jun 24;218(2). PMID: 33871638
  • Onur TS, Laitman A, Zhao H, Keyho R et al. Downregulation of glial genes involved in synaptic function mitigates Huntington's disease pathogenesis. Elife 2021 Apr 19;10. PMID: 33871358
  • Liu Z, Sun D, Zhu Q, Liu X et al. The screening of immune-related biomarkers for prognosis of lung adenocarcinoma. Bioengineered 2021 Dec;12(1):1273-1285. PMID: 33870858
  • Qiu X, Qin F et al. Retraction: FAM64A antagonizes tumor suppressive effects of miR-610 in neuroblastoma in vitro. J Neurosurg Sci 2021 Apr 16 PMID: 33870669
  • Morsey B, Niu M, Dyavar SR, Fletcher CV et al. Cryopreservation of microglia enables single-cell RNA sequencing with minimal effects on disease-related gene expression patterns. iScience 2021 Apr 23;24(4):102357. PMID: 33870145
  • Lin HC, Li J, Cheng DD, Zhang X et al. Nuclear export protein CSE1L interacts with P65 and promotes NSCLC growth via NF-κB/MAPK pathway. Mol Ther Oncolytics 2021 Jun 25;21:23-36. PMID: 33869740
  • Jin J, Guang M, Ogbuehi AC, Li S et al. Shared Molecular Mechanisms between Alzheimer's Disease and Periodontitis Revealed by Transcriptomic Analysis. Biomed Res Int 2021;2021:6633563. PMID: 33869630
  • Zhang C, Zou Y, Zhu Y, Liu Y et al. Three Immune-Related Prognostic mRNAs as Therapeutic Targets for Pancreatic Cancer. Front Med (Lausanne) 2021;8:649326. PMID: 33869254
  • Jiang W, Xu J, Liao Z, Li G et al. Prognostic Signature for Lung Adenocarcinoma Patients Based on Cell-Cycle-Related Genes. Front Cell Dev Biol 2021;9:655950. PMID: 33869220
  • Wang T, Li X, Zhang X, Wang Q et al. RNA Motifs and Modification Involve in RNA Long-Distance Transport in Plants. Front Cell Dev Biol 2021;9:651278. PMID: 33869208
  • Wang W, Wu Q, Wang Z, Ren S et al. Development of a Prognostic Model for Ovarian Cancer Patients Based on Novel Immune Microenvironment Related Genes. Front Oncol 2021;11:647273. PMID: 33869044
  • Su Y, Zhang T, Tang J, Zhang L et al. Construction of Competitive Endogenous RNA Network and Verification of 3-Key LncRNA Signature Associated With Distant Metastasis and Poor Prognosis in Patients With Clear Cell Renal Cell Carcinoma. Front Oncol 2021;11:640150. PMID: 33869028
  • Li G, Zhu X, Liu C et al. Characterization of Immune Infiltration and Construction of a Prediction Model for Overall Survival in Melanoma Patients. Front Oncol 2021;11:639059. PMID: 33869027
  • Ye X, Liu X, Gao M, Gong L et al. CUL4B Promotes Temozolomide Resistance in Gliomas by Epigenetically Repressing CDNK1A Transcription. Front Oncol 2021;11:638802. PMID: 33869025
  • Yu H, Gu D, Yue C, Xu J et al. An Immune Cell-Based Signature Associating With EMT Phenotype Predicts Postoperative Overall Survival of ESCC. Front Oncol 2021;11:636479. PMID: 33869022
  • Liu Q, Qi Y, Kong X, Wang X et al. Molecular and Clinical Characterization of CCT2 Expression and Prognosis via Large-Scale Transcriptome Profile of Breast Cancer. Front Oncol 2021;11:614497. PMID: 33869000
  • Sun R, Li S, Zhao K, Diao M et al. Identification of Ten Core Hub Genes as Potential Biomarkers and Treatment Target for Hepatoblastoma. Front Oncol 2021;11:591507. PMID: 33868991
  • Jiang YQ, Wang ZX, Zhong M, Shen LJ et al. Investigating Mechanisms of Response or Resistance to Immune Checkpoint Inhibitors by Analyzing Cell-Cell Communications in Tumors Before and After Programmed Cell Death-1 (PD-1) Targeted Therapy: An Integrative Analysis Using Single-cell RNA and Bulk-RNA Sequencing Data. Oncoimmunology 2021 Apr 2;10(1):1908010. PMID: 33868792
  • Ge J, Bai Y, Tang B, Wei D et al. The Gene Signature Associated with Hepatocellular Carcinoma in Patients with Nonalcoholic Fatty Liver Disease. J Oncol 2021;2021:6630535. PMID: 33868403
  • Zhang B, Min S, Guo Q, Huang Y et al. 7SK Acts as an Anti-tumor Factor in Tongue Squamous Cell Carcinoma. Front Genet 2021;12:642969. PMID: 33868377
  • Ma J, Gui H, Tang Y, Ding Y et al. In silico Identification of 10 Hub Genes and an miRNA-mRNA Regulatory Network in Acute Kawasaki Disease. Front Genet 2021;12:585058. PMID: 33868359
  • Li M, Xiao Y, Mount S, Liu Z et al. An Atlas of Genomic Resources for Studying Rosaceae Fruits and Ornamentals. Front Plant Sci 2021;12:644881. PMID: 33868343
  • de Armas LR, George V, Filali-Mouhim A, Steel C et al. Transcriptional and Immunologic Correlates of Response to Pandemic Influenza Vaccine in Aviremic, HIV-Infected Children. Front Immunol 2021;12:639358. PMID: 33868267
  • Tian X, Liu B, Chen L, Xie Y et al. RNA-Seq Identifies Marked Th17 Cell Activation and Altered CFTR Expression in Different Atopic Dermatitis Subtypes in Chinese Han Populations. Front Immunol 2021;12:628512. PMID: 33868246
  • Shan D, Guo X, Yang G, He Z et al. Integrated Transcriptional Profiling Analysis and Immune-Related Risk Model Construction for Intracranial Aneurysm Rupture. Front Neurosci 2021;15:613329. PMID: 33867914
  • Bi Y, Yin B, Fan G et al. Identification of metabolism genes related to hepatocarcinogenesis and progression in type 2 diabetes mellitus via co-expression networks analysis. Hereditas 2021 Apr 17;158(1):14. PMID: 33865459
  • Ding J, He X, Cheng X, Cao G et al. A 4-gene-based hypoxia signature is associated with tumor immune microenvironment and predicts the prognosis of pancreatic cancer patients. World J Surg Oncol 2021 Apr 17;19(1):123. PMID: 33865399
  • Zhang X, Wang Z, Zeng Z, Shen N et al. Bioinformatic analysis identifying FGF1 gene as a new prognostic indicator in clear cell Renal Cell Carcinoma. Cancer Cell Int 2021 Apr 17;21(1):222. PMID: 33865387
  • Wang S, Guo J, Zhang Y, Guo Y et al. Genome-wide characterization and expression analysis of TOPP-type protein phosphatases in soybean (Glycine max L.) reveal the role of GmTOPP13 in drought tolerance. Genes Genomics 2021 Jul;43(7):783-796. PMID: 33864615
  • Cao X, Zao X, Xue B, Chen H et al. The mechanism of TiaoGanYiPi formula for treating chronic hepatitis B by network pharmacology and molecular docking verification. Sci Rep 2021 Apr 16;11(1):8402. PMID: 33863948
  • Kalmykova S, Kalinina M, Denisov S, Mironov A et al. Conserved long-range base pairings are associated with pre-mRNA processing of human genes. Nat Commun 2021 Apr 16;12(1):2300. PMID: 33863890
  • Lindskrog SV, Prip F, Lamy P, Taber A et al. An integrated multi-omics analysis identifies prognostic molecular subtypes of non-muscle-invasive bladder cancer. Nat Commun 2021 Apr 16;12(1):2301. PMID: 33863885
  • Tang Y, Yang X, Shu H, Yu Y et al. Bioinformatic analysis identifies potential biomarkers and therapeutic targets of septic-shock-associated acute kidney injury. Hereditas 2021 Apr 16;158(1):13. PMID: 33863396
  • Zong D, Huang B, Li Y, Lu Y et al. Chromatin accessibility landscapes of immune cells in rheumatoid arthritis nominate monocytes in disease pathogenesis. BMC Biol 2021 Apr 16;19(1):79. PMID: 33863328
  • Zheng X, Leung KS, Wong MH, Cheng L et al. Long non-coding RNA pairs to assist in diagnosing sepsis. BMC Genomics 2021 Apr 16;22(1):275. PMID: 33863291
  • Fu P, Bu C, Cui B, Li N et al. Screening of differentially expressed genes and identification of AMACR as a prognostic marker in prostate cancer. Andrologia 2021 Jul;53(6):e14067. PMID: 33861880
  • Xie Y, Shi X, Chen Y, Wu B et al. The intra-class heterogeneity of immunophenotyping and immune landscape in oesophageal cancer and clinical implications. Ann Med 2021 Dec;53(1):626-638. PMID: 33860722
  • Peters S, Kuespert S, Wirkert E, Heydn R et al. Reconditioning the Neurogenic Niche of Adult Non-human Primates by Antisense Oligonucleotide-Mediated Attenuation of TGFβ Signaling. Neurotherapeutics 2021 Jul;18(3):1963-1979. PMID: 33860461
  • Jack A, Sullivan CAW, Aylward E, Bookheimer SY et al. A neurogenetic analysis of female autism. Brain 2021 Jul 28;144(6):1911-1926. PMID: 33860292
  • Coto-Llerena M, Tosti N, Taha-Mehlitz S, Kancherla V et al. Transcriptional Enhancer Factor Domain Family member 4 Exerts an Oncogenic Role in Hepatocellular Carcinoma by Hippo-Independent Regulation of Heat Shock Protein 70 Family Members. Hepatol Commun 2021 Apr;5(4):661-674. PMID: 33860124
  • Zhang X, Shi X, Zhao H, Jia X et al. Identification and Validation of a Tumor Microenvironment-Related Gene Signature for Prognostic Prediction in Advanced-Stage Non-Small-Cell Lung Cancer. Biomed Res Int 2021;2021:8864436. PMID: 33860055
  • Liu L, Huang J, Liu Y, Pan X et al. Multiomics Analysis of Transcriptome, Epigenome, and Genome Uncovers Putative Mechanisms for Dilated Cardiomyopathy. Biomed Res Int 2021;2021:6653802. PMID: 33860048
  • Sun G, Chen J, Ding Y, Wren JD et al. A Bioinformatics Perspective on the Links Between Tetraspanin-Enriched Microdomains and Cardiovascular Pathophysiology. Front Cardiovasc Med 2021;8:630471. PMID: 33860000
  • Gao Y, Liu P, He F, Yang X et al. Fibroblast Growth Factor 2 Promotes Bladder Hypertrophy Caused by Partial Bladder Outlet Obstruction. Front Cell Dev Biol 2021;9:630228. PMID: 33859983
  • Lv P, Yin YJ, Kong P, Cao L et al. SM22α Loss Contributes to Apoptosis of Vascular Smooth Muscle Cells via Macrophage-Derived circRasGEF1B. Oxid Med Cell Longev 2021;2021:5564884. PMID: 33859778
  • Zhang C, Li J, Yang L, Xu F et al. Transcriptome Classification Reveals Molecular Subgroups in Patients with Hepatitis B Virus. Comput Math Methods Med 2021;2021:5543747. PMID: 33859718
  • Caruso M, Distefano A, Emma R, Di Rosa M et al. Role of Cigarette Smoke on Angiotensin-Converting Enzyme-2 Protein Membrane Expression in Bronchial Epithelial Cells Using an Air-Liquid Interface Model. Front Pharmacol 2021;12:652102. PMID: 33859566
  • Månberg A, Skene N, Sanders F, Trusohamn M et al. Altered perivascular fibroblast activity precedes ALS disease onset. Nat Med 2021 Apr;27(4):640-646. PMID: 33859435
  • Tian S, Zhang H, Zhang P, Kalmbach M et al. Epigenetic alteration contributes to the transcriptional reprogramming in T-cell prolymphocytic leukemia. Sci Rep 2021 Apr 15;11(1):8318. PMID: 33859327
  • Schiesser JV, Loudovaris T, Thomas HE, Elefanty AG et al. Integrin αvβ5 heterodimer is a specific marker of human pancreatic beta cells. Sci Rep 2021 Apr 15;11(1):8315. PMID: 33859325
  • Cerase A, Young AN, Ruiz NB, Buness A et al. Chd8 regulates X chromosome inactivation in mouse through fine-tuning control of Xist expression. Commun Biol 2021 Apr 15;4(1):485. PMID: 33859315
  • Li KZ, Yin YX, Tang YP, Long L et al. Construction of a long noncoding RNA-based competing endogenous RNA network and prognostic signatures of left- and right-side colon cancer. Cancer Cell Int 2021 Apr 15;21(1):211. PMID: 33858429
  • Chen X, Shi X, Neuwald AF, Hilakivi-Clarke L et al. ChIP-BIT2: a software tool to detect weak binding events using a Bayesian integration approach. BMC Bioinformatics 2021 Apr 15;22(1):193. PMID: 33858322
  • Zhang L, He Y, Lei K, Fang Z et al. Gene expression profiling of early Parkinson's disease patient reveals redox homeostasis. Neurosci Lett 2021 May 14;753:135893. PMID: 33857551
  • Wahlster L, Verboon JM, Ludwig LS, Black SC et al. Familial thrombocytopenia due to a complex structural variant resulting in a WAC-ANKRD26 fusion transcript. J Exp Med 2021 Jun 7;218(6). PMID: 33857290
  • Zhou Y, Zhong T, Wei W, Wu Z et al. Single START-domain protein Mtsp17 is involved in transcriptional regulation in Mycobacterium smegmatis. PLoS One 2021;16(4):e0249379. PMID: 33857164
  • Park K, Ryoo J, Jeong H, Kim M et al. Aicardi-Goutières syndrome-associated gene SAMHD1 preserves genome integrity by preventing R-loop formation at transcription-replication conflict regions. PLoS Genet 2021 Apr;17(4):e1009523. PMID: 33857133
  • Zhang Y, Zhu T, He F, Chen AC et al. Identification of Key Genes and Pathways in Osteoarthritis via Bioinformatic Tools: An Updated Analysis. Cartilage 2021 Dec;13(1_suppl):1457S-1464S. PMID: 33855867
  • Liu X, Li W, Yang Y, Chen K et al. Transcriptome Profiling of the Ovarian Cells at the Single-Cell Resolution in Adult Asian Seabass. Front Cell Dev Biol 2021;9:647892. PMID: 33855024
  • Mosquera Orgueira A, Peleteiro Raíndo A, Cid López M, Díaz Arias JÁ et al. Personalized Survival Prediction of Patients With Acute Myeloblastic Leukemia Using Gene Expression Profiling. Front Oncol 2021;11:657191. PMID: 33854980
  • McKelvey KJ, Wilson EB, Short S, Melcher AA et al. Glycolysis and Fatty Acid Oxidation Inhibition Improves Survival in Glioblastoma. Front Oncol 2021;11:633210. PMID: 33854970
  • Wang S, Feng W, Wang W, Ye X et al. Girdin Knockdown Increases Gemcitabine Chemosensitivity to Pancreatic Cancer by Modulating Autophagy. Front Oncol 2021;11:618764. PMID: 33854963
  • Jiang K, Dong M, Li C, Sheng J et al. Unraveling Heterogeneity of Tumor Cells and Microenvironment and Its Clinical Implications for Triple Negative Breast Cancer. Front Oncol 2021;11:557477. PMID: 33854958
  • Yin A, Shang Z, Etcheverry A, He Y et al. Integrative analysis identifies an immune-relevant epigenetic signature for prognostication of non-G-CIMP glioblastomas. Oncoimmunology 2021 Mar 29;10(1):1902071. PMID: 33854822
  • Armartmuntree N, Jusakul A, Sakonsinsiri C, Loilome W et al. Promoter hypermethylation of early B cell factor 1 (EBF1) is associated with cholangiocarcinoma progression. J Cancer 2021;12(9):2673-2686. PMID: 33854627
  • Li M, Chen Z, Jiang T, Yang X et al. Circadian rhythm-associated clinical relevance and Tumor Microenvironment of Non-small Cell Lung Cancer. J Cancer 2021;12(9):2582-2597. PMID: 33854619
  • Qin Y, Wang F, Ni H, Liu Y et al. Cancer-associated fibroblasts in gastric cancer affect malignant progression via the CXCL12-CXCR4 axis. J Cancer 2021;12(10):3011-3023. PMID: 33854601
  • Jia NY, Liu XZ, Zhang Z, Zhang H et al. Weighted Gene Co-expression Network Analysis Reveals Different Immunity but Shared Renal Pathology Between IgA Nephropathy and Lupus Nephritis. Front Genet 2021;12:634171. PMID: 33854525
  • Rosenkranz RRE, Bachiri S, Vraggalas S, Keller M et al. Identification and Regulation of Tomato Serine/Arginine-Rich Proteins Under High Temperatures. Front Plant Sci 2021;12:645689. PMID: 33854522
  • Zou C, Huang X, Lan X, Huang X et al. Potential Genes and Mechanisms Linking Intracerebral Hemorrhage and Depression: A Bioinformatics-Based Study. Int J Gen Med 2021;14:1213-1226. PMID: 33854363
  • Romero-Cordoba SL, Salido-Guadarrama I, Rebollar-Vega R, Bautista-Piña V et al. Comprehensive omic characterization of breast cancer in Mexican-Hispanic women. Nat Commun 2021 Apr 14;12(1):2245. PMID: 33854067
  • Huang H, Hu J, Maryam A, Huang Q et al. Defining super-enhancer landscape in triple-negative breast cancer by multiomic profiling. Nat Commun 2021 Apr 14;12(1):2242. PMID: 33854062
  • Caronni N, Piperno GM, Simoncello F, Romano O et al. TIM4 expression by dendritic cells mediates uptake of tumor-associated antigens and anti-tumor responses. Nat Commun 2021 Apr 14;12(1):2237. PMID: 33854047
  • Zu HL, Hou LK, Liu HW, Zhan YB et al. Identify Candidate Genes in the Interaction between Abdominal Aortic Aneurysm and Type 2 Diabetes Mellitus by Using Biomedical Discovery Support System. Chin Med Sci J 2021 Mar 31;36(1):50-56. PMID: 33853709
  • Yaghoubfar R, Behrouzi A, Zare Banadkoki E, Ashrafian F et al. Effect of Akkermansia muciniphila, Faecalibacterium prausnitzii, and Their Extracellular Vesicles on the Serotonin System in Intestinal Epithelial Cells. Probiotics Antimicrob Proteins 2021 Dec;13(6):1546-1556. PMID: 33852147
  • Yang L, Zhang R, Guo G, Wang G et al. Development and validation of a prediction model for lung adenocarcinoma based on RNA-binding protein. Ann Transl Med 2021 Mar;9(6):474. PMID: 33850871
  • Luan J, Zhang Q, Song L, Wang Y et al. Identification and validation of a six immune-related gene signature for prediction of biochemical recurrence in localized prostate cancer following radical prostatectomy. Transl Androl Urol 2021 Mar;10(3):1018-1029. PMID: 33850736
  • Geng Q, Shen Z, Li L, Zhao J et al. COL1A1 is a prognostic biomarker and correlated with immune infiltrates in lung cancer. PeerJ 2021;9:e11145. PMID: 33850663
  • Muto Y, Wilson PC, Ledru N, Wu H et al. Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney. Nat Commun 2021 Apr 13;12(1):2190. PMID: 33850129
  • Pu Y, Song Y, Zhang M, Long C et al. GOLM1 restricts colitis and colon tumorigenesis by ensuring Notch signaling equilibrium in intestinal homeostasis. Signal Transduct Target Ther 2021 Apr 14;6(1):148. PMID: 33850109
  • He J, Zhou Q, Jia X, Zhou P et al. Immune-related expression profiles of bisphosphonates-related osteonecrosis of the jaw in multiple myeloma. Pharmazie 2021 Apr 1;76(4):159-164. PMID: 33849701
  • Elbialy AAgeing genetic signature of hypersomatotropism. Open Biol 2021 Apr;11(4):200265. PMID: 33849304
  • Xu C, Tsai YH, Galbo PM, Gong W et al. Cistrome analysis of YY1 uncovers a regulatory axis of YY1:BRD2/4-PFKP during tumorigenesis of advanced prostate cancer. Nucleic Acids Res 2021 May 21;49(9):4971-4988. PMID: 33849067
  • Reinar WB, Lalun VO, Reitan T, Jakobsen KS et al. Length variation in short tandem repeats affects gene expression in natural populations of Arabidopsis thaliana. Plant Cell 2021 Aug 13;33(7):2221-2234. PMID: 33848350
  • Wu H, Su QX, Zhang ZY, Zhang Z et al. Exploration of the core genes in ulcerative interstitial cystitis/bladder pain syndrome. Int Braz J Urol 2021 Jul-Aug;47(4):843-855. PMID: 33848079
  • Guo S, Wu J, Zhou W, Liu X et al. Identification and analysis of key genes associated with acute myocardial infarction by integrated bioinformatics methods. Medicine (Baltimore) 2021 Apr 16;100(15):e25553. PMID: 33847684
  • Xie H, Zhang JF, Li Q et al. Identification and analysis of genes associated with lung adenocarcinoma by integrated bioinformatics methods. Ann Hum Genet 2021 May;85(3-4):125-137. PMID: 33847374
  • Mahmud SMH, Al-Mustanjid M, Akter F, Rahman MS et al. Bioinformatics and system biology approach to identify the influences of SARS-CoV-2 infections to idiopathic pulmonary fibrosis and chronic obstructive pulmonary disease patients. Brief Bioinform 2021 Sep 2;22(5). PMID: 33847347
  • Wu SJ, Furlan SN, Mihalas AB, Kaya-Okur HS et al. Single-cell CUT&Tag analysis of chromatin modifications in differentiation and tumor progression. Nat Biotechnol 2021 Jul;39(7):819-824. PMID: 33846646
  • Hossain SMM, Halsana AA, Khatun L, Ray S et al. Discovering key transcriptomic regulators in pancreatic ductal adenocarcinoma using Dirichlet process Gaussian mixture model. Sci Rep 2021 Apr 12;11(1):7853. PMID: 33846515
  • Fan T, Huang Y et al. Accessible chromatin reveals regulatory mechanisms underlying cell fate decisions during early embryogenesis. Sci Rep 2021 Apr 12;11(1):7896. PMID: 33846424
  • Mohamed FEZA, Abdelaziz AO, Kasem AH, Ellethy T et al. Thyroid hormone receptor α1 acts as a new squamous cell lung cancer diagnostic marker and poor prognosis predictor. Sci Rep 2021 Apr 12;11(1):7944. PMID: 33846395
  • Meylan P, Pich C, Winkler C, Ginster S et al. Low expression of the PPARγ-regulated gene thioredoxin-interacting protein accompanies human melanoma progression and promotes experimental lung metastases. Sci Rep 2021 Apr 12;11(1):7847. PMID: 33846376
  • Davey K, Wong D, Konopacki F, Kwa E et al. A flexible microfluidic system for single-cell transcriptome profiling elucidates phased transcriptional regulators of cell cycle. Sci Rep 2021 Apr 12;11(1):7918. PMID: 33846365
  • Wang MFZ, Mantri M, Chou SP, Scuderi GJ et al. Uncovering transcriptional dark matter via gene annotation independent single-cell RNA sequencing analysis. Nat Commun 2021 Apr 12;12(1):2158. PMID: 33846360
  • Chen S, Yan G, Zhang W, Li J et al. RA3 is a reference-guided approach for epigenetic characterization of single cells. Nat Commun 2021 Apr 12;12(1):2177. PMID: 33846355
  • Cui YH, Yang S, Wei J, Shea CR et al. Autophagy of the m(6)A mRNA demethylase FTO is impaired by low-level arsenic exposure to promote tumorigenesis. Nat Commun 2021 Apr 12;12(1):2183. PMID: 33846348
  • Liu X, Sun T, Shcherbina A, Li Q et al. Learning cis-regulatory principles of ADAR-based RNA editing from CRISPR-mediated mutagenesis. Nat Commun 2021 Apr 12;12(1):2165. PMID: 33846332
  • Hu Q, Hong Y, Qi P, Lu G et al. Atlas of breast cancer infiltrated B-lymphocytes revealed by paired single-cell RNA-sequencing and antigen receptor profiling. Nat Commun 2021 Apr 12;12(1):2186. PMID: 33846305
  • Wang Z, Liu Y, Liu J, Kong N et al. ATF3 deficiency impairs the proliferative-secretory phase transition and decidualization in RIF patients. Cell Death Dis 2021 Apr 12;12(4):387. PMID: 33846304
  • Jin H, Liu Z et al. A benchmark for RNA-seq deconvolution analysis under dynamic testing environments. Genome Biol 2021 Apr 12;22(1):102. PMID: 33845875
  • Villemin JP, Lorenzi C, Cabrillac MS, Oldfield A et al. A cell-to-patient machine learning transfer approach uncovers novel basal-like breast cancer prognostic markers amongst alternative splice variants. BMC Biol 2021 Apr 12;19(1):70. PMID: 33845831
  • Nguyen HTN, Xue H, Firlej V, Ponty Y et al. Reference-free transcriptome signatures for prostate cancer prognosis. BMC Cancer 2021 Apr 12;21(1):394. PMID: 33845808
  • Zhou Z, Wu W, Li J, Liu C et al. Bioinformatics analysis of the expression and role of microRNA-221-3p in head and neck squamous cell carcinoma. BMC Cancer 2021 Apr 12;21(1):395. PMID: 33845800
  • Schmitz K, Trautmann S, Hahnefeld L, Fischer C et al. Sapropterin (BH4) Aggravates Autoimmune Encephalomyelitis in Mice. Neurotherapeutics 2021 Jul;18(3):1862-1879. PMID: 33844153
  • Yang KS, Xu CQ, Lv J et al. Identification and validation of the prognostic value of cyclic GMP-AMP synthase-stimulator of interferon (cGAS-STING) related genes in gastric cancer. Bioengineered 2021 Dec;12(1):1238-1250. PMID: 33843442
  • Liu W, Jiang K, Wang J, Mei T et al. Upregulation of GNPNAT1 Predicts Poor Prognosis and Correlates With Immune Infiltration in Lung Adenocarcinoma. Front Mol Biosci 2021;8:605754. PMID: 33842535
  • Quan Y, Liang F, Deng SM, Zhu Y et al. Mining the Selective Remodeling of DNA Methylation in Promoter Regions to Identify Robust Gene-Level Associations With Phenotype. Front Mol Biosci 2021;8:597513. PMID: 33842534
  • Tong X, Qu X, Wang M et al. A Four-Gene-Based Prognostic Model Predicts Overall Survival in Patients With Cutaneous Melanoma. Front Oncol 2021;11:639874. PMID: 33842346
  • Chen Y, Lin H, Pi YN, Chen XX et al. Development and Validation of a Prognostic Signature Based on Immune Genes in Cervical Cancer. Front Oncol 2021;11:616530. PMID: 33842318
  • Lin Y, Wang Q, Lin Y, Jiang M et al. An immunohistochemical panel of three small ubiquitin-like modifier genes predicts outcomes of patients with triple-negative breast cancer. Gland Surg 2021 Mar;10(3):1067-1084. PMID: 33842251
  • Gao Y, Liu J, Qian X, He X et al. Identification of markers associated with brain metastasis from breast cancer through bioinformatics analysis and verification in clinical samples. Gland Surg 2021 Mar;10(3):924-942. PMID: 33842237
  • Liu M, Sun W, Li C, Yu G et al. A multilayered cross-species analysis of GRAS transcription factors uncovered their functional networks in plant adaptation to the environment. J Adv Res 2021 Mar;29:191-205. PMID: 33842016
  • Liu Z, Gao J, Yang Y, Zhao H et al. Potential targets identified in adenoid cystic carcinoma point out new directions for further research. Am J Transl Res 2021;13(3):1085-1108. PMID: 33841642
  • Zhang S, Xie Y, Tian T, Yang Q et al. High expression levels of centromere protein A plus upregulation of the phosphatidylinositol 3-kinase/Akt/mammalian target of rapamycin signaling pathway affect chemotherapy response and prognosis in patients with breast cancer. Oncol Lett 2021 May;21(5):410. PMID: 33841571
  • Gilanchi S, Zali H, Faranoush M, Rezaei Tavirani M et al. Identification of Candidate Biomarkers for Idiopathic Thrombocytopenic Purpura by Bioinformatics Analysis of Microarray Data. Iran J Pharm Res 2020 Fall;19(4):275-289. PMID: 33841542
  • Ning Z, Yu S, Zhao Y, Sun X et al. Identification of miRNA-Mediated Subpathways as Prostate Cancer Biomarkers Based on Topological Inference in a Machine Learning Process Using Integrated Gene and miRNA Expression Data. Front Genet 2021;12:656526. PMID: 33841512
  • Yan W, Deng XW, Yang C, Tang X et al. The Genome-Wide EMS Mutagenesis Bias Correlates With Sequence Context and Chromatin Structure in Rice. Front Plant Sci 2021;12:579675. PMID: 33841451
  • Moraghebi M, Maleki R, Ahmadi M, Negahi AA et al. In silico Analysis of Polymorphisms in microRNAs Deregulated in Alzheimer Disease. Front Neurosci 2021;15:631852. PMID: 33841080
  • Lee AJ, Jung I et al. Functional annotation of lung cancer‒associated genetic variants by cell type‒specific epigenome and long-range chromatin interactome. Genomics Inform 2021 Mar;19(1):e3. PMID: 33840167
  • Han J, Jung Y, Jun Y, Park S et al. Elucidating molecular mechanisms of acquired resistance to BRAF inhibitors in melanoma using a microfluidic device and deep sequencing. Genomics Inform 2021 Mar;19(1):e2. PMID: 33840166
  • Yang Y, Li G, Xie Y, Wang L et al. iSMNN: batch effect correction for single-cell RNA-seq data via iterative supervised mutual nearest neighbor refinement. Brief Bioinform 2021 Sep 2;22(5). PMID: 33839756
  • Odintsov I, Mattar MS, Lui AJW, Offin M et al. Novel Preclinical Patient-Derived Lung Cancer Models Reveal Inhibition of HER3 and MTOR Signaling as Therapeutic Strategies for NRG1 Fusion-Positive Cancers. J Thorac Oncol 2021 Jul;16(7):1149-1165. PMID: 33839363
  • Jabeena CA, Govindaraju G, Rawat M, Gopi S et al. Dynamic association of the H3K64 trimethylation mark with genes encoding exported proteins in Plasmodium falciparum. J Biol Chem 2021 Jan-Jun;296:100614. PMID: 33839154
  • Xing H, Wu Y, Zhang MQ, Chen Y et al. Deciphering hierarchical organization of topologically associated domains through change-point testing. BMC Bioinformatics 2021 Apr 10;22(1):183. PMID: 33838653
  • Liu Y, Huang Z, Cheng G, Shou Y et al. Development of a four-gene prognostic model for clear cell renal cell carcinoma based on transcriptome analysis. Genomics 2021 Jul;113(4):1816-1827. PMID: 33838279
  • Larsen S, Seidelin JB, Davidsen J, Dahlgaard K et al. CDX2 regulates interleukin-33 gene expression in intestinal epithelial cells (LS174T). FEBS Open Bio 2021 Jun;11(6):1638-1644. PMID: 33838073
  • Mehta GA, Angus SP, Khella CA, Tong K et al. SOX4 and SMARCA4 cooperatively regulate PI3k signaling through transcriptional activation of TGFBR2. NPJ Breast Cancer 2021 Apr 9;7(1):40. PMID: 33837205
  • Brownlie D, Scharenberg M, Mold JE, Hård J et al. Expansions of adaptive-like NK cells with a tissue-resident phenotype in human lung and blood. Proc Natl Acad Sci U S A 2021 Mar 16;118(11). PMID: 33836578
  • Nitzan M, Brenner MP et al. Revealing lineage-related signals in single-cell gene expression using random matrix theory. Proc Natl Acad Sci U S A 2021 Mar 16;118(11). PMID: 33836557
  • Rovito D, Rerra AI, Ueberschlag-Pitiot V, Joshi S et al. Myod1 and GR coordinate myofiber-specific transcriptional enhancers. Nucleic Acids Res 2021 May 7;49(8):4472-4492. PMID: 33836079
  • Zhou X, Liu C, Zeng H, Wu D et al. Identification of a thirteen-gene signature predicting overall survival for hepatocellular carcinoma. Biosci Rep 2021 Apr 30;41(4). PMID: 33835133
  • Swanson E, Lord C, Reading J, Heubeck AT et al. Simultaneous trimodal single-cell measurement of transcripts, epitopes, and chromatin accessibility using TEA-seq. Elife 2021 Apr 9;10. PMID: 33835024
  • Liu L, Huang J, Wei B, Mo J et al. Multiomics Analysis of Genetics and Epigenetics Reveals Pathogenesis and Therapeutic Targets for Atrial Fibrillation. Biomed Res Int 2021;2021:6644827. PMID: 33834070
  • Feng Z, Li K, Wu Y, Peng C et al. Transcriptomic Profiling Identifies DCBLD2 as a Diagnostic and Prognostic Biomarker in Pancreatic Ductal Adenocarcinoma. Front Mol Biosci 2021;8:659168. PMID: 33834039
  • Liu L, Wang H, Xu GL, Liu L et al. Tet1 Deficiency Leads to Premature Ovarian Failure. Front Cell Dev Biol 2021;9:644135. PMID: 33834024
  • Zeng D, Wang M, Wu J, Lin S et al. Immunosuppressive Microenvironment Revealed by Immune Cell Landscape in Pre-metastatic Liver of Colorectal Cancer. Front Oncol 2021;11:620688. PMID: 33833986
  • Zhang M, Li Q, Xie Y et al. A Bayesian hierarchical model for analyzing methylated RNA immunoprecipitation sequencing data. Quant Biol 2018 Sep;6(3):275-286. PMID: 33833899
  • Maseda F, Cang Z, Nie Q et al. DEEPsc: A Deep Learning-Based Map Connecting Single-Cell Transcriptomics and Spatial Imaging Data. Front Genet 2021;12:636743. PMID: 33833776
  • Etayo A, Le HTMD, Araujo P, Lie KK et al. Dietary Lipid Modulation of Intestinal Serotonin in Ballan Wrasse (Labrus bergylta)-In Vitro Analyses. Front Endocrinol (Lausanne) 2021;12:560055. PMID: 33833735
  • Sun J, Zhu X, Zhao Y, Zhou Q et al. CHN1 is a Novel Prognostic Marker for Diffuse Large B-Cell Lymphoma. Pharmgenomics Pers Med 2021;14:397-408. PMID: 33833551
  • Zhong C, Yu Q, Peng Y, Zhou S et al. Novel LncRNA OXCT1-AS1 indicates poor prognosis and contributes to tumorigenesis by regulating miR-195/CDC25A axis in glioblastoma. J Exp Clin Cancer Res 2021 Apr 8;40(1):123. PMID: 33832517
  • Zou H, Xu W, Wang Y, Wang Z et al. A data-driven approach for the discovery of biomarkers associated with thyroid eye disease. BMC Ophthalmol 2021 Apr 9;21(1):166. PMID: 33832456
  • Xi G, Ziyu X, Yiting L, Zonghang L et al. Construction of competing endogenous RNA network and identification of novel molecular biomarkers in colon cancer: A bioinformatic analysis. Medicine (Baltimore) 2021 Apr 9;100(14):e25369. PMID: 33832120
  • He J, Liu K, Hou X, Lu J et al. Identification and validation of key non-coding RNAs and mRNAs using co-expression network analysis in pre-eclampsia. Medicine (Baltimore) 2021 Apr 9;100(14):e25294. PMID: 33832098
  • Hwang JW, Jang SK, Lee DJ et al. Genomic analysis of pancreatic cancer reveals 3 molecular subtypes with different clinical outcomes. Medicine (Baltimore) 2021 Apr 9;100(14):e24969. PMID: 33832071
  • Wu H, Gong K, Qin Y, Yuan Z et al. In silico analysis of the potential mechanism of a preventive Chinese medicine formula on coronavirus disease 2019. J Ethnopharmacol 2021 Jul 15;275:114098. PMID: 33831468
  • Liu J, Sun Y, Zhu B, Lin Y et al. Identification of a potentially novel LncRNA-miRNA-mRNA competing endogenous RNA network in pulmonary arterial hypertension via integrated bioinformatic analysis. Life Sci 2021 Jul 15;277:119455. PMID: 33831428
  • Guo JC, Liu Z, Yang YJ, Guo M et al. KDM5B promotes self-renewal of hepatocellular carcinoma cells through the microRNA-448-mediated YTHDF3/ITGA6 axis. J Cell Mol Med 2021 Apr 7;25(13):5949-62. PMID: 33829656
  • S D A, Pasumarthi D, Pasha A, Doneti R et al. Identification of Differentially Expressed Genes in Cervical Cancer Patients by Comparative Transcriptome Analysis. Biomed Res Int 2021;2021:8810074. PMID: 33829064
  • Yang C, Zhao K, Zhang J, Wu X et al. Comprehensive Analysis of the Transcriptome-Wide m6A Methylome of Heart via MeRIP After Birth: Day 0 vs. Day 7. Front Cardiovasc Med 2021;8:633631. PMID: 33829047
  • Du X, Zhang C, Yin C, Wang W et al. High BLM Expression Predicts Poor Clinical Outcome and Contributes to Malignant Progression in Human Cholangiocarcinoma. Front Oncol 2021;11:633899. PMID: 33828983
  • Visco ZR, Sfakianos G, Grenier C, Boudreau MH et al. Epigenetic Regulation of Claudin-1 in the Development of Ovarian Cancer Recurrence and Drug Resistance. Front Oncol 2021;11:620873. PMID: 33828978
  • Cao S, Wang Y, Li J, Ling X et al. Prognostic Implication of the Expression Level of PECAM-1 in Non-small Cell Lung Cancer. Front Oncol 2021;11:587744. PMID: 33828969
  • Zhang M, Zheng P, Wang Y, Sun B et al. Two predicted models based on ceRNAs and immune cells in lung adenocarcinoma. PeerJ 2021;9:e11029. PMID: 33828913
  • Saha D, Norvil AB, Lanman NA, Gowher H et al. Simplified MethylRAD Sequencing to Detect Changes in DNA Methylation at Enhancer Elements in Differentiating Embryonic Stem Cells. Epigenomes 2020 Dec;4(4). PMID: 33828860
  • Avellaneda J, Rodier C, Daian F, Brouilly N et al. Myofibril and mitochondria morphogenesis are coordinated by a mechanical feedback mechanism in muscle. Nat Commun 2021 Apr 7;12(1):2091. PMID: 33828099
  • Ye Y, Dai Q, Qi H et al. A novel defined pyroptosis-related gene signature for predicting the prognosis of ovarian cancer. Cell Death Discov 2021 Apr 7;7(1):71. PMID: 33828074
  • Wu KE, Yost KE, Chang HY, Zou J et al. BABEL enables cross-modality translation between multiomic profiles at single-cell resolution. Proc Natl Acad Sci U S A 2021 Apr 13;118(15). PMID: 33827925
  • Banchereau R, Chitre AS, Scherl A, Wu TD et al. Intratumoral CD103+ CD8+ T cells predict response to PD-L1 blockade. J Immunother Cancer 2021 Apr;9(4). PMID: 33827905
  • Herrero-Navarro Á, Puche-Aroca L, Moreno-Juan V, Sempere-Ferràndez A et al. Astrocytes and neurons share region-specific transcriptional signatures that confer regional identity to neuronal reprogramming. Sci Adv 2021 Apr;7(15). PMID: 33827819
  • Park SH, Fong KW, Kim J, Wang F et al. Posttranslational regulation of FOXA1 by Polycomb and BUB3/USP7 deubiquitin complex in prostate cancer. Sci Adv 2021 Apr;7(15). PMID: 33827814
  • García-Castro H, Kenny NJ, Iglesias M, Álvarez-Campos P et al. ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics. Genome Biol 2021 Apr 8;22(1):89. PMID: 33827654
  • Prashanth G, Vastrad B, Tengli A, Vastrad C et al. Identification of hub genes related to the progression of type 1 diabetes by computational analysis. BMC Endocr Disord 2021 Apr 7;21(1):61. PMID: 33827531
  • Tresenrider A, Morse K, Jorgensen V, Chia M et al. Integrated genomic analysis reveals key features of long undecoded transcript isoform-based gene repression. Mol Cell 2021 May 20;81(10):2231-2245.e11. PMID: 33826921
  • Swahari V, Nakamura A, Hollville E, Stroud H et al. MicroRNA-29 is an essential regulator of brain maturation through regulation of CH methylation. Cell Rep 2021 Apr 6;35(1):108946. PMID: 33826889
  • Amiri Roudbar M, Mousavi SF, Salek Ardestani S, Lopes FB et al. Prediction of biological age and evaluation of genome-wide dynamic methylomic changes throughout human aging. G3 (Bethesda) 2021 Jul 14;11(7). PMID: 33826720
  • Pascoal PV, Ribeiro DM, Cereijo CR, Santana H et al. Biochemical and phylogenetic characterization of the wastewater tolerant Chlamydomonas biconvexa Embrapa|LBA40 strain cultivated in palm oil mill effluent. PLoS One 2021;16(4):e0249089. PMID: 33826653
  • Zhu Y, Gui W, Tan B, Du Y et al. IGF2 deficiency causes mitochondrial defects in skeletal muscle. Clin Sci (Lond) 2021 Apr 16;135(7):979-990. PMID: 33825857
  • Wang D, Liu Q, Ren Y, Zhang Y et al. Association analysis of miRNA-related genetic polymorphisms in miR-143/145 and KRAS with colorectal cancer susceptibility and survival. Biosci Rep 2021 Apr 30;41(4). PMID: 33825830
  • Zhang J, Wang X, Li G, He J et al. COPB2: A Novel Prognostic Biomarker That Affects Progression of HCC. Biomed Res Int 2021;2021:6648078. PMID: 33824874
  • Kassambara A, Herviou L, Ovejero S, Jourdan M et al. RNA-sequencing data-driven dissection of human plasma cell differentiation reveals new potential transcription regulators. Leukemia 2021 May;35(5):1451-1462. PMID: 33824465
  • Feng Z, Duren Z, Xiong Z, Wang S et al. hReg-CNCC reconstructs a regulatory network in human cranial neural crest cells and annotates variants in a developmental context. Commun Biol 2021 Apr 6;4(1):442. PMID: 33824393
  • Chen Z, Zhang D, Reynolds RH, Gustavsson EK et al. Human-lineage-specific genomic elements are associated with neurodegenerative disease and APOE transcript usage. Nat Commun 2021 Apr 6;12(1):2076. PMID: 33824317
  • Wang Z, Wang X, Zhang T, Su L et al. LncRNA MALAT1 promotes gastric cancer progression via inhibiting autophagic flux and inducing fibroblast activation. Cell Death Dis 2021 Apr 6;12(4):368. PMID: 33824303
  • Gu X, Zhang J, Ran Y, Pan H et al. Circular RNA hsa_circ_101555 promotes hepatocellular carcinoma cell proliferation and migration by sponging miR-145-5p and regulating CDCA3 expression. Cell Death Dis 2021 Apr 6;12(4):356. PMID: 33824281
  • Zhang Y, Yan Y, Ning N, Shen Z et al. A signature of 24 aging‑related gene pairs predict overall survival in gastric cancer. Biomed Eng Online 2021 Apr 6;20(1):35. PMID: 33823856
  • Wang S, Deng J, Gao X, Lv H et al. Screening a Prognosis-Related Target Gene in Patients with HER-2-Positive Breast Cancer by Bioinformatics Analysis. Med Princ Pract 2021;30(4):376-384. PMID: 33823519
  • Li D, Liu Q, Schnable PS et al. TWAS results are complementary to and less affected by linkage disequilibrium than GWAS. Plant Physiol 2021 Aug 3;186(4):1800-1811. PMID: 33823025
  • Huang K, Wang C, Vagts C, Raguveer V et al. Long non-coding RNAs (lncRNAs) NEAT1 and MALAT1 are differentially expressed in severe COVID-19 patients: An integrated single cell analysis. medRxiv 2021 Jul 31 PMID: 33821282
  • Le BL, Andreoletti G, Oskotsky T, Vallejo-Gracia A et al. Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19. Res Sq 2021 Mar 30 PMID: 33821262
  • Zhang C, Yin K, Liu SY, Yan LX et al. Multiomics analysis reveals a distinct response mechanism in multiple primary lung adenocarcinoma after neoadjuvant immunotherapy. J Immunother Cancer 2021 Apr;9(4). PMID: 33820821
  • Jiang P, Yang F, Zou C, Bao T et al. The construction and analysis of a ferroptosis-related gene prognostic signature for pancreatic cancer. Aging (Albany NY) 2021 Apr 4;13(7):10396-10414. PMID: 33819918
  • Dinalankara W, Ke Q, Geman D, Marchionni L et al. An R package for divergence analysis of omics data. PLoS One 2021;16(4):e0249002. PMID: 33819273
  • Lin J, Maimaitiyiming A, Chen S, Xiao M et al. Hypoxia-induced miR-27 and miR-195 regulate ATP consumption, viability, and metabolism of rat cardiomyocytes by targeting PPARγ and FASN expression. Aging (Albany NY) 2021 Mar 26;13(7):10158-10174. PMID: 33819184
  • Martin A, Liu J, Thatiparthi A, Wu JJ et al. Free open access data sources for dermatology researchers. Dermatol Online J 2021 Feb 15;27(2). PMID: 33818976
  • Fang Q, Wang Q, Zhou Z, Xie A et al. Consensus analysis via weighted gene co-expression network analysis (WGCNA) reveals genes participating in early phase of acute respiratory distress syndrome (ARDS) induced by sepsis. Bioengineered 2021 Dec;12(1):1161-1172. PMID: 33818300
  • Pan Q, Qin F, Yuan H, He B et al. Normal tissue adjacent to tumor expression profile analysis developed and validated a prognostic model based on Hippo-related genes in hepatocellular carcinoma. Cancer Med 2021 May;10(9):3139-3152. PMID: 33818013
  • Heilbrun EE, Merav M, Adar S et al. Exons and introns exhibit transcriptional strand asymmetry of dinucleotide distribution, damage formation and DNA repair. NAR Genom Bioinform 2021 Mar;3(1):lqab020. PMID: 33817640
  • Zhang K, Zhang X et al. MiR-146b-3p protects against AR42J cell injury in cerulein-induced acute pancreatitis model through targeting Anxa2. Open Life Sci 2021;16(1):255-265. PMID: 33817317
  • Zhang SJ, Wang Y, Yang YL, Zheng H et al. Aberrant DNA Methylation Involved in Obese Women with Systemic Insulin Resistance. Open Life Sci 2018 Jan;13:201-207. PMID: 33817084
  • Zeng Y, Li N, Zheng Z, Chen R et al. Screening of Hub Genes Associated with Pulmonary Arterial Hypertension by Integrated Bioinformatic Analysis. Biomed Res Int 2021;2021:6626094. PMID: 33816621
  • Tian LL, Qian B, Jiang XH, Liu YS et al. MicroRNA-497-5p Is Downregulated in Hepatocellular Carcinoma and Associated with Tumorigenesis and Poor Prognosis in Patients. Int J Genomics 2021;2021:6670390. PMID: 33816607
  • Zheng Y, Tian H, Zhou Z, Xiao C et al. A Novel Immune-Related Prognostic Model for Response to Immunotherapy and Survival in Patients With Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:651406. PMID: 33816503
  • Liu G, Liu Z, Sun X, Xia X et al. Pan-Cancer Genome-Wide DNA Methylation Analyses Revealed That Hypermethylation Influences 3D Architecture and Gene Expression Dysregulation in HOXA Locus During Carcinogenesis of Cancers. Front Cell Dev Biol 2021;9:649168. PMID: 33816499
  • Fu Y, Bao Q, Liu Z, He G et al. Development and Validation of a Hypoxia-Associated Prognostic Signature Related to Osteosarcoma Metastasis and Immune Infiltration. Front Cell Dev Biol 2021;9:633607. PMID: 33816483
  • Peng Y, Wang W, Fang Y, Hu H et al. Inhibition of TGF-β/Smad3 Signaling Disrupts Cardiomyocyte Cell Cycle Progression and Epithelial-Mesenchymal Transition-Like Response During Ventricle Regeneration. Front Cell Dev Biol 2021;9:632372. PMID: 33816481
  • Tang M, Li Y, Luo X, Xiao J et al. Identification of Biomarkers Related to CD8(+) T Cell Infiltration With Gene Co-expression Network in Lung Squamous Cell Carcinoma. Front Cell Dev Biol 2021;9:606106. PMID: 33816462
  • Chen Y, Wang Q, Lin S, Lai J et al. Meta-Analysis of Peripheral Blood Transcriptome Datasets Reveals a Biomarker Panel for Tuberculosis in Patients Infected With HIV. Front Cell Infect Microbiol 2021;11:585919. PMID: 33816327
  • Lee H, Na KJ, Choi H et al. Differences in Tumor Immune Microenvironment in Metastatic Sites of Breast Cancer. Front Oncol 2021;11:649004. PMID: 33816302
  • Chu H, Han N, Xu J et al. CMPK1 Regulated by miR-130b Attenuates Response to 5-FU Treatment in Gastric Cancer. Front Oncol 2021;11:637470. PMID: 33816278
  • Qin C, Pan Y, Li Y, Li Y et al. Novel Molecular Hallmarks of Group 3 Medulloblastoma by Single-Cell Transcriptomics. Front Oncol 2021;11:622430. PMID: 33816256
  • Fan X, Xie X, Yang M, Wang Y et al. YBX3 Mediates the Metastasis of Nasopharyngeal Carcinoma via PI3K/AKT Signaling. Front Oncol 2021;11:617621. PMID: 33816248
  • Li Z, Wang H, Dong R, Man J et al. Single-Cell RNA-seq Reveals Characteristics of Malignant Cells and Immune Microenvironment in Subcutaneous Panniculitis-Like T-Cell Lymphoma. Front Oncol 2021;11:611580. PMID: 33816243
  • Ren X, Chen X, Fang K, Zhang X et al. COL5A2 Promotes Proliferation and Invasion in Prostate Cancer and Is One of Seven Gleason-Related Genes That Predict Recurrence-Free Survival. Front Oncol 2021;11:583083. PMID: 33816226
  • Ning ZK, Hu CG, Huang C, Liu J et al. Molecular Subtypes and CD4(+) Memory T Cell-Based Signature Associated With Clinical Outcomes in Gastric Cancer. Front Oncol 2020;10:626912. PMID: 33816214
  • Wang W, Song F, Feng X, Chu X et al. Functional Interrogation of Enhancer Connectome Prioritizes Candidate Target Genes at Ovarian Cancer Susceptibility Loci. Front Genet 2021;12:646179. PMID: 33815481
  • Zhang Y, Shen L, Shi Q, Zhao G et al. Comprehensive Analysis of APA Events and Their Association With Tumor Microenvironment in Lung Adenocarcinoma. Front Genet 2021;12:645360. PMID: 33815479
  • Hong C, Yang S, Wang Q, Zhang S et al. Epigenetic Age Acceleration of Stomach Adenocarcinoma Associated With Tumor Stemness Features, Immunoactivation, and Favorable Prognosis. Front Genet 2021;12:563051. PMID: 33815458
  • Maul RW, Catalina MD, Kumar V, Bachali P et al. Transcriptome and IgH Repertoire Analyses Show That CD11c(hi) B Cells Are a Distinct Population With Similarity to B Cells Arising in Autoimmunity and Infection. Front Immunol 2021;12:649458. PMID: 33815408
  • Le Berre L, Chesneau M, Danger R, Dubois F et al. Connection of BANK1, Tolerance, Regulatory B cells, and Apoptosis: Perspectives of a Reductionist Investigation. Front Immunol 2021;12:589786. PMID: 33815360
  • Dieter C, Lemos NE, Corrêa NRF, Assmann TS et al. The Impact of lncRNAs in Diabetes Mellitus: A Systematic Review and In Silico Analyses. Front Endocrinol (Lausanne) 2021;12:602597. PMID: 33815273
  • Sohrabi E, Rezaie E, Heiat M, Sefidi-Heris Y et al. An Integrated Data Analysis of mRNA, miRNA and Signaling Pathways in Pancreatic Cancer. Biochem Genet 2021 Oct;59(5):1326-1358. PMID: 33813720
  • Westin AT, Gardinassi LG, Soares EG, Da Silva JS et al. HLA-G, cytokines, and cytokine receptors in the non-aggressive basal cell carcinoma microenvironment. Arch Dermatol Res 2022 Apr;314(3):247-256. PMID: 33811555
  • Wang S, Sun K, Hu H, Jin X et al. MiR-1297 attenuates high glucose-induced injury in HK-2 cells via targeting COL1A2. Nephrology (Carlton) 2021 Jul;26(7):623-631. PMID: 33811432
  • Emeline CB, Ludovic D, Laurent V, Catherine L et al. Induction of Phlorotannins and Gene Expression in the Brown Macroalga Fucus vesiculosus in Response to the Herbivore Littorina littorea. Mar Drugs 2021 Mar 26;19(4). PMID: 33810577
  • Czerwinska P, Wlodarczyk NA, Jaworska AM, Mackiewicz AA et al. The Association between TIF1 Family Members and Cancer Stemness in Solid Tumors. Cancers (Basel) 2021 Mar 26;13(7). PMID: 33810347
  • Park HR, Choi HJ, Kim BS, Chung TW et al. Paeoniflorin Enhances Endometrial Receptivity through Leukemia Inhibitory Factor. Biomolecules 2021 Mar 16;11(3). PMID: 33809755
  • Kim SH, Kim SJ, Park J, Joe Y et al. Reprograming of Tumor-Associated Macrophages in Breast Tumor-Bearing Mice under Chemotherapy by Targeting Heme Oxygenase-1. Antioxidants (Basel) 2021 Mar 16;10(3). PMID: 33809707
  • Liu F, Simasotchi C, Vibert F, Zhu W et al. Age and Sex-Related Changes in Human First-Trimester Placenta Transcriptome and Insights into Adaptative Responses to Increased Oxygen. Int J Mol Sci 2021 Mar 12;22(6). PMID: 33809345
  • Cheng SW, Chen PC, Ger TR, Chiu HW et al. GBP5 Serves as a Potential Marker to Predict a Favorable Response in Triple-Negative Breast Cancer Patients Receiving a Taxane-Based Chemotherapy. J Pers Med 2021 Mar 12;11(3). PMID: 33809079
  • Mertens C, Schnetz M, Rehwald C, Grein S et al. Iron-Bound Lipocalin-2 from Tumor-Associated Macrophages Drives Breast Cancer Progression Independent of Ferroportin. Metabolites 2021 Mar 19;11(3). PMID: 33808732
  • Scagliotti V, Costa Fernandes Esse R, Willis TL, Howard M et al. Dynamic Expression of Imprinted Genes in the Developing and Postnatal Pituitary Gland. Genes (Basel) 2021 Mar 30;12(4). PMID: 33808370
  • Park S, Lee HY, Kim J, Park H et al. Cerebral Cavernous Malformation 1 Determines YAP/TAZ Signaling-Dependent Metastatic Hallmarks of Prostate Cancer Cells. Cancers (Basel) 2021 Mar 5;13(5). PMID: 33807895
  • Bartha Á, Győrffy B et al. TNMplot.com: A Web Tool for the Comparison of Gene Expression in Normal, Tumor and Metastatic Tissues. Int J Mol Sci 2021 Mar 5;22(5). PMID: 33807717
  • Liu F, Qian J, Ma C et al. MPscore: A Novel Predictive and Prognostic Scoring for Progressive Meningioma. Cancers (Basel) 2021 Mar 5;13(5). PMID: 33807688
  • Hsu SY, Morris R, Cheng F et al. Signaling Pathways Regulated by Silica Nanoparticles. Molecules 2021 Mar 5;26(5). PMID: 33807638
  • Zeng P, Wang XM, Ye CY, Su HF et al. The Main Alkaloids in Uncaria rhynchophylla and Their Anti-Alzheimer's Disease Mechanism Determined by a Network Pharmacology Approach. Int J Mol Sci 2021 Mar 31;22(7). PMID: 33807157
  • Li S, Cao P, Wang C, Guo J et al. Genome-Wide Analysis of Tubulin Gene Family in Cassava and Expression of Family Member FtsZ2-1 during Various Stress. Plants (Basel) 2021 Mar 31;10(4). PMID: 33807152
  • Kumar S, Curran JE, Kumar K, DeLeon E et al. Disease Modeling and Disease Gene Discovery in Cardiomyopathies: A Molecular Study of Induced Pluripotent Stem Cell Generated Cardiomyocytes. Int J Mol Sci 2021 Mar 24;22(7). PMID: 33805011
  • Silva CMS, Barros-Filho MC, Wong DVT, Mello JBH et al. Circulating let-7e-5p, miR-106a-5p, miR-28-3p, and miR-542-5p as a Promising microRNA Signature for the Detection of Colorectal Cancer. Cancers (Basel) 2021 Mar 24;13(7). PMID: 33804927
  • Iegiani G, Gai M, Di Cunto F, Pallavicini G et al. CENPE Inhibition Leads to Mitotic Catastrophe and DNA Damage in Medulloblastoma Cells. Cancers (Basel) 2021 Mar 1;13(5). PMID: 33804489
  • Arya KR, Bharath Chand RP, Abhinand CS, Nair AS et al. Identification of Hub Genes and Key Pathways Associated with Anti-VEGF Resistant Glioblastoma Using Gene Expression Data Analysis. Biomolecules 2021 Mar 9;11(3). PMID: 33803224
  • Liang Z, Zhang Y, Chen Q, Hao J et al. Analysis of MCM Proteins' Role as a Potential Target of Statins in Patients with Acute Type A Aortic Dissection through Bioinformatics. Genes (Basel) 2021 Mar 9;12(3). PMID: 33803192
  • Yeh SJ, Hsu BJ, Chen BS et al. Systems Medicine Design for Triple-Negative Breast Cancer and Non-Triple-Negative Breast Cancer Based on Systems Identification and Carcinogenic Mechanisms. Int J Mol Sci 2021 Mar 17;22(6). PMID: 33802957
  • Mukherjee S, Banerjee B, Karasik D, Frenkel-Morgenstern M et al. mRNA-lncRNA Co-Expression Network Analysis Reveals the Role of lncRNAs in Immune Dysfunction during Severe SARS-CoV-2 Infection. Viruses 2021 Mar 3;13(3). PMID: 33802569
  • Zangrossi M, Romani P, Chakravarty P, Ratcliffe CDH et al. EphB6 Regulates TFEB-Lysosomal Pathway and Survival of Disseminated Indolent Breast Cancer Cells. Cancers (Basel) 2021 Mar 3;13(5). PMID: 33802447
  • Misono S, Mizuno K, Suetsugu T, Tanigawa K et al. Molecular Signature of Small Cell Lung Cancer after Treatment Failure: The MCM Complex as Therapeutic Target. Cancers (Basel) 2021 Mar 10;13(6). PMID: 33801812
  • De Cecco L, Bagnoli M, Chiodini P, Pignata S et al. Prognostic Evidence of the miRNA-Based Ovarian Cancer Signature MiROvaR in Independent Datasets. Cancers (Basel) 2021 Mar 27;13(7). PMID: 33801595
  • García-Mulero S, Alonso MH, Del Carpio LP, Sanz-Pamplona R et al. Additive Role of Immune System Infiltration and Angiogenesis in Uveal Melanoma Progression. Int J Mol Sci 2021 Mar 6;22(5). PMID: 33800878
  • Morimoto T, Nakazawa T, Matsuda R, Nishimura F et al. CRISPR-Cas9-Mediated TIM3 Knockout in Human Natural Killer Cells Enhances Growth Inhibitory Effects on Human Glioma Cells. Int J Mol Sci 2021 Mar 28;22(7). PMID: 33800561
  • Morani F, Bisceglia L, Rosini G, Mutti L et al. Identification of Overexpressed Genes in Malignant Pleural Mesothelioma. Int J Mol Sci 2021 Mar 8;22(5). PMID: 33800494
  • Lee SB, Park YS, Sung JS, Lee JW et al. Tumor Suppressor miR-584-5p Inhibits Migration and Invasion in Smoking Related Non-Small Cell Lung Cancer Cells by Targeting YKT6. Cancers (Basel) 2021 Mar 8;13(5). PMID: 33800298
  • Nalbandian M, Zhao M, Sasaki-Honda M, Jonouchi T et al. Characterization of hiPSC-Derived Muscle Progenitors Reveals Distinctive Markers for Myogenic Cell Purification Toward Cell Therapy. Stem Cell Reports 2021 Apr 13;16(4):883-898. PMID: 33798449
  • Li D, Hu W, Lin X, Zhang J et al. CARD-Associated Risk Score Features the Immune Landscape and Predicts the Responsiveness to Anti-PD-1 Therapy in IDH Wild-Type Gliomas. Front Cell Dev Biol 2021;9:653240. PMID: 33796538
  • Zhu H, Sun H, Yu D, Li T et al. Transcriptome and DNA Methylation Profiles of Mouse Fetus and Placenta Generated by Round Spermatid Injection. Front Cell Dev Biol 2021;9:632183. PMID: 33796527
  • Lv D, Wu X, Wang M, Chen W et al. Functional Assessment of Four Novel Immune-Related Biomarkers in the Pathogenesis of Clear Cell Renal Cell Carcinoma. Front Cell Dev Biol 2021;9:621618. PMID: 33796525
  • Singh K, Chen YC, Hassanzadeh S, Han K et al. Network Analysis and Transcriptome Profiling Identify Autophagic and Mitochondrial Dysfunctions in SARS-CoV-2 Infection. Front Genet 2021;12:599261. PMID: 33796130
  • Zong L, Zheng S, Meng Y, Tang W et al. Integrated Transcriptomic Analysis of the miRNA-mRNA Interaction Network in Thin Endometrium. Front Genet 2021;12:589408. PMID: 33796129
  • Reiche L, Göttle P, Lane L, Duek P et al. C21orf91 Regulates Oligodendroglial Precursor Cell Fate-A Switch in the Glial Lineage? Front Cell Neurosci 2021;15:653075. PMID: 33796011
  • Ing-Simmons E, Vaid R, Bing XY, Levine M et al. Independence of chromatin conformation and gene regulation during Drosophila dorsoventral patterning. Nat Genet 2021 Apr;53(4):487-499. PMID: 33795866
  • Kang JA, Kwak JS, Park SH, Sim KY et al. ZIP8 exacerbates collagen-induced arthritis by increasing pathogenic T cell responses. Exp Mol Med 2021 Apr;53(4):560-571. PMID: 33795795
  • Mishra B, Athar M, Mukhtar MS et al. Transcriptional circuitry atlas of genetic diverse unstimulated murine and human macrophages define disparity in population-wide innate immunity. Sci Rep 2021 Apr 1;11(1):7373. PMID: 33795737
  • Linnakoski R, Sutela S, Coetzee MPA, Duong TA et al. Armillaria root rot fungi host single-stranded RNA viruses. Sci Rep 2021 Apr 1;11(1):7336. PMID: 33795735
  • Jeong H, Mendizabal I, Berto S, Chatterjee P et al. Evolution of DNA methylation in the human brain. Nat Commun 2021 Apr 1;12(1):2021. PMID: 33795684
  • Huang F, Guo H, Wei Y, Zhao X et al. In Silico Network Analysis of Ingredients of Cornus officinalis in Osteoporosis. Med Sci Monit 2021 Apr 2;27:e929219. PMID: 33795629
  • Kim MJ, Lee HJ, Choi MY, Kang SS et al. UHRF1 Induces Methylation of the TXNIP Promoter and Down-Regulates Gene Expression in Cervical Cancer. Mol Cells 2021 Mar 31;44(3):146-159. PMID: 33795533
  • Dondero A, Morini M, Cangelosi D, Mazzocco K et al. Multiparametric flow cytometry highlights B7-H3 as a novel diagnostic/therapeutic target in GD2neg/low neuroblastoma variants. J Immunother Cancer 2021 Apr;9(4). PMID: 33795387
  • Pillay S, Takahashi H, Carninci P, Kanhere A et al. Antisense RNAs during early vertebrate development are divided in groups with distinct features. Genome Res 2021 Jun;31(6):995-1010. PMID: 33795334
  • Connacher J, Josling GA, Orchard LM, Reader J et al. H3K36 methylation reprograms gene expression to drive early gametocyte development in Plasmodium falciparum. Epigenetics Chromatin 2021 Apr 1;14(1):19. PMID: 33794978
  • Zheng W, Chen C, Yu J, Jin C et al. An energy metabolism-based eight-gene signature correlates with the clinical outcome of esophagus carcinoma. BMC Cancer 2021 Apr 1;21(1):345. PMID: 33794814
  • Zheng S, Zhang Z, Ding N, Sun J et al. Identification of the angiogenesis related genes for predicting prognosis of patients with gastric cancer. BMC Gastroenterol 2021 Apr 1;21(1):146. PMID: 33794777
  • Li Z, Deng X, Lan Y et al. Identification of a potentially functional circRNA-miRNA-mRNA regulatory network in type 2 diabetes mellitus by integrated microarray analysis. Minerva Endocrinol (Torino) 2021 Apr 1 PMID: 33792237
  • Zhao X, Zou J, Wang Z, Li G et al. Identifying Novel Cell Glycolysis-Related Gene Signature Predictive of Overall Survival in Gastric Cancer. Biomed Res Int 2021;2021:9656947. PMID: 33791386
  • Chen XY, Liang R, Yi YC, Fan HN et al. The m(6)A Reader YTHDF1 Facilitates the Tumorigenesis and Metastasis of Gastric Cancer via USP14 Translation in an m(6)A-Dependent Manner. Front Cell Dev Biol 2021;9:647702. PMID: 33791305
  • Kim BK, Yoon YS, Ryu Y, Chung MJ et al. Probiotic-derived p8 protein induce apoptosis via regulation of RNF152 in colorectal cancer cells. Am J Cancer Res 2021;11(3):746-759. PMID: 33791151
  • Liu J, Chen Z, Li W et al. Machine Learning for Building Immune Genetic Model in Hepatocellular Carcinoma Patients. J Oncol 2021;2021:6676537. PMID: 33790969
  • Cui L, Wang B, Ren C, Wang A et al. A Novel Method to Identify the Differences Between Two Single Cell Groups at Single Gene, Gene Pair, and Gene Module Levels. Front Genet 2021;12:648898. PMID: 33790951
  • Liu Z, Zhang H, Hu H, Cai Z et al. A Novel Six-mRNA Signature Predicts Survival of Patients With Glioblastoma Multiforme. Front Genet 2021;12:634116. PMID: 33790946
  • Chin WY, He CY, Chow TW, Yu QY et al. Adenylate Kinase 4 Promotes Inflammatory Gene Expression via Hif1α and AMPK in Macrophages. Front Immunol 2021;12:630318. PMID: 33790902
  • Pellegrini C, Pirazzini C, Sala C, Sambati L et al. A Meta-Analysis of Brain DNA Methylation Across Sex, Age, and Alzheimer's Disease Points for Accelerated Epigenetic Aging in Neurodegeneration. Front Aging Neurosci 2021;13:639428. PMID: 33790779
  • Anirudhan A, Angulo-Bejarano PI, Paramasivam P, Manokaran K et al. RPL6: A Key Molecule Regulating Zinc- and Magnesium-Bound Metalloproteins of Parkinson's Disease. Front Neurosci 2021;15:631892. PMID: 33790735
  • Liu C, Guo P, Zhou L, Wang Y et al. A practical method to screen and identify functioning biomarkers in nasopharyngeal carcinoma. Sci Rep 2021 Mar 31;11(1):7294. PMID: 33790390
  • Rajan C, Roshan VGD, Khan I, Manasa VG et al. MiRNA expression profiling and emergence of new prognostic signature for oral squamous cell carcinoma. Sci Rep 2021 Mar 31;11(1):7298. PMID: 33790326
  • Li YK, Hsu HM, Lin MC, Chang CW et al. Genetic co-expression networks contribute to creating predictive model and exploring novel biomarkers for the prognosis of breast cancer. Sci Rep 2021 Mar 31;11(1):7268. PMID: 33790307
  • Xhonneux LP, Knight O, Lernmark Å, Bonifacio E et al. Transcriptional networks in at-risk individuals identify signatures of type 1 diabetes progression. Sci Transl Med 2021 Mar 31;13(587). PMID: 33790023
  • Pfeiffer JR, Bustamante AC, Kim GS, Armstrong D et al. Associations between childhood family emotional health, fronto-limbic grey matter volume, and saliva 5mC in young adulthood. Clin Epigenetics 2021 Mar 31;13(1):68. PMID: 33789736
  • Zheng W, Ye W, Wu Z, Huang X et al. Identification of potential plasma biomarkers in early-stage nasopharyngeal carcinoma-derived exosomes based on RNA sequencing. Cancer Cell Int 2021 Mar 31;21(1):185. PMID: 33789676
  • Gao W, Li L, Han X, Liu S et al. Comprehensive analysis of immune-related prognostic genes in the tumour microenvironment of hepatocellular carcinoma. BMC Cancer 2021 Mar 31;21(1):331. PMID: 33789609
  • Chen P, Chen J, He L, Du C et al. Identification of circRNA-miRNA-mRNA Regulatory Network in Bladder Cancer by Integrated Analysis. Urol Int 2021;105(7-8):705-715. PMID: 33789319
  • Mich JK, Graybuck LT, Hess EE, Mahoney JT et al. Functional enhancer elements drive subclass-selective expression from mouse to primate neocortex. Cell Rep 2021 Mar 30;34(13):108754. PMID: 33789096
  • Delacher M, Simon M, Sanderink L, Hotz-Wagenblatt A et al. Single-cell chromatin accessibility landscape identifies tissue repair program in human regulatory T cells. Immunity 2021 Apr 13;54(4):702-720.e17. PMID: 33789089
  • Liu J, Liang L, Li X, Peng YL et al. AICAR suppresses cell proliferation and synergizes with decitabine in myelodysplastic syndrome via DNA damage induction. Biotechnol Lett 2021 Jun;43(6):1131-1142. PMID: 33788127
  • Ni M, Zhao Y, Wang X et al. Suppression of synuclein gamma inhibits the movability of endometrial carcinoma cells by PI3K/AKT/ERK signaling pathway. Genes Genomics 2021 Jun;43(6):633-641. PMID: 33788083
  • Hu Y, Li B, Chen F, Qu K et al. Single-cell data clustering based on sparse optimization and low-rank matrix factorization. G3 (Bethesda) 2021 Jun 17;11(6). PMID: 33787873
  • Lou X, Wang JJ, Wei YQ, He YJ et al. Identification of molecular heterogeneity of hepatocellular carcinoma based on immune gene expression signatures. Med Oncol 2021 Mar 31;38(5):50. PMID: 33786682
  • Campbell KJ, Mason SM, Winder ML, Willemsen RBE et al. Breast cancer dependence on MCL-1 is due to its canonical anti-apoptotic function. Cell Death Differ 2021 Sep;28(9):2589-2600. PMID: 33785871
  • Ferreira-Gomes M, Kruglov A, Durek P, Heinrich F et al. SARS-CoV-2 in severe COVID-19 induces a TGF-β-dominated chronic immune response that does not target itself. Nat Commun 2021 Mar 30;12(1):1961. PMID: 33785765
  • Baca SC, Takeda DY, Seo JH, Hwang J et al. Reprogramming of the FOXA1 cistrome in treatment-emergent neuroendocrine prostate cancer. Nat Commun 2021 Mar 30;12(1):1979. PMID: 33785741
  • Yang B, Gu A, Wu Y et al. High EIF4E2 expression is an independent prognostic risk factor for poor overall survival and recurrence-free survival in uveal melanoma. Exp Eye Res 2021 May;206:108558. PMID: 33785306
  • [No authors listed]Proceedings of the Canadian Society of Allergy and Clinical Immunology Annual Scientific Meeting 2020. Allergy Asthma Clin Immunol 2021 Mar 31;17(Suppl 1):33. PMID: 33785055
  • Zhang YC, Qin XL, Ma XL, Mo HQ et al. CLDN1 regulates trophoblast apoptosis and proliferation in preeclampsia. Reproduction 2021 May 5;161(6):623-632. PMID: 33784242
  • Chen Z, Huang Y, Hu Z, Zhao M et al. Landscape and dynamics of single tumor and immune cells in early and advanced-stage lung adenocarcinoma. Clin Transl Med 2021 Mar;11(3):e350. PMID: 33783985
  • Le L, Luo J, Wu H, Chen L et al. Overexpression of <em>MYBL2</em> predicts poor prognosis and promotes oncogenesis in endometrial carcinoma. Eur J Histochem 2021 Mar 30;65(2). PMID: 33782625
  • Shang M, Yang H, Yang R, Chen T et al. The folate cycle enzyme MTHFD2 induces cancer immune evasion through PD-L1 up-regulation. Nat Commun 2021 Mar 29;12(1):1940. PMID: 33782411
  • Zhu G, Luo H, Feng Y, Guryanova OA et al. HOXBLINC long non-coding RNA activation promotes leukemogenesis in NPM1-mutant acute myeloid leukemia. Nat Commun 2021 Mar 29;12(1):1956. PMID: 33782403
  • Sui Q, Liu D, Jiang W, Tang J et al. Dickkopf 1 impairs the tumor response to PD-1 blockade by inactivating CD8+ T cells in deficient mismatch repair colorectal cancer. J Immunother Cancer 2021 Mar;9(3). PMID: 33782107
  • Zhang X, Zhang L, Ji M, Wu Y et al. Genome-wide identification and expression analysis of the B-box transcription factor gene family in grapevine (Vitis vinifera L.). BMC Genomics 2021 Mar 29;22(1):221. PMID: 33781207
  • Chen X, Ma J et al. Weighted gene co-expression network analysis (WGCNA) to explore genes responsive to Streptococcus oralis biofilm and immune infiltration analysis in human gingival fibroblasts cells. Bioengineered 2021 Dec;12(1):1054-1065. PMID: 33781179
  • Espinoza JL, Dupont CL, O'Rourke A, Beyhan S et al. Predicting antimicrobial mechanism-of-action from transcriptomes: A generalizable explainable artificial intelligence approach. PLoS Comput Biol 2021 Mar;17(3):e1008857. PMID: 33780444
  • Wang T, Sun W, Fan L, Hua C et al. An atlas of the binding specificities of transcription factors in Pseudomonas aeruginosa directs prediction of novel regulators in virulence. Elife 2021 Mar 29;10. PMID: 33779544
  • Chou LF, Chen TW, Yang HY, Tian YC et al. Transcriptomic signatures of exacerbated progression in leptospirosis subclinical chronic kidney disease with secondary nephrotoxic injury. Am J Physiol Renal Physiol 2021 May 1;320(5):F1001-F1018. PMID: 33779314
  • Thomas ZV, Wang Z, Zang C et al. BART Cancer: a web resource for transcriptional regulators in cancer genomes. NAR Cancer 2021 Mar;3(1):zcab011. PMID: 33778495
  • Mendieta-Esteban J, Di Stefano M, Castillo D, Farabella I et al. 3D reconstruction of genomic regions from sparse interaction data. NAR Genom Bioinform 2021 Mar;3(1):lqab017. PMID: 33778492
  • Peng M, Khosravi C, Lubbers RJM, Kun RS et al. CreA-mediated repression of gene expression occurs at low monosaccharide levels during fungal plant biomass conversion in a time and substrate dependent manner. Cell Surf 2021 Dec;7:100050. PMID: 33778219
  • Meng X, Cui J, He G et al. Bcl-2 Is Involved in Cardiac Hypertrophy through PI3K-Akt Pathway. Biomed Res Int 2021;2021:6615502. PMID: 33778070
  • Sun S, Guo W, Lv F, Zhang G et al. Comprehensive Analysis of Ferroptosis Regulators in Lung Adenocarcinomas Identifies Prognostic and Immunotherapy-Related Biomarkers. Front Mol Biosci 2021;8:587436. PMID: 33778001
  • Cao Y, Jiao N, Sun T, Ma Y et al. CXCL11 Correlates With Antitumor Immunity and an Improved Prognosis in Colon Cancer. Front Cell Dev Biol 2021;9:646252. PMID: 33777950
  • Shao Y, Kong J, Xu H, Wu X et al. OPCML Methylation and the Risk of Ovarian Cancer: A Meta and Bioinformatics Analysis. Front Cell Dev Biol 2021;9:570898. PMID: 33777925
  • Peng X, Chen R, Cai S, Lu S et al. SLC1A4: A Powerful Prognostic Marker and Promising Therapeutic Target for HCC. Front Oncol 2021;11:650355. PMID: 33777811
  • Sungwan P, Lert-Itthiporn W, Silsirivanit A, Klinhom-On N et al. Bioinformatics analysis identified CDC20 as a potential drug target for cholangiocarcinoma. PeerJ 2021;9:e11067. PMID: 33777535
  • Xi X, Ma Y, Xu Y, Ogbuehi AC et al. The Genetic and Epigenetic Mechanisms Involved in Irreversible Pulp Neural Inflammation. Dis Markers 2021;2021:8831948. PMID: 33777260
  • Liu J, Liu Z, Li W, Zhang S et al. SOCS2 is a potential prognostic marker that suppresses the viability of hepatocellular carcinoma cells. Oncol Lett 2021 May;21(5):399. PMID: 33777222
  • Xu Y, Ding L, Wang Z, Wang Y et al. Virtual Screening of Cablin Patchouli Herb as a Treatment for Heat Stress: A Study Based on Network Pharmacology, Molecular Docking, and Experimental Verification. Evid Based Complement Alternat Med 2021;2021:8057587. PMID: 33777163
  • Wei D, Shen S, Lin K, Lu F et al. NPC2 as a Prognostic Biomarker for Glioblastoma Based on Integrated Bioinformatics Analysis and Cytological Experiments. Front Genet 2021;12:611442. PMID: 33777094
  • Yao L, Cong R, Ji C, Zhou X et al. RNA-Binding Proteins Play an Important Role in the Prognosis of Patients With Testicular Germ Cell Tumor. Front Genet 2021;12:610291. PMID: 33777092
  • Li A, Hou S, Chen J, Jiang Y et al. Development and validation of a novel glycolysis-related risk signature for predicting survival in pancreatic adenocarcinoma. Clin Chim Acta 2021 Jul;518:156-161. PMID: 33775699
  • Xu X, Dong Y, Ma N, Kong W et al. MiR-337-3p lowers serum LDL-C level through targeting PCSK9 in hyperlipidemic mice. Metabolism 2021 Jun;119:154768. PMID: 33775647
  • Rocks D, Jaric I, Tesfa L, Greally JM et al. Cell type-specific chromatin accessibility analysis in the mouse and human brain. Epigenetics 2022 Jan-Feb;17(2):202-219. PMID: 33775205
  • Barros GC, Requião RD, Carneiro RL, Masuda CA et al. Rqc1 and other yeast proteins containing highly positively charged sequences are not targets of the RQC complex. J Biol Chem 2021 Jan-Jun;296:100586. PMID: 33774050
  • Guan L, Grigoriev A et al. Computational meta-analysis of ribosomal RNA fragments: potential targets and interaction mechanisms. Nucleic Acids Res 2021 Apr 19;49(7):4085-4103. PMID: 33772581
  • Yoon SH, Choi SW, Nam SW, Lee KB et al. Preoperative immune landscape predisposes adverse outcomes in hepatocellular carcinoma patients with liver transplantation. NPJ Precis Oncol 2021 Mar 26;5(1):27. PMID: 33772139
  • Zhang M, Ceyhan Y, Kaftanovskaya EM, Vasquez JL et al. INPP4B protects from metabolic syndrome and associated disorders. Commun Biol 2021 Mar 26;4(1):416. PMID: 33772116
  • Wang X, Lin X, Zheng Z, Lu B et al. Host-derived lipids orchestrate pulmonary γδ T cell response to provide early protection against influenza virus infection. Nat Commun 2021 Mar 26;12(1):1914. PMID: 33772013
  • Golden E, Rashwan R, Woodward EA, Sgro A et al. The oncogene AAMDC links PI3K-AKT-mTOR signaling with metabolic reprograming in estrogen receptor-positive breast cancer. Nat Commun 2021 Mar 26;12(1):1920. PMID: 33772001
  • Jiang Y, Li W, Lindsey-Boltz LA, Yang Y et al. Super hotspots and super coldspots in the repair of UV-induced DNA damage in the human genome. J Biol Chem 2021 Jan-Jun;296:100581. PMID: 33771559
  • Li Y, Li K, Zhu L, Li B et al. Development of double-positive thymocytes at single-cell resolution. Genome Med 2021 Mar 26;13(1):49. PMID: 33771202
  • Choi J, Lysakovskaia K, Stik G, Demel C et al. Evidence for additive and synergistic action of mammalian enhancers during cell fate determination. Elife 2021 Mar 26;10. PMID: 33770473
  • Ahn SG, Kim SK, Shepherd JH, Cha YJ et al. Clinical and genomic assessment of PD-L1 SP142 expression in triple-negative breast cancer. Breast Cancer Res Treat 2021 Jul;188(1):165-178. PMID: 33770313
  • Chen L, Chou CL, Knepper MA et al. A Comprehensive Map of mRNAs and Their Isoforms across All 14 Renal Tubule Segments of Mouse. J Am Soc Nephrol 2021 Apr;32(4):897-912. PMID: 33769951
  • Hu Q, Nonaka K, Wakiyama H, Miyashita Y et al. Cytolytic activity score as a biomarker for antitumor immunity and clinical outcome in patients with gastric cancer. Cancer Med 2021 May;10(9):3129-3138. PMID: 33769705
  • Wang S, Tong X, Li C, Jin E et al. Quaking 5 suppresses TGF-β-induced EMT and cell invasion in lung adenocarcinoma. EMBO Rep 2021 Jun 4;22(6):e52079. PMID: 33769671
  • Cinar R, Iyer MR, Kunos G et al. Dual inhibition of CB(1) receptors and iNOS, as a potential novel approach to the pharmacological management of acute and long COVID-19. Br J Pharmacol 2022 May;179(10):2121-2127. PMID: 33769552
  • Liu M, Devlin JC, Hu J, Volkova A et al. Microbial genetic and transcriptional contributions to oxalate degradation by the gut microbiota in health and disease. Elife 2021 Mar 26;10. PMID: 33769280
  • Davis AP, Wiegers TC, Wiegers J, Grondin CJ et al. CTD Anatomy: analyzing chemical-induced phenotypes and exposures from an anatomical perspective, with implications for environmental health studies. Curr Res Toxicol 2021;2:128-139. PMID: 33768211
  • Yuan F, Li Z, Chen L, Zeng T et al. Identifying the Signatures and Rules of Circulating Extracellular MicroRNA for Distinguishing Cancer Subtypes. Front Genet 2021;12:651610. PMID: 33767734
  • Li Z, Lin Y, Cheng B, Zhang Q et al. Identification and Analysis of Potential Key Genes Associated With Hepatocellular Carcinoma Based on Integrated Bioinformatics Methods. Front Genet 2021;12:571231. PMID: 33767726
  • Hu X, Xu Y, Zhang Z, Tang Z et al. TSC1 Affects the Process of Renal Ischemia-Reperfusion Injury by Controlling Macrophage Polarization. Front Immunol 2021;12:637335. PMID: 33767704
  • Liakath-Ali K, Südhof TC et al. The Perils of Navigating Activity-Dependent Alternative Splicing of Neurexins. Front Mol Neurosci 2021;14:659681. PMID: 33767611
  • Zuo D, Li C, Liu T, Yue M et al. Construction and validation of a metabolic risk model predicting prognosis of colon cancer. Sci Rep 2021 Mar 25;11(1):6837. PMID: 33767290
  • Wang J, Ma A, Chang Y, Gong J et al. scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses. Nat Commun 2021 Mar 25;12(1):1882. PMID: 33767197
  • Mullen PJ, Garcia G Jr, Purkayastha A, Matulionis N et al. SARS-CoV-2 infection rewires host cell metabolism and is potentially susceptible to mTORC1 inhibition. Nat Commun 2021 Mar 25;12(1):1876. PMID: 33767183
  • Macrae TA, Ramalho-Santos M et al. The deubiquitinase Usp9x regulates PRC2-mediated chromatin reprogramming during mouse development. Nat Commun 2021 Mar 25;12(1):1865. PMID: 33767158
  • Nagy Z, Seneviratne JA, Kanikevich M, Chang W et al. An ALYREF-MYCN coactivator complex drives neuroblastoma tumorigenesis through effects on USP3 and MYCN stability. Nat Commun 2021 Mar 25;12(1):1881. PMID: 33767157
  • Català-Senent JF, Hidalgo MR, Berenguer M, Parthasarathy G et al. Hepatic steatosis and steatohepatitis: a functional meta-analysis of sex-based differences in transcriptomic studies. Biol Sex Differ 2021 Mar 25;12(1):29. PMID: 33766130
  • Lewin J, Kottwitz D, Aoyama J, deVos T et al. Plasma cell free DNA methylation markers for hepatocellular carcinoma surveillance in patients with cirrhosis: a case control study. BMC Gastroenterol 2021 Mar 25;21(1):136. PMID: 33765926
  • Zhang S, Edwards TN, Chaudhri VK, Wu J et al. Nonpeptidergic neurons suppress mast cells via glutamate to maintain skin homeostasis. Cell 2021 Apr 15;184(8):2151-2166.e16. PMID: 33765440
  • Zheng H, Rao AM, Dermadi D, Toh J et al. Multi-cohort analysis of host immune response identifies conserved protective and detrimental modules associated with severity across viruses. Immunity 2021 Apr 13;54(4):753-768.e5. PMID: 33765435
  • Wang Q, Zheng W et al. Upregulation of CDC7 Associated with Cervical Cancer Incidence and Development. Biomed Res Int 2021;2021:6663367. PMID: 33763482
  • Tian X, Hu Y, Liu Y, Yang Z et al. Circular RNA Microarray Analyses in Hepatic Ischemia-Reperfusion Injury With Ischemic Preconditioning Prevention. Front Med (Lausanne) 2021;8:626948. PMID: 33763433
  • Fan Y, Li X, Tian L, Wang J et al. Identification of a Metabolism-Related Signature for the Prediction of Survival in Endometrial Cancer Patients. Front Oncol 2021;11:630905. PMID: 33763366
  • Lu T, Zheng Y, Gong X, Lv Q et al. High Expression of Hyaluronan-Mediated Motility Receptor Predicts Adverse Outcomes: A Potential Therapeutic Target for Head and Neck Squamous Cell Carcinoma. Front Oncol 2021;11:608842. PMID: 33763352
  • Munz M, Khodaygani M, Aherrahrou Z, Busch H et al. In silico candidate variant and gene identification using inbred mouse strains. PeerJ 2021;9:e11017. PMID: 33763305
  • Kamal Y, Dwan D, Hoehn HJ, Sanz-Pamplona R et al. Tumor immune infiltration estimated from gene expression profiles predicts colorectal cancer relapse. Oncoimmunology 2021 Mar 9;10(1):1862529. PMID: 33763292
  • Vats N, Dubey RC, Sanal MG, Taneja P et al. Glibenclamide, ATP and metformin increases the expression of human bile salt export pump ABCB11. F1000Res 2020;9:1497. PMID: 33763207
  • Dai B, Sun F, Cai X, Li C et al. Significance of RNA N6-Methyladenosine Regulators in the Diagnosis and Subtype Classification of Childhood Asthma Using the Gene Expression Omnibus Database. Front Genet 2021;12:634162. PMID: 33763115
  • Li T, Yang J, Yang B, Zhao G et al. Ketamine Inhibits Ovarian Cancer Cell Growth by Regulating the lncRNA-PVT1/EZH2/p57 Axis. Front Genet 2020;11:597467. PMID: 33763107
  • Gliddon HD, Kaforou M, Alikian M, Habgood-Coote D et al. Identification of Reduced Host Transcriptomic Signatures for Tuberculosis Disease and Digital PCR-Based Validation and Quantification. Front Immunol 2021;12:637164. PMID: 33763081
  • Clarke DJB, Rebman AW, Bailey A, Wojciechowicz ML et al. Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing. Front Immunol 2021;12:636289. PMID: 33763080
  • Pfister D, Núñez NG, Pinyol R, Govaere O et al. NASH limits anti-tumour surveillance in immunotherapy-treated HCC. Nature 2021 Apr;592(7854):450-456. PMID: 33762733
  • Hsiao YT, Shimizu I, Wakasugi T, Yoshida Y et al. Cardiac mitofusin-1 is reduced in non-responding patients with idiopathic dilated cardiomyopathy. Sci Rep 2021 Mar 24;11(1):6722. PMID: 33762690
  • Miyanaga A, Matsumoto M, Beck JA, Horikawa I et al. EML4-ALK induces cellular senescence in mortal normal human cells and promotes anchorage-independent growth in hTERT-transduced normal human cells. BMC Cancer 2021 Mar 24;21(1):310. PMID: 33761896
  • Han X, Wang H, Li Y, Liu L et al. A 2 miRNAs-based signature for the diagnosis of atherosclerosis. BMC Cardiovasc Disord 2021 Mar 24;21(1):150. PMID: 33761890
  • Goldfarb CN, Waxman DJ et al. Global analysis of expression, maturation and subcellular localization of mouse liver transcriptome identifies novel sex-biased and TCPOBOP-responsive long non-coding RNAs. BMC Genomics 2021 Mar 24;22(1):212. PMID: 33761883
  • Shi Y, Chang D, Li W, Zhao F et al. Identification of core genes and clinical outcomes in tumors originated from endoderm (gastric cancer and lung carcinoma) via bioinformatics analysis. Medicine (Baltimore) 2021 Mar 26;100(12):e25154. PMID: 33761685
  • Peng Y, Zhang Z, Zhang A, Liu C et al. Membrane-cytoplasm translocation of annexin A4 is involved in the metastasis of colorectal carcinoma. Aging (Albany NY) 2021 Mar 24;13(7):10312-10325. PMID: 33761465
  • Pease NA, Nguyen PHB, Woodworth MA, Ng KKH et al. Tunable, division-independent control of gene activation timing by a polycomb switch. Cell Rep 2021 Mar 23;34(12):108888. PMID: 33761349
  • Yi H, Luo D, Xiao Y, Jiang D et al. Knockdown of long non‑coding RNA DLEU2 suppresses idiopathic pulmonary fibrosis by regulating the microRNA‑369‑3p/TRIM2 axis. Int J Mol Med 2021 May;47(5). PMID: 33760118
  • Marincola Smith P, Choksi YA, Markham NO, Hanna DN et al. Colon epithelial cell TGFβ signaling modulates the expression of tight junction proteins and barrier function in mice. Am J Physiol Gastrointest Liver Physiol 2021 Jun 1;320(6):G936-G957. PMID: 33759564
  • Liu K, Gao R, Wu H, Wang Z et al. Single-cell analysis reveals metastatic cell heterogeneity in clear cell renal cell carcinoma. J Cell Mol Med 2021 May;25(9):4260-4274. PMID: 33759378
  • Liu S, Huang D, Huang J, Yan J et al. Genome-wide Expression Analysis Identifies the Association between SEC14L2 and Castration-resistant Prostate Cancer Survival. J Cancer 2021;12(8):2173-2180. PMID: 33758595
  • Jin Y, Kang Y, Peng X, Yang L et al. Irradiation-Induced Activated Microglia Affect Brain Metastatic Colonization of NSCLC Cells via miR-9/CDH1 Axis. Onco Targets Ther 2021;14:1911-1922. PMID: 33758511
  • Hanna R, Flamier A, Barabino A, Bernier G et al. G-quadruplexes originating from evolutionary conserved L1 elements interfere with neuronal gene expression in Alzheimer's disease. Nat Commun 2021 Mar 23;12(1):1828. PMID: 33758195
  • Fujino T, Goyama S, Sugiura Y, Inoue D et al. Mutant ASXL1 induces age-related expansion of phenotypic hematopoietic stem cells through activation of Akt/mTOR pathway. Nat Commun 2021 Mar 23;12(1):1826. PMID: 33758188
  • Clark HR, McKenney C, Livingston NM, Gershman A et al. Epigenetically regulated digital signaling defines epithelial innate immunity at the tissue level. Nat Commun 2021 Mar 23;12(1):1836. PMID: 33758175
  • Shan Z, Wang W, Tong Y, Zhang J et al. Genome-Scale Analysis Identified NID2, SPARC, and MFAP2 as Prognosis Markers of Overall Survival in Gastric Cancer. Med Sci Monit 2021 Mar 24;27:e929558. PMID: 33758160
  • Li Z, Koeppen K, Holden VI, Neff SL et al. GAUGE-Annotated Microbial Transcriptomic Data Facilitate Parallel Mining and High-Throughput Reanalysis To Form Data-Driven Hypotheses. mSystems 2021 Mar 23;6(2). PMID: 33758032
  • Molina Mora JA, Montero-Manso P, García-Batán R, Campos-Sánchez R et al. A first perturbome of Pseudomonas aeruginosa: Identification of core genes related to multiple perturbations by a machine learning approach. Biosystems 2021 Jul;205:104411. PMID: 33757842
  • Yuan Q, Zheng L, Liao Y, Wu G et al. Overexpression of CCNE1 confers a poorer prognosis in triple-negative breast cancer identified by bioinformatic analysis. World J Surg Oncol 2021 Mar 23;19(1):86. PMID: 33757543
  • McGlincy NJ, Meacham ZA, Reynaud KK, Muller R et al. A genome-scale CRISPR interference guide library enables comprehensive phenotypic profiling in yeast. BMC Genomics 2021 Mar 23;22(1):205. PMID: 33757429
  • Yu SD, Yu JY, Guo Y, Liu XY et al. Bioinformatic analysis for the identification of potential gene interactions and therapeutic targets in atrial fibrillation. Eur Rev Med Pharmacol Sci 2021 Mar;25(5):2281-2290. PMID: 33755965
  • Karman J, Wang J, Bodea C, Cao S et al. Lung gene expression and single cell analyses reveal two subsets of idiopathic pulmonary fibrosis (IPF) patients associated with different pathogenic mechanisms. PLoS One 2021;16(3):e0248889. PMID: 33755690
  • Bertozzi TM, Takahashi N, Hanin G, Kazachenka A et al. A spontaneous genetically induced epiallele at a retrotransposon shapes host genome function. Elife 2021 Mar 23;10. PMID: 33755012
  • Li B, Fang L, Wang B, Yang Z et al. Identification of Prognostic RBPs in Osteosarcoma. Technol Cancer Res Treat 2021 Jan-Dec;20:15330338211004918. PMID: 33754909
  • Ma Z, Xu J, Ru L, Zhu W et al. Identification of pivotal genes associated with the prognosis of gastric carcinoma through integrated analysis. Biosci Rep 2021 Apr 30;41(4). PMID: 33754626
  • Wang Y, Zhang Y, Huang Y, Chen C et al. Intratumor heterogeneity of breast cancer detected by epialleles shows association with hypoxic microenvironment. Theranostics 2021;11(9):4403-4420. PMID: 33754068
  • Wang M, Xu Y, Zhang Y, Chen Y et al. Deciphering the autophagy regulatory network via single-cell transcriptome analysis reveals a requirement for autophagy homeostasis in spermatogenesis. Theranostics 2021;11(10):5010-5027. PMID: 33754041
  • Ding R, Liu S, Wang S, Chen H et al. Single-cell transcriptome analysis of the heterogeneous effects of differential expression of tumor PD-L1 on responding TCR-T cells. Theranostics 2021;11(10):4957-4974. PMID: 33754038
  • Deng C, Si C, Ye X, Zhou Q et al. Prognostic significance of FSCN family in multiple myeloma. J Cancer 2021;12(7):1936-1944. PMID: 33753991
  • Wu D, Pan Y, Zheng X et al. Identification of hub genes-based predictive model in hepatocellular carcinoma by robust rank aggregation and regression analysis. J Cancer 2021;12(7):1884-1893. PMID: 33753986
  • Raundhal M, Ghosh S, Myers SA, Cuoco MS et al. Blockade of IL-22 signaling reverses erythroid dysfunction in stress-induced anemias. Nat Immunol 2021 Apr;22(4):520-529. PMID: 33753942
  • Mei Y, Chen MM, Liang H, Ma L et al. A four-gene signature predicts survival and anti-CTLA4 immunotherapeutic responses based on immune classification of melanoma. Commun Biol 2021 Mar 22;4(1):383. PMID: 33753855
  • Warwick T, Schulz MH, Günther S, Gilsbach R et al. A hierarchical regulatory network analysis of the vitamin D induced transcriptome reveals novel regulators and complete VDR dependency in monocytes. Sci Rep 2021 Mar 22;11(1):6518. PMID: 33753848
  • Dai H, Hu W, Zhang L, Jiang F et al. FGF21 facilitates autophagy in prostate cancer cells by inhibiting the PI3K-Akt-mTOR signaling pathway. Cell Death Dis 2021 Mar 22;12(4):303. PMID: 33753729
  • Cao X, Li B, Chen J, Dang J et al. Effect of cabazitaxel on macrophages improves CD47-targeted immunotherapy for triple-negative breast cancer. J Immunother Cancer 2021 Mar;9(3). PMID: 33753567
  • Gai W, Zhou Z, Agbor-Enoh S, Fan X et al. Applications of genetic-epigenetic tissue mapping for plasma DNA in prenatal testing, transplantation and oncology. Elife 2021 Mar 23;10. PMID: 33752803
  • Paul KC, Horvath S, Del Rosario I, Bronstein JM et al. DNA methylation biomarker for cumulative lead exposure is associated with Parkinson's disease. Clin Epigenetics 2021 Mar 22;13(1):59. PMID: 33752746
  • Zhang L, Xu S, Cheng X, Zheng J et al. Diallyl trisulphide, a H(2) S donor, compromises the stem cell phenotype and restores thyroid-specific gene expression in anaplastic thyroid carcinoma cells by targeting AKT-SOX2 axis. Phytother Res 2021 Jun;35(6):3428-3443. PMID: 33751676
  • Lin Y, Jin L, Tong WM, Leung YY et al. Identification and integrated analysis of differentially expressed long non-coding RNAs associated with periodontitis in humans. J Periodontal Res 2021 Aug;56(4):679-689. PMID: 33751610
  • Kulik M, Bothe M, Kibar G, Fuchs A et al. Androgen and glucocorticoid receptor direct distinct transcriptional programs by receptor-specific and shared DNA binding sites. Nucleic Acids Res 2021 Apr 19;49(7):3856-3875. PMID: 33751115
  • Pappas K, Martin TC, Wolfe AL, Nguyen CB et al. NOTCH and EZH2 collaborate to repress PTEN expression in breast cancer. Commun Biol 2021 Mar 9;4(1):312. PMID: 33750924
  • Moon JH, Lee S, Pak M, Hur B et al. MLDEG: A Machine Learning Approach to Identify Differentially Expressed Genes Using Network Property and Network Propagation. IEEE/ACM Trans Comput Biol Bioinform 2022 Jul-Aug;19(4):2356-2364. PMID: 33750713
  • Petty AJ, Dai R, Lapalombella R, Baiocchi RA et al. Hedgehog-induced PD-L1 on tumor-associated macrophages is critical for suppression of tumor-infiltrating CD8+ T cell function. JCI Insight 2021 Mar 22;6(6). PMID: 33749663
  • Everetts NJ, Worley MI, Yasutomi R, Yosef N et al. Single-cell transcriptomics of the Drosophila wing disc reveals instructive epithelium-to-myoblast interactions. Elife 2021 Mar 22;10. PMID: 33749594
  • Li X, Liao Z, Deng Z, Chen N et al. Combining bulk and single-cell RNA-sequencing data to reveal gene expression pattern of chondrocytes in the osteoarthritic knee. Bioengineered 2021 Dec;12(1):997-1007. PMID: 33749514
  • Xie Y, Luo X, He H, Pan T et al. Identification of an individualized RNA binding protein-based prognostic signature for diffuse large B-cell lymphoma. Cancer Med 2021 Apr;10(8):2703-2713. PMID: 33749163
  • Han N, Li Z et al. Non-coding RNA Identification in Osteonecrosis of the Femoral Head Using Competitive Endogenous RNA Network Analysis. Orthop Surg 2021 May;13(3):1067-1076. PMID: 33749138
  • Clarke DJB, Jeon M, Stein DJ, Moiseyev N et al. Appyters: Turning Jupyter Notebooks into data-driven web apps. Patterns (N Y) 2021 Mar 12;2(3):100213. PMID: 33748796
  • Zhao Y, Zheng Q, Gao H, Cao M et al. Celecoxib alleviates pathological cardiac hypertrophy and fibrosis via M1-like macrophage infiltration in neonatal mice. iScience 2021 Mar 19;24(3):102233. PMID: 33748715
  • Wang Z, Zuo F, Liu Q, Wu X et al. Comparative Study of Human Pluripotent Stem Cell-Derived Endothelial Cells in Hydrogel-Based Culture Systems. ACS Omega 2021 Mar 16;6(10):6942-6952. PMID: 33748608
  • Zhang J, Xi J, Huang P, Zeng S et al. Comprehensive Analysis Identifies Potential Ferroptosis-Associated mRNA Therapeutic Targets in Ovarian Cancer. Front Med (Lausanne) 2021;8:644053. PMID: 33748162
  • Zhang X, Liu Y, Zhang Z, Tan J et al. Multi-Omics Analysis of Anlotinib in Pancreatic Cancer and Development of an Anlotinib-Related Prognostic Signature. Front Cell Dev Biol 2021;9:649265. PMID: 33748143
  • Cattenoz PB, Monticelli S, Pavlidaki A, Giangrande A et al. Toward a Consensus in the Repertoire of Hemocytes Identified in Drosophila. Front Cell Dev Biol 2021;9:643712. PMID: 33748138
  • Khan MHF, Akhtar J, Umer Z, Shaheen N et al. Kinome-Wide RNAi Screen Uncovers Role of Ballchen in Maintenance of Gene Activation by Trithorax Group in Drosophila. Front Cell Dev Biol 2021;9:637873. PMID: 33748127
  • Mao D, Zhou Z, Song S, Li D et al. Identification of Stemness Characteristics Associated With the Immune Microenvironment and Prognosis in Gastric Cancer. Front Oncol 2021;11:626961. PMID: 33747944
  • Li MX, Wang HY, Yuan CH, Ma ZL et al. Establishment of a Macrophage Phenotypic Switch Related Prognostic Signature in Patients With Pancreatic Cancer. Front Oncol 2021;11:619517. PMID: 33747931
  • Singh J, Kumari S, Arora M, Verma D et al. Prognostic Relevance of Expression of EMP1, CASP1, and NLRP3 Genes in Pediatric B-Lineage Acute Lymphoblastic Leukemia. Front Oncol 2021;11:606370. PMID: 33747919
  • Chen D, Wang Y, Zhang X, Ding Q et al. Characterization of Tumor Microenvironment in Lung Adenocarcinoma Identifies Immune Signatures to Predict Clinical Outcomes and Therapeutic Responses. Front Oncol 2021;11:581030. PMID: 33747907
  • Xue T, Liu X, Zhang M, E Q et al. PADI2-Catalyzed MEK1 Citrullination Activates ERK1/2 and Promotes IGF2BP1-Mediated SOX2 mRNA Stability in Endometrial Cancer. Adv Sci (Weinh) 2021 Mar;8(6):2002831. PMID: 33747724
  • Cerapio JP, Marchio A, Cano L, López I et al. Global DNA hypermethylation pattern and unique gene expression signature in liver cancer from patients with Indigenous American ancestry. Oncotarget 2021 Mar 2;12(5):475-492. PMID: 33747361
  • Xiao X, Zhang Z, Luo R, Peng R et al. Identification of potential oncogenes in triple-negative breast cancer based on bioinformatics analyses. Oncol Lett 2021 May;21(5):363. PMID: 33747220
  • Shen Y, Shao Y, Niu C, Ruan X et al. Systematic Identification of circRNA-miRNA-mRNA Regulatory Network in Esophageal Squamous Cell Carcinoma. Front Genet 2021;12:580390. PMID: 33747034
  • Yang L, Wang Z, Hua J et al. A Meta-Analysis Reveals Opposite Effects of Biotic and Abiotic Stresses on Transcript Levels of Arabidopsis Intracellular Immune Receptor Genes. Front Plant Sci 2021;12:625729. PMID: 33747005
  • Jin Y, Wang Z, He D, Zhu Y et al. Analysis of m6A-Related Signatures in the Tumor Immune Microenvironment and Identification of Clinical Prognostic Regulators in Adrenocortical Carcinoma. Front Immunol 2021;12:637933. PMID: 33746977
  • Fraser E, Denney L, Antanaviciute A, Blirando K et al. Multi-Modal Characterization of Monocytes in Idiopathic Pulmonary Fibrosis Reveals a Primed Type I Interferon Immune Phenotype. Front Immunol 2021;12:623430. PMID: 33746960
  • Sun S, Yano S, Nakanishi MO, Hirose M et al. Maintenance of mouse trophoblast stem cells in KSR-based medium allows conventional 3D culture. J Reprod Dev 2021 Jun 21;67(3):197-205. PMID: 33746143
  • Sorimachi Y, Karigane D, Ootomo Y, Kobayashi H et al. p38α plays differential roles in hematopoietic stem cell activity dependent on aging contexts. J Biol Chem 2021 Jan-Jun;296:100563. PMID: 33745970
  • Xiong Y, He X, Zhao D, Tian T et al. Modeling multi-species RNA modification through multi-task curriculum learning. Nucleic Acids Res 2021 Apr 19;49(7):3719-3734. PMID: 33744973
  • Pezhouman A, Engel JL, Nguyen NB, Skelton RJP et al. Isolation and characterization of human embryonic stem cell-derived heart field-specific cardiomyocytes unravels new insights into their transcriptional and electrophysiological profiles. Cardiovasc Res 2022 Feb 21;118(3):828-843. PMID: 33744937
  • Chang QH, Mao T, Tao Y, Dong T et al. Pan-cancer analysis identifies ITIH1 as a novel prognostic indicator for hepatocellular carcinoma. Aging (Albany NY) 2021 Mar 21;13(8):11096-11119. PMID: 33744857
  • Quiñones M, Hernández-Bautista R, Beiroa D, Heras V et al. Sirt3 in POMC neurons controls energy balance in a sex- and diet-dependent manner. Redox Biol 2021 May;41:101945. PMID: 33744652
  • Chen J, Chen L, Hua J, Song W et al. Long-term dynamic compression enhancement TGF-β3-induced chondrogenesis in bovine stem cells: a gene expression analysis. BMC Genom Data 2021 Mar 20;22(1):13. PMID: 33743603
  • Chen YY, Chiu YL, Kao TW, Peng TC et al. Cross-sectional associations among P3NP, HtrA, Hsp70, Apelin and sarcopenia in Taiwanese population. BMC Geriatr 2021 Mar 20;21(1):192. PMID: 33743591
  • Wang Y, Tian D, Zhao Y, Qu M et al. Propofol Protects Regulatory T Cells, Suppresses Neurotoxic Astrogliosis, and Potentiates Neurological Recovery After Ischemic Stroke. Neurosci Bull 2021 May;37(6):725-728. PMID: 33743126
  • Zheng K, Li T et al. Prediction of ATPase cation transporting 13A2 molecule in Petromyzon marinus and pan-cancer analysis into human tumors from an evolutionary perspective. Immunogenetics 2021 Aug;73(4):277-289. PMID: 33743014
  • Zhang M, Yang X, Chen S, Jia W et al. GPR12 inhibits migration and promotes apoptosis in esophageal cancer and hypopharyngeal cancer cells. Thorac Cancer 2021 May;12(10):1525-1535. PMID: 33742771
  • Klatt Shaw D, Mokalled MH et al. Efficient CRISPR/Cas9 mutagenesis for neurobehavioral screening in adult zebrafish. G3 (Bethesda) 2021 Aug 7;11(8). PMID: 33742663
  • Coassolo S, Davidson G, Negroni L, Gambi G et al. Citrullination of pyruvate kinase M2 by PADI1 and PADI3 regulates glycolysis and cancer cell proliferation. Nat Commun 2021 Mar 19;12(1):1718. PMID: 33741961
  • Skowron P, Farooq H, Cavalli FMG, Morrissy AS et al. The transcriptional landscape of Shh medulloblastoma. Nat Commun 2021 Mar 19;12(1):1749. PMID: 33741928
  • Louwe PA, Badiola Gomez L, Webster H, Perona-Wright G et al. Recruited macrophages that colonize the post-inflammatory peritoneal niche convert into functionally divergent resident cells. Nat Commun 2021 Mar 19;12(1):1770. PMID: 33741914
  • Ahmed M, Soares F, Xia JH, Yang Y et al. CRISPRi screens reveal a DNA methylation-mediated 3D genome dependent causal mechanism in prostate cancer. Nat Commun 2021 Mar 19;12(1):1781. PMID: 33741908
  • Dai DL, Li X, Wang L, Xie C et al. Identification of an N6-methyladenosine-mediated positive feedback loop that promotes Epstein-Barr virus infection. J Biol Chem 2021 Jan-Jun;296:100547. PMID: 33741341
  • Smith RNIn-silico performance, validation, and modeling of the Nanostring Banff Human Organ transplant gene panel using archival data from human kidney transplants. BMC Med Genomics 2021 Mar 19;14(1):86. PMID: 33740956
  • FitzGerald ES, Chen Y, Fitzgerald KA, Jamieson AM et al. Lung Epithelial Cell Transcriptional Regulation as a Factor in COVID-19-associated Coagulopathies. Am J Respir Cell Mol Biol 2021 Jun;64(6):687-697. PMID: 33740387
  • Niu K, Xu H, Xiong YZ, Zhao Y et al. Canonical and early lineage-specific stem cell types identified in planarian SirNeoblasts. Cell Regen 2021 Mar 19;10(1):15. PMID: 33740162
  • Ding C, Shan Z, Li M, Chen H et al. Characterization of the fatty acid metabolism in colorectal cancer to guide clinical therapy. Mol Ther Oncolytics 2021 Mar 26;20:532-544. PMID: 33738339
  • Zhang L, Zhang K, Liu S, Zhang R et al. Identification of a ceRNA Network in Lung Adenocarcinoma Based on Integration Analysis of Tumor-Associated Macrophage Signature Genes. Front Cell Dev Biol 2021;9:629941. PMID: 33738286
  • Chang X, Lv YF, He J, Cao Y et al. Gene Expression Profile and Prognostic Value of m6A RNA Methylation Regulators in Hepatocellular Carcinoma. J Hepatocell Carcinoma 2021;8:85-101. PMID: 33738268
  • Liu Z, Wang L, Liu L, Lu T et al. The Identification and Validation of Two Heterogenous Subtypes and a Risk Signature Based on Ferroptosis in Hepatocellular Carcinoma. Front Oncol 2021;11:619242. PMID: 33738257
  • Zhang L, Wang S, Wang Y, Zhao W et al. Effects of Hypoxia in Intestinal Tumors on Immune Cell Behavior in the Tumor Microenvironment. Front Immunol 2021;12:645320. PMID: 33737938
  • Oksvold MP, Berglund UW, Gad H, Bai B et al. Karonudib has potent anti-tumor effects in preclinical models of B-cell lymphoma. Sci Rep 2021 Mar 18;11(1):6317. PMID: 33737576
  • Sharma AEpidemiological transcriptomic data supports BCG protection in viral diseases including COVID-19. Gene 2021 May 30;783:145574. PMID: 33737124
  • Zhang Q, Shi R, Bai Y, Meng L et al. Meiotic nuclear divisions 1 (MND1) fuels cell cycle progression by activating a KLF6/E2F1 positive feedback loop in lung adenocarcinoma. Cancer Commun (Lond) 2021 Jun;41(6):492-510. PMID: 33734616
  • Li Q, Xie H, Jin Z, Huang J et al. Overexpression of Long Noncoding RNA LBX2-AS1 Promotes the Proliferation of Colorectal Cancer. Technol Cancer Res Treat 2021 Jan-Dec;20:1533033821997829. PMID: 33733923
  • Fu C, Lou S, Zhu G, Fan L et al. Identification of New miRNA-mRNA Networks in the Development of Non-syndromic Cleft Lip With or Without Cleft Palate. Front Cell Dev Biol 2021;9:631057. PMID: 33732700
  • Mao R, Yang F, Wang Z, Xu C et al. Clinical Significance of a Novel Tumor Progression-Associated Immune Signature in Colorectal Adenocarcinoma. Front Cell Dev Biol 2021;9:625212. PMID: 33732694
  • Zhou W, Li J, Lu X, Liu F et al. Derivation and Validation of a Prognostic Model for Cancer Dependency Genes Based on CRISPR-Cas9 in Gastric Adenocarcinoma. Front Oncol 2021;11:617289. PMID: 33732644
  • Fan F, Huang Z, Chen Y et al. Integrated analysis of immune-related long noncoding RNAs as diagnostic biomarkers in psoriasis. PeerJ 2021;9:e11018. PMID: 33732554
  • Meng X, Sun Y, Liu S, Mu Y et al. miR-101-3p sensitizes lung adenocarcinoma cells to irradiation via targeting BIRC5. Oncol Lett 2021 Apr;21(4):282. PMID: 33732358
  • Xie J, Deng Z, Alahdal M, Liu J et al. Screening and verification of hub genes involved in osteoarthritis using bioinformatics. Exp Ther Med 2021 Apr;21(4):330. PMID: 33732303
  • Zhang Y, Hamada M et al. Identification of m(6)A-Associated RNA Binding Proteins Using an Integrative Computational Framework. Front Genet 2021;12:625797. PMID: 33732286
  • He H, Yu F, Shen W, Chen K et al. The Novel Key Genes of Non-obstructive Azoospermia Affect Spermatogenesis: Transcriptomic Analysis Based on RNA-Seq and scRNA-Seq Data. Front Genet 2021;12:608629. PMID: 33732283
  • Tao H, Li L, Liao NS, Schluns KS et al. Thymic Epithelial Cell-Derived IL-15 and IL-15 Receptor α Chain Foster Local Environment for Type 1 Innate Like T Cell Development. Front Immunol 2021;12:623280. PMID: 33732245
  • Chen QL, Yan Q, Feng KL, Xie CF et al. Using Integrated Bioinformatics Analysis to Identify Abnormally Methylated Differentially Expressed Genes in Hepatocellular Carcinoma. Int J Gen Med 2021;14:805-823. PMID: 33732011
  • He C, Hua X, Sun S, Li S et al. Integrated Bioinformatic Analysis of SARS-CoV-2 Infection Related Genes ACE2, BSG and TMPRSS2 in Aerodigestive Cancers. J Inflamm Res 2021;14:791-802. PMID: 33732005
  • Luo SM, Tsai WC, Tsai CK, Chen Y et al. ARID4B Knockdown Suppresses PI3K/AKT Signaling and Induces Apoptosis in Human Glioma Cells. Onco Targets Ther 2021;14:1843-1855. PMID: 33732001
  • Yoo W, Choi H, Son YH, Lee J et al. Pancreatic cancer induces muscle wasting by promoting the release of pancreatic adenocarcinoma upregulated factor. Exp Mol Med 2021 Mar;53(3):432-445. PMID: 33731895
  • Voronina N, Aichmüller C, Kolb T, Korshunov A et al. The age of adult pilocytic astrocytoma cells. Oncogene 2021 Apr;40(16):2830-2841. PMID: 33731860
  • Maeshiro M, Shinriki S, Liu R, Nakachi Y et al. Colonization of distant organs by tumor cells generating circulating homotypic clusters adaptive to fluid shear stress. Sci Rep 2021 Mar 17;11(1):6150. PMID: 33731803
  • Liu P, Ewald J, Galvez JH, Head J et al. Ultrafast functional profiling of RNA-seq data for nonmodel organisms. Genome Res 2021 Apr;31(4):713-720. PMID: 33731361
  • Sun T, Bi F, Liu Z, Yang Q et al. TMEM119 facilitates ovarian cancer cell proliferation, invasion, and migration via the PDGFRB/PI3K/AKT signaling pathway. J Transl Med 2021 Mar 17;19(1):111. PMID: 33731124
  • Zhang X, Wang X, Yuan Z, Radford SJ et al. Amino acids-Rab1A-mTORC1 signaling controls whole-body glucose homeostasis. Cell Rep 2021 Mar 16;34(11):108830. PMID: 33730578
  • Hernandez-Alias X, Benisty H, Schaefer MH, Serrano L et al. Translational adaptation of human viruses to the tissues they infect. Cell Rep 2021 Mar 16;34(11):108872. PMID: 33730572
  • Chauhan L, Ram U, Hari K, Jolly MK et al. Topological signatures in regulatory network enable phenotypic heterogeneity in small cell lung cancer. Elife 2021 Mar 17;10. PMID: 33729159
  • Hatch HAM, Belalcazar HM, Marshall OJ, Secombe J et al. A KDM5-Prospero transcriptional axis functions during early neurodevelopment to regulate mushroom body formation. Elife 2021 Mar 17;10. PMID: 33729157
  • Houri-Zeevi L, Teichman G, Gingold H, Rechavi O et al. Stress resets ancestral heritable small RNA responses. Elife 2021 Mar 17;10. PMID: 33729152
  • Wan B, Wang R, Nie J, Sun Y et al. Analysis of Immune Gene Expression Subtypes Reveals Osteosarcoma Immune Heterogeneity. J Oncol 2021;2021:6649412. PMID: 33727926
  • Jiang X, Yan Q, Xie L, Xu S et al. Construction and Validation of a Ferroptosis-Related Prognostic Model for Gastric Cancer. J Oncol 2021;2021:6635526. PMID: 33727924
  • Samart P, Luanpitpong S, Rojanasakul Y, Issaragrisil S et al. O-GlcNAcylation homeostasis controlled by calcium influx channels regulates multiple myeloma dissemination. J Exp Clin Cancer Res 2021 Mar 16;40(1):100. PMID: 33726758
  • Zhong Y, Chen L, Li J, Yao Y et al. Integration of summary data from GWAS and eQTL studies identified novel risk genes for coronary artery disease. Medicine (Baltimore) 2021 Mar 19;100(11):e24769. PMID: 33725943
  • He B, Chao W, Huang Z, Zeng J et al. Hsa_circ_001659 serves as a novel diagnostic and prognostic biomarker for colorectal cancer. Biochem Biophys Res Commun 2021 Apr 30;551:100-106. PMID: 33725570
  • Bak JH, Kim MH, Liu L, Hyeon C et al. A unified framework for inferring the multi-scale organization of chromatin domains from Hi-C. PLoS Comput Biol 2021 Mar;17(3):e1008834. PMID: 33724986
  • Guo Z, Shafik AM, Jin P, Wu Z et al. Detecting m6A methylation regions from Methylated RNA Immunoprecipitation Sequencing. Bioinformatics 2021 Sep 29;37(18):2818-2824. PMID: 33724304
  • Huang J, Soupir AC, Wang L et al. Cell-free DNA methylome profiling by MBD-seq with ultra-low input. Epigenetics 2022 Mar;17(3):239-252. PMID: 33724157
  • Yang G, Liu S, Maghsoudloo M, Shasaltaneh MD et al. PLA1A expression as a diagnostic marker of BRAF-mutant metastasis in melanoma cancer. Sci Rep 2021 Mar 15;11(1):6056. PMID: 33723350
  • De Biasi S, Gibellini L, Lo Tartaro D, Puccio S et al. Circulating mucosal-associated invariant T cells identify patients responding to anti-PD-1 therapy. Nat Commun 2021 Mar 15;12(1):1669. PMID: 33723257
  • Lin W, Li Q, Zhang D, Zhang X et al. Mapping the immune microenvironment for mandibular alveolar bone homeostasis at single-cell resolution. Bone Res 2021 Mar 15;9(1):17. PMID: 33723232
  • Moni MA, Lin PI, Quinn JMW, Eapen V et al. COVID-19 patient transcriptomic and genomic profiling reveals comorbidity interactions with psychiatric disorders. Transl Psychiatry 2021 Mar 15;11(1):160. PMID: 33723208
  • Kim YS, Johnson GD, Seo J, Barrera A et al. Correcting signal biases and detecting regulatory elements in STARR-seq data. Genome Res 2021 May;31(5):877-889. PMID: 33722938
  • Haring NL, van Bree EJ, Jordaan WS, Roels JRE et al. ZNF91 deletion in human embryonic stem cells leads to ectopic activation of SVA retrotransposons and up-regulation of KRAB zinc finger gene clusters. Genome Res 2021 Apr;31(4):551-563. PMID: 33722937
  • Berlow NE, Crawford KA, Bult CJ, Noakes C et al. Functional impact of a germline RET mutation in alveolar rhabdomyosarcoma. Cold Spring Harb Mol Case Stud 2021 Jun;7(3). PMID: 33722797
  • Zhang SThe characteristics of circRNA as competing endogenous RNA in pathogenesis of acute myeloid leukemia. BMC Cancer 2021 Mar 15;21(1):277. PMID: 33722210
  • Tawil N, Bassawon R, Meehan B, Nehme A et al. Glioblastoma cell populations with distinct oncogenic programs release podoplanin as procoagulant extracellular vesicles. Blood Adv 2021 Mar 23;5(6):1682-1694. PMID: 33720339
  • Gaskill MM, Gibson TJ, Larson ED, Harrison MM et al. GAF is essential for zygotic genome activation and chromatin accessibility in the early Drosophila embryo. Elife 2021 Mar 15;10. PMID: 33720012
  • Weinstock A, Rahman K, Yaacov O, Nishi H et al. Wnt signaling enhances macrophage responses to IL-4 and promotes resolution of atherosclerosis. Elife 2021 Mar 15;10. PMID: 33720008
  • Wang XQ, Xu SW, Wang W, Piao SZ et al. Identification and Validation of a Novel DNA Damage and DNA Repair Related Genes Based Signature for Colon Cancer Prognosis. Front Genet 2021;12:635863. PMID: 33719345
  • Deng R, Cui X, Dong Y, Tang Y et al. Construction of circRNA-Based ceRNA Network to Reveal the Role of circRNAs in the Progression and Prognosis of Hepatocellular Carcinoma. Front Genet 2021;12:626764. PMID: 33719338
  • Garbulowski M, Smolinska K, Diamanti K, Pan G et al. Interpretable Machine Learning Reveals Dissimilarities Between Subtypes of Autism Spectrum Disorder. Front Genet 2021;12:618277. PMID: 33719335
  • Li TY, Sleiman MB, Li H, Gao AW et al. The transcriptional coactivator CBP/p300 is an evolutionarily conserved node that promotes longevity in response to mitochondrial stress. Nat Aging 2021 Feb;1(2):165-178. PMID: 33718883
  • Ma M, Xu Y, Su Y, Ong SB et al. Single-Cell Transcriptome Analysis Decipher New Potential Regulation Mechanism of ACE2 and NPs Signaling Among Heart Failure Patients Infected With SARS-CoV-2. Front Cardiovasc Med 2021;8:628885. PMID: 33718452
  • Ma L, Zhou N, Zou R, Shi W et al. Single-Cell RNA Sequencing and Quantitative Proteomics Analysis Elucidate Marker Genes and Molecular Mechanisms in Hypoplastic Left Heart Patients With Heart Failure. Front Cell Dev Biol 2021;9:617853. PMID: 33718359
  • Yang CY, Lu RJ, Lee MK, Hsiao FS et al. Transcriptome Analysis of Dnmt3l Knock-Out Mice Derived Multipotent Mesenchymal Stem/Stromal Cells During Osteogenic Differentiation. Front Cell Dev Biol 2021;9:615098. PMID: 33718357
  • Lei Y, Cao X, Xu W, Yang B et al. Rv3722c Promotes Mycobacterium tuberculosis Survival in Macrophages by Interacting With TRAF3. Front Cell Infect Microbiol 2021;11:627798. PMID: 33718275
  • Mariani M, Zimmerman C, Rodriguez P, Hasenohr E et al. Higher-Order Chromatin Structures of Chromosomally Integrated HHV-6A Predict Integration Sites. Front Cell Infect Microbiol 2021;11:612656. PMID: 33718266
  • Du G, Yu X, Chen Y, Cai W et al. MiR-1-3p Suppresses Colorectal Cancer Cell Proliferation and Metastasis by Inhibiting YWHAZ-Mediated Epithelial-Mesenchymal Transition. Front Oncol 2021;11:634596. PMID: 33718221
  • Xu X, Zhou E, Zheng J, Zhang C et al. Prognostic and Predictive Value of m6A "Eraser" Related Gene Signature in Gastric Cancer. Front Oncol 2021;11:631803. PMID: 33718213
  • Raieli S, Di Renzo D, Lampis S, Amadesi C et al. MYCN Drives a Tumor Immunosuppressive Environment Which Impacts Survival in Neuroblastoma. Front Oncol 2021;11:625207. PMID: 33718189
  • Zhao F, Zhang ZW, Zhang J, Zhang S et al. Loss of 5-Hydroxymethylcytosine as an Epigenetic Signature That Correlates With Poor Outcomes in Patients With Medulloblastoma. Front Oncol 2021;11:603686. PMID: 33718152
  • Gallegos KM, Patel JR, Llopis SD, Walker RR et al. Quantitative Proteomic Profiling Identifies a Potential Novel Chaperone Marker in Resistant Breast Cancer. Front Oncol 2021;11:540134. PMID: 33718123
  • Zhong M, Qiu X, Liu Y, Yang Y et al. TIPE Regulates DcR3 Expression and Function by Activating the PI3K/AKT Signaling Pathway in CRC. Front Oncol 2020;10:623048. PMID: 33718119
  • Yang J, Yang Q et al. Identification of Core Genes and Screening of Potential Targets in Glioblastoma Multiforme by Integrated Bioinformatic Analysis. Front Oncol 2020;10:615976. PMID: 33718116
  • Huang C, Shen Q, Song G, He S et al. Downregulation of PARVA promotes metastasis by modulating integrin-linked kinase activity and regulating MAPK/ERK and MLC2 signaling in prostate cancer. Transl Androl Urol 2021 Feb;10(2):915-928. PMID: 33718092
  • Kang M, Park C, Kim SH, Yoon SW et al. Programmed death-ligand 1 expression level as a predictor of EGFR tyrosine kinase inhibitor efficacy in lung adenocarcinoma. Transl Lung Cancer Res 2021 Feb;10(2):699-711. PMID: 33718015
  • Baldavira CM, Machado-Rugolo J, Prieto TG, Bastos DR et al. The expression patterns and prognostic significance of pleckstrin homology-like domain family A (PHLDA) in lung cancer and malignant mesothelioma. J Thorac Dis 2021 Feb;13(2):689-707. PMID: 33717542
  • Badr MT, Omar M, Häcker G et al. Comprehensive Integration of Genome-Wide Association and Gene Expression Studies Reveals Novel Gene Signatures and Potential Therapeutic Targets for Helicobacter pylori-Induced Gastric Disease. Front Immunol 2021;12:624117. PMID: 33717131
  • Dong R, Xue Z, Fan G, Zhang N et al. Pin1 Promotes NLRP3 Inflammasome Activation by Phosphorylation of p38 MAPK Pathway in Septic Shock. Front Immunol 2021;12:620238. PMID: 33717117
  • Mansurkhodzhaev A, Barbosa CRR, Mishto M, Liepe J et al. Proteasome-Generated cis-Spliced Peptides and Their Potential Role in CD8(+) T Cell Tolerance. Front Immunol 2021;12:614276. PMID: 33717099
  • Hu L, Wu C et al. Using Single-Cell RNA-Seq Data to Trace Tissue Cells Responsive to Thyroid Hormones. Front Endocrinol (Lausanne) 2021;12:609308. PMID: 33716967
  • Geng H, Guo M, Xu W, Zang X et al. SHCBP1 Promotes Papillary Thyroid Carcinoma Carcinogenesis and Progression Through Promoting Formation of Integrin and Collagen and Maintaining Cell Stemness. Front Endocrinol (Lausanne) 2020;11:613879. PMID: 33716952
  • Xie C, Wu H, Pan T, Zheng X et al. A novel panel based on immune infiltration and tumor mutational burden for prognostic prediction in hepatocellular carcinoma. Aging (Albany NY) 2021 Mar 10;13(6):8563-8587. PMID: 33714200
  • Zhou Z, Zhang J, Xu C, Yang J et al. An integrated model of N6-methyladenosine regulators to predict tumor aggressiveness and immune evasion in pancreatic cancer. EBioMedicine 2021 Mar;65:103271. PMID: 33714027
  • Matikas A, Wang K, Lagoudaki E, Acs B et al. Prognostic role of serum thymidine kinase 1 kinetics during neoadjuvant chemotherapy for early breast cancer. ESMO Open 2021 Apr;6(2):100076. PMID: 33714010
  • Tang D, Zhang Z, Zboril E, Wetzel MD et al. Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression. J Mol Biol 2021 Jul 9;433(14):166928. PMID: 33713676
  • Xing Y, Wang Q, Zhang J, Li W et al. Chromatin accessibility of kidney tubular cells under stress reveals key transcription factor mediating acute and chronic kidney disease. FEBS J 2021 Sep;288(18):5446-5458. PMID: 33713542
  • Huang W, Qian T, Huang Z, Liu Y et al. Increased expression of IFI16 predicts adverse prognosis in multiple myeloma. Pharmacogenomics J 2021 Aug;21(4):520-532. PMID: 33712724
  • Kempf JM, Weser S, Bartoschek MD, Metzeler KH et al. Loss-of-function mutations in the histone methyltransferase EZH2 promote chemotherapy resistance in AML. Sci Rep 2021 Mar 12;11(1):5838. PMID: 33712646
  • Murphy SA, Miyamoto M, Kervadec A, Kannan S et al. PGC1/PPAR drive cardiomyocyte maturation at single cell level via YAP1 and SF3B2. Nat Commun 2021 Mar 12;12(1):1648. PMID: 33712605
  • Jung S, Appleton E, Ali M, Church GM et al. A computer-guided design tool to increase the efficiency of cellular conversions. Nat Commun 2021 Mar 12;12(1):1659. PMID: 33712564
  • Tian G, Fu Y, Zhang D, Li J et al. Identification of four key prognostic genes and three potential drugs in human papillomavirus negative head and neck squamous cell carcinoma. Cancer Cell Int 2021 Mar 12;21(1):167. PMID: 33712015
  • Liu Z, Pang Y, Jia Y, Qin Q et al. SNORA23 inhibits HCC tumorigenesis by impairing the 2'-O-ribose methylation level of 28S rRNA. Cancer Biol Med 2021 Mar 12;19(1):104-19. PMID: 33710804
  • Ma C, Li S, Hu Y, Ma Y et al. AIM2 controls microglial inflammation to prevent experimental autoimmune encephalomyelitis. J Exp Med 2021 May 3;218(5). PMID: 33710283
  • Ghatnatti V, Vastrad B, Patil S, Vastrad C et al. Identification of potential and novel target genes in pituitary prolactinoma by bioinformatics analysis. AIMS Neurosci 2021;8(2):254-283. PMID: 33709028
  • Jiang W, Qiao L, Zuo D, Qin D et al. Aberrant lactate dehydrogenase A signaling contributes metabolic signatures in pancreatic cancer. Ann Transl Med 2021 Feb;9(4):358. PMID: 33708985
  • Yu S, Wang X, Zhu L, Xie P et al. A systematic analysis of a potential metabolism-related prognostic signature for breast cancer patients. Ann Transl Med 2021 Feb;9(4):330. PMID: 33708957
  • Lin HC, Shao Q, Liang JY, Wang Y et al. Primary tumor immune score fails to predict the prognosis of colorectal cancer liver metastases after hepatectomy in Chinese populations. Ann Transl Med 2021 Feb;9(4):310. PMID: 33708937
  • Yang R, Yao L, Du C, Wu Y et al. Identification of key pathways and core genes involved in atherosclerotic plaque progression. Ann Transl Med 2021 Feb;9(3):267. PMID: 33708894
  • Feng Y, Guo X, Tang H et al. SLC6A8 is involved in the progression of non-small cell lung cancer through the Notch signaling pathway. Ann Transl Med 2021 Feb;9(3):264. PMID: 33708891
  • Kang S, Ye Y, Xia G, Liu HB et al. Coronary artery disease: differential expression of ceRNAs and interaction analyses. Ann Transl Med 2021 Feb;9(3):229. PMID: 33708856
  • Mastrototaro G, Zaghi M, Massimino L, Moneta M et al. TBL1XR1 Ensures Balanced Neural Development Through NCOR Complex-Mediated Regulation of the MAPK Pathway. Front Cell Dev Biol 2021;9:641410. PMID: 33708771
  • Chi F, Cao Y, Chen Y et al. Analysis and Validation of circRNA-miRNA Network in Regulating m(6)A RNA Methylation Modulators Reveals CircMAP2K4/miR-139-5p/YTHDF1 Axis Involving the Proliferation of Hepatocellular Carcinoma. Front Oncol 2021;11:560506. PMID: 33708621
  • Wei LM, Li XY, Wang ZM, Wang YK et al. Identification of hub genes in triple-negative breast cancer by integrated bioinformatics analysis. Gland Surg 2021 Feb;10(2):799-806. PMID: 33708561
  • Sun T, Guan Q, Wang Y, Qian K et al. Identification of differentially expressed genes and signaling pathways in papillary thyroid cancer: a study based on integrated microarray and bioinformatics analysis. Gland Surg 2021 Feb;10(2):629-644. PMID: 33708546
  • Wang J, Yin X, Zhang YQ, Ji X et al. Identification and Validation of a Novel Immune-Related Four-lncRNA Signature for Lung Adenocarcinoma. Front Genet 2021;12:639254. PMID: 33708243
  • Lee J, Geng S, Li S, Li L et al. Single Cell RNA-Seq and Machine Learning Reveal Novel Subpopulations in Low-Grade Inflammatory Monocytes With Unique Regulatory Circuits. Front Immunol 2021;12:627036. PMID: 33708217
  • Li R, Wang Q, Qiu Y, Meng Y et al. A Potential Autophagy-Related Competing Endogenous RNA Network and Corresponding Diagnostic Efficacy in Schizophrenia. Front Psychiatry 2021;12:628361. PMID: 33708146
  • Huang H, Tan M, Zheng L, Yan G et al. Prognostic Implications of the Complement Protein C1Q and Its Correlation with Immune Infiltrates in Osteosarcoma. Onco Targets Ther 2021;14:1737-1751. PMID: 33707956
  • Ono K, Hata K, Nakamura E, Ishihara S et al. Dmrt2 promotes transition of endochondral bone formation by linking Sox9 and Runx2. Commun Biol 2021 Mar 11;4(1):326. PMID: 33707608
  • Anusha, Dalal H, Subramanian S, V P S et al. Exovesicular-Shh confers Imatinib resistance by upregulating Bcl2 expression in chronic myeloid leukemia with variant chromosomes. Cell Death Dis 2021 Mar 11;12(3):259. PMID: 33707419
  • Chereda H, Bleckmann A, Menck K, Perera-Bel J et al. Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer. Genome Med 2021 Mar 11;13(1):42. PMID: 33706810
  • Castelli S, Ciccarone F, Tavian D, Ciriolo MR et al. ROS-dependent HIF1α activation under forced lipid catabolism entails glycolysis and mitophagy as mediators of higher proliferation rate in cervical cancer cells. J Exp Clin Cancer Res 2021 Mar 11;40(1):94. PMID: 33706793
  • Huang Z, Han Z, Wang T, Shao W et al. TSUNAMI: Translational Bioinformatics Tool Suite for Network Analysis and Mining. Genomics Proteomics Bioinformatics 2021 Dec;19(6):1023-1031. PMID: 33705981
  • DePianto DJ, Heiden JAV, Morshead KB, Sun KH et al. Molecular mapping of interstitial lung disease reveals a phenotypically distinct senescent basal epithelial cell population. JCI Insight 2021 Apr 22;6(8). PMID: 33705361
  • Hu S, Xie D, Zhou P, Liu X et al. LINCS gene expression signature analysis revealed bosutinib as a radiosensitizer of breast cancer cells by targeting eIF4G1. Int J Mol Med 2021 May;47(5). PMID: 33693953
  • Meng L, He X, Hong Q, Qiao B et al. CCR4, CCR8, and P2RY14 as Prognostic Factors in Head and Neck Squamous Cell Carcinoma Are Involved in the Remodeling of the Tumor Microenvironment. Front Oncol 2021;11:618187. PMID: 33692955
  • Huang SK, Tripathi P, Koneva LA, Cavalcante RG et al. Effect of concentration and duration of particulate matter exposure on the transcriptome and DNA methylome of bronchial epithelial cells. Environ Epigenet 2021;7(1):dvaa022. PMID: 33692908
  • Jiang L, Zhang J, Xu Q, Wang B et al. YAP promotes the proliferation and migration of colorectal cancer cells through the Glut3/AMPK signaling pathway. Oncol Lett 2021 Apr;21(4):312. PMID: 33692844
  • Murugesan M, Premkumar K et al. Systemic Multi-Omics Analysis Reveals Amplified P4HA1 Gene Associated With Prognostic and Hypoxic Regulation in Breast Cancer. Front Genet 2021;12:632626. PMID: 33692831
  • Li J, Pu K, Li C, Wang Y et al. A Novel Six-Gene-Based Prognostic Model Predicts Survival and Clinical Risk Score for Gastric Cancer. Front Genet 2021;12:615834. PMID: 33692828
  • Kulkarni V, Queiroz ATL, Sangle S, Kagal A et al. A Two-Gene Signature for Tuberculosis Diagnosis in Persons With Advanced HIV. Front Immunol 2021;12:631165. PMID: 33692804
  • Lin CW, Liao SG, Liu P, Park YS et al. RNASeqDesign: A framework for RNA-Seq genome-wide power calculation and study design issues. J R Stat Soc Ser C Appl Stat 2019 Apr;68(3):683-704. PMID: 33692596
  • Liu D, Liu F, Li Z, Pan S et al. HNRNPA1-mediated exosomal sorting of miR-483-5p out of renal tubular epithelial cells promotes the progression of diabetic nephropathy-induced renal interstitial fibrosis. Cell Death Dis 2021 Mar 10;12(3):255. PMID: 33692334
  • Karaki S, Blanc C, Tran T, Galy-Fauroux I et al. CXCR6 deficiency impairs cancer vaccine efficacy and CD8(+) resident memory T-cell recruitment in head and neck and lung tumors. J Immunother Cancer 2021 Mar;9(3). PMID: 33692218
  • Seo I, Lee HW, Byun SJ, Park JY et al. Neoadjuvant chemoradiation alters biomarkers of anticancer immunotherapy responses in locally advanced rectal cancer. J Immunother Cancer 2021 Mar;9(3). PMID: 33692216
  • Xu J, Zeng Y, Si H, Liu Y et al. Integrating transcriptome-wide association study and mRNA expression profile identified candidate genes related to hand osteoarthritis. Arthritis Res Ther 2021 Mar 10;23(1):81. PMID: 33691763
  • Li H, Ding L, Hong X, Chen Y et al. Integrative genomic expression analysis reveals stable differences between lung cancer and systemic sclerosis. BMC Cancer 2021 Mar 10;21(1):259. PMID: 33691643
  • Yu M, Yu M, Zhu LJ, Yuan XY et al. [Expression and clinical significance of SETD2 in maligant pleural mesothelioma]. Zhonghua Lao Dong Wei Sheng Zhi Ye Bing Za Zhi 2021 Feb 20;39(2):91-98. PMID: 33691361
  • Scott MKD, Limaye M, Schaffert S, West R et al. A multi-scale integrated analysis identifies KRT8 as a pan-cancer early biomarker. Pac Symp Biocomput 2021;26:297-308. PMID: 33691026
  • Laha S, Saha C, Dutta S, Basu M et al. In silico analysis of altered expression of long non-coding RNA in SARS-CoV-2 infected cells and their possible regulation by STAT1, STAT3 and interferon regulatory factors. Heliyon 2021 Mar;7(3):e06395. PMID: 33688586
  • Bajbouj K, Hachim MY, Ramakrishnan RK, Fazel H et al. IL-13 Augments Histone Demethylase JMJD2B/KDM4B Expression Levels, Activity, and Nuclear Translocation in Airway Fibroblasts in Asthma. J Immunol Res 2021;2021:6629844. PMID: 33688506
  • Wang J, Peng R, Zhang Z, Zhang Y et al. Identification and Validation of Key Genes in Hepatocellular Carcinoma by Bioinformatics Analysis. Biomed Res Int 2021;2021:6662114. PMID: 33688500
  • Cao Y, Zhu Q, Cai X, Wu T et al. Glial Cell-Derived Neurotrophic Factor Functions as a Potential Candidate Gene in Obstructive Sleep Apnea Based on a Combination of Bioinformatics and Targeted Capture Sequencing Analyses. Biomed Res Int 2021;2021:6656943. PMID: 33688499
  • Fan C, Du J, Liu N et al. Identification of a Transcription Factor Signature That Can Predict Breast Cancer Survival. Comput Math Methods Med 2021;2021:2649123. PMID: 33688372
  • Li L, Huang H, Zhu M, Wu J et al. Identification of Hub Genes and Pathways of Triple Negative Breast Cancer by Expression Profiles Analysis. Cancer Manag Res 2021;13:2095-2104. PMID: 33688252
  • Li Z, Xiao Y, Xu L, Wang Q et al. Mining the key genes for ventilator-induced lung injury using co-expression network analysis. Biosci Rep 2021 Mar 26;41(3). PMID: 33687057
  • Li W, Yuan B, Zhao Y, Lu T et al. Transcriptome profiling reveals target in primary myelofibrosis together with structural biology study on novel natural inhibitors regarding JAK2. Aging (Albany NY) 2021 Mar 3;13(6):8248-8275. PMID: 33686952
  • Yu Y, Wang Z, Zheng Q, Li J et al. FAM72 serves as a biomarker of poor prognosis in human lung adenocarcinoma. Aging (Albany NY) 2021 Mar 3;13(6):8155-8176. PMID: 33686947
  • Guo H, Chi Y, Chi N et al. Bioinformatis analysis reveals possible molecular mechanism of PXR on regulating ulcerative colitis. Sci Rep 2021 Mar 8;11(1):5428. PMID: 33686088
  • Kupari J, Usoskin D, Parisien M, Lou D et al. Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain. Nat Commun 2021 Mar 8;12(1):1510. PMID: 33686078
  • Lal A, Chiang ZD, Yakovenko N, Duarte FM et al. Deep learning-based enhancement of epigenomics data with AtacWorks. Nat Commun 2021 Mar 8;12(1):1507. PMID: 33686069
  • Ozawa T, Kaneko S, Szulzewsky F, Qiao Z et al. C11orf95-RELA fusion drives aberrant gene expression through the unique epigenetic regulation for ependymoma formation. Acta Neuropathol Commun 2021 Mar 8;9(1):36. PMID: 33685520
  • Yu M, Xu W, Jie Y, Pang J et al. Identification and validation of three core genes in p53 signaling pathway in hepatitis B virus-related hepatocellular carcinoma. World J Surg Oncol 2021 Mar 8;19(1):66. PMID: 33685467
  • Talukder A, Hu H, Li X et al. An intriguing characteristic of enhancer-promoter interactions. BMC Genomics 2021 Mar 8;22(1):163. PMID: 33685407
  • Ziff OJ, Taha DM, Crerar H, Clarke BE et al. Reactive astrocytes in ALS display diminished intron retention. Nucleic Acids Res 2021 Apr 6;49(6):3168-3184. PMID: 33684213
  • Ma H, Xu J, Zhao R, Qi Y et al. Upregulation of NUCKS1 in Lung Adenocarcinoma is Associated with a Poor Prognosis. Cancer Invest 2021 May;39(5):435-444. PMID: 33683970
  • Lux S, Blätte TJ, Gillissen B, Richter A et al. Deregulated expression of circular RNAs in acute myeloid leukemia. Blood Adv 2021 Mar 9;5(5):1490-1503. PMID: 33683343
  • Kirstein N, Buschle A, Wu X, Krebs S et al. Human ORC/MCM density is low in active genes and correlates with replication time but does not delimit initiation zones. Elife 2021 Mar 8;10. PMID: 33683199
  • Siddiqui S, Johansson K, Joo A, Bonser LR et al. Epithelial miR-141 regulates IL-13-induced airway mucus production. JCI Insight 2021 Mar 8;6(5). PMID: 33682796
  • Wang J, Zhang C et al. Identification and validation of potential mRNA- microRNA- long-noncoding RNA (mRNA-miRNA-lncRNA) prognostic signature for cervical cancer. Bioengineered 2021 Dec;12(1):898-913. PMID: 33682613
  • Garofano L, Migliozzi S, Oh YT, D'Angelo F et al. Pathway-based classification of glioblastoma uncovers a mitochondrial subtype with therapeutic vulnerabilities. Nat Cancer 2021 Feb;2(2):141-156. PMID: 33681822
  • Li R, Liao B, Wang B, Dai C et al. Identification of Tumor Tissue of Origin with RNA-Seq Data and Using Gradient Boosting Strategy. Biomed Res Int 2021;2021:6653793. PMID: 33681364
  • Ma XB, Xu YY, Zhu MX, Wang L et al. Prognostic Signatures Based on Thirteen Immune-Related Genes in Colorectal Cancer. Front Oncol 2020;10:591739. PMID: 33680920
  • Wang PP, Ding SY, Sun YY, Li YH et al. MYCT1 Inhibits the Adhesion and Migration of Laryngeal Cancer Cells Potentially Through Repressing Collagen VI. Front Oncol 2020;10:564733. PMID: 33680912
  • Li X, Wu P, Tang Y, Fan Y et al. Down-Regulation of MiR-181c-5p Promotes Epithelial-to-Mesenchymal Transition in Laryngeal Squamous Cell Carcinoma via Targeting SERPINE1. Front Oncol 2020;10:544476. PMID: 33680908
  • Zhu J, Tang B, Lv X, Meng M et al. Identifying Apoptosis-Related Transcriptomic Aberrations and Revealing Clinical Relevance as Diagnostic and Prognostic Biomarker in Hepatocellular Carcinoma. Front Oncol 2020;10:519180. PMID: 33680905
  • Li H, Sun Y, Chen R et al. Constructing and validating a diagnostic nomogram for multiple sclerosis via bioinformatic analysis. 3 Biotech 2021 Mar;11(3):127. PMID: 33680693
  • Xu Z, Ruan J, Pan L, Chen C et al. Candidate Genes Identified in Systemic Sclerosis-Related Pulmonary Arterial Hypertension Were Associated with Immunity, Inflammation, and Cytokines. Cardiovasc Ther 2021;2021:6651009. PMID: 33680092
  • Sun S, Fei K, Zhang G, Wang J et al. Construction and Comprehensive Analyses of a METTL5-Associated Prognostic Signature With Immune Implication in Lung Adenocarcinomas. Front Genet 2020;11:617174. PMID: 33679869
  • Sadozai H, Acharjee A, Eppenberger-Castori S, Gloor B et al. Distinct Stromal and Immune Features Collectively Contribute to Long-Term Survival in Pancreatic Cancer. Front Immunol 2021;12:643529. PMID: 33679807
  • Giovannozzi S, Demeulemeester J, Schrijvers R, Gijsbers R et al. Transcriptional Profiling of STAT1 Gain-of-Function Reveals Common and Mutation-Specific Fingerprints. Front Immunol 2021;12:632997. PMID: 33679782
  • Jiang Y, Chen S, Li Q, Liang J et al. TANK-Binding Kinase 1 (TBK1) Serves as a Potential Target for Hepatocellular Carcinoma by Enhancing Tumor Immune Infiltration. Front Immunol 2021;12:612139. PMID: 33679751
  • Mo Z, Liu D, Rong D, Zhang S et al. Hypoxic Characteristic in the Immunosuppressive Microenvironment of Hepatocellular Carcinoma. Front Immunol 2021;12:611058. PMID: 33679749
  • Qi J, Liu Y, Hu J, Lu L et al. Identification of FPR3 as a Unique Biomarker for Targeted Therapy in the Immune Microenvironment of Breast Cancer. Front Pharmacol 2020;11:593247. PMID: 33679387
  • VanEtten SL, Bonner MR, Ren X, Birnbaum LS et al. Effect of exposure to 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) and polychlorinated biphenyls (PCBs) on mitochondrial DNA (mtDNA) copy number in rats. Toxicology 2021 Apr 30;454:152744. PMID: 33677009
  • Li Y, Zhao X, Xiao H, Yang B et al. APE1 may influence CD4+ naïve T cells on recurrence free survival in early stage NSCLC. BMC Cancer 2021 Mar 6;21(1):233. PMID: 33676448
  • Motta JP, Rolland C, Edir A, Florence AC et al. Epithelial production of elastase is increased in inflammatory bowel disease and causes mucosal inflammation. Mucosal Immunol 2021 May;14(3):667-678. PMID: 33674762
  • Liu S, Zhou B, Wu L, Sun Y et al. Single-cell differential splicing analysis reveals high heterogeneity of liver tumor-infiltrating T cells. Sci Rep 2021 Mar 5;11(1):5325. PMID: 33674641
  • Antonowicz S, Bodai Z, Wiggins T, Markar SR et al. Endogenous aldehyde accumulation generates genotoxicity and exhaled biomarkers in esophageal adenocarcinoma. Nat Commun 2021 Mar 5;12(1):1454. PMID: 33674602
  • Hung MH, Lee JS, Ma C, Diggs LP et al. Tumor methionine metabolism drives T-cell exhaustion in hepatocellular carcinoma. Nat Commun 2021 Mar 5;12(1):1455. PMID: 33674593
  • Egge N, Arneaud SLB, Fonseca RS, Zuurbier KR et al. Trauma-induced regulation of VHP-1 modulates the cellular response to mechanical stress. Nat Commun 2021 Mar 5;12(1):1484. PMID: 33674585
  • Seo J, Koçak DD, Bartelt LC, Williams CA et al. AP-1 subunits converge promiscuously at enhancers to potentiate transcription. Genome Res 2021 Apr;31(4):538-550. PMID: 33674350
  • Hertzberg L, Zohar AH, Yitzhaky A et al. Gene Expression Meta-Analysis of Cerebellum Samples Supports the FKBP5 Gene-Environment Interaction Model for Schizophrenia. Life (Basel) 2021 Feb 27;11(3). PMID: 33673722
  • Wang HC, Chan LP, Wu CC, Chang SJ et al. Silencing DNA Polymerase β Induces Aneuploidy as a Biomarker of Poor Prognosis in Oral Squamous Cell Cancer. Int J Mol Sci 2021 Feb 27;22(5). PMID: 33673690
  • Beletskiy A, Chesnokova E, Bal N et al. Insulin-Like Growth Factor 2 As a Possible Neuroprotective Agent and Memory Enhancer-Its Comparative Expression, Processing and Signaling in Mammalian CNS. Int J Mol Sci 2021 Feb 12;22(4). PMID: 33673334
  • Cui Y, Ji J, Hou J, Tan Y et al. Identification of Key Candidate Genes Involved in the Progression of Idiopathic Pulmonary Fibrosis. Molecules 2021 Feb 20;26(4). PMID: 33672678
  • Lee S, Chun JN, Lee HJ, Park HH et al. Transcriptome Analysis of the Anti-TGFβ Effect of Schisandra chinensis Fruit Extract and Schisandrin B in A7r5 Vascular Smooth Muscle Cells. Life (Basel) 2021 Feb 20;11(2). PMID: 33672474
  • Pérez-Arques C, Navarro-Mendoza MI, Murcia L, Lax C et al. A Mucoralean White Collar-1 Photoreceptor Controls Virulence by Regulating an Intricate Gene Network during Host Interactions. Microorganisms 2021 Feb 23;9(2). PMID: 33672193
  • Peck AB, Nguyen CQ, Ambrus J et al. Early Covert Appearance of Marginal Zone B Cells in Salivary Glands of Sjögren's Syndrome-Susceptible Mice: Initiators of Subsequent Overt Clinical Disease. Int J Mol Sci 2021 Feb 15;22(4). PMID: 33671965
  • A J, Zhang B, Zhang Z, Hu H et al. Novel Gene Signatures Predictive of Patient Recurrence-Free Survival and Castration Resistance in Prostate Cancer. Cancers (Basel) 2021 Feb 22;13(4). PMID: 33671634
  • Maneix L, Sweeney MA, Lee S, Iakova P et al. The Mitochondrial Protease LonP1 Promotes Proteasome Inhibitor Resistance in Multiple Myeloma. Cancers (Basel) 2021 Feb 17;13(4). PMID: 33671345
  • Klement JD, Poschel DB, Lu C, Merting AD et al. Osteopontin Blockade Immunotherapy Increases Cytotoxic T Lymphocyte Lytic Activity and Suppresses Colon Tumor Progression. Cancers (Basel) 2021 Feb 28;13(5). PMID: 33670921
  • George B, Pillai PM, Paul AM, Amjesh R et al. Cellular Fitness Phenotypes of Cancer Target Genes from Oncobiology to Cancer Therapeutics. Cells 2021 Feb 18;10(2). PMID: 33670680
  • Stahl D, Knoll R, Gentles AJ, Vokuhl C et al. Prognostic Gene Expression, Stemness and Immune Microenvironment in Pediatric Tumors. Cancers (Basel) 2021 Feb 18;13(4). PMID: 33670534
  • Fathima S, Sinha S, Donakonda S et al. Network Analysis Identifies Drug Targets and Small Molecules to Modulate Apoptosis Resistant Cancers. Cancers (Basel) 2021 Feb 18;13(4). PMID: 33670487
  • Beilin AK, Evtushenko NA, Lukyanov DK, Murashkin NN et al. Signatures of Dermal Fibroblasts from RDEB Pediatric Patients. Int J Mol Sci 2021 Feb 11;22(4). PMID: 33670258
  • Saito R, Sawada Y, Nakamura M et al. Immune Profile Analysis in Peripheral Blood and Tumor in Patients with Malignant Melanoma. Int J Mol Sci 2021 Feb 16;22(4). PMID: 33669410
  • Bauer S, Ratz L, Heckmann-Nötzel D, Kaczorowski A et al. miR-449a Repression Leads to Enhanced NOTCH Signaling in TMPRSS2:ERG Fusion Positive Prostate Cancer Cells. Cancers (Basel) 2021 Feb 25;13(5). PMID: 33669024
  • Fan K, Cao Q, Lan L et al. Genome-Wide Mapping Reveals Complex Regulatory Activities of BfmR in Pseudomonas aeruginosa. Microorganisms 2021 Feb 25;9(3). PMID: 33668961
  • Tokumaru Y, Oshi M, Patel A, Tian W et al. Organoids Are Limited in Modeling the Colon Adenoma-Carcinoma Sequence. Cells 2021 Feb 25;10(3). PMID: 33668713
  • Liao YM, Hung TH, Tung JK, Yu J et al. Low Expression of IL-15 and NKT in Tumor Microenvironment Predicts Poor Outcome of MYCN-Non-Amplified Neuroblastoma. J Pers Med 2021 Feb 13;11(2). PMID: 33668573
  • Jackson M, Fidanza A, Taylor AH, Rybtsov S et al. Modulation of APLNR Signaling Is Required during the Development and Maintenance of the Hematopoietic System. Stem Cell Reports 2021 Apr 13;16(4):727-740. PMID: 33667414
  • Kim KS, Jekarl DW, Yoo J, Lee S et al. Immune gene expression networks in sepsis: A network biology approach. PLoS One 2021;16(3):e0247669. PMID: 33667236
  • Sudo T, Motomura Y, Okuzaki D, Hasegawa T et al. Group 2 innate lymphoid cells support hematopoietic recovery under stress conditions. J Exp Med 2021 May 3;218(5). PMID: 33666647
  • Wang X, Wan Q, Jin L, Liu C et al. The Integrative Analysis Identifies Three Cancer Subtypes and Stemness Features in Cutaneous Melanoma. Front Mol Biosci 2020;7:598725. PMID: 33665205
  • Anand D, Al Saai S, Shrestha SK, Barnum CE et al. Genome-Wide Analysis of Differentially Expressed miRNAs and Their Associated Regulatory Networks in Lenses Deficient for the Congenital Cataract-Linked Tudor Domain Containing Protein TDRD7. Front Cell Dev Biol 2021;9:615761. PMID: 33665188
  • Liu C, Deng L, Lin J, Zhang J et al. Zinc Finger Protein CTCF Regulates Extracellular Matrix (ECM)-Related Gene Expression Associated With the Wnt Signaling Pathway in Gastric Cancer. Front Oncol 2020;10:625633. PMID: 33665169
  • Wang Y, Yin C, Geng L, Cai W et al. Immune Infiltration Landscape in Clear Cell Renal Cell Carcinoma Implications. Front Oncol 2020;10:491621. PMID: 33665156
  • Fu J, Zhang X, Yan L, Shao Y et al. Identification of the hub gene BUB1B in hepatocellular carcinoma via bioinformatic analysis and in vitro experiments. PeerJ 2021;9:e10943. PMID: 33665036
  • Liu Y, Wang W et al. Characterization of the GRAS gene family reveals their contribution to the high adaptability of wheat. PeerJ 2021;9:e10811. PMID: 33665016
  • Chao N, Qi Q, Li S, Ruan B et al. Characterization and functional analysis of the Hydroxycinnamoyl-CoA: shikimate hydroxycinnamoyl transferase (HCT) gene family in poplar. PeerJ 2021;9:e10741. PMID: 33665007
  • Nie H, Huang PQ, Jiang SH, Yang Q et al. The short isoform of PRLR suppresses the pentose phosphate pathway and nucleotide synthesis through the NEK9-Hippo axis in pancreatic cancer. Theranostics 2021;11(8):3898-3915. PMID: 33664869
  • Cheng WC, Chang CY, Lo CC, Hsieh CY et al. Identification of theranostic factors for patients developing metastasis after surgery for early-stage lung adenocarcinoma. Theranostics 2021;11(8):3661-3675. PMID: 33664854
  • Wang J, Liu B, Yao J, Liu Z et al. Interleukin-1 receptor-associated kinase 4 as a potential biomarker: Overexpression predicts poor prognosis in patients with glioma. Oncol Lett 2021 Apr;21(4):254. PMID: 33664818
  • Luo J, Zhu L, Zhou N, Zhang Y et al. Construction of Circular RNA-MicroRNA-Messenger RNA Regulatory Network of Recurrent Implantation Failure to Explore Its Potential Pathogenesis. Front Genet 2020;11:627459. PMID: 33664765
  • Li S, Liu Y, Qiu G, Luo Y et al. Long Non-Coding RNA CAR10 Facilitates Non-Small Cell Lung Cancer Cell Migration and Invasion by Modulating the miR-892a/GJB2 Pathway. Cancer Manag Res 2021;13:1967-1979. PMID: 33664589
  • Shaw TI, Dong L, Tian L, Qian C et al. Integrative network analysis reveals USP7 haploinsufficiency inhibits E-protein activity in pediatric T-lineage acute lymphoblastic leukemia (T-ALL). Sci Rep 2021 Mar 4;11(1):5154. PMID: 33664368
  • Sun Z, Tan J, Zhao M, Peng Q et al. Integrated genomic analysis reveals regulatory pathways and dynamic landscapes of the tRNA transcriptome. Sci Rep 2021 Mar 4;11(1):5226. PMID: 33664286
  • Weeks SE, Kammerud SC, Metge BJ, AlSheikh HA et al. Inhibiting β-catenin disables nucleolar functions in triple-negative breast cancer. Cell Death Dis 2021 Mar 4;12(3):242. PMID: 33664239
  • Sorek M, Oweis W, Nissim-Rafinia M, Maman M et al. Pluripotent stem cell-derived models of neurological diseases reveal early transcriptional heterogeneity. Genome Biol 2021 Mar 4;22(1):73. PMID: 33663567
  • Xia R, Tang H, Shen J, Xu S et al. Prognostic value of a novel glycolysis-related gene expression signature for gastrointestinal cancer in the Asian population. Cancer Cell Int 2021 Mar 4;21(1):154. PMID: 33663535
  • Li X, Duan Y, Hao Y et al. Identification of super enhancer-associated key genes for prognosis of germinal center B-cell type diffuse large B-cell lymphoma by integrated analysis. BMC Med Genomics 2021 Mar 4;14(1):69. PMID: 33663517
  • Topno R, Singh I, Kumar M, Agarwal P et al. Integrated bioinformatic analysis identifies UBE2Q1 as a potential prognostic marker for high grade serous ovarian cancer. BMC Cancer 2021 Mar 4;21(1):220. PMID: 33663405
  • Noh H, Hua Z, Chrysinas P, Shoemaker JE et al. DeltaNeTS+: elucidating the mechanism of drugs and diseases using gene expression and transcriptional regulatory networks. BMC Bioinformatics 2021 Mar 4;22(1):108. PMID: 33663384
  • Willforss J, Siino V, Levander F et al. OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons. BMC Bioinformatics 2021 Mar 4;22(1):107. PMID: 33663372
  • Wu X, Zhao J et al. Novel oxidative stress-related prognostic biomarkers for melanoma associated with tumor metastasis. Medicine (Baltimore) 2021 Feb 26;100(8):e24866. PMID: 33663112
  • Das S, Rai SN et al. SwarnSeq: An improved statistical approach for differential expression analysis of single-cell RNA-seq data. Genomics 2021 May;113(3):1308-1324. PMID: 33662531
  • Bazan R, Schröfel A, Joachimiak E, Poprzeczko M et al. Ccdc113/Ccdc96 complex, a novel regulator of ciliary beating that connects radial spoke 3 to dynein g and the nexin link. PLoS Genet 2021 Mar;17(3):e1009388. PMID: 33661892
  • Proietti D, Giordani L, De Bardi M, D'Ercole C et al. Activation of skeletal muscle-resident glial cells upon nerve injury. JCI Insight 2021 Apr 8;6(7). PMID: 33661767
  • Woo MS, Ufer F, Rothammer N, Di Liberto G et al. Neuronal metabotropic glutamate receptor 8 protects against neurodegeneration in CNS inflammation. J Exp Med 2021 May 3;218(5). PMID: 33661276
  • Wang X, Yang J, Gao X et al. Identification of key genes associated with lung adenocarcinoma by bioinformatics analysis. Sci Prog 2021 Jan-Mar;104(1):36850421997276. PMID: 33661044
  • Huang H, Song WQ, Li Y et al. The gelsolin level in patients with primary Sjogren's syndrome. Eur Rev Med Pharmacol Sci 2021 Feb;25(4):2072-2078. PMID: 33660820
  • Wasim A, Gupta A, Mondal J et al. A Hi-C data-integrated model elucidates E. coli chromosome's multiscale organization at various replication stages. Nucleic Acids Res 2021 Apr 6;49(6):3077-3091. PMID: 33660781
  • Zhang C, Ke Y, Lei X, Liu X et al. The relationship among Girdin DNA methylation, its high expression, and immune infiltration in hepatocellular carcinoma: Clues from in silico analysis. Biosci Rep 2021 Mar 26;41(3). PMID: 33660763
  • Zhang Y, Lu W, Chen Y, Lin Y et al. The miR-19b-3p-MAP2K3-STAT3 feedback loop regulates cell proliferation and invasion in esophageal squamous cell carcinoma. Mol Oncol 2021 May;15(5):1566-1583. PMID: 33660414
  • Zhou Y, Li K, Du Y, Wu Z et al. Protein interacting with C-kinase 1 is involved in epithelial-mesenchymal transformation and suppresses progress of gastric cancer. Med Oncol 2021 Mar 4;38(4):34. PMID: 33660148
  • Xu Z, Gujar H, Fu G, Ahmadi H et al. A Novel DNA Methylation Signature as an Independent Prognostic Factor in Muscle-Invasive Bladder Cancer. Front Oncol 2021;11:614927. PMID: 33659216
  • Kang L, Jia H, Huang B, Lu S et al. Identification of Differently Expressed mRNAs in Atherosclerosis Reveals CDK6 Is Regulated by circHIPK3/miR-637 Axis and Promotes Cell Growth in Human Vascular Smooth Muscle Cells. Front Genet 2021;12:596169. PMID: 33659023
  • Cai M, Li H, Chen R, Zhou X et al. MRPL13 Promotes Tumor Cell Proliferation, Migration and EMT Process in Breast Cancer Through the PI3K-AKT-mTOR Pathway. Cancer Manag Res 2021;13:2009-2024. PMID: 33658859
  • Gampala S, Shah F, Zhang C, Rhodes SD et al. Exploring transcriptional regulators Ref-1 and STAT3 as therapeutic targets in malignant peripheral nerve sheath tumours. Br J Cancer 2021 Apr;124(9):1566-1580. PMID: 33658640
  • Sarver AL, Xie C, Riddle MJ, Forster CL et al. Retinoblastoma tumor cell proliferation is negatively associated with an immune gene expression signature and increased immune cells. Lab Invest 2021 Jun;101(6):701-718. PMID: 33658609
  • van den Hoek AM, Verschuren L, Caspers MPM, Worms N et al. Beneficial effects of elafibranor on NASH in E3L.CETP mice and differences between mice and men. Sci Rep 2021 Mar 3;11(1):5050. PMID: 33658534
  • Spichal M, Heestand B, Billmyre KK, Frenk S et al. Germ granule dysfunction is a hallmark and mirror of Piwi mutant sterility. Nat Commun 2021 Mar 3;12(1):1420. PMID: 33658512
  • Gopi LK, Kidder BL et al. Integrative pan cancer analysis reveals epigenomic variation in cancer type and cell specific chromatin domains. Nat Commun 2021 Mar 3;12(1):1419. PMID: 33658503
  • Custers L, Khabirova E, Coorens THH, Oliver TRW et al. Somatic mutations and single-cell transcriptomes reveal the root of malignant rhabdoid tumours. Nat Commun 2021 Mar 3;12(1):1407. PMID: 33658498
  • Hu LP, Zhou KX, Huo YM, Liu DJ et al. Single-cell RNA sequencing reveals that targeting HSP90 suppresses PDAC progression by restraining mitochondrial bioenergetics. Oncogenesis 2021 Mar 3;10(3):22. PMID: 33658487
  • Zhao X, Weng W, Jin M, Li S et al. Identification of Biomarkers Based on Bioinformatics Analysis: The Expression of Ubiquitin-Conjugating Enzyme E2T (UBE2T) in the Carcinogenesis and Progression of Hepatocellular Carcinoma. Med Sci Monit 2021 Mar 4;27:e929023. PMID: 33658475
  • Shen E, Han Y, Cai C, Liu P et al. Low expression of NLRP1 is associated with a poor prognosis and immune infiltration in lung adenocarcinoma patients. Aging (Albany NY) 2021 Mar 3;13(5):7570-7588. PMID: 33658393
  • Zhao J, Li H, Zhao S, Wang E et al. Epigenetic silencing of miR-144/451a cluster contributes to HCC progression via paracrine HGF/MIF-mediated TAM remodeling. Mol Cancer 2021 Mar 3;20(1):46. PMID: 33658044
  • Sedlmeier EM, Meyer DM, Stecher L, Sailer M et al. Fetal sex modulates placental microRNA expression, potential microRNA-mRNA interactions, and levels of amino acid transporter expression and substrates: INFAT study subpopulation analysis of n-3 LCPUFA intervention during pregnancy and associations with offspring body composition. BMC Mol Cell Biol 2021 Mar 3;22(1):15. PMID: 33657992
  • Zheng S, Peng J, Jia J, Wu T et al. Revealing the link between macrophage in microenvironment of osteosarcoma and poor prognosis by utilizing the Integrated analysis. J Musculoskelet Neuronal Interact 2021 Mar 1;21(1):130-137. PMID: 33657763
  • Lindborg JA, Tran NM, Chenette DM, DeLuca K et al. Optic nerve regeneration screen identifies multiple genes restricting adult neural repair. Cell Rep 2021 Mar 2;34(9):108777. PMID: 33657370
  • Ding H, Hu H, Tian F, Liang H et al. A dual immune signature of CD8+ T cells and MMP9 improves the survival of patients with hepatocellular carcinoma. Biosci Rep 2021 Mar 26;41(3). PMID: 33656546
  • Chen L, Ke X et al. MMP7 as a potential biomarker of colon cancer and its prognostic value by bioinformatics analysis. Medicine (Baltimore) 2021 Mar 5;100(9):e24953. PMID: 33655961
  • Yang X, Feng Q, Jing J, Yan J et al. Identification of differentially expressed genes associated with lung adenocarcinoma via bioinformatics analysis. Gen Physiol Biophys 2021 Jan;40(1):31-48. PMID: 33655889
  • He M, Han Y, Cai C, Liu P et al. CLEC10A is a prognostic biomarker and correlated with clinical pathologic features and immune infiltrates in lung adenocarcinoma. J Cell Mol Med 2021 Apr;25(7):3391-3399. PMID: 33655701
  • Bonelli R, Jackson VE, Prasad A, Munro JE et al. Identification of genetic factors influencing metabolic dysregulation and retinal support for MacTel, a retinal disorder. Commun Biol 2021 Mar 2;4(1):274. PMID: 33654266
  • Fiskus W, Mill CP, Perera D, Birdwell C et al. BET proteolysis targeted chimera-based therapy of novel models of Richter Transformation-diffuse large B-cell lymphoma. Leukemia 2021 Sep;35(9):2621-2634. PMID: 33654205
  • Li Y, Shi F, Hu J, Xie L et al. Stabilization of p18 by deubiquitylase CYLD is pivotal for cell cycle progression and viral replication. NPJ Precis Oncol 2021 Mar 2;5(1):14. PMID: 33654169
  • Gao A, Liu X, Lin W, Wang J et al. Tumor-derived ILT4 induces T cell senescence and suppresses tumor immunity. J Immunother Cancer 2021 Mar;9(3). PMID: 33653799
  • Han Z, Yang B, Wang Q, Hu Y et al. Comprehensive analysis of the transcriptome-wide m(6)A methylome in invasive malignant pleomorphic adenoma. Cancer Cell Int 2021 Mar 2;21(1):142. PMID: 33653351
  • Gao L, Zhao Y, Ma X, Zhang L et al. Integrated analysis of lncRNA-miRNA-mRNA ceRNA network and the potential prognosis indicators in sarcomas. BMC Med Genomics 2021 Mar 2;14(1):67. PMID: 33653335
  • Bensellam M, Laybutt DR, Jonas JC et al. Emerging Roles of Metallothioneins in Beta Cell Pathophysiology: Beyond and Above Metal Homeostasis and Antioxidant Response. Biology (Basel) 2021 Feb 26;10(3). PMID: 33652748
  • Zhu C, He X, Chen K, Huang Z et al. LncRNA NBR2 aggravates hepatoblastoma cell malignancy and promotes cell proliferation under glucose starvation through the miR-22/TCF7 axis. Cell Cycle 2021 Mar-Mar;20(5-6):575-590. PMID: 33651649
  • Mayr CH, Simon LM, Leuschner G, Ansari M et al. Integrative analysis of cell state changes in lung fibrosis with peripheral protein biomarkers. EMBO Mol Med 2021 Apr 9;13(4):e12871. PMID: 33650774
  • Chen Y, Quan L, Jia C, Guo Y et al. Proteomics-Based Approach Reveals the Involvement of SERPINB9 in Recurrent and Relapsed Multiple Myeloma. J Proteome Res 2021 May 7;20(5):2673-2686. PMID: 33650432
  • Jia R, Weng Y, Li Z, Liang W et al. Bioinformatics Analysis Identifies IL6ST as a Potential Tumor Suppressor Gene for Triple-Negative Breast Cancer. Reprod Sci 2021 Aug;28(8):2331-2341. PMID: 33650093
  • Wang M, Feng Z, Li X, Sun S et al. Assessment of multiple pathways involved in the inhibitory effect of HCG22 on oral squamous cell carcinoma progression. Mol Cell Biochem 2021 Jun;476(6):2561-2571. PMID: 33649984
  • Bae DH, Kim HJ, Yoon BH, Park JL et al. STK31 upregulation is associated with chromatin remodeling in gastric cancer and induction of tumorigenicity in a xenograft mouse model. Oncol Rep 2021 Apr;45(4). PMID: 33649810
  • Ota R, Hayashi M, Morita S, Miura H et al. Absence of X-chromosome dosage compensation in the primordial germ cells of Drosophila embryos. Sci Rep 2021 Mar 1;11(1):4890. PMID: 33649478
  • Dao FT, Wang J, Yang L, Qin YZ et al. Development of a poor-prognostic-mutations derived immune prognostic model for acute myeloid leukemia. Sci Rep 2021 Mar 1;11(1):4856. PMID: 33649342
  • Juarez-Flores A, Zamudio GS, José MV et al. Novel gene signatures for stage classification of the squamous cell carcinoma of the lung. Sci Rep 2021 Mar 1;11(1):4835. PMID: 33649335
  • Velten L, Story BA, Hernández-Malmierca P, Raffel S et al. Identification of leukemic and pre-leukemic stem cells by clonal tracking from single-cell transcriptomics. Nat Commun 2021 Mar 1;12(1):1366. PMID: 33649320
  • Baltan S, Jawaid SS, Chomyk AM, Kidd GJ et al. Neuronal hibernation following hippocampal demyelination. Acta Neuropathol Commun 2021 Mar 1;9(1):34. PMID: 33648591
  • Luo H, Liu W, Zhang Y, Yang Y et al. METTL3-mediated m(6)A modification regulates cell cycle progression of dental pulp stem cells. Stem Cell Res Ther 2021 Mar 1;12(1):159. PMID: 33648590
  • Wang L, Zhou Y, Jiang L, Lu L et al. CircWAC induces chemotherapeutic resistance in triple-negative breast cancer by targeting miR-142, upregulating WWP1 and activating the PI3K/AKT pathway. Mol Cancer 2021 Mar 1;20(1):43. PMID: 33648498
  • Huo Y, Sheng Z, Lu DR, Ellwanger DC et al. Blinatumomab-induced T cell activation at single cell transcriptome resolution. BMC Genomics 2021 Mar 1;22(1):145. PMID: 33648458
  • Li X, Peng C, Zhu Z, Cai H et al. The networks of m(6)A-SARS-CoV-2 related genes and immune infiltration patterns in idiopathic pulmonary fibrosis. Aging (Albany NY) 2021 Mar 1;13(5):6273-6288. PMID: 33647885
  • Hannon E, Dempster EL, Mansell G, Burrage J et al. DNA methylation meta-analysis reveals cellular alterations in psychosis and markers of treatment-resistant schizophrenia. Elife 2021 Feb 26;10. PMID: 33646943
  • Iglesias P, Puller AC, Seoane M, Spohn M et al. Genome-wide interference of ZNF423 with B-lineage transcriptional circuitries in acute lymphoblastic leukemia. Blood Adv 2021 Mar 9;5(5):1209-1223. PMID: 33646306
  • Ray S, Tillo D, Durell SR, Khund-Sayeed S et al. REL Domain of NFATc2 Binding to Five Types of DNA Using Protein Binding Microarrays. ACS Omega 2021 Feb 16;6(6):4147-4154. PMID: 33644537
  • Liu L, Ma F, Hao Y, Yi Z et al. Integrative Informatics Analysis of Transcriptome and Identification of Interacted Genes in the Glomeruli and Tubules in CKD. Front Med (Lausanne) 2020;7:615306. PMID: 33644086
  • Lai CH, Chen AT, Burns AB, Sriram K et al. RAMP2-AS1 Regulates Endothelial Homeostasis and Aging. Front Cell Dev Biol 2021;9:635307. PMID: 33644072
  • Yang Y, Wang X, Liu Y, Hu Y et al. Up-Regulation of SALL4 Is Associated With Survival and Progression via Putative WNT Pathway in Gastric Cancer. Front Cell Dev Biol 2021;9:600344. PMID: 33644042
  • Wang H, Leng X, Yang J, Zhang M et al. Comprehensive analysis of AHL gene family and their expression under drought stress and ABA treatment in Populus trichocarpa. PeerJ 2021;9:e10932. PMID: 33643717
  • Christmann C, Zenker S, Martens L, Hübner J et al. Interleukin 17 Promotes Expression of Alarmins S100A8 and S100A9 During the Inflammatory Response of Keratinocytes. Front Immunol 2020;11:599947. PMID: 33643287
  • Lin HH, Tsai WC, Tsai CK, Chen SH et al. Overexpression of Cell-Surface Marker SLC16A1 Shortened Survival in Human High-Grade Gliomas. J Mol Neurosci 2021 Aug;71(8):1614-1621. PMID: 33641091
  • Yu Z, Li X, Yang M, Huang J et al. TRIM41 is required to innate antiviral response by polyubiquitinating BCL10 and recruiting NEMO. Signal Transduct Target Ther 2021 Feb 28;6(1):90. PMID: 33640899
  • Kang Q, Li W, Xiao J, Yu N et al. Identification of potential crucial genes associated with early-onset preeclampsia via bioinformatic analysis. Pregnancy Hypertens 2021 Jun;24:27-36. PMID: 33640831
  • Secchi C, Benaglio P, Mulas F, Belli M et al. FOXO1 mitigates the SMAD3/FOXL2(C134W) transcriptomic effect in a model of human adult granulosa cell tumor. J Transl Med 2021 Feb 27;19(1):90. PMID: 33639972
  • Perotin JM, Polette M, Deslée G, Dormoy V et al. CiliOPD: a ciliopathy-associated COPD endotype. Respir Res 2021 Feb 27;22(1):74. PMID: 33639936
  • Patel KD, Vora HH, Patel PS et al. Transcriptional Biomarkers in Oral Cancer: An Integrative Analysis and the Cancer Genome Atlas Validation. Asian Pac J Cancer Prev 2021 Feb 1;22(2):371-380. PMID: 33639650
  • Li H, Liang J, Wang J, Han J et al. Mex3a promotes oncogenesis through the RAP1/MAPK signaling pathway in colorectal cancer and is inhibited by hsa-miR-6887-3p. Cancer Commun (Lond) 2021 Jun;41(6):472-491. PMID: 33638620
  • Yao Y, Yang Y, Guo W, Xu L et al. METTL3-dependent m(6)A modification programs T follicular helper cell differentiation. Nat Commun 2021 Feb 26;12(1):1333. PMID: 33637761
  • Chan WF, Coughlan HD, Zhou JHS, Keenan CR et al. Pre-mitotic genome re-organisation bookends the B cell differentiation process. Nat Commun 2021 Feb 26;12(1):1344. PMID: 33637722
  • Lee SH, Kim O, Kim HJ, Hwangbo C et al. Epigenetic regulation of TGF-β-induced EMT by JMJD3/KDM6B histone H3K27 demethylase. Oncogenesis 2021 Feb 26;10(2):17. PMID: 33637682
  • Yin X, Gao Y, Song S, Hassani D et al. Identification, characterization and functional analysis of grape (Vitis vinifera L.) mitochondrial transcription termination factor (mTERF) genes in responding to biotic stress and exogenous phytohormone. BMC Genomics 2021 Feb 26;22(1):136. PMID: 33637035
  • Zhang Y, Huang Y, Dong Y, Liu X et al. Unique Patterns of H3K4me3 and H3K27me3 in 2-Cell-like Embryonic Stem Cells. Stem Cell Reports 2021 Mar 9;16(3):458-469. PMID: 33636112
  • Jiang Z, Shi Y, Tan G, Wang Z et al. Computational screening of potential glioma-related genes and drugs based on analysis of GEO dataset and text mining. PLoS One 2021;16(2):e0247612. PMID: 33635875
  • Sullivan DI, Jiang M, Hinchie AM, Roth MG et al. Transcriptional and Proteomic Characterization of Telomere-Induced Senescence in a Human Alveolar Epithelial Cell Line. Front Med (Lausanne) 2021;8:600626. PMID: 33634147
  • Clark BS, Miesfeld JB, Flinn MA, Collery RF et al. Dynamic Polarization of Rab11a Modulates Crb2a Localization and Impacts Signaling to Regulate Retinal Neurogenesis. Front Cell Dev Biol 2020;8:608112. PMID: 33634099
  • Wang J, Yang S, Min L, Zhu S et al. ECT2 Increases the stability of EGFR and Tumorigenicity by Inhibiting Grb2 Ubiquitination in Pancreatic Cancer. Front Oncol 2020;10:589241. PMID: 33634019
  • Chen X, Raza SHA, Ma X, Wang J et al. Bovine Pre-adipocyte Adipogenesis Is Regulated by bta-miR-150 Through mTOR Signaling. Front Genet 2021;12:636550. PMID: 33633792
  • Yang Q, Tian S, Liu Z, Dong W et al. Knockdown of RIPK2 Inhibits Proliferation and Migration, and Induces Apoptosis via the NF-κB Signaling Pathway in Gastric Cancer. Front Genet 2021;12:627464. PMID: 33633788
  • Rubino E, Cruciani M, Tchitchek N, Le Tortorec A et al. Human Ubiquitin-Specific Peptidase 18 Is Regulated by microRNAs via the 3'Untranslated Region, A Sequence Duplicated in Long Intergenic Non-coding RNA Genes Residing in chr22q11.21. Front Genet 2020;11:627007. PMID: 33633774
  • Zhang X, Shao Z, Xu S, Liu Q et al. Immune Profiling of Parkinson's Disease Revealed Its Association With a Subset of Infiltrating Cells and Signature Genes. Front Aging Neurosci 2021;13:605970. PMID: 33633562
  • Metselaar PI, Mendoza-Maldonado L, Li Yim AYF, Abarkan I et al. Recursive ensemble feature selection provides a robust mRNA expression signature for myalgic encephalomyelitis/chronic fatigue syndrome. Sci Rep 2021 Feb 25;11(1):4541. PMID: 33633136
  • Huyghe JR, Harrison TA, Bien SA, Hampel H et al. Genetic architectures of proximal and distal colorectal cancer are partly distinct. Gut 2021 Jul;70(7):1325-1334. PMID: 33632709
  • Dai W, Feng J, Hu X, Chen Y et al. SLC7A7 is a prognostic biomarker correlated with immune infiltrates in non-small cell lung cancer. Cancer Cell Int 2021 Feb 15;21(1):106. PMID: 33632211
  • Wang J, Dai P, Zou T, Lv Y et al. Transcriptome analysis of the transdifferentiation of canine BMSCs into insulin producing cells. BMC Genomics 2021 Feb 25;22(1):134. PMID: 33632121
  • Zhang Y, Lu H, Zhang J, Wang S et al. Utility of a metabolic-associated nomogram to predict the recurrence-free survival of stage I cervical cancer. Future Oncol 2021 Apr;17(11):1325-1337. PMID: 33631974
  • Wang Y, Wang J, Tang Q, Ren G et al. Identification of UBE2C as hub gene in driving prostate cancer by integrated bioinformatics analysis. PLoS One 2021;16(2):e0247827. PMID: 33630978
  • Ghobadi MZ, Emamzadeh R, Mozhgani SH et al. Deciphering microRNA-mRNA regulatory network in adult T-cell leukemia/lymphoma; the battle between oncogenes and anti-oncogenes. PLoS One 2021;16(2):e0247713. PMID: 33630973
  • Yu YW, Li YF, Jiang M, Zhao JJ et al. SPRR2C, DEFB4A, WIF1, CRY2, and KRT19 are correlated with the development of atopic eczema. Eur Rev Med Pharmacol Sci 2021 Feb;25(3):1436-1446. PMID: 33629313
  • Yang Q, Zhang R, Tang P, Sun Y et al. Ultrasound May Suppress Tumor Growth, Inhibit Inflammation, and Establish Tolerogenesis by Remodeling Innatome via Pathways of ROS, Immune Checkpoints, Cytokines, and Trained Immunity/Tolerance. J Immunol Res 2021;2021:6664453. PMID: 33628851
  • Huang K, Lin B, Liu Y, Guo Q et al. Genomic Expression Profiling and Bioinformatics Analysis of Chronic Recurrent Multifocal Osteomyelitis. Biomed Res Int 2021;2021:6898093. PMID: 33628812
  • Gaus S, Li H, Li S, Wang Q et al. Shared Genetic and Epigenetic Mechanisms between the Osteogenic Differentiation of Dental Pulp Stem Cells and Bone Marrow Stem Cells. Biomed Res Int 2021;2021:6697810. PMID: 33628811
  • Wei Y, Qi K, Yu Y, Lu W et al. Analysis of Differentially Expressed Genes in the Dentate Gyrus and Anterior Cingulate Cortex in a Mouse Model of Depression. Biomed Res Int 2021;2021:5013565. PMID: 33628784
  • Guan X, Xu ZY, Chen R, Qin JJ et al. Identification of an Immune Gene-Associated Prognostic Signature and Its Association With a Poor Prognosis in Gastric Cancer Patients. Front Oncol 2020;10:629909. PMID: 33628738
  • Wang Y, Qiu L, Chen Y, Zhang X et al. Screening and Identification of Four Prognostic Genes Related to Immune Infiltration and G-Protein Coupled Receptors Pathway in Lung Adenocarcinoma. Front Oncol 2020;10:622251. PMID: 33628734
  • Yu X, Yang Q, Wang D, Li Z et al. Predicting lung adenocarcinoma disease progression using methylation-correlated blocks and ensemble machine learning classifiers. PeerJ 2021;9:e10884. PMID: 33628643
  • Zheng S, Yao L, Li F, Huang L et al. Homologous recombination repair rathway and RAD54L in early-stage lung adenocarcinoma. PeerJ 2021;9:e10680. PMID: 33628633
  • Lu W, Pan X, Dai S, Fu D et al. Identifying Stage II Colorectal Cancer Recurrence Associated Genes by Microarray Meta-Analysis and Building Predictive Models with Machine Learning Algorithms. J Oncol 2021;2021:6657397. PMID: 33628243
  • Xia H, Wang D, Guo X, Wu K et al. Catalpol Protects Against Spinal Cord Injury in Mice Through Regulating MicroRNA-142-Mediated HMGB1/TLR4/NF-κB Signaling Pathway. Front Pharmacol 2020;11:630222. PMID: 33628189
  • Yang M, Hu C, Cao Y, Liang W et al. Ursolic Acid Regulates Cell Cycle and Proliferation in Colon Adenocarcinoma by Suppressing Cyclin B1. Front Pharmacol 2020;11:622212. PMID: 33628185
  • Huang Y, Zhong L, Nie K, Li L et al. Identification of LINC00665-miR-let-7b-CCNA2 competing endogenous RNA network associated with prognosis of lung adenocarcinoma. Sci Rep 2021 Feb 24;11(1):4434. PMID: 33627711
  • Gharahkhani P, Jorgenson E, Hysi P, Khawaja AP et al. Genome-wide meta-analysis identifies 127 open-angle glaucoma loci with consistent effect across ancestries. Nat Commun 2021 Feb 24;12(1):1258. PMID: 33627673
  • Rodriguez E, Boelaars K, Brown K, Eveline Li RJ et al. Sialic acids in pancreatic cancer cells drive tumour-associated macrophage differentiation via the Siglec receptors Siglec-7 and Siglec-9. Nat Commun 2021 Feb 24;12(1):1270. PMID: 33627655
  • Sen M, Mooijman D, Chialastri A, Boisset JC et al. Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development. Nat Commun 2021 Feb 24;12(1):1286. PMID: 33627650
  • Zuo S, Sun L, Wang Y, Chen B et al. Establishment of a novel mesenchymal stem cell-based regimen for chronic myeloid leukemia differentiation therapy. Cell Death Dis 2021 Feb 24;12(2):208. PMID: 33627636
  • Dou R, Qian J, Wu W, Zhang Y et al. Suppression of steroid 5α-reductase type I promotes cellular apoptosis and autophagy via PI3K/Akt/mTOR pathway in multiple myeloma. Cell Death Dis 2021 Feb 24;12(2):206. PMID: 33627630
  • Cohen A, Ioannidis K, Ehrlich A, Regenbaum S et al. Mechanism and reversal of drug-induced nephrotoxicity on a chip. Sci Transl Med 2021 Feb 24;13(582). PMID: 33627489
  • Xu J, Zhang P, Huang Y, Zhou Y et al. Multimodal single-cell/nucleus RNA sequencing data analysis uncovers molecular networks between disease-associated microglia and astrocytes with implications for drug repurposing in Alzheimer's disease. Genome Res 2021 Oct;31(10):1900-1912. PMID: 33627474
  • Yang Z, Wang W, Zhao L, Wang X et al. Plasma cells shape the mesenchymal identity of ovarian cancers through transfer of exosome-derived microRNAs. Sci Adv 2021 Feb;7(9). PMID: 33627414
  • Tian M, Wang T, Wang P et al. Development and Clinical Validation of a Seven-Gene Prognostic Signature Based on Multiple Machine Learning Algorithms in Kidney Cancer. Cell Transplant 2021 Jan-Dec;30:963689720969176. PMID: 33626918
  • Wang Y, Huo Z, Lin Q, Lin Y et al. Positive Feedback Loop of Long Noncoding RNA OASL-IT1 and Innate Immune Response Restricts the Replication of Zika Virus in Epithelial A549 Cells. J Innate Immun 2021;13(3):179-193. PMID: 33626545
  • Wang H, Hou W, Perera A, Bettler C et al. Targeting EphA2 suppresses hepatocellular carcinoma initiation and progression by dual inhibition of JAK1/STAT3 and AKT signaling. Cell Rep 2021 Feb 23;34(8):108765. PMID: 33626345
  • Luan J, Xiang G, Gómez-García PA, Tome JM et al. Distinct properties and functions of CTCF revealed by a rapidly inducible degron system. Cell Rep 2021 Feb 23;34(8):108783. PMID: 33626344
  • Tian X, Xu WH, Anwaier A, Wang HK et al. Construction of a robust prognostic model for adult adrenocortical carcinoma: Results from bioinformatics and real-world data. J Cell Mol Med 2021 Apr;25(8):3898-3911. PMID: 33626208
  • van de Grift YBC, Heijmans N, van Amerongen R et al. How to Use Online Tools to Generate New Hypotheses for Mammary Gland Biology Research: A Case Study for Wnt7b. J Mammary Gland Biol Neoplasia 2020 Dec;25(4):319-335. PMID: 33625717
  • Shou Y, Yang L, Yang Y, Zhu X et al. Determination of hypoxia signature to predict prognosis and the tumor immune microenvironment in melanoma. Mol Omics 2021 Apr 1;17(2):307-316. PMID: 33624645
  • Li Z, Chen J, Zhao S, Li Y et al. Discovery and validation of novel biomarkers for detection of cervical cancer. Cancer Med 2021 Mar;10(6):2063-2074. PMID: 33624385
  • Li M, Geng R, Li C, Meng F et al. Dysregulated gene-associated biomarkers for Alzheimer's disease and aging. Transl Neurosci 2021 Jan 1;12(1):83-95. PMID: 33623715
  • Mantsoki A, Parussel K, Joshi A et al. Identification and Characterisation of Putative Enhancer Elements in Mouse Embryonic Stem Cells. Bioinform Biol Insights 2021;15:1177932220974623. PMID: 33623376
  • Wang Y, Yuan P, Yan Z, Yang M et al. Single-cell multiomics sequencing reveals the functional regulatory landscape of early embryos. Nat Commun 2021 Feb 23;12(1):1247. PMID: 33623021
  • de Vries M, Mohamed AS, Prescott RA, Valero-Jimenez AM et al. A comparative analysis of SARS-CoV-2 antivirals characterizes 3CL(pro) inhibitor PF-00835231 as a potential new treatment for COVID-19. J Virol 2021 Mar 10;95(7). PMID: 33622961
  • Li Q, Meissner TB, Wang F, Du Z et al. ELF3 activated by a superenhancer and an autoregulatory feedback loop is required for high-level HLA-C expression on extravillous trophoblasts. Proc Natl Acad Sci U S A 2021 Mar 2;118(9). PMID: 33622787
  • Zhu M, Wu M, Bian S, Song Q et al. DNA primase subunit 1 deteriorated progression of hepatocellular carcinoma by activating AKT/mTOR signaling and UBE2C-mediated P53 ubiquitination. Cell Biosci 2021 Feb 23;11(1):42. PMID: 33622397
  • Devarbhavi P, Telang L, Vastrad B, Tengli A et al. Identification of key pathways and genes in polycystic ovary syndrome via integrated bioinformatics analysis and prediction of small therapeutic molecules. Reprod Biol Endocrinol 2021 Feb 23;19(1):31. PMID: 33622336
  • Geng R, Huang X et al. Identification of major depressive disorder disease-related genes and functional pathways based on system dynamic changes of network connectivity. BMC Med Genomics 2021 Feb 23;14(1):55. PMID: 33622334
  • Zhang M, Li P, Yan X, Wang J et al. Genome-wide characterization of PEBP family genes in nine Rosaceae tree species and their expression analysis in P. mume. BMC Ecol Evol 2021 Feb 23;21(1):32. PMID: 33622244
  • Mercurio S, Alberti C, Serra L, Meneghini S et al. An early Sox2-dependent gene expression programme required for hippocampal dentate gyrus development. Open Biol 2021 Feb;11(2):200339. PMID: 33622105
  • Dúcka M, Kučeríková M, Trčka F, Červinka J et al. c-Myb interferes with inflammatory IL1α-NF-κB pathway in breast cancer cells. Neoplasia 2021 Mar;23(3):326-336. PMID: 33621853
  • Lee JY, Song J, LeBlanc L, Davis I et al. Conserved dual-mode gene regulation programs in higher eukaryotes. Nucleic Acids Res 2021 Mar 18;49(5):2583-2597. PMID: 33621342
  • Wang F, Gervasi MG, Bošković A, Sun F et al. Deficient spermiogenesis in mice lacking Rlim. Elife 2021 Feb 23;10. PMID: 33620316
  • Shi Q, Meng Z, Tian XX, Wang YF et al. Identification and validation of a hub gene prognostic index for hepatocellular carcinoma. Future Oncol 2021 Jun;17(17):2193-2208. PMID: 33620260
  • Wang W, Tan H, Sun M, Han Y et al. Independent component analysis based gene co-expression network inference (ICAnet) to decipher functional modules for better single-cell clustering and batch integration. Nucleic Acids Res 2021 May 21;49(9):e54. PMID: 33619563
  • Policard M, Jain S, Rego S, Dakshanamurthy S et al. Immune characterization and profiles of SARS-CoV-2 infected patients reveals potential host therapeutic targets and SARS-CoV-2 oncogenesis mechanism. bioRxiv 2021 Mar 22 PMID: 33619493
  • Song WM, Agrawal P, Von Itter R, Fontanals-Cirera B et al. Network models of primary melanoma microenvironments identify key melanoma regulators underlying prognosis. Nat Commun 2021 Feb 22;12(1):1214. PMID: 33619278
  • Guo H, Li J et al. scSorter: assigning cells to known cell types according to marker genes. Genome Biol 2021 Feb 22;22(1):69. PMID: 33618746
  • Liang H, Xu M, Xiong Z, Hu K et al. Identification of miRNAs as diagnostic and prognostic markers in hepatocellular carcinoma. Aging (Albany NY) 2021 Feb 22;13(4):6115-6133. PMID: 33617479
  • Lazar AA, Liu T, Turkcan MK, Zhou Y et al. Accelerating with FlyBrainLab the discovery of the functional logic of the Drosophila brain in the connectomic and synaptomic era. Elife 2021 Feb 22;10. PMID: 33616035
  • Wang L, Mo C, Wang L, Cheng M et al. Identification of genes and pathways related to breast cancer metastasis in an integrated cohort. Eur J Clin Invest 2021 Jul;51(7):e13525. PMID: 33615456
  • Siddiqui SS, Vaill M, Do R, Khan N et al. Human-specific polymorphic pseudogenization of SIGLEC12 protects against advanced cancer progression. FASEB Bioadv 2021 Feb;3(2):69-82. PMID: 33615152
  • Yan N, Liu C, Tian F, Wang L et al. Downregulated mRNA Expression of ZNF385B Is an Independent Predictor of Breast Cancer. Int J Genomics 2021;2021:4301802. PMID: 33614780
  • Li T, Yin Y, Mu N, Wang Y et al. Metformin-Enhanced Cardiac AMP-Activated Protein Kinase/Atrogin-1 Pathways Inhibit Charged Multivesicular Body Protein 2B Accumulation in Ischemia-Reperfusion Injury. Front Cell Dev Biol 2020;8:621509. PMID: 33614629
  • Wang MJ, Liu WY, Wang XY, Li YM et al. Autophagy Gene Panel-Based Prognostic Model in Myelodysplastic Syndrome. Front Oncol 2020;10:606928. PMID: 33614490
  • Bao D, Zhang C, Li L, Wang H et al. Integrative Analysis of Complement System to Prognosis and Immune Infiltrating in Colon Cancer and Gastric Cancer. Front Oncol 2020;10:553297. PMID: 33614473
  • Nie Y, Liu L, Liu Q, Zhu X et al. Identification of a metabolic-related gene signature predicting the overall survival for patients with stomach adenocarcinoma. PeerJ 2021;9:e10908. PMID: 33614297
  • Yang C, Xie S, Wu Y, Ru G et al. Prognostic implications of cell division cycle protein 45 expression in hepatocellular carcinoma. PeerJ 2021;9:e10824. PMID: 33614286
  • Wu Y, Deng J, Lai S, You Y et al. A risk score model with five long non-coding RNAs for predicting prognosis in gastric cancer: an integrated analysis combining TCGA and GEO datasets. PeerJ 2021;9:e10556. PMID: 33614260
  • Mousavi SZ, Poortahmasebi V, Mokhtari-Azad T, Shahmahmoodi S et al. The dysregulation of microarray gene expression in cervical cancer is associated with overexpression of a unique messenger RNA signature. Iran J Microbiol 2020 Dec;12(6):629-635. PMID: 33613919
  • Wilson CM, Fridley BL, Conejo-Garcia JR, Wang X et al. Wide and deep learning for automatic cell type identification. Comput Struct Biotechnol J 2021;19:1052-1062. PMID: 33613870
  • Han Y, Yu X, Yin Y, Lv Z et al. Identification of Potential BRAF Inhibitor Joint Therapy Targets in PTC based on WGCAN and DCGA. J Cancer 2021;12(6):1779-1791. PMID: 33613767
  • Zhao Q, Zhong J, Lu P, Feng X et al. DOCK4 Is a Platinum-Chemosensitive and Prognostic-Related Biomarker in Ovarian Cancer. PPAR Res 2021;2021:6629842. PMID: 33613670
  • He Z, Pan Y, Shao F, Wang H et al. Identifying Differentially Expressed Genes of Zero Inflated Single Cell RNA Sequencing Data Using Mixed Model Score Tests. Front Genet 2021;12:616686. PMID: 33613638
  • Su W, Wei Y, Huang B, Ji J et al. Identification of Hub Genes and Immune Infiltration in Psoriasis by Bioinformatics Method. Front Genet 2021;12:606065. PMID: 33613635
  • Wu J, Xia X, Hu Y, Fang X et al. Identification of Infertility-Associated Topologically Important Genes Using Weighted Co-expression Network Analysis. Front Genet 2021;12:580190. PMID: 33613630
  • Zhao C, Liu J, Ge W, Li Z et al. Identification of Regulatory circRNAs Involved in the Pathogenesis of Acute Myocardial Infarction. Front Genet 2020;11:626492. PMID: 33613625
  • Gao S, Yan L, Zhang H, Fan X et al. Identification of a Metastasis-Associated Gene Signature of Clear Cell Renal Cell Carcinoma. Front Genet 2020;11:603455. PMID: 33613617
  • Yan H, Chen Y, Yang Z, Li Z et al. An Immune Cell Signature Is Associated With Disease-Free Survival and Adjuvant Chemosensitivity of Patients With Resectable Gastric Cancer. Front Immunol 2020;11:621623. PMID: 33613554
  • Tu W, Yao J, Mei Z, Jiang X et al. Microarray Data of Lacrimal Gland Implicates Dysregulated Protein Processing in Endoplasmic Reticulum in Graves' Ophthalmopathy. Front Endocrinol (Lausanne) 2020;11:571151. PMID: 33613444
  • Chen M, Chen S, Yang D, Zhou J et al. Weighted Gene Co-expression Network Analysis Identifies Crucial Genes Mediating Progression of Carotid Plaque. Front Physiol 2021;12:601952. PMID: 33613306
  • Rincic M, Rados M, Kopic J, Krsnik Z et al. 7p21.3 Together With a 12p13.32 Deletion in a Patient With Microcephaly-Does 12p13.32 Locus Possibly Comprises a Candidate Gene Region for Microcephaly? Front Mol Neurosci 2021;14:613091. PMID: 33613193
  • Yuan W, Yao Z, Veerapandian V, Yang X et al. The histone demethylase KDM2B regulates human primordial germ cell-like cells specification. Int J Biol Sci 2021;17(2):527-538. PMID: 33613110
  • Shahmoradi M, Rezvani Z et al. Functional Prediction of Long Noncoding RNAs in Cutaneous Melanoma Using a Systems Biology Approach. Bioinform Biol Insights 2021;15:1177932220988508. PMID: 33613027
  • Kristem L, Recamonde-Mendoza M, Cigerza GC, Khoraki J et al. Roux-en-Y Gastric Bypass Downregulates Angiotensin-Converting Enzyme 2 (ACE2) Gene Expression in Subcutaneous White Adipose Tissue: A Putative Protective Mechanism Against Severe COVID-19. Obes Surg 2021 Jun;31(6):2831-2834. PMID: 33611766
  • Gao H, Tripathi U, Trushin S, Okromelidze L et al. A genome-wide association study in human lymphoblastoid cells supports safety of mitochondrial complex I inhibitor. Mitochondrion 2021 May;58:83-94. PMID: 33610756
  • Sundaresan L, Giri S, Singh H, Chatterjee S et al. Repurposing of thalidomide and its derivatives for the treatment of SARS-coV-2 infections: Hints on molecular action. Br J Clin Pharmacol 2021 Oct;87(10):3835-3850. PMID: 33609410
  • Chen J, Li P, Chen Z, Wang S et al. Elevated LINC01550 induces the apoptosis and cell cycle arrest of melanoma. Med Oncol 2021 Feb 20;38(4):32. PMID: 33609219
  • Junet V, Farrés J, Mas JM, Daura X et al. CuBlock: a cross-platform normalization method for gene-expression microarrays. Bioinformatics 2021 Aug 25;37(16):2365-2373. PMID: 33609102
  • Weng H, Yuan S, Huang Q, Zeng XT et al. STAT1 is a key gene in a gene regulatory network related to immune phenotypes in bladder cancer: An integrative analysis of multi-omics data. J Cell Mol Med 2021 Apr;25(7):3258-3271. PMID: 33608980
  • Ochocka N, Segit P, Walentynowicz KA, Wojnicki K et al. Single-cell RNA sequencing reveals functional heterogeneity of glioma-associated brain macrophages. Nat Commun 2021 Feb 19;12(1):1151. PMID: 33608526
  • Kojima Y, Yamashiro C, Murase Y, Yabuta Y et al. GATA transcription factors, SOX17 and TFAP2C, drive the human germ-cell specification program. Life Sci Alliance 2021 May;4(5). PMID: 33608411
  • Li J, Zhu C, Yue P, Zheng T et al. Identification of glycolysis related pathways in pancreatic adenocarcinoma and liver hepatocellular carcinoma based on TCGA and GEO datasets. Cancer Cell Int 2021 Feb 19;21(1):128. PMID: 33607990
  • Wittenburg D, Doschoris M, Klosa J et al. Grouping of genomic markers in populations with family structure. BMC Bioinformatics 2021 Feb 19;22(1):79. PMID: 33607943
  • Cheng LC, Kao TJ, Phan NN, Chiao CC et al. Novel signaling pathways regulate SARS-CoV and SARS-CoV-2 infectious disease. Medicine (Baltimore) 2021 Feb 19;100(7):e24321. PMID: 33607766
  • Carobbio S, Guenantin AC, Bahri M, Rodriguez-Fdez S et al. Unraveling the Developmental Roadmap toward Human Brown Adipose Tissue. Stem Cell Reports 2021 Mar 9;16(3):641-655. PMID: 33606988
  • Børretzen A, Gravdal K, Haukaas SA, Mannelqvist M et al. The epithelial-mesenchymal transition regulators Twist, Slug, and Snail are associated with aggressive tumour features and poor outcome in prostate cancer patients. J Pathol Clin Res 2021 May;7(3):253-270. PMID: 33605548
  • Tjalsma SJD, Hori M, Sato Y, Bousard A et al. H4K20me1 and H3K27me3 are concurrently loaded onto the inactive X chromosome but dispensable for inducing gene silencing. EMBO Rep 2021 Mar 3;22(3):e51989. PMID: 33605056
  • Wu B, He Y, Yang D, Liu RX et al. Identification of hub genes and therapeutic drugs in rheumatoid arthritis patients. Clin Rheumatol 2021 Aug;40(8):3299-3309. PMID: 33604823
  • Hernández Cordero AI, Li X, Milne S, Yang CX et al. Multi-omics highlights ABO plasma protein as a causal risk factor for COVID-19. Hum Genet 2021 Jun;140(6):969-979. PMID: 33604698
  • Hung FY, Lai YC, Wang J, Feng YR et al. The Arabidopsis histone demethylase JMJ28 regulates CONSTANS by interacting with FBH transcription factors. Plant Cell 2021 May 31;33(4):1196-1211. PMID: 33604650
  • Zhou JG, Huang Z, Slaby O, Navarro A et al. Editorial: The Role of ncRNAs in Solid Tumors Prognosis: From Laboratory to Clinical Utility. Front Oncol 2020;10:631316. PMID: 33604302
  • Zhang MX, Wang L, Zeng L, Tu ZW et al. LCN2 Is a Potential Biomarker for Radioresistance and Recurrence in Nasopharyngeal Carcinoma. Front Oncol 2020;10:605777. PMID: 33604288
  • Tang Y, Tang R, Tang M, Huang P et al. LncRNA DNAJC3-AS1 Regulates Fatty Acid Synthase via the EGFR Pathway to Promote the Progression of Colorectal Cancer. Front Oncol 2020;10:604534. PMID: 33604287
  • Wang J, Lou Y, Lu J, Luo Y et al. A Deep Look into the Program of Rapid Tumor Growth of Hepatocellular Carcinoma. J Clin Transl Hepatol 2021 Feb 28;9(1):22-31. PMID: 33604252
  • Xiao H, Wang K, Li D, Wang K et al. Evaluation of FGFR1 as a diagnostic biomarker for ovarian cancer using TCGA and GEO datasets. PeerJ 2021;9:e10817. PMID: 33604191
  • Wang M, Jing J, Li H, Liu J et al. The expression characteristics and prognostic roles of autophagy-related genes in gastric cancer. PeerJ 2021;9:e10814. PMID: 33604190
  • Shao M, Yang S, Dong S et al. High expression of MCM10 is predictive of poor outcomes in lung adenocarcinoma. PeerJ 2021;9:e10560. PMID: 33604163
  • Chen Z, Ge M et al. Discovering pathways in benign prostate hyperplasia: A functional genomics pilot study. Exp Ther Med 2021 Mar;21(3):242. PMID: 33603850
  • Chen G, Liu L, Li H, Lun Z et al. Integrative Analysis of Transcriptome-Wide Association Study and mRNA Expression Profiles Identified Candidate Genes and Pathways Associated With Acute Myocardial Infarction. Front Genet 2021;12:616492. PMID: 33603775
  • Hao Y, Zhao Y, Wang P, Du K et al. Transcriptomic Signatures and Functional Network Analysis of Chronic Rhinosinusitis With Nasal Polyps. Front Genet 2021;12:609754. PMID: 33603773
  • Chen F, Zhou Y, Wu Z, Li Y et al. Integrated Analysis of Key Genes and Pathways Involved in Nonalcoholic Steatohepatitis Improvement After Roux-en-Y Gastric Bypass Surgery. Front Endocrinol (Lausanne) 2020;11:611213. PMID: 33603714
  • Yuan Z, Zhao Z, Hu H, Zhu Y et al. IgG Fc Binding Protein (FCGBP) is Down-Regulated in Metastatic Lesions and Predicts Survival in Metastatic Colorectal Cancer Patients. Onco Targets Ther 2021;14:967-977. PMID: 33603401
  • Avsec Ž, Weilert M, Shrikumar A, Krueger S et al. Base-resolution models of transcription-factor binding reveal soft motif syntax. Nat Genet 2021 Mar;53(3):354-366. PMID: 33603233
  • Zaghlool A, Niazi A, Björklund ÅK, Westholm JO et al. Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts. Sci Rep 2021 Feb 18;11(1):4076. PMID: 33603054
  • Bi L, Ren Y, Feng M, Meng P et al. HDAC11 Regulates Glycolysis through the LKB1/AMPK Signaling Pathway to Maintain Hepatocellular Carcinoma Stemness. Cancer Res 2021 Apr 15;81(8):2015-2028. PMID: 33602787
  • Zhang Z, Wang J, Chen O et al. Identification of biomarkers and pathogenesis in severe asthma by coexpression network analysis. BMC Med Genomics 2021 Feb 18;14(1):51. PMID: 33602227
  • Xu X, Lu Y, Wu Y, Wang M et al. A signature of seven immune-related genes predicts overall survival in male gastric cancer patients. Cancer Cell Int 2021 Feb 18;21(1):117. PMID: 33602220
  • Song Y, Wang X, Wang F, Peng X et al. Identification of four genes and biological characteristics of esophageal squamous cell carcinoma by integrated bioinformatics analysis. Cancer Cell Int 2021 Feb 18;21(1):123. PMID: 33602210
  • Li Y, Duche A, Sayer MR, Roosan D et al. SARS-CoV-2 early infection signature identified potential key infection mechanisms and drug targets. BMC Genomics 2021 Feb 18;22(1):125. PMID: 33602138
  • Lim KH, Kim SH, Yang S, Chun S et al. Advances in multiplex PCR for Alzheimer's disease diagnostics targeting CDK genes. Neurosci Lett 2021 Apr 1;749:135715. PMID: 33600906
  • Li Z, Jiang H, Kong L, Chen Y et al. Deep6mA: A deep learning framework for exploring similar patterns in DNA N6-methyladenine sites across different species. PLoS Comput Biol 2021 Feb;17(2):e1008767. PMID: 33600435
  • Wang S, Gong Y, Wang Z, Greenbaum J et al. Cell-specific network analysis of human folliculogenesis reveals network rewiring in antral stage oocytes. J Cell Mol Med 2021 Mar;25(6):2851-2860. PMID: 33599396
  • Jézéquel P, Gouraud W, Ben Azzouz F, Guérin-Charbonnel C et al. bc-GenExMiner 4.5: new mining module computes breast cancer differential gene expression analyses. Database (Oxford) 2021 Feb 18;2021. PMID: 33599248
  • Lim N, Tesar S, Belmadani M, Poirier-Morency G et al. Curation of over 10 000 transcriptomic studies to enable data reuse. Database (Oxford) 2021 Feb 18;2021. PMID: 33599246
  • Rabben HL, Andersen GT, Olsen MK, Øverby A et al. Neural signaling modulates metabolism of gastric cancer. iScience 2021 Feb 19;24(2):102091. PMID: 33598644
  • Shao F, Li Y, Hu W, Yu J et al. Downregulation of CISD2 Has Prognostic Value in Non-Small Cell Lung Cancer and Inhibits the Tumorigenesis by Inducing Mitochondrial Dysfunction. Front Oncol 2020;10:595524. PMID: 33598426
  • Yao Y, Ding Y, Bai Y, Zhou Q et al. Identification of Serum Circulating MicroRNAs as Novel Diagnostic Biomarkers of Gastric Cancer. Front Genet 2020;11:591515. PMID: 33597967
  • Zhang H, Wang Y, Wu X, Tang X et al. Determinants of genome-wide distribution and evolution of uORFs in eukaryotes. Nat Commun 2021 Feb 17;12(1):1076. PMID: 33597535
  • McClain MT, Constantine FJ, Henao R, Liu Y et al. Dysregulated transcriptional responses to SARS-CoV-2 in the periphery. Nat Commun 2021 Feb 17;12(1):1079. PMID: 33597532
  • Jin S, Guerrero-Juarez CF, Zhang L, Chang I et al. Inference and analysis of cell-cell communication using CellChat. Nat Commun 2021 Feb 17;12(1):1088. PMID: 33597522
  • He L, Jones J, He W, Bjork BC et al. PRDM16 regulates a temporal transcriptional program to promote progression of cortical neural progenitors. Development 2021 Mar 17;148(6). PMID: 33597191
  • Giles KA, Gould CM, Achinger-Kawecka J, Page SG et al. BRG1 knockdown inhibits proliferation through multiple cellular pathways in prostate cancer. Clin Epigenetics 2021 Feb 17;13(1):37. PMID: 33596994
  • Zhu C, Kim SJ, Mooradian A, Wang F et al. Cancer-associated exportin-6 upregulation inhibits the transcriptionally repressive and anticancer effects of nuclear profilin-1. Cell Rep 2021 Feb 16;34(7):108749. PMID: 33596420
  • Wang J, Rojas P, Mao J, Mustè Sadurnì M et al. Persistence of RNA transcription during DNA replication delays duplication of transcription start sites until G2/M. Cell Rep 2021 Feb 16;34(7):108759. PMID: 33596418
  • Wang J, Song H, Zhang Y et al. Comprehensive analysis of gene expression and DNA methylation for preeclampsia progression. J Chin Med Assoc 2021 Apr 1;84(4):410-417. PMID: 33595987
  • Chen C, Chio CL, Zeng H, Li Y et al. High expression of CD56 may be associated with favorable overall survival in intermediate-risk acute myeloid leukemia. Hematology 2021 Dec;26(1):210-214. PMID: 33594945
  • Song L, Chang R, Sun X, Lu L et al. Macrophage-derived EDA-A2 inhibits intestinal stem cells by targeting miR-494/EDA2R/β-catenin signaling in mice. Commun Biol 2021 Feb 16;4(1):213. PMID: 33594251
  • Höpner SS, Raykova A, Radpour R, Amrein MA et al. LIGHT/LTβR signaling regulates self-renewal and differentiation of hematopoietic and leukemia stem cells. Nat Commun 2021 Feb 16;12(1):1065. PMID: 33594067
  • Dobersch S, Rubio K, Singh I, Günther S et al. Positioning of nucleosomes containing γ-H2AX precedes active DNA demethylation and transcription initiation. Nat Commun 2021 Feb 16;12(1):1072. PMID: 33594057
  • Mer AS, Heath EM, Madani Tonekaboni SA, Dogan-Artun N et al. Biological and therapeutic implications of a unique subtype of NPM1 mutated AML. Nat Commun 2021 Feb 16;12(1):1054. PMID: 33594052
  • Altaf R, Nadeem H, Babar MM, Ilyas U et al. Genome-scale meta-analysis of breast cancer datasets identifies promising targets for drug development. J Biol Res (Thessalon) 2021 Feb 16;28(1):5. PMID: 33593445
  • Fu Y, Liu Q, Bao Q, Wen J et al. Development and analysis of long non-coding RNA-associated competing endogenous RNA network for osteosarcoma metastasis. Hereditas 2021 Feb 16;158(1):9. PMID: 33593435
  • Zhang Y, Wei J, Zhang L, Jiang G et al. Extracellular Vesicle-Derived miR-26b-5p is Up-Regulated in the Serum of Patients with Diabetic Retinopathy. Comb Chem High Throughput Screen 2022;25(5):877-882. PMID: 33593252
  • Mukherjee A, Park A, Wang L, Davies KP et al. Role of opiorphin genes in prostate cancer growth and progression. Future Oncol 2021 Jun;17(17):2209-2223. PMID: 33593085
  • Ichiyanagi T, Katoh H, Mori Y, Hirafuku K et al. B2 SINE Copies Serve as a Transposable Boundary of DNA Methylation and Histone Modifications in the Mouse. Mol Biol Evol 2021 May 19;38(6):2380-2395. PMID: 33592095
  • Liu X, Jia Y, Shi C, Kong D et al. CYP4B1 is a prognostic biomarker and potential therapeutic target in lung adenocarcinoma. PLoS One 2021;16(2):e0247020. PMID: 33592039
  • Li D, Sun X, Yu F, Perle MA et al. Application of counter-selectable marker PIGA in engineering designer deletion cell lines and characterization of CRISPR deletion efficiency. Nucleic Acids Res 2021 Mar 18;49(5):2642-2654. PMID: 33591308
  • Ulusan Bağcı Ö, Caner A et al. [Defining the Molecular Signal Pathways and Upstream Regulators in Cutaneous Leishmaniasis with Transcriptomic Data Approach]. Mikrobiyol Bul 2021 Jan;55(1):67-80. PMID: 33590982
  • Tran D, Nguyen H, Tran B, La Vecchia C et al. Fast and precise single-cell data analysis using a hierarchical autoencoder. Nat Commun 2021 Feb 15;12(1):1029. PMID: 33589635
  • Chi Y, Zheng W, Bao G, Wu L et al. Circular RNA circ_103820 suppresses lung cancer tumorigenesis by sponging miR-200b-3p to release LATS2 and SOCS6. Cell Death Dis 2021 Feb 15;12(2):185. PMID: 33589592
  • Liu J, Xie Y, Guo J, Li X et al. Targeting NSD2-mediated SRC-3 liquid-liquid phase separation sensitizes bortezomib treatment in multiple myeloma. Nat Commun 2021 Feb 15;12(1):1022. PMID: 33589584
  • Blumberg A, Zhao Y, Huang YF, Dukler N et al. Characterizing RNA stability genome-wide through combined analysis of PRO-seq and RNA-seq data. BMC Biol 2021 Feb 15;19(1):30. PMID: 33588838
  • Rayaprolu L, Selvanayagam S, Rao DM, Gupta R et al. Genome-Wide Association Study for Major Biofuel Traits in Sorghum Using Minicore Collection. Protein Pept Lett 2021;28(8):909-928. PMID: 33588716
  • Middleton LYM, Dou J, Fisher J, Heiss JA et al. Saliva cell type DNA methylation reference panel for epidemiological studies in children. Epigenetics 2022 Jan-Feb;17(2):161-177. PMID: 33588693
  • Khan MA, Islam ABMMK et al. SARS-CoV-2 Proteins Exploit Host's Genetic and Epigenetic Mediators for the Annexation of Key Host Signaling Pathways. Front Mol Biosci 2020;7:598583. PMID: 33585554
  • Song C, Wu Z, Wang Q, Wang Y et al. A Combined Two-mRNA Signature Associated With PD-L1 and Tumor Mutational Burden for Prognosis of Lung Adenocarcinoma. Front Cell Dev Biol 2021;9:634697. PMID: 33585490
  • Tang B, Wang Y, Chen Y, Li M et al. A Novel Early-Stage Lung Adenocarcinoma Prognostic Model Based on Feature Selection With Orthogonal Regression. Front Cell Dev Biol 2020;8:620746. PMID: 33585460
  • Dong Z, Chen X, Li Y, Zhuo R et al. Microtubule Severing Protein Fignl2 Contributes to Endothelial and Neuronal Branching in Zebrafish Development. Front Cell Dev Biol 2020;8:593234. PMID: 33585441
  • Sy BM, Tree JJ et al. Small RNA Regulation of Virulence in Pathogenic Escherichia coli. Front Cell Infect Microbiol 2020;10:622202. PMID: 33585289
  • Ni S, Li J, Qiu S, Xie Y et al. KIF21B Expression in Osteosarcoma and Its Regulatory Effect on Osteosarcoma Cell Proliferation and Apoptosis Through the PI3K/AKT Pathway. Front Oncol 2020;10:606765. PMID: 33585227
  • Xu JZ, Gong C, Xie ZF, Zhao H et al. Development of an Oncogenic Driver Alteration Associated Immune-Related Prognostic Model for Stage I-II Lung Adenocarcinoma. Front Oncol 2020;10:593022. PMID: 33585210
  • Wang P, Wang Y, Jiang Y, Li M et al. Immune Cluster and PPI Network Analyses Identified CXCR3 as a Key Node of Immunoregulation in Head and Neck Cancer. Front Oncol 2020;10:564306. PMID: 33585188
  • Shu Y, Zhang H, Li J, Shan Y et al. LINC00494 Promotes Ovarian Cancer Development and Progression by Modulating NFκB1 and FBXO32. Front Oncol 2020;10:541410. PMID: 33585183
  • Thomas PB, Jeffery P, Gahete MD, Whiteside E et al. The long non-coding RNA GHSROS reprograms prostate cancer cell lines toward a more aggressive phenotype. PeerJ 2021;9:e10280. PMID: 33585078
  • Nikzamir A, Rezaei-Tavirani M, Razzaghi M, Rezaei Tavirani S et al. Evaluation of long-term consumption of omeprazole disadvantages: a network analysis. Gastroenterol Hepatol Bed Bench 2020 Winter;13(Suppl1):S98-S105. PMID: 33585010
  • Rezaei-Tavirani S, Asri N, Emamhadi M, Jahani-Sherafat S et al. Introducing GATA3 as a prominent player in Crohn's disease. Gastroenterol Hepatol Bed Bench 2020 Winter;13(Suppl1):S53-S59. PMID: 33585004
  • Bai J, Wang B, Wang T, Ren W et al. Identification of Functional lncRNAs Associated With Ovarian Endometriosis Based on a ceRNA Network. Front Genet 2021;12:534054. PMID: 33584822
  • Wang H, Liu W, Yu B, Yu X et al. Identification of Key Modules and Hub Genes of Annulus Fibrosus in Intervertebral Disc Degeneration. Front Genet 2020;11:596174. PMID: 33584795
  • Wang S, Zou X, Chen Y, Cho WC et al. Effect of N6-Methyladenosine Regulators on Progression and Prognosis of Triple-Negative Breast Cancer. Front Genet 2020;11:580036. PMID: 33584787
  • Yang X, Qi Q, Pan Y, Zhou Q et al. Single-Cell Analysis Reveals Characterization of Infiltrating T Cells in Moderately Differentiated Colorectal Cancer. Front Immunol 2020;11:620196. PMID: 33584715
  • Nassar R, Hachim M, Nassar M, Kaklamanos EG et al. Microbial Metabolic Genes Crucial for S. aureus Biofilms: An Insight From Re-analysis of Publicly Available Microarray Datasets. Front Microbiol 2020;11:607002. PMID: 33584569
  • Yang F, Hou ZF, Zhu HY, Chen XX et al. Catalpol Protects Against Pulmonary Fibrosis Through Inhibiting TGF-β1/Smad3 and Wnt/β-Catenin Signaling Pathways. Front Pharmacol 2020;11:594139. PMID: 33584272
  • Huaying C, Xing J, Luya J, Linhui N et al. A Signature of Five Long Non-Coding RNAs for Predicting the Prognosis of Alzheimer's Disease Based on Competing Endogenous RNA Networks. Front Aging Neurosci 2020;12:598606. PMID: 33584243
  • Chen P, Wang C, Lin D, Li B et al. Identification of Slc6a19os and SOX11 as Two Novel Essential Genes in Neuropathic Pain Using Integrated Bioinformatic Analysis and Experimental Verification. Front Neurosci 2021;15:627945. PMID: 33584192
  • Przytycki PF, Pollard KS et al. CellWalker integrates single-cell and bulk data to resolve regulatory elements across cell types in complex tissues. Genome Biol 2021 Feb 14;22(1):61. PMID: 33583425
  • Huang W, Zhou H, Hodgkinson C, Montero A et al. Network Meta-Analysis on the Mechanisms Underlying Alcohol Augmentation of COVID-19 Pathologies. Alcohol Clin Exp Res 2021 Apr;45(4):675-688. PMID: 33583045
  • Salinno C, Büttner M, Cota P, Tritschler S et al. CD81 marks immature and dedifferentiated pancreatic β-cells. Mol Metab 2021 Jul;49:101188. PMID: 33582383
  • Wu H, Liu M, He Y, Meng G et al. Expression of BAG1 is associated with prognosis in kidney renal clear cell carcinoma based on bioinformatics. BMC Cancer 2021 Feb 13;21(1):160. PMID: 33581726
  • Su G, Wang W, Chen J, Liu M et al. CTCF-binding element regulates ESC differentiation via orchestrating long-range chromatin interaction between enhancers and HoxA. J Biol Chem 2021 Jan-Jun;296:100413. PMID: 33581110
  • Behrens A, Rodschinka G, Nedialkova DD et al. High-resolution quantitative profiling of tRNA abundance and modification status in eukaryotes by mim-tRNAseq. Mol Cell 2021 Apr 15;81(8):1802-1815.e7. PMID: 33581077
  • Zhu X, Tian X, Ji L, Zhang X et al. A tumor microenvironment-specific gene expression signature predicts chemotherapy resistance in colorectal cancer patients. NPJ Precis Oncol 2021 Feb 12;5(1):7. PMID: 33580207
  • Schwartz JR, Ma J, Kamens J, Westover T et al. The acquisition of molecular drivers in pediatric therapy-related myeloid neoplasms. Nat Commun 2021 Feb 12;12(1):985. PMID: 33579957
  • Shin HM, Kim G, Kim S, Sim JH et al. Chromatin accessibility of circulating CD8(+) T cells predicts treatment response to PD-1 blockade in patients with gastric cancer. Nat Commun 2021 Feb 12;12(1):975. PMID: 33579944
  • Nylund P, Atienza Párraga A, Haglöf J, De Bruyne E et al. A distinct metabolic response characterizes sensitivity to EZH2 inhibition in multiple myeloma. Cell Death Dis 2021 Feb 12;12(2):167. PMID: 33579905
  • Jia Y, Zhou J, Tan TK, Chung TH et al. Myeloma-specific superenhancers affect genes of biological and clinical relevance in myeloma. Blood Cancer J 2021 Feb 12;11(2):32. PMID: 33579893
  • Crittenden S, Goepp M, Pollock J, Robb CT et al. Prostaglandin E(2) promotes intestinal inflammation via inhibiting microbiota-dependent regulatory T cells. Sci Adv 2021 Feb;7(7). PMID: 33579710
  • Tan X, Liu Y, Zhang T, Cong S et al. Integrated analysis of differentially expressed genes and construction of a competing endogenous RNA network in human Huntington neural progenitor cells. BMC Med Genomics 2021 Feb 12;14(1):48. PMID: 33579286
  • Ma P, Zhang X, Luo B, Chen Z et al. Transcriptomic and genome-wide association study reveal long noncoding RNAs responding to nitrogen deficiency in maize. BMC Plant Biol 2021 Feb 12;21(1):93. PMID: 33579187
  • Yao J, Zhang Y, Xia Y, Zhu C et al. PRRX1 promotes lymph node metastasis of gastric cancer by regulating epithelial-mesenchymal transition. Medicine (Baltimore) 2021 Feb 12;100(6):e24674. PMID: 33578599
  • Liu D, Zhou R, Zhou A et al. Identification of key biomarkers and functional pathways in osteosarcomas with lung metastasis: Evidence from bioinformatics analysis. Medicine (Baltimore) 2021 Feb 12;100(6):e24471. PMID: 33578541
  • Zhao ZW, Zhang M, Liao LX, Zou J et al. Long non-coding RNA PCA3 inhibits lipid accumulation and atherosclerosis through the miR-140-5p/RFX7/ABCA1 axis. Biochim Biophys Acta Mol Cell Biol Lipids 2021 May;1866(5):158904. PMID: 33578049
  • Li X, Xiang J, Wu FX, Li M et al. A Dual Ranking Algorithm Based on the Multiplex Network for Heterogeneous Complex Disease Analysis. IEEE/ACM Trans Comput Biol Bioinform 2022 Jul-Aug;19(4):1993-2002. PMID: 33577455
  • Devesa-Peiro A, Sebastian-Leon P, Pellicer A, Diaz-Gimeno P et al. Guidelines for biomarker discovery in endometrium: correcting for menstrual cycle bias reveals new genes associated with uterine disorders. Mol Hum Reprod 2021 Mar 24;27(4). PMID: 33576824
  • Feng Z, Zhang J, Zheng Y, Wang Q et al. Elevated expression of ASF1B correlates with poor prognosis in human lung adenocarcinoma. Per Med 2021 Mar;18(2):115-127. PMID: 33576264
  • Jaakkola MK, Elo LL et al. Computational deconvolution to estimate cell type-specific gene expression from bulk data. NAR Genom Bioinform 2021 Mar;3(1):lqaa110. PMID: 33575652
  • Wu H, Mao D, Zhang Y, Chi Z et al. A new graph-based clustering method with application to single-cell RNA-seq data from human pancreatic islets. NAR Genom Bioinform 2021 Mar;3(1):lqaa087. PMID: 33575647
  • Nersisyan L, Ropat M, Pelechano V et al. Improved computational analysis of ribosome dynamics from 5'P degradome data using fivepseq. NAR Genom Bioinform 2020 Dec;2(4):lqaa099. PMID: 33575643
  • Gauthier M, Agniel D, Thiébaut R, Hejblum BP et al. dearseq: a variance component score test for RNA-seq differential analysis that effectively controls the false discovery rate. NAR Genom Bioinform 2020 Dec;2(4):lqaa093. PMID: 33575637
  • Lee S, Zhang AY, Su S, Ng AP et al. Covering all your bases: incorporating intron signal from RNA-seq data. NAR Genom Bioinform 2020 Sep;2(3):lqaa073. PMID: 33575621
  • Guo Z, Cui Y, Shi X, Birchler JA et al. An empirical bayesian approach for testing gene expression fold change and its application in detecting global dosage effects. NAR Genom Bioinform 2020 Sep;2(3):lqaa072. PMID: 33575620
  • Charrout M, Reinders MJT, Mahfouz A et al. Untangling biological factors influencing trajectory inference from single cell data. NAR Genom Bioinform 2020 Sep;2(3):lqaa053. PMID: 33575604
  • Campos TL, Korhonen PK, Hofmann A, Gasser RB et al. Combined use of feature engineering and machine-learning to predict essential genes in Drosophila melanogaster. NAR Genom Bioinform 2020 Sep;2(3):lqaa051. PMID: 33575603
  • Hadjadj D, Denecker T, Guérin E, Kim SJ et al. Efficient, quick and easy-to-use DNA replication timing analysis with START-R suite. NAR Genom Bioinform 2020 Jun;2(2):lqaa045. PMID: 33575597
  • Kuang S, Wang L et al. Identification and analysis of consensus RNA motifs binding to the genome regulator CTCF. NAR Genom Bioinform 2020 Jun;2(2):lqaa031. PMID: 33575587
  • Akhmedov M, Martinelli A, Geiger R, Kwee I et al. Omics Playground: a comprehensive self-service platform for visualization, analytics and exploration of Big Omics Data. NAR Genom Bioinform 2020 Mar;2(1):lqz019. PMID: 33575569
  • Ruiz-Orera J, Albà MM et al. Conserved regions in long non-coding RNAs contain abundant translation and protein-RNA interaction signatures. NAR Genom Bioinform 2019 Apr;1(1):e2. PMID: 33575549
  • Langbehn KE, Carlson-Stadler Z, van der Plas E, Hefti MM et al. DMPK mRNA Expression in Human Brain Tissue Throughout the Lifespan. Neurol Genet 2021 Feb;7(1):e537. PMID: 33575482
  • Zhu B, Mao X, Man Y et al. Potential Drug Prediction of Glioblastoma Based on Drug Perturbation-Induced Gene Expression Signatures. Biomed Res Int 2021;2021:6659701. PMID: 33575336
  • Fan Y, He L, Wang Y, Fu S et al. CLIP4 Shows Putative Tumor Suppressor Characteristics in Breast Cancer: An Integrated Analysis. Front Mol Biosci 2020;7:616190. PMID: 33575272
  • Zhang Y, Xu S, Xu G, Gao Y et al. Dynamic Expression of m(6)A Regulators During Multiple Human Tissue Development and Cancers. Front Cell Dev Biol 2020;8:629030. PMID: 33575259
  • Tian S, Liu J, Sun K, Liu Y et al. Systematic Construction and Validation of an RNA-Binding Protein-Associated Model for Prognosis Prediction in Hepatocellular Carcinoma. Front Oncol 2020;10:597996. PMID: 33575212
  • Chen J, Lin M, Che Y, Guo J et al. Key genes in youth colorectal cancer based on data mining and verification by reverse transcription-quantitative PCR. Oncol Lett 2021 Mar;21(3):194. PMID: 33574933
  • Qi B, Chen JH, Tao L, Zhu CM et al. Integrated Weighted Gene Co-expression Network Analysis Identified That TLR2 and CD40 Are Related to Coronary Artery Disease. Front Genet 2020;11:613744. PMID: 33574831
  • Zhang Z, Wen H, Peng B, Weng J et al. Downregulated microRNA-129-5p by Long Non-coding RNA NEAT1 Upregulates PEG3 Expression to Aggravate Non-alcoholic Steatohepatitis. Front Genet 2020;11:563265. PMID: 33574830
  • Cheng Y, Schlosser P, Hertel J, Sekula P et al. Rare genetic variants affecting urine metabolite levels link population variation to inborn errors of metabolism. Nat Commun 2021 Feb 11;12(1):964. PMID: 33574263
  • Zhu HE, Li T, Shi S, Chen DX et al. ESCO2 promotes lung adenocarcinoma progression by regulating hnRNPA1 acetylation. J Exp Clin Cancer Res 2021 Feb 11;40(1):64. PMID: 33573689
  • Kim Y, Park JB, Fukuda J, Watanabe M et al. The Effect of Neddylation Blockade on Slug-Dependent Cancer Cell Migration Is Regulated by p53 Mutation Status. Cancers (Basel) 2021 Jan 30;13(3). PMID: 33573293
  • Ghannoum S, Leoncio Netto W, Fantini D, Ragan-Kelley B et al. DIscBIO: A User-Friendly Pipeline for Biomarker Discovery in Single-Cell Transcriptomics. Int J Mol Sci 2021 Jan 30;22(3). PMID: 33573289
  • Xuan L, Zhang J, Lu W, Gluza P et al. A Pipeline towards the Biochemical Characterization of the Arabidopsis GT14 Family. Int J Mol Sci 2021 Jan 29;22(3). PMID: 33572987
  • Adivitiya, Kaushik MS, Chakraborty S, Veleri S et al. Mucociliary Respiratory Epithelium Integrity in Molecular Defense and Susceptibility to Pulmonary Viral Infections. Biology (Basel) 2021 Jan 29;10(2). PMID: 33572760
  • Kang Q, Li W, Xiao J, Yu N et al. Integrated analysis of multiple microarray studies to identify novel gene signatures in preeclampsia. Placenta 2021 Feb;105:104-118. PMID: 33571845
  • Wang Y, Wu J, Chen H, Yang Y et al. Genome-wide CRISPR-Cas9 screen identified KLF11 as a druggable suppressor for sarcoma cancer stem cells. Sci Adv 2021 Jan;7(5). PMID: 33571129
  • Ciardiello D, Blauensteiner B, Matrone N, Belli V et al. Dual inhibition of TGFβ and AXL as a novel therapy for human colorectal adenocarcinoma with mesenchymal phenotype. Med Oncol 2021 Feb 11;38(3):24. PMID: 33570712
  • Mukherjee K, Xue L, Planutis A, Gnanapragasam MN et al. EKLF/KLF1 expression defines a unique macrophage subset during mouse erythropoiesis. Elife 2021 Feb 11;10. PMID: 33570494
  • Guo T, Bai YH, Cheng XJ, Han HB et al. Insulin gene enhancer protein 1 mediates glycolysis and tumorigenesis of gastric cancer through regulating glucose transporter 4. Cancer Commun (Lond) 2021 Mar;41(3):258-272. PMID: 33570246
  • Zhu D, Yuan T, Gao J, Xu Q et al. Correlation between cortical gene expression and resting-state functional network centrality in healthy young adults. Hum Brain Mapp 2021 May;42(7):2236-2249. PMID: 33570215
  • Zhang Y, Tian J, Qu C, Peng Y et al. Overexpression of SERPINA3 promotes tumor invasion and migration, epithelial-mesenchymal-transition in triple-negative breast cancer cells. Breast Cancer 2021 Jul;28(4):859-873. PMID: 33569740
  • Parsa S, Ortega-Molina A, Ying HY, Jiang M et al. The serine hydroxymethyltransferase-2 (SHMT2) initiates lymphoma development through epigenetic tumor suppressor silencing. Nat Cancer 2020;1:653-664. PMID: 33569544
  • Yang J, Tang J, Li J, Cen Y et al. Effect of activation of the Akt/mTOR signaling pathway by EEF1A2 on the biological behavior of osteosarcoma. Ann Transl Med 2021 Jan;9(2):158. PMID: 33569460
  • Jiang W, Zhang C, Kang Y, Li G et al. The roles and mechanisms of the circular RNA circ_104640 in early-stage lung adenocarcinoma: a potential diagnostic and therapeutic target. Ann Transl Med 2021 Jan;9(2):138. PMID: 33569440
  • Cai C, Zeng Q, Zhou G, Mu X et al. Identification of novel transcription factor-microRNA-mRNA co-regulatory networks in pulmonary large-cell neuroendocrine carcinoma. Ann Transl Med 2021 Jan;9(2):133. PMID: 33569435
  • Guo W, Huai Q, Zhang G, Guo L et al. Elevated Heterogeneous Nuclear Ribonucleoprotein C Expression Correlates With Poor Prognosis in Patients With Surgically Resected Lung Adenocarcinoma. Front Oncol 2020;10:598437. PMID: 33569346
  • Wang X, Xiao Z, Gong J, Liu Z et al. A prognostic nomogram for lung adenocarcinoma based on immune-infiltrating Treg-related genes: from bench to bedside. Transl Lung Cancer Res 2021 Jan;10(1):167-182. PMID: 33569302
  • Li XC, Tang ZD, Peng L, Li YY et al. Integrative Epigenomic Analysis of Transcriptional Regulation of Human CircRNAs. Front Genet 2020;11:590672. PMID: 33569079
  • Duan R, Li X, Zeng D, Chen X et al. Tumor Microenvironment Status Predicts the Efficacy of Postoperative Chemotherapy or Radiochemotherapy in Resected Gastric Cancer. Front Immunol 2020;11:609337. PMID: 33569057
  • Li YY, Zhang S, Wang H, Zhang SX et al. Identification of Crucial Genes and Pathways Associated with Atherosclerotic Plaque in Diabetic Patients. Pharmgenomics Pers Med 2021;14:211-220. PMID: 33568933
  • Sun Z, Yakhnin AV, FitzGerald PC, Mclntosh CE et al. Nascent RNA sequencing identifies a widespread sigma70-dependent pausing regulated by Gre factors in bacteria. Nat Commun 2021 Feb 10;12(1):906. PMID: 33568644
  • Oatman N, Dasgupta N, Arora P, Choi K et al. Mechanisms of stearoyl CoA desaturase inhibitor sensitivity and acquired resistance in cancer. Sci Adv 2021 Feb;7(7). PMID: 33568479
  • Barwinska D, El-Achkar TM, Melo Ferreira R, Syed F et al. Molecular characterization of the human kidney interstitium in health and disease. Sci Adv 2021 Feb;7(7). PMID: 33568476
  • Bloom ALM, Goich D, Knowles CM, Panepinto JC et al. Glucan Unmasking Identifies Regulators of Temperature-Induced Translatome Reprogramming in C. neoformans. mSphere 2021 Feb 10;6(1). PMID: 33568457
  • Ben-Elazar S, Aure MR, Jonsdottir K, Leivonen SK et al. miRNA normalization enables joint analysis of several datasets to increase sensitivity and to reveal novel miRNAs differentially expressed in breast cancer. PLoS Comput Biol 2021 Feb;17(2):e1008608. PMID: 33566819
  • Turturice BA, Theorell J, Koenig MD, Tussing-Humphreys L et al. Perinatal granulopoiesis and risk of pediatric asthma. Elife 2021 Feb 10;10. PMID: 33565964
  • von Eyben FE, Parraga-Alava J, Tu SM et al. Testicular germ cell tumors type 2 have high RNA expression of LDHB, the gene for lactate dehydrogenase subunit B. Asian J Androl 2021 Jul-Aug;23(4):357-362. PMID: 33565425
  • Lu J, Hu F, Zhou Y et al. NR3C2-Related Transcriptome Profile and Clinical Outcome in Invasive Breast Carcinoma. Biomed Res Int 2021;2021:9025481. PMID: 33564687
  • Shi J, Zhang YQ, Hao DD, Fu SH et al. Key regulatory genes and signaling pathways involved in islet culture: a bioinformatic analysis. Int J Clin Exp Pathol 2021;14(2):292-303. PMID: 33564361
  • Zhai M, Luan P, Shi Y, Li B et al. Identification of Three Significant Genes Associated with Immune Cells Infiltration in Dysfunctional Adipose Tissue-Induced Insulin-Resistance of Obese Patients via Comprehensive Bioinformatics Analysis. Int J Endocrinol 2021;2021:8820089. PMID: 33564304
  • Yan Q, Zeng P, Zhou X, Zhao X et al. RBMX suppresses tumorigenicity and progression of bladder cancer by interacting with the hnRNP A1 protein to regulate PKM alternative splicing. Oncogene 2021 Apr;40(15):2635-2650. PMID: 33564070
  • Hwang SY, Jung H, Mun S, Lee S et al. L1 retrotransposons exploit RNA m(6)A modification as an evolutionary driving force. Nat Commun 2021 Feb 9;12(1):880. PMID: 33563981
  • Rodriguez-Garcia A, Lynn RC, Poussin M, Eiva MA et al. CAR-T cell-mediated depletion of immunosuppressive tumor-associated macrophages promotes endogenous antitumor immunity and augments adoptive immunotherapy. Nat Commun 2021 Feb 9;12(1):877. PMID: 33563975
  • Zuo L, Li X, Tan Y, Zhu H et al. Prospective pathway signaling and prognostic values of MicroRNA-9 in ovarian cancer based on gene expression omnibus (GEO): a bioinformatics analysis. J Ovarian Res 2021 Feb 9;14(1):29. PMID: 33563317
  • Chen Q, Yin Q, Song J, Liu C et al. Identification of monocyte-associated genes as predictive biomarkers of heart failure after acute myocardial infarction. BMC Med Genomics 2021 Feb 9;14(1):44. PMID: 33563285
  • Ali SR, Orang A, Marri S, McKinnon RA et al. Integrative Transcriptomic Network Analysis of Butyrate Treated Colorectal Cancer Cells. Cancers (Basel) 2021 Feb 5;13(4). PMID: 33562636
  • Rahman MR, Islam T, Nicoletti F, Petralia MC et al. Identification of Common Pathogenetic Processes between Schizophrenia and Diabetes Mellitus by Systems Biology Analysis. Genes (Basel) 2021 Feb 7;12(2). PMID: 33562405
  • Zhang Y, Zhou J, Liu J, Li S et al. RNA-Seq analysis of the protection by Dendrobium nobile alkaloids against carbon tetrachloride hepatotoxicity in mice. Biomed Pharmacother 2021 May;137:111307. PMID: 33561648
  • Heiling S, Llorca LC, Li J, Gase K et al. Specific decorations of 17-hydroxygeranyllinalool diterpene glycosides solve the autotoxicity problem of chemical defense in Nicotiana attenuata. Plant Cell 2021 Jul 2;33(5):1748-1770. PMID: 33561278
  • van der Kolk BW, Muniandy M, Kaminska D, Alvarez M et al. Differential Mitochondrial Gene Expression in Adipose Tissue Following Weight Loss Induced by Diet or Bariatric Surgery. J Clin Endocrinol Metab 2021 Apr 23;106(5):1312-1324. PMID: 33560372
  • Myall AC, Perkins S, Rushton D, David J et al. An OMICs-based meta-analysis to support infection state stratification. Bioinformatics 2021 Aug 25;37(16):2347-2355. PMID: 33560295
  • Tuvikene J, Esvald EE, Rähni A, Uustalu K et al. Intronic enhancer region governs transcript-specific Bdnf expression in rodent neurons. Elife 2021 Feb 9;10. PMID: 33560226
  • Cheng Y, Li X, Dai Y, Dong Y et al. Identification of an immune-related risk signature and nomogram predicting the overall survival in patients with endometrial cancer. J Gynecol Oncol 2021 May;32(3):e30. PMID: 33559412
  • Saarimäki LA, Federico A, Lynch I, Papadiamantis AG et al. Manually curated transcriptomics data collection for toxicogenomic assessment of engineered nanomaterials. Sci Data 2021 Feb 8;8(1):49. PMID: 33558569
  • Wu Z, Wang L, Wen Z, Yao J et al. Integrated analysis identifies oxidative stress genes associated with progression and prognosis in gastric cancer. Sci Rep 2021 Feb 8;11(1):3292. PMID: 33558567
  • Li F, Han M, Dai P, Xu W et al. Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide. Nat Commun 2021 Feb 8;12(1):866. PMID: 33558541
  • Zhao Y, Yang B, Chen D, Zhou X et al. Combined identification of ARID1A, CSMD1, and SENP3 as effective prognostic biomarkers for hepatocellular carcinoma. Aging (Albany NY) 2021 Feb 7;13(3):4696-4712. PMID: 33558447
  • Ursini G, Punzi G, Langworthy BW, Chen Q et al. Placental genomic risk scores and early neurodevelopmental outcomes. Proc Natl Acad Sci U S A 2021 Feb 16;118(7). PMID: 33558239
  • Jiang X, Jiang Z, Xiang L, Chen X et al. Identification of a two-gene prognostic model associated with cytolytic activity for colon cancer. Cancer Cell Int 2021 Feb 8;21(1):95. PMID: 33557848
  • Cayrefourcq L, Thomas F, Mazard T, Assenat E et al. Selective treatment pressure in colon cancer drives the molecular profile of resistant circulating tumor cell clones. Mol Cancer 2021 Feb 8;20(1):30. PMID: 33557844
  • Chen H, Yao J, Bao R, Dong Y et al. Cross-talk of four types of RNA modification writers defines tumor microenvironment and pharmacogenomic landscape in colorectal cancer. Mol Cancer 2021 Feb 8;20(1):29. PMID: 33557837
  • Mao K, Yang J, Wang M, Liu H et al. Genome-wide analysis of the apple CaCA superfamily reveals that MdCAX proteins are involved in the abiotic stress response as calcium transporters. BMC Plant Biol 2021 Feb 8;21(1):81. PMID: 33557757
  • Feng X, Zhan F, Hu J, Hua F et al. LncRNA-mRNA Expression Profiles and Functional Networks Associated with Cognitive Impairment in Folate-deficient Mice. Comb Chem High Throughput Screen 2022;25(5):847-860. PMID: 33557733
  • Mathkar PP, Chen X, Sulovari A, Li D et al. Characterization of Hepatitis B Virus Integrations Identified in Hepatocellular Carcinoma Genomes. Viruses 2021 Feb 4;13(2). PMID: 33557409
  • Coelho AVC, Gratton R, Melo JPB, Andrade-Santos JL et al. HIV-1 Infection Transcriptomics: Meta-Analysis of CD4+ T Cells Gene Expression Profiles. Viruses 2021 Feb 4;13(2). PMID: 33557210
  • Zhang W, Qiu Q, Sun B, Xu W et al. A four-genes based diagnostic signature for osteoarthritis. Rheumatol Int 2021 Oct;41(10):1815-1823. PMID: 33555399
  • Zhang Z, Zhao S, Wang K, Shang M et al. Identification of biomarkers associated with cervical lymph node metastasis in papillary thyroid carcinoma: Evidence from an integrated bioinformatic analysis. Clin Hemorheol Microcirc 2021;78(2):117-126. PMID: 33554894
  • Fan X, Masamsetti VP, Sun JQ, Engholm-Keller K et al. TWIST1 and chromatin regulatory proteins interact to guide neural crest cell differentiation. Elife 2021 Feb 8;10. PMID: 33554859
  • Li Z, Lin W, Zheng J, Hong W et al. Identification of immune-related lncRNAs to improve the prognosis prediction for patients with papillary thyroid cancer. Biosci Rep 2021 Feb 26;41(2). PMID: 33554245
  • Wang Y, Shi Y, Zhang X, Fu J et al. Overexpression of Limb Bud and Heart Alleviates Sepsis-Induced Acute Lung Injury via Inhibiting the NLRP3 Inflammasome. Biomed Res Int 2021;2021:4084371. PMID: 33553423
  • Xie XW, Jiang SS, Li X et al. CLEC3B as a Potential Prognostic Biomarker in Hepatocellular Carcinoma. Front Mol Biosci 2020;7:614034. PMID: 33553242
  • Li JF, Ma XJ, Ying LL, Tong YH et al. Multi-Omics Analysis of Acute Lymphoblastic Leukemia Identified the Methylation and Expression Differences Between BCP-ALL and T-ALL. Front Cell Dev Biol 2020;8:622393. PMID: 33553159
  • Chen S, Zhang N, Zhang E, Wang T et al. A Novel m(6)A Gene Signature Associated With Regulatory Immune Function for Prognosis Prediction in Clear-Cell Renal Cell Carcinoma. Front Cell Dev Biol 2020;8:616972. PMID: 33553151
  • Markus BM, Waldman BS, Lorenzi HA, Lourido S et al. High-Resolution Mapping of Transcription Initiation in the Asexual Stages of Toxoplasma gondii. Front Cell Infect Microbiol 2020;10:617998. PMID: 33553008
  • Tao P, Hong L, Tang W, Lu Q et al. Comprehensive Characterization of Immunological Profiles and Clinical Significance in Hepatocellular Carcinoma. Front Oncol 2020;10:574778. PMID: 33552954
  • Dong X, Lv S, Gu D, Zhang X et al. Up-regulation of L Antigen Family Member 3 Associates With Aggressive Progression of Breast Cancer. Front Oncol 2020;10:553628. PMID: 33552947
  • Chauhan BK, Medsinge A, Scanga HL, Chu CT et al. Transcriptome from opaque cornea of Fanconi anemia patient uncovers fibrosis and two connected players. Mol Genet Metab Rep 2021 Mar;26:100712. PMID: 33552906
  • Huang C, Tang S, Shen D, Li X et al. Circulating plasma exosomal miRNA profiles serve as potential metastasis-related biomarkers for hepatocellular carcinoma. Oncol Lett 2021 Feb;21(2):168. PMID: 33552286
  • Yang J, Chen C, Jin X, Liu L et al. Wfs1 and Related Molecules as Key Candidate Genes in the Hippocampus of Depression. Front Genet 2020;11:589370. PMID: 33552119
  • Chen SW, Zhou HF, Zhang HJ, He RQ et al. The Clinical Significance and Potential Molecular Mechanism of PTTG1 in Esophageal Squamous Cell Carcinoma. Front Genet 2020;11:583085. PMID: 33552118
  • Sharma N, Sinha VB, Prem Kumar NA, Subrahmanyam D et al. Nitrogen Use Efficiency Phenotype and Associated Genes: Roles of Germination, Flowering, Root/Shoot Length and Biomass. Front Plant Sci 2020;11:587464. PMID: 33552094
  • Bhattacharya S, Mereness JA, Baran AM, Misra RS et al. Lymphocyte-Specific Biomarkers Associated With Preterm Birth and Bronchopulmonary Dysplasia. Front Immunol 2020;11:563473. PMID: 33552042
  • Hu B, Kong X, Li L, Dai F et al. Integrative Analyses of Genes Associated With Osteoporosis in CD16+ Monocyte. Front Endocrinol (Lausanne) 2020;11:581878. PMID: 33551990
  • Tong QH, Hu HY, Chai H, Wu AB et al. Dysregulation of the miR-1275/HK2 Axis Contributes to the Progression of Hypoxia/Reoxygenation-Induced Myocardial Injury. Arch Med Res 2021 Jul;52(5):461-470. PMID: 33551225
  • Hundahl C, Kotzbeck P, Burm HB, Christiansen SH et al. Hypothalamic hormone-sensitive lipase regulates appetite and energy homeostasis. Mol Metab 2021 May;47:101174. PMID: 33549847
  • Xi Y, Jing Z, Wei W, Chun Z et al. Inhibitory effect of sodium butyrate on colorectal cancer cells and construction of the related molecular network. BMC Cancer 2021 Feb 6;21(1):127. PMID: 33549042
  • Liang D, Xue Z, Xue J, Xie D et al. Sinoatrial node pacemaker cells share dominant biological properties with glutamatergic neurons. Protein Cell 2021 Jul;12(7):545-556. PMID: 33548033
  • Xing XW, Shi HY, Liu S, Feng SX et al. miR-496/MMP10 Is Involved in the Proliferation of IL-1β-Induced Fibroblast-Like Synoviocytes Via Mediating the NF-κB Signaling Pathway. Inflammation 2021 Aug;44(4):1359-1369. PMID: 33548006
  • Kulthong K, Hooiveld GJEJ, Duivenvoorde L, Miro Estruch I et al. Transcriptome comparisons of in vitro intestinal epithelia grown under static and microfluidic gut-on-chip conditions with in vivo human epithelia. Sci Rep 2021 Feb 5;11(1):3234. PMID: 33547413
  • Oluwayiose OA, Wu H, Saddiki H, Whitcomb BW et al. Sperm DNA methylation mediates the association of male age on reproductive outcomes among couples undergoing infertility treatment. Sci Rep 2021 Feb 5;11(1):3216. PMID: 33547328
  • Chen VL, Du X, Chen Y, Kuppa A et al. Genome-wide association study of serum liver enzymes implicates diverse metabolic and liver pathology. Nat Commun 2021 Feb 5;12(1):816. PMID: 33547301
  • Majumdar U, Manivannan S, Basu M, Ueyama Y et al. Nitric oxide prevents aortic valve calcification by S-nitrosylation of USP9X to activate NOTCH signaling. Sci Adv 2021 Feb;7(6). PMID: 33547080
  • Gunnarsson S, Prabakaran S et al. In silico identification of novel open reading frames in Plasmodium falciparum oocyte and salivary gland sporozoites using proteogenomics framework. Malar J 2021 Feb 5;20(1):71. PMID: 33546698
  • Liu X, Lai H, Xin S, Li Z et al. Whole-exome sequencing identifies novel mutations in ABC transporter genes associated with intrahepatic cholestasis of pregnancy disease: a case-control study. BMC Pregnancy Childbirth 2021 Feb 5;21(1):110. PMID: 33546617
  • José Andrade Viana M, Zerlotini A, de Alvarenga Mudadu M et al. Plant Co-expression Annotation Resource: a web server for identifying targets for genetically modified crop breeding pipelines. BMC Bioinformatics 2021 Feb 5;22(1):46. PMID: 33546584
  • Michalettou TD, Michalopoulos I, Costes SV, Hellweg CE et al. A Meta-Analysis of the Effects of High-LET Ionizing Radiations in Human Gene Expression. Life (Basel) 2021 Feb 3;11(2). PMID: 33546472
  • Zhou J, Cui X, Xiao F, Cai G et al. A Cluster-Based Approach for Identifying Prognostic microRNA Signatures in Digestive System Cancers. Int J Mol Sci 2021 Feb 3;22(4). PMID: 33546390
  • Singh NP, De Kumar B, Paulson A, Parrish ME et al. Genome-Wide Binding Analyses of HOXB1 Revealed a Novel DNA Binding Motif Associated with Gene Repression. J Dev Biol 2021 Feb 3;9(1). PMID: 33546292
  • Xu BPrediction and analysis of hub genes between glioblastoma and low-grade glioma using bioinformatics analysis. Medicine (Baltimore) 2021 Jan 22;100(3):e23513. PMID: 33545929
  • Cheng S, Li Z, Gao R, Xing B et al. A pan-cancer single-cell transcriptional atlas of tumor infiltrating myeloid cells. Cell 2021 Feb 4;184(3):792-809.e23. PMID: 33545035
  • Song Y, Qi X, Kang J, Wang X et al. Identification of new biomarkers in immune microenvironment of testicular germ cell tumour. Andrologia 2021 Apr;53(3):e13986. PMID: 33544925
  • Heuberger J, Trimpert J, Vladimirova D, Goosmann C et al. Epithelial response to IFN-γ promotes SARS-CoV-2 infection. EMBO Mol Med 2021 Apr 9;13(4):e13191. PMID: 33544398
  • Geusz RJ, Wang A, Chiou J, Lancman JJ et al. Pancreatic progenitor epigenome maps prioritize type 2 diabetes risk genes with roles in development. Elife 2021 Feb 5;10. PMID: 33544077
  • Xu H, Liu T, Li W, Yao Q et al. SMAR1 attenuates the stemness of osteosarcoma cells via through suppressing ABCG2 transcriptional activity. Environ Toxicol 2021 Jun;36(6):1090-1098. PMID: 33543840
  • Zhang B, Nie X, Miao X, Wang S et al. Development and verification of an immune-related gene pairs prognostic signature in ovarian cancer. J Cell Mol Med 2021 Mar;25(6):2918-2930. PMID: 33543590
  • Iozzo RV, Theocharis AD, Neill T, Karamanos NK et al. Complexity of matrix phenotypes. Matrix Biol Plus 2020 May;6-7:100038. PMID: 33543032
  • Liot S, Aubert A, Hervieu V, Kholti NE et al. Loss of Tenascin-X expression during tumor progression: A new pan-cancer marker. Matrix Biol Plus 2020 May;6-7:100021. PMID: 33543019
  • Barallobre-Barreiro J, Woods E, Bell RE, Easton JA et al. Cartilage-like composition of keloid scar extracellular matrix suggests fibroblast mis-differentiation in disease. Matrix Biol Plus 2019 Nov;4:100016. PMID: 33543013
  • Yang T, Miao X, Bai Z, Tu J et al. A Novel mRNA-miRNA Regulatory Sub-Network Associated With Prognosis of Metastatic Clear Cell Renal Cell Carcinoma. Front Oncol 2020;10:593601. PMID: 33542901
  • Zhang Q, Duan HX, Li RL, Sun JY et al. Inducing Apoptosis and Suppressing Inflammatory Reactions in Synovial Fibroblasts are Two Important Ways for Guizhi-Shaoyao-Zhimu Decoction Against Rheumatoid Arthritis. J Inflamm Res 2021;14:217-236. PMID: 33542641
  • Hao Y, Lu C, Zhang B, Xu Z et al. Identifying the Potential Differentially Expressed miRNAs and mRNAs in Osteonecrosis of the Femoral Head Based on Integrated Analysis. Clin Interv Aging 2021;16:187-202. PMID: 33542623
  • Cui C, Xu C, Yang W, Chi Z et al. Ratio of the interferon-γ signature to the immunosuppression signature predicts anti-PD-1 therapy response in melanoma. NPJ Genom Med 2021 Feb 4;6(1):7. PMID: 33542239
  • Xiang T, Yuan C, Guo X, Wang H et al. The novel ZEB1-upregulated protein PRTG induced by Helicobacter pylori infection promotes gastric carcinogenesis through the cGMP/PKG signaling pathway. Cell Death Dis 2021 Feb 4;12(2):150. PMID: 33542225
  • Forouzanfar M, Lachinani L, Dormiani K, Nasr-Esfahani MH et al. Increased expression of MUSASHI1 in epithelial breast cancer cells is due to down regulation of miR-125b. BMC Mol Cell Biol 2021 Feb 4;22(1):10. PMID: 33541259
  • Bennett M, Ulitsky I, Alloza I, Vandenbroeck K et al. Novel Transcript Discovery Expands the Repertoire of Pathologically-Associated, Long Non-Coding RNAs in Vascular Smooth Muscle Cells. Int J Mol Sci 2021 Feb 2;22(3). PMID: 33540814
  • Luo H, Ma C et al. A Novel Ferroptosis-Associated Gene Signature to Predict Prognosis in Patients with Uveal Melanoma. Diagnostics (Basel) 2021 Feb 2;11(2). PMID: 33540700
  • Larke MSC, Schwessinger R, Nojima T, Telenius J et al. Enhancers predominantly regulate gene expression during differentiation via transcription initiation. Mol Cell 2021 Mar 4;81(5):983-997.e7. PMID: 33539786
  • Satu MS, Khan MI, Rahman MR, Howlader KC et al. Diseasome and comorbidities complexities of SARS-CoV-2 infection with common malignant diseases. Brief Bioinform 2021 Mar 22;22(2):1415-1429. PMID: 33539530
  • Fukuyama K, Asagiri M, Sugimoto M, Tsushima H et al. Gene expression profiles of liver cancer cell lines reveal two hepatocyte-like and fibroblast-like clusters. PLoS One 2021;16(2):e0245939. PMID: 33539378
  • Huang K, Wu Y, Shin J, Zheng Y et al. Transcriptome-wide transmission disequilibrium analysis identifies novel risk genes for autism spectrum disorder. PLoS Genet 2021 Feb;17(2):e1009309. PMID: 33539344
  • Yang F, Cai S, Ling L, Zhang H et al. Identification of a Five-Gene Prognostic Model and Its Potential Drug Repurposing in Colorectal Cancer Based on TCGA, GTEx and GEO Databases. Front Genet 2020;11:622659. PMID: 33537062
  • Feng J, Pang J, He D, Wu Z et al. Identification of Genes with Altered Methylation and Its Role in Early Diagnosis of Sepsis-Induced Acute Respiratory Distress Syndrome. Int J Gen Med 2021;14:243-253. PMID: 33536775
  • Wang Y, Pan S, He X, Wang Y et al. CPNE1 Enhances Colorectal Cancer Cell Growth, Glycolysis, and Drug Resistance Through Regulating the AKT-GLUT1/HK2 Pathway. Onco Targets Ther 2021;14:699-710. PMID: 33536762
  • Bielecki P, Riesenfeld SJ, Hütter JC, Torlai Triglia E et al. Skin-resident innate lymphoid cells converge on a pathogenic effector state. Nature 2021 Apr;592(7852):128-132. PMID: 33536623
  • Alonso-Curbelo D, Ho YJ, Burdziak C, Maag JLV et al. A gene-environment-induced epigenetic program initiates tumorigenesis. Nature 2021 Feb;590(7847):642-648. PMID: 33536616
  • Eagle GL, Herbert JMJ, Zhuang J, Oates M et al. Assessing technical and biological variation in SWATH-MS-based proteomic analysis of chronic lymphocytic leukaemia cells. Sci Rep 2021 Feb 3;11(1):2932. PMID: 33536534
  • Qin Y, Deng J, Zhang L, Yuan J et al. Tumor microenvironment characterization in triple-negative breast cancer identifies prognostic gene signature. Aging (Albany NY) 2021 Feb 1;13(4):5485-5505. PMID: 33536349
  • Li W, Jin X, Guo S, Xu F et al. Comprehensive analysis of prognostic immune-related genes in the tumor microenvironment of colorectal cancer. Aging (Albany NY) 2021 Feb 1;13(4):5506-5524. PMID: 33536348
  • Xu C, Luo S, Wei L, Wu H et al. Integrated transcriptome and proteome analyses identify novel regulatory network of nucleus pulposus cells in intervertebral disc degeneration. BMC Med Genomics 2021 Feb 3;14(1):40. PMID: 33536009
  • Lu L, Townsend KA, Daigle BJ Jr et al. GEOlimma: differential expression analysis and feature selection using pre-existing microarray data. BMC Bioinformatics 2021 Feb 3;22(1):44. PMID: 33535967
  • Huang Q, Jacquelot N, Preaudet A, Hediyeh-Zadeh S et al. Type 2 Innate Lymphoid Cells Protect against Colorectal Cancer Progression and Predict Improved Patient Survival. Cancers (Basel) 2021 Feb 1;13(3). PMID: 33535624
  • Kim SK, Park SH, Kim YU, Byun YJ et al. A Molecular Signature Determines the Prognostic and Therapeutic Subtype of Non-Muscle-Invasive Bladder Cancer Responsive to Intravesical Bacillus Calmette-Guérin Therapy. Int J Mol Sci 2021 Feb 1;22(3). PMID: 33535616
  • Bian Y, Bi G, Wei T, Yao G et al. Integrative genome-scale analysis of immune infiltration in esophageal carcinoma. Int Immunopharmacol 2021 Apr;93:107371. PMID: 33535118
  • Treveil A, Bohar B, Sudhakar P, Gul L et al. ViralLink: An integrated workflow to investigate the effect of SARS-CoV-2 on intracellular signalling and regulatory pathways. PLoS Comput Biol 2021 Feb;17(2):e1008685. PMID: 33534793
  • Wuelling M, Neu C, Thiesen AM, Kitanovski S et al. Epigenetic Mechanisms Mediating Cell State Transitions in Chondrocytes. J Bone Miner Res 2021 May;36(5):968-985. PMID: 33534175
  • Zhang L, Zhang Y, Zhang X, Li X et al. Combining bioinformatics analysis and experiments to explore CARNS1 as a prognostic biomarker for breast cancer. Mol Genet Genomic Med 2021 Feb;9(2):e1586. PMID: 33533160
  • Neidleman J, Luo X, George AF, McGregor M et al. Distinctive features of SARS-CoV-2-specific T cells predict recovery from severe COVID-19. medRxiv 2021 Feb 5 PMID: 33532792
  • Hu T, Luo S, Xi Y, Tu X et al. Integrative bioinformatics approaches for identifying potential biomarkers and pathways involved in non-obstructive azoospermia. Transl Androl Urol 2021 Jan;10(1):243-257. PMID: 33532314
  • Yang T, Li J, Jia Y, Yang C et al. Myeloid-derived suppressor cell (MDSC) key genes analysis in rat anti-CD28-induced immune tolerance kidney transplantation. Transl Androl Urol 2021 Jan;10(1):204-214. PMID: 33532310
  • Cui D, Yuan W, Chen C, Han R et al. Identification of colorectal cancer-associated macrophage biomarkers by integrated bioinformatic analysis. Int J Clin Exp Pathol 2021;14(1):1-8. PMID: 33532018
  • Zhao Q, Zhao R, Song C, Wang H et al. Increased IGFBP7 Expression Correlates with Poor Prognosis and Immune Infiltration in Gastric Cancer. J Cancer 2021;12(5):1343-1355. PMID: 33531979
  • Ma J, Cai X, Kang L, Chen S et al. Identification of novel biomarkers and candidate small-molecule drugs in cutaneous melanoma by comprehensive gene microarrays analysis. J Cancer 2021;12(5):1307-1317. PMID: 33531976
  • Tu Q, Zhu Y, Yuan Y, Guo L et al. Gypenosides Inhibit Inflammatory Response and Apoptosis of Endothelial and Epithelial Cells in LPS-Induced ALI: A Study Based on Bioinformatic Analysis and in vivo/vitro Experiments. Drug Des Devel Ther 2021;15:289-303. PMID: 33531796
  • Ge Z, Song C, Ding Y, Tan BH et al. Dual targeting of MTOR as a novel therapeutic approach for high-risk B-cell acute lymphoblastic leukemia. Leukemia 2021 May;35(5):1267-1278. PMID: 33531656
  • Ribeiro CL, Pinto IP, Pereira SSS, Minasi LB et al. Genomic variations in patients with myelodysplastic syndrome and karyotypes without numerical or structural changes. Sci Rep 2021 Feb 2;11(1):2783. PMID: 33531543
  • Zimmerman KD, Espeland MA, Langefeld CD et al. A practical solution to pseudoreplication bias in single-cell studies. Nat Commun 2021 Feb 2;12(1):738. PMID: 33531494
  • Liu Y, He S, Wang XL, Peng W et al. Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution. Nat Commun 2021 Feb 2;12(1):741. PMID: 33531485
  • Tian S, Zhang M, Ma Z et al. An edge-based statistical analysis of long non-coding RNA expression profiles reveals a negative association between Parkinson's disease and colon cancer. BMC Med Genomics 2021 Feb 2;14(1):36. PMID: 33531021
  • Lin Z, Wang Y, Lin S, Liu D et al. Identification of potential biomarkers for abdominal pain in IBS patients by bioinformatics approach. BMC Gastroenterol 2021 Feb 2;21(1):48. PMID: 33530940
  • Cao Y, Cai X, Zhu Q, Li N et al. Screening and identification of potential biomarkers for obstructive sleep apnea via microarray analysis. Medicine (Baltimore) 2021 Jan 29;100(4):e24435. PMID: 33530245
  • Peng Y, Song X, Lan J, Wang X et al. Bone marrow stromal cells derived exosomal miR-10a and miR-16 may be involved in progression of patients with multiple myeloma by regulating EPHA8 or IGF1R/CCND1. Medicine (Baltimore) 2021 Jan 29;100(4):e23447. PMID: 33530159
  • Zhang S, Wang B, Ma F, Tong F et al. Characteristics of B lymphocyte infiltration in HPV(+) head and neck squamous cell carcinoma. Cancer Sci 2021 Apr;112(4):1402-1416. PMID: 33529452
  • Sastry AV, Hu A, Heckmann D, Poudel S et al. Independent component analysis recovers consistent regulatory signals from disparate datasets. PLoS Comput Biol 2021 Feb;17(2):e1008647. PMID: 33529205
  • Takao S, Forbes L, Uni M, Cheng S et al. Convergent organization of aberrant MYB complex controls oncogenic gene expression in acute myeloid leukemia. Elife 2021 Feb 2;10. PMID: 33527899
  • Fazio M, van Rooijen E, Dang M, van de Hoek G et al. SATB2 induction of a neural crest mesenchyme-like program drives melanoma invasion and drug resistance. Elife 2021 Feb 2;10. PMID: 33527896
  • Wu YH, Yeh IJ, Phan NN, Yen MC et al. Severe acute respiratory syndrome coronavirus (SARS-CoV)-2 infection induces dysregulation of immunity: in silico gene expression analysis. Int J Med Sci 2021;18(5):1143-1152. PMID: 33526974
  • Laffleur B, Lim J, Zhang W, Chen Y et al. Noncoding RNA processing by DIS3 regulates chromosomal architecture and somatic hypermutation in B cells. Nat Genet 2021 Feb;53(2):230-242. PMID: 33526923
  • Niemöller C, Wehrle J, Riba J, Claus R et al. Bisulfite-free epigenomics and genomics of single cells through methylation-sensitive restriction. Commun Biol 2021 Feb 1;4(1):153. PMID: 33526904
  • Pérez-Díez I, Hidalgo MR, Malmierca-Merlo P, Andreu Z et al. Functional Signatures in Non-Small-Cell Lung Cancer: A Systematic Review and Meta-Analysis of Sex-Based Differences in Transcriptomic Studies. Cancers (Basel) 2021 Jan 5;13(1). PMID: 33526761
  • Lo CH, Shay G, McGuire JJ, Li T et al. Host-Derived Matrix Metalloproteinase-13 Activity Promotes Multiple Myeloma-Induced Osteolysis and Reduces Overall Survival. Cancer Res 2021 May 1;81(9):2415-2428. PMID: 33526510
  • Ietswaart R, Gyori BM, Bachman JA, Sorger PK et al. GeneWalk identifies relevant gene functions for a biological context using network representation learning. Genome Biol 2021 Feb 2;22(1):55. PMID: 33526072
  • Yu S, Li L, Cai H, He B et al. Overexpression of NELFE contributes to gastric cancer progression via Wnt/β-catenin signaling-mediated activation of CSNK2B expression. J Exp Clin Cancer Res 2021 Feb 1;40(1):54. PMID: 33526068
  • Li C, Wei B, Zhao J et al. Competing endogenous RNA network analysis explores the key lncRNAs, miRNAs, and mRNAs in type 1 diabetes. BMC Med Genomics 2021 Feb 1;14(1):35. PMID: 33526014
  • Paakinaho V, Lempiäinen JK, Sigismondo G, Niskanen EA et al. SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites. Nucleic Acids Res 2021 Feb 26;49(4):1951-1971. PMID: 33524141
  • Bhattacharya A, Hamilton AM, Troester MA, Love MI et al. DeCompress: tissue compartment deconvolution of targeted mRNA expression panels using compressed sensing. Nucleic Acids Res 2021 May 7;49(8):e48. PMID: 33524140
  • Tsai SY, Huang F et al. Acetyltransferase Enok regulates transposon silencing and piRNA cluster transcription. PLoS Genet 2021 Feb;17(2):e1009349. PMID: 33524038
  • Szymczak F, Colli ML, Mamula MJ, Evans-Molina C et al. Gene expression signatures of target tissues in type 1 diabetes, lupus erythematosus, multiple sclerosis, and rheumatoid arthritis. Sci Adv 2021 Jan;7(2). PMID: 33523973
  • Saez-Atienzar S, Bandres-Ciga S, Langston RG, Kim JJ et al. Genetic analysis of amyotrophic lateral sclerosis identifies contributing pathways and cell types. Sci Adv 2021 Jan;7(3). PMID: 33523907
  • Hou QQ, Xiao Q, Sun XY, Ju XC et al. TBC1D3 promotes neural progenitor proliferation by suppressing the histone methyltransferase G9a. Sci Adv 2021 Jan;7(3). PMID: 33523893
  • Trizzino M, Zucco A, Deliard S, Wang F et al. EGR1 is a gatekeeper of inflammatory enhancers in human macrophages. Sci Adv 2021 Jan;7(3). PMID: 33523892
  • Cheng K, Nair NU, Lee JS, Ruppin E et al. Synthetic lethality across normal tissues is strongly associated with cancer risk, onset, and tumor suppressor specificity. Sci Adv 2021 Jan;7(1). PMID: 33523837
  • Wang D, Xu X, Li X, Shi J et al. CCL13 is upregulated in alopecia areata lesions and is correlated with disease severity. Exp Dermatol 2021 May;30(5):723-732. PMID: 33523560
  • Patterson-Cross RB, Levine AJ, Menon V et al. Selecting single cell clustering parameter values using subsampling-based robustness metrics. BMC Bioinformatics 2021 Feb 1;22(1):39. PMID: 33522897
  • Lowe BR, Yadav RK, Henry RA, Schreiner P et al. Surprising phenotypic diversity of cancer-associated mutations of Gly 34 in the histone H3 tail. Elife 2021 Feb 1;10. PMID: 33522486
  • Marinić M, Mika K, Chigurupati S, Lynch VJ et al. Evolutionary transcriptomics implicates HAND2 in the origins of implantation and regulation of gestation length. Elife 2021 Feb 1;10. PMID: 33522483
  • Mehmood A, Laiho A, Elo LL et al. Exon-level estimates improve the detection of differentially expressed genes in RNA-seq studies. RNA Biol 2021 Nov;18(11):1739-1746. PMID: 33522408
  • Sheppard HE, Dall'Agnese A, Park WD, Shamim MH et al. Targeted brachyury degradation disrupts a highly specific autoregulatory program controlling chordoma cell identity. Cell Rep Med 2021 Jan 19;2(1):100188. PMID: 33521702
  • Jha PK, Vijay A, Halu A, Uchida S et al. Gene Expression Profiling Reveals the Shared and Distinct Transcriptional Signatures in Human Lung Epithelial Cells Infected With SARS-CoV-2, MERS-CoV, or SARS-CoV: Potential Implications in Cardiovascular Complications of COVID-19. Front Cardiovasc Med 2020;7:623012. PMID: 33521069
  • Morenikeji OB, Bernard K, Strutton E, Wallace M et al. Evolutionarily Conserved Long Non-coding RNA Regulates Gene Expression in Cytokine Storm During COVID-19. Front Bioeng Biotechnol 2020;8:582953. PMID: 33520952
  • Li Z, Chen C, Wang J, Wei M et al. Overexpressed PLAU and its potential prognostic value in head and neck squamous cell carcinoma. PeerJ 2021;9:e10746. PMID: 33520474
  • Deng Z, Hu X, Alahdal M, Liu J et al. High expression of MAPK-14 promoting the death of chondrocytes is an important signal of osteoarthritis process. PeerJ 2021;9:e10656. PMID: 33520453
  • Chen J, Zhou R et al. Tumor microenvironment related novel signature predict lung adenocarcinoma survival. PeerJ 2021;9:e10628. PMID: 33520448
  • Wang Z, Guo M, Ai X, Cheng J et al. Identification of Potential Diagnostic and Prognostic Biomarkers for Colorectal Cancer Based on GEO and TCGA Databases. Front Genet 2020;11:602922. PMID: 33519906
  • Zhang YH, Li Z, Zeng T, Chen L et al. Detecting the Multiomics Signatures of Factor-Specific Inflammatory Effects on Airway Smooth Muscles. Front Genet 2020;11:599970. PMID: 33519902
  • Guan Q, Zeng Q, Jiang W, Xie J et al. A Qualitative Transcriptional Signature for the Risk Assessment of Precancerous Colorectal Lesions. Front Genet 2020;11:573787. PMID: 33519891
  • Jiang L, Zhou Y, Shen J, Chen Y et al. RNA Sequencing Reveals LINC00167 as a Potential Diagnosis Biomarker for Primary Osteoarthritis: A Multi-Stage Study. Front Genet 2020;11:539489. PMID: 33519887
  • Li D, Yang Y, Chen B, Guo X et al. MOF Regulates TNK2 Transcription Expression to Promote Cell Proliferation in Thyroid Cancer. Front Pharmacol 2020;11:607605. PMID: 33519470
  • Lu X, Gan Q, Gan C et al. Circular RNA circSEC24A Promotes Cutaneous Squamous Cell Carcinoma Progression by Regulating miR-1193/MAP3K9 Axis. Onco Targets Ther 2021;14:653-666. PMID: 33519212
  • Gong Y, Qian Y, Luo G, Liu Y et al. High GFPT1 expression predicts unfavorable outcomes in patients with resectable pancreatic ductal adenocarcinoma. World J Surg Oncol 2021 Jan 31;19(1):35. PMID: 33517899
  • López de Maturana E, Rodríguez JA, Alonso L, Lao O et al. A multilayered post-GWAS assessment on genetic susceptibility to pancreatic cancer. Genome Med 2021 Feb 1;13(1):15. PMID: 33517887
  • Nair MG, Prabhu JS, Ts S et al. High expression of ACE2 in HER2 subtype of breast cancer is a marker of poor prognosis. Cancer Treat Res Commun 2021;27:100321. PMID: 33517235
  • Dou C, Mo H, Chen T, Liu J et al. ZMYND8 promotes the growth and metastasis of hepatocellular carcinoma by promoting HK2-mediated glycolysis. Pathol Res Pract 2021 Mar;219:153345. PMID: 33517164
  • Zhou M, Yang Z, Wang D, Chen P et al. The circular RNA circZFR phosphorylates Rb promoting cervical cancer progression by regulating the SSBP1/CDK2/cyclin E1 complex. J Exp Clin Cancer Res 2021 Jan 30;40(1):48. PMID: 33516252
  • Yu L, Guo R, Jiang Y, Ye X et al. Degradome sequencing-based identification of phasiRNAs biogenesis pathways in Oryza sativa. BMC Genomics 2021 Jan 30;22(1):93. PMID: 33516199
  • Alqassem I, Sonthalia Y, Klitzke-Feser E, Shim H et al. McSplicer: a probabilistic model for estimating splice site usage from RNA-seq data. Bioinformatics 2021 Jan 30;37(14):2004-11. PMID: 33515239
  • Han T, Chen Z, Chen W, Yuan L et al. The prognostic value of circular RNA regulatory genes in competitive endogenous RNA network in gastric cancer. Cancer Gene Ther 2021 Nov;28(10-11):1175-1187. PMID: 33514881
  • Munir H, Jones JO, Janowitz T, Hoffmann M et al. Stromal-driven and Amyloid β-dependent induction of neutrophil extracellular traps modulates tumor growth. Nat Commun 2021 Jan 29;12(1):683. PMID: 33514748
  • Hu X, Estecio MR, Chen R, Reuben A et al. Evolution of DNA methylome from precancerous lesions to invasive lung adenocarcinomas. Nat Commun 2021 Jan 29;12(1):687. PMID: 33514726
  • Cai Y, Zhang Y, Loh YP, Tng JQ et al. H3K27me3-rich genomic regions can function as silencers to repress gene expression via chromatin interactions. Nat Commun 2021 Jan 29;12(1):719. PMID: 33514712
  • Masalmeh RHA, Taglini F, Rubio-Ramon C, Musialik KI et al. De novo DNA methyltransferase activity in colorectal cancer is directed towards H3K36me3 marked CpG islands. Nat Commun 2021 Jan 29;12(1):694. PMID: 33514701
  • Zhu M, Liang Q, Chen T, Kong Q et al. Identification and validation of methylated differentially expressed miRNAs and immune infiltrate profile in EBV-associated gastric cancer. Clin Epigenetics 2021 Jan 29;13(1):22. PMID: 33514440
  • Li L, Ugalde AP, Scheele CLGJ, Dieter SM et al. A comprehensive enhancer screen identifies TRAM2 as a key and novel mediator of YAP oncogenesis. Genome Biol 2021 Jan 29;22(1):54. PMID: 33514403
  • Deng P, Li K, Gu F, Zhang T et al. LINC00242/miR-1-3p/G6PD axis regulates Warburg effect and affects gastric cancer proliferation and apoptosis. Mol Med 2021 Jan 29;27(1):9. PMID: 33514309
  • Misawa A, Kondo Y, Takei H, Takizawa T et al. Long Noncoding RNA HOXA11-AS and Transcription Factor HOXB13 Modulate the Expression of Bone Metastasis-Related Genes in Prostate Cancer. Genes (Basel) 2021 Jan 27;12(2). PMID: 33514011
  • Rezvykh AP, Funikov SY, Protsenko LA, Kulikova DA et al. Evolutionary Dynamics of the Pericentromeric Heterochromatin in Drosophila virilis and Related Species. Genes (Basel) 2021 Jan 27;12(2). PMID: 33513919
  • Fan Y, Arbab AAI, Zhang H, Yang Y et al. Lactation Associated Genes Revealed in Holstein Dairy Cows by Weighted Gene Co-Expression Network Analysis (WGCNA). Animals (Basel) 2021 Jan 27;11(2). PMID: 33513831
  • Lu J, Dumitrascu B, McDowell IC, Jo B et al. Causal network inference from gene transcriptional time-series response to glucocorticoids. PLoS Comput Biol 2021 Jan;17(1):e1008223. PMID: 33513136
  • Houle D, Cheng C et al. Predicting the Evolution of Sexual Dimorphism in Gene Expression. Mol Biol Evol 2021 May 4;38(5):1847-1859. PMID: 33512493
  • He J, Li X, Zhang Y, Zhang Q et al. Comprehensive Analysis of ceRNA Regulation Network Involved in the Development of Coronary Artery Disease. Biomed Res Int 2021;2021:6658115. PMID: 33511207
  • Wang W, Wang Y, Piao H, Li B et al. Bioinformatics Analysis Reveals MicroRNA-193a-3p Regulates ACTG2 to Control Phenotype Switch in Human Vascular Smooth Muscle Cells. Front Genet 2020;11:572707. PMID: 33510768
  • Bruno NE, Nwachukwu JC, Srinivasan S, Nettles CC et al. Chemical systems biology reveals mechanisms of glucocorticoid receptor signaling. Nat Chem Biol 2021 Mar;17(3):307-316. PMID: 33510451
  • Vilarrasa-Blasi R, Soler-Vila P, Verdaguer-Dot N, Russiñol N et al. Dynamics of genome architecture and chromatin function during human B cell differentiation and neoplastic transformation. Nat Commun 2021 Jan 28;12(1):651. PMID: 33510161
  • Chamling X, Kallman A, Fang W, Berlinicke CA et al. Single-cell transcriptomic reveals molecular diversity and developmental heterogeneity of human stem cell-derived oligodendrocyte lineage cells. Nat Commun 2021 Jan 28;12(1):652. PMID: 33510160
  • Lin H, Huang YS, Fustin JM, Doi M et al. Hyperpolyploidization of hepatocyte initiates preneoplastic lesion formation in the liver. Nat Commun 2021 Jan 28;12(1):645. PMID: 33510150
  • Cao T, Shen H et al. Development of a multi-gene-based immune prognostic signature in ovarian Cancer. J Ovarian Res 2021 Jan 28;14(1):20. PMID: 33509250
  • Liu Y, Bai F, Tang Z, Liu N et al. Integrative transcriptomic, proteomic, and machine learning approach to identifying feature genes of atrial fibrillation using atrial samples from patients with valvular heart disease. BMC Cardiovasc Disord 2021 Jan 28;21(1):52. PMID: 33509101
  • Miko H, Qiu Y, Gaertner B, Sander M et al. Inferring time series chromatin states for promoter-enhancer pairs based on Hi-C data. BMC Genomics 2021 Jan 28;22(1):84. PMID: 33509077
  • Zhong H, Liu S, Meng X, Sun T et al. Uncovering the genetic mechanisms regulating panicle architecture in rice with GPWAS and GWAS. BMC Genomics 2021 Jan 28;22(1):86. PMID: 33509071
  • Kim SK, Goughnour PC, Lee EJ, Kim MH et al. Identification of drug combinations on the basis of machine learning to maximize anti-aging effects. PLoS One 2021;16(1):e0246106. PMID: 33507975
  • Xiao SJ, Zhou YF, Jia H, Wu Q et al. Identification of the pivotal differentially expressed genes and pathways involved in Staphylococcus aureus-induced infective endocarditis by using bioinformatics analysis. Eur Rev Med Pharmacol Sci 2021 Jan;25(1):487-497. PMID: 33506940
  • Xiao SJ, Zhou YF, Wu Q, Ma WR et al. Uncovering the differentially expressed genes and pathways involved in the progression of stable coronary artery disease to acute myocardial infarction using bioinformatics analysis. Eur Rev Med Pharmacol Sci 2021 Jan;25(1):301-312. PMID: 33506919
  • Ling B, Ye G, Zhao Q, Jiang Y et al. Identification of an Immunologic Signature of Lung Adenocarcinomas Based on Genome-Wide Immune Expression Profiles. Front Mol Biosci 2020;7:603701. PMID: 33505988
  • Shang Y, Wang L, Zhu Z, Gao W et al. Downregulation of miR-423-5p Contributes to the Radioresistance in Colorectal Cancer Cells. Front Oncol 2020;10:582239. PMID: 33505907
  • Shen X, Zhao K, Xu L, Cheng G et al. YTHDF2 Inhibits Gastric Cancer Cell Growth by Regulating FOXC2 Signaling Pathway. Front Genet 2020;11:592042. PMID: 33505426
  • Chen H, Wu J, Lu L, Hu Z et al. Identification of Hub Genes Associated With Immune Infiltration and Predict Prognosis in Hepatocellular Carcinoma via Bioinformatics Approaches. Front Genet 2020;11:575762. PMID: 33505422
  • Liu K, Hong D, Zhang F, Li X et al. MicroRNA-106a Inhibits Autophagy Process and Antimicrobial Responses by Targeting ULK1, ATG7, and ATG16L1 During Mycobacterial Infection. Front Immunol 2020;11:610021. PMID: 33505399
  • Bai N, Ma J, Alimujiang M, Xu J et al. Bola3 Regulates Beige Adipocyte Thermogenesis via Maintaining Mitochondrial Homeostasis and Lipolysis. Front Endocrinol (Lausanne) 2020;11:592154. PMID: 33505355
  • Li H, Gao C, Liang Q, Liu C et al. Cryptotanshinone Is a Intervention for ER-Positive Breast Cancer: An Integrated Approach to the Study of Natural Product Intervention Mechanisms. Front Pharmacol 2020;11:592109. PMID: 33505309
  • Farhadian M, Rafat SA, Panahi B, Mayack C et al. Weighted gene co-expression network analysis identifies modules and functionally enriched pathways in the lactation process. Sci Rep 2021 Jan 27;11(1):2367. PMID: 33504890
  • McKinney EF, Cuthbertson I, Harris KM, Smilek DE et al. A CD8(+) NK cell transcriptomic signature associated with clinical outcome in relapsing remitting multiple sclerosis. Nat Commun 2021 Jan 27;12(1):635. PMID: 33504809
  • Liu Y, Hu Z, Cheng J, Siejka-Zielińska P et al. Subtraction-free and bisulfite-free specific sequencing of 5-methylcytosine and its oxidized derivatives at base resolution. Nat Commun 2021 Jan 27;12(1):618. PMID: 33504799
  • Jin R, Klasfeld S, Zhu Y, Fernandez Garcia M et al. LEAFY is a pioneer transcription factor and licenses cell reprogramming to floral fate. Nat Commun 2021 Jan 27;12(1):626. PMID: 33504790
  • Norin U, Rintisch C, Meng L, Forster F et al. Endophilin A2 deficiency protects rodents from autoimmune arthritis by modulating T cell activation. Nat Commun 2021 Jan 27;12(1):610. PMID: 33504785
  • Liu ZH, Yang SZ, Li WY, Dong SY et al. circRNA_141539 can serve as an oncogenic factor in esophageal squamous cell carcinoma by sponging miR-4469 and activating CDK3 gene. Aging (Albany NY) 2021 Jan 27;13(8):12179-12193. PMID: 33504681
  • Sang ER, Tian Y, Miller LC, Sang Y et al. Epigenetic Evolution of ACE2 and IL-6 Genes: Non-Canonical Interferon-Stimulated Genes Correlate to COVID-19 Susceptibility in Vertebrates. Genes (Basel) 2021 Jan 25;12(2). PMID: 33503821
  • Chen L, Cao W, Aita R, Aldea D et al. Three-dimensional interactions between enhancers and promoters during intestinal differentiation depend upon HNF4. Cell Rep 2021 Jan 26;34(4):108679. PMID: 33503426
  • Wang Q, Huang J, Chen X, Wang J et al. Transcriptomic markers in pediatric septic shock prognosis: an integrative analysis of gene expression profiles. Braz J Med Biol Res 2021;54(3):e10152. PMID: 33503200
  • SoRelle ED, Dai J, Bonglack EN, Heckenberg EM et al. Single-cell RNA-seq reveals transcriptomic heterogeneity mediated by host-pathogen dynamics in lymphoblastoid cell lines. Elife 2021 Jan 27;10. PMID: 33501914
  • Chen B, Sun D, Qin X, Gao XH et al. Screening and identification of potential biomarkers and therapeutic drugs in melanoma via integrated bioinformatics analysis. Invest New Drugs 2021 Aug;39(4):928-948. PMID: 33501609
  • Jankowski J, Lee HK, Wilflingseder J, Hennighausen L et al. Interferon-regulated genetic programs and JAK/STAT pathway activate the intronic promoter of the short ACE2 isoform in renal proximal tubules. bioRxiv 2021 Jan 19 PMID: 33501441
  • Wang H, Guo S, Kim SJ, Shao F et al. Cisplatin prevents breast cancer metastasis through blocking early EMT and retards cancer growth together with paclitaxel. Theranostics 2021;11(5):2442-2459. PMID: 33500735
  • Liu Y, Huang S, Kuang M, Wang H et al. High LARGE1 Expression May Predict Benefit from Adjuvant Chemotherapy in Resected Non-Small-Cell Lung Cancer. Pharmgenomics Pers Med 2021;14:87-99. PMID: 33500650
  • Hanemaaijer ES, Margaritis T, Sanders K, Bos FL et al. Single-cell atlas of developing murine adrenal gland reveals relation of Schwann cell precursor signature to neuroblastoma phenotype. Proc Natl Acad Sci U S A 2021 Feb 2;118(5). PMID: 33500353
  • Duy C, Li M, Teater M, Meydan C et al. Chemotherapy Induces Senescence-Like Resilient Cells Capable of Initiating AML Recurrence. Cancer Discov 2021 Jun;11(6):1542-1561. PMID: 33500244
  • Haghshenas S, Levy MA, Kerkhof J, Aref-Eshghi E et al. Detection of a DNA Methylation Signature for the Intellectual Developmental Disorder, X-Linked, Syndromic, Armfield Type. Int J Mol Sci 2021 Jan 23;22(3). PMID: 33498634
  • Assabban A, Dubois-Vedrenne I, Van Maele L, Salcedo R et al. Tristetraprolin expression by keratinocytes protects against skin carcinogenesis. JCI Insight 2021 Mar 8;6(5). PMID: 33497366
  • Kayamori K, Nagai Y, Zhong C, Kaito S et al. DHODH inhibition synergizes with DNA-demethylating agents in the treatment of myelodysplastic syndromes. Blood Adv 2021 Jan 26;5(2):438-450. PMID: 33496740
  • Sankoda N, Tanabe W, Tanaka A, Shibata H et al. Epithelial expression of Gata4 and Sox2 regulates specification of the squamous-columnar junction via MAPK/ERK signaling in mice. Nat Commun 2021 Jan 25;12(1):560. PMID: 33495473
  • Kanev K, Roelli P, Wu M, Wurmser C et al. Tailoring the resolution of single-cell RNA sequencing for primary cytotoxic T cells. Nat Commun 2021 Jan 25;12(1):569. PMID: 33495472
  • Alizada A, Khyzha N, Wang L, Antounians L et al. Conserved regulatory logic at accessible and inaccessible chromatin during the acute inflammatory response in mammals. Nat Commun 2021 Jan 25;12(1):567. PMID: 33495464
  • Erady C, Boxall A, Puntambekar S, Suhas Jagannathan N et al. Pan-cancer analysis of transcripts encoding novel open-reading frames (nORFs) and their potential biological functions. NPJ Genom Med 2021 Jan 25;6(1):4. PMID: 33495453
  • Yang L, Cui Y, Sun X, Wang Y et al. Overexpression of TICRR and PPIF confer poor prognosis in endometrial cancer identified by gene co-expression network analysis. Aging (Albany NY) 2021 Jan 20;13(3):4564-4589. PMID: 33495413
  • Zhong Z, Feng S, Duttke SH, Potok ME et al. DNA methylation-linked chromatin accessibility affects genomic architecture in Arabidopsis. Proc Natl Acad Sci U S A 2021 Feb 2;118(5). PMID: 33495321
  • Yamashita N, Long M, Fushimi A, Yamamoto M et al. MUC1-C integrates activation of the IFN-γ pathway with suppression of the tumor immune microenvironment in triple-negative breast cancer. J Immunother Cancer 2021 Jan;9(1). PMID: 33495298
  • Zhu M, Huang Y, Bender ME, Girard L et al. Evasion of Innate Immunity Contributes to Small Cell Lung Cancer Progression and Metastasis. Cancer Res 2021 Apr 1;81(7):1813-1826. PMID: 33495232
  • Zhang M, Wang Y, Jiang L, Song X et al. LncRNA CBR3-AS1 regulates of breast cancer drug sensitivity as a competing endogenous RNA through the JNK1/MEK4-mediated MAPK signal pathway. J Exp Clin Cancer Res 2021 Jan 25;40(1):41. PMID: 33494806
  • Zhang YW, Wang MB, Li SC et al. SuperTAD: robust detection of hierarchical topologically associated domains with optimized structural information. Genome Biol 2021 Jan 25;22(1):45. PMID: 33494803
  • Wang D, Pierce A, Veo B, Fosmire S et al. A Regulatory Loop of FBXW7-MYC-PLK1 Controls Tumorigenesis of MYC-Driven Medulloblastoma. Cancers (Basel) 2021 Jan 21;13(3). PMID: 33494392
  • Zhao P, Liu Y, Kong W, Ji J et al. Genome-Wide Identification and Characterization of Calcium-Dependent Protein Kinase (CDPK) and CDPK-Related Kinase (CRK) Gene Families in Medicago truncatula. Int J Mol Sci 2021 Jan 21;22(3). PMID: 33494310
  • Ahluwalia P, Kolhe R, Gahlay GK et al. The clinical relevance of gene expression based prognostic signatures in colorectal cancer. Biochim Biophys Acta Rev Cancer 2021 Apr;1875(2):188513. PMID: 33493614
  • Gao L, Wang J, Zhao Y, Liu J et al. Identification of sulforaphane regulatory network in hepatocytes by microarray data analysis based on GEO database. Biosci Rep 2021 Feb 26;41(2). PMID: 33491737
  • Borg M, Papareddy RK, Dombey R, Axelsson E et al. Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis. Elife 2021 Jan 25;10. PMID: 33491647
  • Fu Q, Zhu J, Wang B, Wu J et al. LINC02288 promotes chondrocyte apoptosis and inflammation through miR-374a-3p targeting RTN3. J Gene Med 2021 May;23(5):e3314. PMID: 33491257
  • Ding H, Yang Y, Xue Y, Seninge L et al. Prioritizing transcriptional factors in gene regulatory networks with PageRank. iScience 2021 Jan 22;24(1):102017. PMID: 33490923
  • Adhikari S, Nayek K, Bandyopadhyay A, Mandal P et al. Implication of therapeutic outcomes associated with molecular characterization of paediatric aplastic anaemia. Biochem Biophys Rep 2021 Mar;25:100899. PMID: 33490648
  • Zhang C, Liu S, Wang X, Liu H et al. COL1A1 Is a Potential Prognostic Biomarker and Correlated with Immune Infiltration in Mesothelioma. Biomed Res Int 2021;2021:5320941. PMID: 33490271
  • Xu H, Zhang J, Ma Y, Gu J et al. The Identification and Verification of Key Long Noncoding RNAs in Ischemic Stroke. Biomed Res Int 2020;2020:2094320. PMID: 33490236
  • Li G, Jiang W, Kang Y, Yu X et al. High expression of collagen 1A2 promotes the proliferation and metastasis of esophageal cancer cells. Ann Transl Med 2020 Dec;8(24):1672. PMID: 33490184
  • Ma Q, He J et al. Enhanced expression of queuine tRNA-ribosyltransferase 1 (QTRT1) predicts poor prognosis in lung adenocarcinoma. Ann Transl Med 2020 Dec;8(24):1658. PMID: 33490170
  • Jiao Z, Yu A, He X, Xuan Y et al. Bioinformatics analysis to determine the prognostic value and prospective pathway signaling of miR-126 in non-small cell lung cancer. Ann Transl Med 2020 Dec;8(24):1639. PMID: 33490151
  • Ren Y, Deng R, Zhang Q, Li J et al. Bioinformatics analysis of key genes in triple negative breast cancer and validation of oncogene PLK1. Ann Transl Med 2020 Dec;8(24):1637. PMID: 33490149
  • Cheng S, Li Z, Zhang W, Sun Z et al. Identification of IL10RA by Weighted Correlation Network Analysis and in vitro Validation of Its Association With Prognosis of Metastatic Melanoma. Front Cell Dev Biol 2020;8:630790. PMID: 33490091
  • Dal Molin A, Hofmans M, Gaffo E, Buratin A et al. CircRNAs Dysregulated in Juvenile Myelomonocytic Leukemia: CircMCTP1 Stands Out. Front Cell Dev Biol 2020;8:613540. PMID: 33490078
  • Zhang D, Zheng Y, Yang S, Li Y et al. Identification of a Novel Glycolysis-Related Gene Signature for Predicting Breast Cancer Survival. Front Oncol 2020;10:596087. PMID: 33489894
  • Liu R, Liao YZ, Zhang W, Zhou HH et al. Relevance of Immune Infiltration and Clinical Outcomes in Pancreatic Ductal Adenocarcinoma Subtypes. Front Oncol 2020;10:575264. PMID: 33489882
  • Liu J, Chen L, Pan J, Chen M et al. Comprehensive analysis of key lncRNAs in HCV-positive hepatocellular carcinoma. Arch Med Sci 2021;17(1):142-151. PMID: 33488867
  • Wang X, Zhang Y, Wan X, Guo C et al. Responsive Expression of MafF to β-Amyloid-Induced Oxidative Stress. Dis Markers 2020;2020:8861358. PMID: 33488846
  • Wu J, Lin Q, Li S, Shao X et al. Periostin Contributes to Immunoglobulin a Nephropathy by Promoting the Proliferation of Mesangial Cells: A Weighted Gene Correlation Network Analysis. Front Genet 2020;11:595757. PMID: 33488671
  • Johnson C, Drummer Iv C, Shan H, Shao Y et al. A Novel Subset of CD95(+) Pro-Inflammatory Macrophages Overcome miR155 Deficiency and May Serve as a Switch From Metabolically Healthy Obesity to Metabolically Unhealthy Obesity. Front Immunol 2020;11:619951. PMID: 33488632
  • Xu F, Gao J, Bergmann S, Sims AC et al. Genetic Dissection of the Regulatory Mechanisms of Ace2 in the Infected Mouse Lung. Front Immunol 2020;11:607314. PMID: 33488611
  • Wei J, Qian Y, Tang Y, Ge X et al. Establishment of a Risk Signature Based on m6A RNA Methylation Regulators That Predicts Poor Prognosis in Renal Cell Carcinoma. Onco Targets Ther 2021;14:413-426. PMID: 33488096
  • Singh MK, Mobeen A, Chandra A, Joshi S et al. A meta-analysis of comorbidities in COVID-19: Which diseases increase the susceptibility of SARS-CoV-2 infection? Comput Biol Med 2021 Mar;130:104219. PMID: 33486379
  • Alsharif I, Boukhzar L, Lefranc B, Godefroy D et al. Cell-penetrating, antioxidant SELENOT mimetic protects dopaminergic neurons and ameliorates motor dysfunction in Parkinson's disease animal models. Redox Biol 2021 Apr;40:101839. PMID: 33486153
  • Guo H, Li T, Sun X et al. LncRNA HOTAIRM1, miR-433-5p and PIK3CD function as a ceRNA network to exacerbate the development of PCOS. J Ovarian Res 2021 Jan 23;14(1):19. PMID: 33485372
  • Nissley DA, Carbery A, Chonofsky M, Deane CM et al. Ribosome occupancy profiles are conserved between structurally and evolutionarily related yeast domains. Bioinformatics 2021 Jul 27;37(13):1853-1859. PMID: 33483722
  • Martins Conde P, Pfau T, Pires Pacheco M, Sauter T et al. A dynamic multi-tissue model to study human metabolism. NPJ Syst Biol Appl 2021 Jan 22;7(1):5. PMID: 33483512
  • Grinev VV, Barneh F, Ilyushonak IM, Nakjang S et al. RUNX1/RUNX1T1 mediates alternative splicing and reorganises the transcriptional landscape in leukemia. Nat Commun 2021 Jan 22;12(1):520. PMID: 33483506
  • Puniya BL, Amin R, Lichter B, Moore R et al. Integrative computational approach identifies drug targets in CD4(+) T-cell-mediated immune disorders. NPJ Syst Biol Appl 2021 Jan 22;7(1):4. PMID: 33483502
  • Rudloff S, Janot M, Rodriguez S, Dessalle K et al. Fetuin-A is a HIF target that safeguards tissue integrity during hypoxic stress. Nat Commun 2021 Jan 22;12(1):549. PMID: 33483479
  • Parada GE, Munita R, Georgakopoulos-Soares I, Fernandes HJR et al. MicroExonator enables systematic discovery and quantification of microexons across mouse embryonic development. Genome Biol 2021 Jan 22;22(1):43. PMID: 33482885
  • Wang F, Zhang Y, Shen J, Yang B et al. The Ubiquitin E3 Ligase TRIM21 Promotes Hepatocarcinogenesis by Suppressing the p62-Keap1-Nrf2 Antioxidant Pathway. Cell Mol Gastroenterol Hepatol 2021;11(5):1369-1385. PMID: 33482392
  • Cui J, Wang L, Zhong W, Chen Z et al. Development and Validation of Epigenetic Signature Predict Survival for Patients with Laryngeal Squamous Cell Carcinoma. DNA Cell Biol 2021 Feb;40(2):247-264. PMID: 33481663
  • Shi ZL, Zhou GQ, Guo J, Yang XL et al. Identification of a Prognostic Colorectal Cancer Model Including LncRNA FOXP4-AS1 and LncRNA BBOX1-AS1 Based on Bioinformatics Analysis. Cancer Biother Radiopharm 2022 Dec;37(10):893-906. PMID: 33481661
  • Song Q, Su J et al. DSTG: deconvoluting spatial transcriptomics data through graph-based artificial intelligence. Brief Bioinform 2021 Sep 2;22(5). PMID: 33480403
  • Best KT, Korcari A, Mora KE, Nichols AE et al. Scleraxis-lineage cell depletion improves tendon healing and disrupts adult tendon homeostasis. Elife 2021 Jan 22;10. PMID: 33480357
  • Tan L, Xu Q, Shi R, Zhang G et al. Bioinformatics analysis reveals the landscape of immune cell infiltration and immune-related pathways participating in the progression of carotid atherosclerotic plaques. Artif Cells Nanomed Biotechnol 2021 Dec;49(1):96-107. PMID: 33480285
  • Pidde G, Nishiyama MY, de Oliveira UC, Villas-Boas IM et al. Integrative multiomics analysis of Premolis semirufa caterpillar venom in the search for molecules leading to a joint disease. Sci Rep 2021 Jan 21;11(1):1995. PMID: 33479267
  • Akhand SS, Chen H, Purdy SC, Liu Z et al. Fibroblast growth factor receptor facilitates recurrence of minimal residual disease following trastuzumab emtansine therapy. NPJ Breast Cancer 2021 Jan 21;7(1):5. PMID: 33479246
  • Paci P, Fiscon G, Conte F, Wang RS et al. Gene co-expression in the interactome: moving from correlation toward causation via an integrated approach to disease module discovery. NPJ Syst Biol Appl 2021 Jan 21;7(1):3. PMID: 33479222
  • Kvedaraite E, Hertwig L, Sinha I, Ponzetta A et al. Major alterations in the mononuclear phagocyte landscape associated with COVID-19 severity. Proc Natl Acad Sci U S A 2021 Feb 9;118(6). PMID: 33479167
  • Zhang Y, Tedrow J, Nouraie M, Li X et al. Elevated plasma level of Pentraxin 3 is associated with emphysema and mortality in smokers. Thorax 2021 Apr;76(4):335-342. PMID: 33479043
  • Li C, Ma X, Ni C, Xu J et al. LncRNA NEAT1 promotes nucleus pulposus cell matrix degradation through regulating Nrf2/ARE axis. Eur J Med Res 2021 Jan 21;26(1):11. PMID: 33478594
  • Zhang Y, Nguyen TM, Zhang XO, Wang L et al. Optimized RNA-targeting CRISPR/Cas13d technology outperforms shRNA in identifying functional circRNAs. Genome Biol 2021 Jan 21;22(1):41. PMID: 33478577
  • Ma J, Chen X, Lin M, Wang Z et al. Bioinformatics analysis combined with experiments predicts CENPK as a potential prognostic factor for lung adenocarcinoma. Cancer Cell Int 2021 Jan 21;21(1):65. PMID: 33478508
  • Kim YG, Lee SM, Bae S, Park T et al. Effect of Aging on Homeostasis in the Soft Tissue of the Periodontium: A Narrative Review. J Pers Med 2021 Jan 18;11(1). PMID: 33477537
  • Andradas C, Byrne J, Kuchibhotla M, Ancliffe M et al. Assessment of Cannabidiol and Δ9-Tetrahydrocannabiol in Mouse Models of Medulloblastoma and Ependymoma. Cancers (Basel) 2021 Jan 18;13(2). PMID: 33477420
  • Ong JR, Bamodu OA, Khang NV, Lin YK et al. SUMO-Activating Enzyme Subunit 1 (SAE1) Is a Promising Diagnostic Cancer Metabolism Biomarker of Hepatocellular Carcinoma. Cells 2021 Jan 17;10(1). PMID: 33477333
  • Peng CL, Jiang N, Zhao JF, Liu K et al. Metformin relieves H/R-induced cardiomyocyte injury through miR-19a/ACSL axis - possible therapeutic target for myocardial I/R injury. Toxicol Appl Pharmacol 2021 Mar 1;414:115408. PMID: 33476677
  • Liu H, Chen P, Yang YL, Zhu KW et al. TBC1D16 predicts chemosensitivity and prognosis in adult acute myeloid leukemia (AML) patients. Eur J Pharmacol 2021 Mar 15;895:173894. PMID: 33476656
  • Fu ZW, Li JH, Feng YR, Yuan X et al. The metabolite methylglyoxal-mediated gene expression is associated with histone methylglyoxalation. Nucleic Acids Res 2021 Feb 26;49(4):1886-1899. PMID: 33476385
  • Stagsted LVW, O'Leary ET, Ebbesen KK, Hansen TB et al. The RNA-binding protein SFPQ preserves long-intron splicing and regulates circRNA biogenesis in mammals. Elife 2021 Jan 21;10. PMID: 33476259
  • Zhu N, Zhang C, Prakash A, Hou Z et al. Therapeutic development of group B Streptococcus meningitis by targeting a host cell signaling network involving EGFR. EMBO Mol Med 2021 Mar 5;13(3):e12651. PMID: 33474818
  • Lu H, Cunnea P, Nixon K, Rinne N et al. Discovery of a biomarker candidate for surgical stratification in high-grade serous ovarian cancer. Br J Cancer 2021 Mar;124(7):1286-1293. PMID: 33473167
  • Tyagi A, Sharma S, Wu K, Wu SY et al. Nicotine promotes breast cancer metastasis by stimulating N2 neutrophils and generating pre-metastatic niche in lung. Nat Commun 2021 Jan 20;12(1):474. PMID: 33473115
  • Zhang X, Yang H, Jia Y, Xu Z et al. circRNA_0005529 facilitates growth and metastasis of gastric cancer via regulating miR-527/Sp1 axis. BMC Mol Cell Biol 2021 Jan 20;22(1):6. PMID: 33472586
  • Romani M, Sorrentino V, Oh CM, Li H et al. NAD(+) boosting reduces age-associated amyloidosis and restores mitochondrial homeostasis in muscle. Cell Rep 2021 Jan 19;34(3):108660. PMID: 33472069
  • FitzPatrick MEB, Provine NM, Garner LC, Powell K et al. Human intestinal tissue-resident memory T cells comprise transcriptionally and functionally distinct subsets. Cell Rep 2021 Jan 19;34(3):108661. PMID: 33472060
  • Yang M, Li Z, Tao J, Hu H et al. Resveratrol induces PD-L1 expression through snail-driven activation of Wnt pathway in lung cancer cells. J Cancer Res Clin Oncol 2021 Apr;147(4):1101-1113. PMID: 33471184
  • Liu Z, Liu S, Guo J, Sun L et al. Identification and Analysis of Key Genes Driving Gastric Cancer Through Bioinformatics. Genet Test Mol Biomarkers 2021 Jan;25(1):1-11. PMID: 33470887
  • Liu XT, Liu TT, Wu MY, Chen QX et al. Identifying FBLN1 (Gene ID: 2192) as a Potential Melanoma Biomarker for Melanoma based on an Analysis of microRNA Expression Profiles in the GEO and TCGA Databases. Genet Test Mol Biomarkers 2021 Jan;25(1):68-78. PMID: 33470885
  • Shaik S, Maegawa S, Haltom AR, Wang F et al. REST promotes ETS1-dependent vascular growth in medulloblastoma. Mol Oncol 2021 May;15(5):1486-1506. PMID: 33469989
  • Zarinsefat A, Hartoularos G, Rychkov D, Rashmi P et al. Single-Cell RNA Sequencing of Tocilizumab-Treated Peripheral Blood Mononuclear Cells as an in vitro Model of Inflammation. Front Genet 2020;11:610682. PMID: 33469465
  • Sayed GA, Al-Sawaf HA, Al-Sawaf AH, Saeid M et al. Mitochondrial DNA in Fresh versus Frozen Embryo Culture Media of Polycystic Ovarian Syndrome Patients Undergoing Invitro Fertilization: A Possible Predictive Marker of a Successful Pregnancy. Pharmgenomics Pers Med 2021;14:27-38. PMID: 33469340
  • Gong L, Cai L, Li G, Cai J et al. GADD45B Facilitates Metastasis of Ovarian Cancer Through Epithelial-Mesenchymal Transition. Onco Targets Ther 2021;14:255-269. PMID: 33469306
  • Sun S, Shen Y, Wang J, Li J et al. Identification and Validation of Autophagy-Related Genes in Chronic Obstructive Pulmonary Disease. Int J Chron Obstruct Pulmon Dis 2021;16:67-78. PMID: 33469280
  • Chen X, Lloyd SM, Kweon J, Gamalong GM et al. Epidermal progenitors suppress GRHL3-mediated differentiation through intronic polyadenylation promoted by CPSF-HNRNPA3 collaboration. Nat Commun 2021 Jan 19;12(1):448. PMID: 33469008
  • Zhao X, Zhang L, Wang J, Zhang M et al. Identification of key biomarkers and immune infiltration in systemic lupus erythematosus by integrated bioinformatics analysis. J Transl Med 2021 Jan 19;19(1):35. PMID: 33468161
  • Chen L, Wang D et al. Identification of potential CpG sites for oral squamous cell carcinoma diagnosis via integrated analysis of DNA methylation and gene expression. World J Surg Oncol 2021 Jan 19;19(1):16. PMID: 33468155
  • Blagotinšek Cokan K, Urlep Ž, Moškon M, Mraz M et al. Common Transcriptional Program of Liver Fibrosis in Mouse Genetic Models and Humans. Int J Mol Sci 2021 Jan 15;22(2). PMID: 33467660
  • Dovat E, Song C, Hu T, Rahman MA et al. Transcriptional Regulation of PIK3CD and PIKFYVE in T-Cell Acute Lymphoblastic Leukemia by IKAROS and Protein Kinase CK2. Int J Mol Sci 2021 Jan 15;22(2). PMID: 33467550
  • Peng JL, Wu JZ, Li GJ, Wu JL et al. Identification of potential biomarkers of peripheral blood mononuclear cell in hepatocellular carcinoma using bioinformatic analysis: A protocol for systematic review and meta-analysis. Medicine (Baltimore) 2021 Jan 15;100(2):e24172. PMID: 33466191
  • Abraham J, Heimberger AB, Marshall J, Heath E et al. Machine learning analysis using 77,044 genomic and transcriptomic profiles to accurately predict tumor type. Transl Oncol 2021 Mar;14(3):101016. PMID: 33465745
  • de la Rosa Rodriguez MA, Deng L, Gemmink A, van Weeghel M et al. Hypoxia-inducible lipid droplet-associated induces DGAT1 and promotes lipid storage in hepatocytes. Mol Metab 2021 May;47:101168. PMID: 33465519
  • Feng H, Song Z et al. Identification of core miRNAs and regulatory pathways in breast cancer by integrated bioinformatics analysis. Mol Omics 2021 Apr 19;17(2):277-287. PMID: 33462573
  • Chumduri C, Gurumurthy RK, Berger H, Dietrich O et al. Opposing Wnt signals regulate cervical squamocolumnar homeostasis and emergence of metaplasia. Nat Cell Biol 2021 Feb;23(2):184-197. PMID: 33462395
  • Nomura N, Ito C, Ooshio T, Tadokoro Y et al. Essential role of autophagy in protecting neonatal haematopoietic stem cells from oxidative stress in a p62-independent manner. Sci Rep 2021 Jan 18;11(1):1666. PMID: 33462315
  • Larrue C, Guiraud N, Mouchel PL, Dubois M et al. Adrenomedullin-CALCRL axis controls relapse-initiating drug tolerant acute myeloid leukemia cells. Nat Commun 2021 Jan 18;12(1):422. PMID: 33462236
  • Cao F, Cheng YS, Yu L, Xu YY et al. Bioinformatics Analysis of Differentially Expressed Genes and Protein-Protein Interaction Networks Associated with Functional Pathways in Ulcerative Colitis. Med Sci Monit 2021 Jan 19;27:e927917. PMID: 33462173
  • Chen PS, Hsu HP, Phan NN, Yen MC et al. CCDC167 as a potential therapeutic target and regulator of cell cycle-related networks in breast cancer. Aging (Albany NY) 2021 Jan 10;13(3):4157-4181. PMID: 33461170
  • Zhang B, Cui H, Sun Y, Wang X et al. Up-regulation of miR-204 inhibits proliferation, invasion and apoptosis of gallbladder cancer cells by targeting Notch2. Aging (Albany NY) 2021 Jan 13;13(2):2941-2958. PMID: 33460397
  • Shi M, Ma X, Yang Q, Wang W et al. miR-362-3p Targets Orosomucoid 1 to Promote Cell Proliferation, Restrain Cell Apoptosis and Thereby Mitigate Hypoxia/Reoxygenation-Induced Cardiomyocytes Injury. Cardiovasc Toxicol 2021 May;21(5):387-398. PMID: 33459949
  • Wang Z, Kun Y, Lei Z, Dawei W et al. LncRNA MIAT downregulates IL-1β, TNF-ɑ to suppress macrophage inflammation but is suppressed by ATP-induced NLRP3 inflammasome activation. Cell Cycle 2021 Jan;20(2):194-203. PMID: 33459112
  • Nashiry A, Sarmin Sumi S, Islam S, Quinn JMW et al. Bioinformatics and system biology approach to identify the influences of COVID-19 on cardiovascular and hypertensive comorbidities. Brief Bioinform 2021 Mar 22;22(2):1387-1401. PMID: 33458761
  • Xie SZ, Kaufmann KB, Wang W, Chan-Seng-Yue M et al. Sphingosine-1-phosphate receptor 3 potentiates inflammatory programs in normal and leukemia stem cells to promote differentiation. Blood Cancer Discov 2021 Jan 1;2(1):32-53. PMID: 33458693
  • Liu Y, Huang K, Wang Y, Hu E et al. Integration of SNP Disease Association, eQTL, and Enrichment Analyses to Identify Risk SNPs and Susceptibility Genes in Chronic Obstructive Pulmonary Disease. Biomed Res Int 2020;2020:3854196. PMID: 33457407
  • Huang W, Wu K, Wu R, Chen Z et al. Bioinformatic gene analysis for possible biomarkers and therapeutic targets of hypertension-related renal cell carcinoma. Transl Androl Urol 2020 Dec;9(6):2675-2687. PMID: 33457239
  • Chu G, Jiao W, Yang X, Liang Y et al. C3, C3AR1, HLA-DRA, and HLA-E as potential prognostic biomarkers for renal clear cell carcinoma. Transl Androl Urol 2020 Dec;9(6):2640-2656. PMID: 33457236
  • Cheng Y, Qi F, Li L, Qin Z et al. Autophagy-related genes are potential diagnostic and prognostic biomarkers in prostate cancer. Transl Androl Urol 2020 Dec;9(6):2616-2628. PMID: 33457234
  • Wu X, Lv D, Eftekhar M, Khan A et al. A new risk stratification system of prostate cancer to identify high-risk biochemical recurrence patients. Transl Androl Urol 2020 Dec;9(6):2572-2586. PMID: 33457230
  • Zhang C, Zhang Z, Sun N, Zhang Z et al. Identification of a costimulatory molecule-based signature for predicting prognosis risk and immunotherapy response in patients with lung adenocarcinoma. Oncoimmunology 2020 Sep 29;9(1):1824641. PMID: 33457102
  • Zhu Y, Lam AKY, Shum DKY, Cui D et al. Significance of serglycin and its binding partners in autocrine promotion of metastasis in esophageal cancer. Theranostics 2021;11(6):2722-2741. PMID: 33456569
  • Hu J, Mu H, Gao L, Pan Y et al. Diagnostic value of candidate noncoding RNAs in leukocytes of patients with gestational diabetes mellitus. Exp Ther Med 2021 Feb;21(2):145. PMID: 33456512
  • Yang C, Mei H, Peng L, Jiang F et al. Prognostic Correlation of an Autophagy-Related Gene Signature in Patients with Head and Neck Squamous Cell Carcinoma. Comput Math Methods Med 2020;2020:7397132. PMID: 33456497
  • Zhou J, Dong S, Shi C et al. Identification of key pathways and biomarkers in anaplastic thyroid cancer using an integrated analysis. J BUON 2020 Nov-Dec;25(6):2690-2699. PMID: 33455115
  • Liu D, Zhang J, Li L, Wang Q et al. Detection of critical genes associated with poor prognosis in breast cancer via integrated bioinformatics analyses. J BUON 2020 Nov-Dec;25(6):2537-2545. PMID: 33455094
  • Neal A, Nornes S, Louphrasitthiphol P, Sacilotto N et al. ETS factors are required but not sufficient for specific patterns of enhancer activity in different endothelial subtypes. Dev Biol 2021 May;473:1-14. PMID: 33453264
  • Yu H, Du Q, Campbell M, Yu B et al. Genome-wide discovery of natural variation in pre-mRNA splicing and prioritising causal alternative splicing to salt stress response in rice. New Phytol 2021 May;230(3):1273-1287. PMID: 33453070
  • Jindal A, Kumar M et al. Sequential combination therapies for HBeAg-positive chronic hepatitis B: the search continues. Hepatol Int 2021 Feb;15(1):1-3. PMID: 33453018
  • Lenk L, Carlet M, Vogiatzi F, Spory L et al. CD79a promotes CNS-infiltration and leukemia engraftment in pediatric B-cell precursor acute lymphoblastic leukemia. Commun Biol 2021 Jan 15;4(1):73. PMID: 33452446
  • Stirparo GG, Kurowski A, Yanagida A, Bates LE et al. OCT4 induces embryonic pluripotency via STAT3 signaling and metabolic mechanisms. Proc Natl Acad Sci U S A 2021 Jan 19;118(3). PMID: 33452132
  • Parida S, Siddharth S, Sharma D et al. Role of Omentin in Obesity Paradox in Lung Cancer. Cancers (Basel) 2021 Jan 13;13(2). PMID: 33450975
  • Wang MC, McCown PJ, Schiefelbein GE, Brown JA et al. Secondary Structural Model of MALAT1 Becomes Unstructured in Chronic Myeloid Leukemia and Undergoes Structural Rearrangement in Cervical Cancer. Noncoding RNA 2021 Jan 13;7(1). PMID: 33450947
  • Prajumwongs P, Phumphu R, Waenphimai O, Lert-Itthiporn W et al. High Monopolar Spindle 1 Is Associated with Short Survival of Cholangiocarcinoma Patients and Enhances the Progression Via AKT and STAT3 Signaling Pathways. Biomedicines 2021 Jan 13;9(1). PMID: 33450849
  • Liu WQ, Li WL, Ma SM, Liang L et al. Discovery of core gene families associated with liver metastasis in colorectal cancer and regulatory roles in tumor cell immune infiltration. Transl Oncol 2021 Mar;14(3):101011. PMID: 33450702
  • Neal ML, Wei L, Peterson E, Arrieta-Ortiz ML et al. A systems-level gene regulatory network model for Plasmodium falciparum. Nucleic Acids Res 2021 May 21;49(9):4891-4906. PMID: 33450011
  • Zhou J, Guo H, Liu L, Hao S et al. Construction of co-expression modules related to survival by WGCNA and identification of potential prognostic biomarkers in glioblastoma. J Cell Mol Med 2021 Feb;25(3):1633-1644. PMID: 33449451
  • Song D, Tian J, Han X, Li X et al. A model of seven immune checkpoint-related genes predicting overall survival for head and neck squamous cell carcinoma. Eur Arch Otorhinolaryngol 2021 Sep;278(9):3467-3477. PMID: 33449165
  • Li L, Fang J, Li Z, Shen L et al. [Master genes and co-expression network analysis in peripheral blood mononuclear cells of patients with gram-positive and gram-negative sepsis]. Zhejiang Da Xue Xue Bao Yi Xue Ban 2020 Dec 25;49(6):732-742. PMID: 33448176
  • Yang R, Zhou Y, Du C, Wu Y et al. Bioinformatics analysis of differentially expressed genes in tumor and paracancerous tissues of patients with lung adenocarcinoma. J Thorac Dis 2020 Dec;12(12):7355-7364. PMID: 33447425
  • Appunni S, Rubens M, Ramamoorthy V, Sharma H et al. Differentially Expressed Genes and Their Clinical Significance in Ischaemic Stroke: An In-Silico Study. Malays J Med Sci 2020 Dec;27(6):53-67. PMID: 33447134
  • Xue H, Sun Z, Wu W, Du D et al. Identification of Hub Genes as Potential Prognostic Biomarkers in Cervical Cancer Using Comprehensive Bioinformatics Analysis and Validation Studies. Cancer Manag Res 2021;13:117-131. PMID: 33447084
  • Wang J, Li Y, Xu B, Dong J et al. ALYREF Drives Cancer Cell Proliferation Through an ALYREF-MYC Positive Feedback Loop in Glioblastoma. Onco Targets Ther 2021;14:145-155. PMID: 33447056
  • Chen G, Xu L, Ye G, Lin J et al. Overexpression of a Long Non-Coding RNA BC037916 is Associated with Pancreatic Tumorigenesis and Poor Prognosis. Onco Targets Ther 2020;13:13451-13463. PMID: 33447050
  • Patrick E, Olah M, Taga M, Klein HU et al. A cortical immune network map identifies distinct microglial transcriptional programs associated with β-amyloid and Tau pathologies. Transl Psychiatry 2021 Jan 14;11(1):50. PMID: 33446646
  • De Smedt J, van Os EA, Talon I, Ghosh S et al. PU.1 drives specification of pluripotent stem cell-derived endothelial cells to LSEC-like cells. Cell Death Dis 2021 Jan 14;12(1):84. PMID: 33446637
  • Chia M, Li C, Marques S, Pelechano V et al. High-resolution analysis of cell-state transitions in yeast suggests widespread transcriptional tuning by alternative starts. Genome Biol 2021 Jan 14;22(1):34. PMID: 33446241
  • Saini H, Sharma H, Mukherjee S, Chowdhury S et al. Verteporfin disrupts multiple steps of autophagy and regulates p53 to sensitize osteosarcoma cells. Cancer Cell Int 2021 Jan 14;21(1):52. PMID: 33446200
  • Hou J, Ye X, Li C, Wang Y et al. K-Module Algorithm: An Additional Step to Improve the Clustering Results of WGCNA Co-Expression Networks. Genes (Basel) 2021 Jan 12;12(1). PMID: 33445666
  • Cheng Y, Meng Y, Li S, Cao D et al. Genetic variants in the cholesterol biosynthesis pathway genes and risk of prostate cancer. Gene 2021 Mar 30;774:145432. PMID: 33444688
  • Vahdat S, Bakhshandeh B et al. Prediction of putative small molecules for manipulation of enriched signalling pathways in hESC-derived early cardiovascular progenitors by bioinformatics analysis. IET Syst Biol 2019 Apr;13(2):77-83. PMID: 33444476
  • Malik S, Zafar Paracha R, Khalid M, Nisar M et al. MicroRNAs and their target mRNAs as potential biomarkers among smokers and non-smokers with lung adenocarcinoma. IET Syst Biol 2019 Apr;13(2):69-76. PMID: 33444474
  • Lin XD, Lin N, Lin TT, Wu YP et al. Identification of marker genes and cell subtypes in castration-resistant prostate cancer cells. J Cancer 2021;12(4):1249-1257. PMID: 33442423
  • Yuan X, Yi M, Dong B, Chu Q et al. Prognostic significance of KRT19 in Lung Squamous Cancer. J Cancer 2021;12(4):1240-1248. PMID: 33442422
  • Zhang L, Chen J, Yang H, Pan C et al. Multiple microarray analyses identify key genes associated with the development of Non-Small Cell Lung Cancer from Chronic Obstructive Pulmonary Disease. J Cancer 2021;12(4):996-1010. PMID: 33442399
  • Dai HQ, Hu H, Lou J, Ye AY et al. Loop extrusion mediates physiological Igh locus contraction for RAG scanning. Nature 2021 Feb;590(7845):338-343. PMID: 33442057
  • Srivastava M, Srivastava R, Janga SC et al. Transcriptome-wide high-throughput mapping of protein-RNA occupancy profiles using POP-seq. Sci Rep 2021 Jan 13;11(1):1175. PMID: 33441968
  • Wu CL, Dicks A, Steward N, Tang R et al. Single cell transcriptomic analysis of human pluripotent stem cell chondrogenesis. Nat Commun 2021 Jan 13;12(1):362. PMID: 33441552
  • Aschenbrenner AC, Mouktaroudi M, Krämer B, Oestreich M et al. Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients. Genome Med 2021 Jan 13;13(1):7. PMID: 33441124
  • Sun L, Lin Y, Wang G, Zhang L et al. Correlation of zinc finger protein 2, a prognostic biomarker, with immune infiltrates in liver cancer. Biosci Rep 2021 Jan 29;41(1). PMID: 33439969
  • Novačić A, Beauvais V, Oskomić M, Štrbac L et al. Yeast RNA exosome activity is necessary for maintaining cell wall stability through proper protein glycosylation. Mol Biol Cell 2021 Mar 1;32(5):363-375. PMID: 33439673
  • Dilshat R, Fock V, Kenny C, Gerritsen I et al. MITF reprograms the extracellular matrix and focal adhesion in melanoma. Elife 2021 Jan 13;10. PMID: 33438577
  • Bland T, Wang J, Yin L, Pu T et al. WLS-Wnt signaling promotes neuroendocrine prostate cancer. iScience 2021 Jan 22;24(1):101970. PMID: 33437943
  • Zhang L, Zhang M, Chen X, He Y et al. Identification of the tubulointerstitial infiltrating immune cell landscape and immune marker related molecular patterns in lupus nephritis using bioinformatics analysis. Ann Transl Med 2020 Dec;8(23):1596. PMID: 33437795
  • Huang YJ, Lu TP, Hsiao CK et al. Application of graphical lasso in estimating network structure in gene set. Ann Transl Med 2020 Dec;8(23):1556. PMID: 33437755
  • Yang C, Gong A et al. Integrated bioinformatics analysis for differentially expressed genes and signaling pathways identification in gastric cancer. Int J Med Sci 2021;18(3):792-800. PMID: 33437215
  • Bediaga NG, Coughlan HD, Johanson TM, Garnham AL et al. Multi-level remodelling of chromatin underlying activation of human T cells. Sci Rep 2021 Jan 12;11(1):528. PMID: 33436846
  • Kim JH, Matsubara T, Lee J, Fenollar-Ferrer C et al. Lysosomal SLC46A3 modulates hepatic cytosolic copper homeostasis. Nat Commun 2021 Jan 12;12(1):290. PMID: 33436590
  • Park JC, Jang SY, Lee D, Lee J et al. A logical network-based drug-screening platform for Alzheimer's disease representing pathological features of human brain organoids. Nat Commun 2021 Jan 12;12(1):280. PMID: 33436582
  • Ishiguro K, Kitajima H, Niinuma T, Maruyama R et al. Dual EZH2 and G9a inhibition suppresses multiple myeloma cell proliferation by regulating the interferon signal and IRF4-MYC axis. Cell Death Discov 2021 Jan 12;7(1):7. PMID: 33436557
  • Ha KCH, Sterne-Weiler T, Morris Q, Weatheritt RJ et al. Differential contribution of transcriptomic regulatory layers in the definition of neuronal identity. Nat Commun 2021 Jan 12;12(1):335. PMID: 33436550
  • Ricker CA, Woods AD, Simonson W, Lathara M et al. Refractory alveolar rhabdomyosarcoma in an 11-year-old male. Cold Spring Harb Mol Case Stud 2021 Feb;7(1). PMID: 33436392
  • Oommen A, Cunningham S, Joshi L et al. Transcriptomic Analysis of Respiratory Tissue and Cell Line Models to Examine Glycosylation Machinery during SARS-CoV-2 Infection. Viruses 2021 Jan 8;13(1). PMID: 33435561
  • Lee H, Kim WJ, Kang HG, Jang JH et al. Upregulation of LAMB1 via ERK/c-Jun Axis Promotes Gastric Cancer Growth and Motility. Int J Mol Sci 2021 Jan 10;22(2). PMID: 33435161
  • Han M, Yan H, Yang K, Fan B et al. Identification of biomarkers and construction of a microRNA‑mRNA regulatory network for clear cell renal cell carcinoma using integrated bioinformatics analysis. PLoS One 2021;16(1):e0244394. PMID: 33434215
  • Liu B, Zheng X, Li J, Li X et al. Revealing mechanism of Caulis Sargentodoxae for the treatment of ulcerative colitis based on network pharmacology approach. Biosci Rep 2021 Jan 29;41(1). PMID: 33432986
  • Cipriano A, Macino M, Buonaiuto G, Santini T et al. Epigenetic regulation of Wnt7b expression by the cis-acting long noncoding RNA Lnc-Rewind in muscle stem cells. Elife 2021 Jan 12;10. PMID: 33432928
  • Chen L, Lu Y, Wu CT, Clarke R et al. Data-driven detection of subtype-specific differentially expressed genes. Sci Rep 2021 Jan 11;11(1):332. PMID: 33432005
  • Martin BJE, Brind'Amour J, Kuzmin A, Jensen KN et al. Transcription shapes genome-wide histone acetylation patterns. Nat Commun 2021 Jan 11;12(1):210. PMID: 33431884
  • Liu J, Chen N et al. A 9 mRNAs-based diagnostic signature for rheumatoid arthritis by integrating bioinformatic analysis and machine-learning. J Orthop Surg Res 2021 Jan 11;16(1):44. PMID: 33430905
  • Lyu S, Chen G, Pan D, Chen J et al. Molecular Analysis of 14-3-3 Genes in Citrus sinensis and Their Responses to Different Stresses. Int J Mol Sci 2021 Jan 8;22(2). PMID: 33430069
  • Li C, Zheng Z et al. Cartilage Targets of Knee Osteoarthritis Shared by Both Genders. Int J Mol Sci 2021 Jan 8;22(2). PMID: 33430025
  • Wang Q, Shakoor N, Boyher A, Veley KM et al. Escalation in the host-pathogen arms race: A host resistance response corresponds to a heightened bacterial virulence response. PLoS Pathog 2021 Jan;17(1):e1009175. PMID: 33428681
  • Soneson C, Srivastava A, Patro R, Stadler MB et al. Preprocessing choices affect RNA velocity results for droplet scRNA-seq data. PLoS Comput Biol 2021 Jan;17(1):e1008585. PMID: 33428615
  • Zeng Y, Zeng Y, Yin H, Chen F et al. Exploration of the immune cell infiltration-related gene signature in the prognosis of melanoma. Aging (Albany NY) 2021 Jan 10;13(3):3459-3482. PMID: 33428606
  • Zhang T, Yang H, Sun B, Yao F et al. Four hub genes regulate tumor infiltration by immune cells, antitumor immunity in the tumor microenvironment, and survival outcomes in lung squamous cell carcinoma patients. Aging (Albany NY) 2021 Jan 10;13(3):3819-3842. PMID: 33428598
  • Houshmandyar S, Eggleston IM, Bolhuis A et al. Biofilm-specific uptake of a 4-pyridone-based iron chelator by Pseudomonas aeruginosa. Biometals 2021 Apr;34(2):315-328. PMID: 33428087
  • Xie Q, Brbic M, Horns F, Kolluru SS et al. Temporal evolution of single-cell transcriptomes of Drosophila olfactory projection neurons. Elife 2021 Jan 11;10. PMID: 33427646
  • Yuan C, Yuan H, Chen L, Sheng M et al. A novel three-long noncoding RNA risk score system for the prognostic prediction of triple-negative breast cancer. Biomark Med 2021 Jan;15(1):43-55. PMID: 33427499
  • Liang B, Xiang Y, Zhang X, Wang C et al. Systematic Pharmacology and GEO Database Mining Revealed the Therapeutic Mechanism of Xuefu Zhuyu Decoration for Atherosclerosis Cardiovascular Disease. Front Cardiovasc Med 2020;7:592201. PMID: 33425996
  • Yin J, Kasper B, Petersen F, Yu X et al. Association of Cigarette Smoking, COPD, and Lung Cancer With Expression of SARS-CoV-2 Entry Genes in Human Airway Epithelial Cells. Front Med (Lausanne) 2020;7:619453. PMID: 33425965
  • Park SR, Kim SR, Hong IS, Lee HY et al. A Novel Therapeutic Approach for Colorectal Cancer Stem Cells: Blocking the PI3K/Akt Signaling Axis With Caffeic Acid. Front Cell Dev Biol 2020;8:585987. PMID: 33425893
  • Zi J, Han Q, Gu S, McGrath M et al. Targeting NAT10 Induces Apoptosis Associated With Enhancing Endoplasmic Reticulum Stress in Acute Myeloid Leukemia Cells. Front Oncol 2020;10:598107. PMID: 33425753
  • Zhang R, Li T, Wang W, Gan W et al. Indoleamine 2, 3-Dioxygenase 1 and CD8 Expression Profiling Revealed an Immunological Subtype of Colon Cancer With a Poor Prognosis. Front Oncol 2020;10:594098. PMID: 33425745
  • Zhou Q, Yan X, Liu W, Yin W et al. Three Immune-Associated Subtypes of Diffuse Glioma Differ in Immune Infiltration, Immune Checkpoint Molecules, and Prognosis. Front Oncol 2020;10:586019. PMID: 33425739
  • Arora M, Kumari S, Singh J, Chopra A et al. Downregulation of Brain Enriched Type 2 MAGEs Is Associated With Immune Infiltration and Poor Prognosis in Glioma. Front Oncol 2020;10:573378. PMID: 33425727
  • Wu X, Yao Y, Li Z, Ge H et al. Identification of a Transcriptional Prognostic Signature From Five Metabolic Pathways in Oral Squamous Cell Carcinoma. Front Oncol 2020;10:572919. PMID: 33425725
  • Jain R, Ramaswamy S, Harilal D, Uddin M et al. Host transcriptomic profiling of COVID-19 patients with mild, moderate, and severe clinical outcomes. Comput Struct Biotechnol J 2021;19:153-160. PMID: 33425248
  • Ou-Yang S, Liu JH, Wang QZ et al. Upregulation of RAC3 in bladder cancer predicts adverse clinical outcome and increased tumor immune response. Int J Clin Exp Pathol 2020;13(12):2937-2949. PMID: 33425095
  • Samarina LS, Bobrovskikh AV, Doroshkov AV, Malyukova LS et al. Comparative Expression Analysis of Stress-Inducible Candidate Genes in Response to Cold and Drought in Tea Plant [Camellia sinensis (L.) Kuntze]. Front Genet 2020;11:611283. PMID: 33424935
  • Li S, Wang L, Zhao Q, Wang Z et al. Genome-Wide Analysis of Cell-Free DNA Methylation Profiling for the Early Diagnosis of Pancreatic Cancer. Front Genet 2020;11:596078. PMID: 33424927
  • Liu X, Yin M, Liu X, Da J et al. Analysis of Hub Genes Involved in Distinction Between Aged and Fetal Bone Marrow Mesenchymal Stem Cells by Robust Rank Aggregation and Multiple Functional Annotation Methods. Front Genet 2020;11:573877. PMID: 33424919
  • Mou Z, Yang C, Zhang Z, Wu S et al. Transcriptomic Analysis of Glycolysis-Related Genes Reveals an Independent Signature of Bladder Carcinoma. Front Genet 2020;11:566918. PMID: 33424916
  • Gho YS, Choi H, Moon S, Song MY et al. Phosphate-Starvation-Inducible S-Like RNase Genes in Rice Are Involved in Phosphate Source Recycling by RNA Decay. Front Plant Sci 2020;11:585561. PMID: 33424882
  • Fujii T, Murata K, Mun SH, Bae S et al. MEF2C regulates osteoclastogenesis and pathologic bone resorption via c-FOS. Bone Res 2021 Jan 11;9(1):4. PMID: 33424022
  • Wang X, Yan X, Li S, Jing Y et al. Genome-wide identification, evolution and expression analysis of the aspartic protease gene family during rapid growth of moso bamboo (Phyllostachys edulis) shoots. BMC Genomics 2021 Jan 10;22(1):45. PMID: 33423665
  • Li S, Liu W, Chen Y, Wang L et al. Transcriptome analysis of cepharanthine against a SARS-CoV-2-related coronavirus. Brief Bioinform 2021 Mar 22;22(2):1378-1386. PMID: 33423067
  • Uddin MN, Akter R, Li M, Abdelrahman Z et al. Expression of SARS-COV-2 cell receptor gene ACE2 is associated with immunosuppression and metabolic reprogramming in lung adenocarcinoma based on bioinformatics analyses of gene expression profiles. Chem Biol Interact 2021 Feb 1;335:109370. PMID: 33422520
  • Sun C, Zhang K, Yue J, Meng S et al. Deconstructing transcriptional variations and their effects on immunomodulatory function among human mesenchymal stromal cells. Stem Cell Res Ther 2021 Jan 9;12(1):53. PMID: 33422149
  • Mahla RS, Kumar A, Tutill HJ, Krishnaji ST et al. NIX-mediated mitophagy regulate metabolic reprogramming in phagocytic cells during mycobacterial infection. Tuberculosis (Edinb) 2021 Jan;126:102046. PMID: 33421909
  • Zheng L, Chen W, Xian G, Pan B et al. Identification of abnormally methylated-differentially expressed genes and pathways in osteoarthritis: a comprehensive bioinformatic study. Clin Rheumatol 2021 Aug;40(8):3247-3256. PMID: 33420869
  • Kurosaki T, Imamachi N, Pröschel C, Mitsutomi S et al. Loss of the fragile X syndrome protein FMRP results in misregulation of nonsense-mediated mRNA decay. Nat Cell Biol 2021 Jan;23(1):40-48. PMID: 33420492
  • Harland LTG, Simon CS, Senft AD, Costello I et al. The T-box transcription factor Eomesodermin governs haemogenic competence of yolk sac mesodermal progenitors. Nat Cell Biol 2021 Jan;23(1):61-74. PMID: 33420489
  • Varešlija D, Ward E, Purcell SP, Cosgrove NS et al. Comparative analysis of the AIB1 interactome in breast cancer reveals MTA2 as a repressive partner which silences E-Cadherin to promote EMT and associates with a pro-metastatic phenotype. Oncogene 2021 Feb;40(7):1318-1331. PMID: 33420368
  • Miller BF, Petrykowska HM, Elnitski L et al. Assessing ZNF154 methylation in patient plasma as a multicancer marker in liquid biopsies from colon, liver, ovarian and pancreatic cancer patients. Sci Rep 2021 Jan 8;11(1):221. PMID: 33420235
  • Griffith BGC, Upstill-Goddard R, Brunton H, Grimes GR et al. FAK regulates IL-33 expression by controlling chromatin accessibility at c-Jun motifs. Sci Rep 2021 Jan 8;11(1):229. PMID: 33420223
  • Noureen N, Wu S, Lv Y, Yang J et al. Integrated analysis of telomerase enzymatic activity unravels an association with cancer stemness and proliferation. Nat Commun 2021 Jan 8;12(1):139. PMID: 33420056
  • Wang X, Hu LP, Qin WT, Yang Q et al. Identification of a subset of immunosuppressive P2RX1-negative neutrophils in pancreatic cancer liver metastasis. Nat Commun 2021 Jan 8;12(1):174. PMID: 33420030
  • Pomella S, Sreenivas P, Gryder BE, Wang L et al. Interaction between SNAI2 and MYOD enhances oncogenesis and suppresses differentiation in Fusion Negative Rhabdomyosarcoma. Nat Commun 2021 Jan 8;12(1):192. PMID: 33420019
  • Jia J, Xie Y, Cheng J, Kong C et al. Homology-mediated inter-chromosomal interactions in hexaploid wheat lead to specific subgenome territories following polyploidization and introgression. Genome Biol 2021 Jan 8;22(1):26. PMID: 33419466
  • Li L, Ni YA, Song Z, Yi Z et al. Identification of pathogenic genes and transcription factors in respiratory syncytial virus. BMC Pediatr 2021 Jan 8;21(1):27. PMID: 33419394
  • Yang R, Liang X, Wang H, Guo M et al. The RNA methyltransferase NSUN6 suppresses pancreatic cancer development by regulating cell proliferation. EBioMedicine 2021 Jan;63:103195. PMID: 33418496
  • Zhang H, Wang Y, Yang H, Huang Z et al. TCF7 knockdown inhibits the imatinib resistance of chronic myeloid leukemia K562/G01 cells by neutralizing the Wnt/β‑catenin/TCF7/ABC transporter signaling axis. Oncol Rep 2021 Feb;45(2):557-568. PMID: 33416164
  • Wang J, Chen J, Qiu D, Zeng Z et al. Regulatory role of DEPTOR‑mediated cellular autophagy and mitochondrial reactive oxygen species in angiogenesis in multiple myeloma. Int J Mol Med 2021 Feb;47(2):643-658. PMID: 33416146
  • Pan B, Huo T, Cao M, Jing L et al. ADAM10 promotes the proliferation of ligamentum flavum cells by activating the PI3K/AKT pathway. Int J Mol Med 2021 Feb;47(2):688-698. PMID: 33416124
  • Choudhary S, Anand R, Pradhan D, Bastia B et al. Transcriptomic landscaping of core genes and pathways of mild and severe psoriasis vulgaris. Int J Mol Med 2021 Jan;47(1):219-231. PMID: 33416099
  • Zhang X, Yang F, Wang Z et al. Tumor microenvironment characterization in stage IV gastric cancer. Biosci Rep 2021 Jan 29;41(1). PMID: 33416081
  • Habekost M, Qvist P, Denham M, Holm IE et al. Directly Reprogrammed Neurons Express MAPT and APP Splice Variants Pertinent to Ageing and Neurodegeneration. Mol Neurobiol 2021 May;58(5):2075-2087. PMID: 33415685
  • Wang L, Zhi Y, Ye Y, Zhang M et al. Identify Molecular Mechanisms of Jiangzhi Decoction on Nonalcoholic Fatty Liver Disease by Network Pharmacology Analysis and Experimental Validation. Biomed Res Int 2020;2020:8829346. PMID: 33415161
  • Behroozi J, Shahbazi S, Bakhtiarizadeh MR, Mahmoodzadeh H et al. Genome-Wide Characterization of RNA Editing Sites in Primary Gastric Adenocarcinoma through RNA-seq Data Analysis. Int J Genomics 2020;2020:6493963. PMID: 33415135
  • Moon YPublic Database-Driven Insights Into Aging Stress-Associated Defective Gut Barrier With Low SARS-CoV-2 Receptors. Front Med (Lausanne) 2020;7:606991. PMID: 33415119
  • Bai Q, Liu H, Guo H, Lin H et al. Identification of Hub Genes Associated With Development and Microenvironment of Hepatocellular Carcinoma by Weighted Gene Co-expression Network Analysis and Differential Gene Expression Analysis. Front Genet 2020;11:615308. PMID: 33414813
  • Chang L, Bian Z, Xiong X, Liu J et al. Long Non-coding RNA LINC00320 Inhibits Tumorigenicity of Glioma Cells and Angiogenesis Through Downregulation of NFKB1-Mediated AQP9. Front Cell Neurosci 2020;14:542552. PMID: 33414706
  • Kim TH, Yang K, Kim M, Kim HS et al. Apoptosis inhibitor of macrophage (AIM) contributes to IL-10-induced anti-inflammatory response through inhibition of inflammasome activation. Cell Death Dis 2021 Jan 4;12(1):19. PMID: 33414479
  • Li Q, Wang J, Islam H, Kirschning C et al. Hepatitis B virus particles activate B cells through the TLR2-MyD88-mTOR axis. Cell Death Dis 2021 Jan 4;12(1):34. PMID: 33414473
  • Cao Z, Shi X, Tian F, Fang Y et al. KDM6B is an androgen regulated gene and plays oncogenic roles by demethylating H3K27me3 at cyclin D1 promoter in prostate cancer. Cell Death Dis 2021 Jan 6;12(1):2. PMID: 33414463
  • Xiong M, Wu M, Dan Peng, Huang W et al. LncRNA DANCR represses Doxorubicin-induced apoptosis through stabilizing MALAT1 expression in colorectal cancer cells. Cell Death Dis 2021 Jan 6;12(1):24. PMID: 33414433
  • Padella A, Fontana MC, Marconi G, Fonzi E et al. Loss of PALB2 predicts poor prognosis in acute myeloid leukemia and suggests novel therapeutic strategies targeting the DNA repair pathway. Blood Cancer J 2021 Jan 7;11(1):7. PMID: 33414401
  • Zhang F, Zhong SR, Yang SM, Wei YT et al. Identification of Potential Therapeutic Targets of Alzheimer's Disease By Weighted Gene Co-Expression Network Analysis. Chin Med Sci J 2020 Dec 31;35(4):330-341. PMID: 33413749
  • Wang L, Li H, Lin J, He R et al. CCR2 improves homing and engraftment of adipose-derived stem cells in dystrophic mice. Stem Cell Res Ther 2021 Jan 7;12(1):12. PMID: 33413615
  • Chen Z, Wang H, Zhang Z, Xu J et al. Cell surface GRP78 regulates BACE2 via lysosome-dependent manner to maintain mesenchymal phenotype of glioma stem cells. J Exp Clin Cancer Res 2021 Jan 7;40(1):20. PMID: 33413577
  • Srivastava D, Aydin B, Mazzoni EO, Mahony S et al. An interpretable bimodal neural network characterizes the sequence and preexisting chromatin predictors of induced transcription factor binding. Genome Biol 2021 Jan 7;22(1):20. PMID: 33413545
  • Zhou Y, Hu L, Tang W, Li D et al. Hepatic NOD2 promotes hepatocarcinogenesis via a RIP2-mediated proinflammatory response and a novel nuclear autophagy-mediated DNA damage mechanism. J Hematol Oncol 2021 Jan 7;14(1):9. PMID: 33413510
  • Islam ABMMK, Khan MA, Ahmed R, Hossain MS et al. Transcriptome of nasopharyngeal samples from COVID-19 patients and a comparative analysis with other SARS-CoV-2 infection models reveal disparate host responses against SARS-CoV-2. J Transl Med 2021 Jan 7;19(1):32. PMID: 33413422
  • Xu W, Zhang M, Li Y, Wang Y et al. YAP manipulates proliferation via PTEN/AKT/mTOR-mediated autophagy in lung adenocarcinomas. Cancer Cell Int 2021 Jan 7;21(1):30. PMID: 33413409
  • Rey S, Jin X, Damsgård B, Bégout ML et al. Analysis across diverse fish species highlights no conserved transcriptome signature for proactive behaviour. BMC Genomics 2021 Jan 7;22(1):33. PMID: 33413108
  • Zhou N, Bao J, Ning Y et al. H2V: a database of human genes and proteins that respond to SARS-CoV-2, SARS-CoV, and MERS-CoV infection. BMC Bioinformatics 2021 Jan 7;22(1):18. PMID: 33413085
  • Nilo-Poyanco R, Moraga C, Benedetto G, Orellana A et al. Shotgun proteomics of peach fruit reveals major metabolic pathways associated to ripening. BMC Genomics 2021 Jan 6;22(1):17. PMID: 33413072
  • Li X, Zhou C, Chen K, Huang B et al. Benchmarking HLA genotyping and clarifying HLA impact on survival in tumor immunotherapy. Mol Oncol 2021 Jul;15(7):1764-1782. PMID: 33411982
  • Lago S, Nadai M, Ruggiero E, Tassinari M et al. The MDM2 inducible promoter folds into four-tetrad antiparallel G-quadruplexes targetable to fight malignant liposarcoma. Nucleic Acids Res 2021 Jan 25;49(2):847-863. PMID: 33410915
  • Yang Q, Lyu X, Zhao F, Liu Y et al. Effects of codon usage on gene expression are promoter context dependent. Nucleic Acids Res 2021 Jan 25;49(2):818-831. PMID: 33410890
  • Aslam MA, Alemdehy MF, Kwesi-Maliepaard EM, Muhaimin FI et al. Histone methyltransferase DOT1L controls state-specific identity during B cell differentiation. EMBO Rep 2021 Feb 3;22(2):e51184. PMID: 33410591
  • Zavidij O, Haradhvala NJ, Mouhieddine TH, Sklavenitis-Pistofidis R et al. Single-cell RNA sequencing reveals compromised immune microenvironment in precursor stages of multiple myeloma. Nat Cancer 2020 May;1(5):493-506. PMID: 33409501
  • Kim S, Abernathy BE, Trudo SP, Gallaher DD et al. Colon Cancer Risk of a Westernized Diet Is Reduced in Mice by Feeding Cruciferous or Apiaceous Vegetables at a Lower Dose of Carcinogen but Not a Higher Dose. J Cancer Prev 2020 Dec 30;25(4):223-233. PMID: 33409255
  • Yang Y, Shen P, Yao T, Ma J et al. Novel role of circRSU1 in the progression of osteoarthritis by adjusting oxidative stress. Theranostics 2021;11(4):1877-1900. PMID: 33408787
  • Pan CW, Wen S, Chen L, Wei Y et al. Functional roles of antisense enhancer RNA for promoting prostate cancer progression. Theranostics 2021;11(4):1780-1794. PMID: 33408781
  • Liu C, Li X, Shao H, Li D et al. Identification and Validation of Two Lung Adenocarcinoma-Development Characteristic Gene Sets for Diagnosing Lung Adenocarcinoma and Predicting Prognosis. Front Genet 2020;11:565206. PMID: 33408736
  • Tan YQ, Li YT, Yan TF, Xu Y et al. Six Immune Associated Genes Construct Prognostic Model Evaluate Low-Grade Glioma. Front Immunol 2020;11:606164. PMID: 33408717
  • Peng R, Wang Y, Mao L, Fang F et al. Identification of Core Genes Involved in the Metastasis of Clear Cell Renal Cell Carcinoma. Cancer Manag Res 2020;12:13437-13449. PMID: 33408516
  • Mills LJ, Spector LG, Largaespada DA, Williams LA et al. Sex differences in expression of immune elements emerge in children, young adults and mice with osteosarcoma. Biol Sex Differ 2021 Jan 6;12(1):5. PMID: 33407928
  • Zhao Y, Sun H, Zheng J, Shao C et al. Identification of predictors based on drug targets highlights accurate treatment of goserelin in breast and prostate cancer. Cell Biosci 2021 Jan 6;11(1):5. PMID: 33407865
  • Berg JL, Perfler B, Hatzl S, Mayer MC et al. Micro-RNA-125a mediates the effects of hypomethylating agents in chronic myelomonocytic leukemia. Clin Epigenetics 2021 Jan 6;13(1):1. PMID: 33407852
  • Zhang X, Shao X, Zhang R, Zhu R et al. Integrated analysis reveals the alterations that LMNA interacts with euchromatin in LMNA mutation-associated dilated cardiomyopathy. Clin Epigenetics 2021 Jan 6;13(1):3. PMID: 33407844
  • Yang XM, Song YQ, Li L, Liu DM et al. miR-1249-5p regulates the osteogenic differentiation of ADSCs by targeting PDX1. J Orthop Surg Res 2021 Jan 6;16(1):10. PMID: 33407691
  • Cheng Q, Chen X, Wu H, Du Y et al. Three hematologic/immune system-specific expressed genes are considered as the potential biomarkers for the diagnosis of early rheumatoid arthritis through bioinformatics analysis. J Transl Med 2021 Jan 6;19(1):18. PMID: 33407587
  • Gu X, Guan J, Xu J, Zheng Q et al. Model based on five tumour immune microenvironment-related genes for predicting hepatocellular carcinoma immunotherapy outcomes. J Transl Med 2021 Jan 6;19(1):26. PMID: 33407546
  • Li L, Song S, Fang X, Cao D et al. Role of ATF3 as a prognostic biomarker and correlation of ATF3 expression with macrophage infiltration in hepatocellular carcinoma. BMC Med Genomics 2021 Jan 6;14(1):8. PMID: 33407456
  • Kampers LFC, Koehorst JJ, van Heck RJA, Suarez-Diez M et al. A metabolic and physiological design study of Pseudomonas putida KT2440 capable of anaerobic respiration. BMC Microbiol 2021 Jan 6;21(1):9. PMID: 33407113
  • Jeong J, Park S, Im JH, Yi H et al. Genome-wide identification of GH3 genes in Brassica oleracea and identification of a promoter region for anther-specific expression of a GH3 gene. BMC Genomics 2021 Jan 6;22(1):22. PMID: 33407107
  • Tan X, Liu R, Zhang Y, Wang X et al. Integrated analysis of the methylome and transcriptome of chickens with fatty liver hemorrhagic syndrome. BMC Genomics 2021 Jan 6;22(1):8. PMID: 33407101
  • Moulos Precoup: flexible and versatile signal visualization from next generation sequencing. BMC Bioinformatics 2021 Jan 6;22(1):2. PMID: 33407065
  • Tsubaki M, Takeda T, Matsuda T, Seki S et al. Activation of Serum/Glucocorticoid Regulated Kinase 1/Nuclear Factor-κB Pathway Are Correlated with Low Sensitivity to Bortezomib and Ixazomib in Resistant Multiple Myeloma Cells. Biomedicines 2021 Jan 4;9(1). PMID: 33406639
  • Rahman MH, Rana HK, Peng S, Hu X et al. Bioinformatics and machine learning methodologies to identify the effects of central nervous system disorders on glioblastoma progression. Brief Bioinform 2021 Sep 2;22(5). PMID: 33406529
  • Wang SS, Yan CS, Luo JM et al. NLRC4 gene silencing-dependent blockade of NOD-like receptor pathway inhibits inflammation, reduces proliferation and increases apoptosis of dendritic cells in mice with septic shock. Aging (Albany NY) 2021 Jan 6;13(1):1440-1457. PMID: 33406504
  • Fawkner-Corbett D, Antanaviciute A, Parikh K, Jagielowicz M et al. Spatiotemporal analysis of human intestinal development at single-cell resolution. Cell 2021 Feb 4;184(3):810-826.e23. PMID: 33406409
  • Pantier R, Chhatbar K, Quante T, Skourti-Stathaki K et al. SALL4 controls cell fate in response to DNA base composition. Mol Cell 2021 Feb 18;81(4):845-858.e8. PMID: 33406384
  • Zheng L, Li L, Xie J, Jin H et al. Six Novel Biomarkers for Diagnosis and Prognosis of Esophageal squamous cell carcinoma: validated by scRNA-seq and qPCR. J Cancer 2021;12(3):899-911. PMID: 33403046
  • Hong Z, Wang Q, Hong C, Liu M et al. Identification of Seven Cell Cycle-Related Genes with Unfavorable Prognosis and Construction of their TF-miRNA-mRNA regulatory network in Breast Cancer. J Cancer 2021;12(3):740-753. PMID: 33403032
  • Zhang Y, Hao S, Gao Y, Sun W et al. Decoding Immune Heterogeneity of Melanoma and identifying immune-prognostic hub genes. J Cancer 2021;12(3):703-716. PMID: 33403028
  • Qiu S, Li D, Shen Z, Li Q et al. Diagnostic and prognostic value of FOXD1 expression in head and neck squamous cell carcinoma. J Cancer 2021;12(3):693-702. PMID: 33403027
  • Chen HW, Chiu YL, Hsieh TY, Chen PJ et al. Relationships Between Vitamin D Status and Cytokine: Results from Interferon-Based Therapy in Non-Cirrhotic, Treatment-Naïve Patients with Chronic Hepatitis C Infection. J Inflamm Res 2020;13:1207-1218. PMID: 33402842
  • Chen H, Wang X, Jia H, Tao Y et al. Bioinformatics Analysis of Key Genes and Pathways of Cervical Cancer. Onco Targets Ther 2020;13:13275-13283. PMID: 33402836
  • Xu Y, Liang C, Cai X, Zhang M et al. High Centromere Protein-A (CENP-A) Expression Correlates with Progression and Prognosis in Gastric Cancer. Onco Targets Ther 2020;13:13237-13246. PMID: 33402833
  • Lechner M, Schartinger VH, Steele CD, Nei WL et al. Somatostatin receptor 2 expression in nasopharyngeal cancer is induced by Epstein Barr virus infection: impact on prognosis, imaging and therapy. Nat Commun 2021 Jan 5;12(1):117. PMID: 33402692
  • Zhao T, Chen YM, Li Y, Wang J et al. Disome-seq reveals widespread ribosome collisions that promote cotranslational protein folding. Genome Biol 2021 Jan 5;22(1):16. PMID: 33402206
  • Planterose Jiménez B, Liu F, Caliebe A, Montiel González D et al. Equivalent DNA methylation variation between monozygotic co-twins and unrelated individuals reveals universal epigenetic inter-individual dissimilarity. Genome Biol 2021 Jan 5;22(1):18. PMID: 33402197
  • Mou Y, Wu J, Zhang Y, Abdihamid O et al. Low expression of ferritinophagy-related NCOA4 gene in relation to unfavorable outcome and defective immune cells infiltration in clear cell renal carcinoma. BMC Cancer 2021 Jan 5;21(1):18. PMID: 33402128
  • Wang W, Wang L, Xie X, Yan Y et al. A gene-based risk score model for predicting recurrence-free survival in patients with hepatocellular carcinoma. BMC Cancer 2021 Jan 5;21(1):6. PMID: 33402113
  • Lin X, Li J, Tan R, Zhong X et al. Identification of Hub Genes Associated with the Development of Acute Kidney Injury by Weighted Gene Co-Expression Network Analysis. Kidney Blood Press Res 2021;46(1):63-73. PMID: 33401265
  • Tian Y, Yang J, Lan M, Zou T et al. Construction and analysis of a joint diagnosis model of random forest and artificial neural network for heart failure. Aging (Albany NY) 2020 Dec 26;12(24):26221-26235. PMID: 33401250
  • Song Y, Tang W, Li H et al. Identification of KIF4A and its effect on the progression of lung adenocarcinoma based on the bioinformatics analysis. Biosci Rep 2021 Jan 29;41(1). PMID: 33398330
  • Chen WY, Wen YC, Lin SR, Yeh HL et al. Nerve growth factor interacts with CHRM4 and promotes neuroendocrine differentiation of prostate cancer and castration resistance. Commun Biol 2021 Jan 4;4(1):22. PMID: 33398073
  • Que L, Lukacsovich D, Luo W, Földy C et al. Transcriptional and morphological profiling of parvalbumin interneuron subpopulations in the mouse hippocampus. Nat Commun 2021 Jan 4;12(1):108. PMID: 33398060
  • Anirudhan A, Prabu P, Sanyal J, Banerjee TK et al. Interdependence of metals and its binding proteins in Parkinson's disease for diagnosis. NPJ Parkinsons Dis 2021 Jan 4;7(1):3. PMID: 33398051
  • Løkkegaard S, Elias D, Alves CL, Bennetzen MV et al. MCM3 upregulation confers endocrine resistance in breast cancer and is a predictive marker of diminished tamoxifen benefit. NPJ Breast Cancer 2021 Jan 4;7(1):2. PMID: 33398005
  • Yu T, Fan K, Özata DM, Zhang G et al. Long first exons and epigenetic marks distinguish conserved pachytene piRNA clusters from other mammalian genes. Nat Commun 2021 Jan 4;12(1):73. PMID: 33397987
  • Ulianov SV, Zakharova VV, Galitsyna AA, Kos PI et al. Order and stochasticity in the folding of individual Drosophila genomes. Nat Commun 2021 Jan 4;12(1):41. PMID: 33397980
  • Chow RD, Majety M, Chen S et al. The aging transcriptome and cellular landscape of the human lung in relation to SARS-CoV-2. Nat Commun 2021 Jan 4;12(1):4. PMID: 33397975
  • Kim SH, Yang S, Lim KH, Ko E et al. Prediction of Alzheimer's disease-specific phospholipase c gamma-1 SNV by deep learning-based approach for high-throughput screening. Proc Natl Acad Sci U S A 2021 Jan 19;118(3). PMID: 33397809
  • Kellaway SG, Keane P, Edginton-White B, Regha K et al. Different mutant RUNX1 oncoproteins program alternate haematopoietic differentiation trajectories. Life Sci Alliance 2021 Feb;4(2). PMID: 33397648
  • Zhang L, Nie Q et al. scMC learns biological variation through the alignment of multiple single-cell genomics datasets. Genome Biol 2021 Jan 4;22(1):10. PMID: 33397454
  • Cai R, Lu Q, Wang D et al. Construction and prognostic analysis of miRNA-mRNA regulatory network in liver metastasis from colorectal cancer. World J Surg Oncol 2021 Jan 4;19(1):7. PMID: 33397428
  • Fei W, Liu M, Zhang Y, Cao S et al. Identification of key pathways and hub genes in the myogenic differentiation of pluripotent stem cell: a bioinformatics and experimental study. J Orthop Surg Res 2021 Jan 4;16(1):4. PMID: 33397419
  • Chen SH, Huang WT, Kao WC, Hsiao SY et al. O6-methylguanine-DNA methyltransferase modulates cisplatin-induced DNA double-strand breaks by targeting the homologous recombination pathway in nasopharyngeal carcinoma. J Biomed Sci 2021 Jan 4;28(1):2. PMID: 33397362
  • Feng J, Ren J, Yang Q, Liao L et al. Metabolic gene signature for predicting breast cancer recurrence using transcriptome analysis. Future Oncol 2021 Jan;17(1):71-80. PMID: 33397130
  • Alexiou A, Zisis D, Kavakiotis I, Miliotis M et al. DIANA-mAP: Analyzing miRNA from Raw NGS Data to Quantification. Genes (Basel) 2020 Dec 30;12(1). PMID: 33396959
  • Sermek A, Feliciello I, Ugarković Đ et al. Distinct Regulation of the Expression of Satellite DNAs in the Beetle Tribolium castaneum. Int J Mol Sci 2020 Dec 30;22(1). PMID: 33396654
  • Wu M, Zhao Y, Peng N, Tao Z et al. Identification of chemoresistance-associated microRNAs and hub genes in breast cancer using bioinformatics analysis. Invest New Drugs 2021 Jun;39(3):705-712. PMID: 33394259
  • Yamagata M, Yan W, Sanes JR et al. A cell atlas of the chick retina based on single-cell transcriptomics. Elife 2021 Jan 4;10. PMID: 33393903
  • Shao F, Wang Z, Wang S et al. Identification of MYCN-Related Gene as a Potential Biomarker for Neuroblastoma Prognostic Model by Integrated Analysis and Quantitative Real-Time PCR. DNA Cell Biol 2021 Feb;40(2):332-347. PMID: 33393844
  • Maruno T, Fukuda A, Goto N, Tsuda M et al. Visualization of stem cell activity in pancreatic cancer expansion by direct lineage tracing with live imaging. Elife 2021 Jan 4;10. PMID: 33393460
  • Sun K, Gu L, Ma L, Duan Y et al. Atlas of ACE2 gene expression reveals novel insights into transmission of SARS-CoV-2. Heliyon 2021 Jan;7(1):e05850. PMID: 33392409
  • Fang Q, Chen H et al. Development of a Novel Autophagy-Related Prognostic Signature and Nomogram for Hepatocellular Carcinoma. Front Oncol 2020;10:591356. PMID: 33392087
  • Sharma V, Lefeuvre P, Roumagnac P, Filloux D et al. Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants. Virus Evol 2020 Jul;6(2):veaa071. PMID: 33391820
  • Zhou L, Song Z, Hu J, Liu L et al. ACSS3 represses prostate cancer progression through downregulating lipid droplet-associated protein PLIN3. Theranostics 2021;11(2):841-860. PMID: 33391508
  • Ge Q, Li G, Chen J, Song J et al. Immunological Role and Prognostic Value of APBB1IP in Pan-Cancer Analysis. J Cancer 2021;12(2):595-610. PMID: 33391455
  • Jin SH, Zhou JG, Guan XY, Bai GH et al. Development of an miRNA-Array-Based Diagnostic Signature for Periodontitis. Front Genet 2020;11:577585. PMID: 33391341
  • Wu X, Lv D, Cai C, Zhao Z et al. A TP53-Associated Immune Prognostic Signature for the Prediction of Overall Survival and Therapeutic Responses in Muscle-Invasive Bladder Cancer. Front Immunol 2020;11:590618. PMID: 33391264
  • Phung DM, Lee J, Hong S, Kim YE et al. Meta-Analysis of Differentially Expressed Genes in the Substantia Nigra in Parkinson's Disease Supports Phenotype-Specific Transcriptome Changes. Front Neurosci 2020;14:596105. PMID: 33390883
  • Aizemaiti R, Wu Z, Tang J, Yan H et al. Heat shock factor 5 correlated with immune infiltration serves as a prognostic biomarker in lung adenocarcinoma. Int J Med Sci 2021;18(2):448-458. PMID: 33390814
  • Zhang Y, Zhang J, Chen X, Yang Z et al. Polymeric immunoglobulin receptor (PIGR) exerts oncogenic functions via activating ribosome pathway in hepatocellular carcinoma. Int J Med Sci 2021;18(2):364-371. PMID: 33390805
  • Wang CY, Chao YJ, Chen YL, Wang TW et al. Upregulation of peroxisome proliferator-activated receptor-α and the lipid metabolism pathway promotes carcinogenesis of ampullary cancer. Int J Med Sci 2021;18(1):256-269. PMID: 33390794
  • Wang X, Zhou R, Xiong Y, Zhou L et al. Sequential fate-switches in stem-like cells drive the tumorigenic trajectory from human neural stem cells to malignant glioma. Cell Res 2021 Jun;31(6):684-702. PMID: 33390587
  • Yin R, Wang G, Zhang L, Li T et al. Dermatomyositis: immunological landscape, biomarkers, and potential candidate drugs. Clin Rheumatol 2021 Jun;40(6):2301-2310. PMID: 33389314
  • Guo Q, Zhao Y, Li J, Liu J et al. Induction of alarmin S100A8/A9 mediates activation of aberrant neutrophils in the pathogenesis of COVID-19. Cell Host Microbe 2021 Feb 10;29(2):222-235.e4. PMID: 33388094
  • Gao J, Zhu X, Wu M, Jiang L et al. IFI27 may predict and evaluate the severity of respiratory syncytial virus infection in preterm infants. Hereditas 2021 Jan 2;158(1):3. PMID: 33388093
  • Webb LMC, Fra-Bido S, Innocentin S, Matheson LS et al. Ageing promotes early T follicular helper cell differentiation by modulating expression of RBPJ. Aging Cell 2021 Jan;20(1):e13295. PMID: 33387451
  • Andrieux G, Chakraborty S, Das T, Boerries M et al. Alteration of Proteotranscriptomic Landscape Reveals the Transcriptional Regulatory Circuits Controlling Key-Signaling Pathways and Metabolic Reprogramming During Tumor Evolution. Front Cell Dev Biol 2020;8:586479. PMID: 33384992
  • Acland M, Arentz G, Mussared M, Whitehead F et al. Proteomic Analysis of Pre-Invasive Serous Lesions of the Endometrium and Fallopian Tube Reveals Their Metastatic Potential. Front Oncol 2020;10:523989. PMID: 33384952
  • Yao M, Gao C, Zhang C, Di X et al. Identification of Molecular Markers Associated With the Pathophysiology and Treatment of Lupus Nephritis Based on Integrated Transcriptome Analysis. Front Genet 2020;11:583629. PMID: 33384713
  • Khomtchouk BB, Nelson CS, Vand KA, Palmisano S et al. HeartBioPortal2.0: new developments and updates for genetic ancestry and cardiometabolic quantitative traits in diverse human populations. Database (Oxford) 2020 Dec 31;2020. PMID: 33382884
  • Li M, Wang X, Liu J, Mao X et al. Identification of Core Prognosis-Related Candidate Genes in Chinese Gastric Cancer Population Based on Integrated Bioinformatics. Biomed Res Int 2020;2020:8859826. PMID: 33381592
  • An Y, Yang Q et al. Development and Validation of an Immune-Related Prognostic Signature for Ovarian Cancer Based on Weighted Gene Coexpression Network Analysis. Biomed Res Int 2020;2020:7594098. PMID: 33381581
  • Wang YL, Zhang YY et al. cg04448376, cg24387542, cg08548498, and cg14621323 as a Novel Signature to Predict Prognosis in Kidney Renal Papillary Cell Carcinoma. Biomed Res Int 2020;2020:4854390. PMID: 33381555
  • Xiao Y, Cui G, Ren X, Hao J et al. A Novel Four-Gene Signature Associated With Immune Checkpoint for Predicting Prognosis in Lower-Grade Glioma. Front Oncol 2020;10:605737. PMID: 33381460
  • Arega Y, Jiang H, Wang S, Zhang J et al. ChIAMM: A Mixture Model for Statistical Analysis of Long-Range Chromatin Interactions From ChIA-PET Experiments. Front Genet 2020;11:616160. PMID: 33381154
  • Lin W, Tang Y, Zhao Y, Zhao J et al. MiR-144-3p Targets FoxO1 to Reduce Its Regulation of Adiponectin and Promote Adipogenesis. Front Genet 2020;11:603144. PMID: 33381152
  • Xue Y, Guo Y, Luo S, Zhou W et al. Aberrantly Methylated-Differentially Expressed Genes Identify Novel Atherosclerosis Risk Subtypes. Front Genet 2020;11:569572. PMID: 33381146
  • Cai Y, Tian Y, Wang J, Wei W et al. Identification of Driver Genes Regulating the T-Cell-Infiltrating Levels in Hepatocellular Carcinoma. Front Genet 2020;11:560546. PMID: 33381145
  • Wang N, Muhetaer G, Zhang X, Yang B et al. Sanguisorba officinalis L. Suppresses Triple-Negative Breast Cancer Metastasis by Inhibiting Late-Phase Autophagy via Hif-1α/Caveolin-1 Signaling. Front Pharmacol 2020;11:591400. PMID: 33381039
  • Cheng C, Wu X, Shen Y, Li Q et al. KIF14 and KIF23 Promote Cell Proliferation and Chemoresistance in HCC Cells, and Predict Worse Prognosis of Patients with HCC. Cancer Manag Res 2020;12:13241-13257. PMID: 33380832
  • Zhong Q, Roumeliotis TI, Kozik Z, Cepeda-Molero M et al. Clustering of Tir during enteropathogenic E. coli infection triggers calcium influx-dependent pyroptosis in intestinal epithelial cells. PLoS Biol 2020 Dec;18(12):e3000986. PMID: 33378358
  • Ektesabi AM, Mori K, Tsoporis JN, Vaswani CM et al. Mesenchymal Stem/Stromal Cells Increase Cardiac miR-187-3p Expression in a Polymicrobial Animal Model of Sepsis. Shock 2021 Jul 1;56(1):133-141. PMID: 33378320
  • Rinchai D, Altman MC, Konza O, Hässler S et al. Definition of erythroid cell-positive blood transcriptome phenotypes associated with severe respiratory syncytial virus infection. Clin Transl Med 2020 Dec;10(8):e244. PMID: 33377660
  • Cabrera-Cano A, Dávila-Borja VM, Juárez-Méndez S, Marcial-Quino J et al. Hypoxia as a modulator of cytochromes P450: Overexpression of the cytochromes CYP2S1 and CYP24A1 in human liver cancer cells in hypoxia. Cell Biochem Funct 2021 Jun;39(4):478-487. PMID: 33377261
  • Tang Y, Zhang Y, Hu X et al. Identification of Potential Hub Genes Related to Diagnosis and Prognosis of Hepatitis B Virus-Related Hepatocellular Carcinoma via Integrated Bioinformatics Analysis. Biomed Res Int 2020;2020:4251761. PMID: 33376723
  • Lei H, denDekker AD, Li G, Zhang Z et al. Dysregulation of intercellular signaling by MOF deletion leads to liver injury. J Biol Chem 2021 Jan-Jun;296:100235. PMID: 33376138
  • Chen HG, Zhou XH et al. MNBDR: A Module Network Based Method for Drug Repositioning. Genes (Basel) 2020 Dec 27;12(1). PMID: 33375395
  • Chang S, Chen JY, Chuang YJ, Chen BS et al. Systems Approach to Pathogenic Mechanism of Type 2 Diabetes and Drug Discovery Design Based on Deep Learning and Drug Design Specifications. Int J Mol Sci 2020 Dec 26;22(1). PMID: 33375269
  • Wendel SO, Snow JA, Bastian T, Brown L et al. High Risk α-HPV E6 Impairs Translesion Synthesis by Blocking POLη Induction. Cancers (Basel) 2020 Dec 23;13(1). PMID: 33374731
  • Romero-Córdoba SL, Salido-Guadarrama I, Meneses ME, Cosentino G et al. Mexican Ganoderma Lucidum Extracts Decrease Lipogenesis Modulating Transcriptional Metabolic Networks and Gut Microbiota in C57BL/6 Mice Fed with a High-Cholesterol Diet. Nutrients 2020 Dec 24;13(1). PMID: 33374283
  • Menefee DS, McMasters A, Pan J, Li X et al. Age-related transcriptome changes in melanoma patients with tumor-positive sentinel lymph nodes. Aging (Albany NY) 2020 Dec 29;12(24):24914-24939. PMID: 33373316
  • Singh A, Bandyopadhyay A, Mukherjee N, Basu A et al. Toll-Like Receptor 9 Expression Levels in Breast Carcinoma Correlate with Improved Overall Survival in Patients Treated with Neoadjuvant Chemotherapy and Could Serve as a Prognostic Marker. Genet Test Mol Biomarkers 2021 Jan;25(1):12-19. PMID: 33372855
  • Cao Y, Kitanovski S, Hoffmann D et al. intePareto: an R package for integrative analyses of RNA-Seq and ChIP-Seq data. BMC Genomics 2020 Dec 29;21(Suppl 11):802. PMID: 33372591
  • Shao Z, Ni L, Hu S, Xu T et al. RNA-binding protein HuR suppresses senescence through Atg7 mediated autophagy activation in diabetic intervertebral disc degeneration. Cell Prolif 2021 Feb;54(2):e12975. PMID: 33372336
  • Zhao ZH, Li CY, Meng TG, Wang Y et al. Single-cell RNA sequencing reveals regulation of fetal ovary development in the monkey (Macaca fascicularis). Cell Discov 2020 Dec 29;6(1):97. PMID: 33372178
  • Luo ZB, Lai GE, Jiang T, Cao CL et al. A Competing Endogenous RNA Network Reveals Novel lncRNA, miRNA and mRNA Biomarkers With Diagnostic and Prognostic Value for Early Breast Cancer. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820983293. PMID: 33371806
  • Jing Z, Guo S, Zhang P, Liang Z et al. LncRNA-Associated ceRNA Network Reveals Novel Potential Biomarkers of Laryngeal Squamous Cell Carcinoma. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820985787. PMID: 33371795
  • Zhao J, Qiu J, Aryal S, Hackett JL et al. The RNA Architecture of the SARS-CoV-2 3'-Untranslated Region. Viruses 2020 Dec 21;12(12). PMID: 33371200
  • Song D, Tian J, Hu Y, Wei Y et al. Identification of biomarkers associated with diagnosis and prognosis of gastroesophageal junction adenocarcinoma-a study based on integrated bioinformatics analysis in GEO and TCGA database. Medicine (Baltimore) 2020 Dec 18;99(51):e23605. PMID: 33371094
  • Santibáñez R, Garrido D, Martin AJM et al. Atlas: automatic modeling of regulation of bacterial gene expression and metabolism using rule-based languages. Bioinformatics 2021 Apr 1;36(22-23):5473-5480. PMID: 33367504
  • Crisci E, Moroldo M, Vu Manh TP, Mohammad A et al. Distinctive Cellular and Metabolic Reprogramming in Porcine Lung Mononuclear Phagocytes Infected With Type 1 PRRSV Strains. Front Immunol 2020;11:588411. PMID: 33365028
  • Amatore Z, Gunn S, Harris LK et al. An Educational Bioinformatics Project to Improve Genome Annotation. Front Microbiol 2020;11:577497. PMID: 33365016
  • Liu B, Liu S, Zhang S, Bai L et al. Bioinformatic evaluation of the potential animal models for studying SARS-Cov-2. Heliyon 2020 Dec;6(12):e05725. PMID: 33364494
  • Choi R, Goncalves S, Durante MA, Goldstein BJ et al. On the in vivo origin of human nasal mesenchymal stem cell cultures. Laryngoscope Investig Otolaryngol 2020 Dec;5(6):975-982. PMID: 33364385
  • Liu D, Chen Y, Wang Y, Lei M et al. Combination of Serum Amyloid A and C-Reactive Protein Exhibit Synergistic Effect in Angiogenesis by Inducing Inflammation and Vascular Network. Front Oncol 2020;10:576207. PMID: 33364190
  • Biswas N, Kumar K, Bose S, Bera R et al. Analysis of Pan-omics Data in Human Interactome Network (APODHIN). Front Genet 2020;11:589231. PMID: 33363571
  • Zhang Y, Guo D et al. Epigenetic Variation Analysis Leads to Biomarker Discovery in Gastric Adenocarcinoma. Front Genet 2020;11:551787. PMID: 33363566
  • Garman L, Pelikan RC, Rasmussen A, Lareau CA et al. Single Cell Transcriptomics Implicate Novel Monocyte and T Cell Immune Dysregulation in Sarcoidosis. Front Immunol 2020;11:567342. PMID: 33363531
  • Jie K, Feng W, Boxiang Z, Maofeng G et al. Identification of Pathways and Key Genes in Venous Remodeling After Arteriovenous Fistula by Bioinformatics Analysis. Front Physiol 2020;11:565240. PMID: 33363475
  • Bian S, Ni W, Zhu M, Song Q et al. Identification and Validation of the N6-Methyladenosine RNA Methylation Regulator YTHDF1 as a Novel Prognostic Marker and Potential Target for Hepatocellular Carcinoma. Front Mol Biosci 2020;7:604766. PMID: 33363211
  • Wang S, Su W, Zhong C, Yang T et al. An Eight-CircRNA Assessment Model for Predicting Biochemical Recurrence in Prostate Cancer. Front Cell Dev Biol 2020;8:599494. PMID: 33363156
  • Abancens M, Bustos V, Harvey H, McBryan J et al. Sexual Dimorphism in Colon Cancer. Front Oncol 2020;10:607909. PMID: 33363037
  • Ma C, Kang W, Yu L, Yang Z et al. AUNIP Expression Is Correlated With Immune Infiltration and Is a Candidate Diagnostic and Prognostic Biomarker for Hepatocellular Carcinoma and Lung Adenocarcinoma. Front Oncol 2020;10:590006. PMID: 33363020
  • Sha Q, Lyu J, Zhao M, Li H et al. Multi-Omics Analysis of Diabetic Nephropathy Reveals Potential New Mechanisms and Drug Targets. Front Genet 2020;11:616435. PMID: 33362869
  • Liu Y, Cui Y, Bai X, Feng C et al. MiRNA-Mediated Subpathway Identification and Network Module Analysis to Reveal Prognostic Markers in Human Pancreatic Cancer. Front Genet 2020;11:606940. PMID: 33362865
  • Gong W, Guo P, Liu L, Guan Q et al. Integrative Analysis of Transcriptome-Wide Association Study and mRNA Expression Profiles Identifies Candidate Genes Associated With Idiopathic Pulmonary Fibrosis. Front Genet 2020;11:604324. PMID: 33362862
  • Ahmed FA Network-Based Analysis Reveals the Mechanism Underlying Vitamin D in Suppressing Cytokine Storm and Virus in SARS-CoV-2 Infection. Front Immunol 2020;11:590459. PMID: 33362771
  • Bordone MC, Barbosa-Morais NL et al. Unraveling Targetable Systemic and Cell-Type-Specific Molecular Phenotypes of Alzheimer's and Parkinson's Brains With Digital Cytometry. Front Neurosci 2020;14:607215. PMID: 33362460
  • Li T, Ren T, Huang C, Li Y et al. S100A16 induces epithelial-mesenchymal transition in human PDAC cells and is a new therapeutic target for pancreatic cancer treatment that synergizes with gemcitabine. Biochem Pharmacol 2021 Jul;189:114396. PMID: 33359364
  • Huang C, Wang M, Wang J, Wu D et al. Suppression MGP inhibits tumor proliferation and reverses oxaliplatin resistance in colorectal cancer. Biochem Pharmacol 2021 Jul;189:114390. PMID: 33359068
  • Zhang Z, Liu J, Liu Y, Shi D et al. Virtual screening of the multi-gene regulatory molecular mechanism of Si-Wu-tang against non-triple-negative breast cancer based on network pharmacology combined with experimental validation. J Ethnopharmacol 2021 Apr 6;269:113696. PMID: 33358854
  • Hoffmann HH, Sánchez-Rivera FJ, Schneider WM, Luna JM et al. Functional interrogation of a SARS-CoV-2 host protein interactome identifies unique and shared coronavirus host factors. Cell Host Microbe 2021 Feb 10;29(2):267-280.e5. PMID: 33357464
  • Li D, Gong B, Xu J, Ning B et al. Impact of Sequencing Depth and Library Preparation on Toxicological Interpretation of RNA-Seq Data in a "Three-Sample" Scenario. Chem Res Toxicol 2021 Feb 15;34(2):529-540. PMID: 33354967
  • Mishra A, Chanchal S, Ashraf MZ et al. Host-Viral Interactions Revealed among Shared Transcriptomics Signatures of ARDS and Thrombosis: A Clue into COVID-19 Pathogenesis. TH Open 2020 Oct;4(4):e403-e412. PMID: 33354650
  • Xie JQ, Lu YP, Sun HL, Gao LN et al. Sex Difference of Ribosome in Stroke-Induced Peripheral Immunosuppression by Integrated Bioinformatics Analysis. Biomed Res Int 2020;2020:3650935. PMID: 33354565
  • Zhang J, Zhu C, Gao H, Liang X et al. Identification of biomarkers associated with clinical severity of chronic obstructive pulmonary disease. PeerJ 2020;8:e10513. PMID: 33354437
  • Xie H, Zha E, Zhang Y et al. Identification of Featured Metabolism-Related Genes in Patients with Acute Myocardial Infarction. Dis Markers 2020;2020:8880004. PMID: 33354250
  • Sun L, Wang D, Xu Y, Qi W et al. Evidence of TCM Theory in Treating the Same Disease with Different Methods: Treatment of Pneumonia with Ephedra sinica and Scutellariae Radix as an Example. Evid Based Complement Alternat Med 2020;2020:8873371. PMID: 33354223
  • Spreafico M, Mangano E, Mazzola M, Consolandi C et al. The Genome-Wide Impact of Nipblb Loss-of-Function on Zebrafish Gene Expression. Int J Mol Sci 2020 Dec 19;21(24). PMID: 33352756
  • Li H, Xie L, Wang Q, Dang Y et al. OSmfs: An Online Interactive Tool to Evaluate Prognostic Markers for Myxofibrosarcoma. Genes (Basel) 2020 Dec 19;11(12). PMID: 33352742
  • Deng P, Tan M, Zhou W, Chen C et al. Bisphenol A promotes breast cancer cell proliferation by driving miR-381-3p-PTTG1-dependent cell cycle progression. Chemosphere 2021 Apr;268:129221. PMID: 33352510
  • Heitor da Silva Maués J, Ferreira Ribeiro H, de Maria Maués Sacramento R, Maia de Sousa R et al. Downregulated genes by silencing MYC pathway identified with RNA-SEQ analysis as potential prognostic biomarkers in gastric adenocarcinoma. Aging (Albany NY) 2020 Dec 22;12(24):24651-24670. PMID: 33351778
  • Jasmin M, Ahn EH, Voutilainen MH, Fombonne J et al. Netrin-1 and its receptor DCC modulate survival and death of dopamine neurons and Parkinson's disease features. EMBO J 2021 Feb 1;40(3):e105537. PMID: 33351190
  • Ray M, Sable MN, Sarkar S, Hallur V et al. Essential interpretations of bioinformatics in COVID-19 pandemic. Meta Gene 2021 Feb;27:100844. PMID: 33349792
  • Srivastava S, Widmann S, Ho C, Nguyen D et al. Novel Liver X Receptor Ligand GAC0001E5 Disrupts Glutamine Metabolism and Induces Oxidative Stress in Pancreatic Cancer Cells. Int J Mol Sci 2020 Dec 17;21(24). PMID: 33348693
  • Ellison CE, Kagda MS, Cao W et al. Telomeric TART elements target the piRNA machinery in Drosophila. PLoS Biol 2020 Dec;18(12):e3000689. PMID: 33347429
  • Zeng Z, Cao Z, Zhang E, Huang H et al. Elevated CDK5R1 predicts worse prognosis in hepatocellular carcinoma based on TCGA data. Biosci Rep 2021 Jan 29;41(1). PMID: 33346796
  • Hossain MU, Bhattacharjee A, Emon MTH, Chowdhury ZM et al. Recognition of plausible therapeutic agents to combat COVID-19: An omics data based combined approach. Gene 2021 Mar 1;771:145368. PMID: 33346100
  • Chen N, Zhang G, Fu J, Wu Q et al. Identification of Key Modules and Hub Genes Involved in Esophageal Squamous Cell Carcinoma Tumorigenesis Using WCGNA. Cancer Control 2020 Jan-Dec;27(1):1073274820978817. PMID: 33345608
  • Zhou S, Zhu Y, Li Z, Zhu Y et al. Exosome-derived long non-coding RNA ADAMTS9-AS2 suppresses progression of oral submucous fibrosis via AKT signalling pathway. J Cell Mol Med 2021 Feb;25(4):2262-2273. PMID: 33345447
  • Qi Y, Yuan M, Yi Q, Wang Y et al. A panel of two miRNAs correlated to systolic blood pressure is a good diagnostic indicator for stroke. Biosci Rep 2021 Jan 29;41(1). PMID: 33345284
  • Moore BM, Wang P, Fan P, Lee A et al. Within- and cross-species predictions of plant specialized metabolism genes using transfer learning. In Silico Plants 2020;2(1):diaa005. PMID: 33344884
  • Hosseinipour M, Shahbazi S, Roudbar-Mohammadi S, Khorasani M et al. Differential genes expression analysis of invasive aspergillosis: a bioinformatics study based on mRNA/microRNA. Mol Biol Res Commun 2020 Dec;9(4):173-180. PMID: 33344664
  • Fantauzzi MF, Aguiar JA, Tremblay BJ, Mansfield MJ et al. Expression of endocannabinoid system components in human airway epithelial cells: impact of sex and chronic respiratory disease status. ERJ Open Res 2020 Oct;6(4). PMID: 33344628
  • Song Y, Hu G, Jia J, Yao M et al. DNA Damage Induces Dynamic Associations of BRD4/P-TEFb With Chromatin and Modulates Gene Transcription in a BRD4-Dependent and -Independent Manner. Front Mol Biosci 2020;7:618088. PMID: 33344510
  • Rong L, Li H, Li Z, Ouyang J et al. FAM83A as a Potential Biological Marker Is Regulated by miR-206 to Promote Cervical Cancer Progression Through PI3K/AKT/mTOR Pathway. Front Med (Lausanne) 2020;7:608441. PMID: 33344485
  • Qi T, Qu J, Tu C, Lu Q et al. Super-Enhancer Associated Five-Gene Risk Score Model Predicts Overall Survival in Multiple Myeloma Patients. Front Cell Dev Biol 2020;8:596777. PMID: 33344452
  • He D, Zhang X, Zhu X, Maharjan N et al. Identify and Validate the Transcriptomic, Functional Network, and Predictive Validity of FBXL19-AS1 in Hepatocellular Carcinoma. Front Oncol 2020;10:609601. PMID: 33344260
  • Gong PJ, Shao YC, Huang SR, Zeng YF et al. Hypoxia-Associated Prognostic Markers and Competing Endogenous RNA Co-Expression Networks in Breast Cancer. Front Oncol 2020;10:579868. PMID: 33344235
  • Wang Y, Li J, Li J, Li P et al. An Enhancer-Based Analysis Revealed a New Function of Androgen Receptor in Tumor Cell Immune Evasion. Front Genet 2020;11:595550. PMID: 33343635
  • Li Z, Feng J, Yuan Z et al. Key Modules and Hub Genes Identified by Coexpression Network Analysis for Revealing Novel Biomarkers for Spina Bifida. Front Genet 2020;11:583316. PMID: 33343629
  • Ye F, Liang J, Li J, Li H et al. Development and Validation of a Five-Gene Signature to Predict Relapse-Free Survival in Multiple Sclerosis. Front Neurol 2020;11:579683. PMID: 33343487
  • Akiyama T, Sato S, Ko SBH, Sano O et al. Synthetic mRNA-based differentiation method enables early detection of Parkinson's phenotypes in neurons derived from Gaucher disease-induced pluripotent stem cells. Stem Cells Transl Med 2021 Apr;10(4):572-581. PMID: 33342090
  • Cheng J, Zhang J, Wu Z, Sun X et al. Inferring microenvironmental regulation of gene expression from single-cell RNA sequencing data using scMLnet with an application to COVID-19. Brief Bioinform 2021 Mar 22;22(2):988-1005. PMID: 33341869
  • Murayama T, Takeuchi Y, Yamawaki K, Natsume T et al. MCM10 compensates for Myc-induced DNA replication stress in breast cancer stem-like cells. Cancer Sci 2021 Mar;112(3):1209-1224. PMID: 33340428
  • Hess JL, Radonjić NV, Patak J, Glatt SJ et al. Autophagy, apoptosis, and neurodevelopmental genes might underlie selective brain region vulnerability in attention-deficit/hyperactivity disorder. Mol Psychiatry 2021 Nov;26(11):6643-6654. PMID: 33339955
  • Mignone P, Pio G, Džeroski S, Ceci M et al. Multi-task learning for the simultaneous reconstruction of the human and mouse gene regulatory networks. Sci Rep 2020 Dec 18;10(1):22295. PMID: 33339842
  • Wu Y, Fletcher M, Gu Z, Wang Q et al. Glioblastoma epigenome profiling identifies SOX10 as a master regulator of molecular tumour subtype. Nat Commun 2020 Dec 18;11(1):6434. PMID: 33339831
  • Pinkney HR, Wright BM, Diermeier SD et al. The lncRNA Toolkit: Databases and In Silico Tools for lncRNA Analysis. Noncoding RNA 2020 Dec 16;6(4). PMID: 33339309
  • Scantlebery AM, Tammaro A, Mills JD, Rampanelli E et al. The dysregulation of metabolic pathways and induction of the pentose phosphate pathway in renal ischaemia-reperfusion injury. J Pathol 2021 Apr;253(4):404-414. PMID: 33338266
  • Qi S, Han Q, Xing D, Qian L et al. Functional Analysis of Estrogen Receptor 1 in Diabetic Wound Healing: A Knockdown Cell-Based and Bioinformatic Study. Med Sci Monit 2020 Dec 18;26:e928788. PMID: 33338031
  • Wu W, Lee I, Spratt H, Fang X et al. tRNA-Derived Fragments in Alzheimer's Disease: Implications for New Disease Biomarkers and Neuropathological Mechanisms. J Alzheimers Dis 2021;79(2):793-806. PMID: 33337366
  • Osorio D, Zhong Y, Li G, Huang JZ et al. scTenifoldNet: A Machine Learning Workflow for Constructing and Comparing Transcriptome-wide Gene Regulatory Networks from Single-Cell Data. Patterns (N Y) 2020 Dec 11;1(9):100139. PMID: 33336197
  • Guo Q, Wu Y, Guo X, Cao L et al. The RNA-Binding Protein CELF2 Inhibits Ovarian Cancer Progression by Stabilizing FAM198B. Mol Ther Nucleic Acids 2021 Mar 5;23:169-184. PMID: 33335801
  • Wang Y, Li Z, Song G, Wang J et al. Potential of Immune-Related Genes as Biomarkers for Diagnosis and Subtype Classification of Preeclampsia. Front Genet 2020;11:579709. PMID: 33335538
  • Liu XY, Wu SB, Zeng WQ, Yuan ZJ et al. LogSum + L(2) penalized logistic regression model for biomarker selection and cancer classification. Sci Rep 2020 Dec 17;10(1):22125. PMID: 33335163
  • Mallik S, Zhao Z et al. Detecting methylation signatures in neurodegenerative disease by density-based clustering of applications with reducing noise. Sci Rep 2020 Dec 17;10(1):22164. PMID: 33335112
  • Wisdom AJ, Mowery YM, Hong CS, Himes JE et al. Single cell analysis reveals distinct immune landscapes in transplant and primary sarcomas that determine response or resistance to immunotherapy. Nat Commun 2020 Dec 17;11(1):6410. PMID: 33335088
  • Ardehali MB, Damle M, Perea-Resa C, Blower MD et al. Elongin A associates with actively transcribed genes and modulates enhancer RNA levels with limited impact on transcription elongation rate in vivo. J Biol Chem 2021 Jan-Jun;296:100202. PMID: 33334895
  • Kruse K, Hug CB, Vaquerizas JM et al. FAN-C: a feature-rich framework for the analysis and visualisation of chromosome conformation capture data. Genome Biol 2020 Dec 17;21(1):303. PMID: 33334380
  • Jamalkandi SA, Kouhsar M, Salimian J, Ahmadi A et al. The identification of co-expressed gene modules in Streptococcus pneumonia from colonization to infection to predict novel potential virulence genes. BMC Microbiol 2020 Dec 17;20(1):376. PMID: 33334315
  • Zhu L, Kan KJ, Grün JL, Hissa B et al. GAS2L1 Is a Potential Biomarker of Circulating Tumor Cells in Pancreatic Cancer. Cancers (Basel) 2020 Dec 15;12(12). PMID: 33333841
  • Yu H, Gu D, Qian P et al. Prognostic value of ESR2 expression on adjuvant chemotherapy in completely resected NSCLC. PLoS One 2020;15(12):e0243891. PMID: 33332474
  • Monkley S, Krishnaswamy JK, Göransson M, Clausen M et al. Optimised generation of iPSC-derived macrophages and dendritic cells that are functionally and transcriptionally similar to their primary counterparts. PLoS One 2020;15(12):e0243807. PMID: 33332401
  • Holdhof D, Johann PD, Spohn M, Bockmayr M et al. Atypical teratoid/rhabdoid tumors (ATRTs) with SMARCA4 mutation are molecularly distinct from SMARCB1-deficient cases. Acta Neuropathol 2021 Feb;141(2):291-301. PMID: 33331994
  • Kalinina M, Skvortsov D, Kalmykova S, Ivanov T et al. Multiple competing RNA structures dynamically control alternative splicing in the human ATE1 gene. Nucleic Acids Res 2021 Jan 11;49(1):479-490. PMID: 33330934
  • Uzbekova S, Almiñana C, Labas V, Teixeira-Gomes AP et al. Protein Cargo of Extracellular Vesicles From Bovine Follicular Fluid and Analysis of Their Origin From Different Ovarian Cells. Front Vet Sci 2020;7:584948. PMID: 33330709
  • Zhang C, Liao Y, Liu Z, Zeng L et al. Mapping the Multi-Organ miRNA-mRNA Regulatory Network in LPS-Mediated Endotoxemic Mice: Exploring the Shared Underlying Key Genes and Mechanisms. Front Mol Biosci 2020;7:573327. PMID: 33330617
  • Shao Z, Tu Z, Shi Y, Li S et al. RNA-Binding Protein HuR Suppresses Inflammation and Promotes Extracellular Matrix Homeostasis via NKRF in Intervertebral Disc Degeneration. Front Cell Dev Biol 2020;8:611234. PMID: 33330514
  • Xu T, Song X, Wang Y, Fu S et al. Genome-Wide Analysis of the Expression of Circular RNA Full-Length Transcripts and Construction of the circRNA-miRNA-mRNA Network in Cervical Cancer. Front Cell Dev Biol 2020;8:603516. PMID: 33330502
  • Li T, Tong W, Roberts R, Liu Z et al. Deep Learning on High-Throughput Transcriptomics to Predict Drug-Induced Liver Injury. Front Bioeng Biotechnol 2020;8:562677. PMID: 33330410
  • Zhao Y, Song Y, Zhao R, Zhao M et al. Gene Panel of Persister Cells as a Prognostic Indicator for Tumor Repopulation After Radiation. Front Oncol 2020;10:607727. PMID: 33330109
  • Zhu R, Tao H, Lin W, Tang L et al. Identification of an Immune-Related Gene Signature Based on Immunogenomic Landscape Analysis to Predict the Prognosis of Adult Acute Myeloid Leukemia Patients. Front Oncol 2020;10:574939. PMID: 33330048
  • Qi L, Chen J, Yang Y, Hu W et al. Hypoxia Correlates With Poor Survival and M2 Macrophage Infiltration in Colorectal Cancer. Front Oncol 2020;10:566430. PMID: 33330037
  • Quan Y, Liang F, Wu D, Yao X et al. Blood Cell DNA Methylation of Aging-Related Ubiquitination Gene DZIP3 Can Predict the Onset of Early Stage Colorectal Cancer. Front Oncol 2020;10:544330. PMID: 33330022
  • Zhang YH, Li Z, Zeng T, Pan X et al. Distinguishing Glioblastoma Subtypes by Methylation Signatures. Front Genet 2020;11:604336. PMID: 33329750
  • Feltes BC, Poloni JF, Nunes IJG, Faria SS et al. Multi-Approach Bioinformatics Analysis of Curated Omics Data Provides a Gene Expression Panorama for Multiple Cancer Types. Front Genet 2020;11:586602. PMID: 33329726
  • Wang S, Tang X, Qin L, Shi W et al. Integrative Analysis Extracts a Core ceRNA Network of the Fetal Hippocampus With Down Syndrome. Front Genet 2020;11:565955. PMID: 33329702
  • Wang Y, Zhu M, Guo F, Song Y et al. Identification of Tumor Microenvironment-Related Prognostic Biomarkers in Luminal Breast Cancer. Front Genet 2020;11:555865. PMID: 33329695
  • Chang Y, Li G, Zhai Y, Huang L et al. Redox Regulator GLRX Is Associated With Tumor Immunity in Glioma. Front Immunol 2020;11:580934. PMID: 33329553
  • Chen Y, Guo Y, Chen H, Ma F et al. Long Non-coding RNA Expression Profiling Identifies a Four-Long Non-coding RNA Prognostic Signature for Isocitrate Dehydrogenase Mutant Glioma. Front Neurol 2020;11:573264. PMID: 33329315
  • Sagini MN, Klika KD, Orry A, Zepp M et al. Riproximin Exhibits Diversity in Sugar Binding, and Modulates some Metastasis-Related Proteins with Lectin like Properties in Pancreatic Ductal Adenocarcinoma. Front Pharmacol 2020;11:549804. PMID: 33328982
  • Zhang X, Yu H, Bai R, Ma C et al. Identification and Characterization of Biomarkers and Their Role in Opioid Addiction by Integrated Bioinformatics Analysis. Front Neurosci 2020;14:608349. PMID: 33328875
  • Dong B, Miao J, Wang Y, Luo W et al. Single-cell analysis supports a luminal-neuroendocrine transdifferentiation in human prostate cancer. Commun Biol 2020 Dec 16;3(1):778. PMID: 33328604
  • Hori C, Takata N, Lam PY, Tobimatsu Y et al. Identifying transcription factors that reduce wood recalcitrance and improve enzymatic degradation of xylem cell wall in Populus. Sci Rep 2020 Dec 16;10(1):22043. PMID: 33328495
  • Nasr T, Holderbaum AM, Chaturvedi P, Agarwal K et al. Disruption of a hedgehog-foxf1-rspo2 signaling axis leads to tracheomalacia and a loss of sox9+ tracheal chondrocytes. Dis Model Mech 2020 Dec 16;14(2). PMID: 33328171
  • Zhou Z, Liu C, Liu K, Lv M et al. Expression and Possible Molecular Mechanisms of microRNA-205-5p in Patients With Head and Neck Squamous Cell Carcinoma. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820980110. PMID: 33327871
  • Xu J, Sun M, Wang Y, Xie A et al. Identification of Hub Genes of Mesio Temporal Lobe Epilepsy and Prognostic Biomarkers of Brain Low-grade Gliomas Based on Bioinformatics Analysis. Cell Transplant 2020 Jan-Dec;29:963689720978722. PMID: 33327771
  • Busnelli M, Manzini S, Chiara M, Colombo A et al. Aortic Gene Expression Profiles Show How ApoA-I Levels Modulate Inflammation, Lysosomal Activity, and Sphingolipid Metabolism in Murine Atherosclerosis. Arterioscler Thromb Vasc Biol 2021 Feb;41(2):651-667. PMID: 33327742
  • Kang X, Bai L, Qi X, Wang J et al. Screening and identification of key genes between liver hepatocellular carcinoma (LIHC) and cholangiocarcinoma (CHOL) by bioinformatic analysis. Medicine (Baltimore) 2020 Dec 11;99(50):e23563. PMID: 33327311
  • Bolton JL, Schulmann A, Garcia-Curran MM, Regev L et al. Unexpected Transcriptional Programs Contribute to Hippocampal Memory Deficits and Neuronal Stunting after Early-Life Adversity. Cell Rep 2020 Dec 15;33(11):108511. PMID: 33326786
  • Wang Y, Wang P, Zhang Y, Xu J et al. Decreased Expression of the Host Long-Noncoding RNA-GM Facilitates Viral Escape by Inhibiting the Kinase activity TBK1 via S-glutathionylation. Immunity 2020 Dec 15;53(6):1168-1181.e7. PMID: 33326766
  • Dahl HC, Kanchwala M, Thomas-Jardin SE, Sandhu A et al. Chronic IL-1 exposure drives LNCaP cells to evolve androgen and AR independence. PLoS One 2020;15(12):e0242970. PMID: 33326447
  • Ingram SP, Henthorn NT, Warmenhoven JW, Kirkby NF et al. Hi-C implementation of genome structure for in silico models of radiation-induced DNA damage. PLoS Comput Biol 2020 Dec;16(12):e1008476. PMID: 33326415
  • He H, Yi Y, Cai X, Wang J et al. Down-regulation of EOMES drives T-cell exhaustion via abolishing EOMES-mediated repression of inhibitory receptors of T cells in liver cancer. J Cell Mol Med 2021 Jan;25(1):161-169. PMID: 33325636
  • Zuo B, Zhu J, Xiao F, Wang C et al. Identification of novel biomarkers and candidate small molecule drugs in rheumatoid arthritis and osteoarthritis based on bioinformatics analysis of high-throughput data. Biosci Rep 2020 Dec 23;40(12). PMID: 33325525
  • Zhang J, Chen R, Shi F, Yang P et al. Genome-wide data mining to construct a competing endogenous RNA network and reveal the pivotal therapeutic targets of Parkinson's disease. J Cell Mol Med 2020 Dec 15;25(13):5912-23. PMID: 33325158
  • Miao H, Chen D, Li R, Hu J et al. Identification of an immune-related six-long noncoding RNA signature as a novel prognosis biomarker for adenocarcinoma of lung. Biosci Rep 2021 Jan 29;41(1). PMID: 33324975
  • Wei T, Bi G, Bian Y, Ruan S et al. The Significance of Secreted Phosphoprotein 1 in Multiple Human Cancers. Front Mol Biosci 2020;7:565383. PMID: 33324676
  • Xu J, Dai S, Yuan Y, Xiao Q et al. A Prognostic Model for Colon Cancer Patients Based on Eight Signature Autophagy Genes. Front Cell Dev Biol 2020;8:602174. PMID: 33324651
  • Li Y, Li XY, Li LX, Zhou RC et al. S100A10 Accelerates Aerobic Glycolysis and Malignant Growth by Activating mTOR-Signaling Pathway in Gastric Cancer. Front Cell Dev Biol 2020;8:559486. PMID: 33324631
  • Gao L, Shen K, Yin N, Jiang M et al. Comprehensive Transcriptomic Analysis Reveals Dysregulated Competing Endogenous RNA Network in Endocrine Resistant Breast Cancer Cells. Front Oncol 2020;10:600487. PMID: 33324567
  • Zhang Y, Zhang R, Liang F, Zhang L et al. Identification of Metabolism-Associated Prostate Cancer Subtypes and Construction of a Prognostic Risk Model. Front Oncol 2020;10:598801. PMID: 33324566
  • Li Z, Lim SL, Tao Y, Li X et al. PROTAC Bromodomain Inhibitor ARV-825 Displays Anti-Tumor Activity in Neuroblastoma by Repressing Expression of MYCN or c-Myc. Front Oncol 2020;10:574525. PMID: 33324552
  • Vittrant B, Leclercq M, Martin-Magniette ML, Collins C et al. Identification of a Transcriptomic Prognostic Signature by Machine Learning Using a Combination of Small Cohorts of Prostate Cancer. Front Genet 2020;11:550894. PMID: 33324443
  • Ye J, Lin Y, Wang Q, Li Y et al. Integrated Multichip Analysis Identifies Potential Key Genes in the Pathogenesis of Nonalcoholic Steatohepatitis. Front Endocrinol (Lausanne) 2020;11:601745. PMID: 33324350
  • Maloney DM, Chadderton N, Millington-Ward S, Palfi A et al. Optimized OPA1 Isoforms 1 and 7 Provide Therapeutic Benefit in Models of Mitochondrial Dysfunction. Front Neurosci 2020;14:571479. PMID: 33324145
  • Zhang Y, Guo L, Han S, Chen L et al. Adult mesenchymal stem cell ageing interplays with depressed mitochondrial Ndufs6. Cell Death Dis 2020 Dec 15;11(12):1075. PMID: 33323934
  • Mukherjee S, Adhikary S, Gadad SS, Mondal P et al. Suppression of poised oncogenes by ZMYND8 promotes chemo-sensitization. Cell Death Dis 2020 Dec 15;11(12):1073. PMID: 33323928
  • Li H, Lu H, Cui W, Huang Y et al. A TP53-based immune prognostic model for muscle-invasive bladder cancer. Aging (Albany NY) 2020 Dec 15;13(2):1929-1946. PMID: 33323544
  • Yuan X, Piao L, Wang L, Han X et al. Erythrocyte membrane protein band 4.1-like 3 inhibits osteosarcoma cell invasion through regulation of Snai1-induced epithelial-to-mesenchymal transition. Aging (Albany NY) 2020 Dec 11;13(2):1947-1961. PMID: 33323539
  • Lv W, Ren Y, Wu M, Luo X et al. Identifying miRNA modules associated with progression of keloids through weighted gene co-expression network analysis and experimental validation in vitro. Burns 2021 Sep;47(6):1359-1372. PMID: 33323304
  • Nie Y, Tian GG, Zhang L, Lee T et al. Identifying cortical specific long noncoding RNAs modified by m(6)A RNA methylation in mouse brains. Epigenetics 2021 Nov;16(11):1260-1276. PMID: 33323036
  • Wu S, Tseng IC, Huang WC, Su CW et al. Establishment of an Immunocompetent Metastasis Rat Model with Hepatocyte Cancer Stem Cells. Cancers (Basel) 2020 Dec 11;12(12). PMID: 33322441
  • Rayford KJ, Cooley A, Arun A, Rachakonda G et al. Trypanosoma cruzi Modulates PIWI-Interacting RNA Expression in Primary Human Cardiac Myocytes during the Early Phase of Infection. Int J Mol Sci 2020 Dec 11;21(24). PMID: 33322418
  • Lucarelli G, Ferro M, Loizzo D, Bianchi C et al. Integration of Lipidomics and Transcriptomics Reveals Reprogramming of the Lipid Metabolism and Composition in Clear Cell Renal Cell Carcinoma. Metabolites 2020 Dec 13;10(12). PMID: 33322148
  • Fan YC, Lee KD, Tsai YC et al. Roles of Interleukin-1 Receptor Antagonist in Prostate Cancer Progression. Biomedicines 2020 Dec 13;8(12). PMID: 33322099
  • Lataretu M, Hölzer M et al. RNAflow: An Effective and Simple RNA-Seq Differential Gene Expression Pipeline Using Nextflow. Genes (Basel) 2020 Dec 10;11(12). PMID: 33322033
  • Nauen DW, Haffner MC, Kim J, Zheng Q et al. Putative Autoantigen Leiomodin-1 Is Expressed in the Human Brain and in the Membrane Fraction of Newly Formed Neurons. Pathogens 2020 Dec 10;9(12). PMID: 33321732
  • Alharthi A, Verma A, Sabbineni H, Adil MS et al. Distinct effects of pharmacological inhibition of stromelysin1 on endothelial-to-mesenchymal transition and myofibroblast differentiation. J Cell Physiol 2021 Jul;236(7):5147-5161. PMID: 33319933
  • Sanders LM, Cheney A, Seninge L, van den Bout A et al. Identification of a differentiation stall in epithelial mesenchymal transition in histone H3-mutant diffuse midline glioma. Gigascience 2020 Dec 15;9(12). PMID: 33319914
  • Mishra A, Shang Y, Wang Y, Bacon ER et al. Dynamic Neuroimmune Profile during Mid-life Aging in the Female Brain and Implications for Alzheimer Risk. iScience 2020 Dec 18;23(12):101829. PMID: 33319170
  • Zhang Z, Li W, Yang G, Lu X et al. CASK modulates the assembly and function of the Mint1/Munc18-1 complex to regulate insulin secretion. Cell Discov 2020 Dec 15;6(1):92. PMID: 33318489
  • Peng H, Guo Q, Su T, Xiao Y et al. Identification of SCARA3 with potential roles in metabolic disorders. Aging (Albany NY) 2020 Dec 9;13(2):2149-2167. PMID: 33318306
  • Fortino V, Wisgrill L, Werner P, Suomela S et al. Machine-learning-driven biomarker discovery for the discrimination between allergic and irritant contact dermatitis. Proc Natl Acad Sci U S A 2020 Dec 29;117(52):33474-33485. PMID: 33318199
  • Hayashi T, Odintsov I, Smith RS, Ishizawa K et al. RET inhibition in novel patient-derived models of RET-fusion positive lung adenocarcinoma reveals a role for MYC upregulation. Dis Model Mech 2020 Dec 14;14(2). PMID: 33318047
  • Charmpi K, Guo T, Zhong Q, Wagner U et al. Convergent network effects along the axis of gene expression during prostate cancer progression. Genome Biol 2020 Dec 14;21(1):302. PMID: 33317623
  • Yang Z, Zi Q, Xu K, Wang C et al. Development of a macrophages-related 4-gene signature and nomogram for the overall survival prediction of hepatocellular carcinoma based on WGCNA and LASSO algorithm. Int Immunopharmacol 2021 Jan;90:107238. PMID: 33316739
  • Bridoux L, Zarrineh P, Mallen J, Phuycharoen M et al. HOX paralogs selectively convert binding of ubiquitous transcription factors into tissue-specific patterns of enhancer activation. PLoS Genet 2020 Dec;16(12):e1009162. PMID: 33315856
  • Dai W, Cao D, Zhang W, Wei Y et al. Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Cytokine Pathways Involved in COVID-19 After Rhinovirus Infection in Asthma Patients. Med Sci Monit 2020 Dec 14;26:e928861. PMID: 33315853
  • Yucel N, Axsom J, Yang Y, Li L et al. Cardiac endothelial cells maintain open chromatin and expression of cardiomyocyte myofibrillar genes. Elife 2020 Dec 14;9. PMID: 33315013
  • Wu C, Rao X, Lin W et al. Immune landscape and a promising immune prognostic model associated with TP53 in early-stage lung adenocarcinoma. Cancer Med 2021 Feb;10(3):806-823. PMID: 33314730
  • Awan T, Babendreyer A, Mahmood Alvi A, Düsterhöft S et al. Expression levels of the metalloproteinase ADAM8 critically regulate proliferation, migration and malignant signalling events in hepatoma cells. J Cell Mol Med 2021 Feb;25(4):1982-1999. PMID: 33314720
  • Liu X, Xiao M, Zhang L, Li L et al. The m6A methyltransferase METTL14 inhibits the proliferation, migration, and invasion of gastric cancer by regulating the PI3K/AKT/mTOR signaling pathway. J Clin Lab Anal 2021 Mar;35(3):e23655. PMID: 33314339
  • Shi M, Ren S, Chen H, Li J et al. Alcohol drinking inhibits NOTCH-PAX9 signaling in esophageal squamous epithelial cells. J Pathol 2021 Apr;253(4):384-395. PMID: 33314197
  • Wang Y, Li Y, Liu B, Song A et al. Identifying breast cancer subtypes associated modules and biomarkers by integrated bioinformatics analysis. Biosci Rep 2021 Jan 29;41(1). PMID: 33313822
  • Shi YR, Xiong K, Ye X, Yang P et al. Development of a prognostic signature for bladder cancer based on immune-related genes. Ann Transl Med 2020 Nov;8(21):1380. PMID: 33313125
  • Xu S, Song Y, Shao Y, Zhou H et al. Comprehensive analysis of circular RNA in oral leukoplakia: upregulated circHLA-C as a potential biomarker for diagnosis and prognosis. Ann Transl Med 2020 Nov;8(21):1375. PMID: 33313120
  • Zingariello M, Rosti V, Vannucchi AM, Guglielmelli P et al. Shared and Distinctive Ultrastructural Abnormalities Expressed by Megakaryocytes in Bone Marrow and Spleen From Patients With Myelofibrosis. Front Oncol 2020;10:584541. PMID: 33312951
  • Wang Z, Deng M, Chen L, Wang W et al. Circular RNA Circ-03955 Promotes Epithelial-Mesenchymal Transition in Osteosarcoma by Regulating miR-3662/Metadherin Pathway. Front Oncol 2020;10:545460. PMID: 33312941
  • Zheng R, Shi Z, Li W, Yu J et al. Identification and prognostic value of DLGAP5 in endometrial cancer. PeerJ 2020;8:e10433. PMID: 33312770
  • Sendama WL1000 connectivity map interrogation identifies candidate drugs for repurposing as SARS-CoV-2 antiviral therapies. Comput Struct Biotechnol J 2020;18:3947-3949. PMID: 33312454
  • Vega MA, Simón-Fuentes M, González de la Aleja A, Nieto C et al. MAFB and MAF Transcription Factors as Macrophage Checkpoints for COVID-19 Severity. Front Immunol 2020;11:603507. PMID: 33312178
  • Jiang X, Dellepiane N, Pairo-Castineira E, Boutin T et al. Fine-mapping and cell-specific enrichment at corneal resistance factor loci prioritize candidate causal regulatory variants. Commun Biol 2020 Dec 11;3(1):762. PMID: 33311554
  • Rychel K, Sastry AV, Palsson BO et al. Machine learning uncovers independently regulated modules in the Bacillus subtilis transcriptome. Nat Commun 2020 Dec 11;11(1):6338. PMID: 33311500
  • Loyal L, Warth S, Jürchott K, Mölder F et al. SLAMF7 and IL-6R define distinct cytotoxic versus helper memory CD8(+) T cells. Nat Commun 2020 Dec 11;11(1):6357. PMID: 33311473
  • Zheng ZN, Huang GZ, Wu QQ, Ye HY et al. NF-κB-mediated lncRNA AC007271.3 promotes carcinogenesis of oral squamous cell carcinoma by regulating miR-125b-2-3p/Slug. Cell Death Dis 2020 Dec 12;11(12):1055. PMID: 33311454
  • Santos HP Jr, Bhattacharya A, Joseph RM, Smeester L et al. Evidence for the placenta-brain axis: multi-omic kernel aggregation predicts intellectual and social impairment in children born extremely preterm. Mol Autism 2020 Dec 11;11(1):97. PMID: 33308293
  • Huang G, Zhang J, Qing G, Liu D et al. S100A2 Silencing Relieves Epithelial-Mesenchymal Transition in Pulmonary Fibrosis by Inhibiting the Wnt/β-Catenin Signaling Pathway. DNA Cell Biol 2021 Jan;40(1):18-25. PMID: 33306933
  • Gomez-Cano F, Carey L, Lucas K, García Navarrete T et al. CamRegBase: a gene regulation database for the biofuel crop, Camelina sativa. Database (Oxford) 2020 Dec 11;2020. PMID: 33306801
  • Zhao Y, Lu GA, Yang H, Lin P et al. Run or Die in the Evolution of New MicroRNAs-Testing the Red Queen Hypothesis on De Novo New Genes. Mol Biol Evol 2021 Apr 13;38(4):1544-1553. PMID: 33306129
  • Sambaturu N, Pusadkar V, Hannenhalli S, Chandra N et al. PathExt: a general framework for path-based mining of omics-integrated biological networks. Bioinformatics 2021 Jun 9;37(9):1254-1262. PMID: 33305329
  • Lin Z, Peng R, Sun Y, Zhang L et al. Identification of ribosomal protein family in triple-negative breast cancer by bioinformatics analysis. Biosci Rep 2021 Jan 29;41(1). PMID: 33305312
  • Hussein D, Dallol A, Quintas R, Schulten HJ et al. Overlapping variants in the blood, tissues and cell lines for patients with intracranial meningiomas are predominant in stem cell-related genes. Heliyon 2020 Nov;6(11):e05632. PMID: 33305042
  • Vitti Gambim V, Laufer-Amorim R, Fonseca Alves RH, Grieco V et al. A Comparative Meta-Analysis and in silico Analysis of Differentially Expressed Genes and Proteins in Canine and Human Bladder Cancer. Front Vet Sci 2020;7:558978. PMID: 33304937
  • Zhang Z, Chen J, Zhu S, Zhu D et al. Construction and Validation of a Cell Cycle-Related Robust Prognostic Signature in Colon Cancer. Front Cell Dev Biol 2020;8:611222. PMID: 33304907
  • Wang C, Chen L, Zhang M, Yang Y et al. PDmethDB: A curated Parkinson's disease associated methylation information database. Comput Struct Biotechnol J 2020;18:3745-3749. PMID: 33304468
  • Li B, Tang Y, Ni X, Chen W et al. Immune Cell Landscape Identification Associates Intrarenal Mononuclear Phagocytes With Onset and Remission of Lupus Nephritis in NZB/W Mice. Front Genet 2020;11:577040. PMID: 33304383
  • Wang H, Wu Y, Fang R, Sa J et al. Time-Varying Gene Network Analysis of Human Prefrontal Cortex Development. Front Genet 2020;11:574543. PMID: 33304381
  • Yang J, Wang H, Zhao S, Liu X et al. Overexpression Levels of LbDREB6 Differentially Affect Growth, Drought, and Disease Tolerance in Poplar. Front Plant Sci 2020;11:528550. PMID: 33304356
  • Yamanaka T, Miyazaki H, Tosaki A, Maity SN et al. Gene expression profiling in neuronal cells identifies a different type of transcriptome modulated by NF-Y. Sci Rep 2020 Dec 10;10(1):21714. PMID: 33303918
  • Umezu T, Tsuneyama K, Kanekura K, Hayakawa M et al. Comprehensive analysis of liver and blood miRNA in precancerous conditions. Sci Rep 2020 Dec 10;10(1):21766. PMID: 33303811
  • Gómez-Aleza C, Nguyen B, Yoldi G, Ciscar M et al. Inhibition of RANK signaling in breast cancer induces an anti-tumor immune response orchestrated by CD8+ T cells. Nat Commun 2020 Dec 10;11(1):6335. PMID: 33303745
  • Desa DE, Strawderman RL, Wu W, Hill RL et al. Intratumoral heterogeneity of second-harmonic generation scattering from tumor collagen and its effects on metastatic risk prediction. BMC Cancer 2020 Dec 10;20(1):1217. PMID: 33302909
  • Liu JQ, Liao XW, Wang XK, Yang CK et al. Prognostic value of Glypican family genes in early-stage pancreatic ductal adenocarcinoma after pancreaticoduodenectomy and possible mechanisms. BMC Gastroenterol 2020 Dec 10;20(1):415. PMID: 33302876
  • Cong G, Cui X, Ferrari R, Pipinos II et al. Fibrosis Distinguishes Critical Limb Ischemia Patients from Claudicants in a Transcriptomic and Histologic Analysis. J Clin Med 2020 Dec 8;9(12). PMID: 33302519
  • Wei Z, Gao Y, Meng F, Chen X et al. iDMer: an integrative and mechanism-driven response system for identifying compound interventions for sudden virus outbreak. Brief Bioinform 2021 Mar 22;22(2):976-987. PMID: 33302292
  • Tan W, Zhang L, Wang S, Jiang P et al. A circRNA-miRNA-mRNA regulatory network associated with the treatment response to tuberculosis. Microb Pathog 2021 Jan;150:104672. PMID: 33301855
  • Parchem JG, Kanasaki K, Lee SB, Kanasaki M et al. STOX1 deficiency is associated with renin-mediated gestational hypertension and placental defects. JCI Insight 2021 Jan 25;6(2). PMID: 33301424
  • Shireby GL, Davies JP, Francis PT, Burrage J et al. Recalibrating the epigenetic clock: implications for assessing biological age in the human cortex. Brain 2020 Dec 1;143(12):3763-3775. PMID: 33300551
  • Bacolla A, Sengupta S, Ye Z, Yang C et al. Heritable pattern of oxidized DNA base repair coincides with pre-targeting of repair complexes to open chromatin. Nucleic Acids Res 2021 Jan 11;49(1):221-243. PMID: 33300026
  • Wang Z, Guo K, Gao P, Pu Q et al. Identification of Repurposable Drugs and Adverse Drug Reactions for Various Courses of COVID-19 Based on Single-Cell RNA Sequencing Data. ArXiv 2020 May 16 PMID: 33299905
  • Meng S, Fan X, Zhang J, An R et al. GJA1 Expression and Its Prognostic Value in Cervical Cancer. Biomed Res Int 2020;2020:8827920. PMID: 33299882
  • Xu Y, Qiao C, He S, Lu C et al. Identification of Functional Genes in Pterygium Based on Bioinformatics Analysis. Biomed Res Int 2020;2020:2383516. PMID: 33299863
  • Xiao N, Koc S, Roberson D, Brooks P et al. BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations. F1000Res 2020;9:1144. PMID: 33299553
  • Rogan PK, Mucaki EJ, Shirley BC et al. A proposed molecular mechanism for pathogenesis of severe RNA-viral pulmonary infections. F1000Res 2020;9:943. PMID: 33299552
  • Ge CY, Wei LY, Tian Y, Wang HH et al. A Seven-NF-κB-Related Gene Signature May Distinguish Patients with Ulcerative Colitis-Associated Colorectal Carcinoma. Pharmgenomics Pers Med 2020;13:707-718. PMID: 33299340
  • Li S, Liu N, Piao J, Meng F et al. CCNB1 Expedites the Progression of Cervical Squamous Cell Carcinoma via the Regulation by FOXM1. Onco Targets Ther 2020;13:12383-12395. PMID: 33299327
  • Jin X, Demere Z, Nair K, Ali A et al. A metastasis map of human cancer cell lines. Nature 2020 Dec;588(7837):331-336. PMID: 33299191
  • Wang C, Zhang L, Ke L, Ding W et al. Primary effusion lymphoma enhancer connectome links super-enhancers to dependency factors. Nat Commun 2020 Dec 9;11(1):6318. PMID: 33298918
  • Li K, Wang F, Yang ZN, Zhang TT et al. TRIB3 promotes MYC-associated lymphoma development through suppression of UBE3B-mediated MYC degradation. Nat Commun 2020 Dec 9;11(1):6316. PMID: 33298911
  • Fukuda T, Fukuda R, Tanabe R, Koinuma D et al. BMP signaling is a therapeutic target in ovarian cancer. Cell Death Discov 2020 Dec 5;6(1):139. PMID: 33298901
  • Zhang JM, Hou WB, Du JW, Zong M et al. Argonaute 2 is a key regulator of maternal mRNA degradation in mouse early embryos. Cell Death Discov 2020 Nov 27;6(1):133. PMID: 33298889
  • Liu W, Tang J, Zhang H, Kong F et al. A novel lncRNA PTTG3P/miR-132/212-3p/FoxM1 feedback loop facilitates tumorigenesis and metastasis of pancreatic cancer. Cell Death Discov 2020 Nov 30;6(1):136. PMID: 33298873
  • Marku M, Verstraete N, Raynal F, Madrid-Mencía M et al. Insights on TAM Formation from a Boolean Model of Macrophage Polarization Based on In Vitro Studies. Cancers (Basel) 2020 Dec 7;12(12). PMID: 33297362
  • Fan H, Atiya HI, Wang Y, Pisanic TR et al. Epigenomic Reprogramming toward Mesenchymal-Epithelial Transition in Ovarian-Cancer-Associated Mesenchymal Stem Cells Drives Metastasis. Cell Rep 2020 Dec 8;33(10):108473. PMID: 33296650
  • Kelliher CM, Lambreghts R, Xiang Q, Baker CL et al. PRD-2 directly regulates casein kinase I and counteracts nonsense-mediated decay in the Neurospora circadian clock. Elife 2020 Dec 9;9. PMID: 33295874
  • Sun K, Li L, Ma L, Zhao Y et al. Msuite: A High-Performance and Versatile DNA Methylation Data-Analysis Toolkit. Patterns (N Y) 2020 Nov 13;1(8):100127. PMID: 33294868
  • Gwag T, Reddy Mooli RG, Li D, Lee S et al. Macrophage-derived thrombospondin 1 promotes obesity-associated non-alcoholic fatty liver disease. JHEP Rep 2021 Feb;3(1):100193. PMID: 33294831
  • Okada R, Yamamoto K, Matsumoto N et al. DCIR3 and DCIR4 are widely expressed among tissue-resident macrophages with the exception of microglia and alveolar macrophages. Biochem Biophys Rep 2020 Dec;24:100840. PMID: 33294631
  • Inoue J, Fujiwara K, Hamamoto H, Kobayashi K et al. Improving the Efficacy of EGFR Inhibitors by Topical Treatment of Cutaneous Squamous Cell Carcinoma with miR-634 Ointment. Mol Ther Oncolytics 2020 Dec 16;19:294-307. PMID: 33294587
  • Li L, Liu ZP et al. Biomarker discovery for predicting spontaneous preterm birth from gene expression data by regularized logistic regression. Comput Struct Biotechnol J 2020;18:3434-3446. PMID: 33294138
  • Fang X, Duan SF, Gong YZ, Wang F et al. Identification of Key Genes Associated with Changes in the Host Response to Severe Burn Shock: A Bioinformatics Analysis with Data from the Gene Expression Omnibus (GEO) Database. J Inflamm Res 2020;13:1029-1041. PMID: 33293847
  • Wruck W, Adjaye J et al. SARS-CoV-2 receptor ACE2 is co-expressed with genes related to transmembrane serine proteases, viral entry, immunity and cellular stress. Sci Rep 2020 Dec 8;10(1):21415. PMID: 33293627
  • Ye S, Li J, Zhang Z et al. Multi-omics-data-assisted genomic feature markers preselection improves the accuracy of genomic prediction. J Anim Sci Biotechnol 2020 Dec 1;11(1):109. PMID: 33292577
  • Li H, Huang W, Wang M, Chen P et al. Tandem Mass Tag-based quantitative proteomics analysis of metabolic associated fatty liver disease induced by high fat diet in mice. Nutr Metab (Lond) 2020 Nov 18;17(1):97. PMID: 33292312
  • Akbari F, Peymani M, Salehzadeh A, Ghaedi K et al. Integrative in silico and in vitro transcriptomics analysis revealed new lncRNAs related to intrinsic apoptotic genes in colorectal cancer. Cancer Cell Int 2020 Nov 10;20(1):546. PMID: 33292233
  • Elbialy AThe role of antioxidants in restoring MAPK 14 and a DNA damage marker level following autophagy suppression. Open Biol 2020 Dec;10(12):200253. PMID: 33292101
  • Wang Q, Zhao Y, Zheng H, Wang Q et al. CCDC170 affects breast cancer apoptosis through IRE1 pathway. Aging (Albany NY) 2020 Dec 3;13(1):1332-1356. PMID: 33291081
  • Tang X, Luo L, Li Y, Wu H et al. Therapeutic potential of targeting HSPA5 through dual regulation of two candidate prognostic biomarkers ANXA1 and PSAT1 in osteosarcoma. Aging (Albany NY) 2020 Dec 3;13(1):1212-1235. PMID: 33291071
  • Razavi ZS, Tajiknia V, Majidi S, Ghandali M et al. Gynecologic cancers and non-coding RNAs: Epigenetic regulators with emerging roles. Crit Rev Oncol Hematol 2021 Jan;157:103192. PMID: 33290823
  • Elmentaite R, Ross ADB, Roberts K, James KR et al. Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn's Disease. Dev Cell 2020 Dec 21;55(6):771-783.e5. PMID: 33290721
  • Mallona I, Ilie IM, Karemaker ID, Butz S et al. Flanking sequence preference modulates de novo DNA methylation in the mouse genome. Nucleic Acids Res 2021 Jan 11;49(1):145-157. PMID: 33290556
  • Chen F, Wang D, Li X, Wang H et al. Molecular Mechanisms Underlying Intestinal Ischemia/Reperfusion Injury: Bioinformatics Analysis and In Vivo Validation. Med Sci Monit 2020 Dec 8;26:e927476. PMID: 33290384
  • Toraih EA, Sedhom JA, Dokunmu TM, Hussein MH et al. Hidden in plain sight: The effects of BCG vaccination in the COVID-19 pandemic. J Med Virol 2021 Apr;93(4):1950-1966. PMID: 33289122
  • Huang CT, Chao TL, Kao HC, Pang YH et al. Enhancement of the IFN-β-induced host signature informs repurposed drugs for COVID-19. Heliyon 2020 Dec;6(12):e05646. PMID: 33289002
  • Di Domenico A, Pipinikas CP, Maire RS, Bräutigam K et al. Epigenetic landscape of pancreatic neuroendocrine tumours reveals distinct cells of origin and means of tumour progression. Commun Biol 2020 Dec 7;3(1):740. PMID: 33288854
  • Winek K, Lobentanzer S, Nadorp B, Dubnov S et al. Transfer RNA fragments replace microRNA regulators of the cholinergic poststroke immune blockade. Proc Natl Acad Sci U S A 2020 Dec 22;117(51):32606-32616. PMID: 33288717
  • Zhai Z, Qin T, Liu F, Han L et al. Identification of atrial fibrillation-related circular RNAs and constructing the integrative regulatory network of circular RNAs, microRNAs and mRNAs by bioinformatics analysis. Cell Mol Biol (Noisy-le-grand) 2020 Oct 31;66(7):161-168. PMID: 33287936
  • Goswami C, Chawla S, Thakral D, Pant H et al. Molecular signature comprising 11 platelet-genes enables accurate blood-based diagnosis of NSCLC. BMC Genomics 2020 Oct 27;21(1):744. PMID: 33287695
  • Canzler S, Hackermüller J et al. multiGSEA: a GSEA-based pathway enrichment analysis for multi-omics data. BMC Bioinformatics 2020 Dec 7;21(1):561. PMID: 33287694
  • Das S, Rai SN et al. Statistical Approach for Biologically Relevant Gene Selection from High-Throughput Gene Expression Data. Entropy (Basel) 2020 Oct 25;22(11). PMID: 33286973
  • Schneider K, Venn B, Mühlhaus T et al. TMEA: A Thermodynamically Motivated Framework for Functional Characterization of Biological Responses to System Acclimation. Entropy (Basel) 2020 Sep 15;22(9). PMID: 33286800
  • Chakraborty A, Staudinger C, King SL, Erickson FC et al. Galectin-9 bridges human B cells to vascular endothelium while programming regulatory pathways. J Autoimmun 2021 Feb;117:102575. PMID: 33285511
  • Jin J, Robeson H, Fagan P, Orloff MS et al. Association of PARP1-specific polymorphisms and haplotypes with non-small cell lung cancer subtypes. PLoS One 2020;15(12):e0243509. PMID: 33284833
  • Lara-Reyna S, Poulter JA, Vasconcelos EJR, Kacar M et al. Identification of Critical Transcriptomic Signaling Pathways in Patients with H Syndrome and Rosai-Dorfman Disease. J Clin Immunol 2021 Feb;41(2):441-457. PMID: 33284430
  • Uhrik L, Hernychova L, Muller P, Kalathiya U et al. Hydrogen deuterium exchange mass spectrometry identifies the dominant paratope in CD20 antigen binding to the NCD1.2 monoclonal antibody. Biochem J 2021 Jan 15;478(1):99-120. PMID: 33284343
  • Ren C, Li M, Sun L, Li Z et al. Serum MicroRNA Differences Between Fracture in Postmenopausal Women with and without Diabetes. Orthop Surg 2021 Feb;13(1):285-295. PMID: 33283469
  • Soheilifar MH, Vaseghi H, Seif F, Ariana M et al. Concomitant overexpression of mir-182-5p and mir-182-3p raises the possibility of IL-17-producing Treg formation in breast cancer by targeting CD3d, ITK, FOXO1, and NFATs: A meta-analysis and experimental study. Cancer Sci 2021 Feb;112(2):589-603. PMID: 33283362
  • Karpiński P, Łaczmański Ł, Sąsiadek MM et al. Major Histocompatibility Complex Genes as Therapeutic Opportunity for Immune Cold Molecular Cancer Subtypes. J Immunol Res 2020;2020:8758090. PMID: 33282963
  • Luo D, Shan Z, Liu Q, Cai S et al. A Novel Seventeen-Gene Metabolic Signature for Predicting Prognosis in Colon Cancer. Biomed Res Int 2020;2020:4845360. PMID: 33282950
  • Yang Q, Yu B, Sun J et al. TTK, CDC25A, and ESPL1 as Prognostic Biomarkers for Endometrial Cancer. Biomed Res Int 2020;2020:4625123. PMID: 33282948
  • Yasin H, Stowe R, Wong CK, Jithesh PV et al. First Whole Transcriptome RNAseq on CHD8 Haploinsufficient Patient and Meta-Analyses Across Cellular Models Uncovers Likely Key Pathophysiological Target Genes. Cureus 2020 Nov 19;12(11):e11571. PMID: 33282601
  • Wang Y, Shang S, Yu K, Sun H et al. miR-224, miR-147b and miR-31 associated with lymph node metastasis and prognosis for lung adenocarcinoma by regulating PRPF4B, WDR82 or NR3C2. PeerJ 2020;8:e9704. PMID: 33282547
  • Wei B, Wang L, Zhao J et al. Circular RNA hsa_circ_0005114-miR-142-3p/miR-590-5p-adenomatous polyposis coli protein axis as a potential target for treatment of glioma. Oncol Lett 2021 Jan;21(1):58. PMID: 33281969
  • Liu L, Cai L, Liu C, Yu S et al. Construction and Validation of a Novel Glycometabolism-Related Gene Signature Predicting Survival in Patients With Ovarian Cancer. Front Genet 2020;11:585259. PMID: 33281878
  • Hu VW, Bi C et al. Phenotypic Subtyping and Re-analyses of Existing Transcriptomic Data from Autistic Probands in Simplex Families Reveal Differentially Expressed and ASD Trait-Associated Genes. Front Neurol 2020;11:578972. PMID: 33281715
  • Parzefall T, Frohne A, Koenighofer M, Neesen J et al. A Novel Variant in the TBC1D24 Lipid-Binding Pocket Causes Autosomal Dominant Hearing Loss: Evidence for a Genotype-Phenotype Correlation. Front Cell Neurosci 2020;14:585669. PMID: 33281559
  • Zhao Q, Xu N, Guo H, Li J et al. Identification of the Diagnostic Signature of Sepsis Based on Bioinformatic Analysis of Gene Expression and Machine Learning. Comb Chem High Throughput Screen 2022;25(1):21-28. PMID: 33280594
  • Caruso FP, Scala G, Cerulo L, Ceccarelli M et al. A review of COVID-19 biomarkers and drug targets: resources and tools. Brief Bioinform 2021 Mar 22;22(2):701-713. PMID: 33279954
  • Li X, Guo X, Zhu Y, Wei G et al. Single-Cell Transcriptomic Analysis Reveals BCMA CAR-T Cell Dynamics in a Patient with Refractory Primary Plasma Cell Leukemia. Mol Ther 2021 Feb 3;29(2):645-657. PMID: 33278564
  • Laureau R, Dyatel A, Dursuk G, Brown S et al. Meiotic Cells Counteract Programmed Retrotransposon Activation via RNA-Binding Translational Repressor Assemblies. Dev Cell 2021 Jan 11;56(1):22-35.e7. PMID: 33278343
  • Hu XQ, Weng ZA, Xia YF, Zha YH et al. Gene expression profiles and protein-protein interaction networks in neuroblastoma with MEIS2 depletion. J BUON 2020 Sep-Oct;25(5):2482-2489. PMID: 33277872
  • Quan Y, Wang S et al. Identification of invasive key genes in breast cancer by bioinformatics analysis. J BUON 2020 Sep-Oct;25(5):2255-2264. PMID: 33277843
  • Huang Y, Tsubota S, Nishio N, Takahashi Y et al. Combination of tumor necrosis factor-α and epidermal growth factor induces the adrenergic-to-mesenchymal transdifferentiation in SH-SY5Y neuroblastoma cells. Cancer Sci 2021 Feb;112(2):715-724. PMID: 33277754
  • Moslehi R, Tsao HS, Zeinomar N, Stagnar C et al. Integrative genomic analysis implicates ERCC6 and its interaction with ERCC8 in susceptibility to breast cancer. Sci Rep 2020 Dec 4;10(1):21276. PMID: 33277540
  • Pajovic S, Siddaway R, Bridge T, Sheth J et al. Epigenetic activation of a RAS/MYC axis in H3.3K27M-driven cancer. Nat Commun 2020 Dec 4;11(1):6216. PMID: 33277484
  • Zhang N, Mendieta-Esteban J, Magli A, Lilja KC et al. Muscle progenitor specification and myogenic differentiation are associated with changes in chromatin topology. Nat Commun 2020 Dec 4;11(1):6222. PMID: 33277476
  • Casanova NG, Gonzalez-Garay ML, Sun B, Bime C et al. Differential transcriptomics in sarcoidosis lung and lymph node granulomas with comparisons to pathogen-specific granulomas. Respir Res 2020 Dec 4;21(1):321. PMID: 33276795
  • Yusipov I, Bacalini MG, Kalyakulina A, Krivonosov M et al. Age-related DNA methylation changes are sex-specific: a comprehensive assessment. Aging (Albany NY) 2020 Dec 3;12(23):24057-24080. PMID: 33276343
  • Guo M, Xiao ZD, Dai Z, Zhu L et al. The landscape of long noncoding RNA-involved and tumor-specific fusions across various cancers. Nucleic Acids Res 2020 Dec 16;48(22):12618-12631. PMID: 33275145
  • Yao J, Ding D, Li X, Shen T et al. Prevalent intron retention fine-tunes gene expression and contributes to cellular senescence. Aging Cell 2020 Dec;19(12):e13276. PMID: 33274830
  • Zhang H, Chen X, Yuan Y et al. Investigation of the miRNA and mRNA Coexpression Network and Their Prognostic Value in Hepatocellular Carcinoma. Biomed Res Int 2020;2020:8726567. PMID: 33274225
  • Jiang M, Lu Y, Duan D, Wang H et al. Systematic Investigation of mRNA N (6)-Methyladenosine Machinery in Primary Prostate Cancer. Dis Markers 2020;2020:8833438. PMID: 33273988
  • Tian S, Wang C, Tang M, Li J et al. Identification of Monotonically Differentially Expressed Genes across Pathologic Stages for Cancers. J Oncol 2020;2020:8458190. PMID: 33273919
  • Lu S, Sun C, Chen H, Zhang C et al. Bioinformatics Analysis and Validation Identify CDK1 and MAD2L1 as Prognostic Markers of Rhabdomyosarcoma. Cancer Manag Res 2020;12:12123-12136. PMID: 33273853
  • Liu L, Zhao J, Peng Y, Yang M et al. miR-let-7a-5p Inhibits Invasion and Migration of Hepatoma Cells by Regulating BZW2 Expression. Onco Targets Ther 2020;13:12269-12279. PMID: 33273832
  • L'homme L, Sermikli BP, Molendi-Coste O, Fleury S et al. Deletion of the nuclear receptor RORα in macrophages does not modify the development of obesity, insulin resistance and NASH. Sci Rep 2020 Dec 3;10(1):21095. PMID: 33273527
  • Guerrero-Martínez JA, Ceballos-Chávez M, Koehler F, Peiró S et al. TGFβ promotes widespread enhancer chromatin opening and operates on genomic regulatory domains. Nat Commun 2020 Dec 3;11(1):6196. PMID: 33273453
  • Wang C, Gibbons J, Adapa SR, Oberstaller J et al. The human malaria parasite genome is configured into thousands of coexpressed linear regulatory units. J Genet Genomics 2020 Sep 20;47(9):513-521. PMID: 33272860
  • Lyons LC, Chatterjee S, Vanrobaeys Y, Gaine ME et al. Translational changes induced by acute sleep deprivation uncovered by TRAP-Seq. Mol Brain 2020 Dec 3;13(1):165. PMID: 33272296
  • Maharjan M, Tanvir RB, Chowdhury K, Duan W et al. Computational identification of biomarker genes for lung cancer considering treatment and non-treatment studies. BMC Bioinformatics 2020 Dec 3;21(Suppl 9):218. PMID: 33272232
  • Zhang F, Deng CK, Wang M, Deng B et al. Identification of novel alternative splicing biomarkers for breast cancer with LC/MS/MS and RNA-Seq. BMC Bioinformatics 2020 Dec 3;21(Suppl 9):541. PMID: 33272210
  • Zheng M, Mullikin H, Hester A, Czogalla B et al. Development and Validation of a Novel 11-Gene Prognostic Model for Serous Ovarian Carcinomas Based on Lipid Metabolism Expression Profile. Int J Mol Sci 2020 Dec 1;21(23). PMID: 33271935
  • Alam A, Imam N, Siddiqui MF, Ali MK et al. Human gene expression profiling identifies key therapeutic targets in tuberculosis infection: A systematic network meta-analysis. Infect Genet Evol 2021 Jan;87:104649. PMID: 33271338
  • Yuan L, Song X, Zhang L, Yu Y et al. The transcriptional repressors VAL1 and VAL2 recruit PRC2 for genome-wide Polycomb silencing in Arabidopsis. Nucleic Acids Res 2021 Jan 11;49(1):98-113. PMID: 33270882
  • Jiang CH, Liang WH, Li FP, Xie YF et al. Distribution and prognostic impact of M1 macrophage on esophageal squamous cell carcinoma. Carcinogenesis 2021 Apr 30;42(4):537-545. PMID: 33269791
  • Zhuang L, Zhang Y, Meng Z, Yang Z et al. Oncogenic Roles of RAD51AP1 in Tumor Tissues Related to Overall Survival and Disease-Free Survival in Hepatocellular Carcinoma. Cancer Control 2020 Jan-Dec;27(1):1073274820977149. PMID: 33269607
  • Wang X, Chen X, Liu H et al. Expression and Bioinformatics-Based Functional Analysis of UAP1 in Lung Adenocarcinoma. Cancer Manag Res 2020;12:12111-12121. PMID: 33269005
  • Lu Z, Guo JK, Wei Y, Dou DR et al. Structural modularity of the XIST ribonucleoprotein complex. Nat Commun 2020 Dec 2;11(1):6163. PMID: 33268787
  • Jiang C, Li P, Ruan X, Ma Y et al. Comparative Transcriptomics Analyses in Livers of Mice, Humans, and Humanized Mice Define Human-Specific Gene Networks. Cells 2020 Nov 30;9(12). PMID: 33266321
  • Juarez-Flores A, José MV et al. Multivariate Entropy Characterizes the Gene Expression and Protein-Protein Networks in Four Types of Cancer. Entropy (Basel) 2018 Feb 28;20(3). PMID: 33265245
  • Fang S, Dong L, Liu L, Guo J et al. HERB: a high-throughput experiment- and reference-guided database of traditional Chinese medicine. Nucleic Acids Res 2021 Jan 8;49(D1):D1197-D1206. PMID: 33264402
  • Brown AV, Conners SI, Huang W, Wilkey AP et al. A new decade and new data at SoyBase, the USDA-ARS soybean genetics and genomics database. Nucleic Acids Res 2021 Jan 8;49(D1):D1496-D1501. PMID: 33264401
  • Wu YY, Wang SH, Wu CH, Yen LC et al. In silico immune infiltration profiling combined with functional enrichment analysis reveals a potential role for naïve B cells as a trigger for severe immune responses in the lungs of COVID-19 patients. PLoS One 2020;15(12):e0242900. PMID: 33264345
  • Melia T, Waxman DJ et al. Genetic factors contributing to extensive variability of sex-specific hepatic gene expression in Diversity Outbred mice. PLoS One 2020;15(12):e0242665. PMID: 33264334
  • Ramesh P, Veerappapillai S, Karuppasamy R et al. Gene expression profiling of corona virus microarray datasets to identify crucial targets in COVID-19 patients. Gene Rep 2021 Mar;22:100980. PMID: 33263093
  • Li K, Cao J, Zhang Z, Chen K et al. Circular RNA circGSK3B Promotes Cell Proliferation, Migration, and Invasion by Sponging miR-1265 and Regulating CAB39 Expression in Hepatocellular Carcinoma. Front Oncol 2020;10:598256. PMID: 33262952
  • Chen Y, Li H, Lai L, Feng Q et al. Identification of Common Differentially Expressed Genes and Potential Therapeutic Targets in Ulcerative Colitis and Rheumatoid Arthritis. Front Genet 2020;11:572194. PMID: 33262784
  • Sun F, Tan W, Dan Y, Wang X et al. Copy number gain of pro-inflammatory genes in patients with HBV-related acute-on-chronic liver failure. BMC Med Genomics 2020 Dec 1;13(1):180. PMID: 33261607
  • Quaglieri A, Flensburg C, Speed TP, Majewski IJ et al. Finding a suitable library size to call variants in RNA-Seq. BMC Bioinformatics 2020 Dec 1;21(1):553. PMID: 33261552
  • Mercado-Gómez M, Lopitz-Otsoa F, Azkargorta M, Serrano-Maciá M et al. Multi-Omics Integration Highlights the Role of Ubiquitination in CCl(4)-Induced Liver Fibrosis. Int J Mol Sci 2020 Nov 27;21(23). PMID: 33261190
  • Kryczka J, Sochacka E, Papiewska-Pająk I, Boncela J et al. Implications of ABCC4-Mediated cAMP Eflux for CRC Migration. Cancers (Basel) 2020 Nov 27;12(12). PMID: 33261018
  • Sharma P, Pandey AK, Bhattacharyya DK et al. Determining crucial genes associated with COVID-19 based on COPD Findings(✶,✶✶). Comput Biol Med 2021 Jan;128:104126. PMID: 33260035
  • Zhang K, Qin X, Wen P, Wu Y et al. Systematic analysis of molecular mechanisms of heart failure through the pathway and network-based approach. Life Sci 2021 Jan 15;265:118830. PMID: 33259868
  • Khurana P, Gupta A, Sugadev R, Sharma YK et al. HAHmiR.DB: a server platform for high-altitude human miRNA-gene coregulatory networks and associated regulatory circuits. Database (Oxford) 2020 Dec 1;2020. PMID: 33259604
  • Jiang W, Zhu D, Wang C, Zhu Y et al. Tumor suppressing effects of tristetraprolin and its small double-stranded RNAs in bladder cancer. Cancer Med 2021 Jan;10(1):269-285. PMID: 33259133
  • Tu J, Kuang Z, Xie X, Wu S et al. Prognostic and predictive value of a mRNA signature in peripheral T-cell lymphomas: A mRNA expression analysis. J Cell Mol Med 2021 Jan;25(1):84-95. PMID: 33259129
  • Wahl D, Cavalier AN, Smith M, Seals DR et al. Healthy Aging Interventions Reduce Repetitive Element Transcripts. J Gerontol A Biol Sci Med Sci 2021 Apr 30;76(5):805-810. PMID: 33257951
  • Amariuta T, Ishigaki K, Sugishita H, Ohta T et al. Improving the trans-ancestry portability of polygenic risk scores by prioritizing variants in predicted cell-type-specific regulatory elements. Nat Genet 2020 Dec;52(12):1346-1354. PMID: 33257898
  • Kovaka S, Fan Y, Ni B, Timp W et al. Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED. Nat Biotechnol 2021 Apr;39(4):431-441. PMID: 33257863
  • Crowell HL, Soneson C, Germain PL, Calini D et al. muscat detects subpopulation-specific state transitions from multi-sample multi-condition single-cell transcriptomics data. Nat Commun 2020 Nov 30;11(1):6077. PMID: 33257685
  • Olah M, Menon V, Habib N, Taga MF et al. Single cell RNA sequencing of human microglia uncovers a subset associated with Alzheimer's disease. Nat Commun 2020 Nov 30;11(1):6129. PMID: 33257666
  • Zhang L, Silva TC, Young JI, Gomez L et al. Epigenome-wide meta-analysis of DNA methylation differences in prefrontal cortex implicates the immune processes in Alzheimer's disease. Nat Commun 2020 Nov 30;11(1):6114. PMID: 33257653
  • Radlicka A, Kamińska K, Borczyk M, Piechota M et al. Effects of L-DOPA on Gene Expression in the Frontal Cortex of Rats with Unilateral Lesions of Midbrain Dopaminergic Neurons. eNeuro 2021 Jan-Feb;8(1). PMID: 33257528
  • Liu K, Mou Y, Shi X, Liu T et al. Circular RNA 100146 Promotes Colorectal Cancer Progression by the MicroRNA 149/HMGA2 Axis. Mol Cell Biol 2021 Jan 25;41(2). PMID: 33257506
  • Fang K, Li Q, Wei Y, Zhou C et al. Prediction and Validation of Mouse Meiosis-Essential Genes Based on Spermatogenesis Proteome Dynamics. Mol Cell Proteomics 2021;20:100014. PMID: 33257503
  • Miao Y, Lu J, Fan B, Sun L et al. MicroRNA-126-5p Inhibits the Migration of Breast Cancer Cells by Directly Targeting CNOT7. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820977545. PMID: 33256566
  • Tian WJ, Liu SS, Li BR et al. The Combined Detection of Immune Genes for Predicting the Prognosis of Patients With Non-Small Cell Lung Cancer. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820977504. PMID: 33256552
  • Zhang H, San ML, Jang SG, Lee JH et al. Genome-Wide Association Study of Root System Development at Seedling Stage in Rice. Genes (Basel) 2020 Nov 25;11(12). PMID: 33255557
  • Silveira DA, Ribeiro FM, Simão ÉM, Mattos VLD et al. Expression of genes and pathways associated with the B7-CD28 superfamily in response to irradiation of blood cells using (137)Cs. Int J Radiat Biol 2021;97(2):149-155. PMID: 33253600
  • Qin Y, Zhang W, Sun X, Nan S et al. Deconvolution of heterogeneous tumor samples using partial reference signals. PLoS Comput Biol 2020 Nov;16(11):e1008452. PMID: 33253170
  • Tanaka A, Ishitsuka Y, Ohta H, Fujimoto A et al. Systematic clustering algorithm for chromatin accessibility data and its application to hematopoietic cells. PLoS Comput Biol 2020 Nov;16(11):e1008422. PMID: 33253153
  • Yan YM, Zheng JN, Li Y, Yang QR et al. Insulin-like growth factor binding protein 7 as a candidate biomarker for systemic sclerosis. Clin Exp Rheumatol 2021 Jul-Aug;39 Suppl 131(4):66-76. PMID: 33253093
  • Dong M, Yang Z, Li X, Zhang Z et al. Screening of Methylation Gene Sites as Prognostic Signature in Lung Adenocarcinoma. Yonsei Med J 2020 Dec;61(12):1013-1023. PMID: 33251775
  • Jafarinejad-Farsangi S, Jazi MM, Rostamzadeh F, Hadizadeh M et al. High affinity of host human microRNAs to SARS-CoV-2 genome: An in silico analysis. Noncoding RNA Res 2020 Dec;5(4):222-231. PMID: 33251388
  • Loontiens S, Dolens AC, Strubbe S, Van de Walle I et al. PHF6 Expression Levels Impact Human Hematopoietic Stem Cell Differentiation. Front Cell Dev Biol 2020;8:599472. PMID: 33251223
  • Adamo A, Delfino P, Gatti A, Bonato A et al. HS-5 and HS-27A Stromal Cell Lines to Study Bone Marrow Mesenchymal Stromal Cell-Mediated Support to Cancer Development. Front Cell Dev Biol 2020;8:584232. PMID: 33251214
  • Tang S, Wang Y, Xie G, Li W et al. Regulation of Ptch1 by miR-342-5p and FoxO3 Induced Autophagy Involved in Renal Fibrosis. Front Bioeng Biotechnol 2020;8:583318. PMID: 33251198
  • Wei FZ, Mei SW, Wang ZJ, Chen JN et al. Differential Expression Analysis Revealing CLCA1 to Be a Prognostic and Diagnostic Biomarker for Colorectal Cancer. Front Oncol 2020;10:573295. PMID: 33251137
  • Liu YZ, Han DT, Shi DR, Hong B et al. Pathological significance of abnormal recepteur d'origine nantais and programmed death ligand 1 expression in colorectal cancer. World J Gastrointest Oncol 2020 Nov 15;12(11):1216-1236. PMID: 33250957
  • De Donato M, Babini G, Mozzetti S, Buttarelli M et al. KLF7: a new candidate biomarker and therapeutic target for high-grade serous ovarian cancer. J Exp Clin Cancer Res 2020 Nov 30;39(1):265. PMID: 33250051
  • Song S, He X, Wang J, Song H et al. A novel long noncoding RNA, TMEM92-AS1, promotes gastric cancer progression by binding to YBX1 to mediate CCL5. Mol Oncol 2021 Apr;15(4):1256-1273. PMID: 33247987
  • Patra BG, Soltanalizadeh B, Deng N, Wu L et al. An informatics research platform to make public gene expression time-course datasets reusable for more scientific discoveries. Database (Oxford) 2020 Nov 28;2020. PMID: 33247935
  • Jiao WB, Patel V, Klasen J, Liu F et al. The Evolutionary Dynamics of Genetic Incompatibilities Introduced by Duplicated Genes in Arabidopsis thaliana. Mol Biol Evol 2021 Apr 13;38(4):1225-1240. PMID: 33247726
  • Yi X, Chen W, Li C, Chen X et al. Circular RNA circ_0004507 contributes to laryngeal cancer progression and cisplatin resistance by sponging miR-873 to upregulate multidrug resistance 1 and multidrug resistance protein 1. Head Neck 2021 Mar;43(3):928-941. PMID: 33247530
  • Tu MM, Abdel-Hafiz HA, Jones RT, Jean A et al. Inhibition of the CCL2 receptor, CCR2, enhances tumor response to immune checkpoint therapy. Commun Biol 2020 Nov 27;3(1):720. PMID: 33247183
  • Shi B, Gao D, Zhong L, Zhi M et al. IRF-1 expressed in the inner cell mass of the porcine early blastocyst enhances the pluripotency of induced pluripotent stem cells. Stem Cell Res Ther 2020 Nov 27;11(1):505. PMID: 33246502
  • Lu B, Jin H, Fu J et al. Molecular convergent and parallel evolution among four high-elevation anuran species from the Tibetan region. BMC Genomics 2020 Nov 27;21(1):839. PMID: 33246413
  • Bhandari S, Li R, Simón-Santamaría J, McCourt P et al. Transcriptome and proteome profiling reveal complementary scavenger and immune features of rat liver sinusoidal endothelial cells and liver macrophages. BMC Mol Cell Biol 2020 Nov 27;21(1):85. PMID: 33246411
  • Meisig J, Dreser N, Kapitza M, Henry M et al. Kinetic modeling of stem cell transcriptome dynamics to identify regulatory modules of normal and disturbed neuroectodermal differentiation. Nucleic Acids Res 2020 Dec 16;48(22):12577-12592. PMID: 33245762
  • Oh CK, Ko Y, Park JJ, Heo HJ et al. FRZB as a key molecule in abdominal aortic aneurysm progression affecting vascular integrity. Biosci Rep 2021 Jan 29;41(1). PMID: 33245093
  • Zhu L, Wu W, Jiang S, Yu S et al. Pan-Cancer Analysis of the Mitophagy-Related Protein PINK1 as a Biomarker for the Immunological and Prognostic Role. Front Oncol 2020;10:569887. PMID: 33244455
  • Xu C, Gu L, Kuerbanjiang M, Wen S et al. Thrombospondin 2/Toll-Like Receptor 4 Axis Contributes to HIF-1α-Derived Glycolysis in Colorectal Cancer. Front Oncol 2020;10:557730. PMID: 33244454
  • Huang X, Tao Y, Gao J, Zhou X et al. UBC9 coordinates inflammation affecting development of bladder cancer. Sci Rep 2020 Nov 26;10(1):20670. PMID: 33244139
  • Li G, Wang J, He X, Zhang L et al. An integrative analysis identifying transcriptional features and key genes involved in COVID-19. Epigenomics 2020 Nov;12(22):1969-1981. PMID: 33242255
  • Zhang H, Prins J, Vreeken D, Florijn BW et al. Comprehensive analysis of neuronal guidance cue expression regulation during monocyte-to-macrophage differentiation reveals post-transcriptional regulation of semaphorin7A by the RNA-binding protein quaking. Innate Immun 2021 Feb;27(2):118-132. PMID: 33241976
  • Kanagaki S, Ikeo S, Suezawa T, Yamamoto Y et al. Directed induction of alveolar type I cells derived from pluripotent stem cells via Wnt signaling inhibition. Stem Cells 2021 Feb;39(2):156-169. PMID: 33241896
  • Jia Y, Zhang M, Li P, Tang W et al. Bioinformatics analysis of long non-coding RNAs involved in nerve regeneration following sciatic nerve injury. Mol Pain 2020 Jan-Dec;16:1744806920971918. PMID: 33241745
  • Wu Z, Shou L, Wang J, Huang T et al. The Methylation Pattern for Knee and Hip Osteoarthritis. Front Cell Dev Biol 2020;8:602024. PMID: 33240895
  • Zhu L, Yu S, Jiang S, Ge G et al. Loss of HOXB3 correlates with the development of hormone receptor negative breast cancer. PeerJ 2020;8:e10421. PMID: 33240685
  • Yang M, Song B, Liu J, Bing Z et al. Gene signature for prognosis in comparison of pancreatic cancer patients with diabetes and non-diabetes. PeerJ 2020;8:e10297. PMID: 33240632
  • Dai H, Guo L, Lin M, Cheng Z et al. Comprehensive analysis and identification of key genes and signaling pathways in the occurrence and metastasis of cutaneous melanoma. PeerJ 2020;8:e10265. PMID: 33240619
  • Meng J, Su R, Liao Y, Li Y et al. Identification of 10 Hub genes related to the progression of colorectal cancer by co-expression analysis. PeerJ 2020;8:e9633. PMID: 33240582
  • Ly L, Chan D, Landry M, Angle C et al. Impact of mothers' early life exposure to low or high folate on progeny outcome and DNA methylation patterns. Environ Epigenet 2020;6(1):dvaa018. PMID: 33240529
  • Lin J, Huang P, Chen W, Ye C et al. Key Molecules and Pathways Underlying Sporadic Amyotrophic Lateral Sclerosis: Integrated Analysis on Gene Expression Profiles of Motor Neurons. Front Genet 2020;11:578143. PMID: 33240324
  • Zhou X, Qiu S, Jin D, Jin K et al. Development and Validation of an Individualized Immune-Related Gene Pairs Prognostic Signature in Papillary Renal Cell Carcinoma. Front Genet 2020;11:569884. PMID: 33240321
  • Du S, Guan S, Zhu C, Guo Q et al. Secretory Pathway Kinase FAM20C, a Marker for Glioma Invasion and Malignancy, Predicts Poor Prognosis of Glioma. Onco Targets Ther 2020;13:11755-11768. PMID: 33239887
  • Melaiu O, Chierici M, Lucarini V, Jurman G et al. Cellular and gene signatures of tumor-infiltrating dendritic cells and natural-killer cells predict prognosis of neuroblastoma. Nat Commun 2020 Nov 25;11(1):5992. PMID: 33239635
  • Hodos RA, Strub MD, Ramachandran S, Li L et al. Integrative genomic meta-analysis reveals novel molecular insights into cystic fibrosis and ΔF508-CFTR rescue. Sci Rep 2020 Nov 25;10(1):20553. PMID: 33239626
  • Bertozzi TM, Elmer JL, Macfarlan TS, Ferguson-Smith AC et al. KRAB zinc finger protein diversification drives mammalian interindividual methylation variability. Proc Natl Acad Sci U S A 2020 Dec 8;117(49):31290-31300. PMID: 33239447
  • Chan AP, Choi Y, Schork NJ et al. Conserved Genomic Terminals of SARS-CoV-2 as Coevolving Functional Elements and Potential Therapeutic Targets. mSphere 2020 Nov 25;5(6). PMID: 33239366
  • Zhang H, Madi A, Yosef N, Chihara N et al. An IL-27-Driven Transcriptional Network Identifies Regulators of IL-10 Expression across T Helper Cell Subsets. Cell Rep 2020 Nov 24;33(8):108433. PMID: 33238123
  • Christian DL, Wu DY, Martin JR, Moore JR et al. DNMT3A Haploinsufficiency Results in Behavioral Deficits and Global Epigenomic Dysregulation Shared across Neurodevelopmental Disorders. Cell Rep 2020 Nov 24;33(8):108416. PMID: 33238114
  • Jiang L, Zhang M, Wang S, Xiao Y et al. LINC01018 and SMIM25 sponged miR-182-5p in endometriosis revealed by the ceRNA network construction. Int J Immunopathol Pharmacol 2020 Jan-Dec;34:2058738420976309. PMID: 33237828
  • Hernandez-Meza G, von Felden J, Gonzalez-Kozlova EE, Garcia-Lezana T et al. DNA Methylation Profiling of Human Hepatocarcinogenesis. Hepatology 2021 Jul;74(1):183-199. PMID: 33237575
  • Zaidan NZ, Sridharan R et al. HP1γ regulates H3K36 methylation and pluripotency in embryonic stem cells. Nucleic Acids Res 2020 Dec 16;48(22):12660-12674. PMID: 33237287
  • Yang CA, Chiang BL et al. Inflammasomes and Childhood Autoimmune Diseases: A Review of Current Knowledge. Clin Rev Allergy Immunol 2021 Oct;61(2):156-170. PMID: 33236284
  • Bu F, Zhu X, Zhu J, Liu Z et al. Bioinformatics Analysis Identifies a Novel Role of GINS1 Gene in Colorectal Cancer. Cancer Manag Res 2020;12:11677-11687. PMID: 33235499
  • Smith AK, Ratanatharathorn A, Maihofer AX, Naviaux RK et al. Epigenome-wide meta-analysis of PTSD across 10 military and civilian cohorts identifies methylation changes in AHRR. Nat Commun 2020 Nov 24;11(1):5965. PMID: 33235198
  • Cen J, Chen J, Qiu Y, Zeng W et al. Bioinformatic analysis of the pathogenic mechanism of talaromyces marneffei infection. Medicine (Baltimore) 2020 Nov 25;99(48):e23409. PMID: 33235120
  • Song J, Zhu J, Chen W, Zhu G et al. Expression profiles revealed potential kidney injury caused by SARS-CoV-2: a systematic analysis of ACE2 and clinical lessons learned from this discovery. Aging (Albany NY) 2020 Nov 21;13(8):10821-10832. PMID: 33234728
  • Khodabandehloo F, Taleahmad S, Aflatoonian R, Rajaei F et al. Microarray analysis identification of key pathways and interaction network of differential gene expressions during osteogenic differentiation. Hum Genomics 2020 Nov 25;14(1):43. PMID: 33234152
  • Yan Q, Xiao Q, Ge J, Wu C et al. Bioinformatics-Based Research on Key Genes and Pathways of Intervertebral Disc Degeneration. Cartilage 2021 Dec;13(2_suppl):582S-591S. PMID: 33233925
  • He J, Zhou Y, Arredondo Carrera HM, Sprules A et al. Inhibiting the P2X4 Receptor Suppresses Prostate Cancer Growth In Vitro and In Vivo, Suggesting a Potential Clinical Target. Cells 2020 Nov 20;9(11). PMID: 33233569
  • Reimann M, Schrezenmeier J, Richter-Pechanska P, Dolnik A et al. Adaptive T-cell immunity controls senescence-prone MyD88- or CARD11-mutant B-cell lymphomas. Blood 2021 May 20;137(20):2785-2799. PMID: 33232972
  • Samuel RM, Majd H, Richter MN, Ghazizadeh Z et al. Androgen Signaling Regulates SARS-CoV-2 Receptor Levels and Is Associated with Severe COVID-19 Symptoms in Men. Cell Stem Cell 2020 Dec 3;27(6):876-889.e12. PMID: 33232663
  • Ren X, Chen X, Ji Y, Li L et al. Upregulation of KIF20A promotes tumor proliferation and invasion in renal clear cell carcinoma and is associated with adverse clinical outcome. Aging (Albany NY) 2020 Nov 24;12(24):25878-25894. PMID: 33232285
  • Jiang L, Zhang M, Wu J, Wang S et al. Exploring diagnostic m6A regulators in endometriosis. Aging (Albany NY) 2020 Nov 24;12(24):25916-25938. PMID: 33232273
  • Li L, Williams P, Gao Z, Wang Y et al. VEZF1-guanine quadruplex DNA interaction regulates alternative polyadenylation and detyrosinase activity of VASH1. Nucleic Acids Res 2020 Dec 2;48(21):11994-12003. PMID: 33231681
  • Yagi K, Mitstui M, Zamami Y, Niimura T et al. Investigation of drugs affecting hypertension in bevacizumab-treated patients and examination of the impact on the therapeutic effect. Cancer Med 2021 Jan;10(1):164-172. PMID: 33231381
  • Yang J, Liu P, Ma D, Zhao P et al. Glucocorticoid resistance induced by ANXA5 overexpression in B-cell acute lymphoblastic leukemia. Pediatr Hematol Oncol 2021 Feb;38(1):36-48. PMID: 33231128
  • Ding B, Fan W, Lou W et al. hsa_circ_0001955 Enhances In Vitro Proliferation, Migration, and Invasion of HCC Cells through miR-145-5p/NRAS Axis. Mol Ther Nucleic Acids 2020 Dec 4;22:445-455. PMID: 33230448
  • Jin L, Chen Y, Crossman DK, Datta A et al. STRAP regulates alternative splicing fidelity during lineage commitment of mouse embryonic stem cells. Nat Commun 2020 Nov 23;11(1):5941. PMID: 33230114
  • Liang T, Zhou X, Li P, You G et al. DZIP3 is a key factor to stratify IDH1 wild-type lower-grade gliomas. Aging (Albany NY) 2020 Nov 21;12(24):24995-25004. PMID: 33229627
  • Ke HM, Lee HH, Lin CI, Liu YC et al. Mycena genomes resolve the evolution of fungal bioluminescence. Proc Natl Acad Sci U S A 2020 Dec 8;117(49):31267-31277. PMID: 33229585
  • Cheng J, Liu HP, Lin WY, Tsai FJ et al. Identification of contributing genes of Huntington's disease by machine learning. BMC Med Genomics 2020 Nov 23;13(1):176. PMID: 33228685
  • Zhang Z, Zheng S, Lin Y, Sun J et al. Genomics and prognosis analysis of epithelial-mesenchymal transition in colorectal cancer patients. BMC Cancer 2020 Nov 23;20(1):1135. PMID: 33228590
  • Klümper N, von Danwitz M, Stein J, Schmidt D et al. Downstream Neighbor of SON (DONSON) Expression Is Enhanced in Phenotypically Aggressive Prostate Cancers. Cancers (Basel) 2020 Nov 19;12(11). PMID: 33228112
  • Pisano A, Griñan-Lison C, Farace C, Fiorito G et al. The Inhibitory Role of miR-486-5p on CSC Phenotype Has Diagnostic and Prognostic Potential in Colorectal Cancer. Cancers (Basel) 2020 Nov 19;12(11). PMID: 33227890
  • Ren Z, Zhang L, Ding W, Luo Y et al. Development and validation of a novel survival model for head and neck squamous cell carcinoma based on autophagy-related genes. Genomics 2021 Jan;113(1 Pt 2):1166-1175. PMID: 33227411
  • Ball G, Seidlitz J, O'Muircheartaigh J, Dimitrova R et al. Cortical morphology at birth reflects spatiotemporal patterns of gene expression in the fetal human brain. PLoS Biol 2020 Nov;18(11):e3000976. PMID: 33226978
  • Tan Z, Lei Y, Xu J, Shi S et al. The value of a metabolic reprogramming-related gene signature for pancreatic adenocarcinoma prognosis prediction. Aging (Albany NY) 2020 Nov 20;12(23):24228-24241. PMID: 33226369
  • Chen TH, Chiu JY, Shih KH et al. A 23-gene prognostic classifier for prediction of recurrence and survival for Asian breast cancer patients. Biosci Rep 2020 Dec 23;40(12). PMID: 33226082
  • Tang J, Chisholm SA, Yeoh LM, Gilson PR et al. Histone modifications associated with gene expression and genome accessibility are dynamically enriched at Plasmodium falciparum regulatory sequences. Epigenetics Chromatin 2020 Nov 23;13(1):50. PMID: 33225957
  • Chen QL, Xia L, Zhong SP, Wang Q et al. Bioinformatic analysis identifies key transcriptome signatures in temporal lobe epilepsy. CNS Neurosci Ther 2020 Dec;26(12):1266-1277. PMID: 33225612
  • Wang Q, Zhang Q, Li Q, Zhang J et al. Clinicopathological and immunological characterization of RNA m(6) A methylation regulators in ovarian cancer. Mol Genet Genomic Med 2021 Jan;9(1):e1547. PMID: 33225598
  • Wang YH, Lin CC, Hsu CL, Hung SY et al. Distinct clinical and biological characteristics of acute myeloid leukemia with higher expression of long noncoding RNA KIAA0125. Ann Hematol 2021 Feb;100(2):487-498. PMID: 33225420
  • Xu S, Zhou J, Liu K, Chen Z et al. A Recurrence-Specific Gene-Based Prognosis Prediction Model for Lung Adenocarcinoma through Machine Learning Algorithm. Biomed Res Int 2020;2020:9124792. PMID: 33224985
  • Zeng Z, Lin X, Xia T, Liu W et al. Identification of Crucial lncRNAs, miRNAs, mRNAs, and Potential Therapeutic Compounds for Polycystic Ovary Syndrome by Bioinformatics Analysis. Biomed Res Int 2020;2020:1817094. PMID: 33224973
  • Zhang S, Liu Z, Wu D, Chen L et al. Single-Cell RNA-Seq Analysis Reveals Microenvironmental Infiltration of Plasma Cells and Hepatocytic Prognostic Markers in HCC With Cirrhosis. Front Oncol 2020;10:596318. PMID: 33224891
  • Cai Y, Chen K, Cheng C, Xu Y et al. Prp19 Is an Independent Prognostic Marker and Promotes Neuroblastoma Metastasis by Regulating the Hippo-YAP Signaling Pathway. Front Oncol 2020;10:575366. PMID: 33224878
  • Liu Y, Jin ZR, Huang X, Che YC et al. Identification of Spindle and Kinetochore-Associated Family Genes as Therapeutic Targets and Prognostic Biomarkers in Pancreas Ductal Adenocarcinoma Microenvironment. Front Oncol 2020;10:553536. PMID: 33224872
  • Zador Z, Landry AP, Saha A, Cusimano MD et al. Gene Expression Signatures Identify Biologically Homogenous Subgroups of Grade 2 Meningiomas. Front Oncol 2020;10:541928. PMID: 33224871
  • Sergeeva O, Zhang Y, Kenyon J, Miller-Atkins G et al. Liver background uptake of [(18)F]FLT in PET imaging. Am J Nucl Med Mol Imaging 2020;10(5):212-225. PMID: 33224617
  • Turjya RR, Khan MA, Mir Md Khademul Islam AB et al. Perversely expressed long noncoding RNAs can alter host response and viral proliferation in SARS-CoV-2 infection. Future Virol 2020 Sep;15(9):577-593. PMID: 33224264
  • Zamanian-Azodi M, Rezaei-Tavirani M, Rezaei-Tavirani M et al. Investigating the Effects of Ibuprofen on the Gene Expression Profile in Hippocampus of Mice Model of Alzheimer's Disease through Bioinformatics Analysis. Iran J Pharm Res 2020 Spring;19(2):352-359. PMID: 33224242
  • Gao Y, Zhao C, Wang J, Li H et al. The potential biomarkers for the formation and development of intracranial aneurysm. J Clin Neurosci 2020 Nov;81:270-278. PMID: 33222929
  • Zhang M, Guo B et al. Use of bioinformatic analyses in identifying characteristic genes and mechanisms active in the progression of idiopathic thrombocytopenic purpura in individuals with different phenotypes. J Int Med Res 2020 Nov;48(11):300060520971437. PMID: 33222560
  • Zhao X, Zhang X, Zhang Z, Liu Z et al. Comprehensive circular RNA expression profiling constructs a ceRNA network and identifies hsa_circ_0000673 as a novel oncogene in distal cholangiocarcinoma. Aging (Albany NY) 2020 Nov 18;12(22):23251-23274. PMID: 33221765
  • Gao Q, Li Z, Meng L, Ma J et al. Transcriptome profiling reveals an integrated mRNA-lncRNA signature with predictive value for long-term survival in diffuse large B-cell lymphoma. Aging (Albany NY) 2020 Nov 18;12(22):23275-23295. PMID: 33221755
  • Zhang J, Sun H, Liu S, Huang W et al. Alteration of tumor-associated macrophage subtypes mediated by KRT6A in pancreatic ductal adenocarcinoma. Aging (Albany NY) 2020 Nov 18;12(22):23217-23232. PMID: 33221741
  • Salem NA, Mahnke AH, Tseng AM, Garcia CR et al. A novel Oct4/Pou5f1-like non-coding RNA controls neural maturation and mediates developmental effects of ethanol. Neurotoxicol Teratol 2021 Jan-Feb;83:106943. PMID: 33221301
  • Bonavita E, Bromley CP, Jonsson G, Pelly VS et al. Antagonistic Inflammatory Phenotypes Dictate Tumor Fate and Response to Immune Checkpoint Blockade. Immunity 2020 Dec 15;53(6):1215-1229.e8. PMID: 33220234
  • Lan Y, Sun R, Ouyang J, Ding W et al. AtMAD: Arabidopsis thaliana multi-omics association database. Nucleic Acids Res 2021 Jan 8;49(D1):D1445-D1451. PMID: 33219693
  • Noura M, Morita K, Kiyose H, Matsuo H et al. Pivotal role of DPYSL2A in KLF4-mediated monocytic differentiation of acute myeloid leukemia cells. Sci Rep 2020 Nov 20;10(1):20245. PMID: 33219287
  • Mehtonen J, Teppo S, Lahnalampi M, Kokko A et al. Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1-positive pediatric leukemia identifies drug-targetable transcription factor activities. Genome Med 2020 Nov 20;12(1):99. PMID: 33218352
  • Joshi M, Kim J, D'Alessandro A, Monk E et al. CPT1A Over-Expression Increases Reactive Oxygen Species in the Mitochondria and Promotes Antioxidant Defenses in Prostate Cancer. Cancers (Basel) 2020 Nov 18;12(11). PMID: 33218188
  • Nilsson JS, Sobti A, Swoboda S, Erjefält JS et al. Immune Phenotypes of Nasopharyngeal Cancer. Cancers (Basel) 2020 Nov 18;12(11). PMID: 33218184
  • Schabort JJ, Nam AR, Lee KH, Kim SW et al. ANK2 Hypermethylation in Canine Mammary Tumors and Human Breast Cancer. Int J Mol Sci 2020 Nov 18;21(22). PMID: 33218035
  • Weng CF, Huang CJ, Wu MH, Lee HH et al. Co-Expression of Coxsackievirus/Adenovirus Receptors and Desmoglein 2 in Lung Adenocarcinoma: A Comprehensive Analysis of Bioinformatics and Tissue Microarrays. J Clin Med 2020 Nov 18;9(11). PMID: 33217893
  • Huang SF, Lin JC, Shiau AC, Chen YC et al. Optimal tumor coverage with different beam energies by IMRT, VMAT and TOMO: Effects on patients with proximal gastric cancer. Medicine (Baltimore) 2020 Nov 20;99(47):e23328. PMID: 33217871
  • Zeng Y, He T, Liu J, Li Z et al. Bioinformatics analysis of multi-omics data identifying molecular biomarker candidates and epigenetically regulatory targets associated with retinoblastoma. Medicine (Baltimore) 2020 Nov 20;99(47):e23314. PMID: 33217867
  • Lu R, Zhang YG, Xia Y, Zhang J et al. Paneth Cell Alertness to Pathogens Maintained by Vitamin D Receptors. Gastroenterology 2021 Mar;160(4):1269-1283. PMID: 33217447
  • Nicolai L, Leunig A, Brambs S, Kaiser R et al. Vascular neutrophilic inflammation and immunothrombosis distinguish severe COVID-19 from influenza pneumonia. J Thromb Haemost 2021 Feb;19(2):574-581. PMID: 33217134
  • Teng L, Huang Y, Guo J, Li B et al. Cardiac fibroblast miR-27a may function as an endogenous anti-fibrotic by negatively regulating Early Growth Response Protein 3 (EGR3). J Cell Mol Med 2021 Jan;25(1):73-83. PMID: 33215816
  • Chucair-Elliott AJ, Ocañas SR, Stanford DR, Ansere VA et al. Inducible cell-specific mouse models for paired epigenetic and transcriptomic studies of microglia and astroglia. Commun Biol 2020 Nov 19;3(1):693. PMID: 33214681
  • Liu L, Bi E, Ma X, Xiong W et al. Enhanced CAR-T activity against established tumors by polarizing human T cells to secrete interleukin-9. Nat Commun 2020 Nov 19;11(1):5902. PMID: 33214555
  • Liu Y, Chen Q, Zhang N, Zhang K et al. Proteomic profiling and genome-wide mapping of O-GlcNAc chromatin-associated proteins reveal an O-GlcNAc-regulated genotoxic stress response. Nat Commun 2020 Nov 19;11(1):5898. PMID: 33214551
  • Rai MA, Hammonds J, Pujato M, Mayhew C et al. Comparative analysis of human microglial models for studies of HIV replication and pathogenesis. Retrovirology 2020 Nov 19;17(1):35. PMID: 33213476
  • Leroy S, Even S, Micheau P, de La Foye A et al. Transcriptomic Analysis of Staphylococcus xylosus in Solid Dairy Matrix Reveals an Aerobic Lifestyle Adapted to Rind. Microorganisms 2020 Nov 17;8(11). PMID: 33212972
  • Krug K, Jaehnig EJ, Satpathy S, Blumenberg L et al. Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy. Cell 2020 Nov 25;183(5):1436-1456.e31. PMID: 33212010
  • Wu F, Chen W, Kang X, Jin L et al. A seven-nuclear receptor-based prognostic signature in breast cancer. Clin Transl Oncol 2021 Jul;23(7):1292-1303. PMID: 33210236
  • He L, Chen J, Xu F, Li J et al. Prognostic Implication of a Metabolism-Associated Gene Signature in Lung Adenocarcinoma. Mol Ther Oncolytics 2020 Dec 16;19:265-277. PMID: 33209981
  • Petersen CL, Chen JQ, Salas LA, Christensen BC et al. Altered immune phenotype and DNA methylation in panic disorder. Clin Epigenetics 2020 Nov 18;12(1):177. PMID: 33208194
  • Feng X, Chen L, Wang Z, Li SC et al. I-Impute: a self-consistent method to impute single cell RNA sequencing data. BMC Genomics 2020 Nov 18;21(Suppl 10):618. PMID: 33208097
  • Zhao J, Zhu Y, Han J, Lin YW et al. Genome-Scale Metabolic Modeling Reveals Metabolic Alterations of Multidrug-Resistant Acinetobacter baumannii in a Murine Bloodstream Infection Model. Microorganisms 2020 Nov 16;8(11). PMID: 33207684
  • Tsai JC, Casteneda G, Lee A, Dereschuk K et al. Identification and Characterization of the Intra-Articular Microbiome in the Osteoarthritic Knee. Int J Mol Sci 2020 Nov 16;21(22). PMID: 33207573
  • Coate KC, Cha J, Shrestha S, Wang W et al. SARS-CoV-2 Cell Entry Factors ACE2 and TMPRSS2 Are Expressed in the Microvasculature and Ducts of Human Pancreas but Are Not Enriched in β Cells. Cell Metab 2020 Dec 1;32(6):1028-1040.e4. PMID: 33207245
  • Kusmartseva I, Wu W, Syed F, Van Der Heide V et al. Expression of SARS-CoV-2 Entry Factors in the Pancreas of Normal Organ Donors and Individuals with COVID-19. Cell Metab 2020 Dec 1;32(6):1041-1051.e6. PMID: 33207244
  • Rexach JE, Polioudakis D, Yin A, Swarup V et al. Tau Pathology Drives Dementia Risk-Associated Gene Networks toward Chronic Inflammatory States and Immunosuppression. Cell Rep 2020 Nov 17;33(7):108398. PMID: 33207193
  • Younes ST, Herrington B et al. In silico analysis identifies a putative cell-of-origin for BRAF fusion-positive cerebellar pilocytic astrocytoma. PLoS One 2020;15(11):e0242521. PMID: 33206716
  • Minn KT, Fu YC, He S, Dietmann S et al. High-resolution transcriptional and morphogenetic profiling of cells from micropatterned human ESC gastruloid cultures. Elife 2020 Nov 18;9. PMID: 33206048
  • Cabbia A, Hilbers PAJ, van Riel NAW et al. A Distance-Based Framework for the Characterization of Metabolic Heterogeneity in Large Sets of Genome-Scale Metabolic Models. Patterns (N Y) 2020 Sep 11;1(6):100080. PMID: 33205127
  • Shah N, Li J, Li F, Chen W et al. An Experiment on Ab Initio Discovery of Biological Knowledge from scRNA-Seq Data Using Machine Learning. Patterns (N Y) 2020 Aug 14;1(5):100071. PMID: 33205121
  • Hinckley WE, Brusslan JA et al. Gene expression changes occurring at bolting time are associated with leaf senescence in Arabidopsis. Plant Direct 2020 Nov;4(11):e00279. PMID: 33204935
  • Zhao X, Tang Y, Ren H, Lei Y et al. Identification of Prognosis-Related Genes in Bladder Cancer Microenvironment across TCGA Database. Biomed Res Int 2020;2020:9143695. PMID: 33204728
  • Liu X, Chen F, Tan F, Li F et al. Construction of a Potential Breast Cancer-Related miRNA-mRNA Regulatory Network. Biomed Res Int 2020;2020:6149174. PMID: 33204705
  • Xue W, Li J, Fu K, Teng W et al. Differential Expression of mRNAs in Peripheral Blood Related to Prodrome and Progression of Alzheimer's Disease. Biomed Res Int 2020;2020:4505720. PMID: 33204697
  • Zhong Y, Liu Z, Li D, Liao Q et al. Identification and Validation of a Potential Prognostic 7-lncRNA Signature for Predicting Survival in Patients with Multiple Myeloma. Biomed Res Int 2020;2020:3813546. PMID: 33204693
  • Sui S, An X, Xu C, Li Z et al. An immune cell infiltration-based immune score model predicts prognosis and chemotherapy effects in breast cancer. Theranostics 2020;10(26):11938-11949. PMID: 33204321
  • Zhu R, Guo W, Xu XJ, Zhu L et al. An Integrating Immune-Related Signature to Improve Prognosis of Hepatocellular Carcinoma. Comput Math Methods Med 2020;2020:8872329. PMID: 33204302
  • Brocker CN, Kim D, Melia T, Karri K et al. Long non-coding RNA Gm15441 attenuates hepatic inflammasome activation in response to PPARA agonism and fasting. Nat Commun 2020 Nov 17;11(1):5847. PMID: 33203882
  • Pietrobono S, Anichini G, Sala C, Manetti F et al. ST3GAL1 is a target of the SOX2-GLI1 transcriptional complex and promotes melanoma metastasis through AXL. Nat Commun 2020 Nov 17;11(1):5865. PMID: 33203881
  • Liu Q, Zaba LC, Satpathy AT, Longmire M et al. Chromatin accessibility landscapes of skin cells in systemic sclerosis nominate dendritic cells in disease pathogenesis. Nat Commun 2020 Nov 17;11(1):5843. PMID: 33203843
  • Zhu Q, Ren H, Li X, Qian B et al. Silencing KIF14 reverses acquired resistance to sorafenib in hepatocellular carcinoma. Aging (Albany NY) 2020 Nov 16;12(22):22975-23003. PMID: 33203790
  • Chen T, Zhao L et al. Patrolling monocytes inhibit osteosarcoma metastasis to the lung. Aging (Albany NY) 2020 Nov 16;12(22):23004-23016. PMID: 33203789
  • Deng Y, Xu Y, Xu S, Zhang Y et al. Secondary data mining of GEO database for long non-coding RNA and Competing endogenous RNA network in keloid-prone individuals. Aging (Albany NY) 2020 Nov 16;12(24):25076-25089. PMID: 33203788
  • Liu S, de Medeiros MC, Fernandez EM, Zarins KR et al. 5-Hydroxymethylation highlights the heterogeneity in keratinization and cell junctions in head and neck cancers. Clin Epigenetics 2020 Nov 17;12(1):175. PMID: 33203436
  • Dong K, Yang M, Han J, Ma Q et al. Genomic analysis of worldwide sheep breeds reveals PDGFD as a major target of fat-tail selection in sheep. BMC Genomics 2020 Nov 17;21(1):800. PMID: 33203382
  • Hu X, Tang L, Wang L, Wu FX et al. MADA: a web service for analysing DNA methylation array data. BMC Bioinformatics 2020 Nov 18;21(Suppl 6):403. PMID: 33203349
  • Hu KQuick, Coordinated and Authentic Reprogramming of Ribosome Biogenesis during iPSC Reprogramming. Cells 2020 Nov 15;9(11). PMID: 33203179
  • Papadaki V, Asada K, Watson JK, Tamura T et al. Two Secreted Proteoglycans, Activators of Urothelial Cell-Cell Adhesion, Negatively Contribute to Bladder Cancer Initiation and Progression. Cancers (Basel) 2020 Nov 13;12(11). PMID: 33202923
  • Marzec M, Situmorang A, Brewer PB, Brąszewska A et al. Diverse Roles of MAX1 Homologues in Rice. Genes (Basel) 2020 Nov 13;11(11). PMID: 33202900
  • Tang J, Luo Y, Wu G et al. A glycolysis-related gene expression signature in predicting recurrence of breast cancer. Aging (Albany NY) 2020 Nov 16;12(24):24983-24994. PMID: 33201835
  • Nie F, Bi H, Zhang C, Ding P et al. Differentiation potential and mRNA profiles of human dedifferentiated adipose cells and&nbsp;adipose‑derived stem cells from young donors. Mol Med Rep 2021 Jan;23(1). PMID: 33200799
  • Zuo C, Chen L et al. Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data. Brief Bioinform 2021 Jul 20;22(4). PMID: 33200787
  • Yussof A, Yoon P, Krkljes C, Schweinberg S et al. A meta-analysis of the effect of binge drinking on the oral microbiome and its relation to Alzheimer's disease. Sci Rep 2020 Nov 16;10(1):19872. PMID: 33199776
  • Helmsauer K, Valieva ME, Ali S, Chamorro González R et al. Enhancer hijacking determines extrachromosomal circular MYCN amplicon architecture in neuroblastoma. Nat Commun 2020 Nov 16;11(1):5823. PMID: 33199677
  • Guo HY, Guo MK, Wan ZY, Song F et al. Emerging evidence on noncoding-RNA regulatory machinery in intervertebral disc degeneration: a narrative review. Arthritis Res Ther 2020 Nov 16;22(1):270. PMID: 33198793
  • Hall-Roberts H, Agarwal D, Obst J, Smith TB et al. TREM2 Alzheimer's variant R47H causes similar transcriptional dysregulation to knockout, yet only subtle functional phenotypes in human iPSC-derived macrophages. Alzheimers Res Ther 2020 Nov 16;12(1):151. PMID: 33198789
  • Colombo C, Minna E, Gargiuli C, Muzza M et al. The molecular and gene/miRNA expression profiles of radioiodine resistant papillary thyroid cancer. J Exp Clin Cancer Res 2020 Nov 16;39(1):245. PMID: 33198784
  • Zhao C, Zhang N, Zhang Y, Tuersunjiang N et al. A DNA methylation state transition model reveals the programmed epigenetic heterogeneity in human pre-implantation embryos. Genome Biol 2020 Nov 16;21(1):277. PMID: 33198783
  • Wu D, Zhang P, Li F, Shen Y et al. CD138(-) multiple myeloma cells express high level of CHK1 which correlated to overall survival in MM patient. Aging (Albany NY) 2020 Nov 10;12(22):23067-23081. PMID: 33197893
  • Zhai X, Wang W, Ma Y, Zeng Y et al. Serum KIAA1199 is an advanced-stage prognostic biomarker and metastatic oncogene in cholangiocarcinoma. Aging (Albany NY) 2020 Nov 10;12(23):23761-23777. PMID: 33197891
  • Kumar V, Sekar M, Sarkar P, Acharya KK et al. Dynamics of HOX gene expression and regulation in adipocyte development. Gene 2021 Feb 5;768:145308. PMID: 33197517
  • Chai P, Yu J, Jia R, Wen X et al. Generation of onco-enhancer enhances chromosomal remodeling and accelerates tumorigenesis. Nucleic Acids Res 2020 Dec 2;48(21):12135-12150. PMID: 33196849
  • Wu L, Quan W, Luo Q, Pan Y et al. Identification of an Immune-Related Prognostic Predictor in Hepatocellular Carcinoma. Front Mol Biosci 2020;7:567950. PMID: 33195412
  • Zhou C, Wang Y, Lei L, Ji MH et al. Identifying Common Genes Related to Platelet and Immunity for Lung Adenocarcinoma Prognosis Prediction. Front Mol Biosci 2020;7:563142. PMID: 33195410
  • Jiawei Z, Min M, Yingru X, Xin Z et al. Identification of Key Genes in Lung Adenocarcinoma and Establishment of Prognostic Mode. Front Mol Biosci 2020;7:561456. PMID: 33195408
  • Guo Y, Mao X, Qiao Z, Chen B et al. A Novel Promoter CpG-Based Signature for Long-Term Survival Prediction of Breast Cancer Patients. Front Oncol 2020;10:579692. PMID: 33194705
  • Zhao Y, Tao Z, Chen X et al. Identification of the miRNA-mRNA regulatory pathways and a miR-21-5p based nomogram model in clear cell renal cell carcinoma. PeerJ 2020;8:e10292. PMID: 33194441
  • Zhong S, Chen H, Yang S, Feng J et al. Identification and validation of prognostic signature for breast cancer based on genes potentially involved in autophagy. PeerJ 2020;8:e9621. PMID: 33194339
  • Guo L, Chen Y, Wang J, Chen C et al. Down-regulation of UL16-binding protein 3 mediated by interferon-gamma impairs immune killing in nasopharyngeal carcinoma. Am J Transl Res 2020;12(10):6509-6523. PMID: 33194048
  • Lv Q, Ma C, Li H, Tan X et al. Circular RNA microarray expression profile and potential function of circ0005875 in clear cell renal cell carcinoma. J Cancer 2020;11(24):7146-7156. PMID: 33193877
  • Das T, Andrieux G, Ahmed M, Chakraborty S et al. Integration of Online Omics-Data Resources for Cancer Research. Front Genet 2020;11:578345. PMID: 33193699
  • Yang B, Zhang M, Luo T et al. Identification of Potential Core Genes Associated With the Progression of Stomach Adenocarcinoma Using Bioinformatic Analysis. Front Genet 2020;11:517362. PMID: 33193601
  • Pan X, Ma X et al. A Novel Six-Gene Signature for Prognosis Prediction in Ovarian Cancer. Front Genet 2020;11:1006. PMID: 33193589
  • Chen L, Shi L, Ma Y, Zheng C et al. Hub Genes Identification in a Murine Model of Allergic Rhinitis Based on Bioinformatics Analysis. Front Genet 2020;11:970. PMID: 33193578
  • Xue YN, Xue YN, Wang ZC, Mo YZ et al. A Novel Signature of 23 Immunity-Related Gene Pairs Is Prognostic of Cutaneous Melanoma. Front Immunol 2020;11:576914. PMID: 33193373
  • Dazhi W, Zheng J, Chunling R et al. High ELK3 expression is associated with the VEGF-C/VEGFR-3 axis and gastric tumorigenesis and enhances infiltration of M2 macrophages. Future Med Chem 2020 Dec;12(24):2209-2224. PMID: 33191789
  • Han X, Chen X, Han J, Zhong Y et al. MiR-324/SOCS3 Axis Protects Against Hypoxia/Reoxygenation-Induced Cardiomyocyte Injury and Regulates Myocardial Ischemia via TNF/NF-κB Signaling Pathway. Int Heart J 2020 Nov 28;61(6):1258-1269. PMID: 33191336
  • Park HS, Kim SY et al. Endothelial cell senescence: A machine learning-based meta-analysis of transcriptomic studies. Ageing Res Rev 2021 Jan;65:101213. PMID: 33189866
  • Bam M, Yang X, Busbee BP, Aiello AE et al. Increased H3K4me3 methylation and decreased miR-7113-5p expression lead to enhanced Wnt/β-catenin signaling in immune cells from PTSD patients leading to inflammatory phenotype. Mol Med 2020 Nov 14;26(1):110. PMID: 33189141
  • Jia L, Li F, Wei C, Zhu M et al. Prediction of Alzheimer's disease using multi-variants from a Chinese genome-wide association study. Brain 2021 Apr 12;144(3):924-937. PMID: 33188687
  • Zarattini M, Farjad M, Launay A, Cannella D et al. Every cloud has a silver lining: how abiotic stresses affect gene expression in plant-pathogen interactions. J Exp Bot 2021 Feb 24;72(4):1020-1033. PMID: 33188434
  • Caldwell AB, Liu Q, Schroth GP, Galasko DR et al. Dedifferentiation and neuronal repression define familial Alzheimer's disease. Sci Adv 2020 Nov;6(46). PMID: 33188013
  • Li Z, Qi F, Li F et al. Establishment of a Gene Signature to Predict Prognosis for Patients with Lung Adenocarcinoma. Int J Mol Sci 2020 Nov 11;21(22). PMID: 33187219
  • Bruno T, De Nicola F, Corleone G, Catena V et al. Che-1/AATF-induced transcriptionally active chromatin promotes cell proliferation in multiple myeloma. Blood Adv 2020 Nov 24;4(22):5616-5630. PMID: 33186461
  • Pichler KM, Weinmann D, Schmidt S, Kubista B et al. The Dysregulated Galectin Network Activates NF-κB to Induce Disease Markers and Matrix Degeneration in 3D Pellet Cultures of Osteoarthritic Chondrocytes. Calcif Tissue Int 2021 Mar;108(3):377-390. PMID: 33185768
  • Wang X, Hao D, Kadarmideen HN et al. GeneDMRs: An R Package for Gene-Based Differentially Methylated Regions Analysis. J Comput Biol 2021 Mar;28(3):304-316. PMID: 33185472
  • Jung US, Min KW, Kim DH, Kwon MJ et al. Suppression of ARID1A associated with decreased CD8 T cells improves cell survival of ovarian clear cell carcinoma. J Gynecol Oncol 2021 Jan;32(1):e3. PMID: 33185044
  • Mi K, Chen F, Qian Z, Chen J et al. Characterizing heterogeneity of non-small cell lung tumour microenvironment to identify signature prognostic genes. J Cell Mol Med 2020 Dec;24(24):14608-14618. PMID: 33184998
  • Ahmad S, Ahmed MM, Hasan PMZ, Sharma A et al. Identification and Validation of Potential miRNAs, as Biomarkers for Sepsis and Associated Lung Injury: A Network-Based Approach. Genes (Basel) 2020 Nov 10;11(11). PMID: 33182754
  • Song J, Zhao Q, Xu Y, Zhu L et al. A signature of 29 immune-related genes pairs to predict prognosis in patients with neuroblastoma. Int Immunopharmacol 2020 Nov;88:106994. PMID: 33182060
  • Zhang Z, Pan Q, Ge H, Xing L et al. Deep learning-based clustering robustly identified two classes of sepsis with both prognostic and predictive values. EBioMedicine 2020 Dec;62:103081. PMID: 33181462
  • Zou R, Xu H, Li F, Wang S et al. Increased Expression of UBE2T Predicting Poor Survival of Epithelial Ovarian Cancer: Based on Comprehensive Analysis of UBE2s, Clinical Samples, and the GEO Database. DNA Cell Biol 2021 Jan;40(1):36-60. PMID: 33180631
  • Li C, Yuan B, Yu X, Ju L et al. SLC19A1 May Serve as a Potential Biomarker for Diagnosis and Prognosis in Osteosarcoma. Clin Lab 2020 Nov 1;66(11). PMID: 33180421
  • Brunet MA, Lucier JF, Levesque M, Leblanc S et al. OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. Nucleic Acids Res 2021 Jan 8;49(D1):D380-D388. PMID: 33179748
  • Levine M, McDevitt RA, Meer M, Perdue K et al. A rat epigenetic clock recapitulates phenotypic aging and co-localizes with heterochromatin. Elife 2020 Nov 12;9. PMID: 33179594
  • Qiu X, Gu Y, Ni Y, Li Q et al. ID1 As a Prognostic Biomarker and Promising Drug Target Plays a Pivotal Role in Deterioration of Clear Cell Renal Cell Carcinoma. Biomed Res Int 2020;2020:2064582. PMID: 33178820
  • Huang NS, Lei BW, Tan LC, Yu PC et al. Mitotically associated long non-coding RNA is a tumor promoter in anaplastic thyroid cancer. Ann Transl Med 2020 Oct;8(19):1226. PMID: 33178758
  • Smyth LJ, Patterson CC, Swan EJ, Maxwell AP et al. DNA Methylation Associated With Diabetic Kidney Disease in Blood-Derived DNA. Front Cell Dev Biol 2020;8:561907. PMID: 33178681
  • Wang G, Guo S, Zhang W, Li Z et al. A Comprehensive Analysis of Alterations in DNA Damage Repair Pathways Reveals a Potential Way to Enhance the Radio-Sensitivity of Esophageal Squamous Cell Cancer. Front Oncol 2020;10:575711. PMID: 33178606
  • Duan H, He H, Hu Q, Lin Y et al. Comparison of regulatory networks of E74-like factor 1 and cold-shock domain-containing E1 in breast cancer cell lines using ChIP datasets. Exp Ther Med 2020 Dec;20(6):245. PMID: 33178343
  • Ricciardi L, Giurato G, Memoli D, Pietrafesa M et al. Posttranscriptional Gene Regulatory Networks in Chronic Airway Inflammatory Diseases: In silico Mapping of RNA-Binding Protein Expression in Airway Epithelium. Front Immunol 2020;11:579889. PMID: 33178205
  • Ishikawa A, Kuraoka K, Zaitsu J, Saito A et al. Loss of Annexin A10 Expression Is Associated with Poor Prognosis in Early Gastric Cancer. Acta Histochem Cytochem 2020 Oct 29;53(5):113-119. PMID: 33177783
  • Prompsy P, Kirchmeier P, Marsolier J, Deloger M et al. Interactive analysis of single-cell epigenomic landscapes with ChromSCape. Nat Commun 2020 Nov 11;11(1):5702. PMID: 33177523
  • He G, Fu S, Li Y, Li T et al. TCGA and ESTIMATE data mining to identify potential prognostic biomarkers in HCC patients. Aging (Albany NY) 2020 Nov 11;12(21):21544-21558. PMID: 33177245
  • Alafate W, Xu D, Wu W, Xiang J et al. Loss of PLK2 induces acquired resistance to temozolomide in GBM via activation of notch signaling. J Exp Clin Cancer Res 2020 Nov 11;39(1):239. PMID: 33176854
  • Norton DL, Ceppe A, Tune MK, McCravy M et al. Bronchoalveolar Tregs are associated with duration of mechanical ventilation in acute respiratory distress syndrome. J Transl Med 2020 Nov 11;18(1):427. PMID: 33176790
  • Carey KL, Paulus GLC, Wang L, Balce DR et al. TFEB Transcriptional Responses Reveal Negative Feedback by BHLHE40 and BHLHE41. Cell Rep 2020 Nov 10;33(6):108371. PMID: 33176151
  • Gelhausen R, Svensson SL, Froschauer K, Heyl F et al. HRIBO: high-throughput analysis of bacterial ribosome profiling data. Bioinformatics 2021 Aug 4;37(14):2061-2063. PMID: 33175953
  • Tian H, Billings T, Petkov PM et al. EWSR1 affects PRDM9-dependent histone 3 methylation and provides a link between recombination hotspots and the chromosome axis protein REC8. Mol Biol Cell 2021 Jan 1;32(1):1-14. PMID: 33175657
  • Cui Y, Guo W, Li Y, Shi J et al. Pan-cancer analysis identifies ESM1 as a novel oncogene for esophageal cancer. Esophagus 2021 Apr;18(2):326-338. PMID: 33175267
  • Zhang Q, Li L, Lai Y, Zhao T et al. Silencing of SPP1 Suppresses Progression of Tongue Cancer by Mediating the PI3K/Akt Signaling Pathway. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820971306. PMID: 33174521
  • Park HH, Park W, Lee YY, Kim H et al. Bioinspired DNase-I-Coated Melanin-Like Nanospheres for Modulation of Infection-Associated NETosis Dysregulation. Adv Sci (Weinh) 2020 Dec;7(23):2001940. PMID: 33173718
  • Xu H, Huang J, Hua S, Liang L et al. Interactome analysis of gene expression profiles identifies CDC6 as a potential therapeutic target modified by miR-215-5p in hepatocellular carcinoma. Int J Med Sci 2020;17(18):2926-2940. PMID: 33173413
  • Liu W, Zhu F, Yan J, Liu Y et al. Identification and Validation of STAT6 as a Prognostic and Predictive Biomarker in Acute Myeloid Leukemia. Onco Targets Ther 2020;13:11165-11176. PMID: 33173308
  • Yan X, Yang Y, Chen Z, Yin Z et al. H-RACS: a handy tool to rank anti-cancer synergistic drugs. Aging (Albany NY) 2020 Nov 10;12(21):21504-21517. PMID: 33173014
  • Matikas A, Zerdes I, Lövrot J, Sifakis E et al. PD-1 protein and gene expression as prognostic factors in early breast cancer. ESMO Open 2020 Nov;5(6):e001032. PMID: 33172959
  • Denkena J, Zaisser A, Merz B, Klinger B et al. Neuronal activity regulates alternative exon usage. Mol Brain 2020 Nov 10;13(1):148. PMID: 33172478
  • Starks RR, Abu Alhasan R, Kaur H, Pennington KA et al. Transcription Factor PLAGL1 Is Associated with Angiogenic Gene Expression in the Placenta. Int J Mol Sci 2020 Nov 6;21(21). PMID: 33171905
  • Fazeli S, Motovali-Bashi M, Peymani M, Hashemi MS et al. A compound downregulation of SRRM2 and miR-27a-3p with upregulation of miR-27b-3p in PBMCs of Parkinson's patients is associated with the early stage onset of disease. PLoS One 2020;15(11):e0240855. PMID: 33171483
  • Mo W, Ding Y, Zhao S, Zou D et al. Identification of a 6-gene signature for the survival prediction of breast cancer patients based on integrated multi-omics data analysis. PLoS One 2020;15(11):e0241924. PMID: 33170908
  • Han W, Huang B, Zhao XY, Shen GL et al. Data mining of immune-related prognostic genes in metastatic melanoma microenvironment. Biosci Rep 2020 Nov 27;40(11). PMID: 33169786
  • Taniguchi-Ponciano K, Andonegui-Elguera S, Peña-Martínez E, Silva-Román G et al. Transcriptome and methylome analysis reveals three cellular origins of pituitary tumors. Sci Rep 2020 Nov 9;10(1):19373. PMID: 33168897
  • Hwang YS, Suzuki S, Seita Y, Ito J et al. Reconstitution of prospermatogonial specification in vitro from human induced pluripotent stem cells. Nat Commun 2020 Nov 9;11(1):5656. PMID: 33168808
  • Sequeira I, Rashid M, Tomás IM, Williams MJ et al. Genomic landscape and clonal architecture of mouse oral squamous cell carcinomas dictate tumour ecology. Nat Commun 2020 Nov 9;11(1):5671. PMID: 33168804
  • Kling T, Wenger A, Carén H et al. DNA methylation-based age estimation in pediatric healthy tissues and brain tumors. Aging (Albany NY) 2020 Nov 9;12(21):21037-21056. PMID: 33168783
  • Hu B, Wei Q, Zhou C, Ju M et al. Analysis of immune subtypes based on immunogenomic profiling identifies prognostic signature for cutaneous melanoma. Int Immunopharmacol 2020 Dec;89(Pt A):107162. PMID: 33168410
  • Zhao X, Gao S, Kajigaya S, Liu Q et al. Comprehensive analysis of single-cell RNA sequencing data from healthy human marrow hematopoietic cells. BMC Res Notes 2020 Nov 10;13(1):514. PMID: 33168060
  • Albanesi J, Noguera NI, Banella C, Colangelo T et al. Transcriptional and Metabolic Dissection of ATRA-Induced Granulocytic Differentiation in NB4 Acute Promyelocytic Leukemia Cells. Cells 2020 Nov 5;9(11). PMID: 33167477
  • Tworowski D, Gorohovski A, Mukherjee S, Carmi G et al. COVID19 Drug Repository: text-mining the literature in search of putative COVID19 therapeutics. Nucleic Acids Res 2021 Jan 8;49(D1):D1113-D1121. PMID: 33166390
  • Luo Y, Fefelova E, Ninova M, Chen YA et al. Repression of interrupted and intact rDNA by the SUMO pathway in Drosophila melanogaster. Elife 2020 Nov 9;9. PMID: 33164748
  • Xu JS, Liao KL, Wang X, He J et al. Combining bioinformatics techniques to explore the molecular mechanisms involved in pancreatic cancer metastasis and prognosis. J Cell Mol Med 2020 Dec;24(24):14128-14138. PMID: 33164330
  • Wang Z, Zhang N, Lv J, Ma C et al. A Five-Gene Signature for Recurrence Prediction of Hepatocellular Carcinoma Patients. Biomed Res Int 2020;2020:4037639. PMID: 33163533
  • Huang Y, Lin L, Shen Z, Li Y et al. CEBPG promotes esophageal squamous cell carcinoma progression by enhancing PI3K-AKT signaling. Am J Cancer Res 2020;10(10):3328-3344. PMID: 33163273
  • Tang YQ, Chen TF, Zhang Y, Zhao XC et al. The tumor immune microenvironment transcriptomic subtypes of colorectal cancer for prognosis and development of precise immunotherapy. Gastroenterol Rep (Oxf) 2020 Oct;8(5):381-389. PMID: 33163194
  • Sun CC, Lai YN, Wang WH, Xu XM et al. Metformin Ameliorates Gestational Diabetes Mellitus-Induced Endothelial Dysfunction via Downregulation of p65 and Upregulation of Nrf2. Front Pharmacol 2020;11:575390. PMID: 33162888
  • Cai Q, Shi P, Yuan Y, Peng J et al. Inflammation-Associated Senescence Promotes Helicobacter pylori-Induced Atrophic Gastritis. Cell Mol Gastroenterol Hepatol 2021;11(3):857-880. PMID: 33161156
  • Qi H, Yao C, Xing J, Qin Y et al. Hypoxia-induced GPR4 suppresses trophoblast cell migration and proliferation through the MAPK signaling pathway. Reprod Toxicol 2021 Jan;99:1-8. PMID: 33161135
  • Potdar AA, Dube S, Naito T, Li K et al. Altered Intestinal ACE2 Levels Are Associated With Inflammation, Severe Disease, and Response to Anti-Cytokine Therapy in Inflammatory Bowel Disease. Gastroenterology 2021 Feb;160(3):809-822.e7. PMID: 33160965
  • Nakagawa S, Yamashita YI, Umezaki N, Yamao T et al. Four gene intrahepatic metastasis-risk signature predicts hepatocellular carcinoma malignant potential and early recurrence from intrahepatic metastasis. Surgery 2021 Apr;169(4):903-910. PMID: 33160638
  • Bannaga AS, Metzger J, Kyrou I, Voigtländer T et al. Discovery, validation and sequencing of urinary peptides for diagnosis of liver fibrosis-A multicentre study. EBioMedicine 2020 Dec;62:103083. PMID: 33160210
  • Li W, Lu H, Wang H, Ning X et al. Circular RNA TGFBR2 acts as a ceRNA to suppress nasopharyngeal carcinoma progression by sponging miR-107. Cancer Lett 2021 Feb 28;499:301-313. PMID: 33160003
  • Claudinot S, Sakabe JI, Oshima H, Gonneau C et al. Tp63-expressing adult epithelial stem cells cross lineages boundaries revealing latent hairy skin competence. Nat Commun 2020 Nov 6;11(1):5645. PMID: 33159086
  • Xue Y, Ding MQ, Lu X et al. Learning to encode cellular responses to systematic perturbations with deep generative models. NPJ Syst Biol Appl 2020 Nov 6;6(1):35. PMID: 33159077
  • Rust K, Byrnes LE, Yu KS, Park JS et al. A single-cell atlas and lineage analysis of the adult Drosophila ovary. Nat Commun 2020 Nov 6;11(1):5628. PMID: 33159074
  • Avila Cobos F, Alquicira-Hernandez J, Powell JE, Mestdagh P et al. Benchmarking of cell type deconvolution pipelines for transcriptomics data. Nat Commun 2020 Nov 6;11(1):5650. PMID: 33159064
  • Ni K, Ren J, Xu X, He Y et al. LSH mediates gene repression through macroH2A deposition. Nat Commun 2020 Nov 6;11(1):5647. PMID: 33159050
  • Polak A, Bialopiotrowicz E, Krzymieniewska B, Wozniak J et al. SYK inhibition targets acute myeloid leukemia stem cells by blocking their oxidative metabolism. Cell Death Dis 2020 Nov 6;11(11):956. PMID: 33159047
  • Liu X, Qin J, Gao T, Li C et al. Analysis of METTL3 and METTL14 in hepatocellular carcinoma. Aging (Albany NY) 2020 Nov 6;12(21):21638-21659. PMID: 33159022
  • Wu R, Wang C, Li Z, Xiao J et al. SOX2 promotes resistance of melanoma with PD-L1 high expression to T-cell-mediated cytotoxicity that can be reversed by SAHA. J Immunother Cancer 2020 Nov;8(2). PMID: 33158915
  • Zhang S, Peng R, Xin R, Shen X et al. Conjoint analysis for hepatic carcinoma with hub genes and multi-slice spiral CT. Medicine (Baltimore) 2020 Nov 6;99(45):e23099. PMID: 33157984
  • Zhou Y, Hou Y, Shen J, Mehra R et al. A network medicine approach to investigation and population-based validation of disease manifestations and drug repurposing for COVID-19. PLoS Biol 2020 Nov;18(11):e3000970. PMID: 33156843
  • Chen H, Zhang X, Liao N, Ji Y et al. Identification of NLRP3 Inflammation-Related Gene Promoter Hypomethylation in Diabetic Retinopathy. Invest Ophthalmol Vis Sci 2020 Nov 2;61(13):12. PMID: 33156339
  • Deng R, Guo Y, Li L, He J et al. BAP1 suppresses prostate cancer progression by deubiquitinating and stabilizing PTEN. Mol Oncol 2021 Jan;15(1):279-298. PMID: 33155366
  • Caruso FP, Garofano L, D'Angelo F, Yu K et al. A map of tumor-host interactions in glioma at single-cell resolution. Gigascience 2020 Oct 14;9(10). PMID: 33155039
  • Dong X, Zhang D, Zhang J, Chen X et al. Immune prognostic risk score model in acute myeloid leukemia with normal karyotype. Oncol Lett 2020 Dec;20(6):380. PMID: 33154778
  • Fu H, Sun Y, Shao Y, Saredy J et al. Interleukin 35 Delays Hindlimb Ischemia-Induced Angiogenesis Through Regulating ROS-Extracellular Matrix but Spares Later Regenerative Angiogenesis. Front Immunol 2020;11:595813. PMID: 33154757
  • Lee Y, Shivashankar GV et al. Analysis of transcriptional modules during human fibroblast ageing. Sci Rep 2020 Nov 5;10(1):19086. PMID: 33154459
  • Petrova V, Pearson CS, Ching J, Tribble JR et al. Protrudin functions from the endoplasmic reticulum to support axon regeneration in the adult CNS. Nat Commun 2020 Nov 5;11(1):5614. PMID: 33154382
  • Nora EP, Caccianini L, Fudenberg G, So K et al. Molecular basis of CTCF binding polarity in genome folding. Nat Commun 2020 Nov 5;11(1):5612. PMID: 33154377
  • Stoll L, Rodríguez-Trejo A, Guay C, Brozzi F et al. A circular RNA generated from an intron of the insulin gene controls insulin secretion. Nat Commun 2020 Nov 5;11(1):5611. PMID: 33154349
  • Wang Y, Yan K, Lin J, Wang J et al. Three-gene risk model in papillary renal cell carcinoma: a robust likelihood-based survival analysis. Aging (Albany NY) 2020 Nov 5;12(21):21854-21873. PMID: 33154194
  • Tang Q, Chen J, Di Z, Yuan W et al. TM4SF1 promotes EMT and cancer stemness via the Wnt/β-catenin/SOX2 pathway in colorectal cancer. J Exp Clin Cancer Res 2020 Nov 5;39(1):232. PMID: 33153498
  • Peng L, Sang H, Wei S, Li Y et al. circCUL2 regulates gastric cancer malignant transformation and cisplatin resistance by modulating autophagy activation via miR-142-3p/ROCK2. Mol Cancer 2020 Nov 5;19(1):156. PMID: 33153478
  • Qi X, Qi C, Wu T, Hu Y et al. CSF1R and HCST: Novel Candidate Biomarkers Predicting the Response to Immunotherapy in Non-Small Cell Lung Cancer. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820970663. PMID: 33153411
  • Lei X, Jing J, Zhang M, Guan B et al. Bioinformatic Identification of Hub Genes and Analysis of Prognostic Values in Colorectal Cancer. Nutr Cancer 2021;73(11-12):2568-2578. PMID: 33153324
  • Jia Y, Zou J, Wang Y, Zhang X et al. Action mechanism of Roman chamomile in the treatment of anxiety disorder based on network pharmacology. J Food Biochem 2021 Jan;45(1):e13547. PMID: 33152801
  • Fang L, Li Y, Ma L, Xu Q et al. GRNdb: decoding the gene regulatory networks in diverse human and mouse conditions. Nucleic Acids Res 2021 Jan 8;49(D1):D97-D103. PMID: 33151298
  • Pignarre A, Chatonnet F, Caron G, Haas M et al. Plasmablasts derive from CD23- activated B cells after the extinction of IL-4/STAT6 signaling and IRF4 induction. Blood 2021 Mar 4;137(9):1166-1180. PMID: 33150420
  • Zou J, Duan D, Yu C, Pan J et al. Mining the potential prognostic value of synaptosomal-associated protein 25 (SNAP25) in colon cancer based on stromal-immune score. PeerJ 2020;8:e10142. PMID: 33150073
  • Zhu H, Zhu X, Liu Y, Jiang F et al. Gene Expression Profiling of Type 2 Diabetes Mellitus by Bioinformatics Analysis. Comput Math Methods Med 2020;2020:9602016. PMID: 33149760
  • Dong Y, Li S, Sun X, Wang Y et al. Desmoglein 3 and Keratin 14 for Distinguishing Between Lung Adenocarcinoma and Lung Squamous Cell Carcinoma. Onco Targets Ther 2020;13:11111-11124. PMID: 33149622
  • Conlon TM, John-Schuster G, Heide D, Pfister D et al. Inhibition of LTβR signalling activates WNT-induced regeneration in lung. Nature 2020 Dec;588(7836):151-156. PMID: 33149305
  • Wang J, Dao FT, Yang L, Qin YZ et al. Characterization of somatic mutation-associated microenvironment signatures in acute myeloid leukemia patients based on TCGA analysis. Sci Rep 2020 Nov 4;10(1):19037. PMID: 33149230
  • Hauberg ME, Creus-Muncunill J, Bendl J, Kozlenkov A et al. Common schizophrenia risk variants are enriched in open chromatin regions of human glutamatergic neurons. Nat Commun 2020 Nov 4;11(1):5581. PMID: 33149216
  • Yu X, Xiao J, Chen S, Yu Y et al. Metabolite signatures of diverse Camellia sinensis tea populations. Nat Commun 2020 Nov 4;11(1):5586. PMID: 33149146
  • Moreira-Teixeira L, Stimpson PJ, Stavropoulos E, Hadebe S et al. Type I IFN exacerbates disease in tuberculosis-susceptible mice by inducing neutrophil-mediated lung inflammation and NETosis. Nat Commun 2020 Nov 4;11(1):5566. PMID: 33149141
  • Rey R, Suaud-Chagny MF, Dorey JM, Teyssier JR et al. Widespread transcriptional disruption of the microRNA biogenesis machinery in brain and peripheral tissues of individuals with schizophrenia. Transl Psychiatry 2020 Nov 4;10(1):376. PMID: 33149139
  • Brown RJP, Tegtmeyer B, Sheldon J, Khera T et al. Liver-expressed Cd302 and Cr1l limit hepatitis C virus cross-species transmission to mice. Sci Adv 2020 Nov;6(45). PMID: 33148654
  • Lyu W, Jia B, Liu W, Guo Q et al. [Cathepsin S (CTSS) is highly expressed in temozolomide-resistant glioblastoma T98G cells and associated with poor prognosis]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2020 Oct;36(10):924-929. PMID: 33148388
  • Lee WC, Reuben A, Hu X, McGranahan N et al. Multiomics profiling of primary lung cancers and distant metastases reveals immunosuppression as a common characteristic of tumor cells with metastatic plasticity. Genome Biol 2020 Nov 4;21(1):271. PMID: 33148332
  • Yin Z, Wu D, Shi J, Wei X et al. Identification of ALDH3A2 as a novel prognostic biomarker in gastric adenocarcinoma using integrated bioinformatics analysis. BMC Cancer 2020 Nov 4;20(1):1062. PMID: 33148208
  • Tu H, Li J, Lin L, Wang L et al. COL11A1 Was Involved in Cell Proliferation, Apoptosis and Migration in Non-Small Cell Lung Cancer Cells. J Invest Surg 2021 Jun;34(6):664-669. PMID: 33148075
  • Zhu Y, Bo H, Chen Z, Li J et al. LINC00968 can inhibit the progression of lung adenocarcinoma through the miR-21-5p/SMAD7 signal axis. Aging (Albany NY) 2020 Nov 4;12(21):21904-21922. PMID: 33147570
  • Mabe NW, Garcia NMG, Wolery SE, Newcomb R et al. G9a Promotes Breast Cancer Recurrence through Repression of a Pro-inflammatory Program. Cell Rep 2020 Nov 3;33(5):108341. PMID: 33147463
  • Leach SM, Gibbings SL, Tewari AD, Atif SM et al. Human and Mouse Transcriptome Profiling Identifies Cross-Species Homology in Pulmonary and Lymph Node Mononuclear Phagocytes. Cell Rep 2020 Nov 3;33(5):108337. PMID: 33147458
  • Yu X, Guo J, Zhou Q, Huang W et al. A novel immune-related prognostic index for predicting breast cancer overall survival. Breast Cancer 2021 Mar;28(2):434-447. PMID: 33146847
  • Wang CQ, Wang XM, Li BL, Zhang YM et al. Arbutin suppresses osteosarcoma progression via miR-338-3p/MTHFD1L and inactivation of the AKT/mTOR pathway. FEBS Open Bio 2021 Jan;11(1):289-299. PMID: 33146000
  • Xu L, Chen J, Jia L, Chen X et al. SLC1A3 promotes gastric cancer progression via the PI3K/AKT signalling pathway. J Cell Mol Med 2020 Dec;24(24):14392-14404. PMID: 33145952
  • Cappetta M, Fernandez L, Brignoni L, Artagaveytia N et al. Discovery of novel DNA methylation biomarkers for non-invasive sporadic breast cancer detection in the Latino population. Mol Oncol 2021 Feb;15(2):473-486. PMID: 33145876
  • Li Z, Liu J, Wang W, Zhao Y et al. Investigation of hub genes involved in diabetic nephropathy using biological informatics methods. Ann Transl Med 2020 Sep;8(17):1087. PMID: 33145306
  • Yang S, Ye Z, Wang Z, Wang L et al. High mobility group box 2 modulates the progression of osteosarcoma and is related with poor prognosis. Ann Transl Med 2020 Sep;8(17):1082. PMID: 33145301
  • Bi S, Liu R, Shen Y, Gu J et al. Bioinformatics analysis of key genes and miRNAs associated with Stanford type A aortic dissection. J Thorac Dis 2020 Sep;12(9):4842-4853. PMID: 33145057
  • Mu T, Xu L, Zhong Y, Liu X et al. Embryonic liver developmental trajectory revealed by single-cell RNA sequencing in the Foxa2(eGFP) mouse. Commun Biol 2020 Nov 3;3(1):642. PMID: 33144666
  • Tunbak H, Enriquez-Gasca R, Tie CHC, Gould PA et al. The HUSH complex is a gatekeeper of type I interferon through epigenetic regulation of LINE-1s. Nat Commun 2020 Nov 3;11(1):5387. PMID: 33144593
  • Deng X, Xiong W, Jiang X, Zhang S et al. LncRNA LINC00472 regulates cell stiffness and inhibits the migration and invasion of lung adenocarcinoma by binding to YBX1. Cell Death Dis 2020 Nov 3;11(11):945. PMID: 33144579
  • Cyrta J, Augspach A, De Filippo MR, Prandi D et al. Role of specialized composition of SWI/SNF complexes in prostate cancer lineage plasticity. Nat Commun 2020 Nov 3;11(1):5549. PMID: 33144576
  • Quach BC, Bray MJ, Gaddis NC, Liu M et al. Expanding the genetic architecture of nicotine dependence and its shared genetics with multiple traits. Nat Commun 2020 Nov 3;11(1):5562. PMID: 33144568
  • Zhao D, Zhang L, Zhang M, Xia B et al. Broad genic repression domains signify enhanced silencing of oncogenes. Nat Commun 2020 Nov 3;11(1):5560. PMID: 33144558
  • Wu L, Zhao G, Xu S, Kuang J et al. The nuclear factor CECR2 promotes somatic cell reprogramming by reorganizing the chromatin structure. J Biol Chem 2021 Jan-Jun;296:100022. PMID: 33144328
  • Fu C, Yang S, Yang X, Lian X et al. Human Gene Functional Network-Informed Prediction of HIV-1 Host Dependency Factors. mSystems 2020 Nov 3;5(6). PMID: 33144314
  • Fang K, Huang W, Sun YM, Chen TQ et al. Cis-acting lnc-eRNA SEELA directly binds histone H4 to promote histone recognition and leukemia progression. Genome Biol 2020 Nov 3;21(1):269. PMID: 33143730
  • Guscetti F, Nassiri S, Beebe E, Rito Brandao I et al. Molecular homology between canine spontaneous oral squamous cell carcinomas and human head-and-neck squamous cell carcinomas reveals disease drivers and therapeutic vulnerabilities. Neoplasia 2020 Dec;22(12):778-788. PMID: 33142242
  • Congras A, Hoareau-Aveilla C, Caillet N, Tosolini M et al. ALK-transformed mature T lymphocytes restore early thymus progenitor features. J Clin Invest 2020 Dec 1;130(12):6395-6408. PMID: 33141118
  • Zhang Y, Liang C, Zhang Y, Wang Z et al. The role of FOXD2-AS1 in cancer: a comprehensive study based on data mining and published articles. Biosci Rep 2020 Nov 27;40(11). PMID: 33140822
  • Kang J, Shen X, Yang L, Feng S et al. Screening of potential biomarkers in the occurrence and development of type 1 diabetes mellitus based on transcriptome analysis. Endokrynol Pol 2020;71(1):58-65. PMID: 33140399
  • Warren RL, Birol I et al. Retrospective in silico HLA predictions from COVID-19 patients reveal alleles associated with disease prognosis. medRxiv 2020 Nov 2 PMID: 33140057
  • Djurkin Kušec I, Bošković I, Zorc M, Gvozdanović K et al. Genomic Characterization of the Istrian Shorthaired Hound. Animals (Basel) 2020 Nov 1;10(11). PMID: 33139624
  • Schönung M, Meyer J, Nöllke P, Olshen AB et al. International Consensus Definition of DNA Methylation Subgroups in Juvenile Myelomonocytic Leukemia. Clin Cancer Res 2021 Jan 1;27(1):158-168. PMID: 33139265
  • Xu C, Su W, Jiang X et al. Identification of Differentially Expressed Genes and Signaling Pathways in Glioma by Integrated Bioinformatics Analysis. J Craniofac Surg 2020 Nov/Dec;31(8):2360-2363. PMID: 33136891
  • Sandmann S, Wöste M, de Graaf AO, Burkhardt B et al. CopyDetective: Detection threshold-aware copy number variant calling in whole-exome sequencing data. Gigascience 2020 Nov 2;9(11). PMID: 33135740
  • Zhao L, Li Y, Zhang Z, Zou J et al. Meta-analysis based gene expression profiling reveals functional genes in ovarian cancer. Biosci Rep 2020 Nov 27;40(11). PMID: 33135729
  • Wang X, Zhao X, Shi L, Wu Y et al. IL6 pretreatment promotes chemosensitivity by eliminating quiescent cancer (stem) cells in lung adenocarcinoma. Clin Transl Med 2020 Oct;10(6):e217. PMID: 33135338
  • Smeriglio P, Grandi FC, Taylor SEB, Zalc A et al. TET1 Directs Chondrogenic Differentiation by Regulating SOX9 Dependent Activation of Col2a1 and Acan In Vitro. JBMR Plus 2020 Aug;4(8):e10383. PMID: 33134768
  • Chen X, Zhang D, Jiang F, Shen Y et al. Prognostic Prediction Using a Stemness Index-Related Signature in a Cohort of Gastric Cancer. Front Mol Biosci 2020;7:570702. PMID: 33134315
  • Huang Y, Li J, Chen Y, Jiang P et al. Identification of Early Recurrence Factors in Childhood and Adolescent B-Cell Acute Lymphoblastic Leukemia Based on Integrated Bioinformatics Analysis. Front Oncol 2020;10:565455. PMID: 33134167
  • Qian S, Sun S, Zhang L, Tian S et al. Integrative Analysis of DNA Methylation Identified 12 Signature Genes Specific to Metastatic ccRCC. Front Oncol 2020;10:556018. PMID: 33134164
  • Leblanc S, Brunet MA et al. Modelling of pathogen-host systems using deeper ORF annotations and transcriptomics to inform proteomics analyses. Comput Struct Biotechnol J 2020;18:2836-2850. PMID: 33133425
  • Yan S, Fang J, Zhu Y, Xie Y et al. Comprehensive analysis of prognostic immune-related genes associated with the tumor microenvironment of pancreatic ductal adenocarcinoma. Oncol Lett 2020 Dec;20(6):366. PMID: 33133266
  • Lyu Y, Chen X, Xia Q, Zhang S et al. Network Pharmacology-Based Study on the Mechanism of Pinellia ternata in Asthma Treatment. Evid Based Complement Alternat Med 2020;2020:9732626. PMID: 33133221
  • Li DH, Su YF, Sun CX, Fan HF et al. A Network Pharmacology-Based Identification Study on the Mechanism of Xiao-Xu-Ming Decoction for Cerebral Ischemic Stroke. Evid Based Complement Alternat Med 2020;2020:2507074. PMID: 33133212
  • Li J, Zhou J, Kai S, Wang C et al. Functional and Clinical Characterization of Tumor-Infiltrating T Cell Subpopulations in Hepatocellular Carcinoma. Front Genet 2020;11:586415. PMID: 33133170
  • Huang Y, Zheng Y, Yin J, Lu T et al. Reconstructing the Developmental Trajectories of Multiple Subtypes in Pulmonary Parenchymal Epithelial Cells by Single-Cell RNA-seq. Front Genet 2020;11:573429. PMID: 33133163
  • Khatri I, Bhasin MK et al. A Transcriptomics-Based Meta-Analysis Combined With Machine Learning Identifies a Secretory Biomarker Panel for Diagnosis of Pancreatic Adenocarcinoma. Front Genet 2020;11:572284. PMID: 33133160
  • Shou Y, Yang L, Yang Y, Zhu X et al. Identification of Signatures of Prognosis Prediction for Melanoma Using a Hypoxia Score. Front Genet 2020;11:570530. PMID: 33133157
  • Zhong W, Huang C, Lin J, Zhu M et al. Development and Validation of Nine-RNA Binding Protein Signature Predicting Overall Survival for Kidney Renal Clear Cell Carcinoma. Front Genet 2020;11:568192. PMID: 33133154
  • Song H, Ding N, Li S, Liao J et al. Identification of Hub Genes Associated With Hepatocellular Carcinoma Using Robust Rank Aggregation Combined With Weighted Gene Co-expression Network Analysis. Front Genet 2020;11:895. PMID: 33133125
  • Shi L, Han X, Li JX, Liao YT et al. Identification of differentially expressed genes in ulcerative colitis and verification in a colitis mouse model by bioinformatics analyses. World J Gastroenterol 2020 Oct 21;26(39):5983-5996. PMID: 33132649
  • Vavougios GDOverlapping host pathways between SARS-CoV-2 and its potential copathogens: An in silico analysis. Infect Genet Evol 2020 Dec;86:104602. PMID: 33132111
  • Li Q, Wang Y, Xu L, Wang L et al. High level of CD10 expression is associated with poor overall survival in patients with head and neck cancer. Int J Oral Maxillofac Surg 2021 Jul;50(7):857-864. PMID: 33131987
  • Pang Q, Wang Y, Bi D, Lu H et al. LRRC75A-AS1 targets miR-199b-5p/PDCD4 axis to repress multiple myeloma. Cancer Biol Ther 2020 Nov 1;21(11):1051-1059. PMID: 33131397
  • Ungaro RC, Hu L, Ji J, Nayar S et al. Machine learning identifies novel blood protein predictors of penetrating and stricturing complications in newly diagnosed paediatric Crohn's disease. Aliment Pharmacol Ther 2021 Jan;53(2):281-290. PMID: 33131065
  • Wang Y, Zhou Z, Chen L, Li Y et al. Identification of key genes and biological pathways in lung adenocarcinoma via bioinformatics analysis. Mol Cell Biochem 2021 Feb;476(2):931-939. PMID: 33130972
  • Zhang S, Bao Y, Shen X, Pan Y et al. RNA binding motif protein 10 suppresses lung cancer progression by controlling alternative splicing of eukaryotic translation initiation factor 4H. EBioMedicine 2020 Nov;61:103067. PMID: 33130397
  • Pais Ferreira D, Silva JG, Wyss T, Fuertes Marraco SA et al. Central memory CD8(+) T cells derive from stem-like Tcf7(hi) effector cells in the absence of cytotoxic differentiation. Immunity 2020 Nov 17;53(5):985-1000.e11. PMID: 33128876
  • Fan R, Kim YS, Wu J, Chen R et al. Wnt/Beta-catenin/Esrrb signalling controls the tissue-scale reorganization and maintenance of the pluripotent lineage during murine embryonic diapause. Nat Commun 2020 Oct 30;11(1):5499. PMID: 33127892
  • Kong J, Lee H, Kim D, Han SK et al. Network-based machine learning in colorectal and bladder organoid models predicts anti-cancer drug efficacy in patients. Nat Commun 2020 Oct 30;11(1):5485. PMID: 33127883
  • Mandric I, Schwarz T, Majumdar A, Hou K et al. Optimized design of single-cell RNA sequencing experiments for cell-type-specific eQTL analysis. Nat Commun 2020 Oct 30;11(1):5504. PMID: 33127880
  • Chen X, Xiong Y, Liu Y, Chen Y et al. m5CPred-SVM: a novel method for predicting m5C sites of RNA. BMC Bioinformatics 2020 Oct 30;21(1):489. PMID: 33126851
  • Kim EY, Ahn HS, Lee MY, Yu J et al. An Exploratory Pilot Study with Plasma Protein Signatures Associated with Response of Patients with Depression to Antidepressant Treatment for 10 Weeks. Biomedicines 2020 Oct 28;8(11). PMID: 33126421
  • Dai JJ, Zhou WB, Wang B et al. Identification of crucial genes associated with lung adenocarcinoma by bioinformatic analysis. Medicine (Baltimore) 2020 Oct 30;99(44):e23052. PMID: 33126397
  • Wang X, Wang X, Huang G, Chen Y et al. Lower expression of LINC00092 in lung adenocarcinoma might mean poorer prognosis: A study based on data mining and bioinformatics. Medicine (Baltimore) 2020 Oct 30;99(44):e23012. PMID: 33126385
  • Seethy AA, Singh S, Mukherjee I, Pethusamy K et al. Potential SARS-CoV-2 interactions with proteins involved in trophoblast functions - An in-silico study. Placenta 2021 Jan 1;103:141-151. PMID: 33126048
  • Kalafati L, Kourtzelis I, Schulte-Schrepping J, Li X et al. Innate Immune Training of Granulopoiesis Promotes Anti-tumor Activity. Cell 2020 Oct 29;183(3):771-785.e12. PMID: 33125892
  • Leung RK, Lin Y, Liu Y et al. Recent Advances in Understandings Towards Pathogenesis and Treatment for Intrauterine Adhesion and Disruptive Insights from Single-Cell Analysis. Reprod Sci 2021 Jul;28(7):1812-1826. PMID: 33125685
  • Gržan T, Despot-Slade E, Meštrović N, Plohl M et al. CenH3 distribution reveals extended centromeres in the model beetle Tribolium castaneum. PLoS Genet 2020 Oct;16(10):e1009115. PMID: 33125365
  • Jiang M, Wang H, Chen H, Han Y et al. SMARCD3 is a potential prognostic marker and therapeutic target in CAFs. Aging (Albany NY) 2020 Oct 28;12(20):20835-20861. PMID: 33125346
  • Xu L, Qu JL, Song N, Zhang LY et al. Biological and clinical significance of flap endonuclease‑1 in triple‑negative breast cancer: Support of metastasis and a poor prognosis. Oncol Rep 2020 Dec;44(6):2443-2454. PMID: 33125141
  • Wang F, Bai X, Wang Y, Jiang Y et al. ATACdb: a comprehensive human chromatin accessibility database. Nucleic Acids Res 2021 Jan 8;49(D1):D55-D64. PMID: 33125076
  • Gabriel AAG, Mathian E, Mangiante L, Voegele C et al. A molecular map of lung neuroendocrine neoplasms. Gigascience 2020 Oct 30;9(11). PMID: 33124659
  • Yang S, Wu S, Yu Z, Huang J et al. Transcriptomic analysis reveals novel mechanisms of SARS-CoV-2 infection in human lung cells. Immun Inflamm Dis 2020 Dec;8(4):753-762. PMID: 33124193
  • Liu W, Li M, Wang Z, Wang J et al. IFN-γ Mediates the Development of Systemic Lupus Erythematosus. Biomed Res Int 2020;2020:7176515. PMID: 33123584
  • Zhu X, Tong H, Gao S, Yin H et al. C1QTNF6 Overexpression Acts as a Predictor of Poor Prognosis in Bladder Cancer Patients. Biomed Res Int 2020;2020:7139721. PMID: 33123583
  • Lamkin DM, Garland T Jr et al. Translating Preclinical Research for Exercise Oncology: Take It to the VO(2max). Front Oncol 2020;10:575657. PMID: 33123481
  • Ghafouri-Fard S, Shoorei H, Taheri M et al. The Role of Long Non-coding RNAs in Cancer Metabolism: A Concise Review. Front Oncol 2020;10:555825. PMID: 33123468
  • Gao L, Li X, Nie X, Guo Q et al. Construction of novel mRNA-miRNA-lncRNA regulatory networks associated with prognosis of ovarian cancer. J Cancer 2020;11(23):7057-7072. PMID: 33123295
  • Li J, Zeng Z, Chen J, Liu X et al. Pathologic evolution-related Gene Analysis based on both single-cell and bulk transcriptomics in Colorectal Cancer. J Cancer 2020;11(23):6861-6873. PMID: 33123277
  • Wilson BC, Boehme L, Annibali A, Hodgkinson A et al. Intellectual disability-associated factor Zbtb11 cooperates with NRF-2/GABP to control mitochondrial function. Nat Commun 2020 Oct 29;11(1):5469. PMID: 33122634
  • Tripathi R, Liu Z, Jain A, Lyon A et al. Combating acquired resistance to MAPK inhibitors in melanoma by targeting Abl1/2-mediated reactivation of MEK/ERK/MYC signaling. Nat Commun 2020 Oct 29;11(1):5463. PMID: 33122628
  • Bharmal MH, Aretakis JR, Schrader JM et al. An Improved Caulobacter crescentus Operon Annotation Based on Transcriptome Data. Microbiol Resour Announc 2020 Oct 29;9(44). PMID: 33122415
  • Li J, Xie H, Ying Y, Chen H et al. YTHDF2 mediates the mRNA degradation of the tumor suppressors to induce AKT phosphorylation in N6-methyladenosine-dependent way in prostate cancer. Mol Cancer 2020 Oct 29;19(1):152. PMID: 33121495
  • Nasim Z, Fahim M, Gawarecka K, Susila H et al. Role of AT1G72910, AT1G72940, and ADR1-LIKE 2 in Plant Immunity under Nonsense-Mediated mRNA Decay-Compromised Conditions at Low Temperatures. Int J Mol Sci 2020 Oct 27;21(21). PMID: 33121126
  • Lee CH, Hung PF, Liu KJ, Chung HL et al. LDOC1 Suppresses Microbe-Induced Production of IL-1β in Human Normal and Cancerous Oral Cells through the PI3K/Akt/GSK-3β Axis. Cancers (Basel) 2020 Oct 27;12(11). PMID: 33120999
  • Xie J, Wu Z, Xu X, Liang G et al. Screening and identification of key genes and pathways in metastatic uveal melanoma based on gene expression using bioinformatic analysis. Medicine (Baltimore) 2020 Oct 23;99(43):e22974. PMID: 33120861
  • Hua P, Zhang Y, Jin C, Zhang G et al. Integration of gene profile to explore the hub genes of lung adenocarcinoma: A quasi-experimental study. Medicine (Baltimore) 2020 Oct 23;99(43):e22727. PMID: 33120770
  • Rathi KS, Arif S, Koptyra M, Naqvi AS et al. A transcriptome-based classifier to determine molecular subtypes in medulloblastoma. PLoS Comput Biol 2020 Oct;16(10):e1008263. PMID: 33119584
  • Hao N, Xin H, Shi X, Xin J et al. Paternal reprogramming-escape histone H3K4me3 marks located within promoters of RNA splicing genes. Bioinformatics 2021 May 23;37(8):1039-1044. PMID: 33119058
  • Liu Z, Guo Z, Long L, Zhang Y et al. [Spindle assembly checkpoint complex-related genes TTK and MAD2L1 are over-expressed in lung adenocarcinoma: a big data and bioinformatics analysis]. Nan Fang Yi Ke Da Xue Xue Bao 2020 Oct 30;40(10):1422-1431. PMID: 33118511
  • Deng M, Chen B, Liu Z, Cai Y et al. YTHDF2 Regulates Maternal Transcriptome Degradation and Embryo Development in Goat. Front Cell Dev Biol 2020;8:580367. PMID: 33117808
  • Zhang Y, Ma S, Wang M, Shi W et al. Comprehensive Analysis of Prognostic Markers for Acute Myeloid Leukemia Based on Four Metabolic Genes. Front Oncol 2020;10:578933. PMID: 33117716
  • Tang C, Ma J, Liu X, Liu Z et al. Identification of Four Immune Subtypes in Bladder Cancer Based on Immune Gene Sets. Front Oncol 2020;10:544610. PMID: 33117683
  • Xie S, Mo P, Li N, Cai W et al. Tumor-Infiltrating Lymphocyte-Based Risk Score for Predicting Prognosis in Gastric Cancer. Front Oncol 2020;10:522015. PMID: 33117674
  • Du YY, Chen ZX, Liu MY, Liu QP et al. Leonurine Regulates Treg/Th17 Balance to Attenuate Rheumatoid Arthritis Through Inhibition of TAZ Expression. Front Immunol 2020;11:556526. PMID: 33117342
  • Lin H, Lian J, Xia L, Guan G et al. CBX3 Promotes Gastric Cancer Progression and Affects Factors Related to Immunotherapeutic Responses. Cancer Manag Res 2020;12:10113-10125. PMID: 33116867
  • Wang S, Wu J, Guo C, Shang H et al. Identification and Validation of Novel Genes in Anaplastic Thyroid Carcinoma via Bioinformatics Analysis. Cancer Manag Res 2020;12:9787-9799. PMID: 33116838
  • Wan W, Shen Y, Li Q et al. MCM10 Acts as a Potential Prognostic Biomarker and Promotes Cell Proliferation in Hepatocellular Carcinoma: Integrated Bioinformatics Analysis and Experimental Validation. Cancer Manag Res 2020;12:9609-9619. PMID: 33116820
  • Zhang T, Pan L, Cao Y, Liu N et al. Identifying the Mechanisms and Molecular Targets of Yizhiqingxin Formula on Alzheimer's Disease: Coupling Network Pharmacology with GEO Database. Pharmgenomics Pers Med 2020;13:487-502. PMID: 33116763
  • Yang Y, Sun M, Yu Z, Liu J et al. Designing high affinity target-binding peptides to HLA-E: a key membrane antigen of multiple myeloma. Aging (Albany NY) 2020 Oct 28;12(20):20457-20470. PMID: 33115963
  • Williams SG, Aw Yeang HX, Mitchell C, Caramia F et al. Immune molecular profiling of a multiresistant primary prostate cancer with a neuroendocrine-like phenotype: a case report. BMC Urol 2020 Oct 28;20(1):171. PMID: 33115461
  • Fagenson AM, Xu K, Saaoud F, Nanayakkara G et al. Liver Ischemia Reperfusion Injury, Enhanced by Trained Immunity, Is Attenuated in Caspase 1/Caspase 11 Double Gene Knockout Mice. Pathogens 2020 Oct 24;9(11). PMID: 33114395
  • Mussell A, Shen H, Chen Y, Mastri M et al. USP1 Regulates TAZ Protein Stability Through Ubiquitin Modifications in Breast Cancer. Cancers (Basel) 2020 Oct 23;12(11). PMID: 33114077
  • Liu J, Li X, Yang S, Mou J et al. Whole exome sequencing and transcriptome-wide profiling identify potentially subtype-relevant genes of nasopharyngeal carcinoma. Pathol Res Pract 2020 Dec;216(12):153244. PMID: 33113455
  • Montel-Hagen A, Sun V, Casero D, Tsai S et al. In Vitro Recapitulation of Murine Thymopoiesis from Single Hematopoietic Stem Cells. Cell Rep 2020 Oct 27;33(4):108320. PMID: 33113379
  • Alpert T, Straube K, Carrillo Oesterreich F, Herzel L et al. Widespread Transcriptional Readthrough Caused by Nab2 Depletion Leads to Chimeric Transcripts with Retained Introns. Cell Rep 2020 Oct 27;33(4):108324. PMID: 33113357
  • Xie W, Wang Y, Zhang Y, Xiang Y et al. Single-nucleotide polymorphism rs4142441 and MYC co-modulated long non-coding RNA OSER1-AS1 suppresses non-small cell lung cancer by sequestering ELAVL1. Cancer Sci 2021 Jun;112(6):2272-2286. PMID: 33113263
  • Wu M, Xia Y, Wang Y, Fan F et al. Development and validation of an immune-related gene prognostic model for stomach adenocarcinoma. Biosci Rep 2020 Oct 30;40(10). PMID: 33112406
  • Baeza-Centurion P, Miñana B, Valcárcel J, Lehner B et al. Mutations primarily alter the inclusion of alternatively spliced exons. Elife 2020 Oct 28;9. PMID: 33112234
  • Wang X, Qiao J, Wang R et al. Exploration and validation of a novel prognostic signature based on comprehensive bioinformatics analysis in hepatocellular carcinoma. Biosci Rep 2020 Nov 27;40(11). PMID: 33111935
  • Xiao Y, Li C, Wang H, Liu Y et al. LINC00265 targets miR-382-5p to regulate SAT1, VAV3 and angiogenesis in osteosarcoma. Aging (Albany NY) 2020 Aug 14;12(20):20212-20225. PMID: 33109774
  • Wm Nor WMFSB, Chung I, Said NABM et al. MicroRNA-548m Suppresses Cell Migration and Invasion by Targeting Aryl Hydrocarbon Receptor in Breast Cancer Cells. Oncol Res 2021 Mar 16;28(6):615-629. PMID: 33109304
  • Lee Y, Haftorn KL, Denault WRP, Nustad HE et al. Blood-based epigenetic estimators of chronological age in human adults using DNA methylation data from the Illumina MethylationEPIC array. BMC Genomics 2020 Oct 27;21(1):747. PMID: 33109080
  • Ding Y, Li M, Tayier T, Chen L et al. Identification of Novel Prognostic Biomarkers in Head and Neck Squamous Cell Carcinoma using Bioinformatics Analysis. Comb Chem High Throughput Screen 2021;24(9):1351-1363. PMID: 33109035
  • Ma L, Lou S, Miao Z, Yao S et al. Identification of novel susceptibility loci for non-syndromic cleft lip with or without cleft palate. J Cell Mol Med 2020 Dec;24(23):13669-13678. PMID: 33108691
  • Li W, Fu M, Zhao K, Han F et al. Development and validation of a novel metabolic signature for predicting prognosis in patients with laryngeal cancer. Eur Arch Otorhinolaryngol 2021 Apr;278(4):1129-1138. PMID: 33108563
  • Nehme A, Dakik H, Picou F, Cheok M et al. Horizontal meta-analysis identifies common deregulated genes across AML subgroups providing a robust prognostic signature. Blood Adv 2020 Oct 27;4(20):5322-5335. PMID: 33108456
  • Hao Q, Zong X, Sun Q, Lin YC et al. The S-phase-induced lncRNA SUNO1 promotes cell proliferation by controlling YAP1/Hippo signaling pathway. Elife 2020 Oct 27;9. PMID: 33108271
  • Yao Q, Chen T et al. LINC01128 regulates the development of osteosarcoma by sponging miR-299-3p to mediate MMP2 expression and activating Wnt/β-catenin signalling pathway. J Cell Mol Med 2020 Dec;24(24):14293-14305. PMID: 33108067
  • Antunez-Sanchez J, Naish M, Ramirez-Prado JS, Ohno S et al. A new role for histone demethylases in the maintenance of plant genome integrity. Elife 2020 Oct 27;9. PMID: 33107825
  • Bui LT, Winters NI, Chung MI, Joseph C et al. Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity. bioRxiv 2021 Jan 4 PMID: 33106805
  • Gao W, Zhang Y, Luo H, Niu M et al. Targeting SKA3 suppresses the proliferation and chemoresistance of laryngeal squamous cell carcinoma via impairing PLK1-AKT axis-mediated glycolysis. Cell Death Dis 2020 Oct 26;11(10):919. PMID: 33106477
  • Chan TW, Fu T, Bahn JH, Jun HI et al. RNA editing in cancer impacts mRNA abundance in immune response pathways. Genome Biol 2020 Oct 26;21(1):268. PMID: 33106178
  • Liu D, Steins A, Klaassen R, van der Zalm AP et al. Soluble Compounds Released by Hypoxic Stroma Confer Invasive Properties to Pancreatic Ductal Adenocarcinoma. Biomedicines 2020 Oct 22;8(11). PMID: 33105540
  • Baldarelli RM, Smith CM, Finger JH, Hayamizu TF et al. The mouse Gene Expression Database (GXD): 2021 update. Nucleic Acids Res 2021 Jan 8;49(D1):D924-D931. PMID: 33104772
  • Lü M, Qiu L, Jia G, Guo R et al. Single-cell expression profiles of ACE2 and TMPRSS2 reveals potential vertical transmission and fetus infection of SARS-CoV-2. Aging (Albany NY) 2020 Oct 26;12(20):19880-19897. PMID: 33104520
  • Pavlović N, Calitz C, Thanapirom K, Mazza G et al. Inhibiting IRE1α-endonuclease activity decreases tumor burden in a mouse model for hepatocellular carcinoma. Elife 2020 Oct 26;9. PMID: 33103995
  • Kucinski I, Wilson NK, Hannah R, Kinston SJ et al. Interactions between lineage-associated transcription factors govern haematopoietic progenitor states. EMBO J 2020 Dec 15;39(24):e104983. PMID: 33103827
  • Zhao Y, Wang L, Wu Y, Lu Z et al. Genome-wide study of key genes and scoring system as potential noninvasive biomarkers for detection of suicide behavior in major depression disorder. Bioengineered 2020 Dec;11(1):1189-1196. PMID: 33103556
  • Aljazi MB, Gao Y, Wu Y, Mias GI et al. Cell Signaling Coordinates Global PRC2 Recruitment and Developmental Gene Expression in Murine Embryonic Stem Cells. iScience 2020 Nov 20;23(11):101646. PMID: 33103084
  • Chen X, Liao L, Li Y, Huang H et al. Screening and Functional Prediction of Key Candidate Genes in Hepatitis B Virus-Associated Hepatocellular Carcinoma. Biomed Res Int 2020;2020:7653506. PMID: 33102593
  • Li K, Zhang Q, Niu D, Xing H et al. Mining miRNAs' Expressions in Glioma Based on GEO Database and Their Effects on Biological Functions. Biomed Res Int 2020;2020:5637864. PMID: 33102581
  • Greenig M, Melville A, Huntley D, Isalan M et al. Cross-Sectional Transcriptional Analysis of the Aging Murine Heart. Front Mol Biosci 2020;7:565530. PMID: 33102519
  • Zhou Z, Mo S, Gu R, Dai W et al. Hematopoietic Gene Expression Regulation Through m(6)A Methylation Predicts Prognosis in Stage III Colorectal Cancer. Front Oncol 2020;10:572708. PMID: 33102231
  • Hu X, Bao M, Huang J, Zhou L et al. Identification and Validation of Novel Biomarkers for Diagnosis and Prognosis of Hepatocellular Carcinoma. Front Oncol 2020;10:541479. PMID: 33102213
  • Li H, Cui Z, Lv X, Li J et al. Long Non-coding RNA HOTAIR Function as a Competing Endogenous RNA for miR-149-5p to Promote the Cell Growth, Migration, and Invasion in Non-small Cell Lung Cancer. Front Oncol 2020;10:528520. PMID: 33102210
  • Chu X, Wang J et al. Microscopic Chromosomal Structural and Dynamical Origin of Cell Differentiation and Reprogramming. Adv Sci (Weinh) 2020 Oct;7(20):2001572. PMID: 33101859
  • Zhu S, Lin F, Chen Z, Jiang X et al. Identification of a Twelve-Gene Signature and Establishment of a Prognostic Nomogram Predicting Overall Survival for Medulloblastoma. Front Genet 2020;11:563882. PMID: 33101383
  • Zhou P, Zheng G, Li Y, Wu D et al. Construction of a circRNA-miRNA-mRNA Network Related to Macrophage Infiltration in Hepatocellular Carcinoma. Front Genet 2020;11:1026. PMID: 33101367
  • Zhang X, Chen M, Ni X, Wang Y et al. Metabolic Reprogramming of Sulfur in Hepatocellular Carcinoma and Sulfane Sulfur-Triggered Anti-Cancer Strategy. Front Pharmacol 2020;11:571143. PMID: 33101029
  • Xu C, Xu J, Lu L, Tian W et al. Identification of key genes and novel immune infiltration-associated biomarkers of sepsis. Innate Immun 2020 Nov;26(8):666-682. PMID: 33100122
  • Han L, Shi H, Luo Y, Sun W et al. Gene signature based on B cell predicts clinical outcome of radiotherapy and immunotherapy for patients with lung adenocarcinoma. Cancer Med 2020 Dec;9(24):9581-9594. PMID: 33098370
  • Chai Q, Lu Z, Liu Z, Zhong Y et al. Lung gene expression signatures suggest pathogenic links and molecular markers for pulmonary tuberculosis, adenocarcinoma and sarcoidosis. Commun Biol 2020 Oct 23;3(1):604. PMID: 33097805
  • Chen Y, Li ZY, Zhou GQ, Sun Y et al. An Immune-Related Gene Prognostic Index for Head and Neck Squamous Cell Carcinoma. Clin Cancer Res 2021 Jan 1;27(1):330-341. PMID: 33097495
  • Dong Q, Zhou C, Ren H, Zhang Z et al. Lactate-induced MRP1 expression contributes to metabolism-based etoposide resistance in non-small cell lung cancer cells. Cell Commun Signal 2020 Oct 23;18(1):167. PMID: 33097055
  • Jamil MA, Singer H, Al-Rifai R, Nüsgen N et al. Molecular Analysis of Fetal and Adult Primary Human Liver Sinusoidal Endothelial Cells: A Comparison to Other Endothelial Cells. Int J Mol Sci 2020 Oct 21;21(20). PMID: 33096636
  • Yan J, Zhang S, Li KK, Wang W et al. Incremental prognostic value and underlying biological pathways of radiomics patterns in medulloblastoma. EBioMedicine 2020 Nov;61:103093. PMID: 33096488
  • Sangaletti S, Iannelli F, Zanardi F, Cancila V et al. Intra-tumour heterogeneity of diffuse large B-cell lymphoma involves the induction of diversified stroma-tumour interfaces. EBioMedicine 2020 Nov;61:103055. PMID: 33096480
  • Sugiura M, Sato H, Okabe A, Fukuyo M et al. Identification of AR-V7 downstream genes commonly targeted by AR/AR-V7 and specifically targeted by AR-V7 in castration resistant prostate cancer. Transl Oncol 2021 Jan;14(1):100915. PMID: 33096335
  • Cheikhi AM, Johnson ZI, Julian DR, Wheeler S et al. Prediction of severity and subtype of fibrosing disease using model informed by inflammation and extracellular matrix gene index. PLoS One 2020;15(10):e0240986. PMID: 33095822
  • Hu Q, Masuda T, Kuramitsu S, Tobo T et al. Potential association of LOXL1 with peritoneal dissemination in gastric cancer possibly via promotion of EMT. PLoS One 2020;15(10):e0241140. PMID: 33095806
  • Chen Z, Huang J, Feng Y, Li Z et al. Screening and bioinformatics analysis of a ceRNA network based on the circular RNAs, miRNAs, and mRNAs in pan-cancer. Cancer Med 2020 Oct;9(19):7279-7292. PMID: 33094914
  • Xu YZ, Jenjaroenpun P, Wongsurawat T, Byrum SD et al. Activation-induced cytidine deaminase localizes to G-quadruplex motifs at mutation hotspots in lymphoma. NAR Cancer 2020 Dec;2(4):zcaa029. PMID: 33094287
  • Li P, Zhang S, Mo Y, Zhang L et al. Long non-coding RNA expression profiles and related regulatory networks in areca nut chewing-induced tongue squamous cell carcinoma. Oncol Lett 2020 Dec;20(6):302. PMID: 33093911
  • Naik AA, Narayanan A, Khanchandani P, Sridharan D et al. Systems analysis of avascular necrosis of femoral head using integrative data analysis and literature mining delineates pathways associated with disease. Sci Rep 2020 Oct 22;10(1):18099. PMID: 33093559
  • Li S, Nguyen TL, Wong EM, Dugué PA et al. Genetic and environmental causes of variation in epigenetic aging across the lifespan. Clin Epigenetics 2020 Oct 22;12(1):158. PMID: 33092643
  • He X, Kang Y, Li W, Liu W et al. Genome-wide identification and functional analysis of the TIFY gene family in the response to multiple stresses in Brassica napus L. BMC Genomics 2020 Oct 22;21(1):736. PMID: 33092535
  • Gonzalez A, Corsini G, Lobos S, Seelenfreund D et al. Metabolic Specialization and Codon Preference of Lignocellulolytic Genes in the White Rot Basidiomycete Ceriporiopsis subvermispora. Genes (Basel) 2020 Oct 20;11(10). PMID: 33092062
  • Liu J, Han X, Chen L, Han D et al. TRIM28 is a distinct prognostic biomarker that worsens the tumor immune microenvironment in lung adenocarcinoma. Aging (Albany NY) 2020 Oct 22;12(20):20308-20331. PMID: 33091876
  • Liu S, de Jonge J, Trejo-Arellano MS, Santos-González J et al. Role of H1 and DNA methylation in selective regulation of transposable elements during heat stress. New Phytol 2021 Feb;229(4):2238-2250. PMID: 33091182
  • Sun Y, Dai WR, Xia N et al. Comprehensive analysis of lncRNA-mediated ceRNA network in papillary thyroid cancer. Eur Rev Med Pharmacol Sci 2020 Oct;24(19):10003-10014. PMID: 33090405
  • Su ZJ, Lin CC, Pan JH, Zhang JH et al. Prediction of Poor Prognosis of HCC by Early Warning Model for Co-Expression of miRNA and mRNA Based on Bioinformatics Analysis. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820959353. PMID: 33089765
  • Ahuja N, Ashok C, Natua S, Pant D et al. Hypoxia-induced TGF-β-RBFOX2-ESRP1 axis regulates human MENA alternative splicing and promotes EMT in breast cancer. NAR Cancer 2020 Sep;2(3):zcaa021. PMID: 33089214
  • Wu P, An M, Zou HR, Zhong CY et al. A robust semi-supervised NMF model for single cell RNA-seq data. PeerJ 2020;8:e10091. PMID: 33088619
  • Rennhack JP, Andrechek ER et al. Low E2F2 activity is associated with high genomic instability and PARPi resistance. Sci Rep 2020 Oct 21;10(1):17948. PMID: 33087787
  • Tong L, Wu PY, Phan JH, Hassazadeh HR et al. Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction. Sci Rep 2020 Oct 21;10(1):17925. PMID: 33087762
  • Inada H, Udono M, Matsuda-Ito K, Horisawa K et al. Direct reprogramming of human umbilical vein- and peripheral blood-derived endothelial cells into hepatic progenitor cells. Nat Commun 2020 Oct 21;11(1):5292. PMID: 33087715
  • Cho YH, Ro EJ, Yoon JS, Mizutani T et al. 5-FU promotes stemness of colorectal cancer via p53-mediated WNT/β-catenin pathway activation. Nat Commun 2020 Oct 21;11(1):5321. PMID: 33087710
  • Ito J, Kimura I, Soper A, Coudray A et al. Endogenous retroviruses drive KRAB zinc-finger protein family expression for tumor suppression. Sci Adv 2020 Oct;6(43). PMID: 33087347
  • Moody L, Chen H, Pan YX et al. Considerations for feature selection using gene pairs and applications in large-scale dataset integration, novel oncogene discovery, and interpretable cancer screening. BMC Med Genomics 2020 Oct 22;13(Suppl 10):148. PMID: 33087122
  • Pervolarakis N, Nguyen QH, Williams J, Gong Y et al. Integrated Single-Cell Transcriptomics and Chromatin Accessibility Analysis Reveals Regulators of Mammary Epithelial Cell Identity. Cell Rep 2020 Oct 20;33(3):108273. PMID: 33086071
  • Liu JW, Yu F, Tan YF, Huo JP et al. Profiling of Tumor Microenvironment Components Identifies Five Stroma-Related Genes with Prognostic Implications in Colorectal Cancer. Cancer Biother Radiopharm 2022 Dec;37(10):882-892. PMID: 33085921
  • Santamaria ME, Garcia A, Arnaiz A, Rosa-Diaz I et al. Comparative transcriptomics reveals hidden issues in the plant response to arthropod herbivores. J Integr Plant Biol 2021 Feb;63(2):312-326. PMID: 33085192
  • Zhu W, Shen Y, Liu J, Fei X et al. Epigenetic alternations of microRNAs and DNA methylation contribute to gestational diabetes mellitus. J Cell Mol Med 2020 Dec;24(23):13899-13912. PMID: 33085184
  • Störtz F, Minary P et al. crisprSQL: a novel database platform for CRISPR/Cas off-target cleavage assays. Nucleic Acids Res 2021 Jan 8;49(D1):D855-D861. PMID: 33084893
  • He T, Wildey G, McColl K, Savadelis A et al. Identification of RUNX1T1 as a potential epigenetic modifier in small-cell lung cancer. Mol Oncol 2021 Jan;15(1):195-209. PMID: 33084222
  • Park SB, Hwang KT, Chung CK, Roy D et al. Causal Bayesian gene networks associated with bone, brain and lung metastasis of breast cancer. Clin Exp Metastasis 2020 Dec;37(6):657-674. PMID: 33083937
  • Ding J, Lugo-Martinez J, Yuan Y, Huang J et al. Reconstructed signaling and regulatory networks identify potential drugs for SARS-CoV-2 infection. bioRxiv 2021 Dec 9 PMID: 33083801
  • Cheng K, Chen IC, Cheng CE, Mutoji K et al. Unique Epigenetic Programming Distinguishes Regenerative Spermatogonial Stem Cells in the Developing Mouse Testis. iScience 2020 Oct 23;23(10):101596. PMID: 33083754
  • Hakim S, Craig JM, Koblinski JE, Clevenger CV et al. Inhibition of the Activity of Cyclophilin A Impedes Prolactin Receptor-Mediated Signaling, Mammary Tumorigenesis, and Metastases. iScience 2020 Oct 23;23(10):101581. PMID: 33083747
  • Wolf DM, Yau C, Wulfkuhle J, Brown-Swigart L et al. Mechanism of action biomarkers predicting response to AKT inhibition in the I-SPY 2 breast cancer trial. NPJ Breast Cancer 2020;6:48. PMID: 33083527
  • Mu D, Qin F, Li B, Zhou Q et al. Identification of the Sixth Complement Component as Potential Key Genes in Hepatocellular Carcinoma via Bioinformatics Analysis. Biomed Res Int 2020;2020:7042124. PMID: 33083480
  • Yuan J, Xie A, Cao Q, Li X et al. INHBB Is a Novel Prognostic Biomarker Associated with Cancer-Promoting Pathways in Colorectal Cancer. Biomed Res Int 2020;2020:6909672. PMID: 33083477
  • Sheng X, Fan T, Jin X et al. Identification of Key Genes Involved in Acute Myocardial Infarction by Comparative Transcriptome Analysis. Biomed Res Int 2020;2020:1470867. PMID: 33083450
  • Xiao D, Dong S, Yang S, Liu Z et al. CKS2 and RMI2 are two prognostic biomarkers of lung adenocarcinoma. PeerJ 2020;8:e10126. PMID: 33083148
  • Hao M, Liu W, Ding C, Peng X et al. Identification of hub genes and small molecule therapeutic drugs related to breast cancer with comprehensive bioinformatics analysis. PeerJ 2020;8:e9946. PMID: 33083112
  • Teschendorff AE, Wang N et al. Improved detection of tumor suppressor events in single-cell RNA-Seq data. NPJ Genom Med 2020;5:43. PMID: 33083012
  • Chen J, Guo X, Zeng G, Liu J et al. Transcriptome Analysis Identifies Novel Prognostic Genes in Osteosarcoma. Comput Math Methods Med 2020;2020:8081973. PMID: 33082842
  • Lasjerdi Z, Ghanbarian H, Mohammadi Yeganeh S, Seyyed Tabaei SJ et al. Comparative Expression Profile Analysis of Apoptosis-Related miRNA and Its Target Gene in Leishmania major Infected Macrophages. Iran J Parasitol 2020 Jul-Sep;15(3):332-340. PMID: 33082797
  • Dai X, Dai X, Gong Z, Yang C et al. Disease-Specific Autoantibodies Induce Trained Immunity in RA Synovial Tissues and Its Gene Signature Correlates with the Response to Clinical Therapy. Mediators Inflamm 2020;2020:2109325. PMID: 33082707
  • Zhang Q, Zhou W, Yu S, Ju Y et al. Metabolic reprogramming of ovarian cancer involves ACSL1-mediated metastasis stimulation through upregulated protein myristoylation. Oncogene 2021 Jan;40(1):97-111. PMID: 33082557
  • Rodriguez-Hernandez I, Maiques O, Kohlhammer L, Cantelli G et al. WNT11-FZD7-DAAM1 signalling supports tumour initiating abilities and melanoma amoeboid invasion. Nat Commun 2020 Oct 20;11(1):5315. PMID: 33082334
  • Miller BF, Pisanic Ii TR, Margolin G, Petrykowska HM et al. Leveraging locus-specific epigenetic heterogeneity to improve the performance of blood-based DNA methylation biomarkers. Clin Epigenetics 2020 Oct 20;12(1):154. PMID: 33081832
  • Zhang F, Liu Y, Yang Y, Yang K et al. Development and validation of a fourteen- innate immunity-related gene pairs signature for predicting prognosis head and neck squamous cell carcinoma. BMC Cancer 2020 Oct 20;20(1):1015. PMID: 33081731
  • Tadini L, Jeran N, Pesaresi P et al. GUN1 and Plastid RNA Metabolism: Learning from Genetics. Cells 2020 Oct 16;9(10). PMID: 33081381
  • Zhang D, Iwabuchi S, Baba T, Hashimoto SI et al. Involvement of a Transcription factor, Nfe2, in Breast Cancer Metastasis to Bone. Cancers (Basel) 2020 Oct 16;12(10). PMID: 33081224
  • Zhou R, Liu D, Zhu J, Zhang T et al. Common gene signatures and key pathways in hypopharyngeal and esophageal squamous cell carcinoma: Evidence from bioinformatic analysis. Medicine (Baltimore) 2020 Oct 16;99(42):e22434. PMID: 33080677
  • Zu F, Han H, Sheng W, Sun J et al. Identification of a competing endogenous RNA axis related to gastric cancer. Aging (Albany NY) 2020 Oct 20;12(20):20540-20560. PMID: 33080572
  • Tokunaga R, Xiu J, Goldberg RM, Philip PA et al. The impact of ARID1A mutation on molecular characteristics in colorectal cancer. Eur J Cancer 2020 Nov;140:119-129. PMID: 33080474
  • Shi X, Zheng Y, Jiang L, Zhou B et al. EWS-FLI1 regulates and cooperates with core regulatory circuitry in Ewing sarcoma. Nucleic Acids Res 2020 Nov 18;48(20):11434-11451. PMID: 33080033
  • Yang Y, Zhu X, Jia X, Hou W et al. Phosphorylation of Msx1 promotes cell proliferation through the Fgf9/18-MAPK signaling pathway during embryonic limb development. Nucleic Acids Res 2020 Nov 18;48(20):11452-11467. PMID: 33080014
  • Chaabane M, Andreeva K, Hwang JY, Kook TL et al. seekCRIT: Detecting and characterizing differentially expressed circular RNAs using high-throughput sequencing data. PLoS Comput Biol 2020 Oct;16(10):e1008338. PMID: 33079938
  • Lin D, Chen J, Duan K, Perrone-Bizzozero N et al. Network modules linking expression and methylation in prefrontal cortex of schizophrenia. Epigenetics 2021 Aug;16(8):876-893. PMID: 33079616
  • Liu Y, Meng W, Cao H, Wang B et al. Identification of MSC-AS1, a novel lncRNA for the diagnosis of laryngeal cancer. Eur Arch Otorhinolaryngol 2021 Apr;278(4):1107-1118. PMID: 33079247
  • Zhang Q, Wang Q, Wu S, Zhang J et al. Clinical implication and immunological characterisation of the ARF-GEF family member CYTH4 in ovarian cancer. Autoimmunity 2020 Dec;53(8):434-442. PMID: 33078956
  • Ng KW, Attig J, Bolland W, Young GR et al. Tissue-specific and interferon-inducible expression of nonfunctional ACE2 through endogenous retroelement co-option. Nat Genet 2020 Dec;52(12):1294-1302. PMID: 33077915
  • Zhang S, Cui Y, Ma X, Yong J et al. Single-cell transcriptomics identifies divergent developmental lineage trajectories during human pituitary development. Nat Commun 2020 Oct 19;11(1):5275. PMID: 33077725
  • Zhang L, Zhang Z, Li C, Zhu T et al. S100A11 Promotes Liver Steatosis via FOXO1-Mediated Autophagy and Lipogenesis. Cell Mol Gastroenterol Hepatol 2021;11(3):697-724. PMID: 33075563
  • Thomas JR, Appios A, Zhao X, Dutkiewicz R et al. Phenotypic and functional characterization of first-trimester human placental macrophages, Hofbauer cells. J Exp Med 2021 Jan 4;218(1). PMID: 33075123
  • Tu C, Pi Y, Xing S, Ling Y et al. Integrated analysis of long non-coding RNAs and mRNA profiles reveals potential sex-dependent biomarkers of bevacizumab/erlotinib response in advanced lung cancer. PLoS One 2020;15(10):e0240633. PMID: 33075110
  • Fonseca LL, Yang WS, Geerts D, Turkson J et al. RasGRP1 induces autophagy and transformation-associated changes in primary human keratinocytes. Transl Oncol 2021 Jan;14(1):100880. PMID: 33074128
  • Zhang L, Qiao Y, Huang J, Wan D et al. Expression Pattern and Prognostic Value of Key Regulators for m6A RNA Modification in Hepatocellular Carcinoma. Front Med (Lausanne) 2020;7:556. PMID: 33072775
  • Kang K, Xie F, Mao J, Bai Y et al. Significance of Tumor Mutation Burden in Immune Infiltration and Prognosis in Cutaneous Melanoma. Front Oncol 2020;10:573141. PMID: 33072607
  • Chen W, Zhang X, Bi K, Zhou H et al. Comprehensive Study of Tumor Immune Microenvironment and Relevant Genes in Hepatocellular Carcinoma Identifies Potential Prognostic Significance. Front Oncol 2020;10:554165. PMID: 33072579
  • Yu S, Hu C, Cai L, Du X et al. Seven-Gene Signature Based on Glycolysis Is Closely Related to the Prognosis and Tumor Immune Infiltration of Patients With Gastric Cancer. Front Oncol 2020;10:1778. PMID: 33072557
  • Han X, Wang D, Zhao P, Liu C et al. Inference of Subpathway Activity Profiles Reveals Metabolism Abnormal Subpathway Regions in Glioblastoma Multiforme. Front Oncol 2020;10:1549. PMID: 33072547
  • Tumurkhuu G, Chen S, Montano EN, Ercan Laguna D et al. Oxidative DNA Damage Accelerates Skin Inflammation in Pristane-Induced Lupus Model. Front Immunol 2020;11:554725. PMID: 33072095
  • Bonilauri B, Dallagiovanna B et al. Long Non-coding RNAs Are Differentially Expressed After Different Exercise Training Programs. Front Physiol 2020;11:567614. PMID: 33071823
  • Meyer AE, Furumo Q, Stelloh C, Minella AC et al. Loss of Fbxw7 triggers mammary tumorigenesis associated with E2F/c-Myc activation and Trp53 mutation. Neoplasia 2020 Nov;22(11):644-658. PMID: 33070870
  • Gong M, Liu P, Sciurba FC, Stojanov P et al. Unpaired data empowers association tests. Bioinformatics 2021 May 5;37(6):785-792. PMID: 33070196
  • Wegwitz F, Prokakis E, Pejkovska A, Kosinsky RL et al. The histone H2B ubiquitin ligase RNF40 is required for HER2-driven mammary tumorigenesis. Cell Death Dis 2020 Oct 17;11(10):873. PMID: 33070155
  • Xin Y, Zhang S, Deng Z, Zeng D et al. Identification and verification immune-related regulatory network in acne. Int Immunopharmacol 2020 Dec;89(Pt B):107083. PMID: 33068860
  • Lismer A, Siklenka K, Lafleur C, Dumeaux V et al. Sperm histone H3 lysine 4 trimethylation is altered in a genetic mouse model of transgenerational epigenetic inheritance. Nucleic Acids Res 2020 Nov 18;48(20):11380-11393. PMID: 33068438
  • Zuo Y, Zhu L, Guo Z, Liu W et al. tsRBase: a comprehensive database for expression and function of tsRNAs in multiple species. Nucleic Acids Res 2021 Jan 8;49(D1):D1038-D1045. PMID: 33068436
  • Yang XZ, Chen XM, Zeng LS, Deng J et al. Rab1A promotes cancer metastasis and radioresistance through activating GSK-3β/Wnt/β-catenin signaling in nasopharyngeal carcinoma. Aging (Albany NY) 2020 Oct 17;12(20):20380-20395. PMID: 33068388
  • Cao D, Meng Y, Li S, Xin J et al. Association study between genetic variants in retinol metabolism pathway genes and prostate cancer risk. Cancer Med 2020 Dec;9(24):9462-9470. PMID: 33068330
  • Li J, Zhao S, Lee M, Yin Y et al. Reliable tumor detection by whole-genome methylation sequencing of cell-free DNA in cerebrospinal fluid of pediatric medulloblastoma. Sci Adv 2020 Oct;6(42). PMID: 33067228
  • Dong Z, Ma Y, Zhou H, Shi L et al. Integrated genomics analysis highlights important SNPs and genes implicated in moderate-to-severe asthma based on GWAS and eQTL datasets. BMC Pulm Med 2020 Oct 16;20(1):270. PMID: 33066754
  • Sun S, Yi C, Ma J, Wang S et al. Analysis of Spatio-Temporal Transcriptome Profiles of Soybean (Glycine max) Tissues during Early Seed Development. Int J Mol Sci 2020 Oct 14;21(20). PMID: 33066688
  • Dollinger E, Bergman D, Zhou P, Atwood SX et al. Divergent Resistance Mechanisms to Immunotherapy Explain Responses in Different Skin Cancers. Cancers (Basel) 2020 Oct 13;12(10). PMID: 33065980
  • Ishiyama KI, Kitawaki T, Otsuka Y, Takaori-Kondo A et al. Programmed cell death 1-expressing CD56-negative natural killer (NK) cell expansion is a hallmark of chronic NK cell activation during dasatinib treatment. Cancer Sci 2021 Feb;112(2):523-536. PMID: 33064914
  • Hagiwara R, Oki Y, Matsumaru T, Ibayashi S et al. Generation of metabolically functional hepatocyte-like cells from dedifferentiated fat cells by Foxa2, Hnf4a and Sall1 transduction. Genes Cells 2020 Dec;25(12):811-824. PMID: 33064855
  • Shuryak I, Ghandhi SA, Turner HC, Weber W et al. Dose and Dose-Rate Effects in a Mouse Model of Internal Exposure from 137Cs. Part 2: Integration of Gamma-H2AX and Gene Expression Biomarkers for Retrospective Radiation Biodosimetry. Radiat Res 2020 Nov 1;196(5):491-500. PMID: 33064820
  • Fei H, Chen S, Xu C et al. Interactive Verification Analysis of Multiple Sequencing Data for Identifying Potential Biomarker of Lung Adenocarcinoma. Biomed Res Int 2020;2020:8931419. PMID: 33062704
  • Liu T, Zhang G, Wang Y, Rao M et al. Identification of Circular RNA-MicroRNA-Messenger RNA Regulatory Network in Atrial Fibrillation by Integrated Analysis. Biomed Res Int 2020;2020:8037273. PMID: 33062700
  • Deng L, Niu GM, Ren J, Ke CW et al. Identification of ATP8B1 as a Tumor Suppressor Gene for Colorectal Cancer and Its Involvement in Phospholipid Homeostasis. Biomed Res Int 2020;2020:2015648. PMID: 33062669
  • Zhang J, Zhang Q, Yang Y, Wang Q et al. Association Between Succinate Receptor SUCNR1 Expression and Immune Infiltrates in Ovarian Cancer. Front Mol Biosci 2020;7:150. PMID: 33062639
  • Dong S, Zhu P, Zhang S et al. Expression of collagen type 1 alpha 1 indicates lymph node metastasis and poor outcomes in squamous cell carcinomas of the lung. PeerJ 2020;8:e10089. PMID: 33062455
  • Ji B, Chen L, Cai Q, Guo Q et al. Identification of an 8-miRNA signature as a potential prognostic biomarker for glioma. PeerJ 2020;8:e9943. PMID: 33062427
  • Enciso J, Mendoza L, Álvarez-Buylla ER, Pelayo R et al. Dynamical modeling predicts an inflammation-inducible CXCR7+ B cell precursor with potential implications in lymphoid blockage pathologies. PeerJ 2020;8:e9902. PMID: 33062419
  • Tang R, Zhang Y, Liang C, Xu J et al. The role of m6A-related genes in the prognosis and immune microenvironment of pancreatic adenocarcinoma. PeerJ 2020;8:e9602. PMID: 33062408
  • Wang Z, Li H, Li F, Su X et al. Bioinformatics-Based Identification of a circRNA-miRNA-mRNA Axis in Esophageal Squamous Cell Carcinomas. J Oncol 2020;2020:8813800. PMID: 33061972
  • Huang X, Shen X, Peng L, Mai W et al. CircCSNK1G1 Contributes to the Development of Colorectal Cancer by Increasing the Expression of MYO6 via Competitively Targeting miR-455-3p. Cancer Manag Res 2020;12:9563-9575. PMID: 33061642
  • Wang WY, Lu WC et al. Reduced Expression of hsa-miR-338-3p Contributes to the Development of Glioma Cells by Targeting Mitochondrial 3-Oxoacyl-ACP Synthase (OXSM) in Glioblastoma (GBM). Onco Targets Ther 2020;13:9513-9523. PMID: 33061435
  • Qiu W, Chang Y, Liu J, Yang X et al. Identification of P-Rex1 in the Regulation of Liver Cancer Cell Proliferation and Migration via HGF/c-Met/Akt Pathway. Onco Targets Ther 2020;13:9481-9495. PMID: 33061433
  • Bui TT, Lee D, Selvarajoo K et al. ScatLay: utilizing transcriptome-wide noise for identifying and visualizing differentially expressed genes. Sci Rep 2020 Oct 15;10(1):17483. PMID: 33060728
  • Ferrari F, Arrigoni L, Franz H, Izzo A et al. DOT1L-mediated murine neuronal differentiation associates with H3K79me2 accumulation and preserves SOX2-enhancer accessibility. Nat Commun 2020 Oct 15;11(1):5200. PMID: 33060580
  • Karakose E, Wang H, Inabnet W, Thakker RV et al. Aberrant methylation underlies insulin gene expression in human insulinoma. Nat Commun 2020 Oct 15;11(1):5210. PMID: 33060578
  • Wang N, Yan H, Wu D, Zhao Z et al. PRMT5/Wnt4 axis promotes lymph-node metastasis and proliferation of laryngeal carcinoma. Cell Death Dis 2020 Oct 15;11(10):864. PMID: 33060569
  • Rimel JK, Poss ZC, Erickson B, Maas ZL et al. Selective inhibition of CDK7 reveals high-confidence targets and new models for TFIIH function in transcription. Genes Dev 2020 Nov 1;34(21-22):1452-1473. PMID: 33060135
  • Tang F, Xiao Z, Sun F, Shen S et al. Genome-wide identification and comparative analysis of diacylglycerol kinase (DGK) gene family and their expression profiling in Brassica napus under abiotic stress. BMC Plant Biol 2020 Oct 15;20(1):473. PMID: 33059598
  • Schwarz M, Lossow K, Schirl K, Hackler J et al. Copper interferes with selenoprotein synthesis and activity. Redox Biol 2020 Oct;37:101746. PMID: 33059313
  • Pantier R, Mullin N, Hall-Ponsele E, Chambers I et al. TET1 Interacts Directly with NANOG via Independent Domains Containing Hydrophobic and Aromatic Residues. J Mol Biol 2020 Nov 20;432(23):6075-6091. PMID: 33058869
  • Vadakekolathu J, Lai C, Reeder S, Church SE et al. TP53 abnormalities correlate with immune infiltration and associate with response to flotetuzumab immunotherapy in AML. Blood Adv 2020 Oct 27;4(20):5011-5024. PMID: 33057635
  • Xiang C, Cong S, Liang B, Cong S et al. Bioinformatic gene analysis for potential therapeutic targets of Huntington's disease in pre-symptomatic and symptomatic stage. J Transl Med 2020 Oct 14;18(1):388. PMID: 33054835
  • Shi M, Tan S, Xie XP, Li A et al. Globally learning gene regulatory networks based on hidden atomic regulators from transcriptomic big data. BMC Genomics 2020 Oct 14;21(1):711. PMID: 33054712
  • Lenoir M, Martín R, Torres-Maravilla E, Chadi S et al. Butyrate mediates anti-inflammatory effects of Faecalibacterium prausnitzii in intestinal epithelial cells through Dact3. Gut Microbes 2020 Nov 9;12(1):1-16. PMID: 33054518
  • Maura F, Dodero A, Carniti C, Bolli N et al. CDKN2A deletion is a frequent event associated with poor outcome in patients with peripheral T-cell lymphoma not otherwise specified (PTCL-NOS). Haematologica 2021 Nov 1;106(11):2918-2926. PMID: 33054126
  • Monteagudo-Sánchez A, Hernandez Mora JR, Simon C, Burton A et al. The role of ZFP57 and additional KRAB-zinc finger proteins in the maintenance of human imprinted methylation and multi-locus imprinting disturbances. Nucleic Acids Res 2020 Nov 18;48(20):11394-11407. PMID: 33053156
  • Wang Y, Miao L, Tao L, Chen JH et al. Weighted gene coexpression network analysis identifies the key role associated with acute coronary syndrome. Aging (Albany NY) 2020 Oct 14;12(19):19440-19454. PMID: 33052139
  • Aghajanzadeh T, Tebbi K, Talkhabi M et al. Identification of potential key genes and miRNAs involved in Hepatoblastoma pathogenesis and prognosis. J Cell Commun Signal 2021 Mar;15(1):131-142. PMID: 33051830
  • Xu M, Li J, Xiao Z, Lou J et al. Integrative genomics analysis identifies promising SNPs and genes implicated in tuberculosis risk based on multiple omics datasets. Aging (Albany NY) 2020 Oct 13;12(19):19173-19220. PMID: 33051402
  • Marković V, Cvrčková F, Potocký M, Kulich I et al. EXO70A2 Is Critical for Exocyst Complex Function in Pollen Development. Plant Physiol 2020 Dec;184(4):1823-1839. PMID: 33051268
  • Heer CD, Sanderson DJ, Voth LS, Alhammad YMO et al. Coronavirus infection and PARP expression dysregulate the NAD metabolome: An actionable component of innate immunity. J Biol Chem 2020 Dec 25;295(52):17986-17996. PMID: 33051211
  • Köchl R, Vanes L, Llorian Sopena M, Chakravarty P et al. Critical role of WNK1 in MYC-dependent early mouse thymocyte development. Elife 2020 Oct 14;9. PMID: 33051000
  • Nguyen NU, Stamper BD et al. A Template-Based Approach for Guiding and Refining the Development of Cinnamon-Based Phenylpropanoids as Drugs. Molecules 2020 Oct 11;25(20). PMID: 33050677
  • Alcalá S, Mayoral-Varo V, Ruiz-Cañas L, López-Gil JC et al. Targeting SRC Kinase Signaling in Pancreatic Cancer Stem Cells. Int J Mol Sci 2020 Oct 9;21(20). PMID: 33050159
  • Christodoulou CC, Zachariou M, Tomazou M, Karatzas E et al. Investigating the Transition of Pre-Symptomatic to Symptomatic Huntington's Disease Status Based on Omics Data. Int J Mol Sci 2020 Oct 8;21(19). PMID: 33049985
  • Monaco A, Pantaleo E, Amoroso N, Bellantuono L et al. Identifying potential gene biomarkers for Parkinson's disease through an information entropy based approach. Phys Biol 2020 Dec 1;18(1):016003. PMID: 33049726
  • Santos SAA, Camargo ACL, Constantino FB, Colombelli KT et al. Identification of potential molecular pathways involved in prostate carcinogenesis in offspring exposed to maternal malnutrition. Aging (Albany NY) 2020 Oct 13;12(20):19954-19978. PMID: 33049715
  • Sarangdhar M, Yacyshyn MB, Gruenzel AR, Engevik MA et al. Therapeutic Opportunities for Intestinal Angioectasia- Targeting PPARγ and Oxidative Stress. Clin Transl Sci 2021 Mar;14(2):518-528. PMID: 33048460
  • Song Y, Wang H, Zou XJ, Zhang YX et al. Reciprocal regulation of HIF-1α and Uroplakin 1A promotes glycolysis and proliferation in Hepatocellular Carcinoma. J Cancer 2020;11(22):6737-6747. PMID: 33046996
  • Cao H, Zheng J, Yao Y, Yang Q et al. Overexpression of KIAA0101 Promotes the Progression of Non-small Cell Lung Cancer. J Cancer 2020;11(22):6663-6674. PMID: 33046987
  • Wang L, Bi J, Li X, Wei M et al. Prognostic alternative splicing signature reveals the landscape of immune infiltration in Pancreatic Cancer. J Cancer 2020;11(22):6530-6544. PMID: 33046974
  • Liu J, Gao C, Sodicoff J, Kozareva V et al. Jointly defining cell types from multiple single-cell datasets using LIGER. Nat Protoc 2020 Nov;15(11):3632-3662. PMID: 33046898
  • Florez-Sampedro L, Brandsma CA, de Vries M, Timens W et al. Genetic regulation of gene expression of MIF family members in lung tissue. Sci Rep 2020 Oct 12;10(1):16980. PMID: 33046825
  • Rabaglino MB, Kadarmideen HN et al. Machine learning approach to integrated endometrial transcriptomic datasets reveals biomarkers predicting uterine receptivity in cattle at seven days after estrous. Sci Rep 2020 Oct 12;10(1):16981. PMID: 33046742
  • Miyauchi S, Kiss E, Kuo A, Drula E et al. Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits. Nat Commun 2020 Oct 12;11(1):5125. PMID: 33046698
  • Leng D, Yi J, Xiang M, Zhao H et al. Identification of common signatures in idiopathic pulmonary fibrosis and lung cancer using gene expression modeling. BMC Cancer 2020 Oct 12;20(1):986. PMID: 33046043
  • Chen M, Zeng J, Yang Y, Wu B et al. Diagnostic biomarker candidates for pulpitis revealed by bioinformatics analysis of merged microarray gene expression datasets. BMC Oral Health 2020 Oct 12;20(1):279. PMID: 33046027
  • Daca-Roszak P, Jaksik R, Paczkowska J, Witt M et al. Discrimination between human populations using a small number of differentially methylated CpG sites: a preliminary study using lymphoblastoid cell lines and peripheral blood samples of European and Chinese origin. BMC Genomics 2020 Oct 12;21(1):706. PMID: 33045984
  • Zhou Q, Wang Z, Li J, Sung WK et al. MethHaplo: combining allele-specific DNA methylation and SNPs for haplotype region identification. BMC Bioinformatics 2020 Oct 12;21(1):451. PMID: 33045983
  • Shang W, Wang Y, Liang X, Li T et al. SETDB1 promotes gastric carcinogenesis and metastasis via upregulation of CCND1 and MMP9 expression. J Pathol 2021 Feb;253(2):148-159. PMID: 33044755
  • Xu J, Wang Y, Hsu CY, Negri S et al. Lysosomal protein surface expression discriminates fat- from bone-forming human mesenchymal precursor cells. Elife 2020 Oct 12;9. PMID: 33044169
  • Yong HEJ, Chan SY et al. Current approaches and developments in transcript profiling of the human placenta. Hum Reprod Update 2020 Nov 1;26(6):799-840. PMID: 33043357
  • Li L, Shen L, Ma J, Zhou Q et al. Evaluating Distribution and Prognostic Value of New Tumor-Infiltrating Lymphocytes in HCC Based on a scRNA-Seq Study With CIBERSORTx. Front Med (Lausanne) 2020;7:451. PMID: 33043022
  • Cao QT, Aguiar JA, Tremblay BJ, Abbas N et al. ABCF1 Regulates dsDNA-induced Immune Responses in Human Airway Epithelial Cells. Front Cell Infect Microbiol 2020;10:487. PMID: 33042865
  • Xu X, Cheng L, Fan Y, Mao W et al. Tumor Microenvironment-Associated Immune-Related Genes for the Prognosis of Malignant Pleural Mesothelioma. Front Oncol 2020;10:544789. PMID: 33042835
  • Zhang J, Wang L, Xu X, Li X et al. Transcriptome-Based Network Analysis Unveils Eight Immune-Related Genes as Molecular Signatures in the Immunomodulatory Subtype of Triple-Negative Breast Cancer. Front Oncol 2020;10:1787. PMID: 33042828
  • He Z, Wang C, Xue H, Zhao R et al. Identification of a Metabolism-Related Risk Signature Associated With Clinical Prognosis in Glioblastoma Using Integrated Bioinformatic Analysis. Front Oncol 2020;10:1631. PMID: 33042807
  • Zou C, Yuan C, Ye J, Liu Z et al. Identification and validation of a ten-gene set variation score as a diagnostic and prognostic stratification tool in hepatocellular carcinoma. Am J Transl Res 2020;12(9):5683-5695. PMID: 33042448
  • Yuan Q, Zhang S, Li J, Xiao J et al. Comprehensive analysis of core genes and key pathways in Parkinson's disease. Am J Transl Res 2020;12(9):5630-5639. PMID: 33042444
  • Ma BB, Zhang TJ, Wang CZ, Xu ZJ et al. Methylation-independent CRIP1 expression is a potential biomarker affecting prognosis in cytogenetically normal acute myeloid leukemia. Am J Transl Res 2020;12(9):4840-4852. PMID: 33042393
  • Qin N, Ma Z, Wang C, Zhang E et al. Comprehensive characterization of functional eRNAs in lung adenocarcinoma reveals novel regulators and a prognosis-related molecular subtype. Theranostics 2020;10(24):11264-11277. PMID: 33042282
  • Boneva SK, Wolf J, Rosmus DD, Schlecht A et al. Transcriptional Profiling Uncovers Human Hyalocytes as a Unique Innate Immune Cell Population. Front Immunol 2020;11:567274. PMID: 33042148
  • Qian X, Xu C, Wu B, Tang H et al. SNORD126 Promotes Hepatitis C Virus Infection by Upregulating Claudin-1 via Activation of PI3K-AKT Signaling Pathway. Front Microbiol 2020;11:565590. PMID: 33042070
  • Colli ML, Szymczak F, Eizirik DL et al. Molecular Footprints of the Immune Assault on Pancreatic Beta Cells in Type 1 Diabetes. Front Endocrinol (Lausanne) 2020;11:568446. PMID: 33042023
  • Ge C, He Y et al. In Silico Prediction of Molecular Targets of Astragaloside IV for Alleviation of COVID-19 Hyperinflammation by Systems Network Pharmacology and Bioinformatic Gene Expression Analysis. Front Pharmacol 2020;11:556984. PMID: 33041797
  • Lim S, Kim Y, Lee SB, Kang HG et al. Inhibition of Chk1 by miR-320c increases oxaliplatin responsiveness in triple-negative breast cancer. Oncogenesis 2020 Oct 11;9(10):91. PMID: 33041328
  • Wang S, Shuai C, Gao S, Jiang J et al. Chemokine CXCL14 acts as a potential genetic target for liver fibrosis. Int Immunopharmacol 2020 Dec;89(Pt A):107067. PMID: 33039963
  • Colella P, Sellier P, Gomez MJ, Biferi MG et al. Gene therapy with secreted acid alpha-glucosidase rescues Pompe disease in a novel mouse model with early-onset spinal cord and respiratory defects. EBioMedicine 2020 Nov;61:103052. PMID: 33039711
  • Liu W, Yu Z, Tang H, Wang X et al. Silencing KIF18B enhances radiosensitivity: identification of a promising therapeutic target in sarcoma. EBioMedicine 2020 Nov;61:103056. PMID: 33038765
  • Zhao Y, Hong XH, Li K, Li YQ et al. ZNF582 hypermethylation promotes metastasis of nasopharyngeal carcinoma by regulating the transcription of adhesion molecules Nectin-3 and NRXN3. Cancer Commun (Lond) 2020 Dec;40(12):721-737. PMID: 33038291
  • Bastian FB, Roux J, Niknejad A, Comte A et al. The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals. Nucleic Acids Res 2021 Jan 8;49(D1):D831-D847. PMID: 33037820
  • Ault RC, Headley CA, Hare AE, Carruthers BJ et al. Blood RNA signatures predict recent tuberculosis exposure in mice, macaques and humans. Sci Rep 2020 Oct 9;10(1):16873. PMID: 33037303
  • Navarro C, Lyu J, Katsori AM, Caridha R et al. An embryonic stem cell-specific heterochromatin state promotes core histone exchange in the absence of DNA accessibility. Nat Commun 2020 Oct 9;11(1):5095. PMID: 33037201
  • Zhang L, Chen S, Zhu J, Meng J et al. REW-ISA: unveiling local functional blocks in epi-transcriptome profiling data via an RNA expression-weighted iterative signature algorithm. BMC Bioinformatics 2020 Oct 9;21(1):447. PMID: 33036550
  • Gabellier L, Bret C, Bossis G, Cartron G et al. DNA Repair Expression Profiling to Identify High-Risk Cytogenetically Normal Acute Myeloid Leukemia and Define New Therapeutic Targets. Cancers (Basel) 2020 Oct 6;12(10). PMID: 33036275
  • Choi SH, Reeves RE, Romano Ibarra GS, Lynch TJ et al. Detargeting Lentiviral-Mediated CFTR Expression in Airway Basal Cells Using miR-106b. Genes (Basel) 2020 Oct 6;11(10). PMID: 33036232
  • Kwon SC, Jang H, Shen S, Baek SC et al. ERH facilitates microRNA maturation through the interaction with the N-terminus of DGCR8. Nucleic Acids Res 2020 Nov 4;48(19):11097-11112. PMID: 33035348
  • Liu X, Fan Z, Li Y, Li Z et al. microRNA-196a-5p inhibits testicular germ cell tumor progression via NR6A1/E-cadherin axis. Cancer Med 2020 Dec;9(23):9107-9122. PMID: 33034957
  • Li R, Deng Y, Liang J, Hu Z et al. Circular RNA circ-102,166 acts as a sponge of miR-182 and miR-184 to suppress hepatocellular carcinoma proliferation and invasion. Cell Oncol (Dordr) 2021 Apr;44(2):279-295. PMID: 33034848
  • Zhao Q, Chen YX, Wu QN, Zhang C et al. Systematic analysis of the transcriptome in small-cell carcinoma of the oesophagus reveals its immune microenvironment. Clin Transl Immunology 2020;9(10):e1173. PMID: 33033616
  • Meng QS, Liu J, Wei L, Fan HM et al. Senescent mesenchymal stem/stromal cells and restoring their cellular functions. World J Stem Cells 2020 Sep 26;12(9):966-985. PMID: 33033558
  • Peng Z, Su P, Yang Y, Yao X et al. Identification of CTLA-4 associated with tumor microenvironment and competing interactions in triple negative breast cancer by co-expression network analysis. J Cancer 2020;11(21):6365-6375. PMID: 33033520
  • Wu M, Li X, Liu R, Yuan H et al. Development and validation of a metastasis-related Gene Signature for predicting the Overall Survival in patients with Pancreatic Ductal Adenocarcinoma. J Cancer 2020;11(21):6299-6318. PMID: 33033514
  • Cai Y, Ma F, Qu L, Liu B et al. Weighted Gene Co-expression Network Analysis of Key Biomarkers Associated With Bronchopulmonary Dysplasia. Front Genet 2020;11:539292. PMID: 33033495
  • Zhang X, Xiang Y, He D, Liang B et al. Identification of Potential Biomarkers for CAD Using Integrated Expression and Methylation Data. Front Genet 2020;11:778. PMID: 33033488
  • Xiong D, Wang Y, You M et al. A gene expression signature of TREM2(hi) macrophages and γδ T cells predicts immunotherapy response. Nat Commun 2020 Oct 8;11(1):5084. PMID: 33033253
  • Chen Z, Zhou L, Liu L, Hou Y et al. Single-cell RNA sequencing highlights the role of inflammatory cancer-associated fibroblasts in bladder urothelial carcinoma. Nat Commun 2020 Oct 8;11(1):5077. PMID: 33033240
  • Yao CD, Haensel D, Gaddam S, Patel T et al. AP-1 and TGFß cooperativity drives non-canonical Hedgehog signaling in resistant basal cell carcinoma. Nat Commun 2020 Oct 8;11(1):5079. PMID: 33033234
  • Li J, Ye D, Shen P, Liu X et al. Mir-20a-5p induced WTX deficiency promotes gastric cancer progressions through regulating PI3K/AKT signaling pathway. J Exp Clin Cancer Res 2020 Oct 8;39(1):212. PMID: 33032635
  • Zhang Z, Chen L, Xu P, Xing L et al. Gene correlation network analysis to identify regulatory factors in sepsis. J Transl Med 2020 Oct 8;18(1):381. PMID: 33032623
  • Zhang X, Yang L, Chen W, Kong M et al. Identification of Potential Hub Genes and Therapeutic Drugs in Malignant Pleural Mesothelioma by Integrated Bioinformatics Analysis. Oncol Res Treat 2020;43(12):656-671. PMID: 33032291
  • Hsu CH, Tomiyasu H, Lee JJ, Tung CW et al. Genome-wide DNA methylation analysis using MethylCap-seq in canine high-grade B-cell lymphoma. J Leukoc Biol 2021 Jun;109(6):1089-1103. PMID: 33031589
  • Carrol DH, Chassagne F, Dettweiler M, Quave CL et al. Antibacterial activity of plant species used for oral health against Porphyromonas gingivalis. PLoS One 2020;15(10):e0239316. PMID: 33031410
  • Meng L, He X, Zhang X, Zhang X et al. Predicting the clinical outcome of melanoma using an immune-related gene pairs signature. PLoS One 2020;15(10):e0240331. PMID: 33031392
  • Summers KM, Bush SJ, Hume DA et al. Network analysis of transcriptomic diversity amongst resident tissue macrophages and dendritic cells in the mouse mononuclear phagocyte system. PLoS Biol 2020 Oct;18(10):e3000859. PMID: 33031383
  • Liu X, Ren H, Guo H, Wang W et al. Interleukin-35 has a tumor-promoting role in hepatocellular carcinoma. Clin Exp Immunol 2021 Feb;203(2):219-229. PMID: 33030251
  • Zhang X, Pang P, Jiang M, Cao Q et al. eRNAs and Superenhancer lncRNAs Are Functional in Human Prostate Cancer. Dis Markers 2020;2020:8847986. PMID: 33029258
  • Huo C, Zhang MY, Li R, Zhou XJ et al. Comprehensive analysis of TPX2-related ceRNA network as prognostic biomarkers in lung adenocarcinoma. Int J Med Sci 2020;17(16):2427-2439. PMID: 33029085
  • Wu P, Zheng Y, Wang Y, Wang Y et al. Development and validation of a robust immune-related prognostic signature in early-stage lung adenocarcinoma. J Transl Med 2020 Oct 7;18(1):380. PMID: 33028329
  • Jin LP, Liu T, Meng FQ, Tai JD et al. Prognosis prediction model based on competing endogenous RNAs for recurrence of colon adenocarcinoma. BMC Cancer 2020 Oct 7;20(1):968. PMID: 33028275
  • Chattopadhyay A, Kwartler CS, Kaw K, Li Y et al. Cholesterol-Induced Phenotypic Modulation of Smooth Muscle Cells to Macrophage/Fibroblast-like Cells Is Driven by an Unfolded Protein Response. Arterioscler Thromb Vasc Biol 2021 Jan;41(1):302-316. PMID: 33028096
  • Lin G, Ji K, Li S, Ma W et al. The Genetics Analysis of Molecular Pathogenesis for Alzheimer&apos;s Disease. Eur Neurol 2020;83(5):458-467. PMID: 33027797
  • van der Linden CJ, Gupta P, Bhuiya AI, Riddick KR et al. Olfactory Stimulation Regulates the Birth of Neurons That Express Specific Odorant Receptors. Cell Rep 2020 Oct 6;33(1):108210. PMID: 33027656
  • Huang YL, Liang CY, Ritz D, Coelho R et al. Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis. Elife 2020 Oct 7;9. PMID: 33026975
  • Li L, Zhu M, Huang H, Wu J et al. Identification of Hub Genes in Anaplastic Thyroid Carcinoma: Evidence From Bioinformatics Analysis. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820962135. PMID: 33025856
  • Ho KH, Chen PH, Shih CM, Lee YT et al. miR-4286 is Involved in Connections Between IGF-1 and TGF-β Signaling for the Mesenchymal Transition and Invasion by Glioblastomas. Cell Mol Neurobiol 2022 Apr;42(3):791-806. PMID: 33025417
  • Song J, Kim YK et al. Discovery and Functional Prediction of Long Non-Coding RNAs Common to Ischemic Stroke and Myocardial Infarction. J Lipid Atheroscler 2020 Sep;9(3):449-459. PMID: 33024736
  • Zhao Z, He B, Cai Q, Zhang P et al. A model of twenty-three metabolic-related genes predicting overall survival for lung adenocarcinoma. PeerJ 2020;8:e10008. PMID: 33024640
  • Sielemann K, Hafner A, Pucker B et al. The reuse of public datasets in the life sciences: potential risks and rewards. PeerJ 2020;8:e9954. PMID: 33024631
  • Siddiqui MA, Gollavilli PN, Ramesh V, Parma B et al. Thymidylate synthase drives the phenotypes of epithelial-to-mesenchymal transition in non-small cell lung cancer. Br J Cancer 2021 Jan;124(1):281-289. PMID: 33024270
  • Chen P, Zhang Z, Chen X et al. Overexpression of PKMYT1 Facilitates Tumor Development and Is Correlated with Poor Prognosis in Clear Cell Renal Cell Carcinoma. Med Sci Monit 2020 Oct 7;26:e926755. PMID: 33024069
  • Petitprez F, Levy S, Sun CM, Meylan M et al. The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression. Genome Med 2020 Oct 6;12(1):86. PMID: 33023656
  • Sarajlic M, Neuper T, Vetter J, Schaller S et al. H. pylori modulates DC functions via T4SS/TNFα/p38-dependent SOCS3 expression. Cell Commun Signal 2020 Oct 6;18(1):160. PMID: 33023610
  • Mabbott NA, Bradford BM, Pal R, Young R et al. The Effects of Immune System Modulation on Prion Disease Susceptibility and Pathogenesis. Int J Mol Sci 2020 Oct 2;21(19). PMID: 33023255
  • Li R, Hu K, Liu H, Green MR et al. OneStopRNAseq: A Web Application for Comprehensive and Efficient Analyses of RNA-Seq Data. Genes (Basel) 2020 Oct 2;11(10). PMID: 33023248
  • Wang J, Zheng J, Ren X, Wang S et al. Integrative analysis of hepatic metabolomic and transcriptomic data reveals potential mechanism of nonalcoholic steatohepatitis in high-fat diet-fed mice. J Diabetes 2020 Oct 6 PMID: 33022884
  • Ke H, Wu Y, Wang R, Wu X et al. Creation of a Prognostic Risk Prediction Model for Lung Adenocarcinoma Based on Gene Expression, Methylation, and Clinical Characteristics. Med Sci Monit 2020 Oct 6;26:e925833. PMID: 33021972
  • Wu M, Sun T, Xing L et al. Circ_0004913 Inhibits Cell Growth, Metastasis, and Glycolysis by Absorbing miR-184 to Regulate HAMP in Hepatocellular Carcinoma. Cancer Biother Radiopharm 2020 Oct 6 PMID: 33021399
  • Wang W, Li A, Han X, Wang Q et al. DEPDC1 up-regulates RAS expression to inhibit autophagy in lung adenocarcinoma cells. J Cell Mol Med 2020 Nov;24(22):13303-13313. PMID: 33021072
  • Werner-Klein M, Grujovic A, Irlbeck C, Obradović M et al. Interleukin-6 trans-signaling is a candidate mechanism to drive progression of human DCCs during clinical latency. Nat Commun 2020 Oct 5;11(1):4977. PMID: 33020483
  • De Boeck A, Ahn BY, D'Mello C, Lun X et al. Glioma-derived IL-33 orchestrates an inflammatory brain tumor microenvironment that accelerates glioma progression. Nat Commun 2020 Oct 5;11(1):4997. PMID: 33020472
  • Bertrand F, Aouadi I, Jung N, Carapito R et al. selectBoost: a general algorithm to enhance the performance of variable selection methods. Bioinformatics 2021 May 5;37(5):659-668. PMID: 33016991
  • Ju ZS, Sun B, Bao D, Zhang XF et al. Effect of lncRNA-BLACAT1 on drug resistance of non-small cell lung cancer cells in DDP chemotherapy by regulating cyclin D1 expression. Eur Rev Med Pharmacol Sci 2020 Sep;24(18):9465-9472. PMID: 33015788
  • Zhang Y, Parmigiani G, Johnson WE et al. ComBat-seq: batch effect adjustment for RNA-seq count data. NAR Genom Bioinform 2020 Sep;2(3):lqaa078. PMID: 33015620
  • Aljabban J, Syed S, Syed S, Rohr M et al. Investigating genetic drivers of dermatomyositis pathogenesis using meta-analysis. Heliyon 2020 Sep;6(9):e04866. PMID: 33015383
  • Chong X, Peng R, Sun Y, Zhang L et al. Identification of Key Genes in Gastric Cancer by Bioinformatics Analysis. Biomed Res Int 2020;2020:7658230. PMID: 33015179
  • Shi Y, Ren J, Zhuang Z, Zhang W et al. Comprehensive Analysis of a ceRNA Network Identifies lncR-C3orf35 Associated with Poor Prognosis in Osteosarcoma. Biomed Res Int 2020;2020:3178037. PMID: 33015161
  • Zhang Z, Gu J, Yin M, Wang D et al. Establishment and Investigation of a Multiple Gene Expression Signature to Predict Long-Term Survival in Pancreatic Cancer. Biomed Res Int 2020;2020:1570862. PMID: 33015155
  • Peng H, Guo Q, Xiao Y, Su T et al. ASPH Regulates Osteogenic Differentiation and Cellular Senescence of BMSCs. Front Cell Dev Biol 2020;8:872. PMID: 33015050
  • Guo L, Li Y, Zhao C, Peng J et al. RECQL4, Negatively Regulated by miR-10a-5p, Facilitates Cell Proliferation and Invasion via MAFB in Ovarian Cancer. Front Oncol 2020;10:524128. PMID: 33014878
  • Zeng F, Su J, Peng C, Liao M et al. Prognostic Implications of Metabolism Related Gene Signature in Cutaneous Melanoma. Front Oncol 2020;10:1710. PMID: 33014847
  • Wang H, Zhu Y, Hu L, Li Y et al. Internal Ribosome Entry Sites Mediate Cap-Independent Translation of Bmi1 in Nasopharyngeal Carcinoma. Front Oncol 2020;10:1678. PMID: 33014838
  • Martins JRB, de Moraes LN, Cury SS, Dadalto J et al. Comparison of microRNA Expression Profile in Chronic Myeloid Leukemia Patients Newly Diagnosed and Treated by Allogeneic Hematopoietic Stem Cell Transplantation. Front Oncol 2020;10:1544. PMID: 33014798
  • Chen S, Li Y, Zhi S, Ding Z et al. lncRNA Xist Regulates Osteoblast Differentiation by Sponging miR-19a-3p in Aging-induced Osteoporosis. Aging Dis 2020 Oct;11(5):1058-1068. PMID: 33014522
  • Mo Z, Zhang S, Zhang S et al. A Novel Signature Based on mTORC1 Pathway in Hepatocellular Carcinoma. J Oncol 2020;2020:8291036. PMID: 33014055
  • Qiu LL, Zhang XG, Chen G, Dang YW et al. Clinical Significance of the Interleukin 24 mRNA Level in Head and Neck Squamous Cell Carcinoma and Its Subgroups: An In Silico Investigation. J Oncol 2020;2020:7042025. PMID: 33014054
  • Wang J, Li Q, Yin Y, Zhang Y et al. Excessive Neutrophils and Neutrophil Extracellular Traps in COVID-19. Front Immunol 2020;11:2063. PMID: 33013872
  • Li X, Wen D, Li X, Yao C et al. Identification of an Immune Signature Predicting Prognosis Risk and Lymphocyte Infiltration in Colon Cancer. Front Immunol 2020;11:1678. PMID: 33013820
  • Bao S, Chen Y, Yang F, Sun C et al. Screening and Identification of Key Biomarkers in Acquired Lapatinib-Resistant Breast Cancer. Front Pharmacol 2020;11:577150. PMID: 33013420
  • Shen H, Meng Y, Hu T, Li S et al. Genetic variants in Hippo signalling pathway-related genes affect the risk of colorectal cancer. Arch Toxicol 2021 Jan;95(1):271-281. PMID: 33011827
  • Zhang R, Ji Z, Yao Y, Zuo W et al. Identification of hub genes in unstable atherosclerotic plaque by conjoint analysis of bioinformatics. Life Sci 2020 Dec 1;262:118517. PMID: 33011223
  • Kim JH, Yoon CY, Jun Y, Lee BB et al. NuA3 HAT antagonizes the Rpd3S and Rpd3L HDACs to optimize mRNA and lncRNA expression dynamics. Nucleic Acids Res 2020 Nov 4;48(19):10753-10767. PMID: 33010166
  • Olagnier D, Farahani E, Thyrsted J, Blay-Cadanet J et al. SARS-CoV2-mediated suppression of NRF2-signaling reveals potent antiviral and anti-inflammatory activity of 4-octyl-itaconate and dimethyl fumarate. Nat Commun 2020 Oct 2;11(1):4938. PMID: 33009401
  • Fan L, Wang T, Hua C, Sun W et al. A compendium of DNA-binding specificities of transcription factors in Pseudomonas syringae. Nat Commun 2020 Oct 2;11(1):4947. PMID: 33009392
  • Li B, Li A, You Z, Xu J et al. Epigenetic silencing of CDKN1A and CDKN2B by SNHG1 promotes the cell cycle, migration and epithelial-mesenchymal transition progression of hepatocellular carcinoma. Cell Death Dis 2020 Oct 2;11(10):823. PMID: 33009370
  • Kamdar S, Fleshner NE, Bapat B et al. A 38-gene model comprised of key TET2-associated genes shows additive utility to high-risk prostate cancer cases in the prognostication of biochemical recurrence. BMC Cancer 2020 Oct 2;20(1):953. PMID: 33008340
  • Campos Coelho AV, Moura RR, Crovella S et al. Reanalysis of Gene Expression Profiles of CD4+ T Cells Treated with HIV-1 Latency Reversal Agents. Microorganisms 2020 Sep 30;8(10). PMID: 33007800
  • Elliott KH, Chen X, Salomone J, Chaturvedi P et al. Gli3 utilizes Hand2 to synergistically regulate tissue-specific transcriptional networks. Elife 2020 Oct 2;9. PMID: 33006313
  • Zhai X, Yang Z, Liu X, Dong Z et al. Identification of NUF2 and FAM83D as potential biomarkers in triple-negative breast cancer. PeerJ 2020;8:e9975. PMID: 33005492
  • Zhu M, Jia L, Li F, Jia J et al. Identification of KIAA0513 and Other Hub Genes Associated With Alzheimer Disease Using Weighted Gene Coexpression Network Analysis. Front Genet 2020;11:981. PMID: 33005179
  • Wang Q, Shen Y, Hu H, Fan C et al. Systematic Transcriptome Analysis of Noise-Induced Hearing Loss Pathogenesis Suggests Inflammatory Activities and Multiple Susceptible Molecules and Pathways. Front Genet 2020;11:968. PMID: 33005175
  • Li P, Lan P, Liu S, Wang Y et al. Cell Polarity Protein Pals1-Associated Tight Junction Expression Is a Favorable Prognostic Marker in Clear Cell Renal Cell Carcinoma. Front Genet 2020;11:931. PMID: 33005169
  • Cui J, Wang L, Zhong W, Chen Z et al. Identification and validation of methylation-driven genes prognostic signature for recurrence of laryngeal squamous cell carcinoma by integrated bioinformatics analysis. Cancer Cell Int 2020;20:472. PMID: 33005105
  • Nanda P, Patra P, Das M, Ghosh A et al. Reconstruction and analysis of genome-scale metabolic model of weak Crabtree positive yeast Lachancea kluyveri. Sci Rep 2020 Oct 1;10(1):16314. PMID: 33004914
  • Zerrouk N, Miagoux Q, Dispot A, Elati M et al. Identification of putative master regulators in rheumatoid arthritis synovial fibroblasts using gene expression data and network inference. Sci Rep 2020 Oct 1;10(1):16236. PMID: 33004899
  • Lortzing T, Kunze R, Steppuhn A, Hilker M et al. Arabidopsis, tobacco, nightshade and elm take insect eggs as herbivore alarm and show similar transcriptomic alarm responses. Sci Rep 2020 Oct 1;10(1):16281. PMID: 33004864
  • Sha QQ, Zheng W, Wu YW, Li S et al. Dynamics and clinical relevance of maternal mRNA clearance during the oocyte-to-embryo transition in humans. Nat Commun 2020 Oct 1;11(1):4917. PMID: 33004802
  • Xin J, Zhang H, He Y, Duren Z et al. Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation. Nat Commun 2020 Oct 1;11(1):4928. PMID: 33004791
  • Shi L, Shang X, Nie K, Lin Z et al. Identification of potential crucial genes associated with the pathogenesis and prognosis of liver hepatocellular carcinoma. J Clin Pathol 2021 Aug;74(8):504-512. PMID: 33004423
  • Ramamoorthy S, Kometani K, Herman JS, Bayer M et al. EBF1 and Pax5 safeguard leukemic transformation by limiting IL-7 signaling, Myc expression, and folate metabolism. Genes Dev 2020 Nov 1;34(21-22):1503-1519. PMID: 33004416
  • Lu W, Wu Y, Lu CX, Zhu T et al. Bioinformatics analysis of prognostic value and prospective pathway signal of miR-30a in ovarian cancer. J Ovarian Res 2020 Oct 1;13(1):120. PMID: 33004058
  • Mirdar Mansuri R, Shobbar ZS, Babaeian Jelodar N, Ghaffari M et al. Salt tolerance involved candidate genes in rice: an integrative meta-analysis approach. BMC Plant Biol 2020 Oct 1;20(1):452. PMID: 33004003
  • Zhao J, Guo C, Ma Z, Liu H et al. Identification of a novel gene expression signature associated with overall survival in patients with lung adenocarcinoma: A comprehensive analysis based on TCGA and GEO databases. Lung Cancer 2020 Nov;149:90-96. PMID: 33002836
  • Patra BG, Roberts K, Wu H et al. A content-based dataset recommendation system for researchers-a case study on Gene Expression Omnibus (GEO) repository. Database (Oxford) 2020 Jan 1;2020:1. PMID: 33002137
  • Jin T, Tan X, Shi X, Lv L et al. Preliminary Findings on Proline-Rich Protein 14 as a Diagnostic Biomarker for Parkinson's Disease. Neuromolecular Med 2021 Jun;23(2):285-291. PMID: 33001354
  • Nelson CW, Ardern Z, Goldberg TL, Meng C et al. Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic. Elife 2020 Oct 1;9. PMID: 33001029
  • Zhang H, Zhang Y, Zhou X, Wright S et al. Functional interrogation of HOXA9 regulome in MLLr leukemia via reporter-based CRISPR/Cas9 screen. Elife 2020 Oct 1;9. PMID: 33001025
  • Zhang L, Zhou H, Li J, Wang X et al. Comprehensive Characterization of Circular RNAs in Neuroblastoma Cell Lines. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820957622. PMID: 33000697
  • Zhang Q, Lei L, Jing D et al. Knockdown of SERPINE1 reverses resistance of triple‑negative breast cancer to paclitaxel via suppression of VEGFA. Oncol Rep 2020 Nov;44(5):1875-1884. PMID: 33000256
  • Wang S, Cao N et al. Uncovering potential differentially expressed miRNAs and targeted mRNAs in myocardial infarction based on integrating analysis. Mol Med Rep 2020 Nov;22(5):4383-4395. PMID: 33000230
  • Zhu ZP, Lin LR, Lv TD, Xu CR et al. High expression levels of DEF6 predicts a poor prognosis for patients with clear cell renal cell carcinoma. Oncol Rep 2020 Nov;44(5):2056-2066. PMID: 33000227
  • Tavora B, Mederer T, Wessel KJ, Ruffing S et al. Tumoural activation of TLR3-SLIT2 axis in endothelium drives metastasis. Nature 2020 Oct;586(7828):299-304. PMID: 32999457
  • Fu DJ, De Micheli AJ, Bidarimath M, Ellenson LH et al. Cells expressing PAX8 are the main source of homeostatic regeneration of adult mouse endometrial epithelium and give rise to serous endometrial carcinoma. Dis Model Mech 2020 Oct 30;13(10). PMID: 32998907
  • Roayaei Ardakany A, Gezer HT, Lonardi S, Ay F et al. Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation. Genome Biol 2020 Sep 30;21(1):256. PMID: 32998764
  • Adnan N, Lei C, Ruan J et al. Robust edge-based biomarker discovery improves prediction of breast cancer metastasis. BMC Bioinformatics 2020 Sep 30;21(Suppl 14):359. PMID: 32998692
  • Kopczyńska M, Kolenda T, Guglas K, Sobocińska J et al. PRINS lncRNA Is a New Biomarker Candidate for HPV Infection and Prognosis of Head and Neck Squamous Cell Carcinomas. Diagnostics (Basel) 2020 Sep 28;10(10). PMID: 32998396
  • Chang YC, Chen MH, Yeh CN, Hsiao M et al. Omics-Based Platforms: Current Status and Potential Use for Cholangiocarcinoma. Biomolecules 2020 Sep 28;10(10). PMID: 32998289
  • Thrupp N, Sala Frigerio C, Wolfs L, Skene NG et al. Single-Nucleus RNA-Seq Is Not Suitable for Detection of Microglial Activation Genes in Humans. Cell Rep 2020 Sep 29;32(13):108189. PMID: 32997994
  • Bhuva DD, Cursons J, Davis MJ et al. Stable gene expression for normalisation and single-sample scoring. Nucleic Acids Res 2020 Nov 4;48(19):e113. PMID: 32997146
  • Kothapalli C, Mahajan G, Farrell K et al. Substrate stiffness induced mechanotransduction regulates temporal evolution of human fetal neural progenitor cell phenotype, differentiation, and biomechanics. Biomater Sci 2020 Sep 30;8(19):5452-5464. PMID: 32996962
  • Liang J, Liu T, Liao J, Zhang L et al. Development and validation of a CpG island methylator phenotype-related prognostic signature for cholangiocarcinoma. J Cell Physiol 2021 Apr;236(4):3143-3156. PMID: 32996133
  • Sahoo D, Katkar GD, Khandelwal S, Behroozikhah M et al. AI-guided discovery of the invariant host response to viral pandemics. bioRxiv 2021 Apr 13 PMID: 32995790
  • Wang Z, Sheng C, Kan G, Yao C et al. RNAi Screening Identifies that TEX10 Promotes the Proliferation of Colorectal Cancer Cells by Increasing NF-κB Activation. Adv Sci (Weinh) 2020 Sep;7(17):2000593. PMID: 32995120
  • Vijayaraj M, Abhinand PA, Venkatesan P, Ragunath PK et al. An ANN model for the differential diagnosis of tuberculosis and sarcoidosis. Bioinformation 2020;16(7):539-546. PMID: 32994679
  • Canver MC, Tripathi P, Bullen MJ, Olshansky M et al. A saturating mutagenesis CRISPR-Cas9-mediated functional genomic screen identifies cis- and trans-regulatory elements of Oct4 in murine ESCs. J Biol Chem 2020 Nov 20;295(47):15797-15809. PMID: 32994224
  • Wang Z, Kan G, Sheng C, Yao C et al. ARHGEF19 regulates MAPK/ERK signaling and promotes the progression of small cell lung cancer. Biochem Biophys Res Commun 2020 Dec 17;533(4):792-799. PMID: 32993957
  • Gu C, Lhamo T, Zou C, Zhou C et al. Comprehensive analysis of angiogenesis-related genes and pathways in early diabetic retinopathy. BMC Med Genomics 2020 Sep 29;13(1):142. PMID: 32993645
  • Grabia S, Smyczynska U, Pagacz K, Fendler W et al. NormiRazor: tool applying GPU-accelerated computing for determination of internal references in microRNA transcription studies. BMC Bioinformatics 2020 Sep 29;21(1):425. PMID: 32993488
  • Gil J, Karpiński P, Sąsiadek MM et al. Transcriptomic Profiling for the Autophagy Pathway in Colorectal Cancer. Int J Mol Sci 2020 Sep 26;21(19). PMID: 32993062
  • Vagiona AC, Andrade-Navarro MA, Psomopoulos F, Petrakis S et al. Dynamics of a Protein Interaction Network Associated to the Aggregation of polyQ-Expanded Ataxin-1. Genes (Basel) 2020 Sep 25;11(10). PMID: 32992839
  • Roh HC, Kumari M, Taleb S, Tenen D et al. Adipocytes fail to maintain cellular identity during obesity due to reduced PPARγ activity and elevated TGFβ-SMAD signaling. Mol Metab 2020 Dec;42:101086. PMID: 32992037
  • Zheng Y, Chi S, Li C et al. Identification of potential gene drivers of cutaneous squamous cell carcinoma: Analysis of microarray data. Medicine (Baltimore) 2020 Sep 25;99(39):e22257. PMID: 32991423
  • Gao G, Shi X, Yao Z, Shen J et al. Identification of lymph node metastasis-related microRNAs in breast cancer using bioinformatics analysis. Medicine (Baltimore) 2020 Sep 25;99(39):e22105. PMID: 32991406
  • Law YY, Lin YM, Liu SC, Wu MH et al. Visfatin increases ICAM-1 expression and monocyte adhesion in human osteoarthritis synovial fibroblasts by reducing miR-320a expression. Aging (Albany NY) 2020 Sep 29;12(18):18635-18648. PMID: 32991325
  • Karunakaran D, Turner AW, Duchez AC, Soubeyrand S et al. RIPK1 gene variants associate with obesity in humans and can be therapeutically silenced to reduce obesity in mice. Nat Metab 2020 Oct;2(10):1113-1125. PMID: 32989316
  • Paris AJ, Hayer KE, Oved JH, Avgousti DC et al. STAT3-BDNF-TrkB signalling promotes alveolar epithelial regeneration after lung injury. Nat Cell Biol 2020 Oct;22(10):1197-1210. PMID: 32989251
  • Ye Y, Kuang X, Xie Z, Liang L et al. Small-molecule MMP2/MMP9 inhibitor SB-3CT modulates tumor immune surveillance by regulating PD-L1. Genome Med 2020 Sep 28;12(1):83. PMID: 32988398
  • Miao B, Fu S, Lyu C, Gontarz P et al. Tissue-specific usage of transposable element-derived promoters in mouse development. Genome Biol 2020 Sep 28;21(1):255. PMID: 32988383
  • Xie L, Chao X, Teng T, Li Q et al. Identification of Potential Biomarkers and Related Transcription Factors in Peripheral Blood of Tuberculosis Patients. Int J Environ Res Public Health 2020 Sep 24;17(19). PMID: 32987825
  • Al-Marsoummi S, Pacella J, Dockter K, Soderberg M et al. Schlafen 12 Is Prognostically Favorable and Reduces C-Myc and Proliferation in Lung Adenocarcinoma but Not in Lung Squamous Cell Carcinoma. Cancers (Basel) 2020 Sep 24;12(10). PMID: 32987632
  • Jiang S, Li H, Hong H, Du G et al. Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains. Brief Bioinform 2021 May 20;22(3). PMID: 32987404
  • Azar S, Udi S, Drori A, Hadar R et al. Reversal of diet-induced hepatic steatosis by peripheral CB1 receptor blockade in mice is p53/miRNA-22/SIRT1/PPARα dependent. Mol Metab 2020 Dec;42:101087. PMID: 32987186
  • Sun G, Wang C, Wang S, Sun H et al. An H3K4me3 reader, BAP18 as an adaptor of COMPASS-like core subunits co-activates ERα action and associates with the sensitivity of antiestrogen in breast cancer. Nucleic Acids Res 2020 Nov 4;48(19):10768-10784. PMID: 32986841
  • Rooney JP, Chorley B, Hiemstra S, Wink S et al. Mining a human transcriptome database for chemical modulators of NRF2. PLoS One 2020;15(9):e0239367. PMID: 32986742
  • Mehrazin A, Safarpour H, Davoudi ST, Parsamanesh N et al. Network-Based Analysis Reveals Association of FOXE1 Gene Polymorphisms in Thyroid Cancer Patients; A Case-Control Study in Southeast of Iran. Asian Pac J Cancer Prev 2020 Sep 1;21(9):2771-2776. PMID: 32986379
  • Fan Y, Li C, Pei W, Tan T et al. Transcriptomic analysis reveals gender differences in gene expression profiling of the hypothalamus of rhesus macaque with aging. Aging (Albany NY) 2020 Sep 27;12(18):18251-18273. PMID: 32986013
  • Xia Y, Xie J, Zhao J, Lou Y et al. Screening and Identification of Key Biomarkers in Melanoma: Evidence from Bioinformatic Analyses. J Comput Biol 2021 Mar;28(3):317-329. PMID: 32985909
  • Fernández V, Martínez-Martínez MÁ, Prieto-Colomina A, Cárdenas A et al. Repression of Irs2 by let-7 miRNAs is essential for homeostasis of the telencephalic neuroepithelium. EMBO J 2020 Nov 2;39(21):e105479. PMID: 32985705
  • Fu Y, Wang J, Panangipalli G, Ulrich BJ et al. STAT5 promotes accessibility and is required for BATF-mediated plasticity at the Il9 locus. Nat Commun 2020 Sep 28;11(1):4882. PMID: 32985505
  • Yang Z, Xu J, Li L, Li R et al. Integrated molecular characterization reveals potential therapeutic strategies for pulmonary sarcomatoid carcinoma. Nat Commun 2020 Sep 28;11(1):4878. PMID: 32985499
  • Liu L, Wang H, Yan C, Tao S et al. An Integrated Analysis of mRNAs and miRNAs Microarray Profiles to Screen miRNA Signatures Involved in Nasopharyngeal Carcinoma. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820956998. PMID: 32985354
  • Pasin F, Shan H, García B, Müller M et al. Abscisic Acid Connects Phytohormone Signaling with RNA Metabolic Pathways and Promotes an Antiviral Response that Is Evaded by a Self-Controlled RNA Virus. Plant Commun 2020 Sep 14;1(5). PMID: 32984814
  • Behera A, Ashraf R, Srivastava AK, Kumar S et al. Bioinformatics analysis and verification of molecular targets in ovarian cancer stem-like cells. Heliyon 2020 Sep;6(9):e04820. PMID: 32984578
  • Huang R, Guo J, Yan P, Zhai S et al. The Construction of Bone Metastasis-Specific Prognostic Model and Co-expressed Network of Alternative Splicing in Breast Cancer. Front Cell Dev Biol 2020;8:790. PMID: 32984314
  • Ren S, Wang W, Shen H, Zhang C et al. Development and Validation of a Clinical Prognostic Model Based on Immune-Related Genes Expressed in Clear Cell Renal Cell Carcinoma. Front Oncol 2020;10:1496. PMID: 32983989
  • Nersisyan S, Engibaryan N, Gorbonos A, Kirdey K et al. Potential role of cellular miRNAs in coronavirus-host interplay. PeerJ 2020;8:e9994. PMID: 32983652
  • Lv M, Mao Q, Li J, Qiao J et al. Knockdown of LINC00665 inhibits proliferation and invasion of breast cancer via competitive binding of miR-3619-5p and inhibition of catenin beta 1. Cell Mol Biol Lett 2020;25:43. PMID: 32983239
  • Krogh TJ, Franke A, Møller-Jensen J, Kaleta C et al. Elucidating the Influence of Chromosomal Architecture on Transcriptional Regulation in Prokaryotes - Observing Strong Local Effects of Nucleoid Structure on Gene Regulation. Front Microbiol 2020;11:2002. PMID: 32983020
  • Zhang J, Miller Z, Musich PR, Thomas AE et al. DSTYK Promotes Metastasis and Chemoresistance via EMT in Colorectal Cancer. Front Pharmacol 2020;11:1250. PMID: 32982725
  • Zhou J, Wang D, Tang D, Huang W et al. Abnormal Activations of Super-Enhancers Enhance the Carcinogenicity in Lung Adenocarcinoma. Cancer Manag Res 2020;12:8509-8518. PMID: 32982443
  • Qu J, Yang J, Chen M, Wei R et al. CircFLNA Acts as a Sponge of miR-646 to Facilitate the Proliferation, Metastasis, Glycolysis, and Apoptosis Inhibition of Gastric Cancer by Targeting PFKFB2. Cancer Manag Res 2020;12:8093-8103. PMID: 32982406
  • Gao HX, Wang MB, Li SJ, Niu J et al. Identification of Hub Genes and Key Pathways Associated with Peripheral T-cell Lymphoma. Curr Med Sci 2020 Oct;40(5):885-899. PMID: 32980897
  • Huang J, Hume AJ, Abo KM, Werder RB et al. SARS-CoV-2 Infection of Pluripotent Stem Cell-Derived Human Lung Alveolar Type 2 Cells Elicits a Rapid Epithelial-Intrinsic Inflammatory Response. Cell Stem Cell 2020 Dec 3;27(6):962-973.e7. PMID: 32979316
  • Liu J, Adhav R, Miao K, Su SM et al. Characterization of BRCA1-deficient premalignant tissues and cancers identifies Plekha5 as a tumor metastasis suppressor. Nat Commun 2020 Sep 25;11(1):4875. PMID: 32978388
  • Taber A, Christensen E, Lamy P, Nordentoft I et al. Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis. Nat Commun 2020 Sep 25;11(1):4858. PMID: 32978382
  • Liu S, Wang H, Li J, Zhang J et al. FZR1 as a novel biomarker for breast cancer neoadjuvant chemotherapy prediction. Cell Death Dis 2020 Sep 25;11(9):804. PMID: 32978372
  • Conway BR, O'Sullivan ED, Cairns C, O'Sullivan J et al. Kidney Single-Cell Atlas Reveals Myeloid Heterogeneity in Progression and Regression of Kidney Disease. J Am Soc Nephrol 2020 Dec;31(12):2833-2854. PMID: 32978267
  • Furlan M, Galeota E, Gaudio ND, Dassi E et al. Genome-wide dynamics of RNA synthesis, processing, and degradation without RNA metabolic labeling. Genome Res 2020 Oct;30(10):1492-1507. PMID: 32978246
  • Wu J, Xiao Y, Sun J, Sun H et al. A single-cell survey of cellular hierarchy in acute myeloid leukemia. J Hematol Oncol 2020 Sep 25;13(1):128. PMID: 32977829
  • Chen C, Chen X, Han J, Lu W et al. Genome-wide analysis of the WRKY gene family in the cucumber genome and transcriptome-wide identification of WRKY transcription factors that respond to biotic and abiotic stresses. BMC Plant Biol 2020 Sep 25;20(1):443. PMID: 32977756
  • Tanaka T, Okada R, Hozaka Y, Wada M et al. Molecular Pathogenesis of Pancreatic Ductal Adenocarcinoma: Impact of miR-30c-5p and miR-30c-2-3p Regulation on Oncogenic Genes. Cancers (Basel) 2020 Sep 23;12(10). PMID: 32977589
  • Regan-Fendt K, Li D, Reyes R, Yu L et al. Transcriptomics-Based Drug Repurposing Approach Identifies Novel Drugs against Sorafenib-Resistant Hepatocellular Carcinoma. Cancers (Basel) 2020 Sep 23;12(10). PMID: 32977582
  • Lamoureux CR, Choudhary KS, King ZA, Sandberg TE et al. The Bitome: digitized genomic features reveal fundamental genome organization. Nucleic Acids Res 2020 Oct 9;48(18):10157-10163. PMID: 32976587
  • Luan J, Ren Y, Gao S, Zhang L et al. High level of defensin alpha 5 in intestine may explain the low incidence of diarrhoea in COVID-19 patients. Eur J Gastroenterol Hepatol 2022 Jan 1;34(1):e3-e4. PMID: 32976188
  • Chen Q, Guo SM, Huang HQ, Huang GP et al. Long noncoding RNA SBF2-AS1 contributes to the growth and metastatic phenotypes of NSCLC via regulating miR-338-3p/ADAM17 axis. Aging (Albany NY) 2020 Sep 25;12(18):17902-17920. PMID: 32976115
  • Ghazvini K, Youssefi M, Keikha M et al. Expression changes of cytotoxicity and apoptosis genes in HTLV-1-associated myelopathy/tropical spastic paraparesis patients from the perspective of system virology. Access Microbiol 2020;2(3):acmi000088. PMID: 32974568
  • Niu J, Yan T, Guo W, Wang W et al. Identification of Potential Therapeutic Targets and Immune Cell Infiltration Characteristics in Osteosarcoma Using Bioinformatics Strategy. Front Oncol 2020;10:1628. PMID: 32974202
  • Yin C, Zhang J, Shen M, Gu Z et al. Matrix Metallopeptidase 14: A Candidate Prognostic Biomarker for Diffuse Large B-Cell Lymphoma. Front Oncol 2020;10:1520. PMID: 32974187
  • Meng X, Li H, Fang E, Feng J et al. Comparison of Stage 4 and Stage 4s Neuroblastoma Identifies Autophagy-Related Gene and LncRNA Signatures Associated With Prognosis. Front Oncol 2020;10:1411. PMID: 32974147
  • Yang H, Wang Y, Zhang Z, Li H et al. Identification of KIF18B as a Hub Candidate Gene in the Metastasis of Clear Cell Renal Cell Carcinoma by Weighted Gene Co-expression Network Analysis. Front Genet 2020;11:905. PMID: 32973873
  • Liang TT, Shao Q, Deng ZC, Wang T et al. Systemic Expression Analysis Reveals Prognostic Significance of WIPI3 in Hepatocellular Carcinoma. Front Genet 2020;11:847. PMID: 32973867
  • Gu M, Yu X, Fan L, Zhu G et al. Genetic Variants in miRNAs Are Associated With Risk of Non-syndromic Tooth Agenesis. Front Physiol 2020;11:1052. PMID: 32973563
  • Yan K, Da TT, Bian ZH, He Y et al. Multi-omics analysis identifies FoxO1 as a regulator of macrophage function through metabolic reprogramming. Cell Death Dis 2020 Sep 24;11(9):800. PMID: 32973162
  • Du J, Su Y, Qian C, Yuan D et al. Raman-guided subcellular pharmaco-metabolomics for metastatic melanoma cells. Nat Commun 2020 Sep 24;11(1):4830. PMID: 32973134
  • Cortez MA, Masrorpour F, Ivan C, Zhang J et al. Bone morphogenetic protein 7 promotes resistance to immunotherapy. Nat Commun 2020 Sep 24;11(1):4840. PMID: 32973129
  • Guan Y, Xu F, Wang Y, Tian J et al. Identification of key genes and functions of circulating tumor cells in multiple cancers through bioinformatic analysis. BMC Med Genomics 2020 Sep 24;13(1):140. PMID: 32972417
  • Yang J, Wang F, Chen B et al. HLA-DPA1 gene is a potential predictor with prognostic values in multiple myeloma. BMC Cancer 2020 Sep 24;20(1):915. PMID: 32972413
  • Fan C, Wang J, Tang Y, Zhang S et al. Upregulation of long non-coding RNA LOC284454 may serve as a new serum diagnostic biomarker for head and neck cancers. BMC Cancer 2020 Sep 24;20(1):917. PMID: 32972383
  • Chou CW, Tan X, Hung CN, Lieberman B et al. Menin and Menin-Associated Proteins Coregulate Cancer Energy Metabolism. Cancers (Basel) 2020 Sep 22;12(9). PMID: 32971831
  • Islam T, Rahman MR, Aydin B, Beklen H et al. Integrative transcriptomics analysis of lung epithelial cells and identification of repurposable drug candidates for COVID-19. Eur J Pharmacol 2020 Nov 15;887:173594. PMID: 32971089
  • Sanz-Pamplona R, Melas M, Maoz A, Schmit SL et al. Lymphocytic infiltration in stage II microsatellite stable colorectal tumors: A retrospective prognosis biomarker analysis. PLoS Med 2020 Sep;17(9):e1003292. PMID: 32970670
  • Wu VH, Nobles CL, Kuri-Cervantes L, McCormick K et al. Assessment of HIV-1 integration in tissues and subsets across infection stages. JCI Insight 2020 Oct 15;5(20). PMID: 32970634
  • Li D, Zhang L, Fu J, Huang H et al. SCTR hypermethylation is a diagnostic biomarker in colorectal cancer. Cancer Sci 2020 Dec;111(12):4558-4566. PMID: 32970347
  • Chen J, Wu R, Xuan Y, Jiang M et al. Bioinformatics analysis and experimental validation of TTK as a biomarker for prognosis in non-small cell lung cancer. Biosci Rep 2020 Oct 30;40(10). PMID: 32969465
  • Dey A, Sen S, Maulik U et al. Unveiling COVID-19-associated organ-specific cell types and cell-specific pathway cascade. Brief Bioinform 2021 Mar 22;22(2):914-923. PMID: 32968798
  • Correia ACP, Calpe S, Mostafavi N, Hoefnagel SJM et al. Detection of circulating BMP5 as a risk factor for Barrett's esophagus. Sci Rep 2020 Sep 23;10(1):15579. PMID: 32968094
  • Zhou D, Bai J, Hu Y, Zhang L et al. [miR-93-5p promotes invasion and migration of triple negative breast cancer cells by targeting FGD5]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2020 Sep;36(9):794-801. PMID: 32967763
  • Vergani E, Dugo M, Cossa M, Frigerio S et al. miR-146a-5p impairs melanoma resistance to kinase inhibitors by targeting COX2 and regulating NFkB-mediated inflammatory mediators. Cell Commun Signal 2020 Sep 23;18(1):156. PMID: 32967672
  • Li H, Sharma A, Ming W, Sun X et al. A deconvolution method and its application in analyzing the cellular fractions in acute myeloid leukemia samples. BMC Genomics 2020 Sep 23;21(1):652. PMID: 32967610
  • Casanova Ferrer F, Pascual M, Hidalgo MR, Malmierca-Merlo P et al. Unveiling Sex-Based Differences in the Effects of Alcohol Abuse: A Comprehensive Functional Meta-Analysis of Transcriptomic Studies. Genes (Basel) 2020 Sep 21;11(9). PMID: 32967293
  • Lin CH, Lee HH, Chang WM, Lee FP et al. FOXD1 Repression Potentiates Radiation Effectiveness by Downregulating G3BP2 Expression and Promoting the Activation of TXNIP-Related Pathways in Oral Cancer. Cancers (Basel) 2020 Sep 21;12(9). PMID: 32967107
  • Kumagai A, Dunphy WG et al. Binding of the Treslin-MTBP Complex to Specific Regions of the Human Genome Promotes the Initiation of DNA Replication. Cell Rep 2020 Sep 22;32(12):108178. PMID: 32966791
  • Chakraborty A, Jenjaroenpun P, Li J, El Hilali S et al. Replication Stress Induces Global Chromosome Breakage in the Fragile X Genome. Cell Rep 2020 Sep 22;32(12):108179. PMID: 32966779
  • Chopra R, Bushart DD, Cooper JP, Yellajoshyula D et al. Altered Capicua expression drives regional Purkinje neuron vulnerability through ion channel gene dysregulation in spinocerebellar ataxia type 1. Hum Mol Genet 2020 Nov 25;29(19):3249-3265. PMID: 32964235
  • Chen M, Wang D, Liu J, Zhou Z et al. MicroRNA-587 Functions as a Tumor Suppressor in Hepatocellular Carcinoma by Targeting Ribosomal Protein SA. Biomed Res Int 2020;2020:3280530. PMID: 32964027
  • Li J, Xie Y, Wang X, Jiang C et al. Identification of hub genes associated with esophageal cancer progression using bioinformatics analysis. Oncol Lett 2020 Nov;20(5):214. PMID: 32963620
  • Liu S, Wang R, Lou Y, Liu J et al. Uncovering the Mechanism of the Effects of Pien-Tze-Huang on Liver Cancer Using Network Pharmacology and Molecular Docking. Evid Based Complement Alternat Med 2020;2020:4863015. PMID: 32963562
  • You C, Wu S, Zheng SC, Zhu T et al. A cell-type deconvolution meta-analysis of whole blood EWAS reveals lineage-specific smoking-associated DNA methylation changes. Nat Commun 2020 Sep 22;11(1):4779. PMID: 32963246
  • Ochsner SA, Pillich RT, McKenna NJ et al. Consensus transcriptional regulatory networks of coronavirus-infected human cells. Sci Data 2020 Sep 22;7(1):314. PMID: 32963239
  • Lorenzo-Martín LF, Fernández-Parejo N, Menacho-Márquez M, Rodríguez-Fdez S et al. VAV2 signaling promotes regenerative proliferation in both cutaneous and head and neck squamous cell carcinoma. Nat Commun 2020 Sep 22;11(1):4788. PMID: 32963234
  • Lima K, Lopes LR, Machado-Neto JA et al. Exploring redox vulnerabilities in JAK2(V617F)-positive cellular models. Hematol Transfus Cell Ther 2021 Oct-Dec;43(4):430-436. PMID: 32962959
  • Zhang X, Niu W, Mu M, Hu S et al. Long non-coding RNA LPP-AS2 promotes glioma tumorigenesis via miR-7-5p/EGFR/PI3K/AKT/c-MYC feedback loop. J Exp Clin Cancer Res 2020 Sep 22;39(1):196. PMID: 32962742
  • Chin HG, Sun Z, Vishnu US, Hao P et al. Universal NicE-seq for high-resolution accessible chromatin profiling for formaldehyde-fixed and FFPE tissues. Clin Epigenetics 2020 Sep 22;12(1):143. PMID: 32962734
  • Li Y, Li L et al. Bioinformatic screening for candidate biomarkers and their prognostic values in endometrial cancer. BMC Genet 2020 Sep 22;21(1):113. PMID: 32962636
  • van Lieshout L, van de Stolpe A, van der Ploeg P, Bowtell D et al. Signal Transduction Pathway Activity in High-Grade, Serous Ovarian Carcinoma Reveals a More Favorable Prognosis in Tumors with Low PI3K and High NF-κB Pathway Activity: A Novel Approach to a Long-Standing Enigma. Cancers (Basel) 2020 Sep 18;12(9). PMID: 32961868
  • Cho HY, Lee SW, Jeon YH, Lee DH et al. Combination of ACY-241 and JQ1 Synergistically Suppresses Metastasis of HNSCC via Regulation of MMP-2 and MMP-9. Int J Mol Sci 2020 Sep 19;21(18). PMID: 32961679
  • Hu C, Fang K, Zhang X, Guo Z et al. Dyregulation of the lncRNA TPT1-AS1 positively regulates QKI expression and predicts a poor prognosis for patients with breast cancer. Pathol Res Pract 2020 Nov;216(11):153216. PMID: 32961484
  • Liu J, Sun GL, Pan SL, Qin MB et al. Identification of hub genes in colon cancer via bioinformatics analysis. J Int Med Res 2020 Sep;48(9):300060520953234. PMID: 32961078
  • Dou Y, Barbosa I, Jiang H, Iasillo C et al. NCBP3 positively impacts mRNA biogenesis. Nucleic Acids Res 2020 Oct 9;48(18):10413-10427. PMID: 32960271
  • Manotas MC, Calderón JC, López-Kleine L, Suárez-Obando F et al. Identification of common differentially expressed genes in Turner (45,X) and Klinefelter (47,XXY) syndromes using bioinformatics analysis. Mol Genet Genomic Med 2020 Nov;8(11):e1503. PMID: 32959501
  • Qin W, Yang H, Liu G, Bai R et al. Activating transcription factor 3 is a potential target and a new biomarker for the prognosis of atherosclerosis. Hum Cell 2021 Jan;34(1):49-59. PMID: 32959354
  • Anderson KM, Collins MA, Kong R, Fang K et al. Convergent molecular, cellular, and cortical neuroimaging signatures of major depressive disorder. Proc Natl Acad Sci U S A 2020 Oct 6;117(40):25138-25149. PMID: 32958675
  • Pour AF, Pietrzak M, Sucheston-Campbell LE, Karaesmen E et al. High dimensional model representation of log likelihood ratio: binary classification with SNP data. BMC Med Genomics 2020 Sep 21;13(Suppl 9):133. PMID: 32957998
  • Liu J, Dong C, Jiang G, Lu X et al. Transcription factor expression as a predictor of colon cancer prognosis: a machine learning practice. BMC Med Genomics 2020 Sep 21;13(Suppl 9):135. PMID: 32957968
  • Du H, Ding J, Wang P, Zhang G et al. Anti-Respiratory Syncytial Virus Mechanism of Houttuynia cordata Thunb Exploration based on Network Pharmacology. Comb Chem High Throughput Screen 2021;24(8):1137-1150. PMID: 32957876
  • Deng B, Wang M, Liu Z et al. A panel of 8 miRNAs as a novel diagnostic biomarker in pancreatic cancer. Medicine (Baltimore) 2020 Sep 18;99(38):e22261. PMID: 32957376
  • Wang Z, Guo X, Gao L, Wang Y et al. Glioblastoma cell differentiation trajectory predicts the immunotherapy response and overall survival of patients. Aging (Albany NY) 2020 Sep 21;12(18):18297-18321. PMID: 32957084
  • Sun S, Han Q, Liang M, Zhang Q et al. Downregulation of m(6) A reader YTHDC2 promotes tumor progression and predicts poor prognosis in non-small cell lung cancer. Thorac Cancer 2020 Nov;11(11):3269-3279. PMID: 32956555
  • Gustafsson J, Held F, Robinson JL, Björnson E et al. Sources of variation in cell-type RNA-Seq profiles. PLoS One 2020;15(9):e0239495. PMID: 32956417
  • Pálinkás HL, Békési A, Róna G, Pongor L et al. Genome-wide alterations of uracil distribution patterns in human DNA upon chemotherapeutic treatments. Elife 2020 Sep 21;9. PMID: 32956035
  • Lv W, Jin J, Xu Z, Luo H et al. lncMGPF is a novel positive regulator of muscle growth and regeneration. J Cachexia Sarcopenia Muscle 2020 Dec;11(6):1723-1746. PMID: 32954689
  • Zhao W, Wang M, Wang C, Liu Y et al. RACGAP1 is transcriptionally regulated by E2F3, and its depletion leads to mitotic catastrophe in esophageal squamous cell carcinoma. Ann Transl Med 2020 Aug;8(15):950. PMID: 32953750
  • Mohammadnejad A, Li S, Duan H, Tan Q et al. Network based analysis of microarray gene expression profiles in response to electroacupuncture. J Tradit Complement Med 2020 Sep;10(5):471-477. PMID: 32953563
  • Sui Q, Liang J, Hu Z, Chen Z et al. Genetic and microenvironmental differences in non-smoking lung adenocarcinoma patients compared with smoking patients. Transl Lung Cancer Res 2020 Aug;9(4):1407-1421. PMID: 32953513
  • Yin S, Li W, Yang G, Cheng Y et al. Effect of Exogenous Transcription Factors Integration Sites on Safety and Pluripotency of Induced Pluripotent Stem Cells. Balkan J Med Genet 2020 Jun;23(1):5-13. PMID: 32953404
  • Zhang DW, Zhang S, Wu J et al. Expression profile analysis to predict potential biomarkers for glaucoma: BMP1, DMD and GEM. PeerJ 2020;8:e9462. PMID: 32953253
  • Liu Z, Chalasani N, Lin J, Gawrieh S et al. Integrative omics analysis identifies macrophage migration inhibitory factor signaling pathways underlying human hepatic fibrogenesis and fibrosis. J BioX Res 2019 Mar;2(1):16-24. PMID: 32953199
  • Chen T, Wu G, Hu H, Wu C et al. Enhanced fatty acid oxidation mediated by CPT1C promotes gastric cancer progression. J Gastrointest Oncol 2020 Aug;11(4):695-707. PMID: 32953153
  • Ma HM, Yu M, Wu C, Huang HB et al. Overexpression of Spondin-2 Is Associated with Recurrence-Free Survival in Patients with Localized Clear Cell Renal Cell Carcinoma. Dis Markers 2020;2020:5074239. PMID: 32952742
  • Zhou DY, Mou X, Liu K, Liu WH et al. In silico prediction and validation of potential therapeutic genes in pancreatic β-cells associated with type 2 diabetes. Exp Ther Med 2020 Nov;20(5):60. PMID: 32952650
  • Li W, Yang X, Shi C, Zhou Z et al. Hsa_circ_002178 Promotes the Growth and Migration of Breast Cancer Cells and Maintains Cancer Stem-like Cell Properties Through Regulating miR-1258/KDM7A Axis. Cell Transplant 2020 Jan-Dec;29:963689720960174. PMID: 32951449
  • Liu J, Frochaux M, Gardeux V, Deplancke B et al. Inter-embryo gene expression variability recapitulates the hourglass pattern of evo-devo. BMC Biol 2020 Sep 19;18(1):129. PMID: 32950053
  • Sim H, Jung E, Lee DH, Choi JH et al. Transcriptomic analysis of the effect of (E)-3-(3,5-dimethoxyphenyl)-1-(2-methoxyphenyl) prop-2-en-1-one (DPP23) on reactive oxygen species generation in MIA PaCa-2 pancreatic cancer cells. Genes Genomics 2020 Nov;42(11):1267-1279. PMID: 32949369
  • Yin C, Cai H, Yang D, Jian Y et al. Cigarette smoke induced neural tube defects by down-regulating noggin expression. Birth Defects Res 2021 Jan 1;113(1):5-13. PMID: 32949110
  • Obara EAA, Aguilar-Morante D, Rasmussen RD, Frias A et al. SPT6-driven error-free DNA repair safeguards genomic stability of glioblastoma cancer stem-like cells. Nat Commun 2020 Sep 18;11(1):4709. PMID: 32948765
  • Wang L, Hu YY, Zhao JL, Huang F et al. Targeted delivery of miR-99b reprograms tumor-associated macrophage phenotype leading to tumor regression. J Immunother Cancer 2020 Sep;8(2). PMID: 32948650
  • Han FJ, Li J, Shen Y, Guo Y et al. microRNA-1271-5p/TIAM1 suppresses the progression of ovarian cancer through inactivating Notch signaling pathway. J Ovarian Res 2020 Sep 18;13(1):110. PMID: 32948241
  • Zheng P, Huang C, Leng D, Sun B et al. Transcriptome analysis of peripheral whole blood identifies crucial lncRNAs implicated in childhood asthma. BMC Med Genomics 2020 Sep 18;13(1):136. PMID: 32948203
  • Borisov N, Sorokin M, Tkachev V, Garazha A et al. Cancer gene expression profiles associated with clinical outcomes to chemotherapy treatments. BMC Med Genomics 2020 Sep 18;13(Suppl 8):111. PMID: 32948183
  • Cowan CS, Renner M, De Gennaro M, Gross-Scherf B et al. Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution. Cell 2020 Sep 17;182(6):1623-1640.e34. PMID: 32946783
  • Dong R, Yang R, Zhan Y, Lai HD et al. Single-Cell Characterization of Malignant Phenotypes and Developmental Trajectories of Adrenal Neuroblastoma. Cancer Cell 2020 Nov 9;38(5):716-733.e6. PMID: 32946775
  • Stubbe HC, Dahlke C, Rotheneder K, Stirner R et al. Integration of microarray data and literature mining identifies a sex bias in DPP4+CD4+ T cells in HIV-1 infection. PLoS One 2020;15(9):e0239399. PMID: 32946499
  • Tan J, Liu L, Zuo Z, Song B et al. Overexpression of novel long intergenic non‑coding RNA LINC02454 is associated with a poor prognosis in papillary thyroid cancer. Oncol Rep 2020 Oct;44(4):1489-1501. PMID: 32945494
  • Aihaiti Y, Tuerhong X, Ye JT, Ren XY et al. Identification of pivotal genes and pathways in the synovial tissue of patients with rheumatoid arthritis and osteoarthritis through integrated bioinformatic analysis. Mol Med Rep 2020 Oct;22(4):3513-3524. PMID: 32945465
  • Zhang L, Liu B, Han J, Wang T et al. Competing endogenous RNA network analysis for screening inflammation‑related long non‑coding RNAs for acute ischemic stroke. Mol Med Rep 2020 Oct;22(4):3081-3094. PMID: 32945445
  • Liu B, Cheng Y, Tian J, Zhang L et al. Upregulated lncRNA Pvt1 may be important for cardiac remodeling at the infarct border zone. Mol Med Rep 2020 Oct;22(4):2605-2616. PMID: 32945428
  • Fan Y, Li J, Yang Y, Zhao X et al. Resveratrol modulates the apoptosis and autophagic death of human lung adenocarcinoma A549 cells via a p53‑dependent pathway: Integrated bioinformatics analysis and experimental validation. Int J Oncol 2020 Oct;57(4):925-938. PMID: 32945383
  • Cavalli E, Petralia MC, Basile MS, Bramanti A et al. Transcriptomic analysis of COVID‑19 lungs and bronchoalveolar lavage fluid samples reveals predominant B cell activation responses to infection. Int J Mol Med 2020 Oct;46(4):1266-1273. PMID: 32945352
  • Wang S, Li W, Hui H, Tiwari SK et al. Cholesterol 25-Hydroxylase inhibits SARS-CoV-2 and other coronaviruses by depleting membrane cholesterol. EMBO J 2020 Nov 2;39(21):e106057. PMID: 32944968
  • Wu X, Huang J, Yang Z, Zhu Y et al. MicroRNA-221-3p is related to survival and promotes tumour progression in pancreatic cancer: a comprehensive study on functions and clinicopathological value. Cancer Cell Int 2020;20:443. PMID: 32943991
  • Halstead MM, Ma X, Zhou C, Schultz RM et al. Chromatin remodeling in bovine embryos indicates species-specific regulation of genome activation. Nat Commun 2020 Sep 17;11(1):4654. PMID: 32943640
  • Naka K, Ochiai R, Matsubara E, Kondo C et al. The lysophospholipase D enzyme Gdpd3 is required to maintain chronic myelogenous leukaemia stem cells. Nat Commun 2020 Sep 17;11(1):4681. PMID: 32943626
  • Geng J, Zhang R, Yuan X, Xu H et al. DRAM1 plays a tumor suppressor role in NSCLC cells by promoting lysosomal degradation of EGFR. Cell Death Dis 2020 Sep 17;11(9):768. PMID: 32943616
  • Elkahloun AG, Saavedra JM et al. Candesartan could ameliorate the COVID-19 cytokine storm. Biomed Pharmacother 2020 Nov;131:110653. PMID: 32942152
  • Khayer N, Mirzaie M, Marashi SA, Jalessi M et al. Rps27a might act as a controller of microglia activation in triggering neurodegenerative diseases. PLoS One 2020;15(9):e0239219. PMID: 32941527
  • Zuo WL, Rostami MR, LeBlanc M, Kaner RJ et al. Dysregulation of club cell biology in idiopathic pulmonary fibrosis. PLoS One 2020;15(9):e0237529. PMID: 32941426
  • Du X, Yang Y, Xiao G, Yang M et al. Respiratory syncytial virus infection-induced mucus secretion by down-regulation of miR-34b/c-5p expression in airway epithelial cells. J Cell Mol Med 2020 Nov;24(21):12694-12705. PMID: 32939938
  • Xing X, Jia S, Leng Y, Wang Q et al. An integrated classifier improves prognostic accuracy in non-metastatic gastric cancer. Oncoimmunology 2020 Aug 30;9(1):1792038. PMID: 32939321
  • Guo H, Lu YW, Lin Z, Huang ZP et al. Intercalated disc protein Xinβ is required for Hippo-YAP signaling in the heart. Nat Commun 2020 Sep 16;11(1):4666. PMID: 32938943
  • Kent OA, Saha M, Coyaud E, Burston HE et al. Haploinsufficiency of RREB1 causes a Noonan-like RASopathy via epigenetic reprogramming of RAS-MAPK pathway genes. Nat Commun 2020 Sep 16;11(1):4673. PMID: 32938917
  • Sawaya AP, Stone RC, Brooks SR, Pastar I et al. Deregulated immune cell recruitment orchestrated by FOXM1 impairs human diabetic wound healing. Nat Commun 2020 Sep 16;11(1):4678. PMID: 32938916
  • Bastola S, Pavlyukov MS, Yamashita D, Ghosh S et al. Glioma-initiating cells at tumor edge gain signals from tumor core cells to promote their malignancy. Nat Commun 2020 Sep 16;11(1):4660. PMID: 32938908
  • Kim HR, Lee T, Choi JK, Jeong Y et al. Genetic variants beyond amyloid and tau associated with cognitive decline: A cohort study. Neurology 2020 Oct 27;95(17):e2366-e2377. PMID: 32938779
  • Wang D, Liu B, Xiong T, Yu W et al. Investigation of the underlying genes and mechanism of familial hypercholesterolemia through bioinformatics analysis. BMC Cardiovasc Disord 2020 Sep 16;20(1):419. PMID: 32938406
  • Chen X, Chen S, Jiang R et al. EnClaSC: a novel ensemble approach for accurate and robust cell-type classification of single-cell transcriptomes. BMC Bioinformatics 2020 Sep 17;21(Suppl 13):392. PMID: 32938367
  • Zhang W, Dong Y, Zhang K et al. Gene expression analysis reveals a pitfall in the molecular research of prostate tumors relevant to Gleason score. J Bioinform Comput Biol 2020 Oct;18(5):2050032. PMID: 32938283
  • Kakouri AC, Votsi C, Tomazou M, Minadakis G et al. Analyzing Gene Expression Profiles from Ataxia and Spasticity Phenotypes to Reveal Spastic Ataxia Related Pathways. Int J Mol Sci 2020 Sep 14;21(18). PMID: 32937819
  • Brann DH, Tsukahara T, Weinreb C, Lipovsek M et al. Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia. Sci Adv 2020 Jul 31;6(31). PMID: 32937591
  • Chen K, Jiao X, Di Rocco A, Shen D et al. Endogenous Cyclin D1 Promotes the Rate of Onset and Magnitude of Mitogenic Signaling via Akt1 Ser473 Phosphorylation. Cell Rep 2020 Sep 15;32(11):108151. PMID: 32937140
  • Schneider K, Nelson GM, Watson JL, Morf J et al. Protein Stability Buffers the Cost of Translation Attenuation following eIF2α Phosphorylation. Cell Rep 2020 Sep 15;32(11):108154. PMID: 32937139
  • Sabik OL, Calabrese GM, Taleghani E, Ackert-Bicknell CL et al. Identification of a Core Module for Bone Mineral Density through the Integration of a Co-expression Network and GWAS Data. Cell Rep 2020 Sep 15;32(11):108145. PMID: 32937138
  • Theurillat I, Hendriks IA, Cossec JC, Andrieux A et al. Extensive SUMO Modification of Repressive Chromatin Factors Distinguishes Pluripotent from Somatic Cells. Cell Rep 2020 Sep 15;32(11):108146. PMID: 32937131
  • Liu Y, Li C, Dong L, Chen X et al. Identification and verification of three key genes associated with survival and prognosis of COAD patients via integrated bioinformatics analysis. Biosci Rep 2020 Sep 30;40(9). PMID: 32936304
  • He B, Garmire L et al. Prediction of repurposed drugs for treating lung injury in COVID-19. F1000Res 2020;9:609. PMID: 32934806
  • Luan H, Zhang C, Zhang T, He Y et al. Identification of Key Prognostic Biomarker and Its Correlation with Immune Infiltrates in Pancreatic Ductal Adenocarcinoma. Dis Markers 2020;2020:8825997. PMID: 32934754
  • Zhu R, Xue J, Chen H, Zhang Q et al. Identification and validation of core genes for serous ovarian adenocarcinoma via bioinformatics analysis. Oncol Lett 2020 Nov;20(5):145. PMID: 32934713
  • Xu XY, Du Y, Liu X, Ren Y et al. Targeting Follistatin like 1 ameliorates liver fibrosis induced by carbon tetrachloride through TGF-β1-miR29a in mice. Cell Commun Signal 2020 Sep 15;18(1):151. PMID: 32933544
  • Santos JL, Krause BJ, Cataldo LR, Vega J et al. PPARGC1A Gene Promoter Methylation as a Biomarker of Insulin Secretion and Sensitivity in Response to Glucose Challenges. Nutrients 2020 Sep 11;12(9). PMID: 32933059
  • Ching K, Stearns T et al. Centrioles are amplified in cycling progenitors of olfactory sensory neurons. PLoS Biol 2020 Sep;18(9):e3000852. PMID: 32931487
  • Yang W, Yue Y, Yin F, Qi Z et al. LINC01133 and LINC01243 are positively correlated with endometrial carcinoma pathogenesis. Arch Gynecol Obstet 2021 Jan;303(1):207-215. PMID: 32929617
  • Sun E, Karaoz E et al. Can Wharton jelly derived or adipose tissue derived mesenchymal stem cell can be a treatment option for duchenne muscular dystrophy? Answers as transcriptomic aspect. Am J Stem Cells 2020;9(4):57-67. PMID: 32929392
  • Park C, Na KJ, Choi H, Ock CY et al. Tumor immune profiles noninvasively estimated by FDG PET with deep learning correlate with immunotherapy response in lung adenocarcinoma. Theranostics 2020;10(23):10838-10848. PMID: 32929383
  • Zhang Q, Cao C, Gong W, Bao K et al. A feedforward circuit shaped by ECT2 and USP7 contributes to breast carcinogenesis. Theranostics 2020;10(23):10769-10790. PMID: 32929379
  • Zhang J, Ying Y, Li M, Wang M et al. Targeted inhibition of KDM6 histone demethylases eradicates tumor-initiating cells via enhancer reprogramming in colorectal cancer. Theranostics 2020;10(22):10016-10030. PMID: 32929331
  • Demetriou P, Abu-Shah E, Valvo S, McCuaig S et al. A dynamic CD2-rich compartment at the outer edge of the immunological synapse boosts and integrates signals. Nat Immunol 2020 Oct;21(10):1232-1243. PMID: 32929275
  • Cartwright EL, Lott SE et al. Evolved Differences in cis and trans Regulation Between the Maternal and Zygotic mRNA Complements in the Drosophila Embryo. Genetics 2020 Nov;216(3):805-821. PMID: 32928902
  • Yang J, Yang S, Wang Q, Pang J et al. KHK-A promotes the proliferation of oesophageal squamous cell carcinoma through the up-regulation of PRPS1. Arab J Gastroenterol 2021 Mar;22(1):40-46. PMID: 32928708
  • Hyde CJ, Fitzgibbon QP, Elizur A, Smith GG et al. CrustyBase: an interactive online database for crustacean transcriptomes. BMC Genomics 2020 Sep 14;21(1):637. PMID: 32928113
  • Su Y, Guo A, Huang Y, Wang Y et al. GhCIPK6a increases salt tolerance in transgenic upland cotton by involving in ROS scavenging and MAPK signaling pathways. BMC Plant Biol 2020 Sep 14;20(1):421. PMID: 32928106
  • Cao L, Hu T, Lu H, Peng D et al. N-MYC Downstream Regulated Gene 4 (NDRG4), a Frequent Downregulated Gene through DNA Hypermethylation, plays a Tumor Suppressive Role in Esophageal Adenocarcinoma. Cancers (Basel) 2020 Sep 10;12(9). PMID: 32927604
  • Lai Y, Lu XM, Daron J, Pan S et al. The Arabidopsis PHD-finger protein EDM2 has multiple roles in balancing NLR immune receptor gene expression. PLoS Genet 2020 Sep;16(9):e1008993. PMID: 32925902
  • Wang H, Chen X, Bao L, Zhang X et al. Investigating potential molecular mechanisms of serum exosomal miRNAs in colorectal cancer based on bioinformatics analysis. Medicine (Baltimore) 2020 Sep 11;99(37):e22199. PMID: 32925795
  • Wang J, Luo J, Sun Z, Sun F et al. Identification of MTHFD2 as a novel prognosis biomarker in esophageal carcinoma patients based on transcriptomic data and methylation profiling. Medicine (Baltimore) 2020 Sep 11;99(37):e22194. PMID: 32925794
  • Yang Z, Ni J, Kuang L, Gao Y et al. Identification of genes and pathways associated with subchondral bone in osteoarthritis via bioinformatic analysis. Medicine (Baltimore) 2020 Sep 11;99(37):e22142. PMID: 32925767
  • Yang J, Shi W, Zhu S, Yang C et al. Construction of a 6-gene prognostic signature to assess prognosis of patients with pancreatic cancer. Medicine (Baltimore) 2020 Sep 11;99(37):e22092. PMID: 32925750
  • Lee N, Xia X, Meng H, Zhu W et al. Identification of a novel CpG methylation signature to predict prognosis in lung squamous cell carcinoma. Cancer Biomark 2021;30(1):63-73. PMID: 32924987
  • Dong Y, Zhang X et al. Integrative analysis of lncRNAs, miRNAs, and mRNAs-associated ceRNA network in a neonatal mouse model of bronchopulmonary dysplasia. J Matern Fetal Neonatal Med 2021 Oct;34(19):3234-3245. PMID: 32924699
  • Yuan P, Ling L, Fan Q, Gao X et al. A four-gene signature associated with clinical features can better predict prognosis in prostate cancer. Cancer Med 2020 Nov;9(21):8202-8215. PMID: 32924329
  • Wang F, Long J, Li L, Zhao ZB et al. Mutations in the notch signalling pathway are associated with enhanced anti-tumour immunity in colorectal cancer. J Cell Mol Med 2020 Oct;24(20):12176-12187. PMID: 32924269
  • Turelli P, Playfoot C, Grun D, Raclot C et al. Primate-restricted KRAB zinc finger proteins and target retrotransposons control gene expression in human neurons. Sci Adv 2020 Aug;6(35):eaba3200. PMID: 32923624
  • Fan X, Fu Y, Zhou X, Sun L et al. Single-cell transcriptome analysis reveals cell lineage specification in temporal-spatial patterns in human cortical development. Sci Adv 2020 Aug;6(34):eaaz2978. PMID: 32923614
  • Jia J, Jeon EJ, Li M, Richards DJ et al. Evolutionarily conserved sequence motif analysis guides development of chemically defined hydrogels for therapeutic vascularization. Sci Adv 2020 Jul;6(28):eaaz5894. PMID: 32923589
  • Barra J, Gaidosh GS, Blumenthal E, Beckedorff F et al. Integrator restrains paraspeckles assembly by promoting isoform switching of the lncRNA NEAT1. Sci Adv 2020 Jul;6(27):eaaz9072. PMID: 32923585
  • Li J, Zhao B, Yang C, Chen Q et al. Construction of a MicroRNA-mRNA Network Underlying Decidualized Endometriotic Cyst Stromal Cells Using Bioinformatics Analysis. Biomed Res Int 2020;2020:9246868. PMID: 32923489
  • Ardern Z, Neuhaus K, Scherer S et al. Are Antisense Proteins in Prokaryotes Functional? Front Mol Biosci 2020;7:187. PMID: 32923454
  • Jia D, Paudel BB, Hayford CE, Hardeman KN et al. Drug-Tolerant Idling Melanoma Cells Exhibit Theory-Predicted Metabolic Low-Low Phenotype. Front Oncol 2020;10:1426. PMID: 32923395
  • Wei N, Song Y, Zhang F, Sun Z et al. Transcriptome Profiling of Acquired Gefitinib Resistant Lung Cancer Cells Reveals Dramatically Changed Transcription Programs and New Treatment Targets. Front Oncol 2020;10:1424. PMID: 32923394
  • Shao N, Tang H, Mi Y, Zhu Y et al. A novel gene signature to predict immune infiltration and outcome in patients with prostate cancer. Oncoimmunology 2020 Jun 1;9(1):1762473. PMID: 32923125
  • Dai J, Yu X, Han Y, Chai L et al. TMT-labeling Proteomics of Papillary Thyroid Carcinoma Reveal Invasive Biomarkers. J Cancer 2020;11(20):6122-6132. PMID: 32922552
  • Wang X, Tan C, Ye M, Wang X et al. Development and validation of a DNA repair gene signature for prognosis prediction in Colon Cancer. J Cancer 2020;11(20):5918-5928. PMID: 32922534
  • Wu YP, Lin XD, Chen SH, Ke ZB et al. Identification of Prostate Cancer-Related Circular RNA Through Bioinformatics Analysis. Front Genet 2020;11:892. PMID: 32922436
  • Wang J, Yi Y, Chen Y, Xiong Y et al. Potential mechanism of RRM2 for promoting Cervical Cancer based on weighted gene co-expression network analysis. Int J Med Sci 2020;17(15):2362-2372. PMID: 32922202
  • Hu S, Chen S, Li Z, Wang Y et al. Research on the potential mechanism of Chuanxiong Rhizoma on treating Diabetic Nephropathy based on network pharmacology. Int J Med Sci 2020;17(15):2240-2247. PMID: 32922187
  • Sun H, Chang J, Ye M, Weng W et al. GCNT4 is Associated with Prognosis and Suppress Cell Proliferation in Gastric Cancer. Onco Targets Ther 2020;13:8601-8613. PMID: 32922038
  • Song H, Sun J, Kong W, Ji Y et al. Construction of a circRNA-Related ceRNA Prognostic Regulatory Network in Breast Cancer. Onco Targets Ther 2020;13:8347-8358. PMID: 32922032
  • Liu H, Zhu C, Xu Z, Wang J et al. lncRNA PART1 and MIR17HG as ΔNp63α direct targets regulate tumor progression of cervical squamous cell carcinoma. Cancer Sci 2020 Nov;111(11):4129-4141. PMID: 32920922
  • Wen F, Huang J, Lu X, Huang W et al. Identification and prognostic value of metabolism-related genes in gastric cancer. Aging (Albany NY) 2020 Sep 11;12(17):17647-17661. PMID: 32920549
  • Bagchi DP, Nishii A, Li Z, DelProposto JB et al. Wnt/β-catenin signaling regulates adipose tissue lipogenesis and adipocyte-specific loss is rigorously defended by neighboring stromal-vascular cells. Mol Metab 2020 Dec;42:101078. PMID: 32919095
  • Bagnall J, Rowe W, Alachkar N, Roberts J et al. Gene-Specific Linear Trends Constrain Transcriptional Variability of the Toll-like Receptor Signaling. Cell Syst 2020 Sep 23;11(3):300-314.e8. PMID: 32918862
  • de Streel G, Bertrand C, Chalon N, Liénart S et al. Selective inhibition of TGF-β1 produced by GARP-expressing Tregs overcomes resistance to PD-1/PD-L1 blockade in cancer. Nat Commun 2020 Sep 11;11(1):4545. PMID: 32917858
  • Schierding W, Horsfield JA, O'Sullivan JM et al. Low tolerance for transcriptional variation at cohesin genes is accompanied by functional links to disease-relevant pathways. J Med Genet 2021 Aug;58(8):534-542. PMID: 32917770
  • Kim KP, Wu Y, Yoon J, Adachi K et al. Reprogramming competence of OCT factors is determined by transactivation domains. Sci Adv 2020 Sep;6(36). PMID: 32917606
  • Soncini D, Minetto P, Martinuzzi C, Becherini P et al. Amino acid depletion triggered by ʟ-asparaginase sensitizes MM cells to carfilzomib by inducing mitochondria ROS-mediated cell death. Blood Adv 2020 Sep 22;4(18):4312-4326. PMID: 32915979
  • Gindin Y, Gaggar A, Lok AS, Janssen HLA et al. DNA Methylation and Immune Cell Markers Demonstrate Evidence of Accelerated Aging in Patients with Chronic Hepatitis B Virus or Hepatitis C Virus, with or without Human Immunodeficienct Virus Co-infection. Clin Infect Dis 2021 Jul 1;73(1):e184-e190. PMID: 32915202
  • Yu H, Pan R, Gao T, Wu D et al. FANCF hypomethylation is associated with colorectal cancer in Han Chinese. Turk J Gastroenterol 2020 Aug;31(8):558-565. PMID: 32915143
  • Oku S, Feng H, Connor S, Toledo A et al. Alternative splicing at neuroligin site A regulates glycan interaction and synaptogenic activity. Elife 2020 Sep 11;9. PMID: 32915137
  • Li S, Hu D, Hu S, Sun Y et al. Association of rs2070600 in advanced glycosylation end-product specific receptor with prognosis of heart failure. ESC Heart Fail 2020 Dec;7(6):3561-3572. PMID: 32914565
  • Liao S, Lin X, Mo C et al. Integrated analysis of circRNA-miRNA-mRNA regulatory network identifies potential diagnostic biomarkers in diabetic foot ulcer. Noncoding RNA Res 2020 Sep;5(3):116-124. PMID: 32913938
  • Xie H, Liu S, Zhang Z, Chen P et al. A novel seven-gene signature as Prognostic Biomarker in Hepatocellular Carcinoma. J Cancer 2020;11(19):5768-5781. PMID: 32913470
  • King B, Araki J, Palm W, Thompson CB et al. Yap/Taz promote the scavenging of extracellular nutrients through macropinocytosis. Genes Dev 2020 Oct 1;34(19-20):1345-1358. PMID: 32912902
  • Falzone L, Grimaldi M, Celentano E, Augustin LSA et al. Identification of Modulated MicroRNAs Associated with Breast Cancer, Diet, and Physical Activity. Cancers (Basel) 2020 Sep 8;12(9). PMID: 32911851
  • Chu J, Lu M, Pfeifer CG, Alt V et al. Rebuilding Tendons: A Concise Review on the Potential of Dermal Fibroblasts. Cells 2020 Sep 8;9(9). PMID: 32911760
  • Seo Y, Kim J, Park SJ, Park JJ et al. Metformin Suppresses Cancer Stem Cells through AMPK Activation and Inhibition of Protein Prenylation of the Mevalonate Pathway in Colorectal Cancer. Cancers (Basel) 2020 Sep 8;12(9). PMID: 32911743
  • Pan X, Guo Z, Chen Y, Zheng S et al. STAT3-Induced lncRNA SNHG17 Exerts Oncogenic Effects on Ovarian Cancer through Regulating CDK6. Mol Ther Nucleic Acids 2020 Aug 8;22:38-49. PMID: 32911343
  • Zhang B, Sun T et al. Transcription Factors That Regulate the Pathogenesis of Ulcerative Colitis. Biomed Res Int 2020;2020:7402657. PMID: 32908909
  • Jiang K, He Y, Zhang X et al. Identification and Characterization of Copy Number-Associated Driver Genes in Esophageal Squamous Cell Carcinoma. Biomed Res Int 2020;2020:6387519. PMID: 32908901
  • Tian Y, Xing Y, Zhang Z, Peng R et al. Bioinformatics Analysis of Key Genes and circRNA-miRNA-mRNA Regulatory Network in Gastric Cancer. Biomed Res Int 2020;2020:2862701. PMID: 32908877
  • Meng C, Xia S, He Y, Tang X et al. Discovery of Prognostic Signature Genes for Overall Survival Prediction in Gastric Cancer. Comput Math Methods Med 2020;2020:5479279. PMID: 32908579
  • Iwanami N, Lawir DF, Sikora K, O Meara C et al. Transgenerational inheritance of impaired larval T cell development in zebrafish. Nat Commun 2020 Sep 9;11(1):4505. PMID: 32908148
  • Dou C, Sun L, Wang L, Cheng J et al. Bromodomain-containing protein 9 promotes the growth and metastasis of human hepatocellular carcinoma by activating the TUFT1/AKT pathway. Cell Death Dis 2020 Sep 9;11(9):730. PMID: 32908135
  • Jin Y, Qin X et al. Paired like homeodomain 1 and SAM and SH3 domain-containing 1 in the progression and prognosis of head and neck squamous cell carcinoma. Int J Biochem Cell Biol 2020 Oct;127:105846. PMID: 32905855
  • Topal S, Van C, Xue Y, Carey MF et al. INO80C Remodeler Maintains Genomic Stability by Preventing Promiscuous Transcription at Replication Origins. Cell Rep 2020 Sep 8;32(10):108106. PMID: 32905765
  • Li Y, Xiao X, Chen H, Chen Z et al. Transcription factor NFYA promotes G1/S cell cycle transition and cell proliferation by transactivating cyclin D1 and CDK4 in clear cell renal cell carcinoma. Am J Cancer Res 2020;10(8):2446-2463. PMID: 32905496
  • Sang ER, Tian Y, Gong Y, Miller LC et al. Integrate structural analysis, isoform diversity, and interferon-inductive propensity of ACE2 to predict SARS-CoV2 susceptibility in vertebrates. Heliyon 2020 Sep;6(9):e04818. PMID: 32904785
  • Zhang S, Lu Y, Qi L, Wang H et al. AHNAK2 Is Associated with Poor Prognosis and Cell Migration in Lung Adenocarcinoma. Biomed Res Int 2020;2020:8571932. PMID: 32904605
  • Nangraj AS, Selvaraj G, Kaliamurthi S, Kaushik AC et al. Integrated PPI- and WGCNA-Retrieval of Hub Gene Signatures Shared Between Barrett's Esophagus and Esophageal Adenocarcinoma. Front Pharmacol 2020;11:881. PMID: 32903837
  • Beklen H, Gulfidan G, Arga KY, Mardinoglu A et al. Drug Repositioning for P-Glycoprotein Mediated Co-Expression Networks in Colorectal Cancer. Front Oncol 2020;10:1273. PMID: 32903699
  • Lyu L, Xiang W, Zheng F, Huang T et al. Significant Prognostic Value of the Autophagy-Related Gene P4HB in Bladder Urothelial Carcinoma. Front Oncol 2020;10:1613. PMID: 32903592
  • Chen Q, Li F, Gao Y, Xu G et al. Identification of Energy Metabolism Genes for the Prediction of Survival in Hepatocellular Carcinoma. Front Oncol 2020;10:1210. PMID: 32903581
  • Xing C, Tian H, Zhang Y, Guo K et al. DDX39 Overexpression Predicts a Poor Prognosis and Promotes Aggressiveness of Melanoma by Cooperating With SNAIL. Front Oncol 2020;10:1261. PMID: 32903487
  • Tran TN, Bader GD et al. Tempora: Cell trajectory inference using time-series single-cell RNA sequencing data. PLoS Comput Biol 2020 Sep;16(9):e1008205. PMID: 32903255
  • Banerjee A, Doxey AC, Tremblay BJ, Mansfield MJ et al. Predicting the recombination potential of severe acute respiratory syndrome coronavirus 2 and Middle East respiratory syndrome coronavirus. J Gen Virol 2020 Dec;101(12):1251-1260. PMID: 32902372
  • Han H, Wang S, Meng J, Lyu G et al. Long noncoding RNA PART1 restrains aggressive gastric cancer through the epigenetic silencing of PDGFB via the PLZF-mediated recruitment of EZH2. Oncogene 2020 Oct;39(42):6513-6528. PMID: 32901105
  • Suzuki T, Uruno A, Yumoto A, Taguchi K et al. Nrf2 contributes to the weight gain of mice during space travel. Commun Biol 2020 Sep 8;3(1):496. PMID: 32901092
  • Mueller S, Lange S, Collins KAN, Krebs S et al. Linkage of genetic drivers and strain-specific germline variants confound mouse cancer genome analyses. Nat Commun 2020 Sep 8;11(1):4474. PMID: 32901003
  • Ghosh D, Ding L, Bernstein JA, Mersha TB et al. The Utility of Resolving Asthma Molecular Signatures Using Tissue-Specific Transcriptome Data. G3 (Bethesda) 2020 Nov 5;10(11):4049-4062. PMID: 32900903
  • Kurmyshkina O, Kovchur P, Schegoleva L, Volkova T et al. Markers of Angiogenesis, Lymphangiogenesis, and Epithelial-Mesenchymal Transition (Plasticity) in CIN and Early Invasive Carcinoma of the Cervix: Exploring Putative Molecular Mechanisms Involved in Early Tumor Invasion. Int J Mol Sci 2020 Sep 6;21(18). PMID: 32899940
  • Amin R, Tripathi K, Sanderson RD et al. Nuclear Heparanase Regulates Chromatin Remodeling, Gene Expression and PTEN Tumor Suppressor Function. Cells 2020 Sep 6;9(9). PMID: 32899927
  • Ouyang X, Fan Q, Ling G, Shi Y et al. Identification of Diagnostic Biomarkers and Subtypes of Liver Hepatocellular Carcinoma by Multi-Omics Data Analysis. Genes (Basel) 2020 Sep 6;11(9). PMID: 32899915
  • Shimomura H, Okada R, Tanaka T, Hozaka Y et al. Role of miR-30a-3p Regulation of Oncogenic Targets in Pancreatic Ductal Adenocarcinoma Pathogenesis. Int J Mol Sci 2020 Sep 4;21(18). PMID: 32899691
  • Won JI, Shin J, Park SY, Yoon J et al. Global Analysis of the Human RNA Degradome Reveals Widespread Decapped and Endonucleolytic Cleaved Transcripts. Int J Mol Sci 2020 Sep 4;21(18). PMID: 32899599
  • Vivarelli S, Falzone L, Ligresti G, Candido S et al. Role of the Transcription Factor Yin Yang 1 and Its Selectively Identified Target Survivin in High-Grade B-Cells Non-Hodgkin Lymphomas: Potential Diagnostic and Therapeutic Targets. Int J Mol Sci 2020 Sep 3;21(17). PMID: 32899428
  • Korbut E, Janmaat VT, Wierdak M, Hankus J et al. Molecular Profile of Barrett's Esophagus and Gastroesophageal Reflux Disease in the Development of Translational Physiological and Pharmacological Studies. Int J Mol Sci 2020 Sep 3;21(17). PMID: 32899384
  • Tang L, Lei YY, Liu YJ, Tang B et al. The expression of seven key genes can predict distant metastasis of colorectal cancer to the liver or lung. J Dig Dis 2020 Nov;21(11):639-649. PMID: 32896975
  • Singh A, Srivastava N, Yadav A, Ateeq B et al. Targeting AGTR1/NF-κB/CXCR4 axis by miR-155 attenuates oncogenesis in glioblastoma. Neoplasia 2020 Oct;22(10):497-510. PMID: 32896760
  • Bentsen MA, Rausch DM, Mirzadeh Z, Muta K et al. Transcriptomic analysis links diverse hypothalamic cell types to fibroblast growth factor 1-induced sustained diabetes remission. Nat Commun 2020 Sep 7;11(1):4458. PMID: 32895383
  • Brami-Cherrier K, Lewis RG, Cervantes M, Liu Y et al. Cocaine-mediated circadian reprogramming in the striatum through dopamine D2R and PPARγ activation. Nat Commun 2020 Sep 7;11(1):4448. PMID: 32895370
  • Chen F, Zhang W, Xie D, Gao T et al. Histone chaperone FACT represses retrotransposon MERVL and MERVL-derived cryptic promoters. Nucleic Acids Res 2020 Oct 9;48(18):10211-10225. PMID: 32894293
  • Su W, Guan Y, Huang B, Wang J et al. Bioinformatic analysis reveals hub genes and pathways that promote melanoma metastasis. BMC Cancer 2020 Sep 7;20(1):863. PMID: 32894090
  • Ahmed M, Min DS, Kim DR et al. Integrating binding and expression data to predict transcription factors combined function. BMC Genomics 2020 Sep 7;21(1):610. PMID: 32894066
  • Yang Y, Liu X, Zheng J, Xue Y et al. Interaction of BACH2 with FUS promotes malignant progression of glioma cells via the TSLNC8-miR-10b-5p-WWC3 pathway. Mol Oncol 2020 Nov;14(11):2936-2959. PMID: 32892482
  • Xia Q, Jin H, Zhang X, Yan W et al. Prognosis prediction signature of seven immune genes based on HPV status in cervical cancer. Int Immunopharmacol 2020 Nov;88:106935. PMID: 32889244
  • Berkel C, Cacan E et al. GAB2 and GAB3 are expressed in a tumor stage-, grade- and histotype-dependent manner and are associated with shorter progression-free survival in ovarian cancer. J Cell Commun Signal 2021 Mar;15(1):57-70. PMID: 32888136
  • Abbas SZ, Qadir MI, Muhammad SA et al. Systems-level differential gene expression analysis reveals new genetic variants of oral cancer. Sci Rep 2020 Sep 4;10(1):14667. PMID: 32887903
  • Zhang B, Tang B, Gao J, Li J et al. A hypoxia-related signature for clinically predicting diagnosis, prognosis and immune microenvironment of hepatocellular carcinoma patients. J Transl Med 2020 Sep 4;18(1):342. PMID: 32887635
  • Coebergh van den Braak RRJ, Ten Hoorn S, Sieuwerts AM, Tuynman JB et al. Interconnectivity between molecular subtypes and tumor stage in colorectal cancer. BMC Cancer 2020 Sep 4;20(1):850. PMID: 32887573
  • Qi YJ, Jiao YL, Chen P, Kong JY et al. Porphyromonas gingivalis promotes progression of esophageal squamous cell cancer via TGFβ-dependent Smad/YAP/TAZ signaling. PLoS Biol 2020 Sep;18(9):e3000825. PMID: 32886690
  • Kadkhoda S, Darbeheshti F, Tavakkoly-Bazzaz J et al. Identification of dysregulated miRNAs-genes network in ovarian cancer: An integrative approach to uncover the molecular interactions and oncomechanisms. Cancer Rep (Hoboken) 2020 Dec;3(6):e1286. PMID: 32886452
  • Ma Y, Chen SS, Feng YY, Wang HL et al. Identification of novel biomarkers involved in pulmonary arterial hypertension based on multiple-microarray analysis. Biosci Rep 2020 Sep 30;40(9). PMID: 32886110
  • Hu G, Dong X, Gong S, Song Y et al. Systematic screening of CTCF binding partners identifies that BHLHE40 regulates CTCF genome-wide distribution and long-range chromatin interactions. Nucleic Acids Res 2020 Sep 25;48(17):9606-9620. PMID: 32885250
  • Autry RJ, Paugh SW, Carter R, Shi L et al. Integrative genomic analyses reveal mechanisms of glucocorticoid resistance in acute lymphoblastic leukemia. Nat Cancer 2020 Mar;1(3):329-344. PMID: 32885175
  • Xie Y, Davis Lynn BC, Moir N, Cameron DA et al. Breast cancer gene expression datasets do not reflect the disease at the population level. NPJ Breast Cancer 2020;6:39. PMID: 32885043
  • Guo X, Luo Z, Xia T, Wu L et al. Identification of miRNA signature associated with BMP2 and chemosensitivity of TMZ in glioblastoma stem-like cells. Genes Dis 2020 Sep;7(3):424-439. PMID: 32884997
  • Xie NN, Wang FF, Zhou J, Liu C et al. Establishment and Analysis of a Combined Diagnostic Model of Polycystic Ovary Syndrome with Random Forest and Artificial Neural Network. Biomed Res Int 2020;2020:2613091. PMID: 32884937
  • Guo W, Zhao L, Wei G, Liu P et al. Blocking circ_0013912 Suppressed Cell Growth, Migration and Invasion of Pancreatic Ductal Adenocarcinoma Cells in vitro and in vivo Partially Through Sponging miR-7-5p. Cancer Manag Res 2020;12:7291-7303. PMID: 32884344
  • Zhang C, Zhang G, Sun N, Zhang Z et al. An individualized immune signature of pretreatment biopsies predicts pathological complete response to neoadjuvant chemoradiotherapy and outcomes in patients with esophageal squamous cell carcinoma. Signal Transduct Target Ther 2020 Sep 4;5(1):182. PMID: 32883946
  • Cava C, Bertoli G, Castiglioni I et al. A protein interaction map identifies existing drugs targeting SARS-CoV-2. BMC Pharmacol Toxicol 2020 Sep 3;21(1):65. PMID: 32883368
  • Chen L, Xiang Z, Chen X, Zhu X et al. A seven-gene signature model predicts overall survival in kidney renal clear cell carcinoma. Hereditas 2020 Sep 3;157(1):38. PMID: 32883362
  • Teschendorff AE, Zhu T, Breeze CE, Beck S et al. EPISCORE: cell type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data. Genome Biol 2020 Sep 4;21(1):221. PMID: 32883324
  • van den Hoek AM, Verschuren L, Worms N, van Nieuwkoop A et al. A Translational Mouse Model for NASH with Advanced Fibrosis and Atherosclerosis Expressing Key Pathways of Human Pathology. Cells 2020 Sep 1;9(9). PMID: 32883049
  • Das S, Camphausen K, Shankavaram U et al. Cancer-Specific Immune Prognostic Signature in Solid Tumors and Its Relation to Immune Checkpoint Therapies. Cancers (Basel) 2020 Sep 1;12(9). PMID: 32882873
  • Chae HS, Gil M, Saha SK, Kwak HJ et al. Sestrin2 Expression Has Regulatory Properties and Prognostic Value in Lung Cancer. J Pers Med 2020 Sep 1;10(3). PMID: 32882793
  • Ballesteros-Álvarez J, Dilshat R, Fock V, Möller K et al. MITF and TFEB cross-regulation in melanoma cells. PLoS One 2020;15(9):e0238546. PMID: 32881934
  • Wang B, Zhong JL, Xu XH, Wu B et al. Gene Expression Profiling Analysis to Identify Key Genes and Underlying Mechanisms in Meniscus of Osteoarthritis Patients. Comb Chem High Throughput Screen 2021;24(8):1151-1167. PMID: 32881662
  • Kolberg L, Kerimov N, Peterson H, Alasoo K et al. Co-expression analysis reveals interpretable gene modules controlled by trans-acting genetic variants. Elife 2020 Sep 3;9. PMID: 32880574
  • Tang S, Zhong H, Xiong T, Yang X et al. MiR-489 aggravates H2O2-induced apoptosis of cardiomyocytes via inhibiting IGF1. Biosci Rep 2020 Sep 30;40(9). PMID: 32880387
  • Jiang Y, Tian T, Yu C, Zhou W et al. Identification of Recurrent Variants in BRCA1 and BRCA2 across Multiple Cancers in the Chinese Population. Biomed Res Int 2020;2020:6739823. PMID: 32879886
  • de Reyniès A, Javelaud D, Elarouci N, Marsaud V et al. Large-scale pan-cancer analysis reveals broad prognostic association between TGF-β ligands, not Hedgehog, and GLI1/2 expression in tumors. Sci Rep 2020 Sep 2;10(1):14491. PMID: 32879407
  • Wehmas LC, Hester SD, Wood CE et al. Direct formalin fixation induces widespread transcriptomic effects in archival tissue samples. Sci Rep 2020 Sep 2;10(1):14497. PMID: 32879405
  • Yim SY, Kang SH, Shin JH, Jeong YS et al. Low ARID1A Expression is Associated with Poor Prognosis in Hepatocellular Carcinoma. Cells 2020 Sep 1;9(9). PMID: 32878261
  • Chang S, Wang LH, Chen BS et al. Investigating Core Signaling Pathways of Hepatitis B Virus Pathogenesis for Biomarkers Identification and Drug Discovery via Systems Biology and Deep Learning Method. Biomedicines 2020 Aug 31;8(9). PMID: 32878239
  • Shoffner A, Cigliola V, Lee N, Ou J et al. Tp53 Suppression Promotes Cardiomyocyte Proliferation during Zebrafish Heart Regeneration. Cell Rep 2020 Sep 1;32(9):108089. PMID: 32877671
  • Al-Sayegh MA, Mahmood SR, Khair SBA, Xie X et al. β-actin contributes to open chromatin for activation of the adipogenic pioneer factor CEBPA during transcriptional reprograming. Mol Biol Cell 2020 Nov 1;31(23):2511-2521. PMID: 32877276
  • Xu X, Hao Y, Xiong S, He Z et al. Comprehensive Analysis of Long Non-coding RNA-Associated Competing Endogenous RNA Network in Duchenne Muscular Dystrophy. Interdiscip Sci 2020 Dec;12(4):447-460. PMID: 32876881
  • González-Rodríguez P, Cheray M, Füllgrabe J, Salli M et al. The DNA methyltransferase DNMT3A contributes to autophagy long-term memory. Autophagy 2021 May;17(5):1259-1277. PMID: 32876528
  • Massillo C, Duca RB, Lacunza E, Dalton GN et al. Adipose tissue from metabolic syndrome mice induces an aberrant miRNA signature highly relevant in prostate cancer development. Mol Oncol 2020 Nov;14(11):2868-2883. PMID: 32875710
  • Prasad B, Tian Y, Li X et al. Large-Scale Analysis Reveals Gene Signature for Survival Prediction in Primary Glioblastoma. Mol Neurobiol 2020 Dec;57(12):5235-5246. PMID: 32875483
  • Mathur B, Arif W, Patton ME, Faiyaz R et al. Transcriptomic analysis across liver diseases reveals disease-modulating activation of constitutive androstane receptor in cholestasis. JHEP Rep 2020 Oct;2(5):100140. PMID: 32875282
  • Sheng L, Shields EJ, Gospocic J, Glastad KM et al. Social reprogramming in ants induces longevity-associated glia remodeling. Sci Adv 2020 Aug;6(34):eaba9869. PMID: 32875108
  • Lu WC, Xie H, Yuan C, Li JJ et al. Identification of potential biomarkers and candidate small molecule drugs in glioblastoma. Cancer Cell Int 2020;20:419. PMID: 32874133
  • Kim S, Lee SY, Bae S, Lee JK et al. Pellino1 promotes chronic inflammatory skin disease via keratinocyte hyperproliferation and induction of the T helper 17 response. Exp Mol Med 2020 Sep;52(9):1537-1549. PMID: 32873845
  • Duijf PHGLow Baseline Pulmonary Levels of Cytotoxic Lymphocytes as a Predisposing Risk Factor for Severe COVID-19. mSystems 2020 Sep 1;5(5). PMID: 32873611
  • Germain PL, Sonrel A, Robinson MD et al. pipeComp, a general framework for the evaluation of computational pipelines, reveals performant single cell RNA-seq preprocessing tools. Genome Biol 2020 Sep 1;21(1):227. PMID: 32873325
  • Yang X, Cheema J, Zhang Y, Deng H et al. RNA G-quadruplex structures exist and function in vivo in plants. Genome Biol 2020 Sep 1;21(1):226. PMID: 32873317
  • Liu T, Zhu J, Du W, Ning W et al. AKT2 drives cancer progression and is negatively modulated by miR-124 in human lung adenocarcinoma. Respir Res 2020 Sep 1;21(1):227. PMID: 32873299
  • Brito LM, Ribeiro-Dos-Santos Â, Vidal AF, de Araújo GS et al. Differential Expression and miRNA-Gene Interactions in Early and Late Mild Cognitive Impairment. Biology (Basel) 2020 Aug 28;9(9). PMID: 32872134
  • You X, Zhang Y, Long Q, Liu Z et al. Does single gene expression omnibus data mining analysis apply for only tumors and not mental illness? A preliminary study on bipolar disorder based on bioinformatics methodology. Medicine (Baltimore) 2020 Aug 28;99(35):e21989. PMID: 32871949
  • Tan C, Hiwa R, Mueller JL, Vykunta V et al. NR4A nuclear receptors restrain B cell responses to antigen when second signals are absent or limiting. Nat Immunol 2020 Oct;21(10):1267-1279. PMID: 32868928
  • László ZI, Lele Z, Zöldi M, Miczán V et al. ABHD4-dependent developmental anoikis safeguards the embryonic brain. Nat Commun 2020 Aug 31;11(1):4363. PMID: 32868797
  • Lee M, Lee E, Han SK, Choi YH et al. Single-cell RNA sequencing identifies shared differentiation paths of mouse thymic innate T cells. Nat Commun 2020 Aug 31;11(1):4367. PMID: 32868763
  • Surbakti S, Parker HG, McIntyre JK, Maury HK et al. New Guinea highland wild dogs are the original New Guinea singing dogs. Proc Natl Acad Sci U S A 2020 Sep 29;117(39):24369-24376. PMID: 32868416
  • He Z, Brazovskaja A, Ebert S, Camp JG et al. CSS: cluster similarity spectrum integration of single-cell genomics data. Genome Biol 2020 Sep 1;21(1):224. PMID: 32867824
  • Lu WC, Xie H, Yuan C, Li JJ et al. Genomic landscape of the immune microenvironments of brain metastases in breast cancer. J Transl Med 2020 Aug 31;18(1):327. PMID: 32867782
  • Lavergne A, Tarifeño-Saldivia E, Pirson J, Reuter AS et al. Pancreatic and intestinal endocrine cells in zebrafish share common transcriptomic signatures and regulatory programmes. BMC Biol 2020 Aug 31;18(1):109. PMID: 32867764
  • Ma X, Wang P, Xu G, Yu F et al. Integrative genomics analysis of various omics data and networks identify risk genes and variants vulnerable to childhood-onset asthma. BMC Med Genomics 2020 Aug 31;13(1):123. PMID: 32867763
  • Mistry BV, Alanazi M, Fitwi H, Al-Harazi O et al. Expression profiling of WD40 family genes including DDB1- and CUL4- associated factor (DCAF) genes in mice and human suggests important regulatory roles in testicular development and spermatogenesis. BMC Genomics 2020 Aug 31;21(1):602. PMID: 32867693
  • Cámara-Quílez M, Barreiro-Alonso A, Vizoso-Vázquez Á, Rodríguez-Belmonte E et al. The HMGB1-2 Ovarian Cancer Interactome. The Role of HMGB Proteins and Their Interacting Partners MIEN1 and NOP53 in Ovary Cancer and Drug-Response. Cancers (Basel) 2020 Aug 27;12(9). PMID: 32867128
  • Nagai M, Kurokawa M, Ying BW et al. The highly conserved chromosomal periodicity of transcriptomes and the correlation of its amplitude with the growth rate in Escherichia coli. DNA Res 2020 Jun 1;27(3). PMID: 32866232
  • Liu X, Bienkowska JR, Zhong W et al. GeneTEFlow: A Nextflow-based pipeline for analysing gene and transposable elements expression from RNA-Seq data. PLoS One 2020;15(8):e0232994. PMID: 32866155
  • Jiang T, Lu X, Yang F, Wang M et al. LMTK3 promotes tumorigenesis in bladder cancer via the ERK/MAPK pathway. FEBS Open Bio 2020 Oct;10(10):2107-2121. PMID: 32865871
  • Liedtke EI, Zhang S, Thompson JA, Sillau S et al. Correlated expression analysis of genes implicated in schizophrenia: identification of putative disease-related pathways. New Horiz Transl Med 2017 Jan;3(5):224-232. PMID: 32864408
  • Sardar R, Satish D, Birla S, Gupta D et al. Dataset of mutational analysis, miRNAs targeting SARS-CoV-2 genes and host gene expression in SARS-CoV and SARS-CoV-2 infections. Data Brief 2020 Oct;32:106207. PMID: 32864402
  • Bao Z, Zhang B, Li L, Ge Q et al. Identifying disease-associated signaling pathways through a novel effector gene analysis. PeerJ 2020;8:e9695. PMID: 32864216
  • Samborskaia MD, Galitsyna A, Pletenev I, Trofimova A et al. Cumulative contact frequency of a chromatin region is an intrinsic property linked to its function. PeerJ 2020;8:e9566. PMID: 32864204
  • Azhati B, Maolakuerban N, Ma T, Li X et al. Up-regulation of DRAM2 promotes tolerance of bladder transitional cell carcinoma to gemcitabine. Arch Med Sci 2020;16(5):1207-1217. PMID: 32864010
  • Chang X, Zhang T, Wang Q, Rathore MG et al. HI-511 overcomes melanoma drug resistance via targeting AURKB and BRAF V600E. Theranostics 2020;10(21):9721-9740. PMID: 32863956
  • Logotheti S, Marquardt S, Gupta SK, Richter C et al. LncRNA-SLC16A1-AS1 induces metabolic reprogramming during Bladder Cancer progression as target and co-activator of E2F1. Theranostics 2020;10(21):9620-9643. PMID: 32863950
  • Na KJ, Choi H, Oh HR, Kim YH et al. Reciprocal change in Glucose metabolism of Cancer and Immune Cells mediated by different Glucose Transporters predicts Immunotherapy response. Theranostics 2020;10(21):9579-9590. PMID: 32863946
  • Zhao Q, Zhao Y, Hu W, Zhang Y et al. m(6)A RNA modification modulates PI3K/Akt/mTOR signal pathway in Gastrointestinal Cancer. Theranostics 2020;10(21):9528-9543. PMID: 32863943
  • Yang Z, Xu JX, Fang DP, Ke J et al. Analysis of key genes reveal lysine demethylase 5B promotes prostate cancer progression. Oncol Lett 2020 Oct;20(4):62. PMID: 32863895
  • Xu Y, Huang X, Ye W, Zhang Y et al. Comprehensive analysis of key genes associated with ceRNA networks in nasopharyngeal carcinoma based on bioinformatics analysis. Cancer Cell Int 2020;20:408. PMID: 32863767
  • Yang YF, Chang YC, Jan YH, Yang CJ et al. Squalene synthase promotes the invasion of lung cancer cells via the osteopontin/ERK pathway. Oncogenesis 2020 Aug 29;9(8):78. PMID: 32862200
  • Yu YX, Yu XD, Cheng QZ, Tang L et al. The association of serum vitamin K2 levels with Parkinson's disease: from basic case-control study to big data mining analysis. Aging (Albany NY) 2020 Aug 29;12(16):16410-16419. PMID: 32862152
  • Liu X, Li C, Li Q, Chang HC et al. SIRT7 Facilitates CENP-A Nucleosome Assembly and Suppresses Intestinal Tumorigenesis. iScience 2020 Aug 15;23(9):101461. PMID: 32861997
  • Huang S, Zhou N, Zhao L, Gimple RC et al. Pharmacological Activation of Estrogen Receptor Beta Overcomes Tumor Resistance to Immune Checkpoint Blockade Therapy. iScience 2020 Aug 12;23(9):101458. PMID: 32861994
  • Fröhlich A, Sirokay J, Fietz S, Vogt TJ et al. Molecular, clinicopathological, and immune correlates of LAG3 promoter DNA methylation in melanoma. EBioMedicine 2020 Sep;59:102962. PMID: 32861198
  • Yang L, Wang X, Jiao X, Tian B et al. Suppressor of Ty 16 promotes lung cancer malignancy and is negatively regulated by miR-1227-5p. Cancer Sci 2020 Nov;111(11):4075-4087. PMID: 32860308
  • Ishihara H, Yamashita S, Liu YY, Hattori N et al. Genetic and epigenetic profiling indicates the proximal tubule origin of renal cancers in end-stage renal disease. Cancer Sci 2020 Nov;111(11):4276-4287. PMID: 32860304
  • Vandenbon A, Diez D et al. A clustering-independent method for finding differentially expressed genes in single-cell transcriptome data. Nat Commun 2020 Aug 28;11(1):4318. PMID: 32859930
  • Jurburg SD, Konzack M, Eisenhauer N, Heintz-Buschart A et al. The archives are half-empty: an assessment of the availability of microbial community sequencing data. Commun Biol 2020 Aug 28;3(1):474. PMID: 32859925
  • Manoranjan B, Venugopal C, Bakhshinyan D, Adile AA et al. Wnt activation as a therapeutic strategy in medulloblastoma. Nat Commun 2020 Aug 28;11(1):4323. PMID: 32859895
  • Yin X, Fang T, Zhang L, Lin X et al. Impact of CD144 gene expression on outcomes in stage III gastric cancer patients. Pathology 2020 Oct;52(6):657-669. PMID: 32859388
  • Fernandez LR, Gilgenast TG, Phillips-Cremins JE et al. 3DeFDR: statistical methods for identifying cell type-specific looping interactions in 5C and Hi-C data. Genome Biol 2020 Aug 28;21(1):219. PMID: 32859248
  • Qin X, Zhang J, Lin Y, Sun XM et al. Identification of MiR-211-5p as a tumor suppressor by targeting ACSL4 in Hepatocellular Carcinoma. J Transl Med 2020 Aug 28;18(1):326. PMID: 32859232
  • Rauch DA, Olson SL, Harding JC, Sundaramoorthi H et al. Interferon regulatory factor 4 as a therapeutic target in adult T-cell leukemia lymphoma. Retrovirology 2020 Aug 28;17(1):27. PMID: 32859220
  • Abbas M, El-Manzalawy Y et al. Machine learning based refined differential gene expression analysis of pediatric sepsis. BMC Med Genomics 2020 Aug 28;13(1):122. PMID: 32859206
  • Chow JT, Salmena L et al. Prediction and Analysis of SARS-CoV-2-Targeting MicroRNA in Human Lung Epithelium. Genes (Basel) 2020 Aug 26;11(9). PMID: 32858958
  • Ballot E, Ladoire S, Routy B, Truntzer C et al. Tumor Infiltrating Lymphocytes Signature as a New Pan-Cancer Predictive Biomarker of Anti PD-1/PD-L1 Efficacy. Cancers (Basel) 2020 Aug 26;12(9). PMID: 32858956
  • Athie A, Marchese FP, González J, Lozano T et al. Analysis of copy number alterations reveals the lncRNA ALAL-1 as a regulator of lung cancer immune evasion. J Cell Biol 2020 Sep 7;219(9). PMID: 32858747
  • Gerbec ZJ, Hashemi E, Nanbakhsh A, Holzhauer S et al. Conditional Deletion of PGC-1α Results in Energetic and Functional Defects in NK Cells. iScience 2020 Aug 13;23(9):101454. PMID: 32858341
  • Wang W, Wang S, Pan L et al. Identification of key differentially expressed mRNAs and microRNAs in non-small cell lung cancer using bioinformatics analysis. Exp Ther Med 2020 Oct;20(4):3720-3732. PMID: 32855723
  • Vernier M, McGuirk S, Dufour CR, Wan L et al. Inhibition of DNMT1 and ERRα crosstalk suppresses breast cancer via derepression of IRF4. Oncogene 2020 Oct;39(41):6406-6420. PMID: 32855526
  • McFarland JM, Paolella BR, Warren A, Geiger-Schuller K et al. Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action. Nat Commun 2020 Aug 27;11(1):4296. PMID: 32855387
  • Ma D, Fetahu IS, Wang M, Fang R et al. The fusiform gyrus exhibits an epigenetic signature for Alzheimer's disease. Clin Epigenetics 2020 Aug 27;12(1):129. PMID: 32854783
  • Hou W, Ji Z, Ji H, Hicks SC et al. A systematic evaluation of single-cell RNA-sequencing imputation methods. Genome Biol 2020 Aug 27;21(1):218. PMID: 32854757
  • Wang B, Jing T, Jin W, Chen J et al. KIAA1522 potentiates TNFα-NFκB signaling to antagonize platinum-based chemotherapy in lung adenocarcinoma. J Exp Clin Cancer Res 2020 Aug 27;39(1):170. PMID: 32854746
  • Pearson A, Ajoy R, Crynen G, Reed JM et al. Molecular abnormalities in autopsied brain tissue from the inferior horn of the lateral ventricles of nonagenarians and Alzheimer disease patients. BMC Neurol 2020 Aug 27;20(1):317. PMID: 32854643
  • Zhang C, Zhang G, Sun N, Zhang Z et al. Comprehensive molecular analyses of a TNF family-based signature with regard to prognosis, immune features, and biomarkers for immunotherapy in lung adenocarcinoma. EBioMedicine 2020 Sep;59:102959. PMID: 32853987
  • Wu YP, Ke ZB, Lin F, Wen YA et al. Identification of key genes and pathways in castrate-resistant prostate cancer by integrated bioinformatics analysis. Pathol Res Pract 2020 Oct;216(10):153109. PMID: 32853947
  • Bjorness TE, Kulkarni A, Rybalchenko V, Suzuki A et al. An essential role for MEF2C in the cortical response to loss of sleep in mice. Elife 2020 Aug 27;9. PMID: 32851972
  • Zhu X, Chen T, Yang H, Lv K et al. Lactate induced up-regulation of KLHDC8A (Kelch domain-containing 8A) contributes to the proliferation, migration and apoptosis of human glioma cells. J Cell Mol Med 2020 Oct;24(20):11691-11702. PMID: 32851798
  • Wang J, Yang L, Dong C, Wang J et al. EED-mediated histone methylation is critical for CNS myelination and remyelination by inhibiting WNT, BMP, and senescence pathways. Sci Adv 2020 Aug;6(33):eaaz6477. PMID: 32851157
  • Zurawek M, Fichna M, Fichna P, Czainska M et al. Upregulation of FOXO3 in New-Onset Type 1 Diabetes Mellitus. J Immunol Res 2020;2020:9484015. PMID: 32851102
  • Xu Z, Wu Z, Zhang J, Zhou R et al. Development of Multiscale Transcriptional Regulatory Network in Esophageal Cancer Based on Integrated Analysis. Biomed Res Int 2020;2020:5603958. PMID: 32851080
  • Gray M, Turnbull AK, Meehan J, Martínez-Pérez C et al. Comparative Analysis of the Development of Acquired Radioresistance in Canine and Human Mammary Cancer Cell Lines. Front Vet Sci 2020;7:439. PMID: 32851022
  • Zhen D, Wu Y, Zhang Y, Chen K et al. m(6)A Reader: Epitranscriptome Target Prediction and Functional Characterization of N (6)-Methyladenosine (m(6)A) Readers. Front Cell Dev Biol 2020;8:741. PMID: 32850851
  • Song J, Chen W, Zhu G, Wang W et al. Immunogenomic Profiling and Classification of Prostate Cancer Based on HIF-1 Signaling Pathway. Front Oncol 2020;10:1374. PMID: 32850440
  • Gu HY, Lin LL, Zhang C, Yang M et al. The Potential of Five Immune-Related Prognostic Genes to Predict Survival and Response to Immune Checkpoint Inhibitors for Soft Tissue Sarcomas Based on Multi-Omic Study. Front Oncol 2020;10:1317. PMID: 32850416
  • Zhu B, Wu Y, Luo J, Zhang Q et al. MNX1 Promotes Malignant Progression of Cervical Cancer via Repressing the Transcription of p21(cip1). Front Oncol 2020;10:1307. PMID: 32850410
  • Li F, Teng H, Liu M, Liu B et al. Prognostic Value of Immune-Related Genes in the Tumor Microenvironment of Bladder Cancer. Front Oncol 2020;10:1302. PMID: 32850407
  • Song C, Guo Z, Yu D, Wang Y et al. A Prognostic Nomogram Combining Immune-Related Gene Signature and Clinical Factors Predicts Survival in Patients With Lung Adenocarcinoma. Front Oncol 2020;10:1300. PMID: 32850406
  • Cai L, Sun Y, Wang K, Guan W et al. The Better Survival of MSI Subtype Is Associated With the Oxidative Stress Related Pathways in Gastric Cancer. Front Oncol 2020;10:1269. PMID: 32850385
  • Wang P, Xu J, You W, Hou Y et al. Knockdown of CYP24A1 Aggravates 1α,25(OH)(2)D(3)-Inhibited Migration and Invasion of Mouse Ovarian Epithelial Cells by Suppressing EMT. Front Oncol 2020;10:1258. PMID: 32850381
  • Xie Q, Tang T, Pang J, Xu J et al. LSD1 Promotes Bladder Cancer Progression by Upregulating LEF1 and Enhancing EMT. Front Oncol 2020;10:1234. PMID: 32850370
  • Angata K, Sawaki H, Tsujikawa S, Ocho M et al. Glycogene Expression Profiling of Hepatic Cells by RNA-Seq Analysis for Glyco-Biomarker Identification. Front Oncol 2020;10:1224. PMID: 32850363
  • Zhao Y, Pu C, Liu Z et al. Exploration the Significance of a Novel Immune-Related Gene Signature in Prognosis and Immune Microenvironment of Breast Cancer. Front Oncol 2020;10:1211. PMID: 32850356
  • Khadirnaikar S, Chatterjee A, Kumar P, Shukla S et al. A Greedy Algorithm-Based Stem Cell LncRNA Signature Identifies a Novel Subgroup of Lung Adenocarcinoma Patients With Poor Prognosis. Front Oncol 2020;10:1203. PMID: 32850350
  • Zhu GQ, Yu L, Zhou YJ, Du JX et al. Genetic Alterations and Transcriptional Expression of m(6)A RNA Methylation Regulators Drive a Malignant Phenotype and Have Clinical Prognostic Impact in Hepatocellular Carcinoma. Front Oncol 2020;10:900. PMID: 32850303
  • Liu D, Li J, Li N, Lu M et al. Integration of quantitative phosphoproteomics and transcriptomics revealed phosphorylation-mediated molecular events as useful tools for a potential patient stratification and personalized treatment of human nonfunctional pituitary adenomas. EPMA J 2020 Sep;11(3):419-467. PMID: 32849927
  • Bai Y, Wang X, Hou J, Geng L et al. Identification of a Five-Gene Signature for Predicting Survival in Malignant Pleural Mesothelioma Patients. Front Genet 2020;11:899. PMID: 32849853
  • Gan X, Luo Y, Dai G, Lin J et al. Identification of Gene Signatures for Diagnosis and Prognosis of Hepatocellular Carcinomas Patients at Early Stage. Front Genet 2020;11:857. PMID: 32849835
  • Li Y, Chen R, Yang J, Mo S et al. Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Pathways Associated With Clinical Outcome in Hepatocellular Carcinoma. Front Genet 2020;11:814. PMID: 32849813
  • Feng S, Ma J, Long K, Zhang J et al. Comparative microRNA Transcriptomes in Domestic Goats Reveal Acclimatization to High Altitude. Front Genet 2020;11:809. PMID: 32849809
  • Guo Z, Han L, Fu Y, Wu Z et al. Systematic Evaluation of the Diagnostic and Prognostic Significance of Competitive Endogenous RNA Networks in Prostate Cancer. Front Genet 2020;11:785. PMID: 32849794
  • Li Q, Meng L, Liu D et al. Screening and Identification of Therapeutic Targets for Pulmonary Arterial Hypertension Through Microarray Technology. Front Genet 2020;11:782. PMID: 32849793
  • Zhao E, Lan Y, Quan F, Zhu X et al. Identification of a Six-lncRNA Signature With Prognostic Value for Breast Cancer Patients. Front Genet 2020;11:673. PMID: 32849766
  • Prats-Puig A, García-Retortillo S, Puig-Parnau M, Vasileva F et al. DNA Methylation Reorganization of Skeletal Muscle-Specific Genes in Response to Gestational Obesity. Front Physiol 2020;11:938. PMID: 32848869
  • Zhang W, Liu C, Li J, Liu R et al. Target Analysis and Mechanism of Podophyllotoxin in the Treatment of Triple-Negative Breast Cancer. Front Pharmacol 2020;11:1211. PMID: 32848800
  • Yan Y, Song D, Zhang X, Hui G et al. GEO Data Sets Analysis Identifies COX-2 and Its Related Micro RNAs as Biomarkers for Non-Ischemic Heart Failure. Front Pharmacol 2020;11:1155. PMID: 32848764
  • Wu X, Ouyang Y, Wang B, Lin J et al. Hypermethylation of the IRAK3-Activated MAPK Signaling Pathway to Promote the Development of Glioma. Cancer Manag Res 2020;12:7043-7059. PMID: 32848462
  • Bentsen M, Goymann P, Schultheis H, Klee K et al. ATAC-seq footprinting unravels kinetics of transcription factor binding during zygotic genome activation. Nat Commun 2020 Aug 26;11(1):4267. PMID: 32848148
  • Davis EJ, Broestl L, Abdulai-Saiku S, Worden K et al. A second X chromosome contributes to resilience in a mouse model of Alzheimer's disease. Sci Transl Med 2020 Aug 26;12(558). PMID: 32848093
  • Gugliandolo A, Chiricosta L, Boccardi V, Mecocci P et al. MicroRNAs Modulate the Pathogenesis of Alzheimer's Disease: An In Silico Analysis in the Human Brain. Genes (Basel) 2020 Aug 24;11(9). PMID: 32846925
  • Augsornworawat P, Maxwell KG, Velazco-Cruz L, Millman JR et al. Single-Cell Transcriptome Profiling Reveals β Cell Maturation in Stem Cell-Derived Islets after Transplantation. Cell Rep 2020 Aug 25;32(8):108067. PMID: 32846125
  • Zhou H, Zheng C, Huang DS et al. A prognostic gene model of immune cell infiltration in diffuse large B-cell lymphoma. PeerJ 2020;8:e9658. PMID: 32844062
  • Julià A, Ávila G, Celis R, Sanmartí R et al. Lower peripheral helper T cell levels in the synovium are associated with a better response to anti-TNF therapy in rheumatoid arthritis. Arthritis Res Ther 2020 Aug 25;22(1):196. PMID: 32843099
  • Gerovska D, Larrinaga G, Solano-Iturri JD, Márquez J et al. An Integrative Omics Approach Reveals Involvement of BRCA1 in Hepatic Metastatic Progression of Colorectal Cancer. Cancers (Basel) 2020 Aug 22;12(9). PMID: 32842712
  • Ekanem TI, Tsai WL, Lin YH, Tan WQ et al. Identification of the Effects of Aspirin and Sulindac Sulfide on the Inhibition of HMGA2-Mediated Oncogenic Capacities in Colorectal Cancer. Molecules 2020 Aug 22;25(17). PMID: 32842685
  • Li C, Zheng Z et al. Identification of Novel Targets of Knee Osteoarthritis Shared by Cartilage and Synovial Tissue. Int J Mol Sci 2020 Aug 22;21(17). PMID: 32842604
  • Chang WC, Xu Y et al. [Integrated bioinformatics analysis of key genes in allergic rhinitis]. Zhonghua Er Bi Yan Hou Tou Jing Wai Ke Za Zhi 2020 May 7;55(5):458-464. PMID: 32842359
  • Wang KP, Yuan YJ, Zhu JQ, Li BL et al. [Analysis of key genes and signal pathways of human papilloma virus-related head and neck squamous cell carcinoma]. Zhonghua Kou Qiang Yi Xue Za Zhi 2020 Aug 9;55(8):571-577. PMID: 32842349
  • Houri-Zeevi L, Korem Kohanim Y, Antonova O, Rechavi O et al. Three Rules Explain Transgenerational Small RNA Inheritance in C. elegans. Cell 2020 Sep 3;182(5):1186-1197.e12. PMID: 32841602
  • Wang Y, Chen L, Yu M, Fang Y et al. Immune-related signature predicts the prognosis and immunotherapy benefit in bladder cancer. Cancer Med 2020 Oct;9(20):7729-7741. PMID: 32841548
  • Ryan TE, Schmidt CA, Tarpey MD, Amorese AJ et al. PFKFB3-mediated glycolysis rescues myopathic outcomes in the ischemic limb. JCI Insight 2020 Sep 17;5(18). PMID: 32841216
  • Baran-Gale J, Morgan MD, Maio S, Dhalla F et al. Ageing compromises mouse thymus function and remodels epithelial cell differentiation. Elife 2020 Aug 25;9. PMID: 32840480
  • Li Z, Xu M, Li R, Zhu Z et al. Identification of biomarkers associated with synovitis in rheumatoid arthritis by bioinformatics analyses. Biosci Rep 2020 Sep 30;40(9). PMID: 32840301
  • Yeo SK, Zhu X, Okamoto T, Hao M et al. Single-cell RNA-sequencing reveals distinct patterns of cell state heterogeneity in mouse models of breast cancer. Elife 2020 Aug 25;9. PMID: 32840210
  • Nitta T, Tsutsumi M, Nitta S, Muro R et al. Fibroblasts as a source of self-antigens for central immune tolerance. Nat Immunol 2020 Oct;21(10):1172-1180. PMID: 32839611
  • Björn N, Badam TVS, Spalinskas R, Brandén E et al. Whole-genome sequencing and gene network modules predict gemcitabine/carboplatin-induced myelosuppression in non-small cell lung cancer patients. NPJ Syst Biol Appl 2020 Aug 24;6(1):25. PMID: 32839457
  • Yin Y, Cao S, Fu H, Fan X et al. A noncanonical role of NOD-like receptor NLRP14 in PGCLC differentiation and spermatogenesis. Proc Natl Acad Sci U S A 2020 Sep 8;117(36):22237-22248. PMID: 32839316
  • Song P, Feng L, Li J, Dai D et al. β-catenin represses miR455-3p to stimulate m6A modification of HSF1 mRNA and promote its translation in colorectal cancer. Mol Cancer 2020 Aug 24;19(1):129. PMID: 32838807
  • Manipur I, Granata I, Maddalena L, Guarracino MR et al. Clustering analysis of tumor metabolic networks. BMC Bioinformatics 2020 Aug 21;21(Suppl 10):349. PMID: 32838750
  • Soremekun OS, Omolabi KF, Soliman MES et al. Identification and classification of differentially expressed genes reveal potential molecular signature associated with SARS-CoV-2 infection in lung adenocarcinomal cells. Inform Med Unlocked 2020;20:100384. PMID: 32835074
  • Li X, Liu L, Goodall GJ, Schreiber A et al. A novel single-cell based method for breast cancer prognosis. PLoS Comput Biol 2020 Aug;16(8):e1008133. PMID: 32833968
  • Li X, Aishan B, Yang Y, Xie Y et al. Chemokine (C-C motif) Ligand 6 Aggravates Hypoxia Reoxygenation-induced Apoptosis in H9c2 Cells Through Enhancing the Expression of Insulin-like Growth Factor 2-Antisense. J Cardiovasc Pharmacol 2020 Nov;76(5):549-555. PMID: 32833905
  • Menden K, Marouf M, Oller S, Dalmia A et al. Deep learning-based cell composition analysis from tissue expression profiles. Sci Adv 2020 Jul;6(30):eaba2619. PMID: 32832661
  • Adams TS, Schupp JC, Poli S, Ayaub EA et al. Single-cell RNA-seq reveals ectopic and aberrant lung-resident cell populations in idiopathic pulmonary fibrosis. Sci Adv 2020 Jul;6(28):eaba1983. PMID: 32832599
  • Habermann AC, Gutierrez AJ, Bui LT, Yahn SL et al. Single-cell RNA sequencing reveals profibrotic roles of distinct epithelial and mesenchymal lineages in pulmonary fibrosis. Sci Adv 2020 Jul;6(28):eaba1972. PMID: 32832598
  • Kenn M, Cacsire Castillo-Tong D, Singer CF, Cibena M et al. Microarray Normalization Revisited for Reproducible Breast Cancer Biomarkers. Biomed Res Int 2020;2020:1363827. PMID: 32832541
  • Liu P, Tian W et al. Identification of DNA methylation patterns and biomarkers for clear-cell renal cell carcinoma by multi-omics data analysis. PeerJ 2020;8:e9654. PMID: 32832275
  • Chen Y, Li B, Wang J, Liu J et al. Identification and verification of the prognostic value of the glutathione S-transferase Mu genes in gastric cancer. Oncol Lett 2020 Oct;20(4):100. PMID: 32831919
  • Lawson ND, Li R, Shin M, Grosse A et al. An improved zebrafish transcriptome annotation for sensitive and comprehensive detection of cell type-specific genes. Elife 2020 Aug 24;9. PMID: 32831172
  • Sun H, Zhang J, Ma Y, Liu J et al. Integrative genomics analysis identifies five promising genes implicated in insomnia risk based on multiple omics datasets. Biosci Rep 2020 Sep 30;40(9). PMID: 32830860
  • Leonavicius K, Royer C, Miranda AMA, Tyser RCV et al. Spatial protein analysis in developing tissues: a sampling-based image processing approach. Philos Trans R Soc Lond B Biol Sci 2020 Oct 12;375(1809):20190560. PMID: 32829691
  • Rey R, Suaud-Chagny MF, Bohec AL, Dorey JM et al. Overexpression of complement component C4 in the dorsolateral prefrontal cortex, parietal cortex, superior temporal gyrus and associative striatum of patients with schizophrenia. Brain Behav Immun 2020 Nov;90:216-225. PMID: 32827700
  • Cascianelli S, Molineris I, Isella C, Masseroli M et al. Machine learning for RNA sequencing-based intrinsic subtyping of breast cancer. Sci Rep 2020 Aug 21;10(1):14071. PMID: 32826944
  • Faure L, Wang Y, Kastriti ME, Fontanet P et al. Single cell RNA sequencing identifies early diversity of sensory neurons forming via bi-potential intermediates. Nat Commun 2020 Aug 21;11(1):4175. PMID: 32826903
  • Mazzara PG, Muggeo S, Luoni M, Massimino L et al. Frataxin gene editing rescues Friedreich's ataxia pathology in dorsal root ganglia organoid-derived sensory neurons. Nat Commun 2020 Aug 21;11(1):4178. PMID: 32826895
  • Liao H, Cai J, Liu C, Shen L et al. Protein phosphatase 4 promotes Hedgehog signaling through dephosphorylation of Suppressor of fused. Cell Death Dis 2020 Aug 11;11(8):686. PMID: 32826873
  • Su A, Ling F, Vaganay C, Sodaro G et al. The Folate Cycle Enzyme MTHFR Is a Critical Regulator of Cell Response to MYC-Targeting Therapies. Cancer Discov 2020 Dec;10(12):1894-1911. PMID: 32826232
  • Wang W, Bai Y, Koilkonda P, Guan L et al. Genome-wide identification and characterization of gibberellin metabolic and signal transduction (GA MST) pathway mediating seed and berry development (SBD) in grape (Vitis vinifera L.). BMC Plant Biol 2020 Aug 21;20(1):384. PMID: 32825825
  • Khan MJ, Singh P, Dohare R, Jha R et al. Inhibition of miRNA-34a Promotes M2 Macrophage Polarization and Improves LPS-Induced Lung Injury by Targeting Klf4. Genes (Basel) 2020 Aug 20;11(9). PMID: 32825525
  • Ai D, Wang Y, Li X, Pan H et al. Colorectal Cancer Prediction Based on Weighted Gene Co-Expression Network Analysis and Variational Auto-Encoder. Biomolecules 2020 Aug 20;10(9). PMID: 32825264
  • Cangelosi D, Morini M, Zanardi N, Sementa AR et al. Hypoxia Predicts Poor Prognosis in Neuroblastoma Patients and Associates with Biological Mechanisms Involved in Telomerase Activation and Tumor Microenvironment Reprogramming. Cancers (Basel) 2020 Aug 19;12(9). PMID: 32825087
  • Costales-Carrera A, Fernández-Barral A, Bustamante-Madrid P, Domínguez O et al. Comparative Study of Organoids from Patient-Derived Normal and Tumor Colon and Rectal Tissue. Cancers (Basel) 2020 Aug 15;12(8). PMID: 32824266
  • Huang BR, Liu YS, Lai SW, Lin HJ et al. CAIX Regulates GBM Motility and TAM Adhesion and Polarization through EGFR/STAT3 under Hypoxic Conditions. Int J Mol Sci 2020 Aug 14;21(16). PMID: 32823915
  • Batool A, Liu H, Liu YX, Chen SR et al. CD83, a Novel MAPK Signaling Pathway Interactor, Determines Ovarian Cancer Cell Fate. Cancers (Basel) 2020 Aug 13;12(8). PMID: 32823589
  • Lv P, Ma D, Gao S, Zhang Y et al. Generation of foxn1/Casper Mutant Zebrafish for Allograft and Xenograft of Normal and Malignant Cells. Stem Cell Reports 2020 Sep 8;15(3):749-760. PMID: 32822590
  • Liu D, Wu Y et al. Association of an anaplastic lymphoma kinase pathway signature with cell de-differentiation, neoadjuvant chemotherapy response, and recurrence risk in breast cancer. Cancer Commun (Lond) 2020 Sep;40(9):422-434. PMID: 32822101
  • Tang Y, Chen K, Song B, Ma J et al. m6A-Atlas: a comprehensive knowledgebase for unraveling the N6-methyladenosine (m6A) epitranscriptome. Nucleic Acids Res 2021 Jan 8;49(D1):D134-D143. PMID: 32821938
  • Szavits-Nossan J, Ciandrini L et al. Inferring efficiency of translation initiation and elongation from ribosome profiling. Nucleic Acids Res 2020 Sep 25;48(17):9478-9490. PMID: 32821926
  • Zou K, Rouskin S, Dervishi K, McCormick MA et al. Life span extension by glucose restriction is abrogated by methionine supplementation: Cross-talk between glucose and methionine and implication of methionine as a key regulator of life span. Sci Adv 2020 Aug;6(32):eaba1306. PMID: 32821821
  • Kasiviswanathan D, Chinnasamy Perumal R, Bhuvaneswari S, Kumar P et al. Interactome of miRNAs and transcriptome of human umbilical cord endothelial cells exposed to short-term simulated microgravity. NPJ Microgravity 2020;6:18. PMID: 32821776
  • Zeng Z, Xie D, Gong J et al. Genome-wide identification of CpG island methylator phenotype related gene signature as a novel prognostic biomarker of gastric cancer. PeerJ 2020;8:e9624. PMID: 32821544
  • Zhao B, Wang D, Liu Y, Zhang X et al. Six-Gene Signature Associated with Immune Cells in the Progression of Atherosclerosis Discovered by Comprehensive Bioinformatics Analyses. Cardiovasc Ther 2020;2020:1230513. PMID: 32821283
  • Cheng LC, Chao YJ, Wang CY, Phan NN et al. Cancer-Derived Transforming Growth Factor-β Modulates Tumor-Associated Macrophages in Ampullary Cancer. Onco Targets Ther 2020;13:7503-7516. PMID: 32821120
  • Nichterwitz S, Nijssen J, Storvall H, Schweingruber C et al. LCM-seq reveals unique transcriptional adaptation mechanisms of resistant neurons and identifies protective pathways in spinal muscular atrophy. Genome Res 2020 Aug;30(8):1083-1096. PMID: 32820007
  • Ordoñez R, Kulis M, Russiñol N, Chapaprieta V et al. Chromatin activation as a unifying principle underlying pathogenic mechanisms in multiple myeloma. Genome Res 2020 Sep;30(9):1217-1227. PMID: 32820006
  • Wang RQ, Long XR, Ge CL, Zhang MY et al. Identification of a 4-lncRNA signature predicting prognosis of patients with non-small cell lung cancer: a multicenter study in China. J Transl Med 2020 Aug 20;18(1):320. PMID: 32819367
  • Dasgupta K, Hotton S, Belknap W, Syed Y et al. Isolation of novel citrus and plum fruit promoters and their functional characterization for fruit biotechnology. BMC Biotechnol 2020 Aug 20;20(1):43. PMID: 32819338
  • El-Sayed Moustafa JS, Jackson AU, Brotman SM, Guan L et al. ACE2 expression in adipose tissue is associated with COVID-19 cardio-metabolic risk factors and cell type composition. medRxiv 2020 Aug 14 PMID: 32817962
  • Wawrzyniak D, Grabowska M, Głodowicz P, Kuczyński K et al. Down-regulation of tenascin-C inhibits breast cancer cells development by cell growth, migration, and adhesion impairment. PLoS One 2020;15(8):e0237889. PMID: 32817625
  • Chen X, Zhang J, Ruan W, Huang M et al. Urine DNA methylation assay enables early detection and recurrence monitoring for bladder cancer. J Clin Invest 2020 Dec 1;130(12):6278-6289. PMID: 32817589
  • Taubenheim J, Willoweit-Ohl D, Knop M, Franzenburg S et al. Bacteria- and temperature-regulated peptides modulate β-catenin signaling in Hydra. Proc Natl Acad Sci U S A 2020 Sep 1;117(35):21459-21468. PMID: 32817436
  • Beshnova D, Ye J, Onabolu O, Moon B et al. De novo prediction of cancer-associated T cell receptors for noninvasive cancer detection. Sci Transl Med 2020 Aug 19;12(557). PMID: 32817363
  • Heuer SE, Neuner SM, Hadad N, O'Connell KMS et al. Identifying the molecular systems that influence cognitive resilience to Alzheimer's disease in genetically diverse mice. Learn Mem 2020 Sep;27(9):355-371. PMID: 32817302
  • Pandey M, Stormo GD, Dutcher SK et al. Alternative Splicing During the Chlamydomonasreinhardtii Cell Cycle. G3 (Bethesda) 2020 Oct 5;10(10):3797-3810. PMID: 32817123
  • Nip KM, Chiu R, Yang C, Chu J et al. RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes. Genome Res 2020 Aug;30(8):1191-1200. PMID: 32817073
  • Ouni M, Saussenthaler S, Eichelmann F, Jähnert M et al. Epigenetic Changes in Islets of Langerhans Preceding the Onset of Diabetes. Diabetes 2020 Nov;69(11):2503-2517. PMID: 32816961
  • Gonda TA, Fang J, Salas M, Do C et al. A DNA Hypomethylating Drug Alters the Tumor Microenvironment and Improves the Effectiveness of Immune Checkpoint Inhibitors in a Mouse Model of Pancreatic Cancer. Cancer Res 2020 Nov 1;80(21):4754-4767. PMID: 32816859
  • Alharbi AB, Schmitz U, Marshall AD, Vanichkina D et al. Ctcf haploinsufficiency mediates intron retention in a tissue-specific manner. RNA Biol 2021 Jan;18(1):93-103. PMID: 32816606
  • Chang HH, Cheng YC, Tsai WC, Chen Y et al. PSMB8 inhibition decreases tumor angiogenesis in glioblastoma through vascular endothelial growth factor A reduction. Cancer Sci 2020 Nov;111(11):4142-4153. PMID: 32816328
  • Lu YY, Ma XJ, Yang YN et al. MicroRNA-18a-5p mitigates oxygen-glucose-deprivation/reoxygenation-induced injury through suppression of TLRs/NF-κB signaling by targeting TLR8 in PC12 cells. Biosci Biotechnol Biochem 2020 Dec;84(12):2476-2483. PMID: 32815784
  • Vatapalli R, Sagar V, Rodriguez Y, Zhao JC et al. Histone methyltransferase DOT1L coordinates AR and MYC stability in prostate cancer. Nat Commun 2020 Aug 19;11(1):4153. PMID: 32814769
  • Egozi A, Bahar Halpern K, Farack L, Rotem H et al. Zonation of Pancreatic Acinar Cells in Diabetic Mice. Cell Rep 2020 Aug 18;32(7):108043. PMID: 32814046
  • Nakamoto MY, Lammer NC, Batey RT, Wuttke DS et al. hnRNPK recognition of the B motif of Xist and other biological RNAs. Nucleic Acids Res 2020 Sep 18;48(16):9320-9335. PMID: 32813011
  • Goh YT, Koh CWQ, Sim DY, Roca X et al. METTL4 catalyzes m6Am methylation in U2 snRNA to regulate pre-mRNA splicing. Nucleic Acids Res 2020 Sep 18;48(16):9250-9261. PMID: 32813009
  • Zhang Y, Zhao S, Fu Y, Yan L et al. Computational repositioning of dimethyl fumarate for treating alcoholic liver disease. Cell Death Dis 2020 Aug 18;11(8):641. PMID: 32811823
  • Hendrickx DM, Glaab E et al. Comparative transcriptome analysis of Parkinson's disease and Hutchinson-Gilford progeria syndrome reveals shared susceptible cellular network processes. BMC Med Genomics 2020 Aug 18;13(1):114. PMID: 32811487
  • Li L, Lv J, He Y, Wang Z et al. Gene network in pulmonary tuberculosis based on bioinformatic analysis. BMC Infect Dis 2020 Aug 18;20(1):612. PMID: 32811479
  • Sekula M, Gaskins J, Datta S et al. A sparse Bayesian factor model for the construction of gene co-expression networks from single-cell RNA sequencing count data. BMC Bioinformatics 2020 Aug 18;21(1):361. PMID: 32811424
  • Kobayashi Y, Kushihara Y, Saito N, Yamaguchi S et al. A novel scoring method based on RNA-Seq immunograms describing individual cancer-immunity interactions. Cancer Sci 2020 Nov;111(11):4031-4040. PMID: 32810311
  • Djeghloul D, Patel B, Kramer H, Dimond A et al. Identifying proteins bound to native mitotic ESC chromosomes reveals chromatin repressors are important for compaction. Nat Commun 2020 Aug 17;11(1):4118. PMID: 32807789
  • Wang J, Wang J, Yang L, Zhao C et al. CTCF-mediated chromatin looping in EGR2 regulation and SUZ12 recruitment critical for peripheral myelination and repair. Nat Commun 2020 Aug 17;11(1):4133. PMID: 32807777
  • Lu Y, Zhang EY, Liu J, Yu JJ et al. Inhibition of the mechanistic target of rapamycin induces cell survival via MAPK in tuberous sclerosis complex. Orphanet J Rare Dis 2020 Aug 17;15(1):209. PMID: 32807195
  • Wang M, Zhang Y, Xu Z, Qian P et al. RelB sustains endocrine resistant malignancy: an insight of noncanonical NF-κB pathway into breast Cancer progression. Cell Commun Signal 2020 Aug 17;18(1):128. PMID: 32807176
  • Cataldo A, Romero-Cordoba S, Plantamura I, Cosentino G et al. MiR-302b as a Combinatorial Therapeutic Approach to Improve Cisplatin Chemotherapy Efficacy in Human Triple-Negative Breast Cancer. Cancers (Basel) 2020 Aug 12;12(8). PMID: 32806777
  • Llamas-Velasco M, Reolid A, Sanz-García A, Alonso-Guirado L et al. Methylation in psoriasis. Does sex matter? J Eur Acad Dermatol Venereol 2021 Feb;35(2):e161-e163. PMID: 32805747
  • Arora S, Singh P, Dohare R, Jha R et al. Unravelling host-pathogen interactions: ceRNA network in SARS-CoV-2 infection (COVID-19). Gene 2020 Dec 15;762:145057. PMID: 32805314
  • Lei C, Yang D, Chen S, Chen W et al. Patterns of immune infiltration in stable and raptured abdominal aortic aneurysms: A gene-expression-based retrospective study. Gene 2020 Dec 15;762:145056. PMID: 32805313
  • Li T, Liu WB, Tian FF, Jiang JJ et al. Gender-specific SBNO2 and VPS13B as a potential driver of osteoporosis development in male ankylosing spondylitis. Osteoporos Int 2021 Feb;32(2):311-320. PMID: 32803317
  • Shi Y, Zhuang Y, Zhang J, Chen M et al. Identification of Tumorigenic and Prognostic Biomarkers in Colorectal Cancer Based on microRNA Expression Profiles. Biomed Res Int 2020;2020:7136049. PMID: 32802869
  • Yang P, Liu J, Yang T, Zhang L et al. Construction and Investigation of MicroRNA-mRNA Regulatory Network of Gastric Cancer with Helicobacter pylori Infection. Biochem Res Int 2020;2020:6285987. PMID: 32802507
  • Huang R, Gao S, Han Y, Ning H et al. BECN1 promotes radiation-induced G2/M arrest through regulation CDK1 activity: a potential role for autophagy in G2/M checkpoint. Cell Death Discov 2020;6:70. PMID: 32802407
  • Mansouri V, Razzaghi M, Rostami-Nejad M, Rezaei-Tavirani M et al. Neuroprotective Properties of Photobiomodulation in Retinal Regeneration in Rats: Perspectives From Interaction Levels. J Lasers Med Sci 2020 Summer;11(3):280-286. PMID: 32802288
  • Heidari MH, Razzaghi M, Akbarzadeh Baghban A, Rostami-Nejad M et al. Assessment of the Microbiome Role in Skin Protection Against UV Irradiation Via Network Analysis. J Lasers Med Sci 2020 Summer;11(3):238-242. PMID: 32802281
  • Feng Q, Li X, Sun W, Li Y et al. Discovery of Ebselen as an Inhibitor of 6PGD for Suppressing Tumor Growth. Cancer Manag Res 2020;12:6921-6934. PMID: 32801914
  • Xu X, Zheng S et al. MiR-887-3p Negatively Regulates STARD13 and Promotes Pancreatic Cancer Progression. Cancer Manag Res 2020;12:6137-6147. PMID: 32801863
  • Sexton RE, Hallak MNA, Uddin MH, Diab M et al. Gastric Cancer Heterogeneity and Clinical Outcomes. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820935477. PMID: 32799763
  • Smeby J, Kryeziu K, Berg KCG, Eilertsen IA et al. Molecular correlates of sensitivity to PARP inhibition beyond homologous recombination deficiency in pre-clinical models of colorectal cancer point to wild-type TP53 activity. EBioMedicine 2020 Sep;59:102923. PMID: 32799124
  • Liu X, Wang J et al. The nucleosome remodeling and deacetylase complex has prognostic significance and associates with immune microenvironment in skin cutaneous melanoma. Int Immunopharmacol 2020 Nov;88:106887. PMID: 32799111
  • Van Rechem C, Ji F, Mishra S, Chakraborty D et al. The lysine demethylase KDM4A controls the cell-cycle expression of replicative canonical histone genes. Biochim Biophys Acta Gene Regul Mech 2020 Oct;1863(10):194624. PMID: 32798738
  • Barilla S, Liang N, Mileti E, Ballaire R et al. Loss of G protein pathway suppressor 2 in human adipocytes triggers lipid remodeling by upregulating ATP binding cassette subfamily G member 1. Mol Metab 2020 Dec;42:101066. PMID: 32798719
  • Han J, Zhang X, Liu Y, Jing L et al. CLCA4 and MS4A12 as the significant gene biomarkers of primary colorectal cancer. Biosci Rep 2020 Aug 28;40(8). PMID: 32797167
  • Singh PB, Belyakin SN, Laktionov PP et al. Biology and Physics of Heterochromatin-Like Domains/Complexes. Cells 2020 Aug 11;9(8). PMID: 32796726
  • Naseem M, Osmanoğlu Ö, Kaltdorf M, Alblooshi AAMA et al. Integrated Framework of the Immune-Defense Transcriptional Signatures in the Arabidopsis Shoot Apical Meristem. Int J Mol Sci 2020 Aug 11;21(16). PMID: 32796535
  • Zheng D, Cho H, Wang W, Rambout X et al. 3'READS + RIP defines differential Staufen1 binding to alternative 3'UTR isoforms and reveals structures and sequence motifs influencing binding and polysome association. RNA 2020 Nov;26(11):1621-1636. PMID: 32796083
  • Kim HK, Joung JG, Choi YL, Lee SH et al. Earlier-Phased Cancer Immunity Cycle Strongly Influences Cancer Immunity in Operable Never-Smoker Lung Adenocarcinoma. iScience 2020 Aug 21;23(8):101386. PMID: 32795913
  • Yang J, Lu P, Li M, Yan C et al. GATA6-AS1 Regulates GATA6 Expression to Modulate Human Endoderm Differentiation. Stem Cell Reports 2020 Sep 8;15(3):694-705. PMID: 32795420
  • Ortmann D, Brown S, Czechanski A, Aydin S et al. Naive Pluripotent Stem Cells Exhibit Phenotypic Variability that Is Driven by Genetic Variation. Cell Stem Cell 2020 Sep 3;27(3):470-481.e6. PMID: 32795399
  • Wei R, Wang Z, Zhang Y, Wang B et al. Bioinformatic analysis revealing mitotic spindle assembly regulated NDC80 and MAD2L1 as prognostic biomarkers in non-small cell lung cancer development. BMC Med Genomics 2020 Aug 14;13(1):112. PMID: 32795325
  • Wang J, Chen T, Yu X, OUYang N et al. Identification and validation of smoking-related genes in lung adenocarcinoma using an in vitro carcinogenesis model and bioinformatics analysis. J Transl Med 2020 Aug 14;18(1):313. PMID: 32795291
  • Zhang S, Leistico JR, Cook C, Liu Y et al. Riemannian geometry and statistical modeling correct for batch effects and control false discoveries in single-cell surface protein count data. Phys Rev E 2020 Jul;102(1-1):012409. PMID: 32794969
  • Salvestrini V, Ciciarello M, Pensato V, Simonetti G et al. Denatonium as a Bitter Taste Receptor Agonist Modifies Transcriptomic Profile and Functions of Acute Myeloid Leukemia Cells. Front Oncol 2020;10:1225. PMID: 32793492
  • Zhang D, Bi J, Liang Q, Wang S et al. VCAM1 Promotes Tumor Cell Invasion and Metastasis by Inducing EMT and Transendothelial Migration in Colorectal Cancer. Front Oncol 2020;10:1066. PMID: 32793471
  • Guan R, Guo W, Hong W, Lin Y et al. Identification of Aberrantly Methylated Differentially CpG Sites in Hepatocellular Carcinoma and Their Association With Patient Survival. Front Oncol 2020;10:1031. PMID: 32793465
  • Zheng JN, Li Y, Yan YM, Shi H et al. Identification and Validation of Key Genes Associated With Systemic Sclerosis-Related Pulmonary Hypertension. Front Genet 2020;11:816. PMID: 32793290
  • Lin Q, Zhou S, Huang Y, Huo Z et al. ANKS4B Restricts Replication of Zika Virus by Downregulating the Autophagy. Front Microbiol 2020;11:1745. PMID: 32793175
  • Zhang L, Wang Y, Li X, Wang Y et al. Identification of a Recurrence Signature and Validation of Cell Infiltration Level of Thyroid Cancer Microenvironment. Front Endocrinol (Lausanne) 2020;11:467. PMID: 32793117
  • Khorasani HM, Usefi H, Peña-Castillo L et al. Detecting ulcerative colitis from colon samples using efficient feature selection and machine learning. Sci Rep 2020 Aug 13;10(1):13744. PMID: 32792678
  • Bechard ME, Smalling R, Hayashi A, Zhong Y et al. Pancreatic cancers suppress negative feedback of glucose transport to reprogram chromatin for metastasis. Nat Commun 2020 Aug 13;11(1):4055. PMID: 32792504
  • Liang J, Li H, Han J, Jiang J et al. Mex3a interacts with LAMA2 to promote lung adenocarcinoma metastasis via PI3K/AKT pathway. Cell Death Dis 2020 Aug 13;11(8):614. PMID: 32792503
  • Montaudon E, Nikitorowicz-Buniak J, Sourd L, Morisset L et al. PLK1 inhibition exhibits strong anti-tumoral activity in CCND1-driven breast cancer metastases with acquired palbociclib resistance. Nat Commun 2020 Aug 13;11(1):4053. PMID: 32792481
  • Xiu MX, Zeng B, Kuang BH et al. Identification of hub genes, miRNAs and regulatory factors relevant for Duchenne muscular dystrophy by bioinformatics analysis. Int J Neurosci 2022 Mar;132(3):296-305. PMID: 32791870
  • Nault R, Fader KA, Bhattacharya S, Zacharewski TR et al. Single-Nuclei RNA Sequencing Assessment of the Hepatic Effects of 2,3,7,8-Tetrachlorodibenzo-p-dioxin. Cell Mol Gastroenterol Hepatol 2021;11(1):147-159. PMID: 32791302
  • Chen Y, Wang K, Shang M, Zhao S et al. Exploration of DNA Methylation-Driven Genes in Papillary Thyroid Carcinoma Based on the Cancer Genome Atlas. J Comput Biol 2021 Jan;28(1):99-114. PMID: 32790501
  • Zhao K, Xu L, Li F, Ao J et al. Identification of hepatocellular carcinoma prognostic markers based on 10-immune gene signature. Biosci Rep 2020 Aug 28;40(8). PMID: 32789471
  • Shin SH, Lee JS, Zhang JM, Choi S et al. Synthetic lethality by targeting the RUVBL1/2-TTT complex in mTORC1-hyperactive cancer cells. Sci Adv 2020 Jul;6(31):eaay9131. PMID: 32789167
  • Garcia-Perez L, Famili F, Cordes M, Brugman M et al. Functional definition of a transcription factor hierarchy regulating T cell lineage commitment. Sci Adv 2020 Jul;6(31):eaaw7313. PMID: 32789164
  • Oizel K, Yang C, Renoult O, Gautier F et al. Glutamine uptake and utilization of human mesenchymal glioblastoma in orthotopic mouse model. Cancer Metab 2020;8:9. PMID: 32789014
  • Lebrigand K, Magnone V, Barbry P, Waldmann R et al. High throughput error corrected Nanopore single cell transcriptome sequencing. Nat Commun 2020 Aug 12;11(1):4025. PMID: 32788667
  • Gerhard AP, Krücken J, Heitlinger E, Janssen IJI et al. The P-glycoprotein repertoire of the equine parasitic nematode Parascaris univalens. Sci Rep 2020 Aug 12;10(1):13586. PMID: 32788636
  • Villada JC, Duran MF, Lee PKH et al. Interplay between Position-Dependent Codon Usage Bias and Hydrogen Bonding at the 5' End of ORFeomes. mSystems 2020 Aug 11;5(4). PMID: 32788408
  • Zhao QY, Ge LH, Zhang K, Chen HF et al. Assessment of mitochondrial function in metabolic dysfunction-associated fatty liver disease using obese mouse models. Zool Res 2020 Sep 18;41(5):539-551. PMID: 32786176
  • Li P, Cao J, Li J, Yao Z et al. Identification of prognostic biomarkers associated with stromal cell infiltration in muscle-invasive bladder cancer by bioinformatics analyses. Cancer Med 2020 Oct;9(19):7253-7267. PMID: 32786144
  • Zhao CIdentifying the hub gene and immune infiltration of osteoarthritis by bioinformatical methods. Clin Rheumatol 2021 Mar;40(3):1027-1037. PMID: 32785809
  • Naderi R, Saadati Mollaei H, Elofsson A, Hosseini Ashtiani S et al. Using Micro- and Macro-Level Network Metrics Unveils Top Communicative Gene Modules in Psoriasis. Genes (Basel) 2020 Aug 10;11(8). PMID: 32785106
  • Taneera J, El-Huneidi W, Hamad M, Mohammed AK et al. Expression Profile of SARS-CoV-2 Host Receptors in Human Pancreatic Islets Revealed Upregulation of ACE2 in Diabetic Donors. Biology (Basel) 2020 Aug 7;9(8). PMID: 32784802
  • Wu H, Hu X, Li Y, Chen Q et al. LNC473 Regulating APAF1 IRES-Dependent Translation via Competitive Sponging miR574 and miR15b: Implications in Colorectal Cancer. Mol Ther Nucleic Acids 2020 Sep 4;21:764-779. PMID: 32784109
  • Finn RS, Cristofanilli M, Ettl J, Gelmon KA et al. Treatment effect of palbociclib plus endocrine therapy by prognostic and intrinsic subtype and biomarker analysis in patients with bone-only disease: a joint analysis of PALOMA-2 and PALOMA-3 clinical trials. Breast Cancer Res Treat 2020 Nov;184(1):23-35. PMID: 32783178
  • Tan M, Schaffalitzky de Muckadell OB, Jøergensen MT et al. Gene Expression Network Analysis of Precursor Lesions in Familial Pancreatic Cancer. J Pancreat Cancer 2020;6(1):73-84. PMID: 32783019
  • Li D, Liu Y, Wang B et al. Identification of transcriptomic markers for developing idiopathic pulmonary fibrosis: an integrative analysis of gene expression profiles. Int J Clin Exp Pathol 2020;13(7):1698-1706. PMID: 32782692
  • Liu YX, Li LY, Diao ZJ, He YM et al. A genome-wide analysis reveals the MeCP2-dependent regulation of genes in BGC-823 cells. Int J Clin Exp Pathol 2020;13(7):1578-1589. PMID: 32782676
  • Ke MJ, Ji LD, Li YX et al. Bioinformatics analysis combined with experiments to explore potential prognostic factors for pancreatic cancer. Cancer Cell Int 2020;20:382. PMID: 32782440
  • Kim HK, Bhattarai KR, Junjappa RP, Ahn JH et al. TMBIM6/BI-1 contributes to cancer progression through assembly with mTORC2 and AKT activation. Nat Commun 2020 Aug 11;11(1):4012. PMID: 32782388
  • Kotaki R, Kawashima M, Yamaguchi A, Suzuki N et al. Overexpression of miR-669m inhibits erythroblast differentiation. Sci Rep 2020 Aug 11;10(1):13554. PMID: 32782283
  • Campesato LF, Budhu S, Tchaicha J, Weng CH et al. Blockade of the AHR restricts a Treg-macrophage suppressive axis induced by L-Kynurenine. Nat Commun 2020 Aug 11;11(1):4011. PMID: 32782249
  • Zhu Y, Ding X, She Z, Bai X et al. Exploring Shared Pathogenesis of Alzheimer's Disease and Type 2 Diabetes Mellitus via Co-expression Networks Analysis. Curr Alzheimer Res 2020;17(6):566-575. PMID: 32781959
  • Esse R, Grishok A et al. Caenorhabditis elegans Deficient in DOT-1.1 Exhibit Increases in H3K9me2 at Enhancer and Certain RNAi-Regulated Regions. Cells 2020 Aug 6;9(8). PMID: 32781660
  • Zhu L, Wang H, Wang Z et al. A five-immune-related genes-based prognostic signature for colorectal cancer. Int Immunopharmacol 2020 Nov;88:106866. PMID: 32781411
  • Jiang J, Sun Y, Xu J, Xu T et al. ZHX2 mediates proteasome inhibitor resistance via regulating nuclear translocation of NF-κB in multiple myeloma. Cancer Med 2020 Oct;9(19):7244-7252. PMID: 32780537
  • Nain Z, Rana HK, Liò P, Islam SMS et al. Pathogenetic profiling of COVID-19 and SARS-like viruses. Brief Bioinform 2021 Mar 22;22(2):1175-1196. PMID: 32778874
  • Martínez-Fernández I, Menezes de Moura S, Alves-Ferreira M, Ferrándiz C et al. Identification of Players Controlling Meristem Arrest Downstream of the FRUITFULL-APETALA2 Pathway. Plant Physiol 2020 Oct;184(2):945-959. PMID: 32778534
  • Li F, Wang D, Song R, Cao C et al. The asynchronous establishment of chromatin 3D architecture between in vitro fertilized and uniparental preimplantation pig embryos. Genome Biol 2020 Aug 10;21(1):203. PMID: 32778155
  • Cannon AE, Yan C, Burks DJ, Rao X et al. Lipophilic signals lead to organ-specific gene expression changes in Arabidopsis seedlings. Plant Direct 2020 Jul;4(7):e00242. PMID: 32775951
  • Liu T, Zhang M, Sun D et al. Immune Cell Infiltration and Identifying Genes of Prognostic Value in the Papillary Renal Cell Carcinoma Microenvironment by Bioinformatics Analysis. Biomed Res Int 2020;2020:5019746. PMID: 32775427
  • Ji Y, Yin Y, Zhang W et al. Integrated Bioinformatic Analysis Identifies Networks and Promising Biomarkers for Hepatitis B Virus-Related Hepatocellular Carcinoma. Int J Genomics 2020;2020:2061024. PMID: 32775402
  • An Y, Wang Q, Zhang L, Sun F et al. OSlgg: An Online Prognostic Biomarker Analysis Tool for Low-Grade Glioma. Front Oncol 2020;10:1097. PMID: 32775301
  • Xu ZY, Zhao M, Chen W, Li K et al. Analysis of prognostic genes in the tumor microenvironment of lung adenocarcinoma. PeerJ 2020;8:e9530. PMID: 32775050
  • Liu S, Wu J, Xia Q, Liu H et al. Finding new cancer epigenetic and genetic biomarkers from cell-free DNA by combining SALP-seq and machine learning. Comput Struct Biotechnol J 2020;18:1891-1903. PMID: 32774784
  • Zhang Y, Li Y, Li H, Liu Q et al. DHX36, BAX, and ARPC1B May Be Critical for the Diagnosis and Treatment of Tuberculosis. Can Respir J 2020;2020:4348371. PMID: 32774561
  • DeLuca SZ, Ghildiyal M, Pang LY, Spradling AC et al. Differentiating Drosophila female germ cells initiate Polycomb silencing by regulating PRC2-interacting proteins. Elife 2020 Aug 10;9. PMID: 32773039
  • Tan K, Jones SH, Lake BB, Chousal JN et al. The role of the NMD factor UPF3B in olfactory sensory neurons. Elife 2020 Aug 10;9. PMID: 32773035
  • Zhu Y, Wu L et al. Identification of latent core genes and pathways associated with myelodysplastic syndromes based on integrated bioinformatics analysis. Hematology 2020 Dec;25(1):299-308. PMID: 32772642
  • Chen B, Ding P, Hua Z, Qin X et al. Analysis and identification of novel biomarkers involved in neuroblastoma via integrated bioinformatics. Invest New Drugs 2021 Feb;39(1):52-65. PMID: 32772341
  • Li M, Wang H, Li W, Peng Y et al. Identification and validation of an immune prognostic signature in colorectal cancer. Int Immunopharmacol 2020 Nov;88:106868. PMID: 32771948
  • Mishra R, Krishnamoorthy P, Gangamma S, Raut AA et al. Particulate matter (PM(10)) enhances RNA virus infection through modulation of innate immune responses. Environ Pollut 2020 Nov;266(Pt 1):115148. PMID: 32771845
  • Bass JJ, Nakhuda A, Deane CS, Brook MS et al. Overexpression of the vitamin D receptor (VDR) induces skeletal muscle hypertrophy. Mol Metab 2020 Dec;42:101059. PMID: 32771696
  • Wang Z, Ji Y, Bao HW et al. Bioinformatics analysis of differentially expressed genes in subchondral bone in early experimental osteoarthritis using microarray data. J Orthop Surg Res 2020 Aug 8;15(1):310. PMID: 32771051
  • Fogarty EA, Kitzman JO, Antonellis A et al. SOX10-regulated promoter use defines isoform-specific gene expression in Schwann cells. BMC Genomics 2020 Aug 8;21(1):549. PMID: 32770939
  • Kim KJ, Moon SJ, Park KS, Tagkopoulos I et al. Network-based modeling of drug effects on disease module in systemic sclerosis. Sci Rep 2020 Aug 7;10(1):13393. PMID: 32770109
  • Boshuizen J, Vredevoogd DW, Krijgsman O, Ligtenberg MA et al. Reversal of pre-existing NGFR-driven tumor and immune therapy resistance. Nat Commun 2020 Aug 7;11(1):3946. PMID: 32770055
  • Capaci V, Bascetta L, Fantuz M, Beznoussenko GV et al. Mutant p53 induces Golgi tubulo-vesiculation driving a prometastatic secretome. Nat Commun 2020 Aug 7;11(1):3945. PMID: 32770028
  • Zhang J, Bellani MA, James RC, Pokharel D et al. DONSON and FANCM associate with different replisomes distinguished by replication timing and chromatin domain. Nat Commun 2020 Aug 7;11(1):3951. PMID: 32769987
  • Wang C, Sun D, Huang X, Wan C et al. Integrative analyses of single-cell transcriptome and regulome using MAESTRO. Genome Biol 2020 Aug 7;21(1):198. PMID: 32767996
  • Navarro R, Tapia-Galisteo A, Martín-García L, Tarín C et al. TGF-β-induced IGFBP-3 is a key paracrine factor from activated pericytes that promotes colorectal cancer cell migration and invasion. Mol Oncol 2020 Oct;14(10):2609-2628. PMID: 32767843
  • Lv BB, Ma RR, Chen X, Zhang GH et al. E2F1-activated SPIN1 promotes tumor growth via a MDM2-p21-E2F1 feedback loop in gastric cancer. Mol Oncol 2020 Oct;14(10):2629-2645. PMID: 32767629
  • Steinberger J, Shen L, J Kiniry S, Naineni SK et al. Identification and characterization of hippuristanol-resistant mutants reveals eIF4A1 dependencies within mRNA 5' leader regions. Nucleic Acids Res 2020 Sep 25;48(17):9521-9537. PMID: 32766783
  • Gao C, Zeng J, Jia N, Stavenhagen K et al. SARS-CoV-2 Spike Protein Interacts with Multiple Innate Immune Receptors. bioRxiv 2020 Jul 30 PMID: 32766577
  • Hu Y, Taylor-Harding B, Raz Y, Haro M et al. Are Epithelial Ovarian Cancers of the Mesenchymal Subtype Actually Intraperitoneal Metastases to the Ovary? Front Cell Dev Biol 2020;8:647. PMID: 32766252
  • Li Y, Liang Y, Ma T, Yang Q et al. Identification of DGUOK-AS1 as a Prognostic Factor in Breast Cancer by Bioinformatics Analysis. Front Oncol 2020;10:1092. PMID: 32766141
  • Fu R, Gillen AE, Sheridan RM, Tian C et al. clustifyr: an R package for automated single-cell RNA sequencing cluster classification. F1000Res 2020;9:223. PMID: 32765839
  • Tang X, Bai Y, Zhang Z, Lu J et al. A validated miRNA signature for the diagnosis of osteoporosis related fractures using SVM algorithm classification. Exp Ther Med 2020 Sep;20(3):2209-2217. PMID: 32765697
  • Zhao N, Zhang K, Wang C, Yan H et al. Systematic Analysis of Differential H3K27me3 and H3K4me3 Deposition in Callus and Seedling Reveals the Epigenetic Regulatory Mechanisms Involved in Callus Formation in Rice. Front Genet 2020;11:766. PMID: 32765593
  • Khan MA, Sany MRU, Islam MS, Islam ABMMK et al. Epigenetic Regulator miRNA Pattern Differences Among SARS-CoV, SARS-CoV-2, and SARS-CoV-2 World-Wide Isolates Delineated the Mystery Behind the Epic Pathogenicity and Distinct Clinical Characteristics of Pandemic COVID-19. Front Genet 2020;11:765. PMID: 32765592
  • Wu A, Zhang S, Liu J, Huang Y et al. Integrated Analysis of Prognostic and Immune Associated Integrin Family in Ovarian Cancer. Front Genet 2020;11:705. PMID: 32765584
  • Wang L, Zhang W, Lu Z, Wang B et al. Functional Gene Module-Based Identification of Phillyrin as an Anticardiac Fibrosis Agent. Front Pharmacol 2020;11:1077. PMID: 32765276
  • Li HB, Zhou J, Zhao F, Yu J et al. Prognostic Impact of DHRS9 Overexpression in Pancreatic Cancer. Cancer Manag Res 2020;12:5997-6006. PMID: 32765099
  • Xu T, Dong M, Wang Z, Li H et al. Elevated mRNA Expression Levels of NCAPG are Associated with Poor Prognosis in Ovarian Cancer. Cancer Manag Res 2020;12:5773-5786. PMID: 32765080
  • Bulle A, Dekervel J, Deschuttere L, Nittner D et al. Anti-Cancer Activity of Acriflavine as Metabolic Inhibitor of OXPHOS in Pancreas Cancer Xenografts. Onco Targets Ther 2020;13:6907-6916. PMID: 32764982
  • Tian Z, He W, Tang J, Liao X et al. Identification of Important Modules and Biomarkers in Breast Cancer Based on WGCNA. Onco Targets Ther 2020;13:6805-6817. PMID: 32764968
  • Cheng LC, Chao YJ, Overman MJ, Wang C- et al. Increased expression of secreted frizzled related protein 1 (SFRP1) predicts ampullary adenocarcinoma recurrence. Sci Rep 2020 Aug 6;10(1):13255. PMID: 32764696
  • Rehman MU, Chong KT et al. DNA6mA-MINT: DNA-6mA Modification Identification Neural Tool. Genes (Basel) 2020 Aug 5;11(8). PMID: 32764497
  • Peng J, Li C, Zhou J, Peng J et al. Clinical and genomic landscape of hepatocellular carcinoma subtypes with various proportions of nonleukocyte stromal cells. Gene 2020 Nov 30;761:145028. PMID: 32763490
  • Chen J, Zhou Q, Liu MH, Yang YS et al. FAM122A Inhibits Erythroid Differentiation through GATA1. Stem Cell Reports 2020 Sep 8;15(3):721-734. PMID: 32763160
  • Zhou T, Cai Z, Ma N, Xie W et al. A Novel Ten-Gene Signature Predicting Prognosis in Hepatocellular Carcinoma. Front Cell Dev Biol 2020;8:629. PMID: 32760725
  • Udhaya Kumar S, Thirumal Kumar D, Bithia R, Sankar S et al. Analysis of Differentially Expressed Genes and Molecular Pathways in Familial Hypercholesterolemia Involved in Atherosclerosis: A Systematic and Bioinformatics Approach. Front Genet 2020;11:734. PMID: 32760426
  • Li G, Qi HW, Dong HG, Bai P et al. Targeting deubiquitinating enzyme USP26 by microRNA-203 regulates Snail1's pro-metastatic functions in esophageal cancer. Cancer Cell Int 2020;20:355. PMID: 32760222
  • Oriol-Tordera B, Berdasco M, Llano A, Mothe B et al. Methylation regulation of Antiviral host factors, Interferon Stimulated Genes (ISGs) and T-cell responses associated with natural HIV control. PLoS Pathog 2020 Aug;16(8):e1008678. PMID: 32760119
  • Nguyen HCB, Adlanmerini M, Hauck AK, Lazar MA et al. Dichotomous engagement of HDAC3 activity governs inflammatory responses. Nature 2020 Aug;584(7820):286-290. PMID: 32760002
  • Mao Z, Li T, Zhao H, Qin Y et al. Identification of epigenetic interactions between microRNA and DNA methylation associated with polycystic ovarian syndrome. J Hum Genet 2021 Feb;66(2):123-137. PMID: 32759991
  • Catalina MD, Bachali P, Yeo AE, Geraci NS et al. Patient ancestry significantly contributes to molecular heterogeneity of systemic lupus erythematosus. JCI Insight 2020 Aug 6;5(15). PMID: 32759501
  • Cary M, Podshivalova K, Kenyon C et al. Application of Transcriptional Gene Modules to Analysis of Caenorhabditis elegans' Gene Expression Data. G3 (Bethesda) 2020 Oct 5;10(10):3623-3638. PMID: 32759329
  • Zhou Z, Moore TM, Drew BG, Ribas V et al. Estrogen receptor α controls metabolism in white and brown adipocytes by regulating Polg1 and mitochondrial remodeling. Sci Transl Med 2020 Aug 5;12(555). PMID: 32759275
  • Wang H, Zhou K, Li W, Du J et al. Ctnnb1 transcriptional upregulation compensates for Mdm2/p53-mediated β-catenin degradation in neutrophils following cardioembolic stroke. Gene 2021 Jan 15;766:145022. PMID: 32758579
  • Oluwadare O, Highsmith M, Turner D, Lieberman Aiden E et al. GSDB: a database of 3D chromosome and genome structures reconstructed from Hi-C data. BMC Mol Cell Biol 2020 Aug 5;21(1):60. PMID: 32758136
  • Xu HK, Wang XD, Wang DG, Wei DD et al. miR-340 Exerts Suppressive Effect on Retinoblastoma Progression by Targeting KIF14. Curr Eye Res 2021 Feb;46(2):232-238. PMID: 32757684
  • Voinsky I, Gurwitz D et al. Smoking and COVID-19: Similar bronchial ACE2 and TMPRSS2 expression and higher TMPRSS4 expression in current versus never smokers. Drug Dev Res 2020 Aug 5;81(8):1073-80. PMID: 32757420
  • Yu-Jing T, Wen-Jing T, Biao T et al. Integrated Analysis of Hub Genes and Pathways In Esophageal Carcinoma Based on NCBI's Gene Expression Omnibus (GEO) Database: A Bioinformatics Analysis. Med Sci Monit 2020 Aug 5;26:e923934. PMID: 32756534
  • Almstrup K, Frederiksen H, Andersson AM, Juul A et al. Levels of endocrine-disrupting chemicals are associated with changes in the peri-pubertal epigenome. Endocr Connect 2020 Aug;9(8):845-857. PMID: 32755991
  • Erarslan-Uysal B, Kunz JB, Rausch T, Richter-Pechańska P et al. Chromatin accessibility landscape of pediatric T-lymphoblastic leukemia and human T-cell precursors. EMBO Mol Med 2020 Sep 7;12(9):e12104. PMID: 32755029
  • Wu JE, Wu YY, Tung CH, Tsai YT et al. DNA methylation maintains the CLDN1-EPHB6-SLUG axis to enhance chemotherapeutic efficacy and inhibit lung cancer progression. Theranostics 2020;10(19):8903-8923. PMID: 32754286
  • Liu Y, Hu J, Liu D, Zhou S et al. Single-cell analysis reveals immune landscape in kidneys of patients with chronic transplant rejection. Theranostics 2020;10(19):8851-8862. PMID: 32754283
  • Yin H, Wang Y, Wu Y, Zhang X et al. EZH2-mediated Epigenetic Silencing of miR-29/miR-30 targets LOXL4 and contributes to Tumorigenesis, Metastasis, and Immune Microenvironment Remodeling in Breast Cancer. Theranostics 2020;10(19):8494-8512. PMID: 32754259
  • Bakhtiarizadeh MR, Mirzaei S, Norouzi M, Sheybani N et al. Identification of Gene Modules and Hub Genes Involved in Mastitis Development Using a Systems Biology Approach. Front Genet 2020;11:722. PMID: 32754201
  • Wei LY, Zhang XJ, Wang L, Hu LN et al. A Six-Epithelial-Mesenchymal Transition Gene Signature May Predict Metastasis of Triple-Negative Breast Cancer. Onco Targets Ther 2020;13:6497-6509. PMID: 32753890
  • Cedro-Tanda A, Ríos-Romero M, Romero-Córdoba S, Cisneros-Villanueva M et al. A lncRNA landscape in breast cancer reveals a potential role for AC009283.1 in proliferation and apoptosis in HER2-enriched subtype. Sci Rep 2020 Aug 4;10(1):13146. PMID: 32753692
  • Chan KK, Dorosky D, Sharma P, Abbasi SA et al. Engineering human ACE2 to optimize binding to the spike protein of SARS coronavirus 2. Science 2020 Sep 4;369(6508):1261-1265. PMID: 32753553
  • Friedrich S, Sonnhammer ELL et al. Fusion transcript detection using spatial transcriptomics. BMC Med Genomics 2020 Aug 4;13(1):110. PMID: 32753032
  • Arora S, Singh P, Rahmani AH, Almatroodi SA et al. Unravelling the Role of miR-20b-5p, CCNB1, HMGA2 and E2F7 in Development and Progression of Non-Small Cell Lung Cancer (NSCLC). Biology (Basel) 2020 Aug 1;9(8). PMID: 32752229
  • Sprang M, Paret C, Faber J et al. CpG-Islands as Markers for Liquid Biopsies of Cancer Patients. Cells 2020 Aug 1;9(8). PMID: 32752173
  • Cheng Y, Su Y, Wang S, Liu Y et al. Identification of circRNA-lncRNA-miRNA-mRNA Competitive Endogenous RNA Network as Novel Prognostic Markers for Acute Myeloid Leukemia. Genes (Basel) 2020 Jul 31;11(8). PMID: 32751923
  • Webster JM, Darling AL, Sanders TA, Blazier DM et al. Hsp22 with an N-Terminal Domain Truncation Mediates a Reduction in Tau Protein Levels. Int J Mol Sci 2020 Jul 30;21(15). PMID: 32751642
  • Vardanyan S, Brosig A, Merz H, Ranjbar M et al. Metastasis of Uveal Melanoma with Monosomy-3 Is Associated with a Less Glycogenetic Gene Expression Profile and the Dysregulation of Glycogen Storage. Cancers (Basel) 2020 Jul 29;12(8). PMID: 32751097
  • Shi J, Cui Q et al. sTAM: An Online Tool for the Discovery of miRNA-Set Level Disease Biomarkers. Mol Ther Nucleic Acids 2020 Sep 4;21:670-675. PMID: 32750560
  • Weatherbee BAT, Glover DM, Zernicka-Goetz M et al. Expression of SARS-CoV-2 receptor ACE2 and the protease TMPRSS2 suggests susceptibility of the human embryo in the first trimester. Open Biol 2020 Aug;10(8):200162. PMID: 32750256
  • Wang Q, Yu C et al. Identification of biomarkers associated with extracellular vesicles based on an integrative pan-cancer bioinformatics analysis. Med Oncol 2020 Aug 4;37(9):79. PMID: 32749536
  • Nagaeva E, Zubarev I, Bengtsson Gonzales C, Forss M et al. Heterogeneous somatostatin-expressing neuron population in mouse ventral tegmental area. Elife 2020 Aug 4;9. PMID: 32749220
  • Luo Y, Sun Y, Li L, Mao Y et al. METTL3 May Regulate Testicular Germ Cell Tumors Through EMT and Immune Pathways. Cell Transplant 2020 Jan-Dec;29:963689720946653. PMID: 32749150
  • Kent C, Agrawal P et al. Regulation of Social Stress and Neural Degeneration by Activity-Regulated Genes and Epigenetic Mechanisms in Dopaminergic Neurons. Mol Neurobiol 2020 Nov;57(11):4500-4510. PMID: 32748368
  • Song S, Li B, Jia Z, Guo L et al. Sirtuin 3 mRNA Expression is Downregulated in the Brain Tissues of Alzheimer's Disease Patients: A Bioinformatic and Data Mining Approach. Med Sci Monit 2020 Aug 4;26:e923547. PMID: 32747616
  • Li N, Kang Y, Wang L, Huff S et al. ALKBH5 regulates anti-PD-1 therapy response by modulating lactate and suppressive immune cell accumulation in tumor microenvironment. Proc Natl Acad Sci U S A 2020 Aug 18;117(33):20159-20170. PMID: 32747553
  • Li Z, Cui Y, Feng J, Guo Y et al. Identifying the pattern of immune related cells and genes in the peripheral blood of ischemic stroke. J Transl Med 2020 Aug 3;18(1):296. PMID: 32746852
  • Lv X, Yu H, Zhang Q, Huang Q et al. SRXN1 stimulates hepatocellular carcinoma tumorigenesis and metastasis through modulating ROS/p65/BTG2 signalling. J Cell Mol Med 2020 Sep;24(18):10714-10729. PMID: 32746503
  • Che Y, Luo Z, Zhang C, Sun N et al. Immune signature of tumor-infiltrating immune cells predicts the prognosis and therapeutic effects in squamous cell carcinoma. Int Immunopharmacol 2020 Oct;87:106802. PMID: 32745903
  • [No authors listed]Abstracts for the 32nd European Immunogenetics and Histocompatibility Conference and the 25th Annual Meeting of the Italian Society for Immunogenetics and Transplantation Biology (AIBT) Venice Lido, Italy May 9-12, 2018. HLA 2018 May;91(5):354-474. PMID: 32745368
  • Kim HJ, Lee SE, Na H, Roe JS et al. Divergence of the PIERCE1 expression between mice and humans as a p53 target gene. PLoS One 2020;15(8):e0236881. PMID: 32745107
  • Wells D, Bitoun E, Moralli D, Zhang G et al. ZCWPW1 is recruited to recombination hotspots by PRDM9 and is essential for meiotic double strand break repair. Elife 2020 Aug 3;9. PMID: 32744506
  • Gaertner B, van Heesch S, Schneider-Lunitz V, Schulz JF et al. A human ESC-based screen identifies a role for the translated lncRNA LINC00261 in pancreatic endocrine differentiation. Elife 2020 Aug 3;9. PMID: 32744504
  • Magnusson JP, Zamboni M, Santopolo G, Mold JE et al. Activation of a neural stem cell transcriptional program in parenchymal astrocytes. Elife 2020 Aug 3;9. PMID: 32744501
  • Marques JG, Gryder BE, Pavlovic B, Chung Y et al. NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency. Elife 2020 Aug 3;9. PMID: 32744500
  • Wei Z, Qi X, Chen Y, Xia X et al. Bioinformatics method combined with logistic regression analysis reveal potentially important miRNAs in ischemic stroke. Biosci Rep 2020 Aug 28;40(8). PMID: 32744319
  • Li Y, Lin M, Wang K, Zhan Y et al. A module of multifactor-mediated dysfunction guides the molecular typing of coronary heart disease. Mol Genet Genomic Med 2020 Oct;8(10):e1415. PMID: 32743916
  • Overmyer KA, Shishkova E, Miller IJ, Balnis J et al. Large-scale Multi-omic Analysis of COVID-19 Severity. medRxiv 2020 Jul 19 PMID: 32743614
  • Kumar J, Kaur G, Ren R, Lu Y et al. KRAB domain of ZFP568 disrupts TRIM28-mediated abnormal interactions in cancer cells. NAR Cancer 2020 Jun;2(2):zcaa007. PMID: 32743551
  • Chen P, Song M, Wang Y, Deng S et al. Identification of key genes of human bone marrow stromal cells adipogenesis at an early stage. PeerJ 2020;8:e9484. PMID: 32742785
  • Xu N, Chen J, He G, Gao L et al. Prognostic values of m6A RNA methylation regulators in differentiated Thyroid Carcinoma. J Cancer 2020;11(17):5187-5197. PMID: 32742465
  • Lai R, Zhang W, He X, Liao X et al. Prognostic role of ACTL10 in Cytogenetic Normal Acute Myeloid Leukemia. J Cancer 2020;11(17):5150-5161. PMID: 32742462
  • Shen H, Wang L, Chen Q, Xu J et al. The prognostic value of COL3A1/FBN1/COL5A2/SPARC-mir-29a-3p-H19 associated ceRNA network in Gastric Cancer through bioinformatic exploration. J Cancer 2020;11(17):4933-4946. PMID: 32742441
  • Tao L, Shi J, Huang X, Hua F et al. Identification of a lncRNA-miRNA-mRNA network based on competitive endogenous RNA theory reveals functional lncRNAs in hypertrophic cardiomyopathy. Exp Ther Med 2020 Aug;20(2):1176-1190. PMID: 32742356
  • Ye Z, Zeng Z, Shen Y, Chen Z et al. Identification of hub genes in peripheral blood mononuclear cells for the diagnosis of hepatocellular carcinoma using a weighted gene co-expression network analysis. Exp Ther Med 2020 Aug;20(2):890-900. PMID: 32742331
  • Shao W, Sharma R, Clausen MH, Scheller HV et al. Microscale thermophoresis as a powerful tool for screening glycosyltransferases involved in cell wall biosynthesis. Plant Methods 2020;16:99. PMID: 32742297
  • Vavougios GD, Zarogiannis SG, Krogfelt KA, Stamoulis G et al. Epigenetic regulation of apoptosis via the PARK7 interactome in peripheral blood mononuclear cells donated by tuberculosis patients vs. healthy controls and the response to treatment: A systems biology approach. Tuberculosis (Edinb) 2020 Jul;123:101938. PMID: 32741527
  • Barter MJ, Cheung K, Falk J, Panagiotopoulos AC et al. Dynamic chromatin accessibility landscape changes following interleukin-1 stimulation. Epigenetics 2021 Jan;16(1):106-119. PMID: 32741307
  • Wang K, Sun Y, Wang Y, Liu L et al. An integration analysis of mRNAs and miRNAs microarray data to identify key regulators for ovarian endometriosis based on competing endogenous RNAs. Eur J Obstet Gynecol Reprod Biol 2020 Sep;252:468-475. PMID: 32738676
  • Xu L, Jin Y, Qin X et al. Comprehensive analysis of significant genes and immune cell infiltration in HPV-related head and neck squamous cell carcinoma. Int Immunopharmacol 2020 Oct;87:106844. PMID: 32738592
  • Yuan Z, Ye X, Zhu L, Zhang N et al. Virome assembly and annotation in brain tissue based on next-generation sequencing. Cancer Med 2020 Sep;9(18):6776-6790. PMID: 32738030
  • Wang C, Zhang T, Liao Q, Dai M et al. Metformin inhibits pancreatic cancer metastasis caused by SMAD4 deficiency and consequent HNF4G upregulation. Protein Cell 2021 Feb;12(2):128-144. PMID: 32737864
  • Mastrogamvraki N, Zaravinos A et al. Signatures of co-deregulated genes and their transcriptional regulators in colorectal cancer. NPJ Syst Biol Appl 2020 Jul 31;6(1):23. PMID: 32737302
  • Inaba A, Tuong ZK, Riding AM, Mathews RJ et al. B Lymphocyte-Derived CCL7 Augments Neutrophil and Monocyte Recruitment, Exacerbating Acute Kidney Injury. J Immunol 2020 Sep 1;205(5):1376-1384. PMID: 32737150
  • Syed F, Tersey SA, Turatsinze JV, Felton JL et al. Circulating unmethylated CHTOP and INS DNA fragments provide evidence of possible islet cell death in youth with obesity and diabetes. Clin Epigenetics 2020 Jul 31;12(1):116. PMID: 32736653
  • Rinchai D, Syed Ahamed Kabeer B, Toufiq M, Tatari-Calderone Z et al. A modular framework for the development of targeted Covid-19 blood transcript profiling panels. J Transl Med 2020 Jul 31;18(1):291. PMID: 32736569
  • Das S, Li Z, Noori A, Hyman BT et al. Meta-analysis of mouse transcriptomic studies supports a context-dependent astrocyte reaction in acute CNS injury versus neurodegeneration. J Neuroinflammation 2020 Jul 31;17(1):227. PMID: 32736565
  • Si X, Zheng H, Wei G, Li M et al. circRNA Hipk3 Induces Cardiac Regeneration after Myocardial Infarction in Mice by Binding to Notch1 and miR-133a. Mol Ther Nucleic Acids 2020 Sep 4;21:636-655. PMID: 32736292
  • Zhao R, Peng C, Song C, Zhao Q et al. BICC1 as a novel prognostic biomarker in gastric cancer correlating with immune infiltrates. Int Immunopharmacol 2020 Oct;87:106828. PMID: 32736193
  • Nunnari G, Sanfilippo C, Castrogiovanni P, Imbesi R et al. Network perturbation analysis in human bronchial epithelial cells following SARS-CoV2 infection. Exp Cell Res 2020 Oct 15;395(2):112204. PMID: 32735892
  • Huang K, Chen S, Xie R, Jiang P et al. Identification of three predictors of gastric cancer progression and prognosis. FEBS Open Bio 2020 Sep;10(9):1891-1899. PMID: 32735728
  • Chen Y, Wang Y, Liu X, Xu J et al. Model-based analysis of chromatin interactions from dCas9-Based CAPTURE-3C-seq. PLoS One 2020;15(7):e0236666. PMID: 32735574
  • Liu X, Hao Y, Li Z, Zhou J et al. Maternal Cytokines CXCL12, VEGFA, and WNT5A Promote Porcine Oocyte Maturation via MAPK Activation and Canonical WNT Inhibition. Front Cell Dev Biol 2020;8:578. PMID: 32733887
  • Huang Q, Zhai SJ, Liao XW, Liu YC et al. Gene Expression, Network Analysis, and Drug Discovery of Neurofibromatosis Type 2-Associated Vestibular Schwannomas Based on Bioinformatics Analysis. J Oncol 2020;2020:5976465. PMID: 32733557
  • Zhao Z, Li J, Li H, Yuan Wu NY et al. Integrative Bioinformatics Approaches to Screen Potential Prognostic Immune-Related Genes and Drugs in the Cervical Cancer Microenvironment. Front Genet 2020;11:727. PMID: 32733542
  • Canton M, Drincovich MF, Lara MV, Vizzotto G et al. Metabolism of Stone Fruits: Reciprocal Contribution Between Primary Metabolism and Cell Wall. Front Plant Sci 2020;11:1054. PMID: 32733527
  • Litchfield K, Reading JL, Lim EL, Xu H et al. Escape from nonsense-mediated decay associates with anti-tumor immunogenicity. Nat Commun 2020 Jul 30;11(1):3800. PMID: 32733040
  • Yao Y, Liu Q, Adrianto I, Wu X et al. Histone deacetylase 3 controls lung alveolar macrophage development and homeostasis. Nat Commun 2020 Jul 30;11(1):3822. PMID: 32732898
  • Minnoye L, Taskiran II, Mauduit D, Fazio M et al. Cross-species analysis of enhancer logic using deep learning. Genome Res 2020 Dec;30(12):1815-1834. PMID: 32732264
  • Xin H, Lian Q, Jiang Y, Luo J et al. GMM-Demux: sample demultiplexing, multiplet detection, experiment planning, and novel cell-type verification in single cell sequencing. Genome Biol 2020 Jul 30;21(1):188. PMID: 32731885
  • Tian M, Yang J, Han J, He J et al. A novel immune checkpoint-related seven-gene signature for predicting prognosis and immunotherapy response in melanoma. Int Immunopharmacol 2020 Oct;87:106821. PMID: 32731180
  • Lu M, Hu C, Wu F, Shu L et al. MiR-320a is associated with cisplatin resistance in lung adenocarcinoma and its clinical value in non-small cell lung cancer: A comprehensive analysis based on microarray data. Lung Cancer 2020 Sep;147:193-197. PMID: 32731058
  • Kadota T, Yoshioka Y, Fujita Y, Araya J et al. Extracellular Vesicles from Fibroblasts Induce Epithelial-Cell Senescence in Pulmonary Fibrosis. Am J Respir Cell Mol Biol 2020 Nov;63(5):623-636. PMID: 32730709
  • Van Nostrand EL, Freese P, Pratt GA, Wang X et al. A large-scale binding and functional map of human RNA-binding proteins. Nature 2020 Jul;583(7818):711-719. PMID: 32728246
  • Simard JC, Thibodeau JF, Leduc M, Tremblay M et al. Fatty acid mimetic PBI-4547 restores metabolic homeostasis via GPR84 in mice with non-alcoholic fatty liver disease. Sci Rep 2020 Jul 29;10(1):12778. PMID: 32728158
  • Javed N, Farjoun Y, Fennell TJ, Epstein CB et al. Detecting sample swaps in diverse NGS data types using linkage disequilibrium. Nat Commun 2020 Jul 29;11(1):3697. PMID: 32728101
  • Kapoor U, Licht K, Amman F, Jakobi T et al. ADAR-deficiency perturbs the global splicing landscape in mouse tissues. Genome Res 2020 Aug;30(8):1107-1118. PMID: 32727871
  • Sorensen HM, Keogh RA, Wittekind MA, Caillet AR et al. Reading between the Lines: Utilizing RNA-Seq Data for Global Analysis of sRNAs in Staphylococcus aureus. mSphere 2020 Jul 29;5(4). PMID: 32727859
  • Banerjee S, Ghoshal S, Stevens JR, McCommis KS et al. Hepatocyte expression of the micropeptide adropin regulates the liver fasting response and is enhanced by caloric restriction. J Biol Chem 2020 Oct 2;295(40):13753-13768. PMID: 32727846
  • Preussner M, Gao Q, Morrison E, Herdt O et al. Splicing-accessible coding 3'UTRs control protein stability and interaction networks. Genome Biol 2020 Jul 29;21(1):186. PMID: 32727563
  • Liu Z, Gu S, Lu T, Wu K et al. IFI6 depletion inhibits esophageal squamous cell carcinoma progression through reactive oxygen species accumulation via mitochondrial dysfunction and endoplasmic reticulum stress. J Exp Clin Cancer Res 2020 Jul 29;39(1):144. PMID: 32727517
  • Glaß M, Dorn A, Hüttelmaier S, Haemmerle M et al. Comprehensive Analysis of LincRNAs in Classical and Basal-Like Subtypes of Pancreatic Cancer. Cancers (Basel) 2020 Jul 27;12(8). PMID: 32727085
  • Carvelli J, Demaria O, Vély F, Batista L et al. Association of COVID-19 inflammation with activation of the C5a-C5aR1 axis. Nature 2020 Dec;588(7836):146-150. PMID: 32726800
  • de Sousa GR, Vieira GM, das Chagas PF, Pezuk JA et al. Should we keep rocking? Portraits from targeting Rho kinases in cancer. Pharmacol Res 2020 Oct;160:105093. PMID: 32726671
  • Kramer MC, Janssen KA, Palos K, Nelson ADL et al. N(6)-methyladenosine and RNA secondary structure affect transcript stability and protein abundance during systemic salt stress in Arabidopsis. Plant Direct 2020 Jul;4(7):e00239. PMID: 32724893
  • Li H, Li Q, Sun S, Lei P et al. Integrated Bioinformatics Analysis Identifies ELAVL1 and APP as Candidate Crucial Genes for Crohn's Disease. J Immunol Res 2020;2020:3067273. PMID: 32724827
  • Xue WX, Zhang MY, Rui Li, Liu X et al. Serum miR-1228-3p and miR-181a-5p as Noninvasive Biomarkers for Non-Small Cell Lung Cancer Diagnosis and Prognosis. Biomed Res Int 2020;2020:9601876. PMID: 32724822
  • Zheng L, Dou X, Ma X, Qu W et al. Identification of Potential Key Genes and Pathways in Enzalutamide-Resistant Prostate Cancer Cell Lines: A Bioinformatics Analysis with Data from the Gene Expression Omnibus (GEO) Database. Biomed Res Int 2020;2020:8341097. PMID: 32724813
  • Li L, Dong L, Zhao J, He W et al. Circulating miRNA-3552 as a Potential Biomarker for Ischemic Stroke in Rats. Biomed Res Int 2020;2020:4501393. PMID: 32724801
  • Kim SJ, Ju JS, Kang MH, Eun JW et al. RNA-binding protein NONO contributes to cancer cell growth and confers drug resistance as a theranostic target in TNBC. Theranostics 2020;10(18):7974-7992. PMID: 32724453
  • Wang J, Wang Y, Xing P, Liu Q et al. Development and validation of a hypoxia-related prognostic signature for breast cancer. Oncol Lett 2020 Aug;20(2):1906-1914. PMID: 32724434
  • Yuan J, Yuan B, Zeng L, Liu B et al. Identification and validation of tumor microenvironment-related genes of prognostic value in lung adenocarcinoma. Oncol Lett 2020 Aug;20(2):1772-1780. PMID: 32724420
  • Mi N, Cao J, Zhang J, Fu W et al. Identification of hub genes involved in the occurrence and development of hepatocellular carcinoma via bioinformatics analysis. Oncol Lett 2020 Aug;20(2):1695-1708. PMID: 32724412
  • Cui H, Xu L, Li Z, Hou KZ et al. Integrated bioinformatics analysis for the identification of potential key genes affecting the pathogenesis of clear cell renal cell carcinoma. Oncol Lett 2020 Aug;20(2):1573-1584. PMID: 32724399
  • Li D, Wang X, Lu S, Wang P et al. Integrated analysis revealing genome-wide chromosomal copy number variation in supraglottic laryngeal squamous cell carcinoma. Oncol Lett 2020 Aug;20(2):1201-1212. PMID: 32724360
  • Pan Z, Miao L et al. Serum microRNA-592 serves as a novel potential biomarker for early diagnosis of colorectal cancer. Oncol Lett 2020 Aug;20(2):1119-1126. PMID: 32724351
  • Talbot H, Saada S, Barthout E, Gallet PF et al. BDNF belongs to the nurse-like cell secretome and supports survival of B chronic lymphocytic leukemia cells. Sci Rep 2020 Jul 28;10(1):12572. PMID: 32724091
  • Almlöf JC, Nystedt S, Mechtidou A, Leonard D et al. Contributions of de novo variants to systemic lupus erythematosus. Eur J Hum Genet 2021 Jan;29(1):184-193. PMID: 32724065
  • Luo R, Song J, Xiao X, Xie Z et al. Identifying CpG methylation signature as a promising biomarker for recurrence and immunotherapy in non-small-cell lung carcinoma. Aging (Albany NY) 2020 Jul 28;12(14):14649-14676. PMID: 32723974
  • Omidi F, Hosseini SA, Ahmadi A, Hassanzadeh K et al. Discovering the signature of a lupus-related microRNA profile in the Gene Expression Omnibus repository. Lupus 2020 Oct;29(11):1321-1335. PMID: 32723063
  • Xu-Monette ZY, Zhang H, Zhu F, Tzankov A et al. A refined cell-of-origin classifier with targeted NGS and artificial intelligence shows robust predictive value in DLBCL. Blood Adv 2020 Jul 28;4(14):3391-3404. PMID: 32722783
  • Chang YH, Duong DM, Goll JB, Wood DC et al. Proteomic Analysis of Human Immune Responses to Live-Attenuated Tularemia Vaccine. Vaccines (Basel) 2020 Jul 24;8(3). PMID: 32722207
  • Yang Y, Zheng C, Chandrasekaran U, Yu L et al. Identification and Bioinformatic Analysis of the GmDOG1-Like Family in Soybean and Investigation of Their Expression in Response to Gibberellic Acid and Abscisic Acid. Plants (Basel) 2020 Jul 24;9(8). PMID: 32722147
  • Song Y, Yan S, Fan W, Zhang M et al. Identification and Validation of the Immune Subtypes of Lung Adenocarcinoma: Implications for Immunotherapy. Front Cell Dev Biol 2020;8:550. PMID: 32719796
  • Geng G, Zhang Z, Cheng L et al. Identification of a Multi-Long Noncoding RNA Signature for the Diagnosis of Type 1 Diabetes Mellitus. Front Bioeng Biotechnol 2020;8:553. PMID: 32719778
  • Mancarella C, Caldoni G, Ribolsi I, Parra A et al. Insulin-Like Growth Factor 2 mRNA-Binding Protein 3 Modulates Aggressiveness of Ewing Sarcoma by Regulating the CD164-CXCR4 Axis. Front Oncol 2020;10:994. PMID: 32719743
  • Zhai J, Li S, Sen S, Opoku-Anane J et al. m(6)A RNA Methylation Regulators Contribute to Eutopic Endometrium and Myometrium Dysfunction in Adenomyosis. Front Genet 2020;11:716. PMID: 32719721
  • Liao M, Zeng F, Li Y, Gao Q et al. A novel predictive model incorporating immune-related gene signatures for overall survival in melanoma patients. Sci Rep 2020 Jul 27;10(1):12462. PMID: 32719391
  • Schöpp T, Zoch A, Berrens RV, Auchynnikava T et al. TEX15 is an essential executor of MIWI2-directed transposon DNA methylation and silencing. Nat Commun 2020 Jul 27;11(1):3739. PMID: 32719317
  • D'Anna F, Van Dyck L, Xiong J, Zhao H et al. DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumor immunotolerance. Genome Biol 2020 Jul 27;21(1):182. PMID: 32718321
  • Hao Shi, Yan KK, Ding L, Qian C et al. Network Approaches for Dissecting the Immune System. iScience 2020 Aug 21;23(8):101354. PMID: 32717640
  • Zhang D, Wang Y, Hu X et al. Identification and Comprehensive Validation of a DNA Methylation-Driven Gene-Based Prognostic Model for Clear Cell Renal Cell Carcinoma. DNA Cell Biol 2020 Oct;39(10):1799-1812. PMID: 32716214
  • Hikmet F, Méar L, Edvinsson Å, Micke P et al. The protein expression profile of ACE2 in human tissues. Mol Syst Biol 2020 Jul;16(7):e9610. PMID: 32715618
  • Li C, Zhang Z, Xu Q, Shi R et al. Comprehensive Analyses of miRNA-mRNA Network and Potential Drugs in Idiopathic Pulmonary Arterial Hypertension. Biomed Res Int 2020;2020:5156304. PMID: 32714978
  • Zhang L, Chen J, Cheng T, Yang H et al. Identification of Differentially Expressed Genes and miRNAs Associated with Esophageal Squamous Cell Carcinoma by Integrated Analysis of Microarray Data. Biomed Res Int 2020;2020:1980921. PMID: 32714975
  • Yang X, Li Y, Qian H et al. Study on the Selection of the Targets of Esophageal Carcinoma and Interventions of Ginsenosides Based on Network Pharmacology and Bioinformatics. Evid Based Complement Alternat Med 2020;2020:4821056. PMID: 32714406
  • Jiao M, Li J, Zhang Q, Xu X et al. Identification of Four Potential Biomarkers Associated With Coronary Artery Disease in Non-diabetic Patients by Gene Co-expression Network Analysis. Front Genet 2020;11:542. PMID: 32714363
  • Zhang X, Fan Y, Luo Y, Jin L et al. Lipid Metabolism is the common pathologic mechanism between Type 2 Diabetes Mellitus and Parkinson's disease. Int J Med Sci 2020;17(12):1723-1732. PMID: 32714075
  • Yu X, Liu C, Yang W, Stojkoska A et al. Global quantitative phosphoproteome reveals phosphorylation network of bovine lung tissue altered by Mycobacterium bovis. Microb Pathog 2020 Oct;147:104402. PMID: 32712114
  • Fu X, Tang N, Xie W, Mao L et al. Mind Bomb 1 Promotes Pancreatic Cancer Proliferation by Activating β-Catenin Signaling. J Nanosci Nanotechnol 2020 Dec 1;20(12):7276-7282. PMID: 32711591
  • Yang J, Li Y, Zhang Y, Fang X et al. Sirt6 promotes tumorigenesis and drug resistance of diffuse large B-cell lymphoma by mediating PI3K/Akt signaling. J Exp Clin Cancer Res 2020 Jul 25;39(1):142. PMID: 32711549
  • Onwuka JU, Li D, Liu Y, Huang H et al. A panel of DNA methylation signature from peripheral blood may predict colorectal cancer susceptibility. BMC Cancer 2020 Jul 25;20(1):692. PMID: 32711505
  • Dong L, Yu L, Li H, Shi L et al. An NAD(+)-Dependent Deacetylase SIRT7 Promotes HCC Development Through Deacetylation of USP39. iScience 2020 Aug 21;23(8):101351. PMID: 32711345
  • Weigel C, Hüttner SS, Ludwig K, Krieg N et al. S1P lyase inhibition protects against sepsis by promoting disease tolerance via the S1P/S1PR3 axis. EBioMedicine 2020 Aug;58:102898. PMID: 32711251
  • Wu M, Karadoulama E, Lloret-Llinares M, Rouviere JO et al. The RNA exosome shapes the expression of key protein-coding genes. Nucleic Acids Res 2020 Sep 4;48(15):8509-8528. PMID: 32710631
  • Jiao HL, Weng BS, Yan SS, Lin ZM et al. Upregulation of OSBPL3 by HIF1A promotes colorectal cancer progression through activation of RAS signaling pathway. Cell Death Dis 2020 Jul 24;11(7):571. PMID: 32709922
  • Petek M, Zagorščak M, Ramšak Ž, Sanders S et al. Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato. Sci Data 2020 Jul 24;7(1):249. PMID: 32709858
  • Lee K, Moon S, Park MJ, Koh IU et al. Integrated Analysis of Tissue-Specific Promoter Methylation and Gene Expression Profile in Complex Diseases. Int J Mol Sci 2020 Jul 17;21(14). PMID: 32709145
  • Amato CM, Hintzsche JD, Wells K, Applegate A et al. Pre-Treatment Mutational and Transcriptomic Landscape of Responding Metastatic Melanoma Patients to Anti-PD1 Immunotherapy. Cancers (Basel) 2020 Jul 17;12(7). PMID: 32708981
  • Zahoor J, Zafar K et al. Classification of Microarray Gene Expression Data Using an Infiltration Tactics Optimization (ITO) Algorithm. Genes (Basel) 2020 Jul 18;11(7). PMID: 32708429
  • Delgado-Chaves FM, Gómez-Vela F, Divina F, García-Torres M et al. Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks. Genes (Basel) 2020 Jul 21;11(7). PMID: 32708319
  • Bell JL, Hagemann S, Holien JK, Liu T et al. Identification of RNA-Binding Proteins as Targetable Putative Oncogenes in Neuroblastoma. Int J Mol Sci 2020 Jul 19;21(14). PMID: 32707690
  • Lee H, Park BC, Soon Kang J, Cheon Y et al. MAM domain containing 2 is a potential breast cancer biomarker that exhibits tumour-suppressive activity. Cell Prolif 2020 Sep;53(9):e12883. PMID: 32707597
  • Marjanovic ND, Hofree M, Chan JE, Canner D et al. Emergence of a High-Plasticity Cell State during Lung Cancer Evolution. Cancer Cell 2020 Aug 10;38(2):229-246.e13. PMID: 32707077
  • Sarmiento-Castro A, Caamaño-Gutiérrez E, Sims AH, Hull NJ et al. Increased Expression of Interleukin-1 Receptor Characterizes Anti-estrogen-Resistant ALDH(+) Breast Cancer Stem Cells. Stem Cell Reports 2020 Aug 11;15(2):307-316. PMID: 32707076
  • Illendula A, Fultang N, Peethambaran B et al. Retinoic acid induces differentiation in neuroblastoma via ROR1 by modulating retinoic acid response elements. Oncol Rep 2020 Sep;44(3):1013-1024. PMID: 32705280
  • Kim JS, Shin IS, Shin NR, Nam JY et al. Genome‑wide analysis of DNA methylation and gene expression changes in an ovalbumin‑induced asthma mouse model. Mol Med Rep 2020 Sep;22(3):1709-1716. PMID: 32705270
  • Zhang K, Wang W, Chen L, Liu Y et al. Cross‑validation of genes potentially associated with neoadjuvant chemotherapy and platinum‑based chemoresistance in epithelial ovarian carcinoma. Oncol Rep 2020 Sep;44(3):909-926. PMID: 32705213
  • Li XJ, Wen R, Wen DY, Lin P et al. Downregulation of miR‑193a‑3p via targeting cyclin D1 in thyroid cancer. Mol Med Rep 2020 Sep;22(3):2199-2218. PMID: 32705210
  • Alzahrani FA, Ahmed F, Sharma M, Rehan M et al. Investigating the pathogenic SNPs in BLM helicase and their biological consequences by computational approach. Sci Rep 2020 Jul 23;10(1):12377. PMID: 32704157
  • Hartman RJG, Kapteijn DMC, Haitjema S, Bekker MN et al. Intrinsic transcriptomic sex differences in human endothelial cells at birth and in adults are associated with coronary artery disease targets. Sci Rep 2020 Jul 23;10(1):12367. PMID: 32704153
  • Kim YJ, Kim K, Lee KH, Kim J et al. Immune expression signatures as candidate prognostic biomarkers of age and gender survival differences in cutaneous melanoma. Sci Rep 2020 Jul 23;10(1):12322. PMID: 32703987
  • Teng P, Xu X, Ni C, Yan H et al. Identification of key genes in calcific aortic valve disease by integrated bioinformatics analysis. Medicine (Baltimore) 2020 Jul 17;99(29):e21286. PMID: 32702920
  • Gah A, Adil MS, Sabbineni H, Verma A et al. Differential regulation of TGFβ type-I receptor expressions in TGFβ1-induced myofibroblast differentiation. Can J Physiol Pharmacol 2020 Dec;98(12):841-848. PMID: 32702244
  • Zhao M, Di X, Jin X, Tian C et al. Identification of Biomarkers for Sarcoidosis and Tuberculosis of the Lung Using Systematic and Integrated Analysis. Med Sci Monit 2020 Jul 23;26:e925438. PMID: 32701935
  • Zhao X, Cao D, Ren Z, Liu Z et al. Dipeptidyl peptidase like 6 promoter methylation is a potential prognostic biomarker for pancreatic ductal adenocarcinoma. Biosci Rep 2020 Jul 31;40(7). PMID: 32701143
  • Koromila T, Gao F, Iwasaki Y, He P et al. Odd-paired is a pioneer-like factor that coordinates with Zelda to control gene expression in embryos. Elife 2020 Jul 23;9. PMID: 32701060
  • Chen Y, Gu D, Wen Y, Yang S et al. Identifying the novel key genes in renal cell carcinoma by bioinformatics analysis and cell experiments. Cancer Cell Int 2020;20:331. PMID: 32699530
  • Soleimani Zakeri NS, Pashazadeh S, MotieGhader H et al. Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach. Sci Rep 2020 Jul 22;10(1):12210. PMID: 32699331
  • Jing J, Li F, Zha L, Yang X et al. The histone methyltransferase Suv39h regulates 3T3-L1 adipogenesis. Adipocyte 2020 Dec;9(1):401-414. PMID: 32698678
  • Liu X, Wang X, Liu J, Wang X et al. Identifying Candidate Genes for Hypoxia Adaptation of Tibet Chicken Embryos by Selection Signature Analyses and RNA Sequencing. Genes (Basel) 2020 Jul 20;11(7). PMID: 32698384
  • Bhaskar A, Kumar S, Khan MZ, Singh A et al. Host sirtuin 2 as an immunotherapeutic target against tuberculosis. Elife 2020 Jul 22;9. PMID: 32697192
  • Jiang T, Liu Y, Chen B, Si L et al. Identification of potential molecular mechanisms and small molecule drugs in myocardial ischemia/reperfusion injury. Braz J Med Biol Res 2020;53(9):0. PMID: 32696819
  • Mpingirika EZ, El Hosseiny A, Bakheit SMS, Arafeh R et al. Potential Anticancer Activity of Crude Ethanol, Ethyl Acetate, and Water Extracts of Ephedra foeminea on Human Osteosarcoma U2OS Cell Viability and Migration. Biomed Res Int 2020;2020:3837693. PMID: 32695811
  • Zhu J, Wang M, Hu D et al. Identification of Prognostic Immune-Related Genes by Integrating mRNA Expression and Methylation in Lung Adenocarcinoma. Int J Genomics 2020;2020:9548632. PMID: 32695805
  • Deng JL, Zhang HB, Zeng Y, Xu YH et al. Effects of CORO2A on Cell Migration and Proliferation and Its Potential Regulatory Network in Breast Cancer. Front Oncol 2020;10:916. PMID: 32695665
  • Feng H, Zhong L, Yang X, Wan Q et al. Development and validation of prognostic index based on autophagy-related genes in patient with head and neck squamous cell carcinoma. Cell Death Discov 2020;6:59. PMID: 32695478
  • Cheng S, Jiang Z, Xiao J, Guo H et al. The prognostic value of six survival-related genes in bladder cancer. Cell Death Discov 2020;6:58. PMID: 32695477
  • Idicula-Thomas S, Gawde U, Bhaye S, Pokar K et al. Meta-analysis of gene expression profiles of lean and obese PCOS to identify differentially regulated pathways and risk of comorbidities. Comput Struct Biotechnol J 2020;18:1735-1745. PMID: 32695266
  • Pan XY, Zhang ZW et al. MFGE8, ALB, APOB, APOE, SAA1, A2M, and C3 as Novel Biomarkers for Stress Cardiomyopathy. Cardiovasc Ther 2020;2020:1615826. PMID: 32695227
  • Wang L, Hu J, Zhou J, Guo F et al. Weighed Gene Coexpression Network Analysis Screens the Potential Long Noncoding RNAs and Genes Associated with Progression of Coronary Artery Disease. Comput Math Methods Med 2020;2020:8183420. PMID: 32695216
  • Lyu MA, Wang Y, Jiang J, Liu X et al. What Matters for C(4) Transporters: Evolutionary Changes of Phosphoenolpyruvate Transporter for C(4) Photosynthesis. Front Plant Sci 2020;11:935. PMID: 32695130
  • Quarta C, Fisette A, Xu Y, Colldén G et al. Functional identity of hypothalamic melanocortin neurons depends on Tbx3. Nat Metab 2019 Feb;1(2):222-235. PMID: 32694784
  • Vacca M, Leslie J, Virtue S, Lam BYH et al. Bone morphogenetic protein 8B promotes the progression of non-alcoholic steatohepatitis. Nat Metab 2020 Jun;2(6):514-531. PMID: 32694734
  • Buechler SA, Stephens MT, Hummon AB, Ludwig K et al. ColoType: a forty gene signature for consensus molecular subtyping of colorectal cancer tumors using whole-genome assay or targeted RNA-sequencing. Sci Rep 2020 Jul 21;10(1):12123. PMID: 32694712
  • Hou S, Chen X, Li M, Huang X et al. Higher expression of cell division cycle-associated protein 5 predicts poorer survival outcomes in hepatocellular carcinoma. Aging (Albany NY) 2020 Jul 21;12(14):14542-14555. PMID: 32694239
  • Fei H, Chen S, Xu C et al. Bioinformatics analysis of gene expression profile of serous ovarian carcinomas to screen key genes and pathways. J Ovarian Res 2020 Jul 21;13(1):82. PMID: 32693821
  • Nam AR, Lee KH, Hwang HJ, Schabort JJ et al. Alternative methylation of intron motifs is associated with cancer-related gene expression in both canine mammary tumor and human breast cancer. Clin Epigenetics 2020 Jul 21;12(1):110. PMID: 32693820
  • Chen Y, Chen W, Dai X, Zhang C et al. Identification of the collagen family as prognostic biomarkers and immune-associated targets in gastric cancer. Int Immunopharmacol 2020 Oct;87:106798. PMID: 32693357
  • Zhao H, Jiang A, Yu M, Bao H et al. Identification of biomarkers correlated with diagnosis and prognosis of endometrial cancer using bioinformatics analysis. J Cell Biochem 2020 Jul 21 PMID: 32692884
  • Zheng X, Wei J, Li W, Li X et al. PRDX2 removal inhibits the cell cycle and autophagy in colorectal cancer cells. Aging (Albany NY) 2020 Jul 20;12(16):16390-16409. PMID: 32692719
  • Zhao Y, Schaafsma E, Cheng C et al. Gene signature-based prediction of triple-negative breast cancer patient response to Neoadjuvant chemotherapy. Cancer Med 2020 Sep;9(17):6281-6295. PMID: 32692484
  • Feldker N, Ferrazzi F, Schuhwerk H, Widholz SA et al. Genome-wide cooperation of EMT transcription factor ZEB1 with YAP and AP-1 in breast cancer. EMBO J 2020 Sep 1;39(17):e103209. PMID: 32692442
  • Moon JS, Goeminne LJE, Kim JT, Tian JW et al. Growth differentiation factor 15 protects against the aging-mediated systemic inflammatory response in humans and mice. Aging Cell 2020 Aug;19(8):e13195. PMID: 32691494
  • Luu J, Kallestad L, Hoang T, Lewandowski D et al. Epigenetic hallmarks of age-related macular degeneration are recapitulated in a photosensitive mouse model. Hum Mol Genet 2020 Aug 29;29(15):2611-2624. PMID: 32691052
  • Giovannoni F, Bosch I, Polonio CM, Torti MF et al. AHR is a Zika virus host factor and a candidate target for antiviral therapy. Nat Neurosci 2020 Aug;23(8):939-951. PMID: 32690969
  • Wang X, Rojas-Quintero J, Zhang D, Nakajima T et al. A disintegrin and metalloproteinase domain-15 deficiency leads to exaggerated cigarette smoke-induced chronic obstructive pulmonary disease (COPD)-like disease in mice. Mucosal Immunol 2021 Mar;14(2):342-356. PMID: 32690871
  • Schetters STT, Rodriguez E, Kruijssen LJW, Crommentuijn MHW et al. Monocyte-derived APCs are central to the response of PD1 checkpoint blockade and provide a therapeutic target for combination therapy. J Immunother Cancer 2020 Jul;8(2). PMID: 32690667
  • Sampson D, Yager TD, Fox B, Shallcross L et al. Blood transcriptomic discrimination of bacterial and viral infections in the emergency department: a multi-cohort observational validation study. BMC Med 2020 Jul 21;18(1):185. PMID: 32690014
  • Osmala M, Lähdesmäki H et al. Enhancer prediction in the human genome by probabilistic modelling of the chromatin feature patterns. BMC Bioinformatics 2020 Jul 20;21(1):317. PMID: 32689977
  • Ao L, Li L, Sun H, Chen H et al. Transcriptomic analysis on the effects of melatonin in gastrointestinal carcinomas. BMC Gastroenterol 2020 Jul 20;20(1):233. PMID: 32689938
  • Li M, Zhang C, Zhou L, Li S et al. Identification and validation of novel DNA methylation markers for early diagnosis of lung adenocarcinoma. Mol Oncol 2020 Nov;14(11):2744-2758. PMID: 32688456
  • Mishra R, Bhattacharya S, Rawat BS, Kumar A et al. MicroRNA-30e-5p has an Integrated Role in the Regulation of the Innate Immune Response during Virus Infection and Systemic Lupus Erythematosus. iScience 2020 Jul 24;23(7):101322. PMID: 32688283
  • Teng L, Wang K, Chen W, Wang YS et al. HYR-2 plays an anti-lung cancer role by regulating PD-L1 and Akkermansia muciniphila. Pharmacol Res 2020 Oct;160:105086. PMID: 32687951
  • Chauhan V, Adam N, Kuo B, Williams A et al. Meta-analysis of transcriptomic datasets using benchmark dose modeling shows value in supporting radiation risk assessment. Int J Radiat Biol 2021;97(1):31-49. PMID: 32687419
  • Meeuse MW, Hauser YP, Morales Moya LJ, Hendriks GJ et al. Developmental function and state transitions of a gene expression oscillator in Caenorhabditis elegans. Mol Syst Biol 2020 Jul;16(7):e9498. PMID: 32687264
  • Schleich K, Kase J, Dörr JR, Trescher S et al. H3K9me3-mediated epigenetic regulation of senescence in mice predicts outcome of lymphoma patients. Nat Commun 2020 Jul 20;11(1):3651. PMID: 32686676
  • Zagozewski J, Shahriary GM, Morrison LC, Saulnier O et al. An OTX2-PAX3 signaling axis regulates Group 3 medulloblastoma cell fate. Nat Commun 2020 Jul 20;11(1):3627. PMID: 32686664
  • Schito L, Rey S, Xu P, Man S et al. Metronomic chemotherapy offsets HIFα induction upon maximum-tolerated dose in metastatic cancers. EMBO Mol Med 2020 Sep 7;12(9):e11416. PMID: 32686360
  • Chen H, Zhao W, Zhang Y, Guo Y et al. Systematic analysis on multiple Gene Expression Omnibus data sets reveals fierce immune response in hepatitis B virus-related acute liver failure. J Cell Mol Med 2020 Sep;24(17):9798-9809. PMID: 32686296
  • Hu B, Li Y, Wang G, Zhang Y et al. The Blood Gene Expression Signature for Kawasaki Disease in Children Identified with Advanced Feature Selection Methods. Biomed Res Int 2020;2020:6062436. PMID: 32685506
  • Wen X, Liu S, Cui M et al. Effect of BRCA1 on the Concurrent Chemoradiotherapy Resistance of Cervical Squamous Cell Carcinoma Based on Transcriptome Sequencing Analysis. Biomed Res Int 2020;2020:3598417. PMID: 32685473
  • Zhao DD, Zhao X, Li WT et al. Identification of differentially expressed metastatic genes and their signatures to predict the overall survival of uveal melanoma patients by bioinformatics analysis. Int J Ophthalmol 2020;13(7):1046-1053. PMID: 32685390
  • Yu X, Zhang X, Zhang Y et al. Identification of a 5-Gene Metabolic Signature for Predicting Prognosis Based on an Integrated Analysis of Tumor Microenvironment in Lung Adenocarcinoma. J Oncol 2020;2020:5310793. PMID: 32684932
  • Zhu C, Ge C, He J, Zhang X et al. Identification of Key Genes and Pathways Associated With Irradiation in Breast Cancer Tissue and Breast Cancer Cell Lines. Dose Response 2020 Apr-Jun;18(2):1559325820931252. PMID: 32684870
  • Meng X, Feng C, Fang E, Feng J et al. Combined analysis of RNA-sequence and microarray data reveals effective metabolism-based prognostic signature for neuroblastoma. J Cell Mol Med 2020 Sep;24(18):10367-10381. PMID: 32683778
  • Dong X, Gu DN, Wang O, Ye Z et al. LAGE3 correlates with tumorigenic immune infiltrates in the clear cell renal cell carcinoma microenvironment. Int Immunopharmacol 2020 Oct;87:106793. PMID: 32683301
  • Zhang J, Huang X, Wang X, Gao Y et al. Identification of potential crucial genes in atrial fibrillation: a bioinformatic analysis. BMC Med Genomics 2020 Jul 18;13(1):104. PMID: 32682418
  • Toufiq M, Roelands J, Alfaki M, Syed Ahamed Kabeer B et al. Annexin A3 in sepsis: novel perspectives from an exploration of public transcriptome data. Immunology 2020 Dec;161(4):291-302. PMID: 32682335
  • Xu K, Zhang Y, Xiong W, Zhang Z et al. CircGRIA1 shows an age-related increase in male macaque brain and regulates synaptic plasticity and synaptogenesis. Nat Commun 2020 Jul 17;11(1):3594. PMID: 32681011
  • Kim TM, Yang IS, Seung BJ, Lee S et al. Cross-species oncogenic signatures of breast cancer in canine mammary tumors. Nat Commun 2020 Jul 17;11(1):3616. PMID: 32680987
  • Mahata B, Pramanik J, van der Weyden L, Polanski K et al. Tumors induce de novo steroid biosynthesis in T cells to evade immunity. Nat Commun 2020 Jul 17;11(1):3588. PMID: 32680985
  • Harbour SN, DiToro DF, Witte SJ, Zindl CL et al. T(H)17 cells require ongoing classic IL-6 receptor signaling to retain transcriptional and functional identity. Sci Immunol 2020 Jul 17;5(49). PMID: 32680955
  • Wedenoja S, Yoshihara M, Teder H, Sariola H et al. Fetal HLA-G mediated immune tolerance and interferon response in preeclampsia. EBioMedicine 2020 Sep;59:102872. PMID: 32680723
  • Matthews BJ, Waxman DJ et al. Impact of 3D genome organization, guided by cohesin and CTCF looping, on sex-biased chromatin interactions and gene expression in mouse liver. Epigenetics Chromatin 2020 Jul 17;13(1):30. PMID: 32680543
  • Hu F, Wang Q, Yang Z, Zhang Z et al. Network-based identification of biomarkers for colon adenocarcinoma. BMC Cancer 2020 Jul 17;20(1):668. PMID: 32680494
  • Priebe V, Sartori G, Napoli S, Chung EYL et al. Role of ETS1 in the Transcriptional Network of Diffuse Large B Cell Lymphoma of the Activated B Cell-Like Type. Cancers (Basel) 2020 Jul 15;12(7). PMID: 32679859
  • Xu H, Chai S, Wang Y, Wang J et al. Molecular and clinical characterization of PARP9 in gliomas: A potential immunotherapeutic target. CNS Neurosci Ther 2020 Aug;26(8):804-814. PMID: 32678519
  • Su HC, Wu SC, Yen LC, Chiao LK et al. Gene expression profiling identifies the role of Zac1 in cervical cancer metastasis. Sci Rep 2020 Jul 16;10(1):11837. PMID: 32678267
  • Strunz M, Simon LM, Ansari M, Kathiriya JJ et al. Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis. Nat Commun 2020 Jul 16;11(1):3559. PMID: 32678092
  • Goodier JL, Soares AO, Pereira GC, DeVine LR et al. C9orf72-associated SMCR8 protein binds in the ubiquitin pathway and with proteins linked with neurological disease. Acta Neuropathol Commun 2020 Jul 16;8(1):110. PMID: 32678027
  • Xia X, Wu WKK, Wong SH, Liu D et al. Bacteria pathogens drive host colonic epithelial cell promoter hypermethylation of tumor suppressor genes in colorectal cancer. Microbiome 2020 Jul 16;8(1):108. PMID: 32678024
  • Paludo GP, Thompson CE, Miyamoto KN, Guedes RLM et al. Cestode strobilation: prediction of developmental genes and pathways. BMC Genomics 2020 Jul 16;21(1):487. PMID: 32677885
  • Liu Y, Wang F, Zhang Y, Jia J et al. ST6Gal1 is up-regulated and associated with aberrant IgA1 glycosylation in IgA nephropathy: An integrated analysis of the transcriptome. J Cell Mol Med 2020 Sep;24(18):10493-10500. PMID: 32677771
  • Shen P, He X, Lan L, Hong Y et al. Identification of cell division cycle 20 as a candidate biomarker and potential therapeutic target in bladder cancer using bioinformatics analysis. Biosci Rep 2020 Jul 31;40(7). PMID: 32677673
  • FitzGerald ES, Jamieson AM et al. Unique transcriptional changes in coagulation cascade genes in SARS-CoV-2-infected lung epithelial cells: A potential factor in COVID-19 coagulopathies. bioRxiv 2020 Jul 7 PMID: 32676594
  • Zhou Y, Hou Y, Shen J, Kallianpur A et al. A Network Medicine Approach to Investigation and Population-based Validation of Disease Manifestations and Drug Repurposing for COVID-19. ChemRxiv 2020 Jul 2 PMID: 32676577
  • Hermann J, Bender M, Schumacher D, Woo MS et al. Contribution of NAADP to Glutamate-Evoked Changes in Ca(2+) Homeostasis in Mouse Hippocampal Neurons. Front Cell Dev Biol 2020;8:496. PMID: 32676502
  • Zhu L, Roberts R, Huang R, Zhao J et al. Drug Repositioning for Noonan and LEOPARD Syndromes by Integrating Transcriptomics With a Structure-Based Approach. Front Pharmacol 2020;11:927. PMID: 32676024
  • Zhao T, Khadka VS, Deng Y et al. Identification of lncRNA biomarkers for lung cancer through integrative cross-platform data analyses. Aging (Albany NY) 2020 Jul 16;12(14):14506-14527. PMID: 32675385
  • Zoch A, Auchynnikava T, Berrens RV, Kabayama Y et al. SPOCD1 is an essential executor of piRNA-directed de novo DNA methylation. Nature 2020 Aug;584(7822):635-639. PMID: 32674113
  • Huang Y, Zhu L, Tan J, Guo W et al. Correlation between SHP-1 and carotid plaque vulnerability in humans. Cardiovasc Pathol 2020 Nov-Dec;49:107258. PMID: 32674045
  • Pessoa Rodrigues C, Herman JS, Herquel B, Valsecchi CIK et al. Temporal expression of MOF acetyltransferase primes transcription factor networks for erythroid fate. Sci Adv 2020 May;6(21):eaaz4815. PMID: 32671208
  • Fajarda O, Duarte-Pereira S, Silva RM, Oliveira JL et al. Merging microarray studies to identify a common gene expression signature to several structural heart diseases. BioData Min 2020;13:8. PMID: 32670412
  • Fan Z, Wang X, Li P, Mei C et al. Systematic Identification of lncRNA-Associated ceRNA Networks in Immune Thrombocytopenia. Comput Math Methods Med 2020;2020:6193593. PMID: 32670393
  • Huang J, Zhang Y, Ma Q, Zhang Y et al. Natural Selection on Exonic SNPs Shapes Allelic Expression Imbalance (AEI) Adaptability in Lung Cancer Progression. Front Genet 2020;11:665. PMID: 32670357
  • Zhu Y, Plaza N, Kojima Y, Yoshida M et al. Nanostructural Analysis of Enzymatic and Non-enzymatic Brown Rot Fungal Deconstruction of the Lignocellulose Cell Wall(†). Front Microbiol 2020;11:1389. PMID: 32670241
  • Luo Y, Luo Y, Chang J, Xiao Z et al. Identification of candidate biomarkers and pathways associated with psoriasis using bioinformatics analysis. Hereditas 2020 Jul 15;157(1):30. PMID: 32669126
  • Szczepanski AP, Zhao Z, Sosnowski T, Goo YA et al. ASXL3 bridges BRD4 to BAP1 complex and governs enhancer activity in small cell lung cancer. Genome Med 2020 Jul 15;12(1):63. PMID: 32669118
  • Li J, Zhang Y, Hu D, Gong T et al. Analysis of the expression and genetic alteration of CLDN18 in gastric cancer. Aging (Albany NY) 2020 Jul 15;12(14):14271-14284. PMID: 32668412
  • Mahoney R, Ochoa Thomas E, Ramirez P, Miller HE et al. Pathogenic Tau Causes a Toxic Depletion of Nuclear Calcium. Cell Rep 2020 Jul 14;32(2):107900. PMID: 32668249
  • Bao M, Zhang L, Hu Y et al. Novel gene signatures for prognosis prediction in ovarian cancer. J Cell Mol Med 2020 Sep;24(17):9972-9984. PMID: 32666642
  • Snyder E, Chukrallah L, Seltzer K, Goodwin L et al. ADAD1 and ADAD2, testis-specific adenosine deaminase domain-containing proteins, are required for male fertility. Sci Rep 2020 Jul 14;10(1):11536. PMID: 32665638
  • Jain Goyal M, Zhao X, Bozhinova M, Andrade-López K et al. A paralog-specific role of COPI vesicles in the neuronal differentiation of mouse pluripotent cells. Life Sci Alliance 2020 Sep;3(9). PMID: 32665377
  • Raxwal VK, Simpson CG, Gloggnitzer J, Entinze JC et al. Nonsense-Mediated RNA Decay Factor UPF1 Is Critical for Posttranscriptional and Translational Gene Regulation in Arabidopsis. Plant Cell 2020 Sep;32(9):2725-2741. PMID: 32665305
  • Liu J, Wu S, Xie X, Wang Z et al. Identification of potential crucial genes and key pathways in osteosarcoma. Hereditas 2020 Jul 14;157(1):29. PMID: 32665038
  • Gong X, Yu Q, Duan K, Tong Y et al. Histone acetyltransferase Gcn5 regulates gene expression by promoting the transcription of histone methyltransferase SET1. Biochim Biophys Acta Gene Regul Mech 2020 Sep;1863(9):194603. PMID: 32663628
  • Yoon H, Spinelli JB, Zaganjor E, Wong SJ et al. PHD3 Loss Promotes Exercise Capacity and Fat Oxidation in Skeletal Muscle. Cell Metab 2020 Aug 4;32(2):215-228.e7. PMID: 32663458
  • Kong Q, Singh SK, Mantyla JJ, Pattanaik S et al. TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR4 Interacts with WRINKLED1 to Mediate Seed Oil Biosynthesis. Plant Physiol 2020 Oct;184(2):658-665. PMID: 32663164
  • Zheng L, Dou X, Song H, Wang P et al. Bioinformatics analysis of key genes and pathways in Hashimoto thyroiditis tissues. Biosci Rep 2020 Jul 31;40(7). PMID: 32662826
  • Lathwal A, Kumar R, Arora C, Raghava GPS et al. Identification of prognostic biomarkers for major subtypes of non-small-cell lung cancer using genomic and clinical data. J Cancer Res Clin Oncol 2020 Nov;146(11):2743-2752. PMID: 32661603
  • Oikawa M, Simeone A, Hormanseder E, Teperek M et al. Epigenetic homogeneity in histone methylation underlies sperm programming for embryonic transcription. Nat Commun 2020 Jul 13;11(1):3491. PMID: 32661239
  • Tang MS, Miraldi ER, Girgis NM, Bonneau RA et al. Alternative Activation of Macrophages Is Accompanied by Chromatin Remodeling Associated with Lineage-Dependent DNA Shape Features Flanking PU.1 Motifs. J Immunol 2020 Aug 15;205(4):1070-1083. PMID: 32661179
  • Boroni M, Zonari A, Reis de Oliveira C, Alkatib K et al. Highly accurate skin-specific methylome analysis algorithm as a platform to screen and validate therapeutics for healthy aging. Clin Epigenetics 2020 Jul 13;12(1):105. PMID: 32660606
  • Li Y, Wang Q, Ning N, Tang F et al. Bioinformatic analysis reveals MIR502 as a potential tumour suppressor in ovarian cancer. J Ovarian Res 2020 Jul 13;13(1):77. PMID: 32660514
  • Leroux MM, Doumandji Z, Chézeau L, Gaté L et al. Toxicity of TiO(2) Nanoparticles: Validation of Alternative Models. Int J Mol Sci 2020 Jul 9;21(14). PMID: 32659965
  • Yang L, Wu B, Wu Z, Xu Y et al. CAMKIIγ is a targetable driver of multiple myeloma through CaMKIIγ/ Stat3 axis. Aging (Albany NY) 2020 Jul 13;12(13):13668-13683. PMID: 32658867
  • Sun ZW, Li LL, Tang JZ, Yang YP et al. Integrated Analysis of Transcriptomic Data Reveals Key Anti-CKD Targets and Anti-ESRD Targets. Clin Lab 2020 Jul 1;66(7). PMID: 32658416
  • Wainer-Katsir K, Linial M et al. BIRD: identifying cell doublets via biallelic expression from single cells. Bioinformatics 2020 Jul 1;36(Suppl_1):i251-i257. PMID: 32657402
  • Sarkar H, Srivastava A, Bravo HC, Love MI et al. Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data. Bioinformatics 2020 Jul 1;36(Suppl_1):i102-i110. PMID: 32657377
  • Shen Z, Hoeksema MA, Ouyang Z, Benner C et al. MAGGIE: leveraging genetic variation to identify DNA sequence motifs mediating transcription factor binding and function. Bioinformatics 2020 Jul 1;36(Suppl_1):i84-i92. PMID: 32657363
  • Bazile J, Jaffrezic F, Dehais P, Reichstadt M et al. Molecular signatures of muscle growth and composition deciphered by the meta-analysis of age-related public transcriptomics data. Physiol Genomics 2020 Aug 1;52(8):322-332. PMID: 32657225
  • Sekiguchi M, Seki M, Kawai T, Yoshida K et al. Integrated multiomics analysis of hepatoblastoma unravels its heterogeneity and provides novel druggable targets. NPJ Precis Oncol 2020;4:20. PMID: 32656360
  • Zhang B, Wang Y, Li H, Feng L et al. Identification of Prognostic Biomarkers for Multiple Solid Tumors Using a Human Villi Development Model. Front Cell Dev Biol 2020;8:492. PMID: 32656211
  • Duan M, Song H, Wang C, Zheng J et al. Detection and Independent Validation of Model-Based Quantitative Transcriptional Regulation Relationships Altered in Lung Cancers. Front Bioeng Biotechnol 2020;8:582. PMID: 32656193
  • Rose JT, Moskovitz E, Boyd JR, Gordon JA et al. Inhibition of the RUNX1-CBFβ transcription factor complex compromises mammary epithelial cell identity: a phenotype potentially stabilized by mitotic gene bookmarking. Oncotarget 2020 Jun 30;11(26):2512-2530. PMID: 32655837
  • Xing J, Shi Q, Zhao J, Yu Z et al. Identifying drug candidates for hepatocellular carcinoma based on differentially expressed genes. Am J Transl Res 2020;12(6):2664-2674. PMID: 32655798
  • Mo Z, Yu L, Cao Z, Hu H et al. Identification of a Hypoxia-Associated Signature for Lung Adenocarcinoma. Front Genet 2020;11:647. PMID: 32655624
  • Renganathan VG, Vanniarajan C, Karthikeyan A, Ramalingam J et al. Barnyard Millet for Food and Nutritional Security: Current Status and Future Research Direction. Front Genet 2020;11:500. PMID: 32655612
  • Singh S, Singh VK, Rai G et al. Identification of Differentially Expressed Hematopoiesis-associated Genes in Term Low Birth Weight Newborns by Systems Genomics Approach. Curr Genomics 2019 Nov;20(7):469-482. PMID: 32655286
  • Malladi VS, Nagari A, Franco HL, Kraus WL et al. Total Functional Score of Enhancer Elements Identifies Lineage-Specific Enhancers That Drive Differentiation of Pancreatic Cells. Bioinform Biol Insights 2020;14:1177932220938063. PMID: 32655276
  • Dial AG, Monaco CMF, Grafham GK, Romanova N et al. Muscle and serum myostatin expression in type 1 diabetes. Physiol Rep 2020 Jul;8(13):e14500. PMID: 32652899
  • Cao ZJ, Wei L, Lu S, Yang DC et al. Searching large-scale scRNA-seq databases via unbiased cell embedding with Cell BLAST. Nat Commun 2020 Jul 10;11(1):3458. PMID: 32651388
  • Topel H, Bagirsakci E, Comez D, Bagci G et al. lncRNA HOTAIR overexpression induced downregulation of c-Met signaling promotes hybrid epithelial/mesenchymal phenotype in hepatocellular carcinoma cells. Cell Commun Signal 2020 Jul 11;18(1):110. PMID: 32650779
  • Zhao ZH, Meng TG, Li A, Schatten H et al. RNA-Seq transcriptome reveals different molecular responses during human and mouse oocyte maturation and fertilization. BMC Genomics 2020 Jul 10;21(1):475. PMID: 32650721
  • Teng KY, Barajas JM, Hu P, Jacob ST et al. Role of B Cell Lymphoma 2 in the Regulation of Liver Fibrosis in miR-122 Knockout Mice. Biology (Basel) 2020 Jul 8;9(7). PMID: 32650615
  • Oshi M, Takahashi H, Tokumaru Y, Yan L et al. The E2F Pathway Score as a Predictive Biomarker of Response to Neoadjuvant Therapy in ER+/HER2- Breast Cancer. Cells 2020 Jul 8;9(7). PMID: 32650578
  • Afouda BA, Nakamura Y, Shaw S, Charney RM et al. Foxh1/Nodal Defines Context-Specific Direct Maternal Wnt/β-Catenin Target Gene Regulation in Early Development. iScience 2020 Jul 24;23(7):101314. PMID: 32650116
  • Kaur H, Samarska I, Lu J, Faisal F et al. Neuroendocrine differentiation in usual-type prostatic adenocarcinoma: Molecular characterization and clinical significance. Prostate 2020 Sep;80(12):1012-1023. PMID: 32649013
  • Gao LJ, Shen J, Ren YN, Shi JY et al. Discovering novel hub genes and pathways associated with the pathogenesis of psoriasis. Dermatol Ther 2020 Nov;33(6):e13993. PMID: 32648291
  • Xie X, Dou CY, Zhou Y, Zhou Q et al. MicroRNA-503 Targets Mothers Against Decapentaplegic Homolog 7 Enhancing Hepatic Stellate Cell Activation and Hepatic Fibrosis. Dig Dis Sci 2021 Jun;66(6):1928-1939. PMID: 32648079
  • Sun L, Liu WK, Du XW, Liu XL et al. Large-scale transcriptome analysis identified RNA methylation regulators as novel prognostic signatures for lung adenocarcinoma. Ann Transl Med 2020 Jun;8(12):751. PMID: 32647676
  • Wu A, Wojtowicz K, Savary S, Hamon Y et al. Do ABC transporters regulate plasma membrane organization? Cell Mol Biol Lett 2020;25:37. PMID: 32647530
  • Xie M, Hu C, Li D, Li S et al. MicroRNA-377 Alleviates Myocardial Injury Induced by Hypoxia/Reoxygenation via Downregulating LILRB2 Expression. Dose Response 2020 Apr-Jun;18(2):1559325820936124. PMID: 32647500
  • Tombácz D, Torma G, Gulyás G, Moldován N et al. Meta-analytic approach for transcriptome profiling of herpes simplex virus type 1. Sci Data 2020 Jul 9;7(1):223. PMID: 32647284
  • Shen K, Zeppillo T, Limon A et al. Regional transcriptome analysis of AMPA and GABA(A) receptor subunit expression generates E/I signatures of the human brain. Sci Rep 2020 Jul 9;10(1):11352. PMID: 32647210
  • Pommier RM, Sanlaville A, Tonon L, Kielbassa J et al. Comprehensive characterization of claudin-low breast tumors reflects the impact of the cell-of-origin on cancer evolution. Nat Commun 2020 Jul 9;11(1):3431. PMID: 32647202
  • Ruckert MT, Brouwers-Vos AZ, Nagano LFP, Schuringa JJ et al. HUWE1 cooperates with RAS activation to control leukemia cell proliferation and human hematopoietic stem cells differentiation fate. Cancer Gene Ther 2020 Nov;27(10-11):830-833. PMID: 32647137
  • Sun T, Bi F, Liu Z, Yang Q et al. SLC7A2 serves as a potential biomarker and therapeutic target for ovarian cancer. Aging (Albany NY) 2020 Jul 9;12(13):13281-13296. PMID: 32647070
  • Toups HS, Cochetel N, Gray D, Cramer GR et al. VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development. BMC Genomics 2020 Jul 9;21(1):472. PMID: 32646368
  • Dou L, Li X, Ding H, Xu L et al. Prediction of m5C Modifications in RNA Sequences by Combining Multiple Sequence Features. Mol Ther Nucleic Acids 2020 Sep 4;21:332-342. PMID: 32645685
  • Cui X, Zhang X, Liu M, Zhao C et al. A pan-cancer analysis of the oncogenic role of staphylococcal nuclease domain-containing protein 1 (SND1) in human tumors. Genomics 2020 Nov;112(6):3958-3967. PMID: 32645525
  • Chen Y, Guo H, Li L, Bao D et al. Long Non-Coding RNA (lncRNA) Small Nucleolar RNA Host Gene 15 (SNHG15) Alleviates Osteoarthritis Progression by Regulation of Extracellular Matrix Homeostasis. Med Sci Monit 2020 Jul 9;26:e923868. PMID: 32643707
  • Qi C, Lei L, Hu J, Wang G et al. Serine Incorporator 2 (SERINC2) Expression Predicts an Unfavorable Prognosis of Low-Grade Glioma (LGG): Evidence from Bioinformatics Analysis. J Mol Neurosci 2020 Oct;70(10):1521-1532. PMID: 32642801
  • Chorley BN, Carswell GK, Nelson G, Bhat VS et al. Early microRNA indicators of PPARα pathway activation in the liver. Toxicol Rep 2020;7:805-815. PMID: 32642447
  • Hu J, Li R, Miao H, Wen Z et al. Identification of key genes for esophageal squamous cell carcinoma via integrated bioinformatics analysis and experimental confirmation. J Thorac Dis 2020 Jun;12(6):3188-3199. PMID: 32642240
  • Li J, Li Z, Zhao S, Song Y et al. Identification key genes, key miRNAs and key transcription factors of lung adenocarcinoma. J Thorac Dis 2020 May;12(5):1917-1933. PMID: 32642095
  • Wang Z, Qu S, Zhu J, Chen F et al. Comprehensive analysis of lncRNA-associated competing endogenous RNA network and immune infiltration in idiopathic pulmonary fibrosis. J Thorac Dis 2020 May;12(5):1856-1865. PMID: 32642089
  • Chen Y, Zhou Y, Han F, Zhao Y et al. A novel miR-1291-ERRα-CPT1C axis modulates tumor cell proliferation, metabolism and tumorigenesis. Theranostics 2020;10(16):7193-7210. PMID: 32641987
  • Bibby JA, Purvis HA, Hayday T, Chandra A et al. Cholesterol metabolism drives regulatory B cell IL-10 through provision of geranylgeranyl pyrophosphate. Nat Commun 2020 Jul 8;11(1):3412. PMID: 32641742
  • Wang E, Ye Y, Zhang K, Yang J et al. Longitudinal transcriptomic characterization of viral genes in HSV-1 infected tree shrew trigeminal ganglia. Virol J 2020 Jul 8;17(1):95. PMID: 32641145
  • Zhu Y, Shi L, Chen P, Zhang Y et al. Identification of six candidate genes for endometrial carcinoma by bioinformatics analysis. World J Surg Oncol 2020 Jul 8;18(1):161. PMID: 32641130
  • Emad A, Ray T, Jensen TW, Parat M et al. Superior breast cancer metastasis risk stratification using an epithelial-mesenchymal-amoeboid transition gene signature. Breast Cancer Res 2020 Jul 8;22(1):74. PMID: 32641077
  • Can H, Chanumolu SK, Gonzalez-Muñoz E, Prukudom S et al. Comparative analysis of single-cell transcriptomics in human and Zebrafish oocytes. BMC Genomics 2020 Jul 8;21(1):471. PMID: 32640983
  • Yang JL, Wang CCN, Cai JH, Chou CY et al. Identification of GSN and LAMC2 as Key Prognostic Genes of Bladder Cancer by Integrated Bioinformatics Analysis. Cancers (Basel) 2020 Jul 6;12(7). PMID: 32640634
  • Castro-Dopico T, Fleming A, Dennison TW, Ferdinand JR et al. GM-CSF Calibrates Macrophage Defense and Wound Healing Programs during Intestinal Infection and Inflammation. Cell Rep 2020 Jul 7;32(1):107857. PMID: 32640223
  • Chen T, Zhao Z, Chen B, Wang Y et al. An individualized transcriptional signature to predict the epithelial-mesenchymal transition based on relative expression ordering. Aging (Albany NY) 2020 Jul 8;12(13):13172-13186. PMID: 32639951
  • Wang H, Wang X, Xu L, Zhang J et al. High expression levels of pyrimidine metabolic rate-limiting enzymes are adverse prognostic factors in lung adenocarcinoma: a study based on The Cancer Genome Atlas and Gene Expression Omnibus datasets. Purinergic Signal 2020 Sep;16(3):347-366. PMID: 32638267
  • Liu H, Gai S, Wang X, Zeng J et al. Single-cell analysis of SARS-CoV-2 receptor ACE2 and spike protein priming expression of proteases in the human heart. Cardiovasc Res 2020 Aug 1;116(10):1733-1741. PMID: 32638018
  • Svensson MND, Zoccheddu M, Yang S, Nygaard G et al. Synoviocyte-targeted therapy synergizes with TNF inhibition in arthritis reversal. Sci Adv 2020 Jun;6(26):eaba4353. PMID: 32637608
  • Grabski DF, Ratan A, Gray LR, Bekiranov S et al. Human endogenous retrovirus-K mRNA expression and genomic alignment data in hepatoblastoma. Data Brief 2020 Aug;31:105895. PMID: 32637500
  • Wu J, Wang Y, Zhou Y, Wang Y et al. PPARγ as an E3 Ubiquitin-Ligase Impedes Phosphate-Stat6 Stability and Promotes Prostaglandins E(2)-Mediated Inhibition of IgE Production in Asthma. Front Immunol 2020;11:1224. PMID: 32636842
  • Lim LJ, Jin Y, Yang H, Chung AYF et al. Network of clinically-relevant lncRNAs-mRNAs associated with prognosis of hepatocellular carcinoma patients. Sci Rep 2020 Jul 7;10(1):11124. PMID: 32636408
  • Beisang DJ, Smith K, Yang L, Benyumov A et al. Single-cell RNA sequencing reveals that lung mesenchymal progenitor cells in IPF exhibit pathological features early in their differentiation trajectory. Sci Rep 2020 Jul 7;10(1):11162. PMID: 32636398
  • Ahmed J, Mercx S, Boutry M, Chaumont F et al. Evolutionary and Predictive Functional Insights into the Aquaporin Gene Family in the Allotetraploid Plant Nicotiana tabacum. Int J Mol Sci 2020 Jul 3;21(13). PMID: 32635213
  • Alda-Catalinas C, Bredikhin D, Hernando-Herraez I, Santos F et al. A Single-Cell Transcriptomics CRISPR-Activation Screen Identifies Epigenetic Regulators of the Zygotic Genome Activation Program. Cell Syst 2020 Jul 22;11(1):25-41.e9. PMID: 32634384
  • Cao JZ, Liu H, Wickrema A, Godley LA et al. HIF-1 directly induces TET3 expression to enhance 5-hmC density and induce erythroid gene expression in hypoxia. Blood Adv 2020 Jul 14;4(13):3053-3062. PMID: 32634239
  • Yi Z, Keung KL, Li L, Hu M et al. Key driver genes as potential therapeutic targets in renal allograft rejection. JCI Insight 2020 Aug 6;5(15). PMID: 32634125
  • Yang D, Holsten T, Börnigen D, Frank S et al. Ependymoma relapse goes along with a relatively stable epigenome, but a severely altered tumor morphology. Brain Pathol 2021 Jan;31(1):33-44. PMID: 32633004
  • Parvathaneni RK, Bertolini E, Shamimuzzaman M, Vera DL et al. The regulatory landscape of early maize inflorescence development. Genome Biol 2020 Jul 6;21(1):165. PMID: 32631399
  • Zhou Y, Liu S, Hu Y, Fang L et al. Comparative whole genome DNA methylation profiling across cattle tissues reveals global and tissue-specific methylation patterns. BMC Biol 2020 Jul 6;18(1):85. PMID: 32631327
  • Omae K, Eguchi S et al. Quasi-linear Cox proportional hazards model with cross- L(1) penalty. BMC Med Res Methodol 2020 Jul 6;20(1):182. PMID: 32631280
  • Hansen HH, Ægidius HM, Oró D, Evers SS et al. Human translatability of the GAN diet-induced obese mouse model of non-alcoholic steatohepatitis. BMC Gastroenterol 2020 Jul 6;20(1):210. PMID: 32631250
  • Dang H, Ye Y, Zhao X, Zeng Y et al. Identification of candidate genes in ischemic cardiomyopathy by gene expression omnibus database. BMC Cardiovasc Disord 2020 Jul 6;20(1):320. PMID: 32631246
  • Kim Y, Kim D, Cao B, Carvajal R et al. PDXGEM: patient-derived tumor xenograft-based gene expression model for predicting clinical response to anticancer therapy in cancer patients. BMC Bioinformatics 2020 Jul 6;21(1):288. PMID: 32631229
  • Fernández L, Pérez M, Olanda R, Orduña JM et al. HPG-DHunter: an ultrafast, friendly tool for DMR detection and visualization. BMC Bioinformatics 2020 Jul 6;21(1):287. PMID: 32631226
  • Cho J, Min HY, Pei H, Wei X et al. The ATF6-EGF Pathway Mediates the Awakening of Slow-Cycling Chemoresistant Cells and Tumor Recurrence by Stimulating Tumor Angiogenesis. Cancers (Basel) 2020 Jul 2;12(7). PMID: 32630838
  • Chicharro P, Rodríguez-Jiménez P, Llamas-Velasco M, Montes N et al. Expression of miR-135b in Psoriatic Skin and Its Association with Disease Improvement. Cells 2020 Jul 2;9(7). PMID: 32630692
  • Alatshan A, Kovács GE, Aladdin A, Czimmerer Z et al. All-Trans Retinoic Acid Enhances both the Signaling for Priming and the Glycolysis for Activation of NLRP3 Inflammasome in Human Macrophage. Cells 2020 Jul 1;9(7). PMID: 32630207
  • Liu Z, Grant CN, Sun L, Miller BA et al. Expression Patterns of Immune Genes Reveal Heterogeneous Subtypes of High-Risk Neuroblastoma. Cancers (Basel) 2020 Jun 30;12(7). PMID: 32629858
  • Gandhi S, Elkhanany A, Oshi M, Dai T et al. Contribution of Immune Cells to Glucocorticoid Receptor Expression in Breast Cancer. Int J Mol Sci 2020 Jun 30;21(13). PMID: 32629782
  • Yang L, Jin M, Park SJ, Seo SY et al. SETD1A Promotes Proliferation of Castration-Resistant Prostate Cancer Cells via FOXM1 Transcription. Cancers (Basel) 2020 Jun 30;12(7). PMID: 32629770
  • Wan C, Wen J, Huang Y, Li H et al. Microarray analysis of differentially expressed microRNAs in myelodysplastic syndromes. Medicine (Baltimore) 2020 Jul 2;99(27):e20904. PMID: 32629683
  • Fu Q, Yu W, Fu S, Chen E et al. Screening and identification of key gene in sepsis development: Evidence from bioinformatics analysis. Medicine (Baltimore) 2020 Jul 2;99(27):e20759. PMID: 32629654
  • Zhu Q, Zhang Q, Gu M, Zhang K et al. MIR106A-5p upregulation suppresses autophagy and accelerates malignant phenotype in nasopharyngeal carcinoma. Autophagy 2021 Jul;17(7):1667-1683. PMID: 32627648
  • Zhang H, Huo J, Jiang W, Shan Q et al. Integrated microarray analysis to identify potential biomarkers and therapeutic targets in dilated cardiomyopathy. Mol Med Rep 2020 Aug;22(2):915-925. PMID: 32626989
  • Li J, Yin X, Zhang B, Li C et al. Bioinformatical Analysis of miRNA-mRNA Interaction Network Underlying Macrophage Aging and Cholesterol-Responsive Difference between Young and Aged Macrophages. Biomed Res Int 2020;2020:9267475. PMID: 32626771
  • Liu B, Xiao Y, Li H, Zhang AL et al. Identification and Verification of Biomarker in Clear Cell Renal Cell Carcinoma via Bioinformatics and Neural Network Model. Biomed Res Int 2020;2020:6954793. PMID: 32626756
  • Liu W, Dong J, Ma S, Liang L et al. A Support Vector Machine Model Predicting the Risk of Duodenal Cancer in Patients with Familial Adenomatous Polyposis at the Transcript Levels. Biomed Res Int 2020;2020:5807295. PMID: 32626748
  • He Y, Liu XY, Gong R, Peng KW et al. NK homeobox 2.2 functions as tumor suppressor in colorectal cancer due to DNA methylation. J Cancer 2020;11(16):4791-4800. PMID: 32626526
  • Ivanov S, Lagunin A, Filimonov D, Tarasova O et al. Network-Based Analysis of OMICs Data to Understand the HIV-Host Interaction. Front Microbiol 2020;11:1314. PMID: 32625189
  • Cai Z, Wei Y, Chen S, Gong Y et al. Screening and identification of key biomarkers in alimentary tract cancers: A bioinformatic analysis. Cancer Biomark 2020;29(2):221-233. PMID: 32623389
  • Peng P, Zhang B, Huang J, Xing C et al. Identification of a circRNA-miRNA-mRNA network to explore the effects of circRNAs on pathogenesis and treatment of spinal cord injury. Life Sci 2020 Sep 15;257:118039. PMID: 32621925
  • Amante SM, Montibus B, Cowley M, Barkas N et al. Transcription of intragenic CpG islands influences spatiotemporal host gene pre-mRNA processing. Nucleic Acids Res 2020 Sep 4;48(15):8349-8359. PMID: 32621610
  • Gerbracht JV, Boehm V, Britto-Borges T, Kallabis S et al. CASC3 promotes transcriptome-wide activation of nonsense-mediated decay by the exon junction complex. Nucleic Acids Res 2020 Sep 4;48(15):8626-8644. PMID: 32621609
  • Conte M, Fiorillo L, Bianco S, Chiariello AM et al. Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation. Nat Commun 2020 Jul 3;11(1):3289. PMID: 32620890
  • Ray TA, Cochran K, Kozlowski C, Wang J et al. Comprehensive identification of mRNA isoforms reveals the diversity of neural cell-surface molecules with roles in retinal development and disease. Nat Commun 2020 Jul 3;11(1):3328. PMID: 32620864
  • Ben-Hamo R, Jacob Berger A, Gavert N, Miller M et al. Predicting and affecting response to cancer therapy based on pathway-level biomarkers. Nat Commun 2020 Jul 3;11(1):3296. PMID: 32620799
  • Sun Y, Eshov A, Zhou J, Isiktas AU et al. C9orf72 arginine-rich dipeptide repeats inhibit UPF1-mediated RNA decay via translational repression. Nat Commun 2020 Jul 3;11(1):3354. PMID: 32620797
  • Barbier-Torres L, Fortner KA, Iruzubieta P, Delgado TC et al. Silencing hepatic MCJ attenuates non-alcoholic fatty liver disease (NAFLD) by increasing mitochondrial fatty acid oxidation. Nat Commun 2020 Jul 3;11(1):3360. PMID: 32620763
  • Xu Y, Yu T, He L, Ouyang L et al. Inhibition of miRNA-152-3p enhances diabetic wound repair via upregulation of PTEN. Aging (Albany NY) 2020 Jul 3;12(14):14978-14989. PMID: 32620711
  • Townes FW, Irizarry RA et al. Quantile normalization of single-cell RNA-seq read counts without unique molecular identifiers. Genome Biol 2020 Jul 3;21(1):160. PMID: 32620142
  • Ji Z, Zhou W, Hou W, Ji H et al. Single-cell ATAC-seq signal extraction and enhancement with SCATE. Genome Biol 2020 Jul 3;21(1):161. PMID: 32620137
  • Kaukonen D, Kaukonen R, Polit L, Hennessy BT et al. Analysis of H3K4me3 and H3K27me3 bivalent promotors in HER2+ breast cancer cell lines reveals variations depending on estrogen receptor status and significantly correlates with gene expression. BMC Med Genomics 2020 Jul 3;13(1):92. PMID: 32620123
  • Zhuang H, Chen Y, Sheng X, Hong L et al. Searching for a signature involving 10 genes to predict the survival of patients with acute myelocytic leukemia through a combined multi-omics analysis. PeerJ 2020;8:e9437. PMID: 32617195
  • Zou R, Zheng M, Tan M, Xu H et al. Decreased PTGDS Expression Predicting Poor Survival of Endometrial Cancer by Integrating Weighted Gene Co-Expression Network Analysis and Immunohistochemical Validation. Cancer Manag Res 2020;12:5057-5075. PMID: 32617019
  • Poudel S, Tsunemoto H, Seif Y, Sastry AV et al. Revealing 29 sets of independently modulated genes in Staphylococcus aureus, their regulators, and role in key physiological response. Proc Natl Acad Sci U S A 2020 Jul 21;117(29):17228-17239. PMID: 32616573
  • Ramaker RC, Hardigan AA, Goh ST, Partridge EC et al. Dissecting the regulatory activity and sequence content of loci with exceptional numbers of transcription factor associations. Genome Res 2020 Jul;30(7):939-950. PMID: 32616518
  • Jiang Y, Huang J, Lun K, Li B et al. Genome-wide analyses of chromatin interactions after the loss of Pol I, Pol II, and Pol III. Genome Biol 2020 Jul 2;21(1):158. PMID: 32616013
  • Padidar K, Vahidi E, Sabbaghian M, Behmanesh A et al. Identification of miRNAs and the target genes related to male infertility and smoking using bioinformatics approaches. Hum Fertil (Camb) 2022 Apr;25(2):291-300. PMID: 32614269
  • Salazar-Roa M, Trakala M, Álvarez-Fernández M, Valdés-Mora F et al. Transient exposure to miR-203 enhances the differentiation capacity of established pluripotent stem cells. EMBO J 2020 Aug 17;39(16):e104324. PMID: 32614092
  • Gong J, Jie Y, Xiao C, Zhou W et al. Increased Expression of Fibulin-1 Is Associated With Hepatocellular Carcinoma Progression by Regulating the Notch Signaling Pathway. Front Cell Dev Biol 2020;8:478. PMID: 32612994
  • Sahaf Naeini A, Farooq A, Bjørås M, Wang J et al. IGAP-integrative genome analysis pipeline reveals new gene regulatory model associated with nonspecific TF-DNA binding affinity. Comput Struct Biotechnol J 2020;18:1270-1286. PMID: 32612751
  • Li S, Zhao W, Sun M et al. An Analysis Regarding the Association Between the ISLR Gene and Gastric Carcinogenesis. Front Genet 2020;11:620. PMID: 32612640
  • Wang T, Wang ZY, Zeng LY, Gao YZ et al. Down-Regulation of Ribosomal Protein RPS21 Inhibits Invasive Behavior of Osteosarcoma Cells Through the Inactivation of MAPK Pathway. Cancer Manag Res 2020;12:4949-4955. PMID: 32612383
  • Song F, Chan GMA, Wei Y et al. Flexible experimental designs for valid single-cell RNA-sequencing experiments allowing batch effects correction. Nat Commun 2020 Jul 1;11(1):3274. PMID: 32612268
  • Hou P, Yang K, Jia P, Liu L et al. A novel selective autophagy receptor, CCDC50, delivers K63 polyubiquitination-activated RIG-I/MDA5 for degradation during viral infection. Cell Res 2021 Jan;31(1):62-79. PMID: 32612200
  • Stokes ME, Small JC, Vasciaveo A, Shimada K et al. Mesenchymal subtype neuroblastomas are addicted to TGF-βR2/HMGCR-driven protein geranylgeranylation. Sci Rep 2020 Jul 1;10(1):10748. PMID: 32612149
  • Kwak MS, Lee HH, Cha JM, Shin HP et al. Novel candidate drugs in anti-tumor necrosis factor refractory Crohn's diseases: in silico study for drug repositioning. Sci Rep 2020 Jul 1;10(1):10708. PMID: 32612148
  • Canu G, Athanasiadis E, Grandy RA, Garcia-Bernardo J et al. Analysis of endothelial-to-haematopoietic transition at the single cell level identifies cell cycle regulation as a driver of differentiation. Genome Biol 2020 Jul 1;21(1):157. PMID: 32611441
  • Chen Q, Rehman J, Chan M, Fu P et al. Angiocrine Sphingosine-1-Phosphate Activation of S1PR2-YAP Signaling Axis in Alveolar Type II Cells Is Essential for Lung Repair. Cell Rep 2020 Jun 30;31(13):107828. PMID: 32610129
  • Alam Z, Devalaraja S, Li M, To TKJ et al. Counter Regulation of Spic by NF-κB and STAT Signaling Controls Inflammation and Iron Metabolism in Macrophages. Cell Rep 2020 Jun 30;31(13):107825. PMID: 32610126
  • Hinch AG, Becker PW, Li T, Moralli D et al. The Configuration of RPA, RAD51, and DMC1 Binding in Meiosis Reveals the Nature of Critical Recombination Intermediates. Mol Cell 2020 Aug 20;79(4):689-701.e10. PMID: 32610038
  • Fang R, Yang H, Gao Y, Cao H et al. Gene-based mediation analysis in epigenetic studies. Brief Bioinform 2021 May 20;22(3). PMID: 32608480
  • Pathak RK, Baunthiyal M, Pandey D, Kumar A et al. Computational analysis of microarray data of Arabidopsis thaliana challenged with Alternaria brassicicola for identification of key genes in Brassica. J Genet Eng Biotechnol 2020 Jul 1;18(1):17. PMID: 32607787
  • Qi X, Qi C, Kang X, Hu Y et al. Identification of candidate genes and prognostic value analysis in patients with PDL1-positive and PDL1-negative lung adenocarcinoma. PeerJ 2020;8:e9362. PMID: 32607285
  • Wang X, Lin FK, Li JR, Wang HS et al. A Comprehensive Risk Assessment Model for Ovarian Cancer Patients with Phospho-STAT3 and IL-31 as Immune Infiltration Relevant Genes. Onco Targets Ther 2020;13:5617-5628. PMID: 32606776
  • Lv Q, Liu Y, Huang H, Zhu M et al. Identification of Potential Key Genes and Pathways for Inflammatory Breast Cancer Based on GEO and TCGA Databases. Onco Targets Ther 2020;13:5541-5550. PMID: 32606769
  • Tian C, Zeng S, Luo J et al. MCTS1 Directly Binds to TWF1 and Synergistically Modulate Cyclin D1 and C-Myc Translation in Luminal A/B Breast Cancer Cells. Onco Targets Ther 2020;13:5353-5361. PMID: 32606753
  • Zhang Y, Zhang Z, Yi Y, Wang Y et al. CircNOL10 Acts as a Sponge of miR-135a/b-5p in Suppressing Colorectal Cancer Progression via Regulating KLF9. Onco Targets Ther 2020;13:5165-5176. PMID: 32606737
  • Yang K, Du J, Shi D, Ji F et al. Knockdown of MSI2 inhibits metastasis by interacting with caveolin-1 and inhibiting its ubiquitylation in human NF1-MPNST cells. Cell Death Dis 2020 Jun 30;11(6):489. PMID: 32606289
  • Boesch M, Baty F, Brutsche MH, Tamm M et al. Transcriptomic profiling reveals disease-specific characteristics of epithelial cells in idiopathic pulmonary fibrosis. Respir Res 2020 Jun 30;21(1):165. PMID: 32605572
  • Ikram M, Han X, Zuo JF, Song J et al. Identification of QTNs and Their Candidate Genes for 100-Seed Weight in Soybean (Glycine max L.) Using Multi-Locus Genome-Wide Association Studies. Genes (Basel) 2020 Jun 27;11(7). PMID: 32604988
  • Milbeck SM, Bhattacharya SK et al. Alteration in Lysophospholipids and Converting Enzymes in Glaucomatous Optic Nerves. Invest Ophthalmol Vis Sci 2020 Jun 3;61(6):60. PMID: 32602905
  • Yang Y, Yao S, Ding JM, Chen W et al. Enhancer-Gene Interaction Analyses Identified the Epidermal Growth Factor Receptor as a Susceptibility Gene for Type 2 Diabetes Mellitus. Diabetes Metab J 2021 Mar;45(2):241-250. PMID: 32602275
  • Ma Y, Gross AM, Dombi E, Pemov A et al. A molecular basis for neurofibroma-associated skeletal manifestations in NF1. Genet Med 2020 Nov;22(11):1786-1793. PMID: 32601387
  • Núñez-Olvera SI, Chávez-Munguía B, Del Rocío Terrones-Gurrola MC, Marchat LA et al. A novel protective role for microRNA-3135b in Golgi apparatus fragmentation induced by chemotherapy via GOLPH3/AKT1/mTOR axis in colorectal cancer cells. Sci Rep 2020 Jun 29;10(1):10555. PMID: 32601379
  • Burton A, Brochard V, Galan C, Ruiz-Morales ER et al. Heterochromatin establishment during early mammalian development is regulated by pericentromeric RNA and characterized by non-repressive H3K9me3. Nat Cell Biol 2020 Jul;22(7):767-778. PMID: 32601371
  • Kaspi A, Ziemann M et al. mitch: multi-contrast pathway enrichment for multi-omics and single-cell profiling data. BMC Genomics 2020 Jun 29;21(1):447. PMID: 32600408
  • Chen X, Zhang B, Wang T, Bonni A et al. Robust principal component analysis for accurate outlier sample detection in RNA-Seq data. BMC Bioinformatics 2020 Jun 29;21(1):269. PMID: 32600248
  • von Eyben FE, Parraga-Alava J et al. Meta-Analysis of Gene Expressions in Testicular Germ Cell Tumor Histologies. Int J Mol Sci 2020 Jun 24;21(12). PMID: 32599785
  • Mo XB, Sun YH, Zhang YH, Lei SF et al. Integrative analysis highlighted susceptibility genes for rheumatoid arthritis. Int Immunopharmacol 2020 Sep;86:106716. PMID: 32599322
  • Chen SW, Lu HP, Chen G, Yang J et al. Downregulation of miRNA-126-3p is associated with progression of and poor prognosis for lung squamous cell carcinoma. FEBS Open Bio 2020 Aug;10(8):1624-1641. PMID: 32598517
  • Christophorou N, She W, Long J, Hurel A et al. AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization. PLoS Genet 2020 Jun;16(6):e1008894. PMID: 32598340
  • Wang M, Shi Y, Yao L, Li Q et al. Potential Molecular Mechanisms and Drugs for Aconitine-Induced Cardiotoxicity in Zebrafish through RNA Sequencing and Bioinformatics Analysis. Med Sci Monit 2020 Jun 29;26:e924092. PMID: 32598336
  • Wu J, Lv Q, Huang H, Zhu M et al. Screening and Identification of Key Biomarkers in Inflammatory Breast Cancer Through Integrated Bioinformatic Analyses. Genet Test Mol Biomarkers 2020 Aug;24(8):484-491. PMID: 32598242
  • Du Y, Zhao E, Zhang Y et al. Identification of feature autophagy-related genes in patients with acute myocardial infarction based on bioinformatics analyses. Biosci Rep 2020 Jul 31;40(7). PMID: 32597946
  • Bulek K, Zhao J, Liao Y, Rana N et al. Epithelial-derived gasdermin D mediates nonlytic IL-1β release during experimental colitis. J Clin Invest 2020 Aug 3;130(8):4218-4234. PMID: 32597834
  • Tallon J, Browning B, Couenne F, Bordes C et al. Dynamical modeling of pro- and anti-inflammatory cytokines in the early stage of septic shock. In Silico Biol 2020;14(1-2):101-121. PMID: 32597796
  • Li X, Kim SE, Chen TY, Wang J et al. Toll interacting protein protects bronchial epithelial cells from bleomycin-induced apoptosis. FASEB J 2020 Aug;34(8):9884-9898. PMID: 32596871
  • Chen D, Mao Y, Ding Q, Wang W et al. Prognostic implications of programmed death ligand 1 expression in resected lung adenocarcinoma: a systematic review and meta-analysis. Eur J Cardiothorac Surg 2020 Nov 1;58(5):888-898. PMID: 32596715
  • Stonawski V, Roetner J, Goecke TW, Fasching PA et al. Genome-Wide DNA Methylation Patterns in Children Exposed to Nonpharmacologically Treated Prenatal Depressive Symptoms: Results From 2 Independent Cohorts. Epigenet Insights 2020;13:2516865720932146. PMID: 32596638
  • Pyle MP, Hoa M et al. Applications of single-cell sequencing for the field of otolaryngology: A contemporary review. Laryngoscope Investig Otolaryngol 2020 Jun;5(3):404-431. PMID: 32596483
  • Han J, An O, Hong H, Chan THM et al. Suppression of adenosine-to-inosine (A-to-I) RNA editome by death associated protein 3 (DAP3) promotes cancer progression. Sci Adv 2020 Jun;6(25):eaba5136. PMID: 32596459
  • Ochiai H, Hayashi T, Umeda M, Yoshimura M et al. Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells. Sci Adv 2020 Jun;6(25):eaaz6699. PMID: 32596448
  • Rosikiewicz W, Chen X, Dominguez PM, Ghamlouch H et al. TET2 deficiency reprograms the germinal center B cell epigenome and silences genes linked to lymphomagenesis. Sci Adv 2020 Jun;6(25):eaay5872. PMID: 32596441
  • Yang F, Chen Y, Xue Z, Lv Y et al. High-Throughput Sequencing and Exploration of the lncRNA-circRNA-miRNA-mRNA Network in Type 2 Diabetes Mellitus. Biomed Res Int 2020;2020:8162524. PMID: 32596376
  • Liang C, Sun R, Xu Y, Geng W et al. Effect of the Abnormal Expression of BMP-4 in the Blood of Diabetic Patients on the Osteogenic Differentiation Potential of Alveolar BMSCs and the Rescue Effect of Metformin: A Bioinformatics-Based Study. Biomed Res Int 2020;2020:7626215. PMID: 32596370
  • Xu X, Xu L, Huang H, Li J et al. Identification of Hub Genes as Biomarkers Correlated with the Proliferation and Prognosis in Lung Cancer: A Weighted Gene Co-Expression Network Analysis. Biomed Res Int 2020;2020:3416807. PMID: 32596300
  • Wu G, Deng Z, Jin Z, Wang J et al. Identification of Prognostic Immune-Related Genes in Pancreatic Adenocarcinoma and Establishment of a Prognostic Nomogram: A Bioinformatic Study. Biomed Res Int 2020;2020:1346045. PMID: 32596278
  • Zhao B, Xu Y, Zhao Y, Shen S et al. Identification of Potential Key Genes Associated With the Pathogenesis, Metastasis, and Prognosis of Triple-Negative Breast Cancer on the Basis of Integrated Bioinformatics Analysis. Front Oncol 2020;10:856. PMID: 32596149
  • Giansanti V, Tang M, Cittaro D et al. Fast analysis of scATAC-seq data using a predefined set of genomic regions. F1000Res 2020;9:199. PMID: 32595951
  • Yang CL, Serra-Roma A, Gualandi M, Bodmer N et al. Lineage-restricted sympathoadrenal progenitors confer neuroblastoma origin and its tumorigenicity. Oncotarget 2020 Jun 16;11(24):2357-2371. PMID: 32595833
  • You G, Zu B, Wang B, Fu Q et al. Identification of miRNA-mRNA-TFs Regulatory Network and Crucial Pathways Involved in Tetralogy of Fallot. Front Genet 2020;11:552. PMID: 32595699
  • Guo Z, Huang J, Wang Y, Liu XP et al. Analysis of Expression and Its Clinical Significance of the Secreted Phosphoprotein 1 in Lung Adenocarcinoma. Front Genet 2020;11:547. PMID: 32595698
  • Chen J, Cai Y, Xu R, Pan J et al. Identification of four hub genes as promising biomarkers to evaluate the prognosis of ovarian cancer in silico. Cancer Cell Int 2020;20:270. PMID: 32595417
  • Kaseniit KE, Haque IS, Goldberg JD, Shulman LP et al. Genetic ancestry analysis on >93,000 individuals undergoing expanded carrier screening reveals limitations of ethnicity-based medical guidelines. Genet Med 2020 Oct;22(10):1694-1702. PMID: 32595206
  • Dai W, Sun Y, Jiang Z, Du K et al. Key genes associated with non-alcoholic fatty liver disease and acute myocardial infarction. Med Sci Monit 2020 Jun 28;26:e922492. PMID: 32594092
  • Tang YL, Fang LJ, Zhong LY, Jiang J et al. Hub genes and key pathways of traumatic brain injury: bioinformatics analysis and in vivo validation. Neural Regen Res 2020 Dec;15(12):2262-2269. PMID: 32594047
  • Wang H, Wang X, Xu L, Zhang J et al. Prognostic significance of MYCN related genes in pediatric neuroblastoma: a study based on TARGET and GEO datasets. BMC Pediatr 2020 Jun 27;20(1):314. PMID: 32593299
  • Sun S, Guo W, Wang Z, Wang X et al. Development and validation of an immune-related prognostic signature in lung adenocarcinoma. Cancer Med 2020 Aug;9(16):5960-5975. PMID: 32592319
  • Zhang J, Cai R, Zhang Y, Wang X et al. Involvement of a novel circularRNA, hsa_circ_0000520, attenuates tumorigenesis of cervical cancer cell through competitively binding with miR-146b-3p. J Cell Mol Med 2020 Aug;24(15):8480-8490. PMID: 32592222
  • Yang Y, Li G, Qian H, Wilhelmsen KC et al. SMNN: batch effect correction for single-cell RNA-seq data via supervised mutual nearest neighbor detection. Brief Bioinform 2021 May 20;22(3). PMID: 32591778
  • Lenz M, Arts ICW, Peeters RLM, de Kok TM et al. Adipose tissue in health and disease through the lens of its building blocks. Sci Rep 2020 Jun 26;10(1):10433. PMID: 32591560
  • Guo Y, Ye Q, Deng P, Cao Y et al. Spermine synthase and MYC cooperate to maintain colorectal cancer cell survival by repressing Bim expression. Nat Commun 2020 Jun 26;11(1):3243. PMID: 32591507
  • Wu X, Wu Y, Ye B, Wu F et al. High expression of ghrelin and obestatin prepropeptide in tumor tissues predicted adverse overall survival in gastric carcinoma patients. Medicine (Baltimore) 2020 Jun 26;99(26):e20635. PMID: 32590738
  • Cava C, Pini S, Taramelli D, Castiglioni I et al. Perturbations of pathway co-expression network identify a core network in metastatic breast cancer. Comput Biol Chem 2020 Jun 20;87:107313. PMID: 32590221
  • Kudo Y, Sugimoto M, Arias E, Kasashima H et al. PKCλ/ι Loss Induces Autophagy, Oxidative Phosphorylation, and NRF2 to Promote Liver Cancer Progression. Cancer Cell 2020 Aug 10;38(2):247-262.e11. PMID: 32589943
  • Tsoukas P, Rapp E, Van Der Kraak L, Weiss ES et al. Interleukin-18 and cytotoxic impairment are independent and synergistic causes of murine virus-induced hyperinflammation. Blood 2020 Nov 5;136(19):2162-2174. PMID: 32589707
  • Du G, Geng D, Zhou K, Fan Y et al. Identification of potential key pathways, genes and circulating markers in the development of intracranial aneurysm based on weighted gene co-expression network analysis. Artif Cells Nanomed Biotechnol 2020 Dec;48(1):999-1007. PMID: 32589050
  • Louisse J, Rijkers D, Stoopen G, Janssen A et al. Perfluorooctanoic acid (PFOA), perfluorooctane sulfonic acid (PFOS), and perfluorononanoic acid (PFNA) increase triglyceride levels and decrease cholesterogenic gene expression in human HepaRG liver cells. Arch Toxicol 2020 Sep;94(9):3137-3155. PMID: 32588087
  • Li W, Chen QF, Huang T, Wu P et al. Identification and Validation of a Prognostic lncRNA Signature for Hepatocellular Carcinoma. Front Oncol 2020;10:780. PMID: 32587825
  • Jin D, Jiao Y, Ji J, Jiang W et al. Identification of prognostic risk factors for pancreatic cancer using bioinformatics analysis. PeerJ 2020;8:e9301. PMID: 32587798
  • Gao XZ, Ma RH, Zhang ZX et al. miR-339 Promotes Hypoxia-Induced Neuronal Apoptosis and Impairs Cell Viability by Targeting FGF9/CACNG2 and Mediating MAPK Pathway in Ischemic Stroke. Front Neurol 2020;11:436. PMID: 32587563
  • Yamashita T, Higashi M, Momose S, Adachi A et al. Decreased MYC-associated factor X (MAX) expression is a new potential biomarker for adverse prognosis in anaplastic large cell lymphoma. Sci Rep 2020 Jun 25;10(1):10391. PMID: 32587329
  • Wang Y, Chen S, Jiang Q, Deng J et al. TFAP2C facilitates somatic cell reprogramming by inhibiting c-Myc-dependent apoptosis and promoting mesenchymal-to-epithelial transition. Cell Death Dis 2020 Jun 25;11(6):482. PMID: 32587258
  • England AR, Chaney CP, Das A, Patel M et al. Identification and characterization of cellular heterogeneity within the developing renal interstitium. Development 2020 Aug 14;147(15). PMID: 32586976
  • Hoffmann F, Zarbl R, Niebel D, Sirokay J et al. Prognostic and predictive value of PD-L2 DNA methylation and mRNA expression in melanoma. Clin Epigenetics 2020 Jun 26;12(1):94. PMID: 32586358
  • Dietinger V, García de Durango CR, Wiechmann S, Boos SL et al. Wnt-driven LARGE2 mediates laminin-adhesive O-glycosylation in human colonic epithelial cells and colorectal cancer. Cell Commun Signal 2020 Jun 25;18(1):102. PMID: 32586342
  • Zhang Y, Xia S, Wang T, Wang S et al. Chi-miR-30b-5p inhibits dermal papilla cells proliferation by targeting CaMKIIδ gene in cashmere goat. BMC Genomics 2020 Jun 26;21(1):430. PMID: 32586272
  • Dudek M, Dieudonné A, Jouanneau D, Rochat T et al. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Nucleic Acids Res 2020 Aug 20;48(14):7786-7800. PMID: 32585009
  • Shukla R, Mjoseng HK, Thomson JP, Kling S et al. Activation of transcription factor circuity in 2i-induced ground state pluripotency is independent of repressive global epigenetic landscapes. Nucleic Acids Res 2020 Aug 20;48(14):7748-7766. PMID: 32585002
  • Zhou X, Fan Y, Ye W, Jia B et al. Identification of the Novel Target Genes for Osteosarcoma Therapy Based on Comprehensive Bioinformatic Analysis. DNA Cell Biol 2020 Jul;39(7):1172-1180. PMID: 32584170
  • Wei Z, Chen L, Meng L, Han W et al. LncRNA HOTAIR promotes the growth and metastasis of gastric cancer by sponging miR-1277-5p and upregulating COL5A1. Gastric Cancer 2020 Nov;23(6):1018-1032. PMID: 32583079
  • Li C, Li X, Li G, Sun L et al. Identification of a prognosis‑associated signature associated with energy metabolism in triple‑negative breast cancer. Oncol Rep 2020 Sep;44(3):819-837. PMID: 32582991
  • Toms D, Al-Ani A, Sunba S, Tong QYV et al. Automated Hypothesis Generation to Identify Signals Relevant in the Development of Mammalian Cell and Tissue Bioprocesses, With Validation in a Retinal Culture System. Front Bioeng Biotechnol 2020;8:534. PMID: 32582664
  • Kwiatkowska KM, Bacalini MG, Sala C, Kaziyama H et al. Analysis of Epigenetic Age Predictors in Pain-Related Conditions. Front Public Health 2020;8:172. PMID: 32582603
  • Meng Q, Zhang Y, Hu LG et al. Targeting Autophagy Facilitates T Lymphocyte Migration by Inducing the Expression of CXCL10 in Gastric Cancer Cell Lines. Front Oncol 2020;10:886. PMID: 32582551
  • Mossel DM, Moganti K, Riabov V, Weiss C et al. Epigenetic Regulation of S100A9 and S100A12 Expression in Monocyte-Macrophage System in Hyperglycemic Conditions. Front Immunol 2020;11:1071. PMID: 32582175
  • Tao J, Wang Y, Li L, Zheng J et al. Critical Roles of ELVOL4 and IL-33 in the Progression of Obesity-Related Cardiomyopathy via Integrated Bioinformatics Analysis. Front Physiol 2020;11:542. PMID: 32581837
  • Li M, Chen F, Zhang Y, Xiong Y et al. Identification of Post-myocardial Infarction Blood Expression Signatures Using Multiple Feature Selection Strategies. Front Physiol 2020;11:483. PMID: 32581823
  • Roy N, Raj U, Rai S, Varadwaj PK et al. Deciphering the Novel Target Genes Involved in the Epigenetics of Hepatocellular Carcinoma Using Graph Theory Approach. Curr Genomics 2019 Dec;20(8):545-555. PMID: 32581643
  • Jiang J, Guo Z, Xu J, Sun T et al. Identification of Aurora Kinase A as a Biomarker for Prognosis in Obesity Patients with Early Breast Cancer. Onco Targets Ther 2020;13:4971-4985. PMID: 32581556
  • Aitken SJ, Anderson CJ, Connor F, Pich O et al. Pervasive lesion segregation shapes cancer genome evolution. Nature 2020 Jul;583(7815):265-270. PMID: 32581361
  • Yagi M, Kabata M, Tanaka A, Ukai T et al. Identification of distinct loci for de novo DNA methylation by DNMT3A and DNMT3B during mammalian development. Nat Commun 2020 Jun 24;11(1):3199. PMID: 32581223
  • Han Y, Franzen J, Stiehl T, Gobs M et al. New targeted approaches for epigenetic age predictions. BMC Biol 2020 Jun 24;18(1):71. PMID: 32580727
  • Philibert R, Beach SRH, Lei MK, Gibbons FX et al. Array-Based Epigenetic Aging Indices May Be Racially Biased. Genes (Basel) 2020 Jun 22;11(6). PMID: 32580526
  • Zhang H, Zhang J, Li C, Xu H et al. Survival Association and Cell Cycle Effects of B7H3 in Neuroblastoma. J Korean Neurosurg Soc 2020 Nov;63(6):707-716. PMID: 32580265
  • Liu M, An H, Zhang Y, Sun W et al. Molecular analysis of Chinese oesophageal squamous cell carcinoma identifies novel subtypes associated with distinct clinical outcomes. EBioMedicine 2020 Jul;57:102831. PMID: 32580137
  • Xi XJ, Tang JH, Zhang BB, Xiao X et al. Dlg4 and Vamp2 are involved in comorbid epilepsy and attention-deficit hyperactivity disorder: A microarray data study. Epilepsy Behav 2020 Sep;110:107192. PMID: 32580088
  • Cheng Y, Liao S, Xu G, Hu J et al. NeuroD1 Dictates Tumor Cell Differentiation in Medulloblastoma. Cell Rep 2020 Jun 23;31(12):107782. PMID: 32579914
  • Zhao M, Kiernan CH, Stairiker CJ, Hope JL et al. Rapid in vitro generation of bona fide exhausted CD8+ T cells is accompanied by Tcf7 promotor methylation. PLoS Pathog 2020 Jun;16(6):e1008555. PMID: 32579593
  • Kao CY, Xu M, Wang L, Lin SC et al. Elevated COUP-TFII expression in dopaminergic neurons accelerates the progression of Parkinson's disease through mitochondrial dysfunction. PLoS Genet 2020 Jun;16(6):e1008868. PMID: 32579581
  • Joshi SR, Jagtap S, Basu B, Deobagkar DD et al. Construction, analysis and validation of co-expression network to understand stress adaptation in Deinococcus radiodurans R1. PLoS One 2020;15(6):e0234721. PMID: 32579573
  • Li J, Liu X, Cui Z, Han G et al. Comprehensive Analysis of Candidate Diagnostic and Prognostic Biomarkers Associated with Lung Adenocarcinoma. Med Sci Monit 2020 Jun 24;26:e922070. PMID: 32578582
  • Li D, Halitschke R, Baldwin IT, Gaquerel E et al. Information theory tests critical predictions of plant defense theory for specialized metabolism. Sci Adv 2020 Jun;6(24):eaaz0381. PMID: 32577508
  • Tousignant KD, Rockstroh A, Poad BLJ, Talebi A et al. Therapy-induced lipid uptake and remodeling underpin ferroptosis hypersensitivity in prostate cancer. Cancer Metab 2020;8:11. PMID: 32577235
  • Hanif A, Lee S, Gupta M, Chander A et al. Exploring the role of survivin in neuroendocrine neoplasms. Oncotarget 2020 Jun 9;11(23):2246-2258. PMID: 32577168
  • Tal MC, Torrez Dulgeroff LB, Myers L, Cham LB et al. Upregulation of CD47 Is a Host Checkpoint Response to Pathogen Recognition. mBio 2020 Jun 23;11(3). PMID: 32576678
  • Maleknia S, Salehi Z, Rezaei Tabar V, Sharifi-Zarchi A et al. An integrative Bayesian network approach to highlight key drivers in systemic lupus erythematosus. Arthritis Res Ther 2020 Jun 23;22(1):156. PMID: 32576231
  • Saha SK, Jeon TI, Jang SB, Kim SJ et al. Bioinformatics Approach for Identifying Novel Biomarkers and Their Signaling Pathways Involved in Interstitial Cystitis/Bladder Pain Syndrome with Hunner Lesion. J Clin Med 2020 Jun 21;9(6). PMID: 32575815
  • Guglielmi L, Nardella M, Musa C, Cifola I et al. Circulating miRNAs in Small Extracellular Vesicles Secreted by a Human Melanoma Xenograft in Mouse Brains. Cancers (Basel) 2020 Jun 19;12(6). PMID: 32575666
  • Mirza Z, Abdel-Dayem UA et al. Uncovering Potential Roles of Differentially Expressed Genes, Upstream Regulators, and Canonical Pathways in Endometriosis Using an In Silico Genomics Approach. Diagnostics (Basel) 2020 Jun 19;10(6). PMID: 32575462
  • Xie K, Kong S, Li F, Zhang Y et al. Bioinformatics-Based Study to Investigate Potential Differentially Expressed Genes and miRNAs in Pediatric Sepsis. Med Sci Monit 2020 Jun 23;26:e923881. PMID: 32575108
  • Xu F, Ashbrook DG, Gao J, Starlard-Davenport A et al. Genome-wide transcriptome architecture in a mouse model of Gulf War Illness. Brain Behav Immun 2020 Oct;89:209-223. PMID: 32574576
  • McKinsey GL, Lizama CO, Keown-Lang AE, Niu A et al. A new genetic strategy for targeting microglia in development and disease. Elife 2020 Jun 23;9. PMID: 32573436
  • Zavortink M, Rutt LN, Dzitoyeva S, Henriksen JC et al. The E2 Marie Kondo and the CTLH E3 ligase clear deposited RNA binding proteins during the maternal-to-zygotic transition. Elife 2020 Jun 23;9. PMID: 32573431
  • Tanaka H, Igata T, Etoh K, Koga T et al. The NSD2/WHSC1/MMSET methyltransferase prevents cellular senescence-associated epigenomic remodeling. Aging Cell 2020 Jul;19(7):e13173. PMID: 32573059
  • Fu T, Ji K, Jin L, Zhang J et al. ASB16-AS1 up-regulated and phosphorylated TRIM37 to activate NF-κB pathway and promote proliferation, stemness, and cisplatin resistance of gastric cancer. Gastric Cancer 2021 Jan;24(1):45-59. PMID: 32572790
  • Nuzzo PV, Berchuck JE, Korthauer K, Spisak S et al. Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes. Nat Med 2020 Jul;26(7):1041-1043. PMID: 32572266
  • Nassiri F, Chakravarthy A, Feng S, Shen SY et al. Detection and discrimination of intracranial tumors using plasma cell-free DNA methylomes. Nat Med 2020 Jul;26(7):1044-1047. PMID: 32572265
  • Lee H, Lee HY, Lee BE, Gerovska D et al. Sequentially induced motor neurons from human fibroblasts facilitate locomotor recovery in a rodent spinal cord injury model. Elife 2020 Jun 23;9. PMID: 32571478
  • Duan ZX, Li YS, Tu C, Xie P et al. Identification of a potential gene target for osteoarthritis based on bioinformatics analyses. J Orthop Surg Res 2020 Jun 22;15(1):228. PMID: 32571421
  • Yin J, Zeng X, Ai Z, Yu M et al. Construction and analysis of a lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveal functional lncRNAs in oral cancer. BMC Med Genomics 2020 Jun 22;13(1):84. PMID: 32571304
  • Jensen S, Brasset E, Parey E, Roest Crollius H et al. Conserved Small Nucleotidic Elements at the Origin of Concerted piRNA Biogenesis from Genes and lncRNAs. Cells 2020 Jun 18;9(6). PMID: 32570966
  • Hamar É, Szaker HM, Kis A, Dalmadi Á et al. Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (Hordeum vulgare L.). Biomolecules 2020 Jun 18;10(6). PMID: 32570964
  • Cardoso da Silva R, Villar-Fernández MA, Vader G et al. Active transcription and Orc1 drive chromatin association of the AAA+ ATPase Pch2 during meiotic G2/prophase. PLoS Genet 2020 Jun;16(6):e1008905. PMID: 32569318
  • Liu J, Wu S, Xie X, Wang Z et al. The role of significantly deregulated MicroRNAs in osteosarcoma based on bioinformatic analysis. Technol Health Care 2021;29(2):333-341. PMID: 32568133
  • Okaty BW, Sturrock N, Escobedo Lozoya Y, Chang Y et al. A single-cell transcriptomic and anatomic atlas of mouse dorsal raphe Pet1 neurons. Elife 2020 Jun 22;9. PMID: 32568072
  • Lin Y, Cao Y, Kim HJ, Salim A et al. scClassify: sample size estimation and multiscale classification of cells using single and multiple reference. Mol Syst Biol 2020 Jun;16(6):e9389. PMID: 32567229
  • Zhou J, Xie Z, Cui P, Su Q et al. SLC1A1, SLC16A9, and CNTN3 Are Potential Biomarkers for the Occurrence of Colorectal Cancer. Biomed Res Int 2020;2020:1204605. PMID: 32566650
  • Li JL, Li KZ, Xie MZ, Tang YP et al. Clinical Significance and Prognostic Value of miR-28-5p in Colon Cancer. Dis Markers 2020;2020:3159831. PMID: 32566038
  • Ouyang S, Liu JH, Ni Z, Ding GF et al. Downregulation of ST3GAL5 is associated with muscle invasion, high grade and a poor prognosis in patients with bladder cancer. Oncol Lett 2020 Jul;20(1):828-840. PMID: 32566010
  • Ye Z, Zeng Z, Wang D, Lei S et al. Identification of key genes associated with the progression of intrahepatic cholangiocarcinoma using weighted gene co-expression network analysis. Oncol Lett 2020 Jul;20(1):483-494. PMID: 32565973
  • Li R, Xu F, Wu X, Ji S et al. CUL1-Mediated Organelle Fission Pathway Inhibits the Development of Chronic Obstructive Pulmonary Disease. Comput Math Methods Med 2020;2020:5390107. PMID: 32565880
  • Cao R, Dong Y, Kural KC et al. Integrating Literature-Based Knowledge Database and Expression Data to Explore Molecular Pathways Connecting PPARG and Myocardial Infarction. PPAR Res 2020;2020:1892375. PMID: 32565767
  • Hammouz RY, Kostanek JK, Dudzisz A, Witas P et al. Differential expression of lung adenocarcinoma transcriptome with signature of tobacco exposure. J Appl Genet 2020 Sep;61(3):421-437. PMID: 32564237
  • Delan-Forino C, Spanos C, Rappsilber J, Tollervey D et al. Substrate specificity of the TRAMP nuclear surveillance complexes. Nat Commun 2020 Jun 19;11(1):3122. PMID: 32561742
  • Das D, Das A, Sahu M, Mishra SS et al. Identification and Characterization of Circular Intronic RNAs Derived from Insulin Gene. Int J Mol Sci 2020 Jun 17;21(12). PMID: 32560282
  • Huang SH, Lin YC, Tung CW et al. Identification of Time-Invariant Biomarkers for Non-Genotoxic Hepatocarcinogen Assessment. Int J Environ Res Public Health 2020 Jun 16;17(12). PMID: 32560183
  • Qi X, Shen M, Fan P, Guo X et al. The Performance of Gene Expression Signature-Guided Drug-Disease Association in Different Categories of Drugs and Diseases. Molecules 2020 Jun 16;25(12). PMID: 32560162
  • Lin H, Zhang R, Wu W, Lei L et al. Comprehensive network analysis of the molecular mechanisms associated with sorafenib resistance in hepatocellular carcinoma. Cancer Genet 2020 Jul;245:27-34. PMID: 32559715
  • Ho JSY, Angel M, Ma Y, Sloan E et al. Hybrid Gene Origination Creates Human-Virus Chimeric Proteins during Infection. Cell 2020 Jun 25;181(7):1502-1517.e23. PMID: 32559462
  • Wu W, Chen Y, Yang Z, Zhang F et al. The Role of Gene Expression Changes in ceRNA Network Underlying Ossification of Ligamentum Flavum Development. DNA Cell Biol 2020 Jul;39(7):1162-1171. PMID: 32559389
  • Hou CL, Li B, Cheng YJ, Li M et al. Upregulation of cGMP-dependent Protein Kinase (PRKG1) in the Development of Adolescent Idiopathic Scoliosis. Orthop Surg 2020 Aug;12(4):1261-1269. PMID: 32558266
  • Chen J, Jiang Q, Xia X, Liu K et al. Individual variation of the SARS-CoV-2 receptor ACE2 gene expression and regulation. Aging Cell 2020 Jul;19(7). PMID: 32558150
  • Kim YS, Nam HJ, Han CY, Joo MS et al. Liver X Receptor Alpha Activation Inhibits Autophagy and Lipophagy in Hepatocytes by Dysregulating Autophagy-Related 4B Cysteine Peptidase and Rab-8B, Reducing Mitochondrial Fuel Oxidation. Hepatology 2021 Apr;73(4):1307-1326. PMID: 32557804
  • Schierding W, Farrow S, Fadason T, Graham OEE et al. Common Variants Coregulate Expression of GBA and Modifier Genes to Delay Parkinson's Disease Onset. Mov Disord 2020 Aug;35(8):1346-1356. PMID: 32557794
  • Shi S, Tan Q, Feng F, Huang H et al. Identification of core genes in the progression of endometrial cancer and cancer cell-derived exosomes by an integrative analysis. Sci Rep 2020 Jun 17;10(1):9862. PMID: 32555395
  • Rose IM, Bidarimath M, Webster A, Godwin AK et al. WNT and inflammatory signaling distinguish human Fallopian tube epithelial cell populations. Sci Rep 2020 Jun 17;10(1):9837. PMID: 32555344
  • Bica I, Andrés-Terré H, Cvejic A, Liò P et al. Unsupervised generative and graph representation learning for modelling cell differentiation. Sci Rep 2020 Jun 17;10(1):9790. PMID: 32555334
  • Tarazona S, Balzano-Nogueira L, Gómez-Cabrero D, Schmidt A et al. Harmonization of quality metrics and power calculation in multi-omic studies. Nat Commun 2020 Jun 18;11(1):3092. PMID: 32555183
  • Jiang Y, Rosborough BR, Chen J, Das S et al. Single cell RNA sequencing identifies an early monocyte gene signature in acute respiratory distress syndrome. JCI Insight 2020 Jul 9;5(13). PMID: 32554932
  • Myers KS, Place M, Noguera DR, Donohue TJ et al. COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database. Microbiol Resour Announc 2020 Jun 18;9(25). PMID: 32554783
  • Lee J, Shin JE, Lee B, Kim H et al. The stem cell marker Prom1 promotes axon regeneration by down-regulating cholesterol synthesis via Smad signaling. Proc Natl Acad Sci U S A 2020 Jul 7;117(27):15955-15966. PMID: 32554499
  • Jiang M, Chavarria TE, Yuan B, Lodish HF et al. Phosphocholine accumulation and PHOSPHO1 depletion promote adipose tissue thermogenesis. Proc Natl Acad Sci U S A 2020 Jun 30;117(26):15055-15065. PMID: 32554489
  • Bunina D, Abazova N, Diaz N, Noh KM et al. Genomic Rewiring of SOX2 Chromatin Interaction Network during Differentiation of ESCs to Postmitotic Neurons. Cell Syst 2020 Jun 24;10(6):480-494.e8. PMID: 32553182
  • Lyu G, Li D, Li S et al. Bioinformatics analysis of BBX family genes and its response to UV-B in Arabidopsis thaliana. Plant Signal Behav 2020 Sep 1;15(9):1782647. PMID: 32552524
  • Ma JB, Bai JY, Zhang HB, Gu L et al. Downregulation of Collagen COL4A6 Is Associated with Prostate Cancer Progression and Metastasis. Genet Test Mol Biomarkers 2020 Jul;24(7):399-408. PMID: 32551898
  • Ma Q, Liang M, Limjunyawong N, Dan Y et al. Osteoclast-derived apoptotic bodies show extended biological effects of parental cell in promoting bone defect healing. Theranostics 2020;10(15):6825-6838. PMID: 32550906
  • Andey T, Attah MM, Akwaaba-Reynolds NA, Cheema S et al. Enhanced immortalization, HUWE1 mutations and other biological drivers of breast invasive carcinoma in Black/African American patients. Gene X 2020 Dec;5:100030. PMID: 32550556
  • Sahoo S, Das SS, Rakshit R et al. Codon usage pattern and predicted gene expression in Arabidopsis thaliana. Gene X 2019 Jun;2:100012. PMID: 32550546
  • Liu Z, Jiang J, Dai W, Wei H et al. MicroRNA-674-5p induced by HIF-1α targets XBP-1 in intestinal epithelial cell injury during endotoxemia. Cell Death Discov 2020;6:44. PMID: 32550011
  • Chen Z, Yang X, Bi G, Liang J et al. Ligand-receptor interaction atlas within and between tumor cells and T cells in lung adenocarcinoma. Int J Biol Sci 2020;16(12):2205-2219. PMID: 32549766
  • Yin H, Chu A, Liu S, Yuan Y et al. Identification of DEGs and transcription factors involved in H. pylori-associated inflammation and their relevance with gastric cancer. PeerJ 2020;8:e9223. PMID: 32547867
  • Tamminga M, Hiltermann TJN, Schuuring E, Timens W et al. Immune microenvironment composition in non-small cell lung cancer and its association with survival. Clin Transl Immunology 2020;9(6):e1142. PMID: 32547744
  • Gao Z, Ding R, Zhai X, Wang Y et al. Common Gene Modules Identified for Chicken Adiposity by Network Construction and Comparison. Front Genet 2020;11:537. PMID: 32547600
  • Didelon M, Khafif M, Godiard L, Barbacci A et al. Patterns of Sequence and Expression Diversification Associate Members of the PADRE Gene Family With Response to Fungal Pathogens. Front Genet 2020;11:491. PMID: 32547597
  • Li H, Sharma A, Luo K, Qin ZS et al. DeconPeaker, a Deconvolution Model to Identify Cell Types Based on Chromatin Accessibility in ATAC-Seq Data of Mixture Samples. Front Genet 2020;11:392. PMID: 32547592
  • Oliveira EH, Assis AF, Speck-Hernandez CA, Duarte MJ et al. Aire Gene Influences the Length of the 3' UTR of mRNAs in Medullary Thymic Epithelial Cells. Front Immunol 2020;11:1039. PMID: 32547551
  • Chen S, Chen Y, Zhu Z, Tan H et al. Identification of the key genes and microRNAs in adult acute myeloid leukemia with FLT3 mutation by bioinformatics analysis. Int J Med Sci 2020;17(9):1269-1280. PMID: 32547322
  • Hu SL, Huang CC, Tzeng TT, Liu SC et al. S1P promotes IL-6 expression in osteoblasts through the PI3K, MEK/ERK and NF-κB signaling pathways. Int J Med Sci 2020;17(9):1207-1214. PMID: 32547316
  • Lin Y, Li J, Wu D, Wang F et al. Identification of Hub Genes in Type 2 Diabetes Mellitus Using Bioinformatics Analysis. Diabetes Metab Syndr Obes 2020;13:1793-1801. PMID: 32547141
  • Wu K, Yu Z, Tang Z, Wei W et al. miR-877-5p Suppresses Gastric Cancer Cell Proliferation Through Targeting FOXM1. Onco Targets Ther 2020;13:4731-4742. PMID: 32547102
  • Zhou J, Xu M, Le K, Ming J et al. SRC Promotes Tamoxifen Resistance in Breast Cancer via Up-Regulating SIRT1. Onco Targets Ther 2020;13:4635-4647. PMID: 32547094
  • Ameur LB, Marie P, Thenoz M, Giraud G et al. Intragenic recruitment of NF-κB drives splicing modifications upon activation by the oncogene Tax of HTLV-1. Nat Commun 2020 Jun 16;11(1):3045. PMID: 32546717
  • Han BA, Yang XP, Hosseini DK, Zhang P et al. Identification of candidate aberrantly methylated and differentially expressed genes in Esophageal squamous cell carcinoma. Sci Rep 2020 Jun 16;10(1):9735. PMID: 32546690
  • Zafar H, Lin C, Bar-Joseph Z et al. Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data. Nat Commun 2020 Jun 16;11(1):3055. PMID: 32546686
  • Speranza E, Caballero I, Honko AN, Johnson JC et al. Previremic Identification of Ebola or Marburg Virus Infection Using Integrated Host-Transcriptome and Viral Genome Detection. mBio 2020 Jun 16;11(3). PMID: 32546624
  • Sun Y, Dong L, Zhang Y, Lin D et al. 3D genome architecture coordinates trans and cis regulation of differentially expressed ear and tassel genes in maize. Genome Biol 2020 Jun 16;21(1):143. PMID: 32546248
  • Ahn HS, Kim JH, Jeong H, Yu J et al. Differential Urinary Proteome Analysis for Predicting Prognosis in Type 2 Diabetes Patients with and without Renal Dysfunction. Int J Mol Sci 2020 Jun 14;21(12). PMID: 32545899
  • Torrico B, Antón-Galindo E, Fernàndez-Castillo N, Rojo-Francàs E et al. Involvement of the 14-3-3 Gene Family in Autism Spectrum Disorder and Schizophrenia: Genetics, Transcriptomics and Functional Analyses. J Clin Med 2020 Jun 13;9(6). PMID: 32545830
  • Crossley MP, Bocek MJ, Hamperl S, Swigut T et al. qDRIP: a method to quantitatively assess RNA-DNA hybrid formation genome-wide. Nucleic Acids Res 2020 Aug 20;48(14):e84. PMID: 32544226
  • Liu L, Ding C, Fu T, Feng Z et al. Histone methyltransferase MLL4 controls myofiber identity and muscle performance through MEF2 interaction. J Clin Invest 2020 Sep 1;130(9):4710-4725. PMID: 32544095
  • Hawkins AG, Pedersen EA, Treichel S, Temprine K et al. Wnt/β-catenin-activated Ewing sarcoma cells promote the angiogenic switch. JCI Insight 2020 Jul 9;5(13). PMID: 32544094
  • Mao SQ, Cuesta SM, Tannahill D, Balasubramanian S et al. Genome-wide DNA Methylation Signatures Are Determined by DNMT3A/B Sequence Preferences. Biochemistry 2020 Jul 14;59(27):2541-2550. PMID: 32543182
  • Rutter L, Cook D et al. bigPint: A Bioconductor visualization package that makes big data pint-sized. PLoS Comput Biol 2020 Jun;16(6):e1007912. PMID: 32542031
  • Nguyen TN, Nguyen HQ, Le DH et al. Unveiling prognostics biomarkers of tyrosine metabolism reprogramming in liver cancer by cross-platform gene expression analyses. PLoS One 2020;15(6):e0229276. PMID: 32542016
  • Jørgensen S, Paulsen IW, Hansen JW, Tholstrup D et al. The value of circulating microRNAs for early diagnosis of B-cell lymphoma: A case-control study on historical samples. Sci Rep 2020 Jun 15;10(1):9637. PMID: 32541886
  • Ren X, Zhong G, Zhang Q, Zhang L et al. Reconstruction of cell spatial organization from single-cell RNA sequencing data based on ligand-receptor mediated self-assembly. Cell Res 2020 Sep;30(9):763-778. PMID: 32541867
  • Ng AP, Coughlan HD, Hediyeh-Zadeh S, Behrens K et al. An Erg-driven transcriptional program controls B cell lymphopoiesis. Nat Commun 2020 Jun 15;11(1):3013. PMID: 32541654
  • Jing C, Castro-Dopico T, Richoz N, Tuong ZK et al. Macrophage metabolic reprogramming presents a therapeutic target in lupus nephritis. Proc Natl Acad Sci U S A 2020 Jun 30;117(26):15160-15171. PMID: 32541026
  • Liu L, Wang G, Wang L, Yu C et al. Computational identification and characterization of glioma candidate biomarkers through multi-omics integrative profiling. Biol Direct 2020 Jun 15;15(1):10. PMID: 32539851
  • Chi Q, Geng X, Xu K, Wang C et al. Potential targets and molecular mechanism of miR-331-3p in hepatocellular carcinoma identified by weighted gene coexpression network analysis. Biosci Rep 2020 Jun 26;40(6). PMID: 32537629
  • Wang W, Xiong M, Jiang L, Chen Z et al. MTFR2 Promotes the Proliferation, Migration, and Invasion of Oral Squamous Carcinoma by Switching OXPHOS to Glycolysis. Front Oncol 2020;10:858. PMID: 32537437
  • Xue L, Bi G, Zhan C, Zhang Y et al. Development and Validation of a 12-Gene Immune Relevant Prognostic Signature for Lung Adenocarcinoma Through Machine Learning Strategies. Front Oncol 2020;10:835. PMID: 32537435
  • Li S, Liu H, Bian S, Sha X et al. The accelerated aging model reveals critical mechanisms of late-onset Parkinson's disease. BioData Min 2020;13:4. PMID: 32536974
  • Zhou C, Lei L, Ji MH, Yang JJ et al. The prognostic significance of CLEC-2-related gene signal in lung adenocarcinoma: A multicenter development and validation cohort. Clin Transl Med 2020 Jun;10(2):e100. PMID: 32535970
  • Guo Y, Huang P, Ning W, Zhang H et al. Identification of Core Genes and Pathways in Medulloblastoma by Integrated Bioinformatics Analysis. J Mol Neurosci 2020 Nov;70(11):1702-1712. PMID: 32535713
  • Zhao J, Li H, Yin Y, An W et al. Fruit ripening in Lycium barbarum and Lycium ruthenicum is associated with distinct gene expression patterns. FEBS Open Bio 2020 Aug;10(8):1550-1567. PMID: 32533890
  • Pattwell SS, Arora S, Cimino PJ, Ozawa T et al. A kinase-deficient NTRK2 splice variant predominates in glioma and amplifies several oncogenic signaling pathways. Nat Commun 2020 Jun 12;11(1):2977. PMID: 32532995
  • Bae H, Hong KY, Lee CK, Jang C et al. Angiopoietin-2-integrin α5β1 signaling enhances vascular fatty acid transport and prevents ectopic lipid-induced insulin resistance. Nat Commun 2020 Jun 12;11(1):2980. PMID: 32532986
  • Aguirre-Gamboa R, de Klein N, di Tommaso J, Claringbould A et al. Deconvolution of bulk blood eQTL effects into immune cell subpopulations. BMC Bioinformatics 2020 Jun 12;21(1):243. PMID: 32532224
  • Park H, Shin J, Choi H, Cho B et al. Valproic Acid Significantly Improves CRISPR/Cas9-Mediated Gene Editing. Cells 2020 Jun 10;9(6). PMID: 32532133
  • Louphrasitthiphol P, Siddaway R, Loffreda A, Pogenberg V et al. Tuning Transcription Factor Availability through Acetylation-Mediated Genomic Redistribution. Mol Cell 2020 Aug 6;79(3):472-487.e10. PMID: 32531202
  • Dubois F, Limou S, Chesneau M, Degauque N et al. Transcriptional meta-analysis of regulatory B cells. Eur J Immunol 2020 Nov;50(11):1757-1769. PMID: 32529638
  • Zhang S, Zeng T, Hu B, Zhang YH et al. Discriminating Origin Tissues of Tumor Cell Lines by Methylation Signatures and Dys-Methylated Rules. Front Bioeng Biotechnol 2020;8:507. PMID: 32528944
  • Wang B, Liu M, Ran Z, Li X et al. Analysis of Gene Signatures of Tumor Microenvironment Yields Insight Into Mechanisms of Resistance to Immunotherapy. Front Bioeng Biotechnol 2020;8:348. PMID: 32528935
  • Zeng Z, Zhang X, Li D, Li J et al. Expression, Location, Clinical Implication, and Bioinformatics Analysis of RNASET2 in Gastric Adenocarcinoma. Front Oncol 2020;10:836. PMID: 32528897
  • Mou Y, Zhang Y, Wu J, Hu B et al. The Landscape of Iron Metabolism-Related and Methylated Genes in the Prognosis Prediction of Clear Cell Renal Cell Carcinoma. Front Oncol 2020;10:788. PMID: 32528886
  • Li CY, Cai JH, Tsai JJP, Wang CCN et al. Identification of Hub Genes Associated With Development of Head and Neck Squamous Cell Carcinoma by Integrated Bioinformatics Analysis. Front Oncol 2020;10:681. PMID: 32528874
  • Yan YL, Huang ZN, Zhu Z, Cui YY et al. Downregulation of TET1 Promotes Bladder Cancer Cell Proliferation and Invasion by Reducing DNA Hydroxymethylation of AJAP1. Front Oncol 2020;10:667. PMID: 32528872
  • Droin C, Paquet ER, Naef F et al. Low-dimensional Dynamics of Two Coupled Biological Oscillators. Nat Phys 2019 Oct;15(10):1086-1094. PMID: 32528550
  • Yin Z, Yan X, Wang Q, Deng Z et al. Detecting Prognosis Risk Biomarkers for Colon Cancer Through Multi-Omics-Based Prognostic Analysis and Target Regulation Simulation Modeling. Front Genet 2020;11:524. PMID: 32528533
  • Lau LY, Reverter A, Hudson NJ, Naval-Sanchez M et al. Dynamics of Gene Co-expression Networks in Time-Series Data: A Case Study in Drosophila melanogaster Embryogenesis. Front Genet 2020;11:517. PMID: 32528531
  • Kong W, Xia X, Wang Q, Liu LW et al. Impact of DNA Demethylases on the DNA Methylation and Transcription of Arabidopsis NLR Genes. Front Genet 2020;11:460. PMID: 32528522
  • Song J, Yang F, Xun M, Xu L et al. Genome-Wide Identification and Characterization of Vacuolar Processing Enzyme Gene Family and Diverse Expression Under Stress in Apple (Malus × Domestic). Front Plant Sci 2020;11:626. PMID: 32528498
  • Klimovskaia A, Lopez-Paz D, Bottou L, Nickel M et al. Poincaré maps for analyzing complex hierarchies in single-cell data. Nat Commun 2020 Jun 11;11(1):2966. PMID: 32528075
  • Sukjamnong S, Thongkorn S, Kanlayaprasit S, Saeliw T et al. Prenatal exposure to bisphenol A alters the transcriptome-interactome profiles of genes associated with Alzheimer's disease in the offspring hippocampus. Sci Rep 2020 Jun 11;10(1):9487. PMID: 32528016
  • Lin YL, Lin YW, Nhieu J, Zhang X et al. Sonic Hedgehog-Gli1 Signaling and Cellular Retinoic Acid Binding Protein 1 Gene Regulation in Motor Neuron Differentiation and Diseases. Int J Mol Sci 2020 Jun 9;21(11). PMID: 32527063
  • Xu Y, Zhang S, Rong J, Lin Y et al. Sirt3 is a novel target to treat sepsis induced myocardial dysfunction by acetylated modulation of critical enzymes within cardiac tricarboxylic acid cycle. Pharmacol Res 2020 Sep;159:104887. PMID: 32526680
  • Arayataweegool A, Srisuttee R, Bin-Alee F, Mahattanasakul P et al. Induction of ZCCHC6 expression in peripheral blood mononuclear cells by HNSCC secretions. Gene 2020 Sep 5;754:144880. PMID: 32526260
  • Hu Y, Ng-Blichfeldt JP, Ota C, Ciminieri C et al. Wnt/β-catenin signaling is critical for regenerative potential of distal lung epithelial progenitor cells in homeostasis and emphysema. Stem Cells 2020 Nov;38(11):1467-1478. PMID: 32526076
  • Kim SS, Baek GO, Ahn HR, Sung S et al. Serum small extracellular vesicle-derived LINC00853 as a novel diagnostic marker for early hepatocellular carcinoma. Mol Oncol 2020 Oct;14(10):2646-2659. PMID: 32525601
  • Ansa-Addo EA, Huang HC, Riesenberg B, Iamsawat S et al. RNA binding protein PCBP1 is an intracellular immune checkpoint for shaping T cell responses in cancer immunity. Sci Adv 2020 May;6(22):eaaz3865. PMID: 32523987
  • Ilyas U, Zaman SU, Altaf R, Nadeem H et al. Genome wide meta-analysis of cDNA datasets reveals new target gene signatures of colorectal cancer based on systems biology approach. J Biol Res (Thessalon) 2020 Dec;27:8. PMID: 32523911
  • Knights AJ, Vohralik EJ, Houweling PJ, Stout ES et al. Eosinophil function in adipose tissue is regulated by Krüppel-like factor 3 (KLF3). Nat Commun 2020 Jun 10;11(1):2922. PMID: 32523103
  • Bae B, Gruner HN, Lynch M, Feng T et al. Elimination of Calm1 long 3'-UTR mRNA isoform by CRISPR-Cas9 gene editing impairs dorsal root ganglion development and hippocampal neuron activation in mice. RNA 2020 Oct;26(10):1414-1430. PMID: 32522888
  • Boulard M, Rucli S, Edwards JR, Bestor TH et al. Methylation-directed glycosylation of chromatin factors represses retrotransposon promoters. Proc Natl Acad Sci U S A 2020 Jun 23;117(25):14292-14298. PMID: 32522876
  • Jin L, Li C, Liu T, Wang L et al. A potential prognostic prediction model of colon adenocarcinoma with recurrence based on prognostic lncRNA signatures. Hum Genomics 2020 Jun 10;14(1):24. PMID: 32522293
  • Mohideen AMSH, Johansen SD, Babiak I et al. High-Throughput Identification of Adapters in Single-Read Sequencing Data. Biomolecules 2020 Jun 8;10(6). PMID: 32521604
  • Ambrose RL, Brice AM, Caputo AT, Alexander MR et al. Molecular characterisation of ILRUN, a novel inhibitor of proinflammatory and antimicrobial cytokines. Heliyon 2020 Jun;6(6):e04115. PMID: 32518853
  • Chen Y, Qiu F, Yu B, Chen Y et al. Metformin, an AMPK Activator, Inhibits Activation of FLSs but Promotes HAPLN1 Secretion. Mol Ther Methods Clin Dev 2020 Jun 12;17:1202-1214. PMID: 32518807
  • Zhu Z, Li L, Xu J, Ye W et al. Comprehensive analysis reveals a metabolic ten-gene signature in hepatocellular carcinoma. PeerJ 2020;8:e9201. PMID: 32518728
  • Xue F, Yang L, Dai B, Xue H et al. Bioinformatics profiling identifies seven immune-related risk signatures for hepatocellular carcinoma. PeerJ 2020;8:e8301. PMID: 32518711
  • Fischer J, Song YS, Yosef N, di Iulio J et al. The yeast exoribonuclease Xrn1 and associated factors modulate RNA polymerase II processivity in 5' and 3' gene regions. J Biol Chem 2020 Aug 14;295(33):11435-11454. PMID: 32518159
  • Osmak G, Baulina N, Koshkin P, Favorova O et al. Collapsing the list of myocardial infarction-related differentially expressed genes into a diagnostic signature. J Transl Med 2020 Jun 9;18(1):231. PMID: 32517814
  • Wang WH, Hsu CL, Huang HC, Juan HF et al. Quantitative Phosphoproteomics Reveals Cell Alignment and Mitochondrial Length Change under Cyclic Stretching in Lung Cells. Int J Mol Sci 2020 Jun 7;21(11). PMID: 32517296
  • Gokulnath P, de Cristofaro T, Manipur I, Di Palma T et al. Long Non-Coding RNA HAND2-AS1 Acts as a Tumor Suppressor in High-Grade Serous Ovarian Carcinoma. Int J Mol Sci 2020 Jun 5;21(11). PMID: 32517089
  • Gibbs ZA, Reza LC, Cheng CC, Westcott JM et al. The testis protein ZNF165 is a SMAD3 cofactor that coordinates oncogenic TGFβ signaling in triple-negative breast cancer. Elife 2020 Jun 9;9. PMID: 32515734
  • Macchi M, Magalon K, Zimmer C, Peeva E et al. Mature oligodendrocytes bordering lesions limit demyelination and favor myelin repair via heparan sulfate production. Elife 2020 Jun 9;9. PMID: 32515730
  • Anderson KM, Collins MA, Chin R, Ge T et al. Transcriptional and imaging-genetic association of cortical interneurons, brain function, and schizophrenia risk. Nat Commun 2020 Jun 8;11(1):2889. PMID: 32514083
  • Martínez-Zamudio RI, Roux PF, de Freitas JANLF, Robinson L et al. AP-1 imprints a reversible transcriptional programme of senescent cells. Nat Cell Biol 2020 Jul;22(7):842-855. PMID: 32514071
  • Yu J, Navickas A, Asgharian H, Culbertson B et al. RBMS1 Suppresses Colon Cancer Metastasis through Targeted Stabilization of Its mRNA Regulon. Cancer Discov 2020 Sep;10(9):1410-1423. PMID: 32513775
  • Zhao Q, Dacre M, Nguyen T, Pjanic M et al. Molecular mechanisms of coronary disease revealed using quantitative trait loci for TCF21 binding, chromatin accessibility, and chromosomal looping. Genome Biol 2020 Jun 8;21(1):135. PMID: 32513244
  • Song Q, Ni K, Liu M, Li Y et al. Direct-seq: programmed gRNA scaffold for streamlined scRNA-seq in CRISPR screen. Genome Biol 2020 Jun 8;21(1):136. PMID: 32513233
  • Zayed HNovel Comprehensive Bioinformatics Approaches to Determine the Molecular Genetic Susceptibility Profile of Moderate and Severe Asthma. Int J Mol Sci 2020 Jun 4;21(11). PMID: 32512817
  • Sarhadi S, Salehzadeh-Yazdi A, Damaghi M, Zarghami N et al. Omics Integration Analyses Reveal the Early Evolution of Malignancy in Breast Cancer. Cancers (Basel) 2020 Jun 4;12(6). PMID: 32512721
  • Hight SK, Mootz A, Kollipara RK, McMillan E et al. An in vivo functional genomics screen of nuclear receptors and their co-regulators identifies FOXA1 as an essential gene in lung tumorigenesis. Neoplasia 2020 Aug;22(8):294-310. PMID: 32512502
  • Yuan G, Yang S, Ng A, Fu C et al. RGS12 Is a Novel Critical NF-κB Activator in Inflammatory Arthritis. iScience 2020 Jun 26;23(6):101172. PMID: 32512384
  • Potdar AA, Dube S, Naito T, Botwin G et al. Reduced expression of COVID-19 host receptor, ACE2 is associated with small bowel inflammation, more severe disease, and response to anti-TNF therapy in Crohn's disease. medRxiv 2020 Apr 23 PMID: 32511625
  • Xu D, Ma M, Xu Y, Su Y et al. Single-cell Transcriptome Analysis Indicates New Potential Regulation Mechanism of ACE2 and NPs signaling among heart failure patients infected with SARS-CoV-2. medRxiv 2020 May 15 PMID: 32511460
  • Duijf PHGLow baseline pulmonary levels of cytotoxic lymphocytes as a predisposing risk factor for severe COVID-19. bioRxiv 2020 Jul 31 PMID: 32511391
  • Ochsner SA, Pillich RT, McKenna NJ et al. Consensus transcriptional regulatory networks of coronavirus-infected human cells. bioRxiv 2020 Jul 15 PMID: 32511379
  • Wu K, Zou J, Chang HY et al. RNA-GPS Predicts SARS-CoV-2 RNA Localization to Host Mitochondria and Nucleolus. bioRxiv 2020 Apr 28 PMID: 32511373
  • Singh K, Chen YC, Judy JT, Seifuddin F et al. Network Analysis and Transcriptome Profiling Identify Autophagic and Mitochondrial Dysfunctions in SARS-CoV-2 Infection. bioRxiv 2020 Jul 20 PMID: 32511341
  • Zhang Q, Luo M, Liu CJ, Guo AY et al. CCLA: an accurate method and web server for cancer cell line authentication using gene expression profiles. Brief Bioinform 2021 May 20;22(3). PMID: 32510568
  • Sebastian Monasor L, Müller SA, Colombo AV, Tanrioever G et al. Fibrillar Aβ triggers microglial proteome alterations and dysfunction in Alzheimer mouse models. Elife 2020 Jun 8;9. PMID: 32510331
  • Goering R, Hudish LI, Guzman BB, Raj N et al. FMRP promotes RNA localization to neuronal projections through interactions between its RGG domain and G-quadruplex RNA sequences. Elife 2020 Jun 8;9. PMID: 32510328
  • Sun X, Ren Z, Cun Y, Zhao C et al. Hippo-YAP signaling controls lineage differentiation of mouse embryonic stem cells through modulating the formation of super-enhancers. Nucleic Acids Res 2020 Jul 27;48(13):7182-7196. PMID: 32510157
  • Yang Y, Qi S, Shi C, Han X et al. Identification of metastasis and prognosis-associated genes for serous ovarian cancer. Biosci Rep 2020 Jun 26;40(6). PMID: 32510146
  • He B, Lang J, Wang B, Liu X et al. TOOme: A Novel Computational Framework to Infer Cancer Tissue-of-Origin by Integrating Both Gene Mutation and Expression. Front Bioeng Biotechnol 2020;8:394. PMID: 32509741
  • Zhang Y, Cheng Y, Zhang Z, Bai Z et al. CDCA2 Inhibits Apoptosis and Promotes Cell Proliferation in Prostate Cancer and Is Directly Regulated by HIF-1α Pathway. Front Oncol 2020;10:725. PMID: 32509575
  • Liang L, Chen Y, Yu Y, Pan W et al. SLC25A18 has prognostic value in colorectal cancer and represses Warburg effect and cell proliferation via Wnt signaling. Am J Cancer Res 2020;10(5):1548-1567. PMID: 32509397
  • Guo G, Gao Z, Tong M, Zhan D et al. NQO1 is a determinant for cellular sensitivity to anti-tumor agent Napabucasin. Am J Cancer Res 2020;10(5):1442-1454. PMID: 32509390
  • Xu J, Li D, Hsu CY, Tian Y et al. Comparison of skeletal and soft tissue pericytes identifies CXCR4(+) bone forming mural cells in human tissues. Bone Res 2020;8(1):22. PMID: 32509378
  • Wei X, Xu L, Jeddo SF, Li K et al. MARK2 enhances cisplatin resistance via PI3K/AKT/NF-κB signaling pathway in osteosarcoma cells. Am J Transl Res 2020;12(5):1807-1823. PMID: 32509178
  • Xiang W, Chen L et al. In light-sensitive drug delivery system nanoparticles mediate oxidative stress. Am J Transl Res 2020;12(5):1469-1480. PMID: 32509156
  • Liang CY, Huang ZG, Tang ZQ, Xiao XL et al. FOXO1 and hsa-microRNA-204-5p affect the biologic behavior of MDA-MB-231 breast cancer cells. Int J Clin Exp Pathol 2020;13(5):1146-1158. PMID: 32509089
  • Duan Z, Song Y, Zou X, Liu S et al. Nicotinamide nucleotide transhydrogenase acts as a new prognosis biomarker in hepatocellular carcinoma. Int J Clin Exp Pathol 2020;13(5):972-978. PMID: 32509068
  • Gao Y, Zhang S, Zhang Y, Qian J et al. Identification of MicroRNA-Target Gene-Transcription Factor Regulatory Networks in Colorectal Adenoma Using Microarray Expression Data. Front Genet 2020;11:463. PMID: 32508878
  • Capitanchik C, Toolan-Kerr P, Luscombe NM, Ule J et al. How Do You Identify m(6) A Methylation in Transcriptomes at High Resolution? A Comparison of Recent Datasets. Front Genet 2020;11:398. PMID: 32508872
  • Wang K, Yi D, Yu Z, Zhu B et al. Identification of the Hub Genes Related to Nerve Injury-Induced Neuropathic Pain. Front Neurosci 2020;14:488. PMID: 32508579
  • Huang B, Han W, Sheng ZF, Shen GL et al. Identification of immune-related biomarkers associated with tumorigenesis and prognosis in cutaneous melanoma patients. Cancer Cell Int 2020;20:195. PMID: 32508531
  • Mayama S, Hamazaki N, Maruyama Y, Matsubara S et al. Transcriptional activation of the mouse Scd2 gene by interdependent enhancers and long noncoding RNAs in ovarian granulosa cells. J Reprod Dev 2020 Oct 13;66(5):435-444. PMID: 32507774
  • Shi B, Qi J et al. The pattern and prognostic relevance of immune activity scores and tumor-infiltrating immune cells in metastatic clear cell renal cell carcinoma: Evidence from multiple datasets. Int Immunopharmacol 2020 Aug;85:106651. PMID: 32505901
  • Teif VB, Gould TJ, Clarkson CT, Boyd L et al. Linker histone epitopes are hidden by in situ higher-order chromatin structure. Epigenetics Chromatin 2020 Jun 6;13(1):26. PMID: 32505195
  • Yang J, Xie K, Li C et al. Immune-related genes have prognostic significance in head and neck squamous cell carcinoma. Life Sci 2020 Sep 1;256:117906. PMID: 32504750
  • Sánchez-Valle J, Tejero H, Fernández JM, Juan D et al. Interpreting molecular similarity between patients as a determinant of disease comorbidity relationships. Nat Commun 2020 Jun 5;11(1):2854. PMID: 32504002
  • Damaschke NA, Gawdzik J, Avilla M, Yang B et al. CTCF loss mediates unique DNA hypermethylation landscapes in human cancers. Clin Epigenetics 2020 Jun 5;12(1):80. PMID: 32503656
  • Lian H, Wang A, Shen Y, Wang Q et al. Identification of novel alternative splicing isoform biomarkers and their association with overall survival in colorectal cancer. BMC Gastroenterol 2020 Jun 5;20(1):171. PMID: 32503434
  • Tavasolian F, Hosseini AZ, Soudi S, Naderi M et al. A Systems Biology Approach for miRNA-mRNA Expression Patterns Analysis in Rheumatoid Arthritis. Comb Chem High Throughput Screen 2021;24(2):195-212. PMID: 32503403
  • Chiricosta L, Gugliandolo A, Bramanti P, Mazzon E et al. Could the Heat Shock Proteins 70 Family Members Exacerbate the Immune Response in Multiple Sclerosis? An in Silico Study. Genes (Basel) 2020 Jun 3;11(6). PMID: 32503176
  • Bohin N, McGowan KP, Keeley TM, Carlson EA et al. Insulin-like Growth Factor-1 and mTORC1 Signaling Promote the Intestinal Regenerative Response After Irradiation Injury. Cell Mol Gastroenterol Hepatol 2020;10(4):797-810. PMID: 32502530
  • Sell SL, Widen SG, Prough DS, Hellmich HL et al. Principal component analysis of blood microRNA datasets facilitates diagnosis of diverse diseases. PLoS One 2020;15(6):e0234185. PMID: 32502186
  • Ren H, Li H, Li P, Xu Y et al. Fifteen mRNA-lncRNA expression-based signature predicted the survival of late-staged head and neck squamous cell carcinoma. Biosci Rep 2020 Jul 31;40(7). PMID: 32500914
  • LaRocca TJ, Cavalier AN, Wahl D et al. Repetitive elements as a transcriptomic marker of aging: Evidence in multiple datasets and models. Aging Cell 2020 Jul;19(7):e13167. PMID: 32500641
  • Zhang Y, Garofano F, Wu X, Schmid M et al. Integrative analysis of key candidate genes and signaling pathways in autoimmune thyroid dysfunction related to anti-CTLA-4 therapy by bioinformatics. Invest New Drugs 2020 Dec;38(6):1717-1729. PMID: 32500465
  • Rodrigues KB, Dufort MJ, Llibre A, Speake C et al. Innate immune stimulation of whole blood reveals IFN-1 hyper-responsiveness in type 1 diabetes. Diabetologia 2020 Aug;63(8):1576-1587. PMID: 32500289
  • Stuart WD, Guo M, Fink-Baldauf IM, Coleman AM et al. CRISPRi-mediated functional analysis of lung disease-associated loci at non-coding regions. NAR Genom Bioinform 2020 Jun;2(2):lqaa036. PMID: 32500120
  • Wen J, Liao J, Liang J, Chen XP et al. Circular RNA HIPK3: A Key Circular RNA in a Variety of Human Cancers. Front Oncol 2020;10:773. PMID: 32500032
  • Wilentzik Müller R, Gat-Viks I et al. Exploring Neural Networks and Related Visualization Techniques in Gene Expression Data. Front Genet 2020;11:402. PMID: 32499810
  • Hsu YH, Wang PH, Chang AC et al. Functional Gene Clusters in Global Pathogenesis of Clear Cell Carcinoma of the Ovary Discovered by Integrated Analysis of Transcriptomes. Int J Environ Res Public Health 2020 Jun 2;17(11). PMID: 32498447
  • Li H, Zhou Y, Cheng H, Tian J et al. Roles of a TMPO-AS1/microRNA-200c/TMEFF2 ceRNA network in the malignant behaviors and 5-FU resistance of ovarian cancer cells. Exp Mol Pathol 2020 Aug;115:104481. PMID: 32497621
  • Li C, Ge S, Zhou J, Peng J et al. Exploration of the effects of the CYCLOPS gene RBM17 in hepatocellular carcinoma. PLoS One 2020;15(6):e0234062. PMID: 32497093
  • Doolittle ML, Calabrese GM, Mesner LD, Godfrey DA et al. Genetic analysis of osteoblast activity identifies Zbtb40 as a regulator of osteoblast activity and bone mass. PLoS Genet 2020 Jun;16(6):e1008805. PMID: 32497039
  • Liu J, Song G, Meng T, Zhao G et al. Identification of Differentially Expressed Genes and Signaling Pathways in Placenta Tissue of Early-Onset and Late-Onset Pre-Eclamptic Pregnancies by Integrated Bioinformatics Analysis. Med Sci Monit 2020 Jun 4;26:e921997. PMID: 32497025
  • Schlichter A, Kasten MM, Parnell TJ, Cairns BR et al. Specialization of the chromatin remodeler RSC to mobilize partially-unwrapped nucleosomes. Elife 2020 Jun 4;9. PMID: 32496195
  • Tu Z, Deng X, Hou S, Feng A et al. UHRF1 predicts poor prognosis by triggering cell cycle in lung adenocarcinoma. J Cell Mol Med 2020 Jul;24(14):8069-8077. PMID: 32495469
  • Ning W, Qiu Z, Ji X, Wang X et al. The Prognostic Value of EMT in Glioma and its Role in the Glioma Immune Microenvironment. J Mol Neurosci 2020 Oct;70(10):1501-1511. PMID: 32495005
  • Urabe F, Kosaka N, Sawa Y, Yamamoto Y et al. miR-26a regulates extracellular vesicle secretion from prostate cancer cells via targeting SHC4, PFDN4, and CHORDC1. Sci Adv 2020 May;6(18):eaay3051. PMID: 32494663
  • Hou Y, Liu W, Yi X, Yang Y et al. PHF20L1 as a H3K27me2 reader coordinates with transcriptional repressors to promote breast tumorigenesis. Sci Adv 2020 Apr;6(16):eaaz0356. PMID: 32494608
  • Bi HL, Zhang XL, Zhang YL, Xie X et al. The deubiquitinase UCHL1 regulates cardiac hypertrophy by stabilizing epidermal growth factor receptor. Sci Adv 2020 Apr;6(16):eaax4826. PMID: 32494592
  • Li J, Zhang J, Hu H, Cai Y et al. Gene Expression Signature to Predict Prognosis and Adjuvant Chemosensitivity of Colorectal Cancer Patients. Cancer Manag Res 2020;12:3301-3310. PMID: 32494194
  • Goolam M, Xypolita ME, Costello I, Lydon JP et al. The transcriptional repressor Blimp1/PRDM1 regulates the maternal decidual response in mice. Nat Commun 2020 Jun 3;11(1):2782. PMID: 32493987
  • Cui L, Chen SY, Lerbs T, Lee JW et al. Activation of JUN in fibroblasts promotes pro-fibrotic programme and modulates protective immunity. Nat Commun 2020 Jun 3;11(1):2795. PMID: 32493933
  • de Cubas AA, Dunker W, Zaninovich A, Hongo RA et al. DNA hypomethylation promotes transposable element expression and activation of immune signaling in renal cell cancer. JCI Insight 2020 Jun 4;5(11). PMID: 32493845
  • de Boer CG, Ray JP, Hacohen N, Regev A et al. MAUDE: inferring expression changes in sorting-based CRISPR screens. Genome Biol 2020 Jun 3;21(1):134. PMID: 32493396
  • Choi SK, Kim MJ, You JS et al. SMARCB1 Acts as a Quiescent Gatekeeper for Cell Cycle and Immune Response in Human Cells. Int J Mol Sci 2020 Jun 1;21(11). PMID: 32492816
  • Huckins LM, Chatzinakos C, Breen MS, Hartmann J et al. Analysis of Genetically Regulated Gene Expression Identifies a Prefrontal PTSD Gene, SNRNP35, Specific to Military Cohorts. Cell Rep 2020 Jun 2;31(9):107716. PMID: 32492425
  • Meera SP, Sreeshan A, Augustine A et al. Leaf tissue specific transcriptome sequence and de novo assembly datasets of Asiatic mangrove Rhizophora mucronata Lam. Data Brief 2020 Aug;31:105747. PMID: 32490096
  • Ge Y, Wang Q, Shao W, Zhao Y et al. Circulating let-7f-5p improve risk prediction of prostate cancer in patients with benign prostatic hyperplasia. J Cancer 2020;11(15):4542-4549. PMID: 32489471
  • Shengnan J, Dafei X, Hua J, Sunfu F et al. Long non-coding RNA HOTAIR as a competitive endogenous RNA to sponge miR-206 to promote colorectal cancer progression by activating CCL2. J Cancer 2020;11(15):4431-4441. PMID: 32489462
  • Liu Y, Xu Y, Ding L, Yu L et al. LncRNA MEG3 suppressed the progression of ovarian cancer via sponging miR-30e-3p and regulating LAMA4 expression. Cancer Cell Int 2020;20:181. PMID: 32489317
  • Boehm T, Karer M, Gludovacz E, Petroczi K et al. Simple, sensitive and specific quantification of diamine oxidase activity in complex matrices using newly discovered fluorophores derived from natural substrates. Inflamm Res 2020 Sep;69(9):937-950. PMID: 32488317
  • Singh AM, Zhang L, Avery J, Yin A et al. Human beige adipocytes for drug discovery and cell therapy in metabolic diseases. Nat Commun 2020 Jun 2;11(1):2758. PMID: 32488069
  • Arrieta-Ortiz ML, Hafemeister C, Shuster B, Baliga NS et al. Inference of Bacterial Small RNA Regulatory Networks and Integration with Transcription Factor-Driven Regulatory Networks. mSystems 2020 Jun 2;5(3). PMID: 32487739
  • Sorokin M, Kholodenko I, Kalinovsky D, Shamanskaya T et al. RNA Sequencing-Based Identification of Ganglioside GD2-Positive Cancer Phenotype. Biomedicines 2020 May 30;8(6). PMID: 32486168
  • Wang X, Li Y, Hu H, Zhou F et al. Comprehensive analysis of gene expression and DNA methylation data identifies potential biomarkers and functional epigenetic modules for lung adenocarcinoma. Genet Mol Biol 2020 Jun 1;43(3):e20190164. PMID: 32484849
  • Lee J, Lee J, Kim JH et al. Association of Jagged1 expression with malignancy and prognosis in human pancreatic cancer. Cell Oncol (Dordr) 2020 Oct;43(5):821-834. PMID: 32483746
  • Chen Z, Li L, Wu W, Liu Z et al. Exercise protects proliferative muscle satellite cells against exhaustion via the Igfbp7-Akt-mTOR axis. Theranostics 2020;10(14):6448-6466. PMID: 32483463
  • Liao TT, Lin CC, Jiang JK, Yang SH et al. Harnessing stemness and PD-L1 expression by AT-rich interaction domain-containing protein 3B in colorectal cancer. Theranostics 2020;10(14):6095-6112. PMID: 32483441
  • Williams K, Ingerslev LR, Bork-Jensen J, Wohlwend M et al. Skeletal muscle enhancer interactions identify genes controlling whole-body metabolism. Nat Commun 2020 Jun 1;11(1):2695. PMID: 32483258
  • Xia B, Zhao D, Wang G, Zhang M et al. Machine learning uncovers cell identity regulator by histone code. Nat Commun 2020 Jun 1;11(1):2696. PMID: 32483223
  • Choi J, Zhang T, Vu A, Ablain J et al. Massively parallel reporter assays of melanoma risk variants identify MX2 as a gene promoting melanoma. Nat Commun 2020 Jun 1;11(1):2718. PMID: 32483191
  • Eller C, Heydmann L, Colpitts CC, El Saghire H et al. A genome-wide gain-of-function screen identifies CDKN2C as a HBV host factor. Nat Commun 2020 Jun 1;11(1):2707. PMID: 32483149
  • Kang M, Kim HJ, Kim TJ, Byun JS et al. Multiple Functions of Fubp1 in Cell Cycle Progression and Cell Survival. Cells 2020 May 28;9(6). PMID: 32481602
  • Yang L, Emerman M, Malik HS, McLaughlin RN Jnr et al. Retrocopying expands the functional repertoire of APOBEC3 antiviral proteins in primates. Elife 2020 Jun 1;9. PMID: 32479260
  • Cheng Y, Shang D, Luo M, Huang C et al. Whole genome-wide chromosome fusion and new gene birth in the Monopterus albus genome. Cell Biosci 2020;10:67. PMID: 32477490
  • Watt K, Tyryshkin K, Renwick N, Craig AWB et al. Distinguishing Tumor and Stromal Sources of MicroRNAs Linked to Metastasis in Cutaneous Melanoma. Transl Oncol 2020 Sep;13(9):100802. PMID: 32474365
  • Ibrahim S, Zhu X, Luo X, Feng Y et al. PIK3R3 regulates ZO-1 expression through the NF-kB pathway in inflammatory bowel disease. Int Immunopharmacol 2020 Aug;85:106610. PMID: 32473571
  • Bertoni APS, de Campos RP, Tamajusuku ASK, Stefani GP et al. Biochemical analysis of ectonucleotidases on primary rat vascular smooth muscle cells and in silico investigation of their role in vascular diseases. Life Sci 2020 Sep 1;256:117862. PMID: 32473244
  • Alcalá S, Sancho P, Martinelli P, Navarro D et al. ISG15 and ISGylation is required for pancreatic cancer stem cell mitophagy and metabolic plasticity. Nat Commun 2020 May 29;11(1):2682. PMID: 32472071
  • Ling B, Huang Z, Huang S, Qian L et al. Microenvironment Analysis of Prognosis and Molecular Signature of Immune-Related Genes in Lung Adenocarcinoma. Oncol Res 2021 Mar 16;28(6):561-578. PMID: 32471520
  • Cheng L, Nan C, Kang L, Zhang N et al. Whole blood transcriptomic investigation identifies long non-coding RNAs as regulators in sepsis. J Transl Med 2020 May 29;18(1):217. PMID: 32471511
  • Patraquim P, Mumtaz MAS, Pueyo JI, Aspden JL et al. Developmental regulation of canonical and small ORF translation from mRNAs. Genome Biol 2020 May 29;21(1):128. PMID: 32471506
  • Yang Y, Wang LQ, Yao BC, Guo ZG et al. Ubiquitin-specific protease as the underlying gene biomarker for aortic stenosis. Lipids Health Dis 2020 May 29;19(1):115. PMID: 32471496
  • Teng CS, Wu BH, Yen MR, Chen PY et al. MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression. BMC Genomics 2020 May 29;21(1):375. PMID: 32471342
  • Ahlstedt J, Konradsson E, Ceberg C, Redebrandt HN et al. Increased effect of two-fraction radiotherapy in conjunction with IDO1 inhibition in experimental glioblastoma. PLoS One 2020;15(5):e0233617. PMID: 32469935
  • Gründl M, Walz S, Hauf L, Schwab M et al. Interaction of YAP with the Myb-MuvB (MMB) complex defines a transcriptional program to promote the proliferation of cardiomyocytes. PLoS Genet 2020 May;16(5):e1008818. PMID: 32469866
  • Li H, Shi X, Jiang H, Kang J et al. CMap analysis identifies Atractyloside as a potential drug candidate for type 2 diabetes based on integration of metabolomics and transcriptomics. J Cell Mol Med 2020 Jul;24(13):7417-7426. PMID: 32469143
  • Mao Y, Nie Q, Yang Y, Mao G et al. Identification of co‑expression modules and hub genes of retinoblastoma via co‑expression analysis and protein‑protein interaction networks. Mol Med Rep 2020 Aug;22(2):1155-1168. PMID: 32468072
  • Dong A, Yang W, Huang H, Zhou X et al. Bioinformatics analysis of the network of histone H3 lysine 9 trimethylation in acute myeloid leukaemia. Oncol Rep 2020 Aug;44(2):543-554. PMID: 32468066
  • Wang Q, Zhu W, Xiao G, Ding M et al. Effect of AGER on the biological behavior of non‑small cell lung cancer H1299 cells. Mol Med Rep 2020 Aug;22(2):810-818. PMID: 32468030
  • Chen L, Bai J, Li Y et al. miR‑29 mediates exercise‑induced skeletal muscle angiogenesis by targeting VEGFA, COL4A1 and COL4A2 via the PI3K/Akt signaling pathway. Mol Med Rep 2020 Aug;22(2):661-670. PMID: 32467996
  • Deng G, Zhou X, Chen L, Yao Y et al. High expression of ESRP1 regulated by circ-0005585 promotes cell colonization in ovarian cancer. Cancer Cell Int 2020;20:174. PMID: 32467669
  • Huda MN, VerHague M, Albright J, Smallwood T et al. Dissecting the Genetic Architecture of Cystatin C in Diversity Outbred Mice. G3 (Bethesda) 2020 Jul 7;10(7):2529-2541. PMID: 32467129
  • Huang WK, Gao J, Chen Z, Shi H et al. Heterogeneity of Metabolic Vulnerability in Imatinib -Resistant Gastrointestinal Stromal Tumor. Cells 2020 May 26;9(6). PMID: 32466502
  • Yang Z, Liu S, Wang Y, Chen Y et al. High expression of KITLG is a new hallmark activating the MAPK pathway in type A and AB thymoma. Thorac Cancer 2020 Jul;11(7):1944-1954. PMID: 32463597
  • Thody J, Folkes L, Moulton V et al. NATpare: a pipeline for high-throughput prediction and functional analysis of nat-siRNAs. Nucleic Acids Res 2020 Jul 9;48(12):6481-6490. PMID: 32463462
  • Chu Y, Hu J, Liang H, Kanchwala M et al. Analyzing pre-symptomatic tissue to gain insights into the molecular and mechanistic origins of late-onset degenerative trinucleotide repeat disease. Nucleic Acids Res 2020 Jul 9;48(12):6740-6758. PMID: 32463444
  • Fan T, Qu R, Yu Q, Sun B et al. Bioinformatics analysis of the biological changes involved in the osteogenic differentiation of human mesenchymal stem cells. J Cell Mol Med 2020 Jul;24(14):7968-7978. PMID: 32463168
  • Tsai SH, Hsu LA, Tsai HY, Yeh YH et al. Aldehyde dehydrogenase 2 protects against abdominal aortic aneurysm formation by reducing reactive oxygen species, vascular inflammation, and apoptosis of vascular smooth muscle cells. FASEB J 2020 Jul;34(7):9498-9511. PMID: 32463165
  • Peng Z, Xu B, Jin F et al. Circular RNA hsa_circ_0000376 Participates in Tumorigenesis of Breast Cancer by Targeting miR-1285-3p. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820928471. PMID: 32462972
  • Xu H, Ma Y, Zhang J, Gu J et al. Identification and Verification of Core Genes in Colorectal Cancer. Biomed Res Int 2020;2020:8082697. PMID: 32462020
  • Gao Y, Li Y, Niu X, Wu Y et al. Identification and Validation of Prognostically Relevant Gene Signature in Melanoma. Biomed Res Int 2020;2020:5323614. PMID: 32462000
  • Luo W, Cao Z, Qiu J, Liu Y et al. Novel Discoveries Targeting Pathogenic Gut Microbes and New Therapies in Pancreatic Cancer: Does Pathogenic E. coli Infection Cause Pancreatic Cancer Progression Modulated by TUBB/Rho/ROCK Signaling Pathway? A Bioinformatic Analysis. Biomed Res Int 2020;2020:2340124. PMID: 32461969
  • Kang W, Zhang M, Wang Q, Gu D et al. The SLC Family Are Candidate Diagnostic and Prognostic Biomarkers in Clear Cell Renal Cell Carcinoma. Biomed Res Int 2020;2020:1932948. PMID: 32461965
  • Qiao Y, Ren C, Huang S, Yuan J et al. High-resolution annotation of the mouse preimplantation embryo transcriptome using long-read sequencing. Nat Commun 2020 May 27;11(1):2653. PMID: 32461551
  • Herrero MJ, Velmeshev D, Hernandez-Pineda D, Sethi S et al. Identification of amygdala-expressed genes associated with autism spectrum disorder. Mol Autism 2020 May 27;11(1):39. PMID: 32460837
  • Wang H, Wang X, Xu L, Cao H et al. Identification of transcription factors MYC and C/EBPβ mediated regulatory networks in heart failure based on gene expression omnibus datasets. BMC Cardiovasc Disord 2020 May 27;20(1):250. PMID: 32460775
  • Wang QY, Peng L, Chen Y, Liao LD et al. Characterization of super-enhancer-associated functional lncRNAs acting as ceRNAs in ESCC. Mol Oncol 2020 Sep;14(9):2203-2230. PMID: 32460441
  • Louer EMM, Yi G, Carmone C, Robben J et al. Genes Involved in Energy Metabolism Are Differentially Expressed During the Day-Night Cycle in Murine Retinal Pigment Epithelium. Invest Ophthalmol Vis Sci 2020 May 11;61(5):49. PMID: 32460311
  • Yan Z, Liu L, Jiao L, Wen X et al. Bioinformatics Analysis and Identification of Underlying Biomarkers Potentially Linking Allergic Rhinitis and Asthma. Med Sci Monit 2020 May 27;26:e924934. PMID: 32460303
  • Ramakrishnan R, Peña-Martínez P, Agarwal P, Rodriguez-Zabala M et al. CXCR4 Signaling Has a CXCL12-Independent Essential Role in Murine MLL-AF9-Driven Acute Myeloid Leukemia. Cell Rep 2020 May 26;31(8):107684. PMID: 32460032
  • Nafria M, Keane P, Ng ES, Stanley EG et al. Expression of RUNX1-ETO Rapidly Alters the Chromatin Landscape and Growth of Early Human Myeloid Precursor Cells. Cell Rep 2020 May 26;31(8):107691. PMID: 32460028
  • Giacomelli E, Meraviglia V, Campostrini G, Cochrane A et al. Human-iPSC-Derived Cardiac Stromal Cells Enhance Maturation in 3D Cardiac Microtissues and Reveal Non-cardiomyocyte Contributions to Heart Disease. Cell Stem Cell 2020 Jun 4;26(6):862-879.e11. PMID: 32459996
  • Rodrigues NF, Nogueira FCS, Domont GB, Margis R et al. Identification of soybean trans-factors associated with plastid RNA editing sites. Genet Mol Biol 2020;43(1 suppl 2):e20190067. PMID: 32459826
  • Duan S, Luo X, Zeng H, Zhan X et al. SNORA71B promotes breast cancer cells across blood-brain barrier by inducing epithelial-mesenchymal transition. Breast Cancer 2020 Nov;27(6):1072-1081. PMID: 32458152
  • Zhao Z, Zhao D, Xia J, Wang Y et al. Immunoscore Predicts Survival in Early-Stage Lung Adenocarcinoma Patients. Front Oncol 2020;10:691. PMID: 32457841
  • Robinson JE, Greiner TC, Bouska AC, Iqbal J et al. Identification of a Splenic Marginal Zone Lymphoma Signature: Preliminary Findings With Diagnostic Potential. Front Oncol 2020;10:640. PMID: 32457837
  • Li J, Zhang M, Sun J, Mao X et al. Heavy Metal Stress-Associated Proteins in Rice and Arabidopsis: Genome-Wide Identification, Phylogenetics, Duplication, and Expression Profiles Analysis. Front Genet 2020;11:477. PMID: 32457808
  • Tao X, Wu X, Huang T, Mu D et al. Identification and Analysis of Dysfunctional Genes and Pathways in CD8(+) T Cells of Non-Small Cell Lung Cancer Based on RNA Sequencing. Front Genet 2020;11:352. PMID: 32457792
  • Laramée AS, Raczkowski H, Shao P, Batista C et al. Opposing Roles for the Related ETS-Family Transcription Factors Spi-B and Spi-C in Regulating B Cell Differentiation and Function. Front Immunol 2020;11:841. PMID: 32457757
  • Chen S, Gao C, Wu Y, Huang Z et al. Identification of Prognostic miRNA Signature and Lymph Node Metastasis-Related Key Genes in Cervical Cancer. Front Pharmacol 2020;11:544. PMID: 32457603
  • Stanicek L, Lozano-Vidal N, Bink DI, Hooglugt A et al. Long non-coding RNA LASSIE regulates shear stress sensing and endothelial barrier function. Commun Biol 2020 May 26;3(1):265. PMID: 32457386
  • Ouyang Y, Liu X, Li H, Cui S et al. RNA Sequencing Analyses Reveal the Potential Mechanism of Pulmonary Injury Induced by Gallium Arsenide Particles in Human Bronchial Epithelioid Cells. Sci Rep 2020 May 26;10(1):8685. PMID: 32457348
  • Roth SJ, Heinz S, Benner C et al. ARTDeco: automatic readthrough transcription detection. BMC Bioinformatics 2020 May 26;21(1):214. PMID: 32456667
  • Sun M, Gao X, Zhao Z, Li A et al. Enhanced production of recombinant proteins in Corynebacterium glutamicum by constructing a bicistronic gene expression system. Microb Cell Fact 2020 May 26;19(1):113. PMID: 32456643
  • Zhang J, Zhang Q, Zhang J, Wang Q et al. Expression of ACAP1 Is Associated with Tumor Immune Infiltration and Clinical Outcome of Ovarian Cancer. DNA Cell Biol 2020 Sep;39(9):1545-1557. PMID: 32456571
  • Xu YH, Deng JL, Wang LP, Zhang HB et al. Identification of Candidate Genes Associated with Breast Cancer Prognosis. DNA Cell Biol 2020 Jul;39(7):1205-1227. PMID: 32456464
  • Secker KA, Bloechl B, Keppeler H, Duerr-Stoerzer S et al. MAT2A as Key Regulator and Therapeutic Target in MLLr Leukemogenesis. Cancers (Basel) 2020 May 24;12(5). PMID: 32456310
  • Yang W, Shin HY, Cho H, Chung JY et al. TOM40 Inhibits Ovarian Cancer Cell Growth by Modulating Mitochondrial Function Including Intracellular ATP and ROS Levels. Cancers (Basel) 2020 May 22;12(5). PMID: 32456076
  • Jones MR, Lingampally A, Wu J, Sedighi J et al. Evidence for Overlapping and Distinct Biological Activities and Transcriptional Targets Triggered by Fibroblast Growth Factor Receptor 2b Signaling between Mid- and Early Pseudoglandular Stages of Mouse Lung Development. Cells 2020 May 21;9(5). PMID: 32455591
  • Liang W, Sun F, Zhao Y, Shan L et al. Identification of Susceptibility Modules and Genes for Cardiovascular Disease in Diabetic Patients Using WGCNA Analysis. J Diabetes Res 2020;2020:4178639. PMID: 32455133
  • Donaldson DS, Pollock J, Vohra P, Stevens MP et al. Microbial Stimulation Reverses the Age-Related Decline in M Cells in Aged Mice. iScience 2020 Jun 26;23(6):101147. PMID: 32454449
  • Zheng W, Yang C, Qiu L, Feng X et al. Transcriptional information underlying the generation of CSCs and the construction of a nine-mRNA signature to improve prognosis prediction in colorectal cancer. Cancer Biol Ther 2020 Aug 2;21(8):688-697. PMID: 32453965
  • Hantisteanu S, Dicken Y, Negreanu V, Goldenberg D et al. Runx3 prevents spontaneous colitis by directing the differentiation of anti-inflammatory mononuclear phagocytes. PLoS One 2020;15(5):e0233044. PMID: 32453801
  • Zhi H, Guo X, Ho YK, Pasupala N et al. RNF8 Dysregulation and Down-regulation During HTLV-1 Infection Promote Genomic Instability in Adult T-Cell Leukemia. PLoS Pathog 2020 May;16(5):e1008618. PMID: 32453758
  • Borcherding N, Crotts SB, Ortolan LS, Henderson N et al. A transcriptomic map of murine and human alopecia areata. JCI Insight 2020 Jul 9;5(13). PMID: 32453712
  • Scheff NN, Ye Y, Conley ZR, Quan JW et al. A disintegrin and metalloproteinase domain 17-epidermal growth factor receptor signaling contributes to oral cancer pain. Pain 2020 Oct;161(10):2330-2343. PMID: 32453136
  • Lee HO, Hong Y, Etlioglu HE, Cho YB et al. Lineage-dependent gene expression programs influence the immune landscape of colorectal cancer. Nat Genet 2020 Jun;52(6):594-603. PMID: 32451460
  • Penn-Nicholson A, Mbandi SK, Thompson E, Mendelsohn SC et al. RISK6, a 6-gene transcriptomic signature of TB disease risk, diagnosis and treatment response. Sci Rep 2020 May 25;10(1):8629. PMID: 32451443
  • Wietecha MS, Pensalfini M, Cangkrama M, Müller B et al. Activin-mediated alterations of the fibroblast transcriptome and matrisome control the biomechanical properties of skin wounds. Nat Commun 2020 May 25;11(1):2604. PMID: 32451392
  • Kadota S, Ou J, Shi Y, Lee JT et al. Nucleoporin 153 links nuclear pore complex to chromatin architecture by mediating CTCF and cohesin binding. Nat Commun 2020 May 25;11(1):2606. PMID: 32451376
  • Wu Z, Wu H et al. Accounting for cell type hierarchy in evaluating single cell RNA-seq clustering. Genome Biol 2020 May 25;21(1):123. PMID: 32450895
  • Chai C, Cox B, Yaish D, Gross D et al. Agonist of RORA Attenuates Nonalcoholic Fatty Liver Progression in Mice via Up-regulation of MicroRNA 122. Gastroenterology 2020 Sep;159(3):999-1014.e9. PMID: 32450149
  • Burman A, Garcia-Milian R, Whirledge S et al. Gene X environment: the cellular environment governs the transcriptional response to environmental chemicals. Hum Genomics 2020 May 24;14(1):19. PMID: 32448403
  • Wu G, Zhang M et al. A novel risk score model based on eight genes and a nomogram for predicting overall survival of patients with osteosarcoma. BMC Cancer 2020 May 24;20(1):456. PMID: 32448271
  • Du J, Liang Y, Li J, Zhao JM et al. LINC00858 knockdown inhibits gastric cancer cell growth and induces apoptosis through reducing WNK2 promoter methylation. Cell Oncol (Dordr) 2020 Aug;43(4):709-723. PMID: 32447640
  • Smazynski J, Hamilton PT, Thornton S, Milne K et al. The immune suppressive factors CD155 and PD-L1 show contrasting expression patterns and immune correlates in ovarian and other cancers. Gynecol Oncol 2020 Jul;158(1):167-177. PMID: 32446718
  • Bieder A, Yoshihara M, Katayama S, Krjutškov K et al. Dyslexia Candidate Gene and Ciliary Gene Expression Dynamics During Human Neuronal Differentiation. Mol Neurobiol 2020 Jul;57(7):2944-2958. PMID: 32445086
  • Di Stefano M, Stadhouders R, Farabella I, Castillo D et al. Transcriptional activation during cell reprogramming correlates with the formation of 3D open chromatin hubs. Nat Commun 2020 May 22;11(1):2564. PMID: 32444798
  • Pflügler S, Svinka J, Scharf I, Crncec I et al. IDO1(+) Paneth cells promote immune escape of colorectal cancer. Commun Biol 2020 May 22;3(1):252. PMID: 32444775
  • Sato T, Sase M, Ishikawa S, Kajita M et al. Characterization of radioresistant epithelial stem cell heterogeneity in the damaged mouse intestine. Sci Rep 2020 May 22;10(1):8308. PMID: 32444673
  • Yang L, Chen Z, Stout ES, Delerue F et al. Methylation of a CGATA element inhibits binding and regulation by GATA-1. Nat Commun 2020 May 22;11(1):2560. PMID: 32444652
  • Li Z, Xu J, Cui H, Song J et al. Bioinformatics analysis of key biomarkers and potential molecular mechanisms in hepatocellular carcinoma induced by hepatitis B virus. Medicine (Baltimore) 2020 May;99(20):e20302. PMID: 32443377
  • Grubman A, Vandekolk TH, Schröder J, Sun G et al. A CX3CR1 Reporter hESC Line Facilitates Integrative Analysis of In-Vitro-Derived Microglia and Improved Microglia Identity upon Neuron-Glia Co-culture. Stem Cell Reports 2020 Jun 9;14(6):1018-1032. PMID: 32442534
  • He L, Yuan H, Liang J, Hong J et al. Expression of hepatic stellate cell activation-related genes in HBV-, HCV-, and nonalcoholic fatty liver disease-associated fibrosis. PLoS One 2020;15(5):e0233702. PMID: 32442221
  • Pan X, Liu W, Chai Y, Hu L et al. Identification of Hub Genes in Atypical Teratoid/Rhabdoid Tumor by Bioinformatics Analyses. J Mol Neurosci 2020 Nov;70(11):1906-1913. PMID: 32440821
  • Meng N, Chen M, Chen D, Chen XH et al. Small Protein Hidden in lncRNA LOC90024 Promotes "Cancerous" RNA Splicing and Tumorigenesis. Adv Sci (Weinh) 2020 May;7(10):1903233. PMID: 32440474
  • Wang Q, Liu B, Wang Y, Bai B et al. The biomarkers of key miRNAs and target genes associated with acute myocardial infarction. PeerJ 2020;8:e9129. PMID: 32440375
  • Zhao L, Zhang J, Qu X, Yang Y et al. Microsatellite Instability-Related ACVR2A Mutations Partially Account for Decreased Lymph Node Metastasis in MSI-H Gastric Cancers. Onco Targets Ther 2020;13:3809-3821. PMID: 32440149
  • Wang PL, Yim AKY, Kim KW, Avey D et al. Peripheral nerve resident macrophages share tissue-specific programming and features of activated microglia. Nat Commun 2020 May 21;11(1):2552. PMID: 32439942
  • Chen M, Zhou Y, Xu H, Hill C et al. Bioinformatic analysis reveals the importance of epithelial-mesenchymal transition in the development of endometriosis. Sci Rep 2020 May 21;10(1):8442. PMID: 32439908
  • Sfakianos JP, Daza J, Hu Y, Anastos H et al. Epithelial plasticity can generate multi-lineage phenotypes in human and murine bladder cancers. Nat Commun 2020 May 21;11(1):2540. PMID: 32439865
  • Xiong Y, Chen L, Yu T, Yan C et al. Inhibition of circulating exosomal microRNA-15a-3p accelerates diabetic wound repair. Aging (Albany NY) 2020 May 21;12(10):8968-8986. PMID: 32439831
  • Fernandez-Becerra C, Bernabeu M, Castellanos A, Correa BR et al. Plasmodium vivax spleen-dependent genes encode antigens associated with cytoadhesion and clinical protection. Proc Natl Acad Sci U S A 2020 Jun 9;117(23):13056-13065. PMID: 32439708
  • Huang L, Liao J, He J, Pan S et al. Single-cell profiling reveals sex diversity in human renal proximal tubules. Gene 2020 Aug 20;752:144790. PMID: 32439376
  • Poulet C, Njock MS, Moermans C, Louis E et al. Exosomal Long Non-Coding RNAs in Lung Diseases. Int J Mol Sci 2020 May 19;21(10). PMID: 32438606
  • Dong X, Lv S, Zhang X, Hao R et al. Upregulation of LAGE3 correlates with prognosis and immune infiltrates in colorectal cancer: A bioinformatic analysis. Int Immunopharmacol 2020 Aug;85:106599. PMID: 32438075
  • Weber DG, Casjens S, Brik A, Raiko I et al. Circulating long non-coding RNA GAS5 (growth arrest-specific transcript 5) as a complement marker for the detection of malignant mesothelioma using liquid biopsies. Biomark Res 2020;8:15. PMID: 32435497
  • Chen H, Chen L et al. An integrated analysis of the competing endogenous RNA network and co-expression network revealed seven hub long non-coding RNAs in osteoarthritis. Bone Joint Res 2020 Mar;9(3):90-98. PMID: 32435461
  • Qin X, Song Y et al. Bioinformatics Analysis Identifies the Estrogen Receptor 1 (ESR1) Gene and hsa-miR-26a-5p as Potential Prognostic Biomarkers in Patients with Intrahepatic Cholangiocarcinoma. Med Sci Monit 2020 May 21;26:e921815. PMID: 32435051
  • Roy M, Viginier B, Saint-Michel É, Arnaud F et al. Viral infection impacts transposable element transcript amounts in Drosophila. Proc Natl Acad Sci U S A 2020 Jun 2;117(22):12249-12257. PMID: 32434916
  • Sapiro AL, Freund EC, Restrepo L, Qiao HH et al. Zinc Finger RNA-Binding Protein Zn72D Regulates ADAR-Mediated RNA Editing in Neurons. Cell Rep 2020 May 19;31(7):107654. PMID: 32433963
  • Ren XY, Han YD, Lin Q et al. Long non-coding RNA MIR155HG knockdown suppresses cell proliferation, migration and invasion in NSCLC by upregulating TP53INP1 directly targeted by miR-155-3p and miR-155-5p. Eur Rev Med Pharmacol Sci 2020 May;24(9):4822-4835. PMID: 32432745
  • Huang HX, Yang G, Yang Y, Yan J et al. TFAP2A is a novel regulator that modulates ferroptosis in gallbladder carcinoma cells via the Nrf2 signalling axis. Eur Rev Med Pharmacol Sci 2020 May;24(9):4745-4755. PMID: 32432738
  • Zhang H, Rostami MR, Leopold PL, Mezey JG et al. Expression of the SARS-CoV-2 ACE2 Receptor in the Human Airway Epithelium. Am J Respir Crit Care Med 2020 Jul 15;202(2):219-229. PMID: 32432483
  • Menegaz D, Hagan DW, Almaça J, Cianciaruso C et al. Mechanism and effects of pulsatile GABA secretion from cytosolic pools in the human beta cell. Nat Metab 2019 Nov;1(11):1110-1126. PMID: 32432213
  • Bae S, Lesch BJ et al. H3K4me1 Distribution Predicts Transcription State and Poising at Promoters. Front Cell Dev Biol 2020;8:289. PMID: 32432110
  • Bravo González-Blas C, Quan XJ, Duran-Romaña R, Taskiran II et al. Identification of genomic enhancers through spatial integration of single-cell transcriptomics and epigenomics. Mol Syst Biol 2020 May;16(5):e9438. PMID: 32431014
  • Kastora SL, Triantafyllidou O, Kolovos G, Kastoras A et al. Combinational approach of retrospective clinical evidence and transcriptomics highlight AMH superiority to FSH, as successful ICSI outcome predictor. J Assist Reprod Genet 2020 Jul;37(7):1623-1635. PMID: 32430730
  • [No authors listed]Abstracts from the International Science Symposium on HIV and Infectious Diseases (ISSHID 2019): Infectious diseases : Chennai, India. 12-14 October 2019. BMC Infect Dis 2020 May 20;20(Suppl 1):324. PMID: 32429962
  • Wang R, Fu L, Li J, Zhao D et al. Microarray Analysis for Differentially Expressed Genes Between Stromal and Epithelial Cells in Development and Metastasis of Invasive Breast Cancer. J Comput Biol 2020 Dec;27(12):1631-1643. PMID: 32429691
  • Ghoneum A, Gonzalez D, Abdulfattah AY, Said N et al. Metabolic Plasticity in Ovarian Cancer Stem Cells. Cancers (Basel) 2020 May 17;12(5). PMID: 32429566
  • Camarena L, Dreyfus G et al. Living in a Foster Home: The Single Subpolar Flagellum Fla1 of Rhodobacter sphaeroides. Biomolecules 2020 May 16;10(5). PMID: 32429424
  • Wang X, Kadarmideen HN et al. Metabolite Genome-Wide Association Study (mGWAS) and Gene-Metabolite Interaction Network Analysis Reveal Potential Biomarkers for Feed Efficiency in Pigs. Metabolites 2020 May 15;10(5). PMID: 32429265
  • Desanlis I, Kherdjemil Y, Mayran A, Bouklouch Y et al. HOX13-dependent chromatin accessibility underlies the transition towards the digit development program. Nat Commun 2020 May 19;11(1):2491. PMID: 32427842
  • Li W, Zhang N, Jin C, Long MD et al. MUC1-C drives stemness in progression of colitis to colorectal cancer. JCI Insight 2020 Jun 18;5(12). PMID: 32427590
  • Yu T, You X, Zhou H, He W et al. MiR-16-5p regulates postmenopausal osteoporosis by directly targeting VEGFA. Aging (Albany NY) 2020 May 19;12(10):9500-9514. PMID: 32427128
  • Fawzy MS, Toraih EA et al. Analysis of the autoimmune regulator (AIRE) gene variant rs2075876 (G/A) association with breast cancer susceptibility. J Clin Lab Anal 2020 Sep;34(9):e23365. PMID: 32426878
  • Udhaya Kumar S, Thirumal Kumar D, Siva R, George Priya Doss C et al. Dysregulation of Signaling Pathways Due to Differentially Expressed Genes From the B-Cell Transcriptomes of Systemic Lupus Erythematosus Patients - A Bioinformatics Approach. Front Bioeng Biotechnol 2020;8:276. PMID: 32426333
  • Yuan Y, Chen J, Wang J, Xu M et al. Identification Hub Genes in Colorectal Cancer by Integrating Weighted Gene Co-Expression Network Analysis and Clinical Validation in vivo and vitro. Front Oncol 2020;10:638. PMID: 32426282
  • Chen H, Chen C, Yuan X, Xu W et al. Identification of Immune Cell Landscape and Construction of a Novel Diagnostic Nomogram for Crohn's Disease. Front Genet 2020;11:423. PMID: 32425988
  • Yan W, Liu X, Wang Y, Han S et al. Identifying Drug Targets in Pancreatic Ductal Adenocarcinoma Through Machine Learning, Analyzing Biomolecular Networks, and Structural Modeling. Front Pharmacol 2020;11:534. PMID: 32425783
  • Sun MX, An Q, Chen LM, Guo L et al. MIR-520f Regulated Itch Expression and Promoted Cell Proliferation in Human Melanoma Cells. Dose Response 2020 Apr-Jun;18(2):1559325820918450. PMID: 32425721
  • Esposito F, Boccarelli A, Del Buono N et al. An NMF-Based Methodology for Selecting Biomarkers in the Landscape of Genes of Heterogeneous Cancer-Associated Fibroblast Populations. Bioinform Biol Insights 2020;14:1177932220906827. PMID: 32425511
  • Zhu J, Muskhelishvili L, Tong W, Borlak J et al. Cancer genomics predicts disease relapse and therapeutic response to neoadjuvant chemotherapy of hormone sensitive breast cancers. Sci Rep 2020 May 18;10(1):8188. PMID: 32424219
  • Chen CH, Zheng R, Tokheim C, Dong X et al. Determinants of transcription factor regulatory range. Nat Commun 2020 May 18;11(1):2472. PMID: 32424124
  • Khrameeva E, Kurochkin I, Han D, Guijarro P et al. Single-cell-resolution transcriptome map of human, chimpanzee, bonobo, and macaque brains. Genome Res 2020 May;30(5):776-789. PMID: 32424074
  • Shi B, Zhang J, Heng J, Gong J et al. RNA structural dynamics regulate early embryogenesis through controlling transcriptome fate and function. Genome Biol 2020 May 18;21(1):120. PMID: 32423473
  • Park CM, Lee JE, Kim JH et al. BAP1 functions as a tumor promoter in prostate cancer cells through EMT regulation. Genet Mol Biol 2020;43(2):e20190328. PMID: 32422649
  • Zhu S, Chen H, Zhu X, Jin X et al. Correlation Network Analysis Provides Important Modules and Pathways for Human Hyperlipidemia. Crit Rev Eukaryot Gene Expr 2019;29(5):437-448. PMID: 32422000
  • Adekunle DA, Wang ET et al. Transcriptome-wide organization of subcellular microenvironments revealed by ATLAS-Seq. Nucleic Acids Res 2020 Jun 19;48(11):5859-5872. PMID: 32421779
  • Han J, Zhang X, Yang Y, Feng L et al. Screening and Identification of Differentially Expressed Genes Expressed among Left and Right Colon Adenocarcinoma. Biomed Res Int 2020;2020:8465068. PMID: 32420374
  • Zhang F, Wu P, Wang Y, Zhang M et al. Identification of significant genes with prognostic influence in clear cell renal cell carcinoma via bioinformatics analysis. Transl Androl Urol 2020 Apr;9(2):452-461. PMID: 32420151
  • Wu M, Shang X, Sun Y, Wu J et al. Integrated analysis of lymphocyte infiltration-associated lncRNA for ovarian cancer via TCGA, GTEx and GEO datasets. PeerJ 2020;8:e8961. PMID: 32419983
  • Allain EP, Rouleau M, Vanura K, Tremblay S et al. UGT2B17 modifies drug response in chronic lymphocytic leukaemia. Br J Cancer 2020 Jul;123(2):240-251. PMID: 32418995
  • Blanco-Melo D, Nilsson-Payant BE, Liu WC, Uhl S et al. Imbalanced Host Response to SARS-CoV-2 Drives Development of COVID-19. Cell 2020 May 28;181(5):1036-1045.e9. PMID: 32416070
  • Mokhlesi A, Talkhabi M et al. Comprehensive transcriptomic analysis identifies novel regulators of lung adenocarcinoma. J Cell Commun Signal 2020 Dec;14(4):453-465. PMID: 32415511
  • Saatci O, Kaymak A, Raza U, Ersan PG et al. Targeting lysyl oxidase (LOX) overcomes chemotherapy resistance in triple negative breast cancer. Nat Commun 2020 May 15;11(1):2416. PMID: 32415208
  • Lau KX, Mason EA, Kie J, De Souza DP et al. Unique properties of a subset of human pluripotent stem cells with high capacity for self-renewal. Nat Commun 2020 May 15;11(1):2420. PMID: 32415101
  • Balachander S, Gombolay AL, Yang T, Xu P et al. Ribonucleotide incorporation in yeast genomic DNA shows preference for cytosine and guanosine preceded by deoxyadenosine. Nat Commun 2020 May 15;11(1):2447. PMID: 32415081
  • Marchetto A, Ohmura S, Orth MF, Knott MML et al. Oncogenic hijacking of a developmental transcription factor evokes vulnerability toward oxidative stress in Ewing sarcoma. Nat Commun 2020 May 15;11(1):2423. PMID: 32415069
  • Zhao T, Tao X, Li M, Gao M et al. Role of phasiRNAs from two distinct phasing frames of GhMYB2 loci in cis- gene regulation in the cotton genome. BMC Plant Biol 2020 May 15;20(1):219. PMID: 32414380
  • Tang J, Zou J, Zhang X, Fan M et al. PretiMeth: precise prediction models for DNA methylation based on single methylation mark. BMC Genomics 2020 May 15;21(1):364. PMID: 32414326
  • Kim HK, Park JD, Choi SH, Shin DJ et al. Functional Link between miR-200a and ELK3 Regulates the Metastatic Nature of Breast Cancer. Cancers (Basel) 2020 May 13;12(5). PMID: 32414208
  • Fan Q, Nørgaard RC, Grytten I, Ness CM et al. LXRα Regulates ChREBPα Transactivity in a Target Gene-Specific Manner through an Agonist-Modulated LBD-LID Interaction. Cells 2020 May 13;9(5). PMID: 32414201
  • Ziegler CGK, Allon SJ, Nyquist SK, Mbano IM et al. SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues. Cell 2020 May 28;181(5):1016-1035.e19. PMID: 32413319
  • Sang C, Chao C, Wang M, Zhang Y et al. Identification and validation of hub microRNAs dysregulated in esophageal squamous cell carcinoma. Aging (Albany NY) 2020 May 15;12(10):9807-9824. PMID: 32412911
  • Yu C, Yin J, Wang X, Chen L et al. Association between SNAP25 and human glioblastoma multiform: a comprehensive bioinformatic analysis. Biosci Rep 2020 Jun 26;40(6). PMID: 32412599
  • Liu X, Peng Y, Wang J et al. Integrative analysis of DNA methylation and gene expression profiles identified potential breast cancer-specific diagnostic markers. Biosci Rep 2020 May 29;40(5). PMID: 32412047
  • Li X, Lee EJ, Gawel DR, Lilja S et al. Meta-Analysis of Expression Profiling Data Indicates Need for Combinatorial Biomarkers in Pediatric Ulcerative Colitis. J Immunol Res 2020;2020:8279619. PMID: 32411805
  • Yan Q, Hu D, Li M, Chen Y et al. The Serum MicroRNA Signatures for Pancreatic Cancer Detection and Operability Evaluation. Front Bioeng Biotechnol 2020;8:379. PMID: 32411694
  • Yuan F, Pan X, Zeng T, Zhang YH et al. Identifying Cell-Type Specific Genes and Expression Rules Based on Single-Cell Transcriptomic Atlas Data. Front Bioeng Biotechnol 2020;8:350. PMID: 32411685
  • Zhigalova EA, Izosimova AI, Yuzhakova DV, Volchkova LN et al. RNA-Seq-Based TCR Profiling Reveals Persistently Increased Intratumoral Clonality in Responders to Anti-PD-1 Therapy. Front Oncol 2020;10:385. PMID: 32411589
  • Ma X, Ren H, Peng R, Li Y et al. Identification of key genes associated with progression and prognosis for lung squamous cell carcinoma. PeerJ 2020;8:e9086. PMID: 32411535
  • Li H, Ran K, Dong Q, Zhao Q et al. Cloning, sequencing, and expression analysis of 32 NAC transcription factors (MdNAC) in apple. PeerJ 2020;8:e8249. PMID: 32411503
  • Wang J, Kong PF, Wang HY, Song D et al. Identification of a Gene-Related Risk Signature in Melanoma Patients Using Bioinformatic Profiling. J Oncol 2020;2020:7526204. PMID: 32411243
  • Long HP, Liu JQ, Yu YY, Qiao Q et al. PKMYT1 as a Potential Target to Improve the Radiosensitivity of Lung Adenocarcinoma. Front Genet 2020;11:376. PMID: 32411179
  • Cao JY, Xu YP, Cai XZ et al. Integrated miRNAome and Transcriptome Analysis Reveals Argonaute 2-Mediated Defense Responses Against the Devastating Phytopathogen Sclerotinia sclerotiorum. Front Plant Sci 2020;11:500. PMID: 32411168
  • Olmedillas Del Moral M, Fröhlich N, Figarella K, Mojtahedi N et al. Effect of Caloric Restriction on the in vivo Functional Properties of Aging Microglia. Front Immunol 2020;11:750. PMID: 32411143
  • Du Y, Thompson EG, Muller J, Valvo J et al. The Ratiometric Transcript Signature MX2/GPR183 Is Consistently Associated With RTS,S-Mediated Protection Against Controlled Human Malaria Infection. Front Immunol 2020;11:669. PMID: 32411130
  • Vazquez SE, Ferré EM, Scheel DW, Sunshine S et al. Identification of novel, clinically correlated autoantigens in the monogenic autoimmune syndrome APS1 by proteome-wide PhIP-Seq. Elife 2020 May 15;9. PMID: 32410729
  • Chen X, Gu J, Neuwald AF, Hilakivi-Clarke L et al. BICORN: An R package for integrative inference of de novo cis-regulatory modules. Sci Rep 2020 May 14;10(1):7960. PMID: 32409786
  • Engqvist H, Parris TZ, Biermann J, Rönnerman EW et al. Integrative genomics approach identifies molecular features associated with early-stage ovarian carcinoma histotypes. Sci Rep 2020 May 14;10(1):7946. PMID: 32409713
  • Baggs EL, Monroe JG, Thanki AS, O'Grady R et al. Convergent Loss of an EDS1/PAD4 Signaling Pathway in Several Plant Lineages Reveals Coevolved Components of Plant Immunity and Drought Response. Plant Cell 2020 Jul;32(7):2158-2177. PMID: 32409319
  • Lin CL, Tan X, Chen M, Kusi M et al. ERα-related chromothripsis enhances concordant gene transcription on chromosome 17q11.1-q24.1 in luminal breast cancer. BMC Med Genomics 2020 May 14;13(1):69. PMID: 32408897
  • Amini M, Ghorban K, Mokhtarzadeh A, Dadmanesh M et al. CD40 DNA hypermethylation in primary gastric tumors; as a novel diagnostic biomarker. Life Sci 2020 Aug 1;254:117774. PMID: 32407843
  • Toboso-Navasa A, Gunawan A, Morlino G, Nakagawa R et al. Restriction of memory B cell differentiation at the germinal center B cell positive selection stage. J Exp Med 2020 Jul 6;217(7). PMID: 32407433
  • Dubois V, Gheeraert C, Vankrunkelsven W, Dubois-Chevalier J et al. Endoplasmic reticulum stress actively suppresses hepatic molecular identity in damaged liver. Mol Syst Biol 2020 May;16(5):e9156. PMID: 32407006
  • Yang C, Siebert JR, Burns R, Zheng Y et al. Single-cell transcriptome reveals the novel role of T-bet in suppressing the immature NK gene signature. Elife 2020 May 14;9. PMID: 32406817
  • Zhang D, Zhao J, Han C, Liu X et al. Identification of hub genes related to prognosis in glioma. Biosci Rep 2020 May 29;40(5). PMID: 32406502
  • Li Z, Yu F, Yu X, Wang S et al. Potential Molecular Mechanism and Biomarker Investigation for Spinal Cord Injury Based on Bioinformatics Analysis. J Mol Neurosci 2020 Sep;70(9):1345-1353. PMID: 32406040
  • Montibus B, Cercy J, Bouschet T, Charras A et al. TET3 controls the expression of the H3K27me3 demethylase Kdm6b during neural commitment. Cell Mol Life Sci 2021 Jan;78(2):757-768. PMID: 32405722
  • Li X, Wei R, Wang M, Ma L et al. MGP Promotes Colon Cancer Proliferation by Activating the NF-κB Pathway through Upregulation of the Calcium Signaling Pathway. Mol Ther Oncolytics 2020 Jun 26;17:371-383. PMID: 32405535
  • Saha SK, Choi HY, Yang GM, Biswas PK et al. GPR50 Promotes Hepatocellular Carcinoma Progression via the Notch Signaling Pathway through Direct Interaction with ADAM17. Mol Ther Oncolytics 2020 Jun 26;17:332-349. PMID: 32405532
  • Eder N, Roncaroli F, Domart MC, Horswell S et al. YAP1/TAZ drives ependymoma-like tumour formation in mice. Nat Commun 2020 May 13;11(1):2380. PMID: 32404936
  • Park M, Lee D, Bang D, Lee JH et al. MAPS-seq: magnetic bead-assisted parallel single-cell gene expression profiling. Exp Mol Med 2020 May;52(5):804-814. PMID: 32404928
  • Choi J, Topouza DG, Tarnouskaya A, Nesdoly S et al. Gene networks and expression quantitative trait loci associated with adjuvant chemotherapy response in high-grade serous ovarian cancer. BMC Cancer 2020 May 13;20(1):413. PMID: 32404140
  • Lim KH, Joo JY et al. Predictive Potential of Circulating Ube2h mRNA as an E2 Ubiquitin-Conjugating Enzyme for Diagnosis or Treatment of Alzheimer's Disease. Int J Mol Sci 2020 May 11;21(9). PMID: 32403399
  • Mayer CD, Giclais SM, Alsehly F, Hoppler S et al. Diverse LEF/TCF Expression in Human Colorectal Cancer Correlates with Altered Wnt-Regulated Transcriptome in a Meta-Analysis of Patient Biopsies. Genes (Basel) 2020 May 11;11(5). PMID: 32403323
  • Lee YJ, Son SH, Lim CS, Kim MY et al. MMTR/Dmap1 Sets the Stage for Early Lineage Commitment of Embryonic Stem Cells by Crosstalk with PcG Proteins. Cells 2020 May 11;9(5). PMID: 32403252
  • Jia W, Xie L, Wang X, Zhang Q et al. The impact of MCM6 on hepatocellular carcinoma in a Southern Chinese Zhuang population. Biomed Pharmacother 2020 Jul;127:110171. PMID: 32403044
  • Vink CS, Calero-Nieto FJ, Wang X, Maglitto A et al. Iterative Single-Cell Analyses Define the Transcriptome of the First Functional Hematopoietic Stem Cells. Cell Rep 2020 May 12;31(6):107627. PMID: 32402290
  • Brunton H, Caligiuri G, Cunningham R, Upstill-Goddard R et al. HNF4A and GATA6 Loss Reveals Therapeutically Actionable Subtypes in Pancreatic Cancer. Cell Rep 2020 May 12;31(6):107625. PMID: 32402285
  • Rolfes V, Ribeiro LS, Hawwari I, Böttcher L et al. Platelets Fuel the Inflammasome Activation of Innate Immune Cells. Cell Rep 2020 May 12;31(6):107615. PMID: 32402278
  • Saha K, England W, Fernandez MM, Biswas T et al. Structural disruption of exonic stem-loops immediately upstream of the intron regulates mammalian splicing. Nucleic Acids Res 2020 Jun 19;48(11):6294-6309. PMID: 32402057
  • Hu SL, Huang CC, Tseng TT, Liu SC et al. S1P facilitates IL-1β production in osteoblasts via the JAK and STAT3 signaling pathways. Environ Toxicol 2020 Sep;35(9):991-997. PMID: 32401414
  • Murat K, Grüning B, Poterlowicz PW, Westgate G et al. Ewastools: Infinium Human Methylation BeadChip pipeline for population epigenetics integrated into Galaxy. Gigascience 2020 May 1;9(5). PMID: 32401319
  • Li X, He Y, Hao C, Li X et al. Weighted gene correlation network analysis reveals novel regulatory modules associated with recurrent early pregnancy loss. Biosci Rep 2020 Jun 26;40(6). PMID: 32401299
  • Giallongo S, Di Rosa M, Caltabiano R, Longhitano L et al. Loss of macroH2A1 decreases mitochondrial metabolism and reduces the aggressiveness of uveal melanoma cells. Aging (Albany NY) 2020 May 12;12(10):9745-9760. PMID: 32401230
  • Chen L, Bai J, Li Y et al. The Change of Interleukin-6 Level-Related Genes and Pathways Induced by Exercise in Sedentary Individuals. J Interferon Cytokine Res 2020 May;40(5):236-244. PMID: 32401165
  • Zhang T, Wang BF, Wang XY, Xiang L et al. Key Genes Associated with Prognosis and Tumor Infiltrating Immune Cells in Gastric Cancer Patients Identified by Cross-Database Analysis. Cancer Biother Radiopharm 2020 Nov;35(9):696-710. PMID: 32401038
  • Lahiguera Á, Hyroššová P, Figueras A, Garzón D et al. Tumors defective in homologous recombination rely on oxidative metabolism: relevance to treatments with PARP inhibitors. EMBO Mol Med 2020 Jun 8;12(6):e11217. PMID: 32400970
  • Seifert S, Gundlach S, Junge O, Szymczak S et al. Integrating biological knowledge and gene expression data using pathway-guided random forests: a benchmarking study. Bioinformatics 2020 Aug 1;36(15):4301-4308. PMID: 32399562
  • Tian R, Zou H, Wang LF, Song MJ et al. Identification of microRNA-mRNA regulatory networks and pathways related to retinoblastoma across human and mouse. Int J Ophthalmol 2020;13(4):535-544. PMID: 32399402
  • Feng Z, Qiao R, Ren Z, Hou X et al. Could CTSK and COL4A2 be specific biomarkers of poor prognosis for patients with gastric cancer in Asia?-a microarray analysis based on regional population. J Gastrointest Oncol 2020 Apr;11(2):386-401. PMID: 32399279
  • Itskovich SS, Gurunathan A, Clark J, Burwinkel M et al. MBNL1 regulates essential alternative RNA splicing patterns in MLL-rearranged leukemia. Nat Commun 2020 May 12;11(1):2369. PMID: 32398749
  • Zorzan I, Pellegrini M, Arboit M, Incarnato D et al. The transcriptional regulator ZNF398 mediates pluripotency and epithelial character downstream of TGF-beta in human PSCs. Nat Commun 2020 May 12;11(1):2364. PMID: 32398665
  • Ai PH, Chen S, Liu XD, Zhu XN et al. Paroxetine ameliorates prodromal emotional dysfunction and late-onset memory deficit in Alzheimer's disease mice. Transl Neurodegener 2020 May 12;9(1):18. PMID: 32398165
  • Li B, Li Y, Li K, Zhu L et al. APEC: an accesson-based method for single-cell chromatin accessibility analysis. Genome Biol 2020 May 12;21(1):116. PMID: 32398051
  • Wang H, Xu F, Zhang M, Liu J et al. A Prognostic Immunoscore for Relapse-Free Survival Prediction in Colorectal Cancer. DNA Cell Biol 2020 Jul;39(7):1181-1193. PMID: 32397747
  • Xie W, Wang B, Wang X, Hou D et al. Nine hub genes related to the prognosis of HBV-positive hepatocellular carcinoma identified by protein interaction analysis. Ann Transl Med 2020 Apr;8(7):478. PMID: 32395522
  • Zhang K, Yao E, Lin C, Chou YT et al. A mammalian Wnt5a-Ror2-Vangl2 axis controls the cytoskeleton and confers cellular properties required for alveologenesis. Elife 2020 May 12;9. PMID: 32394892
  • Li X, Wang K, Lyu Y, Pan H et al. Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis. Nat Commun 2020 May 11;11(1):2338. PMID: 32393754
  • Way GP, Zietz M, Rubinetti V, Himmelstein DS et al. Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations. Genome Biol 2020 May 11;21(1):109. PMID: 32393369
  • Argelaguet R, Arnol D, Bredikhin D, Deloro Y et al. MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data. Genome Biol 2020 May 11;21(1):111. PMID: 32393329
  • Zheng JN, Li Y, Yan YM, Yu Y et al. Increased serum calpain activity is associated with HMGB1 levels in systemic sclerosis. Arthritis Res Ther 2020 May 11;22(1):110. PMID: 32393322
  • Wang P, Tang Z, Lee B, Zhu JJ et al. Chromatin topology reorganization and transcription repression by PML-RARα in acute promyeloid leukemia. Genome Biol 2020 May 11;21(1):110. PMID: 32393309
  • Burkholder A, Akrobetu D, Pandiri AR, Ton K et al. Investigation of the adolescent female breast transcriptome and the impact of obesity. Breast Cancer Res 2020 May 11;22(1):44. PMID: 32393308
  • Jin X, Ge LP, Li DQ, Shao ZM et al. LncRNA TROJAN promotes proliferation and resistance to CDK4/6 inhibitor via CDK2 transcriptional activation in ER+ breast cancer. Mol Cancer 2020 May 11;19(1):87. PMID: 32393270
  • Malatras A, Michalopoulos I, Duguez S, Butler-Browne G et al. MyoMiner: explore gene co-expression in normal and pathological muscle. BMC Med Genomics 2020 May 11;13(1):67. PMID: 32393257
  • Crumbaker M, Chan EKF, Gong T, Corcoran N et al. The Impact of Whole Genome Data on Therapeutic Decision-Making in Metastatic Prostate Cancer: A Retrospective Analysis. Cancers (Basel) 2020 May 7;12(5). PMID: 32392735
  • Wen Z, Zhang L, Ruan H, Li G et al. Histone variant H2A.Z regulates nucleosome unwrapping and CTCF binding in mouse ES cells. Nucleic Acids Res 2020 Jun 19;48(11):5939-5952. PMID: 32392318
  • Sollberger G, Streeck R, Apel F, Caffrey BE et al. Linker histone H1.2 and H1.4 affect the neutrophil lineage determination. Elife 2020 May 11;9. PMID: 32391789
  • Zhang H, Shan G, Song J, Tian Y et al. Extracellular matrix-related genes play an important role in the progression of NMIBC to MIBC: a bioinformatics analysis study. Biosci Rep 2020 May 29;40(5). PMID: 32391563
  • Zhang Z, Sun C, Li C, Jiao X et al. Upregulated MELK Leads to Doxorubicin Chemoresistance and M2 Macrophage Polarization via the miR-34a/JAK2/STAT3 Pathway in Uterine Leiomyosarcoma. Front Oncol 2020;10:453. PMID: 32391256
  • Tan X, Tang H, Gong L, Xie L et al. Integrating Genome-Wide Association Studies and Gene Expression Profiles With Chemical-Genes Interaction Networks to Identify Chemicals Associated With Colorectal Cancer. Front Genet 2020;11:385. PMID: 32391058
  • Liao Y, Wang Y, Cheng M, Huang C et al. Weighted Gene Coexpression Network Analysis of Features That Control Cancer Stem Cells Reveals Prognostic Biomarkers in Lung Adenocarcinoma. Front Genet 2020;11:311. PMID: 32391047
  • Strandberg K, Ayoglu B, Roos A, Reza M et al. Blood-derived biomarkers correlate with clinical progression in Duchenne muscular dystrophy. J Neuromuscul Dis 2020;7(3):231-246. PMID: 32390640
  • Gao Y, Gao W, Cheng J, Ma L et al. Identification of the role of toxin B in the virulence of Clostridioides difficile based on integrated bioinformatics analyses. Int Microbiol 2020 Nov;23(4):575-587. PMID: 32388701
  • Chang Y, He J, Xiang X, Li H et al. LUM is the hub gene of advanced fibrosis in nonalcoholic fatty liver disease patients. Clin Res Hepatol Gastroenterol 2021 Jan;45(1):101435. PMID: 32386798
  • Spevak CC, Elias HK, Kannan L, Ali MAE et al. Hematopoietic Stem and Progenitor Cells Exhibit Stage-Specific Translational Programs via mTOR- and CDK1-Dependent Mechanisms. Cell Stem Cell 2020 May 7;26(5):755-765.e7. PMID: 32386556
  • Psaila B, Wang G, Rodriguez-Meira A, Li R et al. Single-Cell Analyses Reveal Megakaryocyte-Biased Hematopoiesis in Myelofibrosis and Identify Mutant Clone-Specific Targets. Mol Cell 2020 May 7;78(3):477-492.e8. PMID: 32386542
  • Moreland RT, Nguyen AD, Ryan JF, Baxevanis AD et al. The Mnemiopsis Genome Project Portal: integrating new gene expression resources and improving data visualization. Database (Oxford) 2020 Jan 1;2020. PMID: 32386298
  • Liu WG, Zhuo L, Lu Y, Wang L et al. miR-874-3p inhibits cell migration through targeting RGS4 in osteosarcoma. J Gene Med 2020 Sep;22(9):e3213. PMID: 32386256
  • Yu L, Zhang B, Deochand D, Sacta MA et al. Negative elongation factor complex enables macrophage inflammatory responses by controlling anti-inflammatory gene expression. Nat Commun 2020 May 8;11(1):2286. PMID: 32385332
  • Yu Y, Tian X et al. Analysis of genes associated with prognosis of lung adenocarcinoma based on GEO and TCGA databases. Medicine (Baltimore) 2020 May;99(19):e20183. PMID: 32384511
  • Yang M, Safavi S, Woodward EL, Duployez N et al. 13q12.2 deletions in acute lymphoblastic leukemia lead to upregulation of FLT3 through enhancer hijacking. Blood 2020 Aug 20;136(8):946-956. PMID: 32384149
  • Sun Y, Zhang Z et al. In Silico Identification of Crucial Genes and Specific Pathways in Hepatocellular Cancer. Genet Test Mol Biomarkers 2020 May;24(5):296-308. PMID: 32384023
  • Fan G, Wei J et al. Identification of potential novel biomarkers and therapeutic targets involved in human atrial fibrillation based on bioinformatics analysis. Kardiol Pol 2020 Aug 25;78(7-8):694-702. PMID: 32383373
  • Hemmat N, Mokhtarzadeh A, Aghazadeh M, Jadidi-Niaragh F et al. Role of microRNAs in epidermal growth factor receptor signaling pathway in cervical cancer. Mol Biol Rep 2020 Jun;47(6):4553-4568. PMID: 32383136
  • Huang Y, Zhao L, Yan Y, Chen J et al. PBMCs to Stress-Associated miR-18a-5p and miR-22-3p Ratios as New Indicators of Metabolic Syndrome. Biomed Res Int 2020;2020:8159342. PMID: 32382575
  • Liu J, Lu J, Ma Z, Li W et al. A Nomogram Based on a Three-Gene Signature Derived from AATF Coexpressed Genes Predicts Overall Survival of Hepatocellular Carcinoma Patients. Biomed Res Int 2020;2020:7310768. PMID: 32382568
  • Zhang Q, Zhang Y, Yan M, Zhu K et al. Bioinformatics Analysis of the Molecular Mechanism of Late-Stage Heterotopic Ossification. Biomed Res Int 2020;2020:5097823. PMID: 32382555
  • Liu Y, Liu H, Bian Q et al. Identification of Potential Biomarkers Associated with Basal Cell Carcinoma. Biomed Res Int 2020;2020:2073690. PMID: 32382535
  • Liu Z, Zhao W, Ren Y, Liu C et al. Comprehensive analysis of the long non-coding RNA-associated competitive endogenous RNA network reveals novel prognostic biomarkers in Wilms' tumor. Oncol Lett 2020 Jun;19(6):3731-3742. PMID: 32382326
  • Kim SJ, Jeong YT, Jeong SR, Park M et al. Neural regulation of energy and bone homeostasis by the synaptic adhesion molecule Calsyntenin-3. Exp Mol Med 2020 May;52(5):793-803. PMID: 32382066
  • Gaub A, Sheikh BN, Basilicata MF, Vincent M et al. Evolutionary conserved NSL complex/BRD4 axis controls transcription activation via histone acetylation. Nat Commun 2020 May 7;11(1):2243. PMID: 32382029
  • Peterson QP, Veres A, Chen L, Slama MQ et al. A method for the generation of human stem cell-derived alpha cells. Nat Commun 2020 May 7;11(1):2241. PMID: 32382023
  • Zhou Z, Wu B, Tang X, Ke R et al. Comprehensive Analysis of Fibroblast Growth Factor Receptor (FGFR) Family Genes in Breast Cancer by Integrating Online Databases and Bioinformatics. Med Sci Monit 2020 May 8;26:e923517. PMID: 32381997
  • Miller ET, You S, Cadaneanu RM, Kim M et al. Chromosomal instability in untreated primary prostate cancer as an indicator of metastatic potential. BMC Cancer 2020 May 7;20(1):398. PMID: 32380981
  • Hor P, Punj V, Calvert BA, Castaldi A et al. Efficient Generation and Transcriptomic Profiling of Human iPSC-Derived Pulmonary Neuroendocrine Cells. iScience 2020 May 22;23(5):101083. PMID: 32380423
  • Xu J, Yang Y et al. Potential genes and pathways along with immune cells infiltration in the progression of atherosclerosis identified via microarray gene expression dataset re-analysis. Vascular 2020 Oct;28(5):643-654. PMID: 32379583
  • Carter AC, Xu J, Nakamoto MY, Wei Y et al. Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation. Elife 2020 May 7;9. PMID: 32379046
  • Zhang M, Sun L, Ru Y, Zhang S et al. A risk score system based on DNA methylation levels and a nomogram survival model for lung squamous cell carcinoma. Int J Mol Med 2020 Jul;46(1):252-264. PMID: 32377703
  • Liu Y, Cao Y, Cai W, Wu L et al. Aberrant expression of two miRNAs promotes proliferation, hepatitis B virus amplification, migration and invasion of hepatocellular carcinoma cells: evidence from bioinformatic analysis and experimental validation. PeerJ 2020;8:e9100. PMID: 32377460
  • Gao X, Wen X, He H, Zheng L et al. Knockdown of CDCA8 inhibits the proliferation and enhances the apoptosis of bladder cancer cells. PeerJ 2020;8:e9078. PMID: 32377458
  • Hui Z, Zhanwei W, Xi Y, Jin L et al. Construction of ceRNA Coexpression Network and Screening of Molecular Targets in Colorectal Cancer. Dis Markers 2020;2020:2860582. PMID: 32377269
  • Brook B, Harbeson DJ, Shannon CP, Cai B et al. BCG vaccination-induced emergency granulopoiesis provides rapid protection from neonatal sepsis. Sci Transl Med 2020 May 6;12(542). PMID: 32376769
  • Sun Y, Wang L, Li C, Gu R et al. Construction of an integrated human osteosarcoma database, HOsDb, based on literature mining, microarray analysis, and database retrieval. BMC Cancer 2020 May 6;20(1):390. PMID: 32375685
  • Song Z, Lv S, Wu H, Qin L et al. Identification of foam cell biomarkers by microarray analysis. BMC Cardiovasc Disord 2020 May 6;20(1):211. PMID: 32375652
  • Jian C, Fu J, Cheng X, Shen LJ et al. Low-Dose Sorafenib Acts as a Mitochondrial Uncoupler and Ameliorates Nonalcoholic Steatohepatitis. Cell Metab 2020 May 5;31(5):892-908.e11. PMID: 32375062
  • Heiser CN, Lau KS et al. A Quantitative Framework for Evaluating Single-Cell Data Structure Preservation by Dimensionality Reduction Techniques. Cell Rep 2020 May 5;31(5):107576. PMID: 32375029
  • Kern F, Fehlmann T, Solomon J, Schwed L et al. miEAA 2.0: integrating multi-species microRNA enrichment analysis and workflow management systems. Nucleic Acids Res 2020 Jul 2;48(W1):W521-W528. PMID: 32374865
  • Dass G, Vu MT, Xu P, Audain E et al. The omics discovery REST interface. Nucleic Acids Res 2020 Jul 2;48(W1):W380-W384. PMID: 32374843
  • Huang T, Yuan S, Gao L, Li M et al. The histone modification reader ZCWPW1 links histone methylation to PRDM9-induced double-strand break repair. Elife 2020 May 6;9. PMID: 32374261
  • Yin X, Huang H, Huang S, Xu A et al. A Novel Scoring System for Risk Assessment of Elderly Patients With Cytogenetically Normal Acute Myeloid Leukemia Based on Expression of Three AQP1 DNA Methylation-Associated Genes. Front Oncol 2020;10:566. PMID: 32373535
  • Kuang Y, Wang Y, Zhai W, Wang X et al. Genome-Wide Analysis of Methylation-Driven Genes and Identification of an Eight-Gene Panel for Prognosis Prediction in Breast Cancer. Front Genet 2020;11:301. PMID: 32373154
  • Lee J, Park J, Lee YY, Lee Y et al. Comparative transcriptome analysis of the protective effects of Korean Red Ginseng against the influence of bisphenol A in the liver and uterus of ovariectomized mice. J Ginseng Res 2020 May;44(3):519-526. PMID: 32372874
  • Hermawan A, Putri H et al. Integrative bioinformatics analysis reveals miR-494 and its target genes as predictive biomarkers of trastuzumab-resistant breast cancer. J Egypt Natl Canc Inst 2020 Apr 3;32(1):16. PMID: 32372307
  • Zhang C, Shen L, Yuan W, Liu Y et al. Loss of SRSF2 triggers hepatic progenitor cell activation and tumor development in mice. Commun Biol 2020 May 5;3(1):210. PMID: 32372053
  • Zheng J, Guo Y, Hu B, Zhu L et al. Serum metabolomic profiles reveal the impact of BuZangTongLuo formula on metabolic pathways in diabetic mice with hindlimb ischemia. J Ethnopharmacol 2020 Aug 10;258:112928. PMID: 32371144
  • Egeland NG, Jonsdottir K, Aure MR, Sahlberg K et al. MiR-18a and miR-18b are expressed in the stroma of oestrogen receptor alpha negative breast cancers. BMC Cancer 2020 May 5;20(1):377. PMID: 32370743
  • Sadeghi L, Arvidsson G, Merrien M, M Wasik A et al. Differential B-Cell Receptor Signaling Requirement for Adhesion of Mantle Cell Lymphoma Cells to Stromal Cells. Cancers (Basel) 2020 May 2;12(5). PMID: 32370190
  • Aziz N, Hong YH, Jo M, Kim JK et al. Molecular Signatures of JMJD10/MINA53 in Gastric Cancer. Cancers (Basel) 2020 May 2;12(5). PMID: 32370161
  • Mazo C, Barron S, Mooney C, Gallagher WM et al. Multi-Gene Prognostic Signatures and Prediction of Pathological Complete Response to Neoadjuvant Chemotherapy in ER-positive, HER2-negative Breast Cancer Patients. Cancers (Basel) 2020 May 1;12(5). PMID: 32369904
  • Xu H, Zhao L, Feng X, Ma Y et al. Landscape of genomic imprinting and its functions in the mouse mammary gland. J Mol Cell Biol 2020 May 5;12(11):857-869. PMID: 32369566
  • La Greca A, Scarafía MA, Hernández Cañás MC, Pérez N et al. PIWI-interacting RNAs are differentially expressed during cardiac differentiation of human pluripotent stem cells. PLoS One 2020;15(5):e0232715. PMID: 32369512
  • Collins JM, Siddiqa A, Jones DP, Liu K et al. Tryptophan catabolism reflects disease activity in human tuberculosis. JCI Insight 2020 May 21;5(10). PMID: 32369456
  • Wang L, Zhang Y, Zhu G, Ma Y et al. miR-16 exhibits protective function in LPS-treated cardiomyocytes by targeting DOCK2 to repress cell apoptosis and exert anti-inflammatory effect. Cell Biol Int 2020 Aug;44(8):1760-1768. PMID: 32369253
  • Lin Z, Niu Y, Wan A, Chen D et al. RNA m(6) A methylation regulates sorafenib resistance in liver cancer through FOXO3-mediated autophagy. EMBO J 2020 Jun 17;39(12):e103181. PMID: 32368828
  • Ma X, Liu J, Wang H, Jiang Y et al. Identification of crucial aberrantly methylated and differentially expressed genes related to cervical cancer using an integrated bioinformatics analysis. Biosci Rep 2020 May 29;40(5). PMID: 32368784
  • Li Q, Li J, Wang S, Wang J et al. Overexpressed immunoglobulin-like transcript (ILT) 4 in lung adenocarcinoma is correlated with immunosuppressive T cell subset infiltration and poor patient outcomes. Biomark Res 2020;8:11. PMID: 32368343
  • Yin L, Banerjee S, Fan J, He J et al. Epigenetic regulation of neuronal cell specification inferred with single cell "Omics" data. Comput Struct Biotechnol J 2020;18:942-952. PMID: 32368329
  • Yang Z, Yang Y, Zhou G, Luo Y et al. The Prediction of Survival in Hepatocellular Carcinoma Based on A Four Long Non-coding RNAs Expression Signature. J Cancer 2020;11(14):4132-4144. PMID: 32368296
  • Han W, Zhang C, Shi CT, Gao XJ et al. Roles of eIF3m in the tumorigenesis of triple negative breast cancer. Cancer Cell Int 2020;20:141. PMID: 32368187
  • Kong L, Liu P, Zheng M, Wang Z et al. The miR-1224-5p/ELF3 Axis Regulates Malignant Behaviors of Pancreatic Cancer via PI3K/AKT/Notch Signaling Pathways. Onco Targets Ther 2020;13:3449-3466. PMID: 32368099
  • Li Y, Tan W, Ye F, Wen S et al. Inflammation as a risk factor for stroke in atrial fibrillation: data from a microarray data analysis. J Int Med Res 2020 May;48(5):300060520921671. PMID: 32367757
  • Zhou H, Xu-Monette ZY, Xiao L, Strati P et al. Prognostic factors, therapeutic approaches, and distinct immunobiologic features in patients with primary mediastinal large B-cell lymphoma on long-term follow-up. Blood Cancer J 2020 May 4;10(5):49. PMID: 32366834
  • Joe S, Nam H et al. Prediction model construction of mouse stem cell pluripotency using CpG and non-CpG DNA methylation markers. BMC Bioinformatics 2020 May 4;21(1):175. PMID: 32366211
  • Hurtado-Bagès S, Posavec Marjanovic M, Valero V, Malinverni R et al. The Histone Variant MacroH2A1 Regulates Key Genes for Myogenic Cell Fusion in a Splice-Isoform Dependent Manner. Cells 2020 Apr 30;9(5). PMID: 32365743
  • de Dieuleveult M, Marchal C, Jouinot A, Letessier A et al. Molecular and Clinical Relevance of ZBTB38 Expression Levels in Prostate Cancer. Cancers (Basel) 2020 Apr 29;12(5). PMID: 32365491
  • Hsieh CH, Chu CY, Lin SE, Yang YSH et al. TESC Promotes TGF-α/EGFR-FOXM1-Mediated Tumor Progression in Cholangiocarcinoma. Cancers (Basel) 2020 Apr 29;12(5). PMID: 32365487
  • Lupu IE, Redpath AN, Smart N et al. Spatiotemporal Analysis Reveals Overlap of Key Proepicardial Markers in the Developing Murine Heart. Stem Cell Reports 2020 May 12;14(5):770-787. PMID: 32359445
  • Mandal S, Chandel D, Kaur H, Majumdar S et al. Single-Cell Analysis Reveals Partial Reactivation of X Chromosome instead of Chromosome-wide Dampening in Naive Human Pluripotent Stem Cells. Stem Cell Reports 2020 May 12;14(5):745-754. PMID: 32359444
  • Cook DP, Vanderhyden BC et al. Context specificity of the EMT transcriptional response. Nat Commun 2020 May 1;11(1):2142. PMID: 32358524
  • Liu XD, Kong W, Peterson CB, McGrail DJ et al. PBRM1 loss defines a nonimmunogenic tumor phenotype associated with checkpoint inhibitor resistance in renal carcinoma. Nat Commun 2020 May 1;11(1):2135. PMID: 32358509
  • Huang T, Cheng X, Chahoud J, Sarhan A et al. Effective combinatorial immunotherapy for penile squamous cell carcinoma. Nat Commun 2020 May 1;11(1):2124. PMID: 32358507
  • Chignon A, Bon-Baret V, Boulanger MC, Li Z et al. Single-cell expression and Mendelian randomization analyses identify blood genes associated with lifespan and chronic diseases. Commun Biol 2020 May 1;3(1):206. PMID: 32358504
  • Silva-Fisher JM, Dang HX, White NM, Strand MS et al. Long non-coding RNA RAMS11 promotes metastatic colorectal cancer progression. Nat Commun 2020 May 1;11(1):2156. PMID: 32358485
  • Chen J, Liu C, Cen J, Liang T et al. KEGG-expressed genes and pathways in triple negative breast cancer: Protocol for a systematic review and data mining. Medicine (Baltimore) 2020 May;99(18):e19986. PMID: 32358373
  • Kern F, Amand J, Senatorov I, Isakova A et al. miRSwitch: detecting microRNA arm shift and switch events. Nucleic Acids Res 2020 Jul 2;48(W1):W268-W274. PMID: 32356893
  • Iosub IA, van Nues RW, McKellar SW, Nieken KJ et al. Hfq CLASH uncovers sRNA-target interaction networks linked to nutrient availability adaptation. Elife 2020 May 1;9. PMID: 32356726
  • Wang Y, Fang Q, Tian L, Yuan Z et al. Expression and Regulatory Network Analysis of MiR-139-3p, a New Potential Serum Biomarker for Esophageal Squamous Cell Carcinoma Based on Bioinformatics Analysis. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033820920967. PMID: 32356485
  • Sun Z, Zeng L, Zhang M, Zhang Y et al. PIM1 inhibitor synergizes the anti-tumor effect of osimertinib via STAT3 dephosphorylation in EGFR-mutant non-small cell lung cancer. Ann Transl Med 2020 Mar;8(6):366. PMID: 32355810
  • Fei H, Chen S, Xu C et al. RNA-sequencing and microarray data mining revealing: the aberrantly expressed mRNAs were related with a poor outcome in the triple negative breast cancer patients. Ann Transl Med 2020 Mar;8(6):363. PMID: 32355807
  • Huang S, Huang Z, Ma C, Luo L et al. Acidic leucine-rich nuclear phosphoprotein-32A expression contributes to adverse outcome in acute myeloid leukemia. Ann Transl Med 2020 Mar;8(6):345. PMID: 32355789
  • Wu G, Zhao Z, Yan Y, Zhou Y et al. CPS1 expression and its prognostic significance in lung adenocarcinoma. Ann Transl Med 2020 Mar;8(6):341. PMID: 32355785
  • Song LB, Zhang QJ, Hou XY, Xiu YY et al. A twelve-gene signature for survival prediction in malignant melanoma patients. Ann Transl Med 2020 Mar;8(6):312. PMID: 32355756
  • Yang S, Cao C, Xie Z, Zhou Z et al. Analysis of potential hub genes involved in the pathogenesis of Chinese type 1 diabetic patients. Ann Transl Med 2020 Mar;8(6):295. PMID: 32355739
  • Wang F, Xu X, Zhang N, Chen Z et al. Identification and integrated analysis of hepatocellular carcinoma-related circular RNA signature. Ann Transl Med 2020 Mar;8(6):294. PMID: 32355738
  • Jin Y, Qin X et al. Comprehensive analysis of transcriptome data for identifying biomarkers and therapeutic targets in head and neck squamous cell carcinoma. Ann Transl Med 2020 Mar;8(6):282. PMID: 32355726
  • Gu J, Zhang J, Huang W, Tao T et al. Activating miRNA-mRNA network in gemcitabine-resistant pancreatic cancer cell associates with alteration of memory CD4(+) T cells. Ann Transl Med 2020 Mar;8(6):279. PMID: 32355723
  • Lu M, Huang L, Tang Y, Sun T et al. ARNTL2 knockdown suppressed the invasion and migration of colon carcinoma: decreased SMOC2-EMT expression through inactivation of PI3K/AKT pathway. Am J Transl Res 2020;12(4):1293-1308. PMID: 32355542
  • Mentis AA, Dardiotis E, Chrousos GP et al. Apolipoprotein E4 and meningeal lymphatics in Alzheimer disease: a conceptual framework. Mol Psychiatry 2021 Apr;26(4):1075-1097. PMID: 32355332
  • Yu S, Wu Y, Li C, Qu Z et al. Comprehensive analysis of the SLC16A gene family in pancreatic cancer via integrated bioinformatics. Sci Rep 2020 Apr 30;10(1):7315. PMID: 32355273
  • Zhang M, Zou Y, Xu X, Zhang X et al. Highly parallel and efficient single cell mRNA sequencing with paired picoliter chambers. Nat Commun 2020 Apr 30;11(1):2118. PMID: 32355211
  • Shin JW, Kwon MA, Hwang J, Lee SJ et al. Keratinocyte transglutaminase 2 promotes CCR6(+) γδT-cell recruitment by upregulating CCL20 in psoriatic inflammation. Cell Death Dis 2020 Apr 30;11(4):301. PMID: 32355189
  • Qadir MMF, Álvarez-Cubela S, Klein D, van Dijk J et al. Single-cell resolution analysis of the human pancreatic ductal progenitor cell niche. Proc Natl Acad Sci U S A 2020 May 19;117(20):10876-10887. PMID: 32354994
  • Yamada S, Hinch AG, Kamido H, Zhang Y et al. Molecular structures and mechanisms of DNA break processing in mouse meiosis. Genes Dev 2020 Jun 1;34(11-12):806-818. PMID: 32354835
  • Yan H, Chaumont N, Gilles JF, Bolte S et al. Microtubule self-organisation during seed germination in Arabidopsis. BMC Biol 2020 Apr 30;18(1):44. PMID: 32354334
  • Wilson AC, Kumar PL, Lee S, Parker MM et al. Heme metabolism genes Downregulated in COPD Cachexia. Respir Res 2020 May 1;21(1):100. PMID: 32354332
  • Buttacavoli M, Albanese NN, Roz E, Pucci-Minafra I et al. Proteomic Profiling of Colon Cancer Tissues: Discovery of New Candidate Biomarkers. Int J Mol Sci 2020 Apr 28;21(9). PMID: 32353950
  • Espinosa Fernandez JR, Eckhardt BL, Lee J, Lim B et al. Identification of triple-negative breast cancer cell lines classified under the same molecular subtype using different molecular characterization techniques: Implications for translational research. PLoS One 2020;15(4):e0231953. PMID: 32353087
  • Hsiao F, Frouard J, Gramatica A, Xie G et al. Tissue memory CD4+ T cells expressing IL-7 receptor-alpha (CD127) preferentially support latent HIV-1 infection. PLoS Pathog 2020 Apr;16(4):e1008450. PMID: 32353080
  • Tripodi IJ, Chowdhury M, Gruca M, Dowell RD et al. Combining signal and sequence to detect RNA polymerase initiation in ATAC-seq data. PLoS One 2020;15(4):e0232332. PMID: 32353042
  • Ata-Abadi NS, Mowla SJ, Aboutalebi F, Dormiani K et al. Hypoxia-related long noncoding RNAs are associated with varicocele-related male infertility. PLoS One 2020;15(4):e0232357. PMID: 32353040
  • Baik B, Yoon S, Nam D et al. Benchmarking RNA-seq differential expression analysis methods using spike-in and simulation data. PLoS One 2020;15(4):e0232271. PMID: 32353015
  • Wright G, Rodriguez A, Li J, Clark PL et al. Analysis of computational codon usage models and their association with translationally slow codons. PLoS One 2020;15(4):e0232003. PMID: 32352987
  • Hassler SN, Kume M, Mwirigi JM, Ahmad A et al. The cellular basis of protease-activated receptor 2-evoked mechanical and affective pain. JCI Insight 2020 Jun 4;5(11). PMID: 32352932
  • Zhang A, Xing J, Xia T, Zhang H et al. EphA2 phosphorylates NLRP3 and inhibits inflammasomes in airway epithelial cells. EMBO Rep 2020 Jul 3;21(7):e49666. PMID: 32352641
  • Fang K, Caixia H, Xiufen Z, Zijian G et al. Screening of a Novel Upregulated lncRNA, A2M-AS1, That Promotes Invasion and Migration and Signifies Poor Prognosis in Breast Cancer. Biomed Res Int 2020;2020:9747826. PMID: 32352014
  • Peñalosa-Ruiz G, Mulder KW, Veenstra GJC et al. The corepressor NCOR1 and OCT4 facilitate early reprogramming by suppressing fibroblast gene expression. PeerJ 2020;8:e8952. PMID: 32351783
  • Bowden SA, Stockwell PA, Rodger EJ, Parry MF et al. Extensive Inter-Cyst DNA Methylation Variation in Autosomal Dominant Polycystic Kidney Disease Revealed by Genome Scale Sequencing. Front Genet 2020;11:348. PMID: 32351541
  • Gong B, Kao Y, Zhang C, Sun F et al. Identification of Hub Genes Related to Carcinogenesis and Prognosis in Colorectal Cancer Based on Integrated Bioinformatics. Mediators Inflamm 2020;2020:5934821. PMID: 32351322
  • Gottmann P, Ouni M, Zellner L, Jähnert M et al. Polymorphisms in miRNA binding sites involved in metabolic diseases in mice and humans. Sci Rep 2020 Apr 29;10(1):7202. PMID: 32350386
  • Cang Z, Nie Q et al. Inferring spatial and signaling relationships between cells from single cell transcriptomic data. Nat Commun 2020 Apr 29;11(1):2084. PMID: 32350282
  • Zhang D, Hu Q, Liu X, Ji Y et al. Intron retention is a hallmark and spliceosome represents a therapeutic vulnerability in aggressive prostate cancer. Nat Commun 2020 Apr 29;11(1):2089. PMID: 32350277
  • Vinckier NK, Patel NA, Geusz RJ, Wang A et al. LSD1-mediated enhancer silencing attenuates retinoic acid signalling during pancreatic endocrine cell development. Nat Commun 2020 Apr 29;11(1):2082. PMID: 32350257
  • Hahm JH, Jeong C, Lee W, Koo HJ et al. A cellular surveillance and defense system that delays aging phenotypes in C. elegans. Aging (Albany NY) 2020 Apr 29;12(9):8202-8220. PMID: 32350153
  • Chen Z, Xie Y, Luo J, Chen T et al. Milk exosome-derived miRNAs from water buffalo are implicated in immune response and metabolism process. BMC Vet Res 2020 Apr 29;16(1):123. PMID: 32349776
  • Fan Y, Liang Y, Deng K, Zhang Z et al. Analysis of DNA methylation profiles during sheep skeletal muscle development using whole-genome bisulfite sequencing. BMC Genomics 2020 Apr 29;21(1):327. PMID: 32349667
  • Mei Y, Jiang P, Shen N, Fu S et al. Identification of miRNA-mRNA Regulatory Network and Construction of Prognostic Signature in Cervical Cancer. DNA Cell Biol 2020 Jun;39(6):1023-1040. PMID: 32349536
  • Peterson EJR, Abidi AA, Arrieta-Ortiz ML, Aguilar B et al. Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis. Cell Rep 2020 Apr 28;31(4):107577. PMID: 32348771
  • Soluri IV, Zumerling LM, Payan Parra OA, Clark EG et al. Zygotic pioneer factor activity of Odd-paired/Zic is necessary for late function of the Drosophila segmentation network. Elife 2020 Apr 29;9. PMID: 32347792
  • Choi SY, Lee C, Heo MJ, Choi YM et al. Metformin ameliorates animal models of dermatitis. Inflammopharmacology 2020 Oct;28(5):1293-1300. PMID: 32347398
  • Niu Y, Tang D, Fan L, Gao W et al. CCL25 promotes the migration and invasion of non-small cell lung cancer cells by regulating VEGF and MMPs in a CCR9-dependent manner. Exp Ther Med 2020 Jun;19(6):3571-3580. PMID: 32346420
  • Li J, Su H, Zhu Y, Cao Y et al. ETS2 and microRNA-155 regulate the pathogenesis of heart failure through targeting and regulating GPR18 expression. Exp Ther Med 2020 Jun;19(6):3469-3478. PMID: 32346408
  • Wu Y, Qi T, Wang H, Zhang F et al. Promoter-anchored chromatin interactions predicted from genetic analysis of epigenomic data. Nat Commun 2020 Apr 28;11(1):2061. PMID: 32345984
  • Haider Z, Landfors M, Golovleva I, Erlanson M et al. DNA methylation and copy number variation profiling of T-cell lymphoblastic leukemia and lymphoma. Blood Cancer J 2020 Apr 28;10(4):45. PMID: 32345961
  • Netti GS, Lucarelli G, Spadaccino F, Castellano G et al. PTX3 modulates the immunoflogosis in tumor microenvironment and is a prognostic factor for patients with clear cell renal cell carcinoma. Aging (Albany NY) 2020 Apr 28;12(8):7585-7602. PMID: 32345771
  • Osborn DPS, Li K, Cutty SJ, Nelson AC et al. Fgf-driven Tbx protein activities directly induce myf5 and myod to initiate zebrafish myogenesis. Development 2020 Apr 28;147(8). PMID: 32345657
  • Madenspacher JH, Morrell ED, Gowdy KM, McDonald JG et al. Cholesterol 25-hydroxylase promotes efferocytosis and resolution of lung inflammation. JCI Insight 2020 Jun 4;5(11). PMID: 32343675
  • Hunt BG, Wicker CA, Bourn JR, Lower EE et al. MST1R (RON) expression is a novel prognostic biomarker for metastatic progression in breast cancer patients. Breast Cancer Res Treat 2020 Jun;181(3):529-540. PMID: 32342233
  • Peng HCFSP: a collaborative frequent sequence pattern discovery algorithm for nucleic acid sequence classification. PeerJ 2020;8:e8965. PMID: 32341900
  • Donovan LK, Delaidelli A, Joseph SK, Bielamowicz K et al. Locoregional delivery of CAR T cells to the cerebrospinal fluid for treatment of metastatic medulloblastoma and ependymoma. Nat Med 2020 May;26(5):720-731. PMID: 32341580
  • Bryois J, Skene NG, Hansen TF, Kogelman LJA et al. Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson's disease. Nat Genet 2020 May;52(5):482-493. PMID: 32341526
  • Whisnant AW, Jürges CS, Hennig T, Wyler E et al. Integrative functional genomics decodes herpes simplex virus 1. Nat Commun 2020 Apr 27;11(1):2038. PMID: 32341360
  • Ou Q, Ma N, Yu Z, Wang R et al. Nudix hydrolase 1 is a prognostic biomarker in hepatocellular carcinoma. Aging (Albany NY) 2020 Apr 27;12(8):7363-7379. PMID: 32341205
  • Gao M, Kong W, Huang Z, Xie Z et al. Identification of Key Genes Related to Lung Squamous Cell Carcinoma Using Bioinformatics Analysis. Int J Mol Sci 2020 Apr 23;21(8). PMID: 32340320
  • Grandi N, Pisano MP, Scognamiglio S, Pessiu E et al. Comprehensive Analysis of HERV Transcriptome in HIV+ Cells: Absence of HML2 Activation and General Downregulation of Individual HERV Loci. Viruses 2020 Apr 23;12(4). PMID: 32340287
  • Wang W, Shen J, Qi C, Pu J et al. The key candidate genes in tubulointerstitial injury of chronic kidney diseases patients as determined by bioinformatic analysis. Cell Biochem Funct 2020 Aug;38(6):761-772. PMID: 32340064
  • Kelly-Scumpia KM, Choi A, Shirazi R, Bersabe H et al. ER Stress Regulates Immunosuppressive Function of Myeloid Derived Suppressor Cells in Leprosy that Can Be Overcome in the Presence of IFN-γ. iScience 2020 May 22;23(5):101050. PMID: 32339990
  • Zhang J, Chen M, Zhao Y, Xiong H et al. Complement and coagulation cascades pathway correlates with chemosensitivity and overall survival in patients with soft tissue sarcoma. Eur J Pharmacol 2020 Jul 15;879:173121. PMID: 32339514
  • Liu N, Qi M, Li K, Zeng W et al. CD147 regulates melanoma metastasis via the NFAT1-MMP-9 pathway. Pigment Cell Melanoma Res 2020 Sep;33(5):731-743. PMID: 32339381
  • Shen Y, Dong S, Liu J, Zhang L et al. Identification of Potential Biomarkers for Thyroid Cancer Using Bioinformatics Strategy: A Study Based on GEO Datasets. Biomed Res Int 2020;2020:9710421. PMID: 32337286
  • Yang L, He Y, Zhang Z, Wang W et al. Upregulation of CEP55 Predicts Dismal Prognosis in Patients with Liver Cancer. Biomed Res Int 2020;2020:4139320. PMID: 32337246
  • Zhang Y, Yang L, Shi J, Lu Y et al. The Oncogenic Role of CENPA in Hepatocellular Carcinoma Development: Evidence from Bioinformatic Analysis. Biomed Res Int 2020;2020:3040839. PMID: 32337237
  • Lasorsa VA, Cimmino F, Ognibene M, Mazzocco K et al. 19p loss is significantly enriched in older age neuroblastoma patients and correlates with poor prognosis. NPJ Genom Med 2020;5:18. PMID: 32337068
  • Da Z, Gao L, Su G, Yao J et al. Bioinformatics combined with quantitative proteomics analyses and identification of potential biomarkers in cholangiocarcinoma. Cancer Cell Int 2020;20:130. PMID: 32336950
  • Zhang HP, Yu ZL, Wu BB, Sun FR et al. PENK inhibits osteosarcoma cell migration by activating the PI3K/Akt signaling pathway. J Orthop Surg Res 2020 Apr 25;15(1):162. PMID: 32334633
  • Foroughi Pour A, Pietrzak M, Dalton LA, Rempała GA et al. High dimensional model representation of log-likelihood ratio: binary classification with expression data. BMC Bioinformatics 2020 Apr 25;21(1):156. PMID: 32334509
  • Mattesen TB, Rasmussen MH, Sandoval J, Ongen H et al. MethCORR modelling of methylomes from formalin-fixed paraffin-embedded tissue enables characterization and prognostication of colorectal cancer. Nat Commun 2020 Apr 24;11(1):2025. PMID: 32332866
  • Liu D, Shoag JE, Poliak D, Goueli RS et al. Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes. Nat Commun 2020 Apr 24;11(1):1987. PMID: 32332823
  • Sznajder ŁJ, Scotti MM, Shin J, Taylor K et al. Loss of MBNL1 induces RNA misprocessing in the thymus and peripheral blood. Nat Commun 2020 Apr 24;11(1):2022. PMID: 32332745
  • Nguyen DTT, Lu Y, Chu KL, Yang X et al. HyperTRIBE uncovers increased MUSASHI-2 RNA binding activity and differential regulation in leukemic stem cells. Nat Commun 2020 Apr 24;11(1):2026. PMID: 32332729
  • Jiang Q, Gu S et al. Sevoflurane Postconditioning Reduces Hypoxia-Reoxygenation Injury in H9C2 Embryonic Rat Cardiomyocytes and Targets the STRADA Gene by Upregulating microRNA-107. Med Sci Monit 2020 Apr 25;26:e920849. PMID: 32332694
  • Iyer A, Gupta K, Sharma S, Hari K et al. Integrative Analysis and Machine Learning based Characterization of Single Circulating Tumor Cells. J Clin Med 2020 Apr 22;9(4). PMID: 32331451
  • Oshi M, Takahashi H, Tokumaru Y, Yan L et al. G2M Cell Cycle Pathway Score as a Prognostic Biomarker of Metastasis in Estrogen Receptor (ER)-Positive Breast Cancer. Int J Mol Sci 2020 Apr 22;21(8). PMID: 32331421
  • Di Genua C, Valletta S, Buono M, Stoilova B et al. C/EBPα and GATA-2 Mutations Induce Bilineage Acute Erythroid Leukemia through Transformation of a Neomorphic Neutrophil-Erythroid Progenitor. Cancer Cell 2020 May 11;37(5):690-704.e8. PMID: 32330454
  • Xiong M, Wang YY, Guo WW, Cai SW et al. A common variant rs2272804 in the 5'UTR of RIBC2 inhibits downstream gene expression by creating an upstream open reading frame. Eur Rev Med Pharmacol Sci 2020 Apr;24(7):3839-3848. PMID: 32329860
  • Song Q, Lee J, Akter S, Rogers M et al. Prediction of condition-specific regulatory genes using machine learning. Nucleic Acids Res 2020 Jun 19;48(11):e62. PMID: 32329779
  • Luo D, Liu Q, Shan Z, Cai S et al. Development and validation of a novel epigenetic signature for predicting prognosis in colon cancer. J Cell Physiol 2020 Nov;235(11):8714-8723. PMID: 32329069
  • Liu Z, Zhang R, Sun Z, Yao J et al. Identification of hub genes and small-molecule compounds in medulloblastoma by integrated bioinformatic analyses. PeerJ 2020;8:e8670. PMID: 32328342
  • Wang H, Wang X, Xu L, Zhang J et al. Prognostic significance of age related genes in patients with lower grade glioma. J Cancer 2020;11(13):3986-3999. PMID: 32328202
  • Zhang Z, Xu L, He L, Wang J et al. MiR-891a-5p as a prognostic marker and therapeutic target for hormone receptor-positive breast cancer. J Cancer 2020;11(13):3771-3782. PMID: 32328182
  • Liu H, Yang Q, Xiong Y, Xiong Z et al. Improved Prognostic Prediction of Glioblastoma using a PAS Detected from Single-cell RNA-seq. J Cancer 2020;11(13):3751-3761. PMID: 32328180
  • Yu X, Gong X, Jiang H et al. Heterogeneous multiple kernel learning for breast cancer outcome evaluation. BMC Bioinformatics 2020 Apr 23;21(1):155. PMID: 32326887
  • Barral-Arca R, Gómez-Carballa A, Cebey-López M, Currás-Tuala MJ et al. RNA-Seq Data-Mining Allows the Discovery of Two Long Non-Coding RNA Biomarkers of Viral Infection in Humans. Int J Mol Sci 2020 Apr 15;21(8). PMID: 32326627
  • Patel AN, Mathew D et al. A Study of Gene Expression Changes in Human Spinal and Oculomotor Neurons; Identifying Potential Links to Sporadic ALS. Genes (Basel) 2020 Apr 20;11(4). PMID: 32325953
  • Siriwach R, Matsuda F, Yano K, Hirai MY et al. Drought Stress Responses in Context-Specific Genome-Scale Metabolic Models of Arabidopsis thaliana. Metabolites 2020 Apr 18;10(4). PMID: 32325728
  • Bhalla S, Kaur H, Kaur R, Sharma S et al. Expression based biomarkers and models to classify early and late-stage samples of Papillary Thyroid Carcinoma. PLoS One 2020;15(4):e0231629. PMID: 32324757
  • Zhang Q, Zuo H, Yu S, Lin Y et al. RUNX2 co-operates with EGR1 to regulate osteogenic differentiation through Htra1 enhancers. J Cell Physiol 2020 Nov;235(11):8601-8612. PMID: 32324256
  • Oberhuber M, Pecoraro M, Rusz M, Oberhuber G et al. STAT3-dependent analysis reveals PDK4 as independent predictor of recurrence in prostate cancer. Mol Syst Biol 2020 Apr;16(4):e9247. PMID: 32323921
  • Yang L, Han N, Zhang X, Zhou Y et al. ZWINT: A potential therapeutic biomarker in patients with glioblastoma correlates with cell proliferation and invasion. Oncol Rep 2020 Jun;43(6):1831-1844. PMID: 32323832
  • Qin L, Zeng J, Shi N, Chen L et al. Application of weighted gene co‑expression network analysis to explore the potential diagnostic biomarkers for colorectal cancer. Mol Med Rep 2020 Jun;21(6):2533-2543. PMID: 32323816
  • Dong S, Men W, Yang S, Xu S et al. Identification of lung adenocarcinoma biomarkers based on bioinformatic analysis and human samples. Oncol Rep 2020 May;43(5):1437-1450. PMID: 32323809
  • Geng Y, Zhao S, Jia Y, Xia G et al. miR‑95 promotes osteosarcoma growth by targeting SCNN1A. Oncol Rep 2020 May;43(5):1429-1436. PMID: 32323794
  • Yang J, Li Y, Yu Z, Zhou Y et al. Circular RNA Circ100084 functions as sponge of miR‑23a‑5p to regulate IGF2 expression in hepatocellular carcinoma. Mol Med Rep 2020 Jun;21(6):2395-2404. PMID: 32323783
  • Sun Y, Chen R, Zhu D, Shen ZQ et al. Osteoking improves OP rat by enhancing HSP90‑β expression. Int J Mol Med 2020 May;45(5):1543-1553. PMID: 32323753
  • Yang Z, Yin H, Shi L, Qian X et al. A novel microRNA signature for pathological grading in lung adenocarcinoma based on TCGA and GEO data. Int J Mol Med 2020 May;45(5):1397-1408. PMID: 32323746
  • Abouhashem AS, Singh K, Azzazy HME, Sen CK et al. Is Low Alveolar Type II Cell SOD3 in the Lungs of Elderly Linked to the Observed Severity of COVID-19? Antioxid Redox Signal 2020 Jul 10;33(2):59-65. PMID: 32323565
  • Li Z, Dai Z et al. SRHiC: A Deep Learning Model to Enhance the Resolution of Hi-C Data. Front Genet 2020;11:353. PMID: 32322265
  • Dang D, Taheri S, Das S, Ghosh P et al. Computational Approach to Identifying Universal Macrophage Biomarkers. Front Physiol 2020;11:275. PMID: 32322218
  • Zeng X, Lee HK, Wang C, Achikeh P et al. The interdependence of mammary-specific super-enhancers and their native promoters facilitates gene activation during pregnancy. Exp Mol Med 2020 Apr;52(4):682-690. PMID: 32321991
  • Nieuwenhuis TO, Yang SY, Verma RX, Pillalamarri V et al. Consistent RNA sequencing contamination in GTEx and other data sets. Nat Commun 2020 Apr 22;11(1):1933. PMID: 32321923
  • Rahim MMA, Parsons BD, Price EL, Slaine PD et al. Defective Influenza A Virus RNA Products Mediate MAVS-Dependent Upregulation of Human Leukocyte Antigen Class I Proteins. J Virol 2020 Jun 16;94(13). PMID: 32321802
  • Reske JJ, Wilson MR, Chandler RL et al. ATAC-seq normalization method can significantly affect differential accessibility analysis and interpretation. Epigenetics Chromatin 2020 Apr 22;13(1):22. PMID: 32321567
  • Workman MJ, Svendsen CN et al. Recent advances in human iPSC-derived models of the blood-brain barrier. Fluids Barriers CNS 2020 Apr 22;17(1):30. PMID: 32321511
  • Zhang K, Yu F, Zhu J, Han S et al. Imbalance of Excitatory/Inhibitory Neuron Differentiation in Neurodevelopmental Disorders with an NR2F1 Point Mutation. Cell Rep 2020 Apr 21;31(3):107521. PMID: 32320667
  • Corso-Díaz X, Gentry J, Rebernick R, Jaeger C et al. Genome-wide Profiling Identifies DNA Methylation Signatures of Aging in Rod Photoreceptors Associated with Alterations in Energy Metabolism. Cell Rep 2020 Apr 21;31(3):107525. PMID: 32320661
  • Keating ST, Groh L, van der Heijden CDCC, Rodriguez H et al. The Set7 Lysine Methyltransferase Regulates Plasticity in Oxidative Phosphorylation Necessary for Trained Immunity Induced by β-Glucan. Cell Rep 2020 Apr 21;31(3):107548. PMID: 32320649
  • Novais EJ, Tran VA, Miao J, Slaver K et al. Comparison of inbred mouse strains shows diverse phenotypic outcomes of intervertebral disc aging. Aging Cell 2020 May;19(5):e13148. PMID: 32319726
  • Li Z, Zhu H, Guo Y, Du X et al. Gut microbiota regulate cognitive deficits and amyloid deposition in a model of Alzheimer's disease. J Neurochem 2020 Nov;155(4):448-461. PMID: 32319677
  • Kaushik AC, Mehmood A, Wei DQ, Dai X et al. Systems Biology Integration and Screening of Reliable Prognostic Markers to Create Synergies in the Control of Lung Cancer Patients. Front Mol Biosci 2020;7:47. PMID: 32318583
  • Wang J, Wang Y, Han L, Shahen M et al. Multi-Omics Integration Reveals a Competitive Endogenous RNAs Network for the Identification of Progression Biomarkers and the Stratification of Patients Diagnosed With Nephroblastoma. Front Oncol 2020;10:444. PMID: 32318341
  • Conforte AJ, Alves L, Coelho FC, Carels N et al. Modeling Basins of Attraction for Breast Cancer Using Hopfield Networks. Front Genet 2020;11:314. PMID: 32318098
  • Li HT, Liu Y, Liu H, Sun X et al. Effect for Human Genomic Variation During the BMP4-Induced Conversion From Pluripotent Stem Cells to Trophoblast. Front Genet 2020;11:230. PMID: 32318089
  • Zhang G, Xu S, Zhang Z, Zhang Y et al. Identification of Key Genes and the Pathophysiology Associated With Major Depressive Disorder Patients Based on Integrated Bioinformatics Analysis. Front Psychiatry 2020;11:192. PMID: 32317989
  • Fan J, Li J, Guo S, Tao C et al. Genome-wide DNA methylation profiles of low- and high-grade adenoma reveals potential biomarkers for early detection of colorectal carcinoma. Clin Epigenetics 2020 Apr 21;12(1):56. PMID: 32317010
  • Su KM, Lin TW, Liu LC, Yang YP et al. The Potential Role of Complement System in the Progression of Ovarian Clear Cell Carcinoma Inferred from the Gene Ontology-Based Immunofunctionome Analysis. Int J Mol Sci 2020 Apr 17;21(8). PMID: 32316695
  • Zhang Y, Wang J, Liu X et al. LRRC19-A Bridge between Selenium Adjuvant Therapy and Renal Clear Cell Carcinoma: A Study Based on Datamining. Genes (Basel) 2020 Apr 17;11(4). PMID: 32316597
  • Yeh IJ, Liu KT, Shen JH, Wu YH et al. Identification of the Potential Prognostic Markers from the miRNA-lncRNA-mRNA Interactions for Metastatic Renal Cancer via Next-Generation Sequencing and Bioinformatics. Diagnostics (Basel) 2020 Apr 16;10(4). PMID: 32316228
  • Bajor M, Graczyk-Jarzynka A, Marhelava K, Kurkowiak M et al. Triple Combination of Ascorbate, Menadione and the Inhibition of Peroxiredoxin-1 Produces Synergistic Cytotoxic Effects in Triple-Negative Breast Cancer Cells. Antioxidants (Basel) 2020 Apr 16;9(4). PMID: 32316111
  • Cheng G, Yu Y, Wang L, Pan Q et al. Overexpression of LINC00160 predicts poor outcome and promotes progression of clear cell renal cell carcinoma. Aging (Albany NY) 2020 Apr 21;12(8):7448-7464. PMID: 32315986
  • Sladitschek HL, Fiuza UM, Pavlinic D, Benes V et al. MorphoSeq: Full Single-Cell Transcriptome Dynamics Up to Gastrulation in a Chordate. Cell 2020 May 14;181(4):922-935.e21. PMID: 32315617
  • Griffiths PR, Lolait SJ, Bijabhai A, O'Carroll-Lolait A et al. Increased apelin receptor gene expression in the subfornical organ of spontaneously hypertensive rats. PLoS One 2020;15(4):e0231844. PMID: 32315363
  • Owen KL, Gearing LJ, Zanker DJ, Brockwell NK et al. Prostate cancer cell-intrinsic interferon signaling regulates dormancy and metastatic outgrowth in bone. EMBO Rep 2020 Jun 4;21(6):e50162. PMID: 32314873
  • Carmona SJ, Siddiqui I, Bilous M, Held W et al. Deciphering the transcriptomic landscape of tumor-infiltrating CD8 lymphocytes in B16 melanoma tumors with single-cell RNA-Seq. Oncoimmunology 2020;9(1):1737369. PMID: 32313720
  • Zhou Y, Zhang J, Li H, Huang T et al. AMOTL1 enhances YAP1 stability and promotes YAP1-driven gastric oncogenesis. Oncogene 2020 May;39(22):4375-4389. PMID: 32313226
  • Wang Y, Rhee KD, Pellegrini M, Yang XJ et al. Impacts of ciliary neurotrophic factor on the retinal transcriptome in a mouse model of photoreceptor degeneration. Sci Rep 2020 Apr 20;10(1):6593. PMID: 32313077
  • Huang R, Mao M, Lu Y, Yu Q et al. A novel immune-related genes prognosis biomarker for melanoma: associated with tumor microenvironment. Aging (Albany NY) 2020 Apr 20;12(8):6966-6980. PMID: 32310824
  • Ren J, Zhang B, Wei D, Zhang Z et al. Identification of Methylated Gene Biomarkers in Patients with Alzheimer's Disease Based on Machine Learning. Biomed Res Int 2020;2020:8348147. PMID: 32309439
  • Xu D, Xu Y, Lv Y, Wu F et al. Identification of Four Pathological Stage-Relevant Genes in Association with Progression and Prognosis in Clear Cell Renal Cell Carcinoma by Integrated Bioinformatics Analysis. Biomed Res Int 2020;2020:2137319. PMID: 32309427
  • Liu A, Zhao H, Sun B, Han X et al. A predictive analysis approach for paediatric and adult high-grade glioma: miRNAs and network insight. Ann Transl Med 2020 Mar;8(5):242. PMID: 32309389
  • Qi W, Wang B, Yang M, Zhu L et al. The implementation of drug reposition for alcoholic hepatitis based on a sub-pathway integration strategy. Ann Transl Med 2020 Mar;8(5):208. PMID: 32309355
  • Chen C, Chen S, Luo M, Yan H et al. The role of the CDCA gene family in ovarian cancer. Ann Transl Med 2020 Mar;8(5):190. PMID: 32309337
  • Dong Y, Yan S, Li GY, Wang MN et al. Identification of key candidate genes and pathways revealing the protective effect of liraglutide on diabetic cardiac muscle by integrated bioinformatics analysis. Ann Transl Med 2020 Mar;8(5):181. PMID: 32309328
  • Rostami-Nejad M, Razzaghi Z, Esmaeili S, Rezaei-Tavirani S et al. Immunological reactions by T cell and regulation of crucial genes in treated celiac disease patients. Gastroenterol Hepatol Bed Bench 2020 Spring;13(2):155-160. PMID: 32308937
  • Niu M, Zhang J, Li Y, Wang C et al. CirRNAPL: A web server for the identification of circRNA based on extreme learning machine. Comput Struct Biotechnol J 2020;18:834-842. PMID: 32308930
  • Diwadkar AR, Kan M, Himes BE et al. Facilitating Analysis of Publicly Available ChIP-Seq Data for Integrative Studies. AMIA Annu Symp Proc 2019;2019:371-379. PMID: 32308830
  • Liang L, Zhang L, Zhang J, Bai S et al. Identification of circRNA-miRNA-mRNA Networks for Exploring the Fundamental Mechanism in Lung Adenocarcinoma. Onco Targets Ther 2020;13:2945-2955. PMID: 32308427
  • Kong J, Wang W et al. A Systemic Review on the Regulatory Roles of miR-34a in Gastrointestinal Cancer. Onco Targets Ther 2020;13:2855-2872. PMID: 32308419
  • Ge W, Jiang M, Zhang F, Ma Y et al. ZGRF1 Is Associated with Poor Prognosis in Triple-Negative Breast Cancer and Promotes Cancer Stemness Based on Bioinformatics. Onco Targets Ther 2020;13:2843-2854. PMID: 32308418
  • Galamb O, Kalmár A, Sebestyén A, Dankó T et al. Promoter Hypomethylation and Increased Expression of the Long Non-coding RNA LINC00152 Support Colorectal Carcinogenesis. Pathol Oncol Res 2020 Oct;26(4):2209-2223. PMID: 32307642
  • Yuan Y, Shi X, Li B, Peng M et al. Integrated analysis of key microRNAs /TFs /mRNAs/ in HPV-positive cervical cancer based on microRNA sequencing and bioinformatics analysis. Pathol Res Pract 2020 Jun;216(6):152952. PMID: 32307200
  • Takele Assefa A, Vandesompele J, Thas O et al. On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments. BMC Genomics 2020 Apr 19;21(1):312. PMID: 32306892
  • Ju M, Qi A, Bi J, Zhao L et al. A five-mRNA signature associated with post-translational modifications can better predict recurrence and survival in cervical cancer. J Cell Mol Med 2020 Jun;24(11):6283-6297. PMID: 32306508
  • Zhou Z, Wu B, Tang X, Yang W et al. High SET Domain Bifurcated 1 (SETDB1) Expression Predicts Poor Prognosis in Breast Carcinoma. Med Sci Monit 2020 Apr 19;26:e922982. PMID: 32305991
  • Zhang X, Zhang Q, Wu Q, Tang H et al. Integrated analyses reveal hsa_circ_0028883 as a diagnostic biomarker in active tuberculosis. Infect Genet Evol 2020 Sep;83:104323. PMID: 32305357
  • Wu Z, Wang YM, Dai Y, Chen LA et al. POLE2 Serves as a Prognostic Biomarker and Is Associated with Immune Infiltration in Squamous Cell Lung Cancer. Med Sci Monit 2020 Apr 18;26:e921430. PMID: 32304567
  • Zhou J, Li W, Ming J, Yang W et al. High expression of TRAF4 predicts poor prognosis in tamoxifen-treated breast cancer and promotes tamoxifen resistance. Anticancer Drugs 2020 Jul;31(6):558-566. PMID: 32304412
  • Verboon JM, Mahmut D, Kim AR, Nakamura M et al. Infantile Myelofibrosis and Myeloproliferation with CDC42 Dysfunction. J Clin Immunol 2020 May;40(4):554-566. PMID: 32303876
  • Villard O, Armanet M, Couderc G, Bony C et al. Characterization of immortalized human islet stromal cells reveals a MSC-like profile with pancreatic features. Stem Cell Res Ther 2020 Apr 17;11(1):158. PMID: 32303252
  • Wang J, Xiang D, Mei S, Jin Y et al. The novel long noncoding RNA Lnc19959.2 modulates triglyceride metabolism-associated genes through the interaction with Purb and hnRNPA2B1. Mol Metab 2020 Jul;37:100996. PMID: 32302712
  • Amândio AR, Lopez-Delisle L, Bolt CC, Mascrez B et al. A complex regulatory landscape involved in the development of mammalian external genitals. Elife 2020 Apr 17;9. PMID: 32301703
  • Yu DH, Ruan XL, Huang JY, Liu XP et al. Analysis of the Interaction Network of Hub miRNAs-Hub Genes, Being Involved in Idiopathic Pulmonary Fibers and Its Emerging Role in Non-small Cell Lung Cancer. Front Genet 2020;11:302. PMID: 32300359
  • Wu H, Liu B, Chen Z, Li G et al. MSC-induced lncRNA HCP5 drove fatty acid oxidation through miR-3619-5p/AMPK/PGC1α/CEBPB axis to promote stemness and chemo-resistance of gastric cancer. Cell Death Dis 2020 Apr 16;11(4):233. PMID: 32300102
  • Gerlach MM, Stelling-Germani A, Ting Wu C, Newrzela S et al. SMAD1 promoter hypermethylation and lack of SMAD1 expression in Hodgkin lymphoma: a potential target for hypomethylating drug therapy. Haematologica 2021 Feb 1;106(2):619-621. PMID: 32299904
  • Maas SLN, Abels ER, Van De Haar LL, Zhang X et al. Glioblastoma hijacks microglial gene expression to support tumor growth. J Neuroinflammation 2020 Apr 16;17(1):120. PMID: 32299465
  • Jin X, Guan Y, Zhang Z, Wang H et al. Microarray data analysis on gene and miRNA expression to identify biomarkers in non-small cell lung cancer. BMC Cancer 2020 Apr 16;20(1):329. PMID: 32299382
  • Ye Z, Sun B, Xiao Z et al. Machine learning identifies 10 feature miRNAs for lung squamous cell carcinoma. Gene 2020 Jul 30;749:144669. PMID: 32298761
  • Zhang S, Lu Y, Liu Z, Li X et al. Identification Six Metabolic Genes as Potential Biomarkers for Lung Adenocarcinoma. J Comput Biol 2020 Oct;27(10):1532-1543. PMID: 32298601
  • Korolkova OY, Widatalla SE, Whalen DS, Nangami GN et al. Reciprocal expression of Annexin A6 and RasGRF2 discriminates rapidly growing from invasive triple negative breast cancer subsets. PLoS One 2020;15(4):e0231711. PMID: 32298357
  • Purrington KS, Knight J 3rd, Dyson G, Ali-Fehmi R et al. CLCA2 expression is associated with survival among African American women with triple negative breast cancer. PLoS One 2020;15(4):e0231712. PMID: 32298355
  • Li M, Chen L, Zhang J, Xiong C et al. The SARS-CoV-2 receptor ACE2 expression of maternal-fetal interface and fetal organs by single-cell transcriptome study. PLoS One 2020;15(4):e0230295. PMID: 32298273
  • Wang D, Wang T, Gill A, Hilliard T et al. Uncovering the cellular capacity for intensive and specific feedback self-control of the argonautes and MicroRNA targeting activity. Nucleic Acids Res 2020 May 21;48(9):4681-4697. PMID: 32297952
  • Mondal B, Jin H, Kallappagoudar S, Sedkov Y et al. The histone deacetylase complex MiDAC regulates a neurodevelopmental gene expression program to control neurite outgrowth. Elife 2020 Apr 16;9. PMID: 32297854
  • Athanasiou AT, Nussbaumer T, Kummer S, Hofer M et al. S100A4 mRNA-protein relationship uncovered by measurement noise reduction. J Mol Med (Berl) 2020 May;98(5):735-749. PMID: 32296879
  • Zhang M, Cheng L, Zhang Y et al. Characterization of Dysregulated lncRNA-Associated ceRNA Network Reveals Novel lncRNAs With ceRNA Activity as Epigenetic Diagnostic Biomarkers for Osteoporosis Risk. Front Cell Dev Biol 2020;8:184. PMID: 32296700
  • Koskela EV, Gonzalez Salcedo A, Piirainen MA, Iivonen HA et al. Mining Data From Plasma Cell Differentiation Identified Novel Genes for Engineering of a Yeast Antibody Factory. Front Bioeng Biotechnol 2020;8:255. PMID: 32296695
  • Sheng Y, Yanping C, Tong L, Ning L et al. Predicting the Risk of Melanoma Metastasis Using an Immune Risk Score in the Melanoma Cohort. Front Bioeng Biotechnol 2020;8:206. PMID: 32296685
  • Yang J, Wang L, Xu Z, Wu L et al. Integrated Analysis to Evaluate the Prognostic Value of Signature mRNAs in Glioblastoma Multiforme. Front Genet 2020;11:253. PMID: 32296458
  • Butenko S, Satyanarayanan SK, Assi S, Schif-Zuck S et al. Transcriptomic Analysis of Monocyte-Derived Non-Phagocytic Macrophages Favors a Role in Limiting Tissue Repair and Fibrosis. Front Immunol 2020;11:405. PMID: 32296415
  • Hirata AHL, Rocha LAJ, da Silva VA, de Almeida RJ et al. Circulating RNA Transcriptome of Pregnant Women with TSH Just Above the Trimester-Specific Reference and its Correlation with the Hypertensive Phenotype. Sci Rep 2020 Apr 15;10(1):6439. PMID: 32296081
  • Wang J, Lee JE, Riemondy K, Yu Y et al. XPO5 promotes primary miRNA processing independently of RanGTP. Nat Commun 2020 Apr 15;11(1):1845. PMID: 32296071
  • Mitra A, Andrews MC, Roh W, De Macedo MP et al. Spatially resolved analyses link genomic and immune diversity and reveal unfavorable neutrophil activation in melanoma. Nat Commun 2020 Apr 15;11(1):1839. PMID: 32296058
  • Gobet C, Weger BD, Marquis J, Martin E et al. Robust landscapes of ribosome dwell times and aminoacyl-tRNAs in response to nutrient stress in liver. Proc Natl Acad Sci U S A 2020 Apr 28;117(17):9630-9641. PMID: 32295881
  • Eisenstatt JR, Boeckmann L, Au WC, Garcia V et al. Dbf4-Dependent Kinase (DDK)-Mediated Proteolysis of CENP-A Prevents Mislocalization of CENP-A in Saccharomyces cerevisiae. G3 (Bethesda) 2020 Jun 1;10(6):2057-2068. PMID: 32295767
  • Lai YT, Chao HW, Lai AC, Lin SH et al. CPEB2-activated PDGFRα mRNA translation contributes to myofibroblast proliferation and pulmonary alveologenesis. J Biomed Sci 2020 Apr 15;27(1):52. PMID: 32295602
  • Koppenhöfer S, Lang AS et al. Interactions among Redox Regulators and the CtrA Phosphorelay in Dinoroseobacter shibae and Rhodobacter capsulatus. Microorganisms 2020 Apr 14;8(4). PMID: 32295208
  • Marayati BF, Tucker JF, Cerda DA, Hou TC et al. The Catalytic-Dependent and -Independent Roles of Lsd1 and Lsd2 Lysine Demethylases in Heterochromatin Formation in Schizosaccharomyces pombe. Cells 2020 Apr 13;9(4). PMID: 32295063
  • You J, Qi S, Du Y, Wang C et al. Multiple Bioinformatics Analyses of Integrated Gene Expression Profiling Data and Verification of Hub Genes Associated with Diabetic Retinopathy. Med Sci Monit 2020 Apr 15;26:e923146. PMID: 32294661
  • Justice M, Carico ZM, Stefan HC, Dowen JM et al. A WIZ/Cohesin/CTCF Complex Anchors DNA Loops to Define Gene Expression and Cell Identity. Cell Rep 2020 Apr 14;31(2):107503. PMID: 32294452
  • Park CJ, Lin PC, Zhou S, Barakat R et al. Progesterone Receptor Serves the Ovary as a Trigger of Ovulation and a Terminator of Inflammation. Cell Rep 2020 Apr 14;31(2):107496. PMID: 32294429
  • Jackson-Jones LH, Smith P, Portman JR, Magalhaes MS et al. Stromal Cells Covering Omental Fat-Associated Lymphoid Clusters Trigger Formation of Neutrophil Aggregates to Capture Peritoneal Contaminants. Immunity 2020 Apr 14;52(4):700-715.e6. PMID: 32294409
  • Wang S, Lee S, Chu C, Jain D et al. HiNT: a computational method for detecting copy number variations and translocations from Hi-C data. Genome Biol 2020 Mar 23;21(1):73. PMID: 32293513
  • Schumann U, Zhang HN, Sibbritt T, Pan A et al. Multiple links between 5-methylcytosine content of mRNA and translation. BMC Biol 2020 Apr 15;18(1):40. PMID: 32293435
  • Li X, Yu W, Liang C, Xu Y et al. INHBA is a prognostic predictor for patients with colon adenocarcinoma. BMC Cancer 2020 Apr 15;20(1):305. PMID: 32293338
  • Liu Y, Liu H, Li Y, Mao R et al. Circular RNA SAMD4A controls adipogenesis in obesity through the miR-138-5p/EZH2 axis. Theranostics 2020;10(10):4705-4719. PMID: 32292524
  • Liu M, Yao B, Gui T, Guo C et al. PRMT5-dependent transcriptional repression of c-Myc target genes promotes gastric cancer progression. Theranostics 2020;10(10):4437-4452. PMID: 32292506
  • Moor MB, Bonny O et al. Memo1 gene expression in kidney and bone is unaffected by dietary mineral load and calciotropic hormones. Physiol Rep 2020 Apr;8(7):e14410. PMID: 32291966
  • Zhao G, Luo X, Han X, Liu Z et al. Combining bioinformatics and biological detection to identify novel biomarkers for diagnosis and prognosis of pulmonary tuberculosis. Saudi Med J 2020 Apr;41(4):351-360. PMID: 32291421
  • Cave DD, Di Guida M, Costa V, Sevillano M et al. TGF-β1 secreted by pancreatic stellate cells promotes stemness and tumourigenicity in pancreatic cancer cells through L1CAM downregulation. Oncogene 2020 May;39(21):4271-4285. PMID: 32291413
  • Alakwaa FMRepurposing Didanosine as a Potential Treatment for COVID-19 Using Single-Cell RNA Sequencing Data. mSystems 2020 Apr 14;5(2). PMID: 32291351
  • Jones MG, Khodaverdian A, Quinn JJ, Chan MM et al. Inference of single-cell phylogenies from lineage tracing data using Cassiopeia. Genome Biol 2020 Apr 14;21(1):92. PMID: 32290857
  • Miller HE, Gorthi A, Bassani N, Lawrence LA et al. Reconstruction of Ewing Sarcoma Developmental Context from Mass-Scale Transcriptomics Reveals Characteristics of EWSR1-FLI1 Permissibility. Cancers (Basel) 2020 Apr 11;12(4). PMID: 32290418
  • Liu Y, Kim D, Choi N, Oh J et al. hnRNP A1 Regulates Alternative Splicing of Tau Exon 10 by Targeting 3' Splice Sites. Cells 2020 Apr 10;9(4). PMID: 32290247
  • Hwang JY, Jung S, Kook TL, Rouchka EC et al. rMAPS2: an update of the RNA map analysis and plotting server for alternative splicing regulation. Nucleic Acids Res 2020 Jul 2;48(W1):W300-W306. PMID: 32286627
  • Upton K, Modi A, Patel K, Kendsersky NM et al. Epigenomic profiling of neuroblastoma cell lines. Sci Data 2020 Apr 14;7(1):116. PMID: 32286315
  • Daniels J, Doukas PG, Escala MEM, Ringbloom KG et al. Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas. Nat Commun 2020 Apr 14;11(1):1806. PMID: 32286303
  • Fougner C, Bergholtz H, Norum JH, Sørlie T et al. Re-definition of claudin-low as a breast cancer phenotype. Nat Commun 2020 Apr 14;11(1):1787. PMID: 32286297
  • Chen M, Zhu Q, Li C, Kou X et al. Chromatin architecture reorganization in murine somatic cell nuclear transfer embryos. Nat Commun 2020 Apr 14;11(1):1813. PMID: 32286279
  • Li C, Liu B, Kang B, Liu Z et al. SciBet as a portable and fast single cell type identifier. Nat Commun 2020 Apr 14;11(1):1818. PMID: 32286268
  • Jiang K, Yao G, Hu L, Yan Y et al. MOB2 suppresses GBM cell migration and invasion via regulation of FAK/Akt and cAMP/PKA signaling. Cell Death Dis 2020 Apr 14;11(4):230. PMID: 32286266
  • Zhong L, Yao L, Tower RJ, Wei Y et al. Single cell transcriptomics identifies a unique adipose lineage cell population that regulates bone marrow environment. Elife 2020 Apr 14;9. PMID: 32286228
  • Yin Y, Zou YF, Xiao Y, Wang TX et al. Identification of Potential Hub Genes of Atherosclerosis Through Bioinformatic Analysis. J Comput Biol 2021 Jan;28(1):60-78. PMID: 32286084
  • Zhang ZY, Yao QZ, Liu HY, Guo QN et al. Metabolic reprogramming-associated genes predict overall survival for rectal cancer. J Cell Mol Med 2020 May;24(10):5842-5849. PMID: 32285560
  • Herrera-Merchan A, Cuadros M, Rodriguez MI, Rodriguez S et al. The value of lncRNA FENDRR and FOXF1 as a prognostic factor for survival of lung adenocarcinoma. Oncotarget 2020 Mar 31;11(13):1172-1185. PMID: 32284793
  • Yang H, Lu Y, Lan W, Huang B et al. Down-regulated Solute Carrier Family 4 Member 4 Predicts Poor Progression in Colorectal Cancer. J Cancer 2020;11(12):3675-3684. PMID: 32284764
  • Ma F, Li X, Fang H, Jin Y et al. Prognostic Value of ANXA8 in Gastric Carcinoma. J Cancer 2020;11(12):3551-3558. PMID: 32284751
  • Hwang I, Ahn JY et al. Dysregulation of Epigenetic Control Contributes to Schizophrenia-Like Behavior in Ebp1(+/-) Mice. Int J Mol Sci 2020 Apr 9;21(7). PMID: 32283721
  • Alfieri S, Carenzo A, Platini F, Serafini MS et al. Tumor Biomarkers for the Prediction of Distant Metastasis in Head and Neck Squamous Cell Carcinoma. Cancers (Basel) 2020 Apr 9;12(4). PMID: 32283719
  • Wang Z, Xu X et al. scRNA-seq Profiling of Human Testes Reveals the Presence of the ACE2 Receptor, A Target for SARS-CoV-2 Infection in Spermatogonia, Leydig and Sertoli Cells. Cells 2020 Apr 9;9(4). PMID: 32283711
  • Hu L, Zhao T, Sun Y, Chen Y et al. Bioinformatic identification of hub genes and key pathways in neutrophils of patients with acute respiratory distress syndrome. Medicine (Baltimore) 2020 Apr;99(15):e19820. PMID: 32282748
  • Lin YC, Chen MC, Hsieh TH, Liou JP et al. CK1δ as a potential therapeutic target to treat bladder cancer. Aging (Albany NY) 2020 Apr 13;12(7):5764-5780. PMID: 32282334
  • Agliata I, Fernandez-Jimenez N, Goldsmith C, Marie JC et al. The DNA methylome of inflammatory bowel disease (IBD) reflects intrinsic and extrinsic factors in intestinal mucosal cells. Epigenetics 2020 Oct;15(10):1068-1082. PMID: 32281463
  • Yue J, Wang R, Ma X, Liu J et al. Full-length transcriptome sequencing provides insights into the evolution of apocarotenoid biosynthesis in Crocus sativus. Comput Struct Biotechnol J 2020;18:774-783. PMID: 32280432
  • Zhai J, Qi A, Zhang Y, Jiao L et al. Bioinformatics Analysis for Multiple Gene Expression Profiles in Sepsis. Med Sci Monit 2020 Apr 13;26:e920818. PMID: 32280132
  • Cherlin T, Magee R, Jing Y, Pliatsika V et al. Ribosomal RNA fragmentation into short RNAs (rRFs) is modulated in a sex- and population of origin-specific manner. BMC Biol 2020 Apr 13;18(1):38. PMID: 32279660
  • Jones TI, Chew GL, Barraza-Flores P, Schreier S et al. Transgenic mice expressing tunable levels of DUX4 develop characteristic facioscapulohumeral muscular dystrophy-like pathophysiology ranging in severity. Skelet Muscle 2020 Apr 11;10(1):8. PMID: 32278354
  • Wang Y, Feng W, Liu P et al. Genotype-immunophenotype analysis reveals the immunogenomic subtype and prognosis of multiple myeloma. Carcinogenesis 2020 Dec 31;41(12):1746-1754. PMID: 32278317
  • Liu Z, Wang X, Yang G, Zhong C et al. Construction of lncRNA-associated ceRNA networks to identify prognostic lncRNA biomarkers for glioblastoma. J Cell Biochem 2020 Jul;121(7):3502-3515. PMID: 32277520
  • Liu W, Wang Y et al. Large-scale analysis of zebrafish (Danio rerio) transcriptomes identifies functional modules associated with phenotypes. Mar Genomics 2020 Oct;53:100770. PMID: 32276847
  • Wimmer M, Zauner R, Ablinger M, Piñón-Hofbauer J et al. A cancer stem cell-like phenotype is associated with miR-10b expression in aggressive squamous cell carcinomas. Cell Commun Signal 2020 Apr 10;18(1):61. PMID: 32276641
  • Sawalha AH, Zhao M, Coit P, Lu Q et al. Epigenetic dysregulation of ACE2 and interferon-regulated genes might suggest increased COVID-19 susceptibility and severity in lupus patients. Clin Immunol 2020 Jun;215:108410. PMID: 32276140
  • Daou R, Beißbarth T, Wingender E, Gültas M et al. Constructing temporal regulatory cascades in the context of development and cell differentiation. PLoS One 2020;15(4):e0231326. PMID: 32275727
  • Miao YR, Zhang Q, Lei Q, Luo M et al. ImmuCellAI: A Unique Method for Comprehensive T-Cell Subsets Abundance Prediction and its Application in Cancer Immunotherapy. Adv Sci (Weinh) 2020 Apr;7(7):1902880. PMID: 32274301
  • Safari S, Rostami-Nejad M, Rezaei-Tavirani M, Mansouri V et al. Assessment of Dysregulation of HERC6 and Essential Biological Processes in Response to Laser Therapy of Human Arm Skin. J Lasers Med Sci 2020 Spring;11(2):115-119. PMID: 32273950
  • Artham S, Verma A, Newsome AS, Somanath PR et al. Patients with acute respiratory distress syndrome exhibit increased stromelysin1 activity in the blood samples. Cytokine 2020 Jul;131:155086. PMID: 32272349
  • An L, Nie P, Chen M, Tang Y et al. MST4 kinase suppresses gastric tumorigenesis by limiting YAP activation via a non-canonical pathway. J Exp Med 2020 Jun 1;217(6). PMID: 32271880
  • Varma SBlind estimation and correction of microarray batch effect. PLoS One 2020;15(4):e0231446. PMID: 32271844
  • Wang BA Zipf-plot based normalization method for high-throughput RNA-seq data. PLoS One 2020;15(4):e0230594. PMID: 32271772
  • Kuksa PP, Amlie-Wolf A, Hwang YC, Valladares O et al. HIPPIE2: a method for fine-scale identification of physically interacting chromatin regions. NAR Genom Bioinform 2020 Jun;2(2):lqaa022. PMID: 32270138
  • Wen X, Yu X, Tian Y, Liu Z et al. Quantitative shear wave elastography in primary invasive breast cancers, based on collagen-S100A4 pathology, indicates axillary lymph node metastasis. Quant Imaging Med Surg 2020 Mar;10(3):624-633. PMID: 32269923
  • Zhang Y, Zhang Y, Wang J, Yang J et al. Abnormal expression of ABCD3 is an independent prognostic factor for colorectal cancer. Oncol Lett 2020 May;19(5):3567-3577. PMID: 32269631
  • Parrilla A, Barber M, Majem B, Castellví J et al. Aurora Borealis (Bora), Which Promotes Plk1 Activation by Aurora A, Has an Oncogenic Role in Ovarian Cancer. Cancers (Basel) 2020 Apr 6;12(4). PMID: 32268485
  • Wang F, Ye BG, Liu JZ, Kong DL et al. miR-487b and TRAK2 that form an axis to regulate the aggressiveness of osteosarcoma, are potential therapeutic targets and prognostic biomarkers. J Biochem Mol Toxicol 2020 Aug;34(8):e22511. PMID: 32267991
  • Zhai Y, Yu L, Shao Y, Wang J et al. Integrative genomics analysis of eQTL and GWAS summary data identifies PPP1CB as a novel bone mineral density risk genes. Biosci Rep 2020 Apr 30;40(4). PMID: 32266926
  • Liu F, Dong H, Mei Z, Huang T et al. Investigation of miRNA and mRNA Co-expression Network in Ependymoma. Front Bioeng Biotechnol 2020;8:177. PMID: 32266223
  • Guan X, Yao Y, Bao G, Wang Y et al. Diagnostic model of combined ceRNA and DNA methylation related genes in esophageal carcinoma. PeerJ 2020;8:e8831. PMID: 32266120
  • Wang Y, Wang J, Yan K, Lin J et al. Identification of core genes associated with prostate cancer progression and outcome via bioinformatics analysis in multiple databases. PeerJ 2020;8:e8786. PMID: 32266115
  • Guo J, Chaney KE, Choi K, Witek G et al. Polo-like kinase 1 as a therapeutic target for malignant peripheral nerve sheath tumors (MPNST) and schwannomas. Am J Cancer Res 2020;10(3):856-869. PMID: 32266095
  • Guo Q, Ke XX, Liu Z, Gao WL et al. Evaluation of the Prognostic Value of STEAP1 in Lung Adenocarcinoma and Insights Into Its Potential Molecular Pathways via Bioinformatic Analysis. Front Genet 2020;11:242. PMID: 32265985
  • Di Z, Di M, Fu W, Tang Q et al. Integrated Analysis Identifies a Nine-microRNA Signature Biomarker for Diagnosis and Prognosis in Colorectal Cancer. Front Genet 2020;11:192. PMID: 32265979
  • Abdelhamid L, Cabana-Puig X, Swartwout B, Lee J et al. Retinoic Acid Exerts Disease Stage-Dependent Effects on Pristane-Induced Lupus. Front Immunol 2020;11:408. PMID: 32265909
  • Zhang YF, Meng LB, Hao ML, Yang JF et al. Identification of Co-expressed Genes Between Atrial Fibrillation and Stroke. Front Neurol 2020;11:184. PMID: 32265825
  • Song Y, Sun Y, Sun T, Tang R et al. Comprehensive Bioinformatics Analysis Identifies Tumor Microenvironment and Immune-related Genes in Small Cell Lung Cancer. Comb Chem High Throughput Screen 2020;23(5):381-391. PMID: 32264809
  • Pereira J, Santos M, Delabio R, Barbosa M et al. Analysis of Gene Expression of miRNA-106b-5p and TRAIL in the Apoptosis Pathway in Gastric Cancer. Genes (Basel) 2020 Apr 5;11(4). PMID: 32260540
  • Zhang J, Khasanova E, Zhang L et al. Bioinformatics analysis of gene expression profiles of Inclusion body myositis. Scand J Immunol 2020 Jun;91(6):e12887. PMID: 32259312
  • Chen Z, Ma Y, Li X, Deng Z et al. The Immune Cell Landscape in Different Anatomical Structures of Knee in Osteoarthritis: A Gene Expression-Based Study. Biomed Res Int 2020;2020:9647072. PMID: 32258161
  • Wei J, Wang Y, Shi K, Wang Y et al. Identification of Core Prognosis-Related Candidate Genes in Cervical Cancer via Integrated Bioinformatical Analysis. Biomed Res Int 2020;2020:8959210. PMID: 32258155
  • Leng D, Huang X, Yi J, Zhao H et al. HYAL1 Is Downregulated in Idiopathic Pulmonary Fibrosis and Inhibits HFL-1 Fibroblast Proliferation When Upregulated. Biomed Res Int 2020;2020:3659451. PMID: 32258117
  • Zhu J, Wang M, Hu D et al. Deciphering N(6)-Methyladenosine-Related Genes Signature to Predict Survival in Lung Adenocarcinoma. Biomed Res Int 2020;2020:2514230. PMID: 32258108
  • Pan Y, Zhang Q, Deng X, An N et al. Gene coexpression network analysis revealed biomarkers correlated with blast cells and survival in acute myeloid leukemia. Mol Clin Oncol 2020 May;12(5):475-484. PMID: 32257206
  • Yi Y, Fang Y, Wu K, Liu Y et al. Comprehensive gene and pathway analysis of cervical cancer progression. Oncol Lett 2020 Apr;19(4):3316-3332. PMID: 32256826
  • Kieffer Y, Bonneau C, Popova T, Rouzier R et al. Clinical Interest of Combining Transcriptomic and Genomic Signatures in High-Grade Serous Ovarian Cancer. Front Genet 2020;11:219. PMID: 32256521
  • Hassan MZ, Ahmed MS, Khan MM, Uddin MA et al. Genomic profiling of Nipah virus using NGS driven RNA-Seq expression data. Bioinformation 2019;15(12):853-862. PMID: 32256005
  • Hassan A, Araguas Rodriguez P, Heidmann SK, Walmsley EL et al. Condensin I subunit Cap-G is essential for proper gene expression during the maturation of post-mitotic neurons. Elife 2020 Apr 7;9. PMID: 32255428
  • Heames B, Schmitz J, Bornberg-Bauer E et al. A Continuum of Evolving De Novo Genes Drives Protein-Coding Novelty in Drosophila. J Mol Evol 2020 May;88(4):382-398. PMID: 32253450
  • Sun C, Wang L, Wang H, Huang T et al. Single-cell RNA-seq highlights heterogeneity in human primary Wharton's jelly mesenchymal stem/stromal cells cultured in vitro. Stem Cell Res Ther 2020 Apr 6;11(1):149. PMID: 32252818
  • Huang J, Bai L, Cui B, Wu L et al. Leveraging biological and statistical covariates improves the detection power in epigenome-wide association testing. Genome Biol 2020 Apr 6;21(1):88. PMID: 32252795
  • Orjuela S, Menigatti M, Schraml P, Kambakamba P et al. The DNA hypermethylation phenotype of colorectal cancer liver metastases resembles that of the primary colorectal cancers. BMC Cancer 2020 Apr 6;20(1):290. PMID: 32252665
  • Li J, Jiang W, Liang Q, Liu G et al. A qualitative transcriptional signature to reclassify histological grade of ER-positive breast cancer patients. BMC Genomics 2020 Apr 6;21(1):283. PMID: 32252627
  • Yoon HJ, Kang J, Park H, Sohn I et al. Deciphering the tumor microenvironment through radiomics in non-small cell lung cancer: Correlation with immune profiles. PLoS One 2020;15(4):e0231227. PMID: 32251447
  • De Jesus DF, Orime K, Kaminska D, Kimura T et al. Parental metabolic syndrome epigenetically reprograms offspring hepatic lipid metabolism in mice. J Clin Invest 2020 May 1;130(5):2391-2407. PMID: 32250344
  • Banigan EJ, van den Berg AA, Brandão HB, Marko JF et al. Chromosome organization by one-sided and two-sided loop extrusion. Elife 2020 Apr 6;9. PMID: 32250245
  • Ayaz G, Razizadeh N, Yaşar P, Kars G et al. CXXC5 as an unmethylated CpG dinucleotide binding protein contributes to estrogen-mediated cellular proliferation. Sci Rep 2020 Apr 6;10(1):5971. PMID: 32249801
  • Ge MK, Zhang N, Xia L, Zhang C et al. FBXO22 degrades nuclear PTEN to promote tumorigenesis. Nat Commun 2020 Apr 6;11(1):1720. PMID: 32249768
  • Matsumoto Y, Ichikawa T, Kurozumi K, Otani Y et al. Annexin A2-STAT3-Oncostatin M receptor axis drives phenotypic and mesenchymal changes in glioblastoma. Acta Neuropathol Commun 2020 Apr 5;8(1):42. PMID: 32248843
  • Shen C, Xuan B, Yan T, Ma Y et al. m(6)A-dependent glycolysis enhances colorectal cancer progression. Mol Cancer 2020 Apr 3;19(1):72. PMID: 32245489
  • Manoochehri M, Wu Y, Giese NA, Strobel O et al. SST gene hypermethylation acts as a pan-cancer marker for pancreatic ductal adenocarcinoma and multiple other tumors: toward its use for blood-based diagnosis. Mol Oncol 2020 Jun;14(6):1252-1267. PMID: 32243066
  • Banerji CRS, Panamarova M, Zammit PS et al. DUX4 expressing immortalized FSHD lymphoblastoid cells express genes elevated in FSHD muscle biopsies, correlating with the early stages of inflammation. Hum Mol Genet 2020 Aug 11;29(14):2285-2299. PMID: 32242220
  • Wang G, Meng Q, Xia B, Zhang S et al. TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription. Genome Biol 2020 Apr 2;21(1):84. PMID: 32241291
  • Adnan N, Liu Z, Huang THM, Ruan J et al. Comparative evaluation of network features for the prediction of breast cancer metastasis. BMC Med Genomics 2020 Apr 3;13(Suppl 5):40. PMID: 32241278
  • Yan F, Dai Y, Iwata J, Zhao Z et al. An integrative, genomic, transcriptomic and network-assisted study to identify genes associated with human cleft lip with or without cleft palate. BMC Med Genomics 2020 Apr 3;13(Suppl 5):39. PMID: 32241273
  • Dong C, Liu J, Chen SX, Dong T et al. Highly robust model of transcription regulator activity predicts breast cancer overall survival. BMC Med Genomics 2020 Apr 3;13(Suppl 5):49. PMID: 32241272
  • Li Y, Wang G, Tan X, Ouyang J et al. ProGeo-neo: a customized proteogenomic workflow for neoantigen prediction and selection. BMC Med Genomics 2020 Apr 3;13(Suppl 5):52. PMID: 32241270
  • Menzel J, Tatman P, Black JC et al. Isolation and analysis of rereplicated DNA by Rerep-Seq. Nucleic Acids Res 2020 Jun 4;48(10):e58. PMID: 32239215
  • Shiah SG, Hsiao JR, Chang HJ, Hsu YM et al. MiR-30a and miR-379 modulate retinoic acid pathway by targeting DNA methyltransferase 3B in oral cancer. J Biomed Sci 2020 Apr 2;27(1):46. PMID: 32238162
  • He X, Qin C, Zhao Y, Zou L et al. Gene signatures associated with genomic aberrations predict prognosis in neuroblastoma. Cancer Commun (Lond) 2020 Mar;40(2-3):105-118. PMID: 32237073
  • Li Y, He CL, Li WX, Zhang RX et al. Transcriptome analysis reveals gender-specific differences in overall metabolic response of male and female patients in lung adenocarcinoma. PLoS One 2020;15(4):e0230796. PMID: 32236130
  • Lee KS, Bang H, Choi JK, Kim K et al. Accelerated Evolution of the Regulatory Sequences of Brain Development in the Human Genome. Mol Cells 2020 Apr 30;43(4):331-339. PMID: 32235023
  • Lin K, Huang J, Luo H, Luo C et al. Development of a prognostic index and screening of potential biomarkers based on immunogenomic landscape analysis of colorectal cancer. Aging (Albany NY) 2020 Mar 31;12(7):5832-5857. PMID: 32235004
  • He A, Ma L, Huang Y, Zhang H et al. CDKL3 promotes osteosarcoma progression by activating Akt/PKB. Life Sci Alliance 2020 May;3(5). PMID: 32234750
  • Yu X, Wang Z, Zeng T et al. Essential gene expression pattern of head and neck squamous cell carcinoma revealed by tumor-specific expression rule based on single-cell RNA sequencing. Biochim Biophys Acta Mol Basis Dis 2020 Jul 1;1866(7):165791. PMID: 32234410
  • Liu L, Wang H, Zhang X, Chen R et al. Identification of Potential Biomarkers in Neonatal Sepsis by Establishing a Competitive Endogenous RNA Network. Comb Chem High Throughput Screen 2020;23(5):369-380. PMID: 32233999
  • Li Z, Zhang P, Feng F, Zhang Q et al. Screening and Interaction Analysis of Key Genes in miR-542-3p Over- Expressed Osteosarcoma Cells by Bioinformatics. Comb Chem High Throughput Screen 2020;23(5):411-418. PMID: 32233998
  • Zhang S, Li X, Lin Q, Lin J et al. Uncovering the key dimensions of high-throughput biomolecular data using deep learning. Nucleic Acids Res 2020 Jun 4;48(10):e56. PMID: 32232416
  • Takaku M, Grimm SA, De Kumar B, Bennett BD et al. Cancer-specific mutation of GATA3 disrupts the transcriptional regulatory network governed by Estrogen Receptor alpha, FOXA1 and GATA3. Nucleic Acids Res 2020 May 21;48(9):4756-4768. PMID: 32232341
  • Du J, Liang Y, Li J, Zhao JM et al. Gastric Cancer Cell-Derived Exosomal microRNA-23a Promotes Angiogenesis by Targeting PTEN. Front Oncol 2020;10:326. PMID: 32232005
  • Zhang X, Gao F, Li N, Zhang J et al. Peroxiredoxins and Immune Infiltrations in Colon Adenocarcinoma: Their Negative Correlations and Clinical Significances, an In Silico Analysis. J Cancer 2020;11(11):3124-3143. PMID: 32231717
  • Welgemoed T, Pierneef R, Sterck L, Van de Peer Y et al. De novo Assembly of Transcriptomes From a B73 Maize Line Introgressed With a QTL for Resistance to Gray Leaf Spot Disease Reveals a Candidate Allele of a Lectin Receptor-Like Kinase. Front Plant Sci 2020;11:191. PMID: 32231673
  • Yang J, Yang XS, Zhang Q, Zhuang X et al. Downregulated LINC01614 Ameliorates Hypoxia/Reoxygenation-Stimulated Myocardial Injury by Directly Sponging microRNA-138-5p. Dose Response 2020 Jan-Mar;18(1):1559325820913786. PMID: 32231469
  • Xie J, Liu L, Mladkova N, Li Y et al. The genetic architecture of membranous nephropathy and its potential to improve non-invasive diagnosis. Nat Commun 2020 Mar 30;11(1):1600. PMID: 32231244
  • Chen XM, Cao F, Zhang HM, Chen HR et al. [Exploration of omics mechanism and drug prediction of coronavirus-induced heart failure based on clinical bioinformatics]. Zhonghua Xin Xue Guan Bing Za Zhi 2020 Jul 24;48(7):587-592. PMID: 32228827
  • Hu J, Xu J, Yu M, Gao Y et al. An integrated prognosis model of pharmacogenomic gene signature and clinical information for diffuse large B-cell lymphoma patients following CHOP-like chemotherapy. J Transl Med 2020 Mar 30;18(1):144. PMID: 32228625
  • Xie Q, Zhang X, Peng S, Sun J et al. Identification of novel biomarkers in ischemic stroke: a genome-wide integrated analysis. BMC Med Genet 2020 Mar 30;21(1):66. PMID: 32228489
  • Liu B, Bai L, Yu Q, Hu F et al. iMarmot: an integrative platform for comparative and functional genomics of marmots. BMC Genomics 2020 Mar 30;21(1):266. PMID: 32228437
  • Xu Z, Ma T, Zhou J, Gao W et al. Nuclear receptor ERRα contributes to castration-resistant growth of prostate cancer via its regulation of intratumoral androgen biosynthesis. Theranostics 2020;10(9):4201-4216. PMID: 32226548
  • Guan K, Liu X, Li J, Ding Y et al. Expression Status And Prognostic Value Of M6A-associated Genes in Gastric Cancer. J Cancer 2020;11(10):3027-3040. PMID: 32226518
  • Zhang L, Xu H, Ma C, Zhang J et al. Upregulation of deubiquitinase PSMD14 in lung adenocarcinoma (LUAD) and its prognostic significance. J Cancer 2020;11(10):2962-2971. PMID: 32226511
  • Xie Q, Ou-Yang W, Zhang M, Wang H et al. Decreased Expression of NUSAP1 Predicts Poor Overall Survival in Cervical Cancer. J Cancer 2020;11(10):2852-2863. PMID: 32226503
  • Ren Q, Zhu P, Zhang H, Ye T et al. Identification and validation of stromal-tumor microenvironment-based subtypes tightly associated with PD-1/PD-L1 immunotherapy and outcomes in patients with gastric cancer. Cancer Cell Int 2020;20:92. PMID: 32226313
  • Xiong Y, Chen L, Yan C, Endo Y et al. The lncRNA Rhno1/miR-6979-5p/BMP2 Axis Modulates Osteoblast Differentiation. Int J Biol Sci 2020;16(9):1604-1615. PMID: 32226305
  • Wang Y, Huang L, Wang Y, Luo W et al. Single-cell RNA-sequencing analysis identifies host long noncoding RNA MAMDC2-AS1 as a co-factor for HSV-1 nuclear transport. Int J Biol Sci 2020;16(9):1586-1603. PMID: 32226304
  • Chen S, Liu M, Liang B, Ge S et al. Identification of human peripheral blood monocyte gene markers for early screening of solid tumors. PLoS One 2020;15(3):e0230905. PMID: 32226026
  • Su YL, Luo HL, Huang CC, Liu TT et al. Galectin-1 Overexpression Activates the FAK/PI3K/AKT/mTOR Pathway and Is Correlated with Upper Urinary Urothelial Carcinoma Progression and Survival. Cells 2020 Mar 26;9(4). PMID: 32225123
  • Gao XZ, Xi XF, Zhang SP et al. Down-regulation of miR-10b represses cell vitality in osteosarcoma and is inversely associated with prognosis via interacting with FAM46C: Running title: MiR-10b/FAM46C axis modulates OS progression. Tissue Cell 2020 Apr;63:101331. PMID: 32223957
  • Jary M, Hasanova R, Vienot A, Asgarov K et al. Molecular description of ANGPT2 associated colorectal carcinoma. Int J Cancer 2020 Oct 1;147(7):2007-2018. PMID: 32222972
  • Kaushik AC, Mehmood A, Dai X, Wei DQ et al. WeiBI (web-based platform): Enriching integrated interaction network with increased coverage and functional proteins from genome-wide experimental OMICS data. Sci Rep 2020 Mar 27;10(1):5618. PMID: 32221380
  • Ma Y, Sun S, Shang X, Keller ET et al. Integrative differential expression and gene set enrichment analysis using summary statistics for scRNA-seq studies. Nat Commun 2020 Mar 27;11(1):1585. PMID: 32221292
  • Sati S, Bonev B, Szabo Q, Jost D et al. 4D Genome Rewiring during Oncogene-Induced and Replicative Senescence. Mol Cell 2020 May 7;78(3):522-538.e9. PMID: 32220303
  • Sikder MOF, Sivaprakasam S, Brown TP, Thangaraju M et al. SLC6A14, a Na+/Cl--coupled amino acid transporter, functions as a tumor promoter in colon and is a target for Wnt signaling. Biochem J 2020 Apr 30;477(8):1409-1425. PMID: 32219372
  • Gay D, Ghinatti G, Guerrero-Juarez CF, Ferrer RA et al. Phagocytosis of Wnt inhibitor SFRP4 by late wound macrophages drives chronic Wnt activity for fibrotic skin healing. Sci Adv 2020 Mar;6(12):eaay3704. PMID: 32219160
  • Peng YS, Tang CW, Peng YY, Chang H et al. Comparative functional genomic analysis of Alzheimer's affected and naturally aging brains. PeerJ 2020;8:e8682. PMID: 32219020
  • Zou Z, Li X, Sun Y, Li L et al. NOS1 expression promotes proliferation and invasion and enhances chemoresistance in ovarian cancer. Oncol Lett 2020 Apr;19(4):2989-2995. PMID: 32218855
  • Yu G, Zhong N, Huang B, Mi Y et al. PEBP4 gene expression in lung squamous cell carcinoma: A meta-analysis-based study of the molecular pathways involved. Oncol Lett 2020 Apr;19(4):2825-2831. PMID: 32218836
  • Lin M, Li Y, Qin S, Jiao Y et al. Ubiquitin-like modifier-activating enzyme 7 as a marker for the diagnosis and prognosis of breast cancer. Oncol Lett 2020 Apr;19(4):2773-2784. PMID: 32218830
  • Zhang Y, Sun L, Wang X, Sun Y et al. FBXW4 Acts as a Protector of FOLFOX-Based Chemotherapy in Metastatic Colorectal Cancer Identified by Co-Expression Network Analysis. Front Genet 2020;11:113. PMID: 32218799
  • Hu H, Wang F, Wang M, Liu Y et al. FAM83A is amplified and promotes tumorigenicity in non-small cell lung cancer via ERK and PI3K/Akt/mTOR pathways. Int J Med Sci 2020;17(6):807-814. PMID: 32218702
  • Xia B, Shi XC, Xie BC, Zhu MQ et al. Urolithin A exerts antiobesity effects through enhancing adipose tissue thermogenesis in mice. PLoS Biol 2020 Mar;18(3):e3000688. PMID: 32218572
  • Seo W, Shimizu K, Kojo S, Okeke A et al. Runx-mediated regulation of CCL5 via antagonizing two enhancers influences immune cell function and anti-tumor immunity. Nat Commun 2020 Mar 26;11(1):1562. PMID: 32218434
  • Song H, Li D, Wang X, Fang E et al. HNF4A-AS1/hnRNPU/CTCF axis as a therapeutic target for aerobic glycolysis and neuroblastoma progression. J Hematol Oncol 2020 Mar 26;13(1):24. PMID: 32216806
  • Guo YS, Xu XF, Li N, Sun N et al. [Gene expression profiles in normal human prostate epithelial cells exposed to low-dose cadmium: A bioinformatics analysis]. Zhonghua Nan Ke Xue 2019 Feb;25(2):103-109. PMID: 32216194
  • Meng X, Fang E, Zhao X, Feng J et al. Identification of prognostic long noncoding RNAs associated with spontaneous regression of neuroblastoma. Cancer Med 2020 Jun;9(11):3800-3815. PMID: 32216054
  • Khorasani M, Shahbazi S, Hosseinkhan N, Mahdian R et al. Analysis of Differential Expression of microRNAs and Their Target Genes in Prostate Cancer: A Bioinformatics Study on Microarray Gene Expression Data. Int J Mol Cell Med 2019 Spring;8(2):103-114. PMID: 32215262
  • Zare A, Ganji M, Omrani MD, Alipoor B et al. Gastric Cancer MicroRNAs Meta-signature. Int J Mol Cell Med 2019 Spring;8(2):94-102. PMID: 32215261
  • Zhang G, Xu S, Yuan Z, Shen L et al. Weighted Gene Coexpression Network Analysis Identifies Specific Modules and Hub Genes Related to Major Depression. Neuropsychiatr Dis Treat 2020;16:703-713. PMID: 32214815
  • Dong L, Kollipara A, Darville T, Zou F et al. Semi-CAM: A semi-supervised deconvolution method for bulk transcriptomic data with partial marker gene information. Sci Rep 2020 Mar 25;10(1):5434. PMID: 32214192
  • Tiwari S, Triulzi T, Holton S, Regondi V et al. Infrared Spectroscopic Imaging Visualizes a Prognostic Extracellular Matrix-Related Signature in Breast Cancer. Sci Rep 2020 Mar 25;10(1):5442. PMID: 32214177
  • Pan Y, Yu C, Huang J, Rong Y et al. Bioinformatics analysis of vascular RNA-seq data revealed hub genes and pathways in a novel Tibetan minipig atherosclerosis model induced by a high fat/cholesterol diet. Lipids Health Dis 2020 Mar 25;19(1):54. PMID: 32213192
  • [No authors listed]UEG Week 2019 Poster Presentations. United European Gastroenterol J 2019 Oct;7(8_suppl):189-1030. PMID: 32213001
  • Fan X, Wang J, Qin T, Zhang Y et al. Exosome miR-27a-3p secreted from adipocytes targets ICOS to promote antitumor immunity in lung adenocarcinoma. Thorac Cancer 2020 Jun;11(6):1453-1464. PMID: 32212417
  • Gao X, Liu S, Song H, Feng X et al. AgeGuess, a Methylomic Prediction Model for Human Ages. Front Bioeng Biotechnol 2020;8:80. PMID: 32211384
  • Wang Q, Yan Z, Ge L, Li N et al. OSeac: An Online Survival Analysis Tool for Esophageal Adenocarcinoma. Front Oncol 2020;10:315. PMID: 32211334
  • Sussman RT, Rokita JL, Huang K, Raman P et al. CAMKV Is a Candidate Immunotherapeutic Target in MYCN Amplified Neuroblastoma. Front Oncol 2020;10:302. PMID: 32211329
  • Cao C, Lin S, Zhi W, Lazare C et al. LOXL2 Expression Status Is Correlated With Molecular Characterizations of Cervical Carcinoma and Associated With Poor Cancer Survival via Epithelial-Mesenchymal Transition (EMT) Phenotype. Front Oncol 2020;10:284. PMID: 32211324
  • Jin T, Wang C, Tian S et al. Feature selection based on differentially correlated gene pairs reveals the mechanism of IFN-β therapy for multiple sclerosis. PeerJ 2020;8:e8812. PMID: 32211244
  • Umemura M, Kuriiwa K, Dao LV, Okuda T et al. Promoter tools for further development of Aspergillus oryzae as a platform for fungal secondary metabolite production. Fungal Biol Biotechnol 2020;7:3. PMID: 32211196
  • Mucaki EJ, Shirley BC, Rogan PK et al. Expression Changes Confirm Genomic Variants Predicted to Result in Allele-Specific, Alternative mRNA Splicing. Front Genet 2020;11:109. PMID: 32211018
  • Wang H, Zhu H, Zhu W, Xu Y et al. Bioinformatic Analysis Identifies Potential Key Genes in the Pathogenesis of Turner Syndrome. Front Endocrinol (Lausanne) 2020;11:104. PMID: 32210915
  • Wang Y, Wang Z et al. An Integrated Network Analysis of mRNA and Gene Expression Profiles in Parkinson's Disease. Med Sci Monit 2020 Mar 25;26:e920846. PMID: 32210219
  • Malovichko YV, Shtark OY, Vasileva EN, Nizhnikov AA et al. Transcriptomic Insights into Mechanisms of Early Seed Maturation in the Garden Pea (Pisum sativum L.). Cells 2020 Mar 23;9(3). PMID: 32210065
  • Zhang T, Zhao Y, Zhao Y, Zhou J et al. Expression and prognosis analysis of TET family in acute myeloid leukemia. Aging (Albany NY) 2020 Mar 25;12(6):5031-5047. PMID: 32209730
  • Qu Y, Cheng B, Shao N, Jia Y et al. Prognostic value of immune-related genes in the tumor microenvironment of lung adenocarcinoma and lung squamous cell carcinoma. Aging (Albany NY) 2020 Mar 25;12(6):4757-4777. PMID: 32209727
  • Szymura SJ, Bernal GM, Wu L, Zhang Z et al. DDX39B interacts with the pattern recognition receptor pathway to inhibit NF-κB and sensitize to alkylating chemotherapy. BMC Biol 2020 Mar 24;18(1):32. PMID: 32209106
  • Shen Y, Li M, Liu K, Xu X et al. Integrated bioinformatics analysis of aberrantly-methylated differentially-expressed genes and pathways in age-related macular degeneration. BMC Ophthalmol 2020 Mar 24;20(1):119. PMID: 32209064
  • Li M, Wang K, Pang Y, Zhang H et al. Secreted Phosphoprotein 1 (SPP1) and Fibronectin 1 (FN1) Are Associated with Progression and Prognosis of Esophageal Cancer as Identified by Integrated Expression Profiles Analysis. Med Sci Monit 2020 Mar 24;26:e920355. PMID: 32208405
  • Iosifidis T, Sutanto EN, Buckley AG, Coleman L et al. Aberrant cell migration contributes to defective airway epithelial repair in childhood wheeze. JCI Insight 2020 Apr 9;5(7). PMID: 32208383
  • Zhang Y, Wu X, Zhang C, Wang J et al. Dissecting expression profiles of gastric precancerous lesions and early gastric cancer to explore crucial molecules in intestinal-type gastric cancer tumorigenesis. J Pathol 2020 Jun;251(2):135-146. PMID: 32207854
  • Dewi FRP, Jiapaer S, Kobayashi A, Hazawa M et al. Nucleoporin TPR (translocated promoter region, nuclear basket protein) upregulation alters MTOR-HSF1 trails and suppresses autophagy induction in ependymoma. Autophagy 2021 Apr;17(4):1001-1012. PMID: 32207633
  • Wang X, Gu M, Ju Y, Zhou J et al. PIK3C3 Acts as a Tumor Suppressor in Esophageal Squamous Cell Carcinoma and Was Regulated by MiR-340-5p. Med Sci Monit 2020 Mar 24;26:e920642. PMID: 32207410
  • Cook DJ, Kallus J, Jörnsten R, Nielsen J et al. Molecular natural history of breast cancer: Leveraging transcriptomics to predict breast cancer progression and aggressiveness. Cancer Med 2020 May;9(10):3551-3562. PMID: 32207233
  • Lee EJ, Hanchate NK, Kondoh K, Tong APS et al. A psychological stressor conveyed by appetite-linked neurons. Sci Adv 2020 Mar;6(12):eaay5366. PMID: 32206712
  • Wytock TP, Motter AE et al. Distinguishing cell phenotype using cell epigenotype. Sci Adv 2020 Mar;6(12):eaax7798. PMID: 32206707
  • Liu W, Zhang Y, Li W, Lin Y et al. Genome-wide characterization and expression analysis of soybean trihelix gene family. PeerJ 2020;8:e8753. PMID: 32206450
  • Peng BL, Li WJ, Ding JC, He YH et al. A hypermethylation strategy utilized by enhancer-bound CARM1 to promote estrogen receptor α-dependent transcriptional activation and breast carcinogenesis. Theranostics 2020;10(8):3451-3473. PMID: 32206101
  • Kelly J, Moyeed R, Carroll C, Luo S et al. Genetic networks in Parkinson's and Alzheimer's disease. Aging (Albany NY) 2020 Mar 23;12(6):5221-5243. PMID: 32205467
  • Yi SA, Lee DH, Kim GW, Ryu HW et al. HPV-mediated nuclear export of HP1γ drives cervical tumorigenesis by downregulation of p53. Cell Death Differ 2020 Sep;27(9):2537-2551. PMID: 32203172
  • Wenzel J, Rose K, Haghighi EB, Lamprecht C et al. Loss of the nuclear Wnt pathway effector TCF7L2 promotes migration and invasion of human colorectal cancer cells. Oncogene 2020 May;39(19):3893-3909. PMID: 32203164
  • Qian D, Zheng W, Chen C, Jing G et al. Roles of CCNB2 and NKX3-1 in Nasopharyngeal Carcinoma. Cancer Biother Radiopharm 2020 Apr;35(3):208-213. PMID: 32202926
  • Chen BY, Song J, Hu CL, Chen SB et al. SETD2 deficiency accelerates MDS-associated leukemogenesis via S100a9 in NHD13 mice and predicts poor prognosis in MDS. Blood 2020 Jun 18;135(25):2271-2285. PMID: 32202636
  • Huynh NP, Gloss CC, Lorentz J, Tang R et al. Long non-coding RNA GRASLND enhances chondrogenesis via suppression of the interferon type II signaling pathway. Elife 2020 Mar 23;9. PMID: 32202492
  • Woldegebriel R, Kvist J, Andersson N, Õunap K et al. Distinct effects on mRNA export factor GANP underlie neurological disease phenotypes and alter gene expression depending on intron content. Hum Mol Genet 2020 Jun 3;29(9):1426-1439. PMID: 32202298
  • Ghosheh N, Küppers-Munther B, Asplund A, Andersson CX et al. Human Pluripotent Stem Cell-Derived Hepatocytes Show Higher Transcriptional Correlation with Adult Liver Tissue than with Fetal Liver Tissue. ACS Omega 2020 Mar 17;5(10):4816-4827. PMID: 32201767
  • Yu T, Cheng L, Yan X, Xiong H et al. Systems biology approaches based discovery of a small molecule inhibitor targeting both c-Met/PARP-1 and inducing cell death in breast cancer. J Cancer 2020;11(9):2656-2666. PMID: 32201536
  • Du W, Liu T, Zhang Y, Zeng Y et al. MiR-195-5p is a Potential Factor Responsible for CPNE1 Differential Expression between Subtypes of Non-Small Cell Lung Cancer. J Cancer 2020;11(9):2610-2620. PMID: 32201531
  • Qi F, Qian S, Zhang S, Zhang Z et al. Single cell RNA sequencing of 13 human tissues identify cell types and receptors of human coronaviruses. Biochem Biophys Res Commun 2020 May 21;526(1):135-140. PMID: 32199615
  • Gorini F, Scala G, Di Palo G, Dellino GI et al. The genomic landscape of 8-oxodG reveals enrichment at specific inherently fragile promoters. Nucleic Acids Res 2020 May 7;48(8):4309-4324. PMID: 32198884
  • Lefrançois P, Xie P, Gunn S, Gantchev J et al. In silico analyses of the tumor microenvironment highlight tumoral inflammation, a Th2 cytokine shift and a mesenchymal stem cell-like phenotype in advanced in basal cell carcinomas. J Cell Commun Signal 2020 Jun;14(2):245-254. PMID: 32198729
  • Pein M, Insua-Rodríguez J, Hongu T, Riedel A et al. Metastasis-initiating cells induce and exploit a fibroblast niche to fuel malignant colonization of the lungs. Nat Commun 2020 Mar 20;11(1):1494. PMID: 32198421
  • Schöpf B, Weissensteiner H, Schäfer G, Fazzini F et al. OXPHOS remodeling in high-grade prostate cancer involves mtDNA mutations and increased succinate oxidation. Nat Commun 2020 Mar 20;11(1):1487. PMID: 32198407
  • Nagao M, Esguerra JLS, Asai A, Ofori JK et al. Potential Protection Against Type 2 Diabetes in Obesity Through Lower CD36 Expression and Improved Exocytosis in β-Cells. Diabetes 2020 Jun;69(6):1193-1205. PMID: 32198214
  • Zhang BH, Yang J, Jiang L, Lyu T et al. Development and validation of a 14-gene signature for prognosis prediction in hepatocellular carcinoma. Genomics 2020 Jul;112(4):2763-2771. PMID: 32198063
  • Smith AM, Walsh JR, Long J, Davis CB et al. Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data. BMC Bioinformatics 2020 Mar 20;21(1):119. PMID: 32197580
  • Hulot A, Chiquet J, Jaffrézic F, Rigaill G et al. Fast tree aggregation for consensus hierarchical clustering. BMC Bioinformatics 2020 Mar 20;21(1):120. PMID: 32197576
  • Haidar MN, Islam MB, Chowdhury UN, Rahman MR et al. Network-based computational approach to identify genetic links between cardiomyopathy and its risk factors. IET Syst Biol 2020 Apr;14(2):75-84. PMID: 32196466
  • Xu Z, Wu Z, Xu J, Zhang J et al. Identification of hub driving genes and regulators of lung adenocarcinoma based on the gene Co-expression network. Biosci Rep 2020 Apr 30;40(4). PMID: 32196072
  • Dorschner RA, Lee J, Cohen O, Costantini T et al. ECRG4 regulates neutrophil recruitment and CD44 expression during the inflammatory response to injury. Sci Adv 2020 Mar;6(11):eaay0518. PMID: 32195341
  • Cheng Q, Li J, Fan F, Cao H et al. Identification and Analysis of Glioblastoma Biomarkers Based on Single Cell Sequencing. Front Bioeng Biotechnol 2020;8:167. PMID: 32195242
  • Liu H, Liu M, You H, Li X et al. Oncogenic Network and Hub Genes for Natural Killer/T-Cell Lymphoma Utilizing WGCNA. Front Oncol 2020;10:223. PMID: 32195177
  • Zhu W, Li LL, Songyang Y, Shi Z et al. Identification and validation of HELLS (Helicase, Lymphoid-Specific) and ICAM1 (Intercellular adhesion molecule 1) as potential diagnostic biomarkers of lung cancer. PeerJ 2020;8:e8731. PMID: 32195055
  • Zhao B, Dierichs L, Gu JN, Trajkovic-Arsic M et al. TFEB-mediated lysosomal biogenesis and lysosomal drug sequestration confer resistance to MEK inhibition in pancreatic cancer. Cell Death Discov 2020;6:12. PMID: 32194992
  • Zhou Y, Hou Y, Shen J, Huang Y et al. Network-based drug repurposing for novel coronavirus 2019-nCoV/SARS-CoV-2. Cell Discov 2020;6:14. PMID: 32194980
  • Du L, Xu Z, Wang X, Liu F et al. Integrated bioinformatics analysis identifies microRNA-376a-3p as a new microRNA biomarker in patient with coronary artery disease. Am J Transl Res 2020;12(2):633-648. PMID: 32194911
  • Han B, Meng X, Wu P, Li Z et al. ATRX/EZH2 complex epigenetically regulates FADD/PARP1 axis, contributing to TMZ resistance in glioma. Theranostics 2020;10(7):3351-3365. PMID: 32194873
  • Jiang Q, Feng W, Xiong C, Lv Y et al. Integrated bioinformatics analysis of the association between apolipoprotein E expression and patient prognosis in papillary thyroid carcinoma. Oncol Lett 2020 Mar;19(3):2295-2305. PMID: 32194729
  • Song W, Wang WJ, Fu T, Chen L et al. Integrated analysis of circular RNA-associated ceRNA network in pancreatic ductal adenocarcinoma. Oncol Lett 2020 Mar;19(3):2175-2184. PMID: 32194715
  • Yan P, Tang L, Liu L, Tu G et al. Identification of candidate RNA signatures in triple-negative breast cancer by the construction of a competing endogenous RNA network with integrative analyses of Gene Expression Omnibus and The Cancer Genome Atlas data. Oncol Lett 2020 Mar;19(3):1915-1927. PMID: 32194687
  • Win Maung HM, Chan-On W, Kunkeaw N, Khaenam P et al. Common transcriptional programs and the role of chemokine (C-C motif) ligand 20 (CCL20) in cell migration of cholangiocarcinoma. EXCLI J 2020;19:154-166. PMID: 32194362
  • Fathzadeh M, Li J, Rao A, Cook N et al. FAM13A affects body fat distribution and adipocyte function. Nat Commun 2020 Mar 19;11(1):1465. PMID: 32193374
  • Atacho DAM, Reynisson H, Petursdottir AT, Eysteinsson T et al. Mitf Links Neuronal Activity and Long-Term Homeostatic Intrinsic Plasticity. eNeuro 2020 Mar/Apr;7(2). PMID: 32193365
  • Ye M, Goudot C, Hoyler T, Lemoine B et al. Specific subfamilies of transposable elements contribute to different domains of T lymphocyte enhancers. Proc Natl Acad Sci U S A 2020 Apr 7;117(14):7905-7916. PMID: 32193341
  • Choi Y, Choi H, Yoon BK, Lee H et al. Serpina3c Regulates Adipogenesis by Modulating Insulin Growth Factor 1 and Integrin Signaling. iScience 2020 Mar 27;23(3):100961. PMID: 32193145
  • Wang X, Feng H, Dong W, Wang F et al. Hsa_circ_0008225 inhibits tumorigenesis of glioma via sponging miR-890 and promoting ZMYND11 expression. J Pharmacol Sci 2020 Jun;143(2):74-82. PMID: 32192854
  • Rodríguez-Lorenzo S, Ferreira Francisco DM, Vos R, van Het Hof B et al. Altered secretory and neuroprotective function of the choroid plexus in progressive multiple sclerosis. Acta Neuropathol Commun 2020 Mar 19;8(1):35. PMID: 32192527
  • Potus F, Pauciulo MW, Cook EK, Zhu N et al. Novel Mutations and Decreased Expression of the Epigenetic Regulator TET2 in Pulmonary Arterial Hypertension. Circulation 2020 Jun 16;141(24):1986-2000. PMID: 32192357
  • Brant EJ, Rietman EA, Klement GL, Cavaglia M et al. Personalized therapy design for systemic lupus erythematosus based on the analysis of protein-protein interaction networks. PLoS One 2020;15(3):e0226883. PMID: 32191711
  • Wang Z, Zhao M, Yin J, Liu L et al. E4BP4-mediated inhibition of T follicular helper cell differentiation is compromised in autoimmune diseases. J Clin Invest 2020 Jul 1;130(7):3717-3733. PMID: 32191636
  • Tokunaga R, Nakagawa S, Sakamoto Y, Nakamura K et al. 12-Chemokine signature, a predictor of tumor recurrence in colorectal cancer. Int J Cancer 2020 Jul 15;147(2):532-541. PMID: 32191346
  • Lindner M, Gilhooley MJ, Palumaa T, Morton AJ et al. Expression and Localization of Kcne2 in the Vertebrate Retina. Invest Ophthalmol Vis Sci 2020 Mar 9;61(3):33. PMID: 32191288
  • Zhang J, Wang X, Xu L, Zhang Z et al. Investigation of Potential Genetic Biomarkers and Molecular Mechanism of Ulcerative Colitis Utilizing Bioinformatics Analysis. Biomed Res Int 2020;2020:4921387. PMID: 32190668
  • Singh P, Rai A, Dohare R, Arora S et al. Network-based identification of signature genes KLF6 and SPOCK1 associated with oral submucous fibrosis. Mol Clin Oncol 2020 Apr;12(4):299-310. PMID: 32190310
  • Wang W, He Y, Zhao Q, Zhao X et al. Identification of potential key genes in gastric cancer using bioinformatics analysis. Biomed Rep 2020 Apr;12(4):178-192. PMID: 32190306
  • Hong W, Yuan H, Gu Y, Liu M et al. Immune-related prognosis biomarkers associated with osteosarcoma microenvironment. Cancer Cell Int 2020;20:83. PMID: 32190007
  • Bi G, Chen Z, Yang X, Liang J et al. Identification and validation of tumor environment phenotypes in lung adenocarcinoma by integrative genome-scale analysis. Cancer Immunol Immunother 2020 Jul;69(7):1293-1305. PMID: 32189030
  • Chang YC, Yang YF, Chiou J, Tsai HF et al. Nonenzymatic function of Aldolase A downregulates miR-145 to promote the Oct4/DUSP4/TRAF4 axis and the acquisition of lung cancer stemness. Cell Death Dis 2020 Mar 18;11(3):195. PMID: 32188842
  • Liu Z, Yoshimi A, Wang J, Cho H et al. Mutations in the RNA Splicing Factor SF3B1 Promote Tumorigenesis through MYC Stabilization. Cancer Discov 2020 Jun;10(6):806-821. PMID: 32188705
  • Han K, Wang FW, Cao CH, Ling H et al. CircLONP2 enhances colorectal carcinoma invasion and metastasis through modulating the maturation and exosomal dissemination of microRNA-17. Mol Cancer 2020 Mar 18;19(1):60. PMID: 32188489
  • Lim CX, Lee B, Geiger O, Passegger C et al. miR-181a Modulation of ERK-MAPK Signaling Sustains DC-SIGN Expression and Limits Activation of Monocyte-Derived Dendritic Cells. Cell Rep 2020 Mar 17;30(11):3793-3805.e5. PMID: 32187550
  • Li X, Fu Y, Yang B, Guo E et al. BRD4 Inhibition by AZD5153 Promotes Antitumor Immunity via Depolarizing M2 Macrophages. Front Immunol 2020;11:89. PMID: 32184777
  • Zhu Y, Jiang X, Zhang S, Wang L et al. Hsa_circ_103973 Acts as a Sponge of miR-335 to Promote Cervical Cancer Progression. Onco Targets Ther 2020;13:1777-1786. PMID: 32184614
  • Olafsdottir T, Thorleifsson G, Sulem P, Stefansson OA et al. Genome-wide association identifies seven loci for pelvic organ prolapse in Iceland and the UK Biobank. Commun Biol 2020 Mar 17;3(1):129. PMID: 32184442
  • Ito D, Taguchi R, Deguchi M, Ogasawara H et al. Extensive splicing changes in an ALS/FTD transgenic mouse model overexpressing cytoplasmic fused in sarcoma. Sci Rep 2020 Mar 17;10(1):4857. PMID: 32184412
  • Kodama M, Oshikawa K, Shimizu H, Yoshioka S et al. A shift in glutamine nitrogen metabolism contributes to the malignant progression of cancer. Nat Commun 2020 Mar 17;11(1):1320. PMID: 32184390
  • Zhang X, Jonassen I et al. RASflow: an RNA-Seq analysis workflow with Snakemake. BMC Bioinformatics 2020 Mar 18;21(1):110. PMID: 32183729
  • Gage HL, Merrick CJ et al. Conserved associations between G-quadruplex-forming DNA motifs and virulence gene families in malaria parasites. BMC Genomics 2020 Mar 17;21(1):236. PMID: 32183702
  • Tian R, Huang Y, Balakrishnan B, Chen M et al. Gene Expression Profiling Indicated Diverse Functions and Characteristics of Core Genes in Pea Aphid. Insects 2020 Mar 15;11(3). PMID: 32183501
  • Doghman-Bouguerra M, Finetti P, Durand N, Parise IZS et al. Cancer-testis Antigen FATE1 Expression in Adrenocortical Tumors Is Associated with A Pervasive Autoimmune Response and Is A Marker of Malignancy in Adult, but Not Children, ACC. Cancers (Basel) 2020 Mar 14;12(3). PMID: 32183347
  • Schwarz-Cruz Y Celis A, Ceballos-Cancino G, Vazquez-Santillan K, Espinosa M et al. Basal-Type Breast Cancer Stem Cells Over-Express Chromosomal Passenger Complex Proteins. Cells 2020 Mar 13;9(3). PMID: 32183150
  • Zaka M, Sutton CW, Peng Y, Konur S et al. Model-Based Integration Analysis Revealed Presence of Novel Prognostic miRNA Targets and Important Cancer Driver Genes in Triple-Negative Breast Cancers. Cancers (Basel) 2020 Mar 9;12(3). PMID: 32182819
  • Baek SW, Jang IH, Kim SK, Nam JK et al. Transcriptional Profiling of Advanced Urothelial Cancer Predicts Prognosis and Response to Immunotherapy. Int J Mol Sci 2020 Mar 8;21(5). PMID: 32182655
  • Kochanova NY, Schauer T, Mathias GP, Lukacs A et al. A multi-layered structure of the interphase chromocenter revealed by proximity-based biotinylation. Nucleic Acids Res 2020 May 7;48(8):4161-4178. PMID: 32182352
  • Laloum D, Robinson-Rechavi M et al. Methods detecting rhythmic gene expression are biologically relevant only for strong signal. PLoS Comput Biol 2020 Mar;16(3):e1007666. PMID: 32182235
  • Lakhia R, Yheskel M, Flaten A, Ramalingam H et al. Interstitial microRNA miR-214 attenuates inflammation and polycystic kidney disease progression. JCI Insight 2020 Apr 9;5(7). PMID: 32182218
  • Yang HJ, Xue JM, Li J, Wan LH et al. Identification of key genes and pathways of diagnosis and prognosis in cervical cancer by bioinformatics analysis. Mol Genet Genomic Med 2020 Jun;8(6):e1200. PMID: 32181600
  • Li L, Dong L, Xiao Z, He W et al. Integrated analysis of the proteome and transcriptome in a MCAO mouse model revealed the molecular landscape during stroke progression. J Adv Res 2020 Jul;24:13-27. PMID: 32181013
  • Wei J, Yin Y, Deng Q, Zhou J et al. Integrative Analysis of MicroRNA and Gene Interactions for Revealing Candidate Signatures in Prostate Cancer. Front Genet 2020;11:176. PMID: 32180804
  • Gu Y, Li J, Guo D, Chen B et al. Identification of 13 Key Genes Correlated With Progression and Prognosis in Hepatocellular Carcinoma by Weighted Gene Co-expression Network Analysis. Front Genet 2020;11:153. PMID: 32180800
  • Itzel T, Neubauer M, Ebert M, Evert M et al. Hepamine - A Liver Disease Microarray Database, Visualization Platform and Data-Mining Resource. Sci Rep 2020 Mar 16;10(1):4760. PMID: 32179762
  • Basilico S, Wang X, Kennedy A, Tzelepis K et al. Dissecting the early steps of MLL induced leukaemogenic transformation using a mouse model of AML. Nat Commun 2020 Mar 16;11(1):1407. PMID: 32179751
  • Vendramin S, Huang J, Crisp PA, Madzima TF et al. Epigenetic Regulation of ABA-Induced Transcriptional Responses in Maize. G3 (Bethesda) 2020 May 4;10(5):1727-1743. PMID: 32179621
  • Moore KB, Mitchell CK, Lin YP, Lee YH et al. Localized Calcium Signaling and the Control of Coupling at Cx36 Gap Junctions. eNeuro 2020 Mar/Apr;7(2). PMID: 32179580
  • Zhang R, Saredy J, Shao Y, Yao T et al. End-stage renal disease is different from chronic kidney disease in upregulating ROS-modulated proinflammatory secretome in PBMCs - A novel multiple-hit model for disease progression. Redox Biol 2020 Jul;34:101460. PMID: 32179051
  • Myers JA, Couch T, Murphy Z, Malik J et al. The histone methyltransferase Setd8 alters the chromatin landscape and regulates the expression of key transcription factors during erythroid differentiation. Epigenetics Chromatin 2020 Mar 16;13(1):16. PMID: 32178723
  • Zhou M, Lu B, Tan W, Fu M et al. Identification of lncRNA-miRNA-mRNA regulatory network associated with primary open angle glaucoma. BMC Ophthalmol 2020 Mar 16;20(1):104. PMID: 32178636
  • Gao J, Dai C, Yu X, Yin XB et al. LncRNA LEF1-AS1 silencing diminishes EZH2 expression to delay hepatocellular carcinoma development by impairing CEBPB-interaction with CDCA7. Cell Cycle 2020 Apr;19(8):870-883. PMID: 32178558
  • Thalheim T, Hopp L, Herberg M, Siebert S et al. Fighting Against Promoter DNA Hyper-Methylation: Protective Histone Modification Profiles of Stress-Resistant Intestinal Stem Cells. Int J Mol Sci 2020 Mar 12;21(6). PMID: 32178409
  • Kanakoglou DS, Michalettou TD, Vasileiou C, Gioukakis E et al. Effects of High-Dose Ionizing Radiation in Human Gene Expression: A Meta-Analysis. Int J Mol Sci 2020 Mar 12;21(6). PMID: 32178397
  • Stamataki Z, Swadling L et al. The liver as an immunological barrier redefined by single-cell analysis. Immunology 2020 Jun;160(2):157-170. PMID: 32176810
  • Hu G, Li J, Wang GZ et al. Significant Evolutionary Constraints on Neuron Cells Revealed by Single-Cell Transcriptomics. Genome Biol Evol 2020 Apr 1;12(4):300-308. PMID: 32176293
  • Li X, Ma C, Luo H, Zhang J et al. Identification of the differential expression of genes and upstream microRNAs in small cell lung cancer compared with normal lung based on bioinformatics analysis. Medicine (Baltimore) 2020 Mar;99(11):e19086. PMID: 32176034
  • Zheng C, Li X, Ren Y, Yin Z et al. Coexisting EGFR and TP53 Mutations in Lung Adenocarcinoma Patients Are Associated With COMP and ITGB8 Upregulation and Poor Prognosis. Front Mol Biosci 2020;7:30. PMID: 32175330
  • Pletnev P, Guseva E, Zanina A, Evfratov S et al. Comprehensive Functional Analysis of Escherichia coli Ribosomal RNA Methyltransferases. Front Genet 2020;11:97. PMID: 32174967
  • Song P, Wu L, Guan W et al. Genome-Wide Identification and Characterization of DNA Methylation and Long Non-Coding RNA Expression in Gastric Cancer. Front Genet 2020;11:91. PMID: 32174965
  • Martinez-Usatorre A, Carmona SJ, Godfroid C, Yacoub Maroun C et al. Enhanced Phenotype Definition for Precision Isolation of Precursor Exhausted Tumor-Infiltrating CD8 T Cells. Front Immunol 2020;11:340. PMID: 32174925
  • You X, Zhou Z, Chen W, Wei X et al. MicroRNA-495 confers inhibitory effects on cancer stem cells in oral squamous cell carcinoma through the HOXC6-mediated TGF-β signaling pathway. Stem Cell Res Ther 2020 Mar 14;11(1):117. PMID: 32171324
  • Zhang Y, Hamada M et al. MoAIMS: efficient software for detection of enriched regions of MeRIP-Seq. BMC Bioinformatics 2020 Mar 14;21(1):103. PMID: 32171255
  • Jeanmougin M, Håvik AB, Cekaite L, Brandal P et al. Improved prognostication of glioblastoma beyond molecular subtyping by transcriptional profiling of the tumor microenvironment. Mol Oncol 2020 May;14(5):1016-1027. PMID: 32171051
  • Liu J, Wan Y, Li S, Qiu H et al. Identification of aberrantly methylated differentially expressed genes and associated pathways in endometrial cancer using integrated bioinformatic analysis. Cancer Med 2020 May;9(10):3522-3536. PMID: 32170852
  • Del Carmen S, Corchete LA, Gervas R, Rodriguez A et al. Prognostic implications of EGFR protein expression in sporadic colorectal tumors: Correlation with copy number status, mRNA levels and miRNA regulation. Sci Rep 2020 Mar 13;10(1):4662. PMID: 32170146
  • Lai YH, Chen WN, Hsu TC, Lin C et al. Overall survival prediction of non-small cell lung cancer by integrating microarray and clinical data with deep learning. Sci Rep 2020 Mar 13;10(1):4679. PMID: 32170141
  • Tian R, Wang L, Zou H, Song M et al. Role of the XIST-miR-181a-COL4A1 axis in the development and progression of keratoconus. Mol Vis 2020;26:1-13. PMID: 32165822
  • Zheng X, Zhang J, Fang T, Wang X et al. The long non-coding RNA PIK3CD-AS2 promotes lung adenocarcinoma progression via YBX1-mediated suppression of p53 pathway. Oncogenesis 2020 Mar 12;9(3):34. PMID: 32165621
  • Yang F, Hu M, Chang S, Huang J et al. Alteration in the sensitivity to crizotinib by Na(+)/H(+) exchanger regulatory factor 1 is dependent to its subcellular localization in ALK-positive lung cancers. BMC Cancer 2020 Mar 12;20(1):202. PMID: 32164629
  • Chang HC, Chu CP, Lin SJ, Hsiao CK et al. Network hub-node prioritization of gene regulation with intra-network association. BMC Bioinformatics 2020 Mar 12;21(1):101. PMID: 32164570
  • Guan X, Runger G, Liu L et al. Dynamic incorporation of prior knowledge from multiple domains in biomarker discovery. BMC Bioinformatics 2020 Mar 11;21(Suppl 2):77. PMID: 32164534
  • He S, Yuan G, Bian S, Han X et al. Major Latex Protein MdMLP423 Negatively Regulates Defense against Fungal Infections in Apple. Int J Mol Sci 2020 Mar 10;21(5). PMID: 32164313
  • Yuan LM, Sun Y, Huang G et al. Using Class-Specific Feature Selection for Cancer Detection with Gene Expression Profile Data of Platelets. Sensors (Basel) 2020 Mar 10;20(5). PMID: 32164283
  • Chang CY, Hung JH, Huang LW, Li J et al. Epigenetic Regulation of WNT3A Enhancer during Regeneration of Injured Cortical Neurons. Int J Mol Sci 2020 Mar 10;21(5). PMID: 32164275
  • Atighi MR, Verstraeten B, De Meyer T, Kyndt T et al. Genome-wide DNA hypomethylation shapes nematode pattern-triggered immunity in plants. New Phytol 2020 Jul;227(2):545-558. PMID: 32162327
  • Ishikawa K, Kobayashi Y, Wakabayashi Y, Watanabe S et al. A highly sensitive trap vector system for isolating reporter cells and identification of responsive genes. Biol Methods Protoc 2018;3(1):bpy003. PMID: 32161797
  • Hui J, Liu R, Zhang H, He S et al. Screening and identification of critical biomarkers in erectile dysfunction: evidence from bioinformatic analysis. PeerJ 2020;8:e8653. PMID: 32161689
  • Zhang S, Reljić B, Liang C, Kerouanton B et al. Mitochondrial peptide BRAWNIN is essential for vertebrate respiratory complex III assembly. Nat Commun 2020 Mar 11;11(1):1312. PMID: 32161263
  • Feng B, Shen Y, Pastor Hostench X, Bieg M et al. Integrative Analysis of Multi-omics Data Identified EGFR and PTGS2 as Key Nodes in a Gene Regulatory Network Related to Immune Phenotypes in Head and Neck Cancer. Clin Cancer Res 2020 Jul 15;26(14):3616-3628. PMID: 32161122
  • Zhu L, Sun Y, Wu Q, Zhang C et al. CAPN6 Regulates Uterine Leiomyoma Cell Proliferation and Apoptosis through the Rac1-Dependent Signaling Pathway. Ann Clin Lab Sci 2020 Jan;50(1):24-30. PMID: 32161009
  • Pei L, Shen X, Yan Y, Tan C et al. Virtual Screening of the Multi-pathway and Multi-gene Regulatory Molecular Mechanism of Dachengqi Decoction in the Treatment of Stroke Based on Network Pharmacology. Comb Chem High Throughput Screen 2020;23(8):775-787. PMID: 32160845
  • Choudhary S, Pradhan D, Khan NS, Singh H et al. Decoding Psoriasis: Integrated Bioinformatics Approach to Understand Hub Genes and Involved Pathways. Curr Pharm Des 2020;26(29):3619-3630. PMID: 32160841
  • Poplawski SG, Garbett KA, McMahan RL, Kordasiewicz HB et al. An Antisense Oligonucleotide Leads to Suppressed Transcription of Hdac2 and Long-Term Memory Enhancement. Mol Ther Nucleic Acids 2020 Mar 6;19:1399-1412. PMID: 32160709
  • Rohrberg J, Van de Mark D, Amouzgar M, Lee JV et al. MYC Dysregulates Mitosis, Revealing Cancer Vulnerabilities. Cell Rep 2020 Mar 10;30(10):3368-3382.e7. PMID: 32160543
  • Lavery LA, Ure K, Wan YW, Luo C et al. Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome. Elife 2020 Mar 11;9. PMID: 32159514
  • Yang D, Yan Y, Hu F, Wang T et al. CYP1B1, VEGFA, BCL2, and CDKN1A Affect the Development of Chronic Obstructive Pulmonary Disease. Int J Chron Obstruct Pulmon Dis 2020;15:167-175. PMID: 32158203
  • Raffeiner P, Hart JR, García-Caballero D, Bar-Peled L et al. An MXD1-derived repressor peptide identifies noncoding mediators of MYC-driven cell proliferation. Proc Natl Acad Sci U S A 2020 Mar 24;117(12):6571-6579. PMID: 32156728
  • Jia WH, Wang NQ, Yin L, Chen X et al. Effects of fasting on the expression pattern of FGFs in different skeletal muscle fibre types and sexes in mice. Biol Sex Differ 2020 Mar 10;11(1):9. PMID: 32156311
  • Zhu C, Hu H, Li J, Wang J et al. Identification of key differentially expressed genes and gene mutations in breast ductal carcinoma in situ using RNA-seq analysis. World J Surg Oncol 2020 Mar 10;18(1):52. PMID: 32156290
  • Barral-Arca R, Gómez-Carballa A, Cebey-López M, Bello X et al. A Meta-Analysis of Multiple Whole Blood Gene Expression Data Unveils a Diagnostic Host-Response Transcript Signature for Respiratory Syncytial Virus. Int J Mol Sci 2020 Mar 6;21(5). PMID: 32155831
  • Sala C, Di Lena P, Fernandes Durso D, Prodi A et al. Evaluation of pre-processing on the meta-analysis of DNA methylation data from the Illumina HumanMethylation450 BeadChip platform. PLoS One 2020;15(3):e0229763. PMID: 32155174
  • Jain P, Ballare C, Blanco E, Vizan P et al. PHF19 mediated regulation of proliferation and invasiveness in prostate cancer cells. Elife 2020 Mar 10;9. PMID: 32155117
  • Shi Y, Liu H, Yang C, Xu K et al. Transcriptomic Analyses for Identification and Prioritization of Genes Associated With Alzheimer's Disease in Humans. Front Bioeng Biotechnol 2020;8:31. PMID: 32154224
  • Han L, Zhang X, Wang A, Ji Y et al. A Dual-Circular RNA Signature as a Non-invasive Diagnostic Biomarker for Gastric Cancer. Front Oncol 2020;10:184. PMID: 32154178
  • Soltanalizadeh B, Gonzalez Rodriguez E, Maroufy V, Zheng WJ et al. Modelling of hypoxia gene expression for three different cancer cell lines. Int J Comput Biol Drug Des 2020;13(1):124-143. PMID: 32153660
  • Ding X, Duan H, Luo H et al. Identification of Core Gene Expression Signature and Key Pathways in Colorectal Cancer. Front Genet 2020;11:45. PMID: 32153633
  • Dong H, Wang Q, Li N, Lv J et al. OSgbm: An Online Consensus Survival Analysis Web Server for Glioblastoma. Front Genet 2019;10:1378. PMID: 32153627
  • Bhutta MF, Lambie J, Hobson L, Williams D et al. Transcript Analysis Reveals a Hypoxic Inflammatory Environment in Human Chronic Otitis Media With Effusion. Front Genet 2019;10:1327. PMID: 32153623
  • Dunphy KA, Black AL, Roberts AL, Sharma A et al. Inter-Individual Variation in Response to Estrogen in Human Breast Explants. J Mammary Gland Biol Neoplasia 2020 Mar;25(1):51-68. PMID: 32152951
  • Wang Q, Sun D, Liang Z, Wang J et al. Generation of human hepatocytes from extended pluripotent stem cells. Cell Res 2020 Sep;30(9):810-813. PMID: 32152419
  • Patra BG, Maroufy V, Soltanalizadeh B, Deng N et al. A content-based literature recommendation system for datasets to improve data reusability - A case study on Gene Expression Omnibus (GEO) datasets. J Biomed Inform 2020 Apr;104:103399. PMID: 32151769
  • Trivedi A, Mehrotra A, Baum CE, Lewis B et al. Bromodomain and extra-terminal domain (BET) proteins regulate melanocyte differentiation. Epigenetics Chromatin 2020 Mar 10;13(1):14. PMID: 32151278
  • Cui Z, Guo Y, Zhou Y, Mao S et al. Transcriptomic Analysis of the Developmental Similarities and Differences Between the Native Retina and Retinal Organoids. Invest Ophthalmol Vis Sci 2020 Mar 9;61(3):6. PMID: 32150248
  • Jin D, Song Y, Chen Y, Zhang P et al. Identification of Three lncRNAs as Potential Predictive Biomarkers of Lung Adenocarcinoma. Biomed Res Int 2020;2020:7573689. PMID: 32149133
  • Guo L, Lin W, Zhang Y, Wang J et al. A Systematic Analysis Revealed the Potential Gene Regulatory Processes of ATRA-Triggered Neuroblastoma Differentiation and Identified a Novel RA Response Sequence in the NTRK2 Gene. Biomed Res Int 2020;2020:6734048. PMID: 32149119
  • Yi M, Li T, Qin S, Yu S et al. Identifying Tumorigenesis and Prognosis-Related Genes of Lung Adenocarcinoma: Based on Weighted Gene Coexpression Network Analysis. Biomed Res Int 2020;2020:4169691. PMID: 32149105
  • Wang L, Ling X, Zhu C, Zhang Z et al. Upregulated Seizure-Related 6 Homolog-Like 2 Is a Prognostic Predictor of Hepatocellular Carcinoma. Dis Markers 2020;2020:7318703. PMID: 32148567
  • Guo J, Gu Y, Ma X, Zhang L et al. Identification of hub genes and pathways in adrenocortical carcinoma by integrated bioinformatic analysis. J Cell Mol Med 2020 Apr;24(8):4428-4438. PMID: 32147961
  • Yang L, Zeng W, Sun H, Huang F et al. Bioinformatical Analysis of Gene Expression Omnibus Database Associates TAF7/CCNB1, TAF7/CCNA2, and GTF2E2/CDC20 Pathways with Glioblastoma Development and Prognosis. World Neurosurg 2020 Jun;138:e492-e514. PMID: 32147549
  • Ray JP, de Boer CG, Fulco CP, Lareau CA et al. Prioritizing disease and trait causal variants at the TNFAIP3 locus using functional and genomic features. Nat Commun 2020 Mar 6;11(1):1237. PMID: 32144282
  • Vallerga CL, Zhang F, Fowdar J, McRae AF et al. Analysis of DNA methylation associates the cystine-glutamate antiporter SLC7A11 with risk of Parkinson's disease. Nat Commun 2020 Mar 6;11(1):1238. PMID: 32144264
  • Cai WL, Greer CB, Chen JF, Arnal-Estapé A et al. Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain. BMC Med Genomics 2020 Mar 6;13(1):33. PMID: 32143622
  • Zhao F, Ma X, Qiu W, Wang P et al. Mesenchymal MACF1 Facilitates SMAD7 Nuclear Translocation to Drive Bone Formation. Cells 2020 Mar 4;9(3). PMID: 32143362
  • Ambjørner SEB, Wiese M, Köhler SC, Svindt J et al. The Pyrazolo[3,4-d]pyrimidine Derivative, SCO-201, Reverses Multidrug Resistance Mediated by ABCG2/BCRP. Cells 2020 Mar 4;9(3). PMID: 32143347
  • Nyati S, Gregg BS, Xu J, Young G et al. TGFBR2 mediated phosphorylation of BUB1 at Ser-318 is required for transforming growth factor-β signaling. Neoplasia 2020 Apr;22(4):163-178. PMID: 32143140
  • Smith CM, Kadin JA, Baldarelli RM, Beal JS et al. GXD's RNA-Seq and Microarray Experiment Search: using curated metadata to reliably find mouse expression studies of interest. Database (Oxford) 2020 Jan 1;2020. PMID: 32140729
  • Han L, Chen Q, Lin Q, Cheng J et al. Realization of Robust and Precise Regulation of Gene Expression by Multiple Sigma Recognizable Artificial Promoters. Front Bioeng Biotechnol 2020;8:92. PMID: 32140461
  • Niu H, Huang Y, Yan L, Zhang L et al. Knockdown of SMAD3 inhibits the growth and enhances the radiosensitivity of lung adenocarcinoma via p21 in vitro and in vivo. Int J Biol Sci 2020;16(6):1010-1022. PMID: 32140069
  • Keo A, Mahfouz A, Ingrassia AMT, Meneboo JP et al. Transcriptomic signatures of brain regional vulnerability to Parkinson's disease. Commun Biol 2020 Mar 5;3(1):101. PMID: 32139796
  • Raj U, Aier I, Semwal R, Varadwaj PK et al. Author Correction: Identification of novel dysregulated key genes in Breast cancer through high throughput ChIP-Seq data analysis. Sci Rep 2020 Mar 6;10(1):4537. PMID: 32139785
  • Chan AB, Huber AL, Lamia KA et al. Cryptochromes modulate E2F family transcription factors. Sci Rep 2020 Mar 5;10(1):4077. PMID: 32139766
  • Işıldak U, Somel M, Thornton JM, Dönertaş HM et al. Temporal changes in the gene expression heterogeneity during brain development and aging. Sci Rep 2020 Mar 5;10(1):4080. PMID: 32139741
  • Roy S, Kumar R, Mittal V, Gupta D et al. Classification models for Invasive Ductal Carcinoma Progression, based on gene expression data-trained supervised machine learning. Sci Rep 2020 Mar 5;10(1):4113. PMID: 32139710
  • Van den Berge K, Roux de Bézieux H, Street K, Saelens W et al. Trajectory-based differential expression analysis for single-cell sequencing data. Nat Commun 2020 Mar 5;11(1):1201. PMID: 32139671
  • Zang M, Guo J, Liu L, Jin F et al. Cdc37 suppression induces plasma cell immaturation and bortezomib resistance in multiple myeloma via Xbp1s. Oncogenesis 2020 Mar 5;9(3):31. PMID: 32139666
  • Wruck W, Adjaye J et al. Meta-analysis of human prefrontal cortex reveals activation of GFAP and decline of synaptic transmission in the aging brain. Acta Neuropathol Commun 2020 Mar 5;8(1):26. PMID: 32138778
  • Luo X, Wang F, Wang G, Zhao Y et al. Identification of methylation states of DNA regions for Illumina methylation BeadChip. BMC Genomics 2020 Mar 5;21(Suppl 1):672. PMID: 32138668
  • Tang H, Tang Y, Zeng T, Chen L et al. Gene expression analysis reveals the tipping points during infant brain development for human and chimpanzee. BMC Genomics 2020 Mar 5;21(Suppl 1):74. PMID: 32138647
  • Li Q, Huang Z, Zhao W, Li M et al. Transcriptome Analysis Reveals Long Intergenic Non-Coding RNAs Contributed to Intramuscular Fat Content Differences between Yorkshire and Wei Pigs. Int J Mol Sci 2020 Mar 3;21(5). PMID: 32138348
  • Zhu N, Zhang P, Du L, Hou J et al. Identification of key genes and expression profiles in osteoarthritis by co-expressed network analysis. Comput Biol Chem 2020 Apr;85:107225. PMID: 32135469
  • Wang JL, Wang Y, Ren GP et al. Identification of PTPRR and JAG1 as key genes in castration-resistant prostate cancer by integrated bioinformatics methods(). J Zhejiang Univ Sci B 2020 Mar.;21(3):246-255. PMID: 32133801
  • Catizone AN, Uzunbas GK, Celadova P, Kuang S et al. Locally acting transcription factors regulate p53-dependent cis-regulatory element activity. Nucleic Acids Res 2020 May 7;48(8):4195-4213. PMID: 32133495
  • Jiu S, Xu Y, Wang J, Wang L et al. The Cytochrome P450 Monooxygenase Inventory of Grapevine (Vitis vinifera L.): Genome-Wide Identification, Evolutionary Characterization and Expression Analysis. Front Genet 2020;11:44. PMID: 32133027
  • Zhang R, Wu Y, Wang X, Lu X et al. Difference of genomic copy numbers alterations between hairy cell leukemia-variant and classical hairy cell leukemia: a pilot retrospective study in Chinese. Int J Med Sci 2020;17(3):325-331. PMID: 32132867
  • Gokhman D, Nissim-Rafinia M, Agranat-Tamir L, Housman G et al. Differential DNA methylation of vocal and facial anatomy genes in modern humans. Nat Commun 2020 Mar 4;11(1):1189. PMID: 32132541
  • Mayhew MB, Buturovic L, Luethy R, Midic U et al. A generalizable 29-mRNA neural-network classifier for acute bacterial and viral infections. Nat Commun 2020 Mar 4;11(1):1177. PMID: 32132525
  • Lee J, Lee J, Kim DH, Kim JH et al. Silencing Delta-like 1 Expression Induces Migratory Features in Pancreatic Cancer Cells Through Stimulation of Src and p38 Signalling Pathway. Anticancer Res 2020 Mar;40(3):1335-1344. PMID: 32132030
  • Liu H, Duan JQ, Ren XM, Li XL et al. [Changes of Gene Expression Profile in Cardiac Mesenchymal Cells in Patients with Type 2 Diabetes Mellitus and Screening of Their Related Environmental Chemicals]. Zhongguo Yi Xue Ke Xue Yuan Xue Bao 2020 Feb 28;42(1):37-46. PMID: 32131938
  • Wang YH, Kuo SJ, Liu SC, Wang SW et al. Apelin Affects the Progression of Osteoarthritis by Regulating VEGF-Dependent Angiogenesis and miR-150-5p Expression in Human Synovial Fibroblasts. Cells 2020 Mar 2;9(3). PMID: 32131466
  • Anderson AG, Kulkarni A, Harper M, Konopka G et al. Single-Cell Analysis of Foxp1-Driven Mechanisms Essential for Striatal Development. Cell Rep 2020 Mar 3;30(9):3051-3066.e7. PMID: 32130906
  • Ma J, Han LN, Song JR, Bai XM et al. Long noncoding RNA LINC01234 silencing exerts an anti-oncogenic effect in esophageal cancer cells through microRNA-193a-5p-mediated CCNE1 downregulation. Cell Oncol (Dordr) 2020 Jun;43(3):377-394. PMID: 32130660
  • Castellanos IC, Calvo EP, Wasserman M et al. A new gene inventory of the ubiquitin and ubiquitin-like conjugation pathways in Giardia intestinalis. Mem Inst Oswaldo Cruz 2020;115:e190242. PMID: 32130365
  • Seo EH, Kim HJ, Kim JH, Lim B et al. ONECUT2 upregulation is associated with CpG hypomethylation at promoter-proximal DNA in gastric cancer and triggers ACSL5. Int J Cancer 2020 Jun 15;146(12):3354-3368. PMID: 32129880
  • Zhang J, Wei J, Wang Z, Feng Y et al. Transcriptome hallmarks in Helicobacter pylori infection influence gastric cancer and MALT lymphoma. Epigenomics 2020 Apr;12(8):661-671. PMID: 32129675
  • Yu B, Liang H, Ye Q, Wang Y et al. Establishment of a Genomic-Clinicopathologic Nomogram for Predicting Early Recurrence of Hepatocellular Carcinoma After R0 Resection. J Gastrointest Surg 2021 Jan;25(1):112-124. PMID: 32128678
  • Luo H, Yu Q, Liu Y, Tang M et al. LATS kinase-mediated CTCF phosphorylation and selective loss of genomic binding. Sci Adv 2020 Feb;6(8):eaaw4651. PMID: 32128389
  • Sista Kameshwar AK, Qin W et al. Systematic metadata analysis of brown rot fungi gene expression data reveals the genes involved in Fenton's reaction and wood decay process. Mycology 2020;11(1):22-37. PMID: 32128279
  • Shi X, Zhang L, Bai K, Xie H et al. Identification of rare variants in novel candidate genes in pulmonary atresia patients by next generation sequencing. Comput Struct Biotechnol J 2020;18:381-392. PMID: 32128068
  • Zhong W, Dong L, Poston TB, Darville T et al. Inferring Regulatory Networks From Mixed Observational Data Using Directed Acyclic Graphs. Front Genet 2020;11:8. PMID: 32127796
  • Qiu PEmbracing the dropouts in single-cell RNA-seq analysis. Nat Commun 2020 Mar 3;11(1):1169. PMID: 32127540
  • Ashoor H, Chen X, Rosikiewicz W, Wang J et al. Graph embedding and unsupervised learning predict genomic sub-compartments from HiC chromatin interaction data. Nat Commun 2020 Mar 3;11(1):1173. PMID: 32127534
  • Wang W, Ji J, Li J, Ren Q et al. Several critical genes and microRNAs associated with the development of polycystic ovary syndrome. Ann Endocrinol (Paris) 2020 Feb;81(1):18-27. PMID: 32127169
  • Li J, Wang Y, Wang X, Yang Q et al. CDK1 and CDC20 overexpression in patients with colorectal cancer are associated with poor prognosis: evidence from integrated bioinformatics analysis. World J Surg Oncol 2020 Mar 4;18(1):50. PMID: 32127012
  • Barnes IHA, Ibarra-Soria X, Fitzgerald S, Gonzalez JM et al. Expert curation of the human and mouse olfactory receptor gene repertoires identifies conserved coding regions split across two exons. BMC Genomics 2020 Mar 3;21(1):196. PMID: 32126975
  • Tarantelli C, Lange M, Gaudio E, Cascione L et al. Copanlisib synergizes with conventional and targeted agents including venetoclax in B- and T-cell lymphoma models. Blood Adv 2020 Mar 10;4(5):819-829. PMID: 32126142
  • Higashijima Y, Matsui Y, Shimamura T, Nakaki R et al. Coordinated demethylation of H3K9 and H3K27 is required for rapid inflammatory responses of endothelial cells. EMBO J 2020 Apr 1;39(7):e103949. PMID: 32125007
  • Yaojia Cheng YX, Lu Q, Shi N, Zhou Q et al. Aberrant expression of the UPF1 RNA surveillance gene disturbs keratinocyte homeostasis by stabilizing AREG. Int J Mol Med 2020 Apr;45(4):1163-1175. PMID: 32124941
  • Huang Z, Wang X, Ma L, Guo Z et al. Genetic variations in Hippo pathway genes influence bladder cancer risk in a Chinese population. Arch Toxicol 2020 Mar;94(3):785-794. PMID: 32123962
  • Toyoda Y, Takada T, Umezawa M, Tomura F et al. Identification of hepatic NPC1L1 as an NAFLD risk factor evidenced by ezetimibe-mediated steatosis prevention and recovery. FASEB Bioadv 2019 May;1(5):283-295. PMID: 32123832
  • Chen F, Wu P, Deng S, Zhang H et al. Dissimilation of synonymous codon usage bias in virus-host coevolution due to translational selection. Nat Ecol Evol 2020 Apr;4(4):589-600. PMID: 32123323
  • Wagner M, Yoshihara M, Douagi I, Damdimopoulos A et al. Single-cell analysis of human ovarian cortex identifies distinct cell populations but no oogonial stem cells. Nat Commun 2020 Mar 2;11(1):1147. PMID: 32123174
  • Ge Y, Ma G, Liu H, Lin Y et al. MUC1 is associated with TFF2 methylation in gastric cancer. Clin Epigenetics 2020 Mar 2;12(1):37. PMID: 32122390
  • Zhang Y, Tseng JT, Lien IC, Li F et al. mRNAsi Index: Machine Learning in Mining Lung Adenocarcinoma Stem Cell Biomarkers. Genes (Basel) 2020 Feb 27;11(3). PMID: 32121037
  • Zhao Y, Lei Y, He SW, Li YQ et al. Hypermethylation of UCHL1 Promotes Metastasis of Nasopharyngeal Carcinoma by Suppressing Degradation of Cortactin (CTTN). Cells 2020 Feb 27;9(3). PMID: 32120844
  • Deng YY, Zheng Y, Cai GY, Chen XM et al. Single-cell RNA sequencing data suggest a role for angiotensin-converting enzyme 2 in kidney impairment in patients infected with 2019-novel coronavirus. Chin Med J (Engl) 2020 May 5;133(9):1129-1131. PMID: 32118645
  • Lee H, Chang HY, Cho SW, Ji HP et al. CRISPRpic: fast and precise analysis for CRISPR-induced mutations via prefixed index counting. NAR Genom Bioinform 2020 Jun;2(2):lqaa012. PMID: 32118203
  • Wu K, Li M, Chen ZY, Lowrie DB et al. Probe Signal Values in mRNA Arrays Imply an Excessive Involvement of Neutrophil FCGR1 in Tuberculosis. Front Med (Lausanne) 2020;7:19. PMID: 32118006
  • Zhang Y, Xue Z, Guo F, Yu F et al. Nc2Eye: A Curated ncRNAomics Knowledgebase for Bridging Basic and Clinical Research in Eye Diseases. Front Cell Dev Biol 2020;8:75. PMID: 32117995
  • Zhu L, Li Q, Wang X, Liao J et al. THBS1 Is a Novel Serum Prognostic Factors of Acute Myeloid Leukemia. Front Oncol 2019;9:1567. PMID: 32117788
  • Cao Y, Wang X, Tang L, Li Y et al. Engrailed-2 promotes a malignant phenotype of esophageal squamous cell carcinoma through upregulating the expression of pro-oncogenic genes. PeerJ 2020;8:e8662. PMID: 32117645
  • Obermayer B, Holtgrewe M, Nieminen M, Messerschmidt C et al. SCelVis: exploratory single cell data analysis on the desktop and in the cloud. PeerJ 2020;8:e8607. PMID: 32117635
  • Hu X, Sun G, Shi Z, Ni H et al. Identification and validation of key modules and hub genes associated with the pathological stage of oral squamous cell carcinoma by weighted gene co-expression network analysis. PeerJ 2020;8:e8505. PMID: 32117620
  • Li Z, Zheng J, Xia Q, He X et al. Identification of Specific Long Non-Coding Ribonucleic Acid Signatures and Regulatory Networks in Prostate Cancer in Fine-Needle Aspiration Biopsies. Front Genet 2020;11:62. PMID: 32117463
  • Lytal N, Ran D, An L et al. Normalization Methods on Single-Cell RNA-seq Data: An Empirical Survey. Front Genet 2020;11:41. PMID: 32117453
  • Zhang J, Hu H, Xu S, Jiang H et al. The Functional Effects of Key Driver KRAS Mutations on Gene Expression in Lung Cancer. Front Genet 2020;11:17. PMID: 32117436
  • Cheng B, He Q, Cheng Y, Yang H et al. A Three-Gene Classifier Associated With MicroRNA-Mediated Regulation Predicts Prostate Cancer Recurrence After Radical Prostatectomy. Front Genet 2019;10:1402. PMID: 32117427
  • Roudbari Z, Coort SL, Kutmon M, Eijssen L et al. Identification of Biological Pathways Contributing to Marbling in Skeletal Muscle to Improve Beef Cattle Breeding. Front Genet 2019;10:1370. PMID: 32117419
  • Routh ED, Pullikuth AK, Jin G, Chifman J et al. Transcriptomic Features of T Cell-Barren Tumors Are Conserved Across Diverse Tumor Types. Front Immunol 2020;11:57. PMID: 32117236
  • Van der Veen DR, Laing EE, Bae SE, Johnston JD et al. A Topological Cluster of Differentially Regulated Genes in Mice Lacking PER3. Front Mol Neurosci 2020;13:15. PMID: 32116548
  • Hoa M, Olszewski R, Li X, Taukulis I et al. Characterizing Adult Cochlear Supporting Cell Transcriptional Diversity Using Single-Cell RNA-Seq: Validation in the Adult Mouse and Translational Implications for the Adult Human Cochlea. Front Mol Neurosci 2020;13:13. PMID: 32116546
  • Yu M, Xiao L, Chen Y, Wang H et al. Identification of a potential target for treatment of squamous cell carcinoma of the tongue: follistatin. Br J Oral Maxillofac Surg 2020 May;58(4):437-442. PMID: 32115303
  • Kim K, Ko Y, Oh H, Ha M et al. MicroRNA-98 is a prognostic factor for asbestos-induced mesothelioma. J Toxicol Environ Health A 2020 Feb 1;83(3):126-134. PMID: 32114955
  • Xu D, Liu X, Wang Y, Zhou K et al. Identification of immune subtypes and prognosis of hepatocellular carcinoma based on immune checkpoint gene expression profile. Biomed Pharmacother 2020 Jun;126:109903. PMID: 32113055
  • Zhang Y, Chatzistamou I, Kiaris H et al. Identification of frailty-associated genes by coordination analysis of gene expression. Aging (Albany NY) 2020 Feb 29;12(5):4222-4229. PMID: 32112643
  • Mitchelmore J, Grinberg NF, Wallace C, Spivakov M et al. Functional effects of variation in transcription factor binding highlight long-range gene regulation by epromoters. Nucleic Acids Res 2020 Apr 6;48(6):2866-2879. PMID: 32112106
  • Zhao C, Quan X, He J, Zhao R et al. Identification of significant gene biomarkers of low back pain caused by changes in the osmotic pressure of nucleus pulposus cells. Sci Rep 2020 Feb 28;10(1):3708. PMID: 32111963
  • Rambousek L, Gschwind T, Lafourcade C, Paterna JC et al. Aberrant expression of PAR bZIP transcription factors is associated with epileptogenesis, focus on hepatic leukemia factor. Sci Rep 2020 Feb 28;10(1):3760. PMID: 32111960
  • Singh A, Dashnyam M, Chim B, Escobar TM et al. Anxiolytic Drug FGIN-1-27 Ameliorates Autoimmunity by Metabolic Reprogramming of Pathogenic Th17 Cells. Sci Rep 2020 Feb 28;10(1):3766. PMID: 32111885
  • Bell E, Curry EW, Megchelenbrink W, Jouneau L et al. Dynamic CpG methylation delineates subregions within super-enhancers selectively decommissioned at the exit from naive pluripotency. Nat Commun 2020 Feb 28;11(1):1112. PMID: 32111830
  • Wang L, Sebra RP, Sfakianos JP, Allette K et al. A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles. Genome Med 2020 Feb 28;12(1):24. PMID: 32111252
  • Xie Y, Fang B, Liu W, Li G et al. Transcriptome differences in adipose stromal cells derived from pre- and postmenopausal women. Stem Cell Res Ther 2020 Feb 28;11(1):92. PMID: 32111240
  • Xu H, Liu P, Yan Y, Fang K et al. FKBP9 promotes the malignant behavior of glioblastoma cells and confers resistance to endoplasmic reticulum stress inducers. J Exp Clin Cancer Res 2020 Feb 28;39(1):44. PMID: 32111229
  • Rodriguez-Polo I, Nielsen M, Debowski K, Behr R et al. The ubiquitin ligase c-CBL is expressed in undifferentiated marmoset monkey pluripotent stem cells but is not a general stem cell marker. Primate Biol 2017;4(2):231-240. PMID: 32110709
  • Zhong D, Wu C, Bai J, Xu D et al. Co-expression network analysis reveals the pivotal role of mitochondrial dysfunction and interferon signature in juvenile dermatomyositis. PeerJ 2020;8:e8611. PMID: 32110496
  • Lamaa A, Humbert J, Aguirrebengoa M, Cheng X et al. Integrated analysis of H2A.Z isoforms function reveals a complex interplay in gene regulation. Elife 2020 Feb 28;9. PMID: 32109204
  • Xu Z, Xiang W, Chen W, Sun Y et al. Circ-IGF1R inhibits cell invasion and migration in non-small cell lung cancer. Thorac Cancer 2020 Apr;11(4):875-887. PMID: 32107851
  • Ferrante F, Giaimo BD, Bartkuhn M, Zimmermann T et al. HDAC3 functions as a positive regulator in Notch signal transduction. Nucleic Acids Res 2020 Apr 17;48(7):3496-3512. PMID: 32107550
  • Wu TY, Krishnamoorthi S, Goh H, Leong R et al. Crosstalk between heterotrimeric G protein-coupled signaling pathways and WRKY transcription factors modulating plant responses to suboptimal micronutrient conditions. J Exp Bot 2020 May 30;71(10):3227-3239. PMID: 32107545
  • Gliozzo J, Perlasca P, Mesiti M, Casiraghi E et al. Network modeling of patients' biomolecular profiles for clinical phenotype/outcome prediction. Sci Rep 2020 Feb 27;10(1):3612. PMID: 32107391
  • Piro MC, Ventura A, Smirnov A, Saggini A et al. Transglutaminase 3 Reduces the Severity of Psoriasis in Imiquimod-Treated Mouse Skin. Int J Mol Sci 2020 Feb 25;21(5). PMID: 32106600
  • Ha M, Kim J, Park SM, Hong CM et al. Prognostic Role of Zinc Finger Homeobox 4 in Ovarian Serous Cystadenocarcinoma. Genet Test Mol Biomarkers 2020 Mar;24(3):145-149. PMID: 32105524
  • Zhu T, Fan D, Ye K, Liu B et al. Role of miRNA-542-5p in the tumorigenesis of osteosarcoma. FEBS Open Bio 2020 Apr;10(4):627-636. PMID: 32105410
  • Wu K, Zhang C, Zhang C, Dai D et al. A Novel Three-miRNA Signature Identified Using Bioinformatics Predicts Survival in Esophageal Carcinoma. Biomed Res Int 2020;2020:5973082. PMID: 32104700
  • Petralia MC, Mazzon E, Mangano K, Fagone P et al. Transcriptomic analysis reveals moderate modulation of macrophage migration inhibitory factor superfamily genes in alcohol use disorders. Exp Ther Med 2020 Mar;19(3):1755-1762. PMID: 32104230
  • Liu Y, Duan Y, Li Y et al. Integrated Gene Expression Profiling Analysis Reveals Probable Molecular Mechanism and Candidate Biomarker in Anti-TNFα Non-Response IBD Patients. J Inflamm Res 2020;13:81-95. PMID: 32104045
  • Guo W, Sun S, Guo L, Song P et al. Elevated TOP2A and UBE2C expressions correlate with poor prognosis in patients with surgically resected lung adenocarcinoma: a study based on immunohistochemical analysis and bioinformatics. J Cancer Res Clin Oncol 2020 Apr;146(4):821-841. PMID: 32103339
  • Chen L, Wang C, Sun H, Wang J et al. The bioinformatics toolbox for circRNA discovery and analysis. Brief Bioinform 2021 Mar 22;22(2):1706-1728. PMID: 32103237
  • Wang Y, Ma S, Ruzzo WL et al. Spatial modeling of prostate cancer metabolic gene expression reveals extensive heterogeneity and selective vulnerabilities. Sci Rep 2020 Feb 26;10(1):3490. PMID: 32103057
  • Oruba A, Saccani S, van Essen D et al. Role of cell-type specific nucleosome positioning in inducible activation of mammalian promoters. Nat Commun 2020 Feb 26;11(1):1075. PMID: 32103026
  • Takahashi H, Ranjan A, Chen S, Suzuki H et al. The role of Mediator and Little Elongation Complex in transcription termination. Nat Commun 2020 Feb 26;11(1):1063. PMID: 32102997
  • Xiang H, Yang XH, Ai LX, Pan YP et al. Bioinformatics analysis of differentially expressed genes on alopecia. Yi Chuan 2020 Feb 20;42(2):172-182. PMID: 32102774
  • Liang CY, Li ZY, Gan TQ, Fang YY et al. Downregulation of hsa-microRNA-204-5p and identification of its potential regulatory network in non-small cell lung cancer: RT-qPCR, bioinformatic- and meta-analyses. Respir Res 2020 Feb 26;21(1):60. PMID: 32102656
  • Niederkorn M, Hueneman K, Choi K, Varney ME et al. TIFAB Regulates USP15-Mediated p53 Signaling during Stressed and Malignant Hematopoiesis. Cell Rep 2020 Feb 25;30(8):2776-2790.e6. PMID: 32101751
  • Baryshnikova AData libraries - the missing element for modeling biological systems. FEBS J 2020 Nov;287(21):4594-4601. PMID: 32100391
  • Ghorbaninejad M, Heydari R, Mohammadi P, Shahrokh S et al. Contribution of NOTCH signaling pathway along with TNF-α in the intestinal inflammation of ulcerative colitis. Gastroenterol Hepatol Bed Bench 2019;12(Suppl1):S80-S86. PMID: 32099606
  • Norouzinia M, Zamanian Azodi M, Najafgholizadeh Seyfi D, Kardan A et al. Predication of hub target genes of differentially expressed microRNAs contributing to Helicobacter pylori infection in gastric non-cancerous tissue. Gastroenterol Hepatol Bed Bench 2019;12(Suppl1):S44-S50. PMID: 32099601
  • Paci P, Fiscon G, Conte F, Licursi V et al. Integrated transcriptomic correlation network analysis identifies COPD molecular determinants. Sci Rep 2020 Feb 25;10(1):3361. PMID: 32099002
  • Luo X, Tang J, Xuan H, Liu J et al. Identification and Validation of a Potent Multi-miRNA Signature for Prediction of Prognosis of Osteosarcoma Patients. Med Sci Monit 2020 Feb 26;26:e919272. PMID: 32098942
  • Pothuraju R, Rachagani S, Krishn SR, Chaudhary S et al. Molecular implications of MUC5AC-CD44 axis in colorectal cancer progression and chemoresistance. Mol Cancer 2020 Feb 25;19(1):37. PMID: 32098629
  • Zhang H, Vreeken D, Junaid A, Wang G et al. Endothelial Semaphorin 3F Maintains Endothelial Barrier Function and Inhibits Monocyte Migration. Int J Mol Sci 2020 Feb 21;21(4). PMID: 32098168
  • Cubillos-Angulo JM, Fukutani ER, Cruz LAB, Arriaga MB et al. Systems biology analysis of publicly available transcriptomic data reveals a critical link between AKR1B10 gene expression, smoking and occurrence of lung cancer. PLoS One 2020;15(2):e0222552. PMID: 32097409
  • Chen Y, Jiang P, Wen J, Wu Z et al. Integrated bioinformatics analysis of the crucial candidate genes and pathways associated with glucocorticoid resistance in acute lymphoblastic leukemia. Cancer Med 2020 Apr;9(8):2918-2929. PMID: 32096603
  • Chen S, Li M, Xin W, Liu S et al. Intracranial aneurysm's association with genetic variants, transcription abnormality, and methylation changes in ADAMTS genes. PeerJ 2020;8:e8596. PMID: 32095376
  • Liu D, Zhou B, Liu R et al. A transcriptional co-expression network-based approach to identify prognostic biomarkers in gastric carcinoma. PeerJ 2020;8:e8504. PMID: 32095347
  • Kotliarov Y, Sparks R, Martins AJ, Mulè MP et al. Broad immune activation underlies shared set point signatures for vaccine responsiveness in healthy individuals and disease activity in patients with lupus. Nat Med 2020 Apr;26(4):618-629. PMID: 32094927
  • Levy R, Levet C, Cohen K, Freeman M et al. A genome-wide association study in mice reveals a role for Rhbdf2 in skeletal homeostasis. Sci Rep 2020 Feb 24;10(1):3286. PMID: 32094386
  • Gomez-Acevedo H, Dai Y, Strub G, Shawber C et al. Identification of putative biomarkers for Infantile Hemangiomas and Propranolol treatment via data integration. Sci Rep 2020 Feb 24;10(1):3261. PMID: 32094357
  • Lindner P, Paul S, Eckstein M, Hampel C et al. EMT transcription factor ZEB1 alters the epigenetic landscape of colorectal cancer cells. Cell Death Dis 2020 Feb 24;11(2):147. PMID: 32094334
  • Wang W, Fasolino M, Cattau B, Goldman N et al. Joint profiling of chromatin accessibility and CAR-T integration site analysis at population and single-cell levels. Proc Natl Acad Sci U S A 2020 Mar 10;117(10):5442-5452. PMID: 32094195
  • Urban L, Remmele CW, Dittrich M, Schwarz RF et al. covRNA: discovering covariate associations in large-scale gene expression data. BMC Res Notes 2020 Feb 24;13(1):92. PMID: 32093752
  • Hu S, Huo D, Yu Z, Chen Y et al. ncHMR detector: a computational framework to systematically reveal non-classical functions of histone modification regulators. Genome Biol 2020 Feb 24;21(1):48. PMID: 32093739
  • Li SY, Zhang ZN, Jiang YJ, Fu YJ et al. Transcriptional insights into the CD8(+) T cell response in mono-HIV and HCV infection. J Transl Med 2020 Feb 24;18(1):96. PMID: 32093694
  • Thompson JA, Koestler DC et al. Equivalent change enrichment analysis: assessing equivalent and inverse change in biological pathways between diverse experiments. BMC Genomics 2020 Feb 24;21(1):180. PMID: 32093613
  • Segal MR, Fletez-Brant K et al. Assessing stationary distributions derived from chromatin contact maps. BMC Bioinformatics 2020 Feb 24;21(1):73. PMID: 32093610
  • Hatzl S, Perfler B, Wurm S, Uhl B et al. Increased Expression of Micro-RNA-23a Mediates Chemoresistance to Cytarabine in Acute Myeloid Leukemia. Cancers (Basel) 2020 Feb 20;12(2). PMID: 32093419
  • Hossain MA, Asa TA, Rahman MM, Uddin S et al. Network-Based Genetic Profiling Reveals Cellular Pathway Differences Between Follicular Thyroid Carcinoma and Follicular Thyroid Adenoma. Int J Environ Res Public Health 2020 Feb 20;17(4). PMID: 32093341
  • Gatti V, Ferrara M, Virdia I, Matteoni S et al. An Alternative Splice Variant of HIPK2 with Intron Retention Contributes to Cytokinesis. Cells 2020 Feb 20;9(2). PMID: 32093146
  • Leong S, Zhao Y, Ribeiro-Rodrigues R, Jones-López EC et al. Cross-validation of existing signatures and derivation of a novel 29-gene transcriptomic signature predictive of progression to TB in a Brazilian cohort of household contacts of pulmonary TB. Tuberculosis (Edinb) 2020 Jan;120:101898. PMID: 32090859
  • Sun H, Yang X, Liang L, Zhang M et al. Metabolic switch and epithelial-mesenchymal transition cooperate to regulate pluripotency. EMBO J 2020 Apr 15;39(8):e102961. PMID: 32090361
  • Choi K, Jin M, Zouboulis CC, Lee Y et al. Increased Lipid Accumulation under Hypoxia in SZ95 Human Sebocytes. Dermatology 2021;237(1):131-141. PMID: 32088721
  • Chandradoss KR, Guthikonda PK, Kethavath S, Dass M et al. Biased visibility in Hi-C datasets marks dynamically regulated condensed and decondensed chromatin states genome-wide. BMC Genomics 2020 Feb 22;21(1):175. PMID: 32087673
  • Zhang Y, Liu X, Liu L, Li J et al. Expression and Prognostic Significance of m6A-Related Genes in Lung Adenocarcinoma. Med Sci Monit 2020 Feb 22;26:e919644. PMID: 32086933
  • Vassiliadis D, Wong KH, Blinco J, Dumsday G et al. Adaptation to Industrial Stressors Through Genomic and Transcriptional Plasticity in a Bioethanol Producing Fission Yeast Isolate. G3 (Bethesda) 2020 Apr 9;10(4):1375-1391. PMID: 32086247
  • Zhang T, Zhang Z, Dong Q, Xiong J et al. Histone H3K27 acetylation is dispensable for enhancer activity in mouse embryonic stem cells. Genome Biol 2020 Feb 21;21(1):45. PMID: 32085783
  • Salazar C, Yañez O, Elorza AA, Cortes N et al. Biosystem Analysis of the Hypoxia Inducible Domain Family Member 2A: Implications in Cancer Biology. Genes (Basel) 2020 Feb 18;11(2). PMID: 32085461
  • Hong H, Jiang S, Li H, Du G et al. DeepHiC: A generative adversarial network for enhancing Hi-C data resolution. PLoS Comput Biol 2020 Feb;16(2):e1007287. PMID: 32084131
  • Liu J, Li S, Lin L, Jiang Y et al. Co-expression network analysis identified atypical chemokine receptor 1 (ACKR1) association with lymph node metastasis and prognosis in cervical cancer. Cancer Biomark 2020;27(2):213-223. PMID: 32083574
  • Zhang Z, Yi P, Tu C, Zhan J et al. Curcumin Inhibits ERK/c-Jun Expressions and Phosphorylation against Endometrial Carcinoma. Biomed Res Int 2019;2019:8912961. PMID: 32083122
  • Jabalee J, Towle R, Lawson J, Dickman C et al. Sphingomyelin phosphodiesterase 3 methylation and silencing in oral squamous cell carcinoma results in increased migration and invasion and altered stress response. Oncotarget 2020 Feb 4;11(5):523-534. PMID: 32082486
  • Yeh CM, Kobayashi K, Fujii S, Fukaki H et al. Blue Light Regulates Phosphate Deficiency-Dependent Primary Root Growth Inhibition in Arabidopsis. Front Plant Sci 2019;10:1803. PMID: 32082352
  • Nigro A, Ricciardi L, Salvato I, Sabbatino F et al. Enhanced Expression of CD47 Is Associated With Off-Target Resistance to Tyrosine Kinase Inhibitor Gefitinib in NSCLC. Front Immunol 2019;10:3135. PMID: 32082304
  • Han M, Nwosu ZC, Piorońska W, Ebert MP et al. Caveolin-1 Impacts on TGF-β Regulation of Metabolic Gene Signatures in Hepatocytes. Front Physiol 2019;10:1606. PMID: 32082178
  • Xiao Z, Wei Z, Deng D, Zheng Z et al. Downregulation of Siah1 promotes colorectal cancer cell proliferation and migration by regulating AKT and YAP ubiquitylation and proteasome degradation. Cancer Cell Int 2020;20:50. PMID: 32082080
  • Li Y, Jiang T, Zhou W, Li J et al. Pan-cancer characterization of immune-related lncRNAs identifies potential oncogenic biomarkers. Nat Commun 2020 Feb 21;11(1):1000. PMID: 32081859
  • Wan Q, Jin L, Su Y, Liu Y et al. Development and validation of autophagy-related-gene biomarker and nomogram for predicting the survival of cutaneous melanoma. IUBMB Life 2020 Jul;72(7):1364-1378. PMID: 32080971
  • Simchovitz A, Hanan M, Yayon N, Lee S et al. A lncRNA survey finds increases in neuroprotective LINC-PINT in Parkinson's disease substantia nigra. Aging Cell 2020 Mar;19(3):e13115. PMID: 32080970
  • Aswal M, Garg A, Singhal N, Kumar M et al. Comparative in-silico proteomic analysis discerns potential granuloma proteins of Yersinia pseudotuberculosis. Sci Rep 2020 Feb 20;10(1):3036. PMID: 32080254
  • Gratton R, Tricarico PM, Agrelli A, Colaço da Silva HV et al. In Vitro Zika Virus Infection of Human Neural Progenitor Cells: Meta-Analysis of RNA-Seq Assays. Microorganisms 2020 Feb 17;8(2). PMID: 32079323
  • Wang YH, Lin CC, Yao CY, Hsu CL et al. A 4-gene leukemic stem cell score can independently predict the prognosis of myelodysplastic syndrome patients. Blood Adv 2020 Feb 25;4(4):644-654. PMID: 32078680
  • Vossen ARJV, van Straalen KR, Swagemakers SMA, de Klein JEMM et al. A novel nicastrin mutation in a three-generation Dutch family with hidradenitis suppurativa: a search for functional significance. J Eur Acad Dermatol Venereol 2020 Oct;34(10):2353-2361. PMID: 32078194
  • Liu C, Cui X, Zhao BS, Narkhede P et al. DNA 5-Methylcytosine-Specific Amplification and Sequencing. J Am Chem Soc 2020 Mar 11;142(10):4539-4543. PMID: 32077696
  • Jin Y, Qin X et al. Co-expression network-based identification of biomarkers correlated with the lymph node metastasis of patients with head and neck squamous cell carcinoma. Biosci Rep 2020 Feb 28;40(2). PMID: 32076707
  • Wang S, Zhang L, Tao L, Pang L et al. Construction and Investigation of an LINC00284-Associated Regulatory Network in Serous Ovarian Carcinoma. Dis Markers 2020;2020:9696285. PMID: 32076467
  • Donovan MKR, D'Antonio-Chronowska A, D'Antonio M, Frazer KA et al. Cellular deconvolution of GTEx tissues powers discovery of disease and cell-type associated regulatory variants. Nat Commun 2020 Feb 19;11(1):955. PMID: 32075962
  • Wu G, Schmid M, Rib L, Polak P et al. A Two-Layered Targeting Mechanism Underlies Nuclear RNA Sorting by the Human Exosome. Cell Rep 2020 Feb 18;30(7):2387-2401.e5. PMID: 32075771
  • Panda K, McCue AD, Slotkin RK et al. Arabidopsis RNA Polymerase IV generates 21-22 nucleotide small RNAs that can participate in RNA-directed DNA methylation and may regulate genes. Philos Trans R Soc Lond B Biol Sci 2020 Mar 30;375(1795):20190417. PMID: 32075560
  • Jeong HY, Kim HJ, Kim CE, Lee S et al. High expression of RFX4 is associated with tumor progression and poor prognosis in patients with glioblastoma. Int J Neurosci 2021 Jan;131(1):7-14. PMID: 32075484
  • Stachowiak M, Szymanski M, Ornoch A, Jancewicz I et al. SWI/SNF chromatin remodeling complex and glucose metabolism are deregulated in advanced bladder cancer. IUBMB Life 2020 Jun;72(6):1175-1188. PMID: 32073734
  • Bertuccio SN, Boudia F, Cambot M, Lopez CK et al. The Pediatric Acute Leukemia Fusion Oncogene ETO2-GLIS2 Increases Self-Renewal and Alters Differentiation in a Human Induced Pluripotent Stem Cells-Derived Model. Hemasphere 2020 Feb;4(1):e319. PMID: 32072139
  • Guo H, Cai J, Wang X, Wang B et al. Prognostic values of a novel multi-mRNA signature for predicting relapse of cholangiocarcinoma. Int J Biol Sci 2020;16(5):869-881. PMID: 32071556
  • Xu J, Zheng Z, Du X, Shi B et al. A cytokine screen using CRISPR-Cas9 knock-in reporter pig iPS cells reveals that Activin A regulates NANOG. Stem Cell Res Ther 2020 Feb 18;11(1):67. PMID: 32070424
  • Kitani T, Tian L, Zhang T, Itzhaki I et al. RNA Sequencing Analysis of Induced Pluripotent Stem Cell-Derived Cardiomyocytes From Congenital Heart Disease Patients. Circ Res 2020 Mar 27;126(7):923-925. PMID: 32070195
  • Rotundo F, Cominetti D, El Bezawy R, Percio S et al. miR-1272 Exerts Tumor-Suppressive Functions in Prostate Cancer via HIP1 Suppression. Cells 2020 Feb 13;9(2). PMID: 32069895
  • Kauzlaric A, Jang SM, Morchikh M, Cassano M et al. KAP1 targets actively transcribed genomic loci to exert pleomorphic effects on RNA polymerase II activity. Philos Trans R Soc Lond B Biol Sci 2020 Mar 30;375(1795):20190334. PMID: 32068487
  • Li S, Chen S, Wang B, Zhang L et al. The long noncoding RNA LINC00341 suppresses colorectal carcinoma by preventing cell migration and apoptosis. Cell Biochem Funct 2020 Apr;38(3):266-274. PMID: 32067238
  • Garrido J, Aguilar M, Prieto P et al. Identification and validation of reference genes for RT-qPCR normalization in wheat meiosis. Sci Rep 2020 Feb 17;10(1):2726. PMID: 32066846
  • Linhares-Lacerda L, Temerozo JR, Ribeiro-Alves M, Azevedo EP et al. Neutrophil extracellular trap-enriched supernatants carry microRNAs able to modulate TNF-α production by macrophages. Sci Rep 2020 Feb 17;10(1):2715. PMID: 32066757
  • Fendler A, Bauer D, Busch J, Jung K et al. Inhibiting WNT and NOTCH in renal cancer stem cells and the implications for human patients. Nat Commun 2020 Feb 17;11(1):929. PMID: 32066735
  • Zerbib Y, Jenkins EK, Shojaei M, Meyers AFA et al. Pathway mapping of leukocyte transcriptome in influenza patients reveals distinct pathogenic mechanisms associated with progression to severe infection. BMC Med Genomics 2020 Feb 17;13(1):28. PMID: 32066441
  • Patel H, Iniesta R, Stahl D, Dobson RJB et al. Working Towards a Blood-Derived Gene Expression Biomarker Specific for Alzheimer's Disease. J Alzheimers Dis 2020;74(2):545-561. PMID: 32065794
  • Assefa AT, Vandesompele J, Thas O et al. SPsimSeq: semi-parametric simulation of bulk and single-cell RNA-sequencing data. Bioinformatics 2020 May 1;36(10):3276-3278. PMID: 32065619
  • Yang Z, An Y, Wang N, Dong X et al. LINC02595 promotes tumor progression in colorectal cancer by inhibiting miR-203b-3p activity and facilitating BCL2L1 expression. J Cell Physiol 2020 Oct;235(10):7449-7464. PMID: 32064615
  • Chen Z, Yin Q, Inoue A, Zhang C et al. Allelic H3K27me3 to allelic DNA methylation switch maintains noncanonical imprinting in extraembryonic cells. Sci Adv 2019 Dec;5(12):eaay7246. PMID: 32064321
  • Qiu Y, Pu C, Li Y, Qi B et al. Construction of a circRNA-miRNA-mRNA network based on competitive endogenous RNA reveals the function of circRNAs in osteosarcoma. Cancer Cell Int 2020;20:48. PMID: 32063749
  • Zhou S, Ren M, Xu H, Xia H et al. Inhibition of ISG15 Enhances the Anti-Cancer Effect of Trametinib in Colon Cancer Cells. Onco Targets Ther 2019;12:10239-10250. PMID: 32063716
  • Liu X, Hou X, Zhou Y, Li Q et al. Downregulation of the Helicase Lymphoid-Specific (HELLS) Gene Impairs Cell Proliferation and Induces Cell Cycle Arrest in Colorectal Cancer Cells. Onco Targets Ther 2019;12:10153-10163. PMID: 32063710
  • do Nascimento JCF, Beltrão EIC, Rocha CRC et al. High FUT3 expression is a marker of lower overall survival of breast cancer patients. Glycoconj J 2020 Apr;37(2):263-275. PMID: 32062822
  • Horgusluoglu-Moloch E, Xiao G, Wang M, Wang Q et al. Systems modeling of white matter microstructural abnormalities in Alzheimer's disease. Neuroimage Clin 2020;26:102203. PMID: 32062565
  • Fu Y, Xu M, Cui Z, Yang Z et al. Genome-wide identification of FHL1 as a powerful prognostic candidate and potential therapeutic target in acute myeloid leukaemia. EBioMedicine 2020 Feb;52:102664. PMID: 32062360
  • Hong X, Liu N, Liang Y, He Q et al. Circular RNA CRIM1 functions as a ceRNA to promote nasopharyngeal carcinoma metastasis and docetaxel chemoresistance through upregulating FOXQ1. Mol Cancer 2020 Feb 15;19(1):33. PMID: 32061262
  • Álvarez-Quilón A, Terrón-Bautista J, Delgado-Sainz I, Serrano-Benítez A et al. Endogenous topoisomerase II-mediated DNA breaks drive thymic cancer predisposition linked to ATM deficiency. Nat Commun 2020 Feb 14;11(1):910. PMID: 32060399
  • Liu Z, Zhang X, Lei H, Lam N et al. CASZ1 induces skeletal muscle and rhabdomyosarcoma differentiation through a feed-forward loop with MYOD and MYOG. Nat Commun 2020 Feb 14;11(1):911. PMID: 32060262
  • Liu X, Hu M, Liu P, Jiao M et al. ATM Paradoxically Promotes Oncogenic Transformation via Transcriptional Reprogramming. Cancer Res 2020 Apr 15;80(8):1669-1680. PMID: 32060145
  • Tsukamoto T, Gearhart MD, Kim S, Mekonnen G et al. Insights into the Involvement of Spliceosomal Mutations in Myelodysplastic Disorders from Analysis of SACY-1/DDX41 in Caenorhabditis elegans. Genetics 2020 Apr;214(4):869-893. PMID: 32060018
  • Galle E, Thienpont B, Cappuyns S, Venken T et al. DNA methylation-driven EMT is a common mechanism of resistance to various therapeutic agents in cancer. Clin Epigenetics 2020 Feb 14;12(1):27. PMID: 32059745
  • Eigentler A, Tymoszuk P, Zwick J, Schmitz AA et al. The Impact of Cand1 in Prostate Cancer. Cancers (Basel) 2020 Feb 12;12(2). PMID: 32059441
  • Wang L, Qu J, Liang Y, Zhao D et al. Identification and validation of key genes with prognostic value in non-small-cell lung cancer via integrated bioinformatics analysis. Thorac Cancer 2020 Apr;11(4):851-866. PMID: 32059076
  • Qiu J, Sun M, Wang Y, Chen B et al. Identification of Hub Genes and Pathways in Gastric Adenocarcinoma Based on Bioinformatics Analysis. Med Sci Monit 2020 Feb 14;26:e920261. PMID: 32058995
  • Dermadi D, Bscheider M, Bjegovic K, Lazarus NH et al. Exploration of Cell Development Pathways through High-Dimensional Single Cell Analysis in Trajectory Space. iScience 2020 Feb 21;23(2):100842. PMID: 32058956
  • Chauhan MZ, Arcuri J, Park KK, Zafar MK et al. Multi-Omic Analyses of Growth Cones at Different Developmental Stages Provides Insight into Pathways in Adult Neuroregeneration. iScience 2020 Feb 21;23(2):100836. PMID: 32058951
  • Dasgupta S, Ewing-Graham PC, Swagemakers SMA, van der Spek PJ et al. Precursor lesions of vulvar squamous cell carcinoma - histology and biomarkers: A systematic review. Crit Rev Oncol Hematol 2020 Mar;147:102866. PMID: 32058913
  • Colvin EK, Howell VM, Mok SC, Samimi G et al. Expression of long noncoding RNAs in cancer-associated fibroblasts linked to patient survival in ovarian cancer. Cancer Sci 2020 May;111(5):1805-1817. PMID: 32058624
  • Park J, Chun KH et al. Identification of novel functions of the ROCK2-specific inhibitor KD025 by bioinformatics analysis. Gene 2020 May 5;737:144474. PMID: 32057928
  • Nordlund J, Marincevic-Zuniga Y, Cavelier L, Raine A et al. Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing. Sci Rep 2020 Feb 13;10(1):2512. PMID: 32054878
  • Yao LW, Wu LL, Zhang LH, Zhou W et al. MFAP2 is overexpressed in gastric cancer and promotes motility via the MFAP2/integrin α5β1/FAK/ERK pathway. Oncogenesis 2020 Feb 13;9(2):17. PMID: 32054827
  • Wei H, Wang P, Chen J, Li C et al. Genome-wide identification and analysis of B-BOX gene family in grapevine reveal its potential functions in berry development. BMC Plant Biol 2020 Feb 13;20(1):72. PMID: 32054455
  • Hámori L, Kudlik G, Szebényi K, Kucsma N et al. Establishment and Characterization of a Brca1(-/-), p53(-/-) Mouse Mammary Tumor Cell Line. Int J Mol Sci 2020 Feb 11;21(4). PMID: 32053991
  • Forrest ME, Pinkard O, Martin S, Sweet TJ et al. Codon and amino acid content are associated with mRNA stability in mammalian cells. PLoS One 2020;15(2):e0228730. PMID: 32053646
  • Khilji MS, Verstappen D, Dahlby T, Burstein Prause MC et al. The intermediate proteasome is constitutively expressed in pancreatic beta cells and upregulated by stimulatory, low concentrations of interleukin 1 β. PLoS One 2020;15(2):e0222432. PMID: 32053590
  • Eriksson J, Le Joncour V, Jahkola T, Juteau S et al. Prolyl 4-hydroxylase subunit alpha 1 (P4HA1) is a biomarker of poor prognosis in primary melanomas, and its depletion inhibits melanoma cell invasion and disrupts tumor blood vessel walls. Mol Oncol 2020 Apr;14(4):742-762. PMID: 32053263
  • Rankin R, Lundy FT, Schock BC, Zhang SD et al. A connectivity mapping approach predicted acetylsalicylic acid (aspirin) to induce osteo/odontogenic differentiation of dental pulp cells. Int Endod J 2020 Jun;53(6):834-845. PMID: 32053214
  • Liu J, Li Z, Teng W, Ye X et al. Identification of downregulated circRNAs from tissue and plasma of patients with gastric cancer and construction of a circRNA-miRNA-mRNA network. J Cell Biochem 2020 Nov;121(11):4590-4600. PMID: 32052496
  • Zraly CB, Zakkar A, Perez JH, Ng J et al. The Drosophila MLR COMPASS complex is essential for programming cis-regulatory information and maintaining epigenetic memory during development. Nucleic Acids Res 2020 Apr 17;48(7):3476-3495. PMID: 32052053
  • Wheeler MA, Clark IC, Tjon EC, Li Z et al. MAFG-driven astrocytes promote CNS inflammation. Nature 2020 Feb;578(7796):593-599. PMID: 32051591
  • Yu Z, Feng J, Wang W, Deng Z et al. The EGFR-ZNF263 signaling axis silences SIX3 in glioblastoma epigenetically. Oncogene 2020 Apr;39(15):3163-3178. PMID: 32051553
  • Beetch M, Harandi-Zadeh S, Yang T, Boycott C et al. DNA methylation landscape of triple-negative ductal carcinoma in situ (DCIS) progressing to the invasive stage in canine breast cancer. Sci Rep 2020 Feb 12;10(1):2415. PMID: 32051475
  • Paiano J, Wu W, Yamada S, Sciascia N et al. ATM and PRDM9 regulate SPO11-bound recombination intermediates during meiosis. Nat Commun 2020 Feb 12;11(1):857. PMID: 32051414
  • Galvani E, Mundra PA, Valpione S, Garcia-Martinez P et al. Stroma remodeling and reduced cell division define durable response to PD-1 blockade in melanoma. Nat Commun 2020 Feb 12;11(1):853. PMID: 32051401
  • Paraskevopoulou V, Bonis V, Dionellis VS, Paschalidis N et al. Notch controls urothelial integrity in the mouse bladder. JCI Insight 2020 Feb 13;5(3). PMID: 32051338
  • Chen WL, Jin X, Wang M, Liu D et al. GLUT5-mediated fructose utilization drives lung cancer growth by stimulating fatty acid synthesis and AMPK/mTORC1 signaling. JCI Insight 2020 Feb 13;5(3). PMID: 32051337
  • den Broeder MJ, Ballangby J, Kamminga LM, Aleström P et al. Inhibition of methyltransferase activity of enhancer of zeste 2 leads to enhanced lipid accumulation and altered chromatin status in zebrafish. Epigenetics Chromatin 2020 Feb 12;13(1):5. PMID: 32051014
  • Pei J, Wang Y, Li Y et al. Identification of key genes controlling breast cancer stem cell characteristics via stemness indices analysis. J Transl Med 2020 Feb 12;18(1):74. PMID: 32050983
  • Li J, Yin Y, Zhang M, Cui J et al. GsmPlot: a web server to visualize epigenome data in NCBI. BMC Bioinformatics 2020 Feb 12;21(1):55. PMID: 32050905
  • Imai J, Yahata T, Ichikawa H, Ibrahim AA et al. Inhibition of plasminogen activator inhibitor-1 attenuates against intestinal fibrosis in mice. Intest Res 2020 Apr;18(2):219-228. PMID: 32050315
  • Wang D, Liu S, Xu S et al. Identification of hub genes, key pathways, and therapeutic agents in Hutchinson-Gilford Progeria syndrome using bioinformatics analysis. Medicine (Baltimore) 2020 Feb;99(7):e19022. PMID: 32049798
  • Castanho I, Murray TK, Hannon E, Jeffries A et al. Transcriptional Signatures of Tau and Amyloid Neuropathology. Cell Rep 2020 Feb 11;30(6):2040-2054.e5. PMID: 32049030
  • Tanaka Y, Cakir B, Xiang Y, Sullivan GJ et al. Synthetic Analyses of Single-Cell Transcriptomes from Multiple Brain Organoids and Fetal Brain. Cell Rep 2020 Feb 11;30(6):1682-1689.e3. PMID: 32049002
  • Dong C, Beltcheva M, Gontarz P, Zhang B et al. Derivation of trophoblast stem cells from naïve human pluripotent stem cells. Elife 2020 Feb 12;9. PMID: 32048992
  • Jiang D, Jin H, Zuo J, Kong Y et al. Potential biomarkers screening to predict side effects of dexamethasone in different cancers. Mol Genet Genomic Med 2020 Apr;8(4):e1160. PMID: 32048780
  • Zhou X, Zhen X, Liu Y, Cui Z et al. Identification of Key Modules, Hub Genes, and Noncoding RNAs in Chronic Rhinosinusitis with Nasal Polyps by Weighted Gene Coexpression Network Analysis. Biomed Res Int 2020;2020:6140728. PMID: 32047813
  • Vrba L, Futscher BW et al. DNA methylation changes in biomarker loci occur early in cancer progression. F1000Res 2019;8:2106. PMID: 32047604
  • Jiang J, Pan W, Xu Y, Ni C et al. Tumour-Infiltrating Immune Cell-Based Subtyping and Signature Gene Analysis in Breast Cancer Based on Gene Expression Profiles. J Cancer 2020;11(6):1568-1583. PMID: 32047563
  • Welponer H, Tsibulak I, Wieser V, Degasper C et al. The miR-34 family and its clinical significance in ovarian cancer. J Cancer 2020;11(6):1446-1456. PMID: 32047551
  • Chen Z, Zhuang Q, Cheng K, Ming Y et al. Long non-coding RNA TCL6 enhances preferential toxicity of paclitaxel to renal cell carcinoma cells. J Cancer 2020;11(6):1383-1392. PMID: 32047545
  • Xie P, Ma Y, Yu S, An R et al. Development of an Immune-Related Prognostic Signature in Breast Cancer. Front Genet 2019;10:1390. PMID: 32047513
  • Hu Y, Zhang K, Zhang T, Wang J et al. Exercise Reverses Dysregulation of T-Cell-Related Function in Blood Leukocytes of Patients With Parkinson's Disease. Front Neurol 2019;10:1389. PMID: 32047471
  • Chen Y, Lyu R, Rong B, Zheng Y et al. Refined spatial temporal epigenomic profiling reveals intrinsic connection between PRDM9-mediated H3K4me3 and the fate of double-stranded breaks. Cell Res 2020 Mar;30(3):256-268. PMID: 32047271
  • Fujita R, Yamamoto T, Arimura Y, Fujiwara S et al. Nucleosome destabilization by nuclear non-coding RNAs. Commun Biol 2020 Feb 11;3(1):60. PMID: 32047236
  • Meng M, Zhang W, Tang Q, Yu B et al. Bioinformatics analyses on the immune status of renal transplant patients, a systemic research of renal transplantation. BMC Med Genomics 2020 Feb 11;13(1):24. PMID: 32046717
  • Wang N, Zhang J, Xu L, Qi J et al. A novel estimator of between-study variance in random-effects models. BMC Genomics 2020 Feb 11;21(1):149. PMID: 32046631
  • Lai SW, Lin HJ, Liu YS, Yang LY et al. Monocarboxylate Transporter 4 Regulates Glioblastoma Motility and Monocyte Binding Ability. Cancers (Basel) 2020 Feb 7;12(2). PMID: 32045997
  • Li H, Song M, Yang W, Cao P et al. A Comparative Analysis of Single-Cell Transcriptome Identifies Reprogramming Driver Factors for Efficiency Improvement. Mol Ther Nucleic Acids 2020 Mar 6;19:1053-1064. PMID: 32045876
  • Zhang J, Wei X, Tang Z, Miao B et al. Elucidating the molecular pathways and immune system transcriptome during ischemia-reperfusion injury in renal transplantation. Int Immunopharmacol 2020 Apr;81:106246. PMID: 32044658
  • King DM, Hong CKY, Shepherdson JL, Granas DM et al. Synthetic and genomic regulatory elements reveal aspects of cis-regulatory grammar in mouse embryonic stem cells. Elife 2020 Feb 11;9. PMID: 32043966
  • Carvalho-Sousa CE, Pereira EP, Kinker GS, Veras M et al. Immune-pineal axis protects rat lungs exposed to polluted air. J Pineal Res 2020 Apr;68(3):e12636. PMID: 32043640
  • Sun Y, Lin J, Zhang L et al. The application of weighted gene co-expression network analysis in identifying key modules and hub genes associated with disease status in Alzheimer's disease. Ann Transl Med 2019 Dec;7(24):800. PMID: 32042816
  • Hu L, Gao Y, Shi Z, Liu Y et al. DNA methylation-based prognostic biomarkers of acute myeloid leukemia patients. Ann Transl Med 2019 Dec;7(23):737. PMID: 32042753
  • Ou C, Sun Z, He X, Li X et al. Targeting YAP1/LINC00152/FSCN1 Signaling Axis Prevents the Progression of Colorectal Cancer. Adv Sci (Weinh) 2020 Feb;7(3):1901380. PMID: 32042551
  • Joly-Lopez Z, Platts AE, Gulko B, Choi JY et al. An inferred fitness consequence map of the rice genome. Nat Plants 2020 Feb;6(2):119-130. PMID: 32042156
  • Mancarella S, Serino G, Dituri F, Cigliano A et al. Crenigacestat, a selective NOTCH1 inhibitor, reduces intrahepatic cholangiocarcinoma progression by blocking VEGFA/DLL4/MMP13 axis. Cell Death Differ 2020 Aug;27(8):2330-2343. PMID: 32042099
  • Gao Y, Sun B, Hu J, Ren H et al. Identification of gene modules associated with survival of diffuse large B-cell lymphoma treated with CHOP-based chemotherapy. Pharmacogenomics J 2020 Oct;20(5):705-716. PMID: 32042095
  • Rahman MH, Peng S, Hu X, Chen C et al. A Network-Based Bioinformatics Approach to Identify Molecular Biomarkers for Type 2 Diabetes that Are Linked to the Progression of Neurological Diseases. Int J Environ Res Public Health 2020 Feb 6;17(3). PMID: 32041280
  • Pillarisetti K, Edavettal S, Mendonça M, Li Y et al. A T-cell-redirecting bispecific G-protein-coupled receptor class 5 member D x CD3 antibody to treat multiple myeloma. Blood 2020 Apr 9;135(15):1232-1243. PMID: 32040549
  • Tizian C, Lahmann A, Hölsken O, Cosovanu C et al. c-Maf restrains T-bet-driven programming of CCR6-negative group 3 innate lymphoid cells. Elife 2020 Feb 10;9. PMID: 32039762
  • Wei S, Peng L, Yang J, Sang H et al. Exosomal transfer of miR-15b-3p enhances tumorigenesis and malignant transformation through the DYNLT1/Caspase-3/Caspase-9 signaling pathway in gastric cancer. J Exp Clin Cancer Res 2020 Feb 10;39(1):32. PMID: 32039741
  • Walker LA, Sovic MG, Chiang CL, Hu E et al. CLEAR: coverage-based limiting-cell experiment analysis for RNA-seq. J Transl Med 2020 Feb 10;18(1):63. PMID: 32039730
  • Wang R, Wang Y, Zhang X, Zhang Y et al. Hierarchical cooperation of transcription factors from integration analysis of DNA sequences, ChIP-Seq and ChIA-PET data. BMC Genomics 2019 May 8;20(Suppl 3):296. PMID: 32039697
  • Ma X, Mo M, Tan HJJ, Tan C et al. LINC02499, a novel liver-specific long non-coding RNA with potential diagnostic and prognostic value, inhibits hepatocellular carcinoma cell proliferation, migration, and invasion. Hepatol Res 2020 Jun;50(6):726-740. PMID: 32039538
  • Valmiki S, Ahuja V, Puri N, Paul J et al. miR-125b and miR-223 Contribute to Inflammation by Targeting the Key Molecules of NFκB Pathway. Front Med (Lausanne) 2019;6:313. PMID: 32039213
  • Wang H, Yu M, Hu W, Chen X et al. Linc00662 Promotes Tumorigenesis and Progression by Regulating miR-497-5p/AVL9 Axis in Colorectal Cancer. Front Genet 2019;10:1385. PMID: 32038723
  • Keel BN, Snelling WM, Lindholm-Perry AK, Oliver WT et al. Using SNP Weights Derived From Gene Expression Modules to Improve GWAS Power for Feed Efficiency in Pigs. Front Genet 2019;10:1339. PMID: 32038708
  • Wu HT, Chen WT, Li GW, Shen JX et al. Analysis of the Differentially Expressed Genes Induced by Cisplatin Resistance in Oral Squamous Cell Carcinomas and Their Interaction. Front Genet 2019;10:1328. PMID: 32038705
  • Zhang Y, You X, Li S, Long Q et al. Peripheral Blood Leukocyte RNA-Seq Identifies a Set of Genes Related to Abnormal Psychomotor Behavior Characteristics in Patients with Schizophrenia. Med Sci Monit 2020 Feb 10;26:e922426. PMID: 32038049
  • Blomain ES, Rappaport JA, Pattison AM, Bashir B et al. APC-β-catenin-TCF signaling silences the intestinal guanylin-GUCY2C tumor suppressor axis. Cancer Biol Ther 2020 May 3;21(5):441-451. PMID: 32037952
  • Zhang D, Chu YJ, Song KJ, Chen YL et al. Knockdown of enhancer of rudimentary homolog inhibits proliferation and metastasis in ovarian cancer by regulating epithelial-mesenchymal transition. Biomed Pharmacother 2020 May;125:109974. PMID: 32036222
  • Wu Y, Hu Y, Wang B, Li S et al. Dopamine Uses the DRD5-ARRB2-PP2A Signaling Axis to Block the TRAF6-Mediated NF-κB Pathway and Suppress Systemic Inflammation. Mol Cell 2020 Apr 2;78(1):42-56.e6. PMID: 32035036
  • Akintayo A, Liang M, Bartholdy B, Batista F et al. The Golgi Glycoprotein MGAT4D is an Intrinsic Protector of Testicular Germ Cells From Mild Heat Stress. Sci Rep 2020 Feb 7;10(1):2135. PMID: 32034218
  • Sanchez R, Mackenzie SA et al. Integrative Network Analysis of Differentially Methylated and Expressed Genes for Biomarker Identification in Leukemia. Sci Rep 2020 Feb 7;10(1):2123. PMID: 32034170
  • Cipriani V, Lorés-Motta L, He F, Fathalla D et al. Increased circulating levels of Factor H-Related Protein 4 are strongly associated with age-related macular degeneration. Nat Commun 2020 Feb 7;11(1):778. PMID: 32034129
  • Cho HS, Ha S, Shin HM, Reboldi A et al. CD8(+) T Cells Require ITK-Mediated TCR Signaling for Migration to the Intestine. Immunohorizons 2020 Feb 7;4(2):57-71. PMID: 32034085
  • Metzenmacher M, Váraljai R, Hegedüs B, Cima I et al. Plasma Next Generation Sequencing and Droplet Digital-qPCR-Based Quantification of Circulating Cell-Free RNA for Noninvasive Early Detection of Cancer. Cancers (Basel) 2020 Feb 4;12(2). PMID: 32033141
  • Wu B, Li L, Li B, Gao J et al. Activin A and BMP4 Signaling Expands Potency of Mouse Embryonic Stem Cells in Serum-Free Media. Stem Cell Reports 2020 Feb 11;14(2):241-255. PMID: 32032551
  • Kjell J, Fischer-Sternjak J, Thompson AJ, Friess C et al. Defining the Adult Neural Stem Cell Niche Proteome Identifies Key Regulators of Adult Neurogenesis. Cell Stem Cell 2020 Feb 6;26(2):277-293.e8. PMID: 32032526
  • Corrales-Sánchez V, Noblejas-López MDM, Nieto-Jiménez C, Pérez-Peña J et al. Pharmacological screening and transcriptomic functional analyses identify a synergistic interaction between dasatinib and olaparib in triple-negative breast cancer. J Cell Mol Med 2020 Mar;24(5):3117-3127. PMID: 32032474
  • Liu H, Duncan K, Helverson A, Kumari P et al. Analysis of zebrafish periderm enhancers facilitates identification of a regulatory variant near human KRT8/18. Elife 2020 Feb 7;9. PMID: 32031521
  • Cai Y, Zhang W, Zhang R, Cui X et al. Combined Use of Three Machine Learning Modeling Methods to Develop a Ten-Gene Signature for the Diagnosis of Ventilator-Associated Pneumonia. Med Sci Monit 2020 Feb 7;26:e919035. PMID: 32031163
  • Dong YM, Qin LD, Tong YF, He QE et al. Multiple genome pattern analysis and signature gene identification for the Caucasian lung adenocarcinoma patients with different tobacco exposure patterns. PeerJ 2020;8:e8349. PMID: 32030321
  • Zhang Y, Ma L et al. Identification of key genes and pathways in calcific aortic valve disease by bioinformatics analysis. J Thorac Dis 2019 Dec;11(12):5417-5426. PMID: 32030260
  • Gabitto MI, Rasmussen A, Wapinski O, Allaway K et al. Characterizing chromatin landscape from aggregate and single-cell genomic assays using flexible duration modeling. Nat Commun 2020 Feb 6;11(1):747. PMID: 32029740
  • Guo L, Li J, Zeng H, Guzman AG et al. A combination strategy targeting enhancer plasticity exerts synergistic lethality against BETi-resistant leukemia cells. Nat Commun 2020 Feb 6;11(1):740. PMID: 32029739
  • Zhang W, Dong Z, Xu M, Zhang S et al. SWI/SNF complex subunit BAF60a represses hepatic ureagenesis through a crosstalk between YB-1 and PGC-1α. Mol Metab 2020 Feb;32:85-96. PMID: 32029232
  • Esguerra JLS, Ofori JK, Nagao M, Shuto Y et al. Glucocorticoid induces human beta cell dysfunction by involving riborepressor GAS5 LincRNA. Mol Metab 2020 Feb;32:160-167. PMID: 32029226
  • Niu W, Luo Y, Zhou Y, Li M et al. BRD7 suppresses invasion and metastasis in breast cancer by negatively regulating YB1-induced epithelial-mesenchymal transition. J Exp Clin Cancer Res 2020 Feb 7;39(1):30. PMID: 32028981
  • Yu Z, He Q, Xu G et al. Screening of Prognostic Factors in Early-Onset Breast Cancer. Technol Cancer Res Treat 2020 Jan-Dec;19:1533033819893670. PMID: 32028860
  • Zhang X, Zhang H, Shen B, Sun XF et al. Novel MicroRNA Biomarkers for Colorectal Cancer Early Diagnosis and 5-Fluorouracil Chemotherapy Resistance but Not Prognosis: A Study from Databases to AI-Assisted Verifications. Cancers (Basel) 2020 Feb 3;12(2). PMID: 32028703
  • Gao X, Yang J et al. Identification of Genes Related to Clinicopathological Characteristics and Prognosis of Patients with Colorectal Cancer. DNA Cell Biol 2020 Apr;39(4):690-699. PMID: 32027181
  • Zhang L, Zhou Y, Zhou F, Yu X et al. Altered Expression of Long Noncoding and Messenger RNAs in Diabetic Nephropathy following Treatment with Rosiglitazone. Biomed Res Int 2020;2020:1360843. PMID: 32025515
  • Bolouri H, Young M, Beilke J, Johnson R et al. Integrative network modeling reveals mechanisms underlying T cell exhaustion. Sci Rep 2020 Feb 5;10(1):1915. PMID: 32024856
  • Yu L, Kim J, Jiang L, Feng B et al. MTR4 drives liver tumorigenesis by promoting cancer metabolic switch through alternative splicing. Nat Commun 2020 Feb 5;11(1):708. PMID: 32024842
  • Bhattacharya A, Bense RD, Urzúa-Traslaviña CG, de Vries EGE et al. Transcriptional effects of copy number alterations in a large set of human cancers. Nat Commun 2020 Feb 5;11(1):715. PMID: 32024838
  • Zhao Y, Zhao MF, Jiang S, Wu J et al. Liver governs adipose remodelling via extracellular vesicles in response to lipid overload. Nat Commun 2020 Feb 5;11(1):719. PMID: 32024826
  • Sorkin M, Huber AK, Hwang C, Carson WF 4th et al. Regulation of heterotopic ossification by monocytes in a mouse model of aberrant wound healing. Nat Commun 2020 Feb 5;11(1):722. PMID: 32024825
  • Jorge NAN, Cruz JGV, Pretti MAM, Bonamino MH et al. Poor clinical outcome in metastatic melanoma is associated with a microRNA-modulated immunosuppressive tumor microenvironment. J Transl Med 2020 Feb 5;18(1):56. PMID: 32024530
  • Paul P, Antonydhason V, Gopal J, Haga SW et al. Bioinformatics for Renal and Urinary Proteomics: Call for Aggrandization. Int J Mol Sci 2020 Jan 31;21(3). PMID: 32024005
  • Palombo R, Verdile V, Paronetto MP et al. Poison-Exon Inclusion in DHX9 Reduces Its Expression and Sensitizes Ewing Sarcoma Cells to Chemotherapeutic Treatment. Cells 2020 Jan 31;9(2). PMID: 32023846
  • Karagianni P, Moulos P, Schmidt D, Odom DT et al. Bookmarking by Non-pioneer Transcription Factors during Liver Development Establishes Competence for Future Gene Activation. Cell Rep 2020 Feb 4;30(5):1319-1328.e6. PMID: 32023452
  • Dos Santos JC, Leite Quixabeira VB, Teodoro Silva MV, Damen MSMA et al. Genetic variation in Interleukin-32 influence the immune response against New World Leishmania species and susceptibility to American Tegumentary Leishmaniasis. PLoS Negl Trop Dis 2020 Feb;14(2):e0008029. PMID: 32023240
  • Biasin V, Crnkovic S, Sahu-Osen A, Birnhuber A et al. PDGFRα and αSMA mark two distinct mesenchymal cell populations involved in parenchymal and vascular remodeling in pulmonary fibrosis. Am J Physiol Lung Cell Mol Physiol 2020 Apr 1;318(4):L684-L697. PMID: 32023084
  • Khaminets A, Ronnen-Oron T, Baldauf M, Meier E et al. Cohesin controls intestinal stem cell identity by maintaining association of Escargot with target promoters. Elife 2020 Feb 5;9. PMID: 32022682
  • Heidari MH, Zamanian Azodi M, Zali MR, Akbari Z et al. Light at Night Exposure Effects on Differentiation and Cell Cycle in the Rat Liver With Autonomic Nervous System Denervation. J Lasers Med Sci 2019 Fall;10(Suppl 1):S43-S48. PMID: 32021672
  • Mansouri V, Rezaei-Tavirani M, Zadeh-Esmaeel MM, Rezaei-Tavirani S et al. Analysis of Laser Therapy Effects on Squamous Cell Carcinoma Patients: A System Biology Study. J Lasers Med Sci 2019 Fall;10(Suppl 1):S1-S6. PMID: 32021665
  • Wei W, Mo X, Yan L, Huang M et al. Circular RNA Profiling Reveals That circRNA_104433 Regulates Cell Growth by Targeting miR-497-5p in Gastric Cancer. Cancer Manag Res 2020;12:15-30. PMID: 32021419
  • Hu Y, Wang L, Li Z, Wan Z et al. Potential Prognostic and Diagnostic Values of CDC6, CDC45, ORC6 and SNHG7 in Colorectal Cancer. Onco Targets Ther 2019;12:11609-11621. PMID: 32021241
  • Li J, Li X, Zhang C, Zhang C et al. A signature of tumor immune microenvironment genes associated with the prognosis of non‑small cell lung cancer. Oncol Rep 2020 Mar;43(3):795-806. PMID: 32020214
  • Zhang Z, Li Z, Deng M, Liu B et al. Downregulation of GPSM2 is associated with primary resistance to paclitaxel in breast cancer. Oncol Rep 2020 Mar;43(3):965-974. PMID: 32020211
  • Wallace EWJ, Maufrais C, Sales-Lee J, Tuck LR et al. Quantitative global studies reveal differential translational control by start codon context across the fungal kingdom. Nucleic Acids Res 2020 Mar 18;48(5):2312-2331. PMID: 32020195
  • Hikida T, Yao S, Macpherson T, Fukakusa A et al. Nucleus accumbens pathways control cell-specific gene expression in the medial prefrontal cortex. Sci Rep 2020 Feb 4;10(1):1838. PMID: 32020036
  • Fultang N, Illendula A, Lin J, Pandey MK et al. ROR1 regulates chemoresistance in Breast Cancer via modulation of drug efflux pump ABCB1. Sci Rep 2020 Feb 4;10(1):1821. PMID: 32020017
  • Wiechert J, Filipchyk A, Hünnefeld M, Gätgens C et al. Deciphering the Rules Underlying Xenogeneic Silencing and Counter-Silencing of Lsr2-like Proteins Using CgpS of Corynebacterium glutamicum as a Model. mBio 2020 Feb 4;11(1). PMID: 32019787
  • Tanaka M, Homme M, Yamazaki Y, Ae K et al. Cooperation between SS18-SSX1 and miR-214 in Synovial Sarcoma Development and Progression. Cancers (Basel) 2020 Jan 30;12(2). PMID: 32019274
  • Fischer JW, Busa VF, Shao Y, Leung AKL et al. Structure-Mediated RNA Decay by UPF1 and G3BP1. Mol Cell 2020 Apr 2;78(1):70-84.e6. PMID: 32017897
  • Zhang JN, Qin X, Liu XG, Ma XN et al. WITHDRAWN: Identification of abnormally expressed genes and their roles in invasion and migration of hepatocellular carcinoma. Aging (Albany NY) 2020 Feb 4;12. PMID: 32017706
  • Zhang Y, Cao X, Li P, Fan Y et al. PSMC6 promotes osteoblast apoptosis through inhibiting PI3K/AKT signaling pathway activation in ovariectomy-induced osteoporosis mouse model. J Cell Physiol 2020 Jul;235(7-8):5511-5524. PMID: 32017075
  • Long G, Yang C et al. A six‑gene support vector machine classifier contributes to the diagnosis of pediatric septic shock. Mol Med Rep 2020 Mar;21(3):1561-1571. PMID: 32016447
  • Zhu FX, Wang XT, Ye ZZ, Gan ZP et al. Construction of a prognosis‑associated long noncoding RNA‑mRNA network for multiple myeloma based on microarray and bioinformatics analysis. Mol Med Rep 2020 Mar;21(3):999-1010. PMID: 32016443
  • Hou L, Wei Y, Lin Y, Wang X et al. Concurrent binding to DNA and RNA facilitates the pluripotency reprogramming activity of Sox2. Nucleic Acids Res 2020 Apr 17;48(7):3869-3887. PMID: 32016422
  • Liu B, Li A, Wang H, Wang J et al. Exploring the Key Genes and Pathways in the Formation of Corneal Scar Using Bioinformatics Analysis. Biomed Res Int 2020;2020:6247489. PMID: 32016117
  • Lu HC, Yao JQ, Yang X, Han J et al. Identification of a potentially functional circRNA-miRNA-mRNA regulatory network for investigating pathogenesis and providing possible biomarkers of bladder cancer. Cancer Cell Int 2020;20:31. PMID: 32015691
  • Ye T, Li J, Sun Z, Liu D et al. Cdh1 functions as an oncogene by inducing self-renewal of lung cancer stem-like cells via oncogenic pathways. Int J Biol Sci 2020;16(3):447-459. PMID: 32015681
  • Rebollido-Rios R, Venton G, Sánchez-Redondo S, Iglesias I Felip C et al. Dual disruption of aldehyde dehydrogenases 1 and 3 promotes functional changes in the glutathione redox system and enhances chemosensitivity in nonsmall cell lung cancer. Oncogene 2020 Mar;39(13):2756-2771. PMID: 32015486
  • Bera R, Chiu MC, Huang YJ, Huang G et al. DNMT3A mutants provide proliferating advantage with augmentation of self-renewal activity in the pathogenesis of AML in KMT2A-PTD-positive leukemic cells. Oncogenesis 2020 Feb 3;9(2):7. PMID: 32015320
  • Xiong G, Chen J, Zhang G, Wang S et al. Hsp47 promotes cancer metastasis by enhancing collagen-dependent cancer cell-platelet interaction. Proc Natl Acad Sci U S A 2020 Feb 18;117(7):3748-3758. PMID: 32015106
  • Zhao H, Zhang W, Zhang T, Lin Y et al. Genome-wide MNase hypersensitivity assay unveils distinct classes of open chromatin associated with H3K27me3 and DNA methylation in Arabidopsis thaliana. Genome Biol 2020 Feb 3;21(1):24. PMID: 32014062
  • Jin S, Zhang L, Nie Q et al. scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profiles. Genome Biol 2020 Feb 3;21(1):25. PMID: 32014031
  • Yadi W, Shurui C, Tong Z, Suxian C et al. Bioinformatic analysis of peripheral blood miRNA of breast cancer patients in relation with anthracycline cardiotoxicity. BMC Cardiovasc Disord 2020 Feb 3;20(1):43. PMID: 32013934
  • Matsumura K, Ito S et al. Novel biomarker genes which distinguish between smokers and chronic obstructive pulmonary disease patients with machine learning approach. BMC Pulm Med 2020 Feb 3;20(1):29. PMID: 32013930
  • Coate JE, Schreyer WM, Kum D, Doyle JJ et al. Robust Cytonuclear Coordination of Transcription in Nascent Arabidopsis thaliana Autopolyploids. Genes (Basel) 2020 Jan 28;11(2). PMID: 32012851
  • Ma Y, Li J, Xu Y, Wang Y et al. Identification of 34 genes conferring genetic and pharmacological risk for the comorbidity of schizophrenia and smoking behaviors. Aging (Albany NY) 2020 Feb 3;12(3):2169-2225. PMID: 32012119
  • Xu G, Liu C, Liang T, Zhang Z et al. Gene expression profile and bioinformatics analysis revealed key molecular characteristics of chordoma-before and after TNF- a treatment. Medicine (Baltimore) 2020 Jan;99(3):e18790. PMID: 32011476
  • Tagliaferri D, Mazzone P, Noviello TMR, Addeo M et al. Retinoic Acid Induces Embryonic Stem Cells (ESCs) Transition to 2 Cell-Like State Through a Coordinated Expression of Dux and Duxbl1. Front Cell Dev Biol 2019;7:385. PMID: 32010697
  • Wang L, Li S, Wang Y, Tang Z et al. Identification of differentially expressed protein-coding genes in lung adenocarcinomas. Exp Ther Med 2020 Feb;19(2):1103-1111. PMID: 32010276
  • Baschal EE, Larson ED, Bootpetch Roberts TC, Pathak S et al. Identification of Novel Genes and Biological Pathways That Overlap in Infectious and Nonallergic Diseases of the Upper and Lower Airways Using Network Analyses. Front Genet 2019;10:1352. PMID: 32010199
  • Li W, Lu J, Ma Z, Zhao J et al. An Integrated Model Based on a Six-Gene Signature Predicts Overall Survival in Patients With Hepatocellular Carcinoma. Front Genet 2019;10:1323. PMID: 32010188
  • Navarro E, Mallén A, Cruzado JM, Torras J et al. Unveiling ncRNA regulatory axes in atherosclerosis progression. Clin Transl Med 2020 Feb 3;9(1):5. PMID: 32009226
  • Ning YL, Yang ZQ, Xian SX, Lin JZ et al. Bioinformatics Analysis Identifies Hub Genes and Molecular Pathways Involved in Sepsis-Induced Myopathy. Med Sci Monit 2020 Feb 2;26:e919665. PMID: 32008037
  • Zhang J, Xiao X, Zhang X, Hua W et al. Tumor Microenvironment Characterization in Glioblastoma Identifies Prognostic and Immunotherapeutically Relevant Gene Signatures. J Mol Neurosci 2020 May;70(5):738-750. PMID: 32006162
  • Zhou Z, Ye C, Wang J, Zhang NR et al. Surface protein imputation from single cell transcriptomes by deep neural networks. Nat Commun 2020 Jan 31;11(1):651. PMID: 32005835
  • Pradas-Juni M, Hansmeier NR, Link JC, Schmidt E et al. A MAFG-lncRNA axis links systemic nutrient abundance to hepatic glucose metabolism. Nat Commun 2020 Jan 31;11(1):644. PMID: 32005828
  • Ikonomou L, Herriges MJ, Lewandowski SL, Marsland R 3rd et al. The in vivo genetic program of murine primordial lung epithelial progenitors. Nat Commun 2020 Jan 31;11(1):635. PMID: 32005814
  • Almeida PP, Cardoso CP, de Freitas LM et al. PDAC-ANN: an artificial neural network to predict pancreatic ductal adenocarcinoma based on gene expression. BMC Cancer 2020 Jan 31;20(1):82. PMID: 32005189
  • Pagacz K, Kucharski P, Smyczynska U, Grabia S et al. A systemic approach to screening high-throughput RT-qPCR data for a suitable set of reference circulating miRNAs. BMC Genomics 2020 Jan 31;21(1):111. PMID: 32005151
  • Luo X, Dong J, He X, Shen L et al. MiR-155-5p exerts tumor-suppressing functions in Wilms tumor by targeting IGF2 via the PI3K signaling pathway. Biomed Pharmacother 2020 May;125:109880. PMID: 32004974
  • Berg JA, Belyeu JR, Morgan JT, Ouyang Y et al. XPRESSyourself: Enhancing, standardizing, and automating ribosome profiling computational analyses yields improved insight into data. PLoS Comput Biol 2020 Jan;16(1):e1007625. PMID: 32004313
  • Liu X, Xu Y, Wang R, Liu S et al. A network-based algorithm for the identification of moonlighting noncoding RNAs and its application in sepsis. Brief Bioinform 2021 Jan 18;22(1):581-588. PMID: 32003790
  • Tran SS, Zhou Q, Xiao X et al. Statistical inference of differential RNA-editing sites from RNA-sequencing data by hierarchical modeling. Bioinformatics 2020 May 1;36(9):2796-2804. PMID: 32003773
  • Qiu Y, Lu T, Lim H, Xie L et al. A Bayesian approach to accurate and robust signature detection on LINCS L1000 data. Bioinformatics 2020 May 1;36(9):2787-2795. PMID: 32003771
  • Xie L, Li H, Zhang L, Ma X et al. Autophagy-related gene P4HB: a novel diagnosis and prognosis marker for kidney renal clear cell carcinoma. Aging (Albany NY) 2020 Jan 30;12(2):1828-1842. PMID: 32003756
  • Zhang Z, Lin E, Zhuang H, Xie L et al. Construction of a novel gene-based model for prognosis prediction of clear cell renal cell carcinoma. Cancer Cell Int 2020;20:27. PMID: 32002016
  • Turner TH, Alzubi MA, Harrell JC et al. Identification of synergistic drug combinations using breast cancer patient-derived xenografts. Sci Rep 2020 Jan 30;10(1):1493. PMID: 32001757
  • Selewa A, Dohn R, Eckart H, Lozano S et al. Systematic Comparison of High-throughput Single-Cell and Single-Nucleus Transcriptomes during Cardiomyocyte Differentiation. Sci Rep 2020 Jan 30;10(1):1535. PMID: 32001747
  • Lyu X, Zeng L, Zhang H, Ke Y et al. Hydroxychloroquine suppresses lung tumorigenesis via inducing FoxO3a nuclear translocation through STAT3 inactivation. Life Sci 2020 Apr 1;246:117366. PMID: 32001266
  • Kourou K, Rigas G, Papaloukas C, Mitsis M et al. Cancer classification from time series microarray data through regulatory Dynamic Bayesian Networks. Comput Biol Med 2020 Jan;116:103577. PMID: 32001012
  • Jiang CH, Yuan X, Li JF, Xie YF et al. Bioinformatics-based screening of key genes for transformation of liver cirrhosis to hepatocellular carcinoma. J Transl Med 2020 Jan 30;18(1):40. PMID: 32000807
  • Zheng M, Hu Y, Gou R, Nie X et al. Identification three LncRNA prognostic signature of ovarian cancer based on genome-wide copy number variation. Biomed Pharmacother 2020 Apr;124:109810. PMID: 32000042
  • Guo X, Piao H, Zhang Y, Sun P et al. Overexpression of microRNA-129-5p in glioblastoma inhibits cell proliferation, migration, and colony-forming ability by targeting ZFP36L1. Bosn J Basic Med Sci 2020 Nov 2;20(4):459-470. PMID: 31999936
  • Iborra-Egea O, Santiago-Vacas E, Yurista SR, Lupón J et al. Unraveling the Molecular Mechanism of Action of Empagliflozin in Heart Failure With Reduced Ejection Fraction With or Without Diabetes. JACC Basic Transl Sci 2019 Nov;4(7):831-840. PMID: 31998851
  • Jiang HY, Ning G, Wang YS, Lv WB et al. 14-CpG-Based Signature Improves the Prognosis Prediction of Hepatocellular Carcinoma Patients. Biomed Res Int 2020;2020:9762067. PMID: 31998802
  • Shen R, Li P, Li B, Zhang B et al. Identification of Distinct Immune Subtypes in Colorectal Cancer Based on the Stromal Compartment. Front Oncol 2019;9:1497. PMID: 31998649
  • Cai S, Bi Z, Bai Y, Zhang H et al. Glycyrrhizic Acid-Induced Differentiation Repressed Stemness in Hepatocellular Carcinoma by Targeting c-Jun N-Terminal Kinase 1. Front Oncol 2019;9:1431. PMID: 31998631
  • Haning K, Engels SM, Williams P, Arnold M et al. Applying a New REFINE Approach in Zymomonas mobilis Identifies Novel sRNAs That Confer Improved Stress Tolerance Phenotypes. Front Microbiol 2019;10:2987. PMID: 31998271
  • Oldoni E, Smets I, Mallants K, Vandebergh M et al. CHIT1 at Diagnosis Reflects Long-Term Multiple Sclerosis Disease Activity. Ann Neurol 2020 Apr;87(4):633-645. PMID: 31997416
  • Liu T, Wei Q, Jin J, Luo Q et al. The m6A reader YTHDF1 promotes ovarian cancer progression via augmenting EIF3C translation. Nucleic Acids Res 2020 Apr 17;48(7):3816-3831. PMID: 31996915
  • Feldmann A, Dimitrova E, Kenney A, Lastuvkova A et al. CDK-Mediator and FBXL19 prime developmental genes for activation by promoting atypical regulatory interactions. Nucleic Acids Res 2020 Apr 6;48(6):2942-2955. PMID: 31996894
  • Janus P, Toma-Jonik A, Vydra N, Mrowiec K et al. Pro-death signaling of cytoprotective heat shock factor 1: upregulation of NOXA leading to apoptosis in heat-sensitive cells. Cell Death Differ 2020 Jul;27(7):2280-2292. PMID: 31996779
  • Cruz-Corchado J, Ooi FK, Das S, Prahlad V et al. Global Transcriptome Changes That Accompany Alterations in Serotonin Levels in Caenorhabditis elegans. G3 (Bethesda) 2020 Apr 9;10(4):1225-1246. PMID: 31996358
  • Porritt RA, Markman JL, Maruyama D, Kocaturk B et al. Interleukin-1 Beta-Mediated Sex Differences in Kawasaki Disease Vasculitis Development and Response to Treatment. Arterioscler Thromb Vasc Biol 2020 Mar;40(3):802-818. PMID: 31996019
  • Yadama AP, Mirzakhani H, McElrath TF, Litonjua AA et al. Transcriptome analysis of early pregnancy vitamin D status and spontaneous preterm birth. PLoS One 2020;15(1):e0227193. PMID: 31995561
  • Song KH, Oh SJ, Kim S, Cho H et al. HSP90A inhibition promotes anti-tumor immunity by reversing multi-modal resistance and stem-like property of immune-refractory tumors. Nat Commun 2020 Jan 28;11(1):562. PMID: 31992715
  • Liu B, Lindner P, Jirmo AC, Maus U et al. A comparison of curated gene sets versus transcriptomics-derived gene signatures for detecting pathway activation in immune cells. BMC Bioinformatics 2020 Jan 28;21(1):28. PMID: 31992182
  • Tong Y, Lear TB, Evankovich J, Chen Y et al. The RNFT2/IL-3Rα axis regulates IL-3 signaling and innate immunity. JCI Insight 2020 Feb 13;5(3). PMID: 31990690
  • Lü Y, Zhang J, Li L, Li S et al. Carcinogenesis effects of E2F transcription factor 8 (E2F8) in hepatocellular carcinoma outcomes: an integrated bioinformatic report. Biosci Rep 2020 Feb 28;40(2). PMID: 31990034
  • Quan X, Liang H, Chen Y, Qin Q et al. Related Network and Differential Expression Analyses Identify Nuclear Genes and Pathways in the Hippocampus of Alzheimer Disease. Med Sci Monit 2020 Jan 28;26:e919311. PMID: 31989994
  • Lex RK, Ji Z, Falkenstein KN, Zhou W et al. GLI transcriptional repression regulates tissue-specific enhancer activity in response to Hedgehog signaling. Elife 2020 Jan 28;9. PMID: 31989924
  • Song M, Li Y, Miao M, Zhang F et al. High stromal nicotinamide N-methyltransferase (NNMT) indicates poor prognosis in colorectal cancer. Cancer Med 2020 Mar;9(6):2030-2038. PMID: 31989785
  • Li H, Dong Q, Zhao Q, Shi S et al. Isolation, sequencing, and expression analysis of 30 AP2/ERF transcription factors in apple. PeerJ 2020;8:e8391. PMID: 31988809
  • Sun Z, Liu C, Jiang WG, Ye L et al. Deregulated bone morphogenetic proteins and their receptors are associated with disease progression of gastric cancer. Comput Struct Biotechnol J 2020;18:177-188. PMID: 31988704
  • Gastaldi V, Lucero LE, Ferrero LV, Ariel FD et al. Class-I TCP Transcription Factors Activate the SAUR63 Gene Subfamily in Gibberellin-Dependent Stamen Filament Elongation. Plant Physiol 2020 Apr;182(4):2096-2110. PMID: 31988200
  • Yang D, He Y, Wu B, Deng Y et al. Integrated bioinformatics analysis for the screening of hub genes and therapeutic drugs in ovarian cancer. J Ovarian Res 2020 Jan 27;13(1):10. PMID: 31987036
  • Pranckeviciene E, Hosid S, Liang N, Ioshikhes I et al. Nucleosome positioning sequence patterns as packing or regulatory. PLoS Comput Biol 2020 Jan;16(1):e1007365. PMID: 31986131
  • Jackson CA, Castro DM, Saldi GA, Bonneau R et al. Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments. Elife 2020 Jan 27;9. PMID: 31985403
  • Zhang M, Sha L, Hou N, Shi C et al. High expression of sperm-associated antigen 5 correlates with poor survival in ovarian cancer. Biosci Rep 2020 Feb 28;40(2). PMID: 31985007
  • Liu L, Wu Q, Zhong W, Chen Y et al. Microarray Analysis of Differential Gene Expression in Alzheimer's Disease Identifies Potential Biomarkers with Diagnostic Value. Med Sci Monit 2020 Jan 27;26:e919249. PMID: 31984950
  • Cao Y, Xiong JB, Zhang GY, Liu Y et al. Long Noncoding RNA UCA1 Regulates PRL-3 Expression by Sponging MicroRNA-495 to Promote the Progression of Gastric Cancer. Mol Ther Nucleic Acids 2020 Mar 6;19:853-864. PMID: 31982772
  • Dong S, Liang J, Zhai W, Yu Z et al. Common and distinct features of potentially predictive biomarkers in small cell lung carcinoma and large cell neuroendocrine carcinoma of the lung by systematic and integrated analysis. Mol Genet Genomic Med 2020 Mar;8(3):e1126. PMID: 31981472
  • Patel KS, Kejriwal S, Sun MM, Thammachantha S et al. Identification of epithelial membrane protein 2 (EMP2) as a molecular marker and correlate for angiogenesis in meningioma. J Neurooncol 2020 Mar;147(1):15-24. PMID: 31981014
  • Zhao Y, Wang Y, Zhu F, Zhang J et al. Gene expression profiling revealed MCM3 to be a better marker than Ki67 in prognosis of invasive ductal breast carcinoma patients. Clin Exp Med 2020 May;20(2):249-259. PMID: 31980982
  • Boivin V, Reulet G, Boisvert O, Couture S et al. Reducing the structure bias of RNA-Seq reveals a large number of non-annotated non-coding RNA. Nucleic Acids Res 2020 Mar 18;48(5):2271-2286. PMID: 31980822
  • Wang J, Yuan R, Zhu X, Ao P et al. Adaptive Landscape Shaped by Core Endogenous Network Coordinates Complex Early Progenitor Fate Commitments in Embryonic Pancreas. Sci Rep 2020 Jan 24;10(1):1112. PMID: 31980678
  • Hu X, Harvey SE, Zheng R, Lyu J et al. The RNA-binding protein AKAP8 suppresses tumor metastasis by antagonizing EMT-associated alternative splicing. Nat Commun 2020 Jan 24;11(1):486. PMID: 31980632
  • Yu M, Guo G, Huang L, Deng L et al. CD73 on cancer-associated fibroblasts enhanced by the A(2B)-mediated feedforward circuit enforces an immune checkpoint. Nat Commun 2020 Jan 24;11(1):515. PMID: 31980601
  • Meilandt WJ, Ngu H, Gogineni A, Lalehzadeh G et al. Trem2 Deletion Reduces Late-Stage Amyloid Plaque Accumulation, Elevates the Aβ42:Aβ40 Ratio, and Exacerbates Axonal Dystrophy and Dendritic Spine Loss in the PS2APP Alzheimer's Mouse Model. J Neurosci 2020 Feb 26;40(9):1956-1974. PMID: 31980586
  • Kojo S, Ohno-Oishi M, Wada H, Nieke S et al. Constitutive CD8 expression drives innate CD8(+) T-cell differentiation via induction of iNKT2 cells. Life Sci Alliance 2020 Feb;3(2). PMID: 31980555
  • Yang L, Zhu Y, Yu H, Cheng X et al. scMAGeCK links genotypes with multiple phenotypes in single-cell CRISPR screens. Genome Biol 2020 Jan 24;21(1):19. PMID: 31980032
  • Lee J, Lee J, Sim W, Kim JH et al. Differential Dependency of Human Pancreatic Cancer Cells on Targeting PTEN via PLK 1 Expression. Cancers (Basel) 2020 Jan 23;12(2). PMID: 31979216
  • Vergara D, Ravaioli S, Fonzi E, Adamo L et al. Carbonic Anhydrase XII Expression Is Modulated during Epithelial Mesenchymal Transition and Regulated through Protein Kinase C Signaling. Int J Mol Sci 2020 Jan 22;21(3). PMID: 31979064
  • Tkachev V, Sorokin M, Borisov C, Garazha A et al. Flexible Data Trimming Improves Performance of Global Machine Learning Methods in Omics-Based Personalized Oncology. Int J Mol Sci 2020 Jan 22;21(3). PMID: 31979006
  • Li W, Liu J, Zhao H et al. Identification of a nomogram based on long non-coding RNA to improve prognosis prediction of esophageal squamous cell carcinoma. Aging (Albany NY) 2020 Jan 24;12(2):1512-1526. PMID: 31978896
  • Bono HAll of gene expression (AOE): An integrated index for public gene expression databases. PLoS One 2020;15(1):e0227076. PMID: 31978081
  • Mahajan UV, Varma VR, Griswold ME, Blackshear CT et al. Dysregulation of multiple metabolic networks related to brain transmethylation and polyamine pathways in Alzheimer disease: A targeted metabolomic and transcriptomic study. PLoS Med 2020 Jan;17(1):e1003012. PMID: 31978055
  • Rosano S, Corà D, Parab S, Zaffuto S et al. A regulatory microRNA network controls endothelial cell phenotypic switch during sprouting angiogenesis. Elife 2020 Jan 24;9. PMID: 31976858
  • Yamada Y, Nohata N, Uchida A, Kato M et al. Replisome genes regulation by antitumor miR-101-5p in clear cell renal cell carcinoma. Cancer Sci 2020 Apr;111(4):1392-1406. PMID: 31975570
  • Wang L, Wang B, Quan Z et al. Identification of aberrantly methylated‑differentially expressed genes and gene ontology in prostate cancer. Mol Med Rep 2020 Feb;21(2):744-758. PMID: 31974616
  • Zhong G, Lou W, Shen Q, Yu K et al. Identification of key genes as potential biomarkers for triple‑negative breast cancer using integrating genomics analysis. Mol Med Rep 2020 Feb;21(2):557-566. PMID: 31974598
  • Choudhary MN, Friedman RZ, Wang JT, Jang HS et al. Co-opted transposons help perpetuate conserved higher-order chromosomal structures. Genome Biol 2020 Jan 24;21(1):16. PMID: 31973766
  • Madigan JP, Robey RW, Poprawski JE, Huang H et al. A role for ceramide glycosylation in resistance to oxaliplatin in colorectal cancer. Exp Cell Res 2020 Mar 15;388(2):111860. PMID: 31972222
  • Lindquist Liljeqvist M, Eriksson L, Villard C, Lengquist M et al. Dipeptidyl peptidase-4 is increased in the abdominal aortic aneurysm vessel wall and is associated with aneurysm disease processes. PLoS One 2020;15(1):e0227889. PMID: 31971988
  • Farswan A, Gupta A, Gupta R, Kaur G et al. Imputation of Gene Expression Data in Blood Cancer and Its Significance in Inferring Biological Pathways. Front Oncol 2019;9:1442. PMID: 31970084
  • Su T, Han M, Min J, Zhou H et al. Functional Characterization of Invertase Inhibitors PtC/VIF1 and 2 Revealed Their Involvements in the Defense Response to Fungal Pathogen in Populus trichocarpa. Front Plant Sci 2019;10:1654. PMID: 31969894
  • Achar YJ, Adhil M, Choudhary R, Gilbert N et al. Negative supercoil at gene boundaries modulates gene topology. Nature 2020 Jan;577(7792):701-705. PMID: 31969709
  • Kılıç A, Ameli A, Park JA, Kho AT et al. Mechanical forces induce an asthma gene signature in healthy airway epithelial cells. Sci Rep 2020 Jan 22;10(1):966. PMID: 31969610
  • Moore JE, Pratt HE, Purcaro MJ, Weng Z et al. A curated benchmark of enhancer-gene interactions for evaluating enhancer-target gene prediction methods. Genome Biol 2020 Jan 22;21(1):17. PMID: 31969180
  • Jing QB, Tong HX, Tang WJ, Tian SD et al. Clinical Significance and Potential Regulatory Mechanisms of Serum Response Factor in 1118 Cases of Thyroid Cancer Based on Gene Chip and RNA-Sequencing Data. Med Sci Monit 2020 Jan 22;26:e919302. PMID: 31967986
  • Hou J, Wang Y, Zhang H, Hu Y et al. Silencing of LINC00461 enhances radiosensitivity of lung adenocarcinoma cells by down-regulating HOXA10 via microRNA-195. J Cell Mol Med 2020 Mar;24(5):2879-2890. PMID: 31967713
  • Cui X, Wang Z, Li J, Zhu J et al. Cross talk between RNA N6-methyladenosine methyltransferase-like 3 and miR-186 regulates hepatoblastoma progression through Wnt/β-catenin signalling pathway. Cell Prolif 2020 Mar;53(3):e12768. PMID: 31967701
  • Bian YY, Yang LL, Yan Y, Zhao M et al. Identification of candidate biomarkers correlated with pathogenesis of postoperative peritoneal adhesion by using microarray analysis. World J Gastrointest Oncol 2020 Jan 15;12(1):54-65. PMID: 31966913
  • Zhu XF, Yi M, He J, Tang W et al. Pathological significance of MAD2L1 in breast cancer: an immunohistochemical study and meta analysis. Int J Clin Exp Pathol 2017;10(9):9190-9201. PMID: 31966791
  • Yang J, Lv Z, Huang J, Zhao Y et al. High expression of NME1 correlates with progression and poor prognosis in patients of hepatocellular carcinoma. Int J Clin Exp Pathol 2017;10(8):8561-8568. PMID: 31966710
  • Wang YM, Huang LM, Li DR, Shao JH et al. Hsa_circ_0101996 combined with hsa_circ_0101119 in peripheral whole blood can serve as the potential biomarkers for human cervical squamous cell carcinoma. Int J Clin Exp Pathol 2017;10(12):11924-11931. PMID: 31966557
  • Lucas ES, Vrljicak P, Muter J, Diniz-da-Costa MM et al. Recurrent pregnancy loss is associated with a pro-senescent decidual response during the peri-implantation window. Commun Biol 2020 Jan 21;3(1):37. PMID: 31965050
  • Kowalski TW, Gomes JDA, Garcia GBC, Fraga LR et al. CRL4-Cereblon complex in Thalidomide Embryopathy: a translational investigation. Sci Rep 2020 Jan 21;10(1):851. PMID: 31964914
  • Boudon S, Henry-Berger J, Cassar-Malek I et al. Aggregation of Omic Data and Secretome Prediction Enable the Discovery of Candidate Plasma Biomarkers for Beef Tenderness. Int J Mol Sci 2020 Jan 19;21(2). PMID: 31963926
  • Oh SY, Kang SM, Kang SH, Lee HJ et al. Potential Salivary mRNA Biomarkers for Early Detection of Oral Cancer. J Clin Med 2020 Jan 16;9(1). PMID: 31963366
  • Chen Y, Liao LD, Wu ZY, Yang Q et al. Identification of key genes by integrating DNA methylation and next-generation transcriptome sequencing for esophageal squamous cell carcinoma. Aging (Albany NY) 2020 Jan 21;12(2):1332-1365. PMID: 31962291
  • Li X, Huang H, Zhang J, Jiang F et al. A qualitative transcriptional signature for predicting the biochemical recurrence risk of prostate cancer patients after radical prostatectomy. Prostate 2020 Apr;80(5):376-387. PMID: 31961962
  • Imai-Sumida M, Dasgupta P, Kulkarni P, Shiina M et al. Genistein Represses HOTAIR/Chromatin Remodeling Pathways to Suppress Kidney Cancer. Cell Physiol Biochem 2020 Jan 22;54(1):53-70. PMID: 31961100
  • Wang Y, Qian M, Ruan P, Teschendorff AE et al. Detection of Epigenetic Field Defects Using a Weighted Epigenetic Distance-Based Method. Methods Mol Biol 2020;2117:109-131. PMID: 31960375
  • Zhang Y, Li Z, Chen M, Chen H et al. lncRNA TCL6 correlates with immune cell infiltration and indicates worse survival in breast cancer. Breast Cancer 2020 Jul;27(4):573-585. PMID: 31960363
  • Schlosser P, Li Y, Sekula P, Raffler J et al. Genetic studies of urinary metabolites illuminate mechanisms of detoxification and excretion in humans. Nat Genet 2020 Feb;52(2):167-176. PMID: 31959995
  • Tiwari R, Manzar N, Bhatia V, Yadav A et al. Androgen deprivation upregulates SPINK1 expression and potentiates cellular plasticity in prostate cancer. Nat Commun 2020 Jan 20;11(1):384. PMID: 31959826
  • Hwang S, Kwon AY, Jeong JY, Kim S et al. Immune gene signatures for predicting durable clinical benefit of anti-PD-1 immunotherapy in patients with non-small cell lung cancer. Sci Rep 2020 Jan 20;10(1):643. PMID: 31959763
  • Bersini S, Lytle NK, Schulte R, Huang L et al. Nup93 regulates breast tumor growth by modulating cell proliferation and actin cytoskeleton remodeling. Life Sci Alliance 2020 Jan;3(1). PMID: 31959624
  • Chen XQ, Zhang F, Su QC, Zeng C et al. Methylome and transcriptome analyses reveal insights into the epigenetic basis for the good survival of hypomethylated ER-positive breast cancer subtype. Clin Epigenetics 2020 Jan 20;12(1):16. PMID: 31959227
  • Nawas AF, Kanchwala M, Thomas-Jardin SE, Dahl H et al. IL-1-conferred gene expression pattern in ERα(+) BCa and AR(+) PCa cells is intrinsic to ERα(-) BCa and AR(-) PCa cells and promotes cell survival. BMC Cancer 2020 Jan 20;20(1):46. PMID: 31959131
  • Herrmann AB, Müller ML, Orth MF, Müller JP et al. Knockout of LASP1 in CXCR4 expressing CML cells promotes cell persistence, proliferation and TKI resistance. J Cell Mol Med 2020 Mar;24(5):2942-2955. PMID: 31957290
  • Bajad P, Ebner F, Amman F, Szabó B et al. An internal deletion of ADAR rescued by MAVS deficiency leads to a minute phenotype. Nucleic Acids Res 2020 Apr 6;48(6):3286-3303. PMID: 31956894
  • Nguyen TL, Nguyen TD, Bao S, Li S et al. The internal loops in the lower stem of primary microRNA transcripts facilitate single cleavage of human Microprocessor. Nucleic Acids Res 2020 Mar 18;48(5):2579-2593. PMID: 31956890
  • Liu H, Jiang T, Wang S, Chen X et al. A Novel Approach to Identify Enhancer lincRNAs by Integrating Genome, Epigenome, and Regulatome. Front Bioeng Biotechnol 2019;7:427. PMID: 31956652
  • Fu L, Cheng Z, Dong F, Quan L et al. Enhanced expression of FCER1G predicts positive prognosis in multiple myeloma. J Cancer 2020;11(5):1182-1194. PMID: 31956364
  • Sawakami T, Sun Z, Inagaki Y, Hasegawa K et al. The impact of apurinic-apyrimidinic endonuclease I on hepatocyte immuno-inflammatory factors and cell apoptosis. Biosci Trends 2019;13(6):539-545. PMID: 31956225
  • Xu W, Yu S, Xiong J, Long J et al. CeRNA regulatory network-based analysis to study the roles of noncoding RNAs in the pathogenesis of intrahepatic cholangiocellular carcinoma. Aging (Albany NY) 2020 Jan 17;12(2):1047-1086. PMID: 31956102
  • Zhu Z, Mesci P, Bernatchez JA, Gimple RC et al. Zika Virus Targets Glioblastoma Stem Cells through a SOX2-Integrin α(v)β(5) Axis. Cell Stem Cell 2020 Feb 6;26(2):187-204.e10. PMID: 31956038
  • Pan H, Lu L, Cui J, Yang Y et al. Immunological analyses reveal an immune subtype of uveal melanoma with a poor prognosis. Aging (Albany NY) 2020 Jan 18;12(2):1446-1464. PMID: 31954372
  • Yasumizu Y, Rajabi H, Jin C, Hata T et al. MUC1-C regulates lineage plasticity driving progression to neuroendocrine prostate cancer. Nat Commun 2020 Jan 17;11(1):338. PMID: 31953400
  • Kim JE, Fei L, Yin WC, Coquenlorge S et al. Single cell and genetic analyses reveal conserved populations and signaling mechanisms of gastrointestinal stromal niches. Nat Commun 2020 Jan 17;11(1):334. PMID: 31953387
  • Huang K, Li Y, Shim AR, Virk RKA et al. Physical and data structure of 3D genome. Sci Adv 2020 Jan;6(2):eaay4055. PMID: 31950084
  • Jiang Y, Yin F, Chen Y, Yue L et al. Discovery of microarray-identified genes associated with the progression of cervical intraepithelial neoplasia. Int J Clin Exp Pathol 2018;11(12):5667-5681. PMID: 31949653
  • Yang G, Jian L, Lin X, Zhu A et al. Bioinformatics Analysis of Potential Key Genes in Trastuzumab-Resistant Gastric Cancer. Dis Markers 2019;2019:1372571. PMID: 31949544
  • Xu C, Du Z, Ren S, Liang X et al. MiR-129-5p sensitization of lung cancer cells to etoposide-induced apoptosis by reducing YWHAB. J Cancer 2020;11(4):858-866. PMID: 31949489
  • Ai C, Zhang J, Lian S, Ma J et al. FOXM1 functions collaboratively with PLAU to promote gastric cancer progression. J Cancer 2020;11(4):788-794. PMID: 31949481
  • An H, Ma X, Liu M, Wang X et al. Stomatin plays a suppressor role in non-small cell lung cancer metastasis. Chin J Cancer Res 2019 Dec;31(6):930-944. PMID: 31949395
  • Villaseñor-Altamirano AB, Moretto M, Maldonado M, Zayas-Del Moral A et al. PulmonDB: a curated lung disease gene expression database. Sci Rep 2020 Jan 16;10(1):514. PMID: 31949184
  • Marie KL, Sassano A, Yang HH, Michalowski AM et al. Melanoblast transcriptome analysis reveals pathways promoting melanoma metastasis. Nat Commun 2020 Jan 16;11(1):333. PMID: 31949145
  • Wang K, Li C, Lin X, Sun H et al. Targeting alkaline ceramidase 3 alleviates the severity of nonalcoholic steatohepatitis by reducing oxidative stress. Cell Death Dis 2020 Jan 16;11(1):28. PMID: 31949129
  • Zhuo JY, Lu D, Lin ZY, Cen BN et al. CC motif chemokine ligand 16 inhibits the progression of liver cirrhosis via inactivating hepatic stellate cells. Hepatobiliary Pancreat Dis Int 2020 Oct;19(5):440-448. PMID: 31948840
  • Tian H, Zhang D, Xu R, Qin Y et al. [Expression of TRIM59 in Non-small Cell Lung Cancer and Its Correlation with Prognosis]. Zhongguo Fei Ai Za Zhi 2020 Jan 20;23(1):21-28. PMID: 31948534
  • Feng X, Zhang M, Meng J, Wang Y et al. Correlating Transcriptional Networks to Papillary Renal Cell Carcinoma Survival: A Large-Scale Coexpression Analysis and Clinical Validation. Oncol Res 2020 May 29;28(3):285-297. PMID: 31948514
  • Tran HTN, Ang KS, Chevrier M, Zhang X et al. A benchmark of batch-effect correction methods for single-cell RNA sequencing data. Genome Biol 2020 Jan 16;21(1):12. PMID: 31948481
  • Wen F, Ye F, Xiao Z, Liao L et al. Genome-wide survey and expression analysis of calcium-dependent protein kinase (CDPK) in grass Brachypodium distachyon. BMC Genomics 2020 Jan 16;21(1):53. PMID: 31948407
  • Alimadadi A, Munroe PB, Joe B, Cheng X et al. Meta-Analysis of Dilated Cardiomyopathy Using Cardiac RNA-Seq Transcriptomic Datasets. Genes (Basel) 2020 Jan 4;11(1). PMID: 31948008
  • Chen L, Chen Z, Simões A, Wu X et al. Site-Specific Expression Pattern of PIWI-Interacting RNA in Skin and Oral Mucosal Wound Healing. Int J Mol Sci 2020 Jan 14;21(2). PMID: 31947648
  • Li Z, Li F, Peng Y, Fang J et al. Identification of three m6A-related mRNAs signature and risk score for the prognostication of hepatocellular carcinoma. Cancer Med 2020 Mar;9(5):1877-1889. PMID: 31943856
  • Chen D, Chao DL, Rocha L, Kolar M et al. The lipid elongation enzyme ELOVL2 is a molecular regulator of aging in the retina. Aging Cell 2020 Feb;19(2):e13100. PMID: 31943697
  • Sun L, Liu X, Pan B, Hu X et al. Serum exosomal miR-122 as a potential diagnostic and prognostic biomarker of colorectal cancer with liver metastasis. J Cancer 2020;11(3):630-637. PMID: 31942186
  • Petitprez F, de Reyniès A, Keung EZ, Chen TW et al. B cells are associated with survival and immunotherapy response in sarcoma. Nature 2020 Jan;577(7791):556-560. PMID: 31942077
  • Cabrita R, Lauss M, Sanna A, Donia M et al. Tertiary lymphoid structures improve immunotherapy and survival in melanoma. Nature 2020 Jan;577(7791):561-565. PMID: 31942071
  • Poli-Neto OB, Meola J, Rosa-E-Silva JC, Tiezzi D et al. Transcriptome meta-analysis reveals differences of immune profile between eutopic endometrium from stage I-II and III-IV endometriosis independently of hormonal milieu. Sci Rep 2020 Jan 15;10(1):313. PMID: 31941945
  • Fuentes-Mattei E, Bayraktar R, Manshouri T, Silva AM et al. miR-543 regulates the epigenetic landscape of myelofibrosis by targeting TET1 and TET2. JCI Insight 2020 Jan 16;5(1). PMID: 31941838
  • Skoda J, Neradil J, Staniczkova Zambo I, Nunukova A et al. Serial Xenotransplantation in NSG Mice Promotes a Hybrid Epithelial/Mesenchymal Gene Expression Signature and Stemness in Rhabdomyosarcoma Cells. Cancers (Basel) 2020 Jan 13;12(1). PMID: 31941033
  • Rosenbaum SR, Knecht M, Mollaee M, Zhong Z et al. FOXD3 Regulates VISTA Expression in Melanoma. Cell Rep 2020 Jan 14;30(2):510-524.e6. PMID: 31940493
  • Majumder M, Palanisamy V et al. RNA binding protein FXR1-miR301a-3p axis contributes to p21WAF1 degradation in oral cancer. PLoS Genet 2020 Jan;16(1):e1008580. PMID: 31940341
  • Davis FP, Nern A, Picard S, Reiser MB et al. A genetic, genomic, and computational resource for exploring neural circuit function. Elife 2020 Jan 15;9. PMID: 31939737
  • Katz TA, Grimm SL, Kaushal A, Dong J et al. Hepatic Tumor Formation in Adult Mice Developmentally Exposed to Organotin. Environ Health Perspect 2020 Jan;128(1):17010. PMID: 31939706
  • Zhu J, Wang M, Hu D et al. Development of an autophagy-related gene prognostic signature in lung adenocarcinoma and lung squamous cell carcinoma. PeerJ 2020;8:e8288. PMID: 31938577
  • Wu H, Huang XP, Xiang R, Wu MY et al. CHEK2 SNPs predict better prognosis in HBV-related hepatocellular carcinoma patients. Int J Clin Exp Pathol 2018;11(6):3165-3175. PMID: 31938446
  • Li H, Wang Y, Song Y et al. MicroRNA-26b inhibits the immune response to Mycobacterium tuberculosis (M.tb) infection in THP-1 cells via targeting TGFβ-activated kinase-1 (TAK1), a promoter of the NF-κB pathway. Int J Clin Exp Pathol 2018;11(3):1218-1227. PMID: 31938216
  • Dong H, Zhang S, Wei Y, Liu C et al. Bioinformatic analysis of differential expression and core GENEs in breast cancer. Int J Clin Exp Pathol 2018;11(3):1146-1156. PMID: 31938209
  • Fan L, Li H, Zhang Y et al. LINC00908 negatively regulates microRNA-483-5p to increase TSPYL5 expression and inhibit the development of prostate cancer. Cancer Cell Int 2020;20:10. PMID: 31938018
  • Bertrams W, Griss K, Han M, Seidel K et al. Transcriptional analysis identifies potential biomarkers and molecular regulators in pneumonia and COPD exacerbation. Sci Rep 2020 Jan 14;10(1):241. PMID: 31937830
  • Tai F, Gong K, Song K, He Y et al. Enhanced JunD/RSK3 signalling due to loss of BRD4/FOXD3/miR-548d-3p axis determines BET inhibition resistance. Nat Commun 2020 Jan 14;11(1):258. PMID: 31937753
  • Schwarz B, Azodi CB, Shiu SH, Bauer P et al. Putative cis-Regulatory Elements Predict Iron Deficiency Responses in Arabidopsis Roots. Plant Physiol 2020 Mar;182(3):1420-1439. PMID: 31937681
  • Zhou Z, Xu B, Minn A, Zhang NR et al. DENDRO: genetic heterogeneity profiling and subclone detection by single-cell RNA sequencing. Genome Biol 2020 Jan 14;21(1):10. PMID: 31937348
  • Soncini SR, Hartman AH, Gallagher TM, Camper GJ et al. Changes in the expression of genes encoding type IV pili-associated proteins are seen when Clostridium perfringens is grown in liquid or on surfaces. BMC Genomics 2020 Jan 14;21(1):45. PMID: 31937237
  • Hartman ML, Sztiller-Sikorska M, Gajos-Michniewicz A, Czyz M et al. Dissecting Mechanisms of Melanoma Resistance to BRAF and MEK Inhibitors Revealed Genetic and Non-Genetic Patient- and Drug-Specific Alterations and Remarkable Phenotypic Plasticity. Cells 2020 Jan 7;9(1). PMID: 31936151
  • Hanniford D, Ulloa-Morales A, Karz A, Berzoti-Coelho MG et al. Epigenetic Silencing of CDR1as Drives IGF2BP3-Mediated Melanoma Invasion and Metastasis. Cancer Cell 2020 Jan 13;37(1):55-70.e15. PMID: 31935372
  • Samuels TJ, Järvelin AI, Ish-Horowicz D, Davis I et al. Imp/IGF2BP levels modulate individual neural stem cell growth and division through myc mRNA stability. Elife 2020 Jan 14;9. PMID: 31934860
  • Zhang X, Jiang Y, Xie Y, Leng X et al. Comprehensive Analysis of lncRNAs Associated with the Pathogenesis and Prognosis of Gastric Cancer. DNA Cell Biol 2020 Feb;39(2):299-309. PMID: 31934786
  • Chen M, Zhang S, Wen X, Cao H et al. Prognostic value of CLIC3 mRNA overexpression in bladder cancer. PeerJ 2020;8:e8348. PMID: 31934512
  • Huang WT, Liu AG, Cai KT, He RQ et al. Exploration and validation of downregulated microRNA-199a-3p, downstream messenger RNA targets and transcriptional regulation in osteosarcoma. Am J Transl Res 2019;11(12):7538-7554. PMID: 31934299
  • Yao L, Zou X, Liu L et al. The TCP1 ring complex is associated with malignancy and poor prognosis in hepatocellular carcinoma. Int J Clin Exp Pathol 2019;12(9):3329-3343. PMID: 31934176
  • Du H, Wang X, Dong R, Hu D et al. miR-601 inhibits proliferation, migration and invasion of prostate cancer stem cells by targeting KRT5 to inactivate the Wnt signaling pathway. Int J Clin Exp Pathol 2019;12(12):4361-4379. PMID: 31933840
  • Rong MH, Cai KT, Lu HP, Guo YN et al. Overexpression of MiR-452-5p in hepatocellular carcinoma tissues and its prospective signaling pathways. Int J Clin Exp Pathol 2019;12(11):4041-4056. PMID: 31933800
  • Guo YN, Dong H, Ma FC, Huang JJ et al. The clinicopathological significance of decreased miR-125b-5p in hepatocellular carcinoma: evidence based on RT-qPCR, microRNA-microarray, and microRNA-sequencing. Int J Clin Exp Pathol 2019;12(1):21-39. PMID: 31933718
  • Shao Q, Chen ZM et al. Feedback regulation between phosphatidylinositol-3,4,5-trisphosphate dependent Rac exchange factor 1 and transforming growth factor β1 and prognostic value in gastric cancer. World J Gastroenterol 2020 Jan 7;26(1):21-34. PMID: 31933512
  • Dhanasekaran R, Baylot V, Kim M, Kuruvilla S et al. MYC and Twist1 cooperate to drive metastasis by eliciting crosstalk between cancer and innate immunity. Elife 2020 Jan 14;9. PMID: 31933479
  • Chen WS, Zivanovic N, van Dijk D, Wolf G et al. Uncovering axes of variation among single-cell cancer specimens. Nat Methods 2020 Mar;17(3):302-310. PMID: 31932777
  • Ko ME, Williams CM, Fread KI, Goggin SM et al. FLOW-MAP: a graph-based, force-directed layout algorithm for trajectory mapping in single-cell time course datasets. Nat Protoc 2020 Feb;15(2):398-420. PMID: 31932774
  • Horikawa N, Abiko K, Matsumura N, Baba T et al. Anti-VEGF therapy resistance in ovarian cancer is caused by GM-CSF-induced myeloid-derived suppressor cell recruitment. Br J Cancer 2020 Mar;122(6):778-788. PMID: 31932754
  • Lin PI, Shu H, Mersha TB et al. Comparing DNA methylation profiles across different tissues associated with the diagnosis of pediatric asthma. Sci Rep 2020 Jan 13;10(1):151. PMID: 31932625
  • Srikanth S, Ramachandran S, Mohan S S et al. Construction of the gene regulatory network identifies MYC as a transcriptional regulator of SWI/SNF complex. Sci Rep 2020 Jan 13;10(1):158. PMID: 31932624
  • Parker MT, Knop K, Sherwood AV, Schurch NJ et al. Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m(6)A modification. Elife 2020 Jan 14;9. PMID: 31931956
  • Freebern E, Santos DJA, Fang L, Jiang J et al. GWAS and fine-mapping of livability and six disease traits in Holstein cattle. BMC Genomics 2020 Jan 13;21(1):41. PMID: 31931710
  • Liva SG, Tseng YC, Dauki AM, Sovic MG et al. Overcoming resistance to anabolic SARM therapy in experimental cancer cachexia with an HDAC inhibitor. EMBO Mol Med 2020 Feb 7;12(2):e9910. PMID: 31930715
  • Ozadam H, Geng M, Cenik C et al. RiboFlow, RiboR and RiboPy: an ecosystem for analyzing ribosome profiling data at read length resolution. Bioinformatics 2020 May 1;36(9):2929-2931. PMID: 31930375
  • Guo J, Wu Q, Peng X, Yu B et al. miR-509-5p Inhibits the Proliferation and Invasion of Osteosarcoma by Targeting TRIB2. Biomed Res Int 2019;2019:2523032. PMID: 31930114
  • Lepore S, Lettini G, Condelli V, Sisinni L et al. Comparative Gene Expression Profiling of Tobacco-Associated HPV-Positive versus Negative Oral Squamous Carcinoma Cell Lines. Int J Med Sci 2020;17(1):112-124. PMID: 31929745
  • Segalés J, Perdiguero E, Serrano AL, Sousa-Victor P et al. Sestrin prevents atrophy of disused and aging muscles by integrating anabolic and catabolic signals. Nat Commun 2020 Jan 13;11(1):189. PMID: 31929511
  • Lin YH, Guo L, Yan F, Dou ZQ et al. Long non-coding RNA HOTAIRM1 promotes proliferation and inhibits apoptosis of glioma cells by regulating the miR-873-5p/ZEB2 axis. Chin Med J (Engl) 2020 Jan 20;133(2):174-182. PMID: 31929367
  • Del Toro D, Carrasquero-Ordaz MA, Chu A, Ruff T et al. Structural Basis of Teneurin-Latrophilin Interaction in Repulsive Guidance of Migrating Neurons. Cell 2020 Jan 23;180(2):323-339.e19. PMID: 31928845
  • Deng G, Mou T, He J, Chen D et al. Circular RNA circRHOBTB3 acts as a sponge for miR-654-3p inhibiting gastric cancer growth. J Exp Clin Cancer Res 2020 Jan 13;39(1):1. PMID: 31928527
  • Course MM, Gudsnuk K, Desai N, Chamberlain JR et al. Endogenous MicroRNA Competition as a Mechanism of shRNA-Induced Cardiotoxicity. Mol Ther Nucleic Acids 2020 Mar 6;19:572-580. PMID: 31927330
  • Shang M, Zhang L, Chen X, Zheng S et al. Identification of hub genes and regulators associated with pancreatic ductal adenocarcinoma based on integrated gene expression profile analysis. Discov Med 2019 Sep;28(153):159-172. PMID: 31926587
  • Kimura K, Matsumoto S, Harada T, Morii E et al. ARL4C is associated with initiation and progression of lung adenocarcinoma and represents a therapeutic target. Cancer Sci 2020 Mar;111(3):951-961. PMID: 31925985
  • Dong M, Thennavan A, Urrutia E, Li Y et al. SCDC: bulk gene expression deconvolution by multiple single-cell RNA sequencing references. Brief Bioinform 2021 Jan 18;22(1):416-427. PMID: 31925417
  • Sarić N, Selby M, Ramaswamy V, Kool M et al. The AHR pathway represses TGFβ-SMAD3 signalling and has a potent tumour suppressive role in SHH medulloblastoma. Sci Rep 2020 Jan 10;10(1):148. PMID: 31924815
  • Gacem N, Kavo A, Zerad L, Richard L et al. ADAR1 mediated regulation of neural crest derived melanocytes and Schwann cell development. Nat Commun 2020 Jan 10;11(1):198. PMID: 31924792
  • Nepal C, Hadzhiev Y, Balwierz P, Tarifeño-Saldivia E et al. Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript processing. Nat Commun 2020 Jan 10;11(1):168. PMID: 31924754
  • Delacher M, Imbusch CD, Hotz-Wagenblatt A, Mallm JP et al. Precursors for Nonlymphoid-Tissue Treg Cells Reside in Secondary Lymphoid Organs and Are Programmed by the Transcription Factor BATF. Immunity 2020 Feb 18;52(2):295-312.e11. PMID: 31924477
  • Lavery WJ, Barski A, Wiley S, Schorry EK et al. KMT2C/D COMPASS complex-associated diseases [K(CD)COM-ADs]: an emerging class of congenital regulopathies. Clin Epigenetics 2020 Jan 10;12(1):10. PMID: 31924266
  • Liao Y, Li P, Wang Y, Chen H et al. Construction of asthma related competing endogenous RNA network revealed novel long non-coding RNAs and potential new drugs. Respir Res 2020 Jan 10;21(1):14. PMID: 31924195
  • Jiang G, Deng W, Liu Y, Wang C et al. General mechanism of JQ1 in inhibiting various types of cancer. Mol Med Rep 2020 Mar;21(3):1021-1034. PMID: 31922235
  • Zhang S, Pan X, Zeng T, Guo W et al. Copy Number Variation Pattern for Discriminating MACROD2 States of Colorectal Cancer Subtypes. Front Bioeng Biotechnol 2019;7:407. PMID: 31921812
  • Kumar SU, Kumar DT, Siva R, Doss CGP et al. Integrative Bioinformatics Approaches to Map Potential Novel Genes and Pathways Involved in Ovarian Cancer. Front Bioeng Biotechnol 2019;7:391. PMID: 31921802
  • Kim MK, Kim HW, Jang M, Oh SS et al. LOX family and ZFPM2 as novel diagnostic biomarkers for malignant pleural mesothelioma. Biomark Res 2020;8:1. PMID: 31921422
  • Li H, Ta N, Long C, Zhang Q et al. The spatial binding model of the pioneer factor Oct4 with its target genes during cell reprogramming. Comput Struct Biotechnol J 2019;17:1226-1233. PMID: 31921389
  • Silva VM, Gomes JA, Tenório LPG, de Omena Neta GC et al. Schwann cell reprogramming and lung cancer progression: a meta-analysis of transcriptome data. Oncotarget 2019 Dec 31;10(68):7288-7307. PMID: 31921388
  • Carofino BL, Dinshaw KM, Ho PY, Cataisson C et al. Head and neck squamous cancer progression is marked by CLIC4 attenuation in tumor epithelium and reciprocal stromal upregulation of miR-142-3p, a novel post-transcriptional regulator of CLIC4. Oncotarget 2019 Dec 31;10(68):7251-7275. PMID: 31921386
  • Jiu S, Xu Y, Wang J, Wang L et al. Genome-Wide Identification, Characterization, and Transcript Analysis of the TCP Transcription Factors in Vitis vinifera. Front Genet 2019;10:1276. PMID: 31921312
  • Wu S, Dai X, Xie D et al. Identification and Validation of an Immune-Related RNA Signature to Predict Survival of Patients With Head and Neck Squamous Cell Carcinoma. Front Genet 2019;10:1252. PMID: 31921296
  • Li L, Chen X, Chen Z et al. Identification of Key Candidate Genes in Dairy Cow in Response to Escherichia coli Mastitis by Bioinformatical Analysis. Front Genet 2019;10:1251. PMID: 31921295
  • Chen HJ, Li Yim AYF, Griffith GR, de Jonge WJ et al. Meta-Analysis of in vitro-Differentiated Macrophages Identifies Transcriptomic Signatures That Classify Disease Macrophages in vivo. Front Immunol 2019;10:2887. PMID: 31921150
  • Kumar A, Pareek V, Singh HN, Faiq MA et al. Altered Expression of a Unique Set of Genes Reveals Complex Etiology of Schizophrenia. Front Psychiatry 2019;10:906. PMID: 31920755
  • Fisher JJ, McKeating DR, Cuffe JS, Bianco-Miotto T et al. Proteomic Analysis of Placental Mitochondria Following Trophoblast Differentiation. Front Physiol 2019;10:1536. PMID: 31920727
  • Goyal D, Goyal R et al. Angiogenic Transformation in Human Brain Micro Endothelial Cells: Whole Genome DNA Methylation and Transcriptomic Analysis. Front Physiol 2019;10:1502. PMID: 31920707
  • Prajapati B, Fatma M, Fatima M, Khan MT et al. Identification of lncRNAs Associated With Neuroblastoma in Cross-Sectional Databases: Potential Biomarkers. Front Mol Neurosci 2019;12:293. PMID: 31920530
  • Ma H, Qu J, Luo J, Qi T et al. Super-Enhancer-Associated Hub Genes In Chronic Myeloid Leukemia Identified Using Weighted Gene Co-Expression Network Analysis. Cancer Manag Res 2019;11:10705-10718. PMID: 31920381
  • Yang SJ, Wang DD, Zhou SY, Zhang Q et al. Identification of circRNA-miRNA networks for exploring an underlying prognosis strategy for breast cancer. Epigenomics 2020 Jan;12(2):101-125. PMID: 31920098
  • Dakup PP, Porter KI, Gajula RP, Goel PN et al. The circadian clock protects against ionizing radiation-induced cardiotoxicity. FASEB J 2020 Feb;34(2):3347-3358. PMID: 31919902
  • Barrow TM, Wong Doo N, Milne RL, Giles GG et al. Analysis of retrotransposon subfamily DNA methylation reveals novel early epigenetic changes in chronic lymphocytic leukemia. Haematologica 2021 Jan 1;106(1):98-110. PMID: 31919093
  • Siamakpour-Reihani S, Cobb LP, Jiang C, Zhang D et al. Differential expression of immune related genes in high-grade ovarian serous carcinoma. Gynecol Oncol 2020 Mar;156(3):662-668. PMID: 31918995
  • Stutzman AV, Liang AS, Beilinson V, Ikegami K et al. Transcription-independent TFIIIC-bound sites cluster near heterochromatin boundaries within lamina-associated domains in C. elegans. Epigenetics Chromatin 2020 Jan 9;13(1):1. PMID: 31918747
  • Dong H, Wang Q, Zhang G, Li N et al. OSdlbcl: An online consensus survival analysis web server based on gene expression profiles of diffuse large B-cell lymphoma. Cancer Med 2020 Mar;9(5):1790-1797. PMID: 31918459
  • Ji Y, Yu C, Zhang H et al. contamDE-lm: linear model-based differential gene expression analysis using next-generation RNA-seq data from contaminated tumor samples. Bioinformatics 2020 Apr 15;36(8):2492-2499. PMID: 31917401
  • Tian S, Zhang L et al. Identification of Monotonically Differentially Expressed Genes for IFN-β-Treated Multiple Sclerosis Patients. Biomed Res Int 2019;2019:5647902. PMID: 31915697
  • Wan FZ, Chen KH, Sun YC, Chen XC et al. Exosomes overexpressing miR-34c inhibit malignant behavior and reverse the radioresistance of nasopharyngeal carcinoma. J Transl Med 2020 Jan 8;18(1):12. PMID: 31915008
  • Szlachta K, Raimer HM, Comeau LD, Wang YH et al. CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution. BMC Genomics 2020 Jan 8;21(1):25. PMID: 31914926
  • Taniguchi K, Kawai T, Kitawaki J, Tomikawa J et al. Epitranscriptomic profiling in human placenta: N6-methyladenosine modification at the 5'-untranslated region is related to fetal growth and preeclampsia. FASEB J 2020 Jan;34(1):494-512. PMID: 31914637
  • Liu HB, Huang GJ, Luo MS et al. Transcriptome analyses identify hub genes and potential mechanisms in adenoid cystic carcinoma. Medicine (Baltimore) 2020 Jan;99(2):e18676. PMID: 31914060
  • Xie M, Zhang J, Singan VR, McGranahan MJ et al. Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect. Plant Direct 2020 Jan;4(1):e00178. PMID: 31911959
  • Saravia J, Zeng H, Dhungana Y, Bastardo Blanco D et al. Homeostasis and transitional activation of regulatory T cells require c-Myc. Sci Adv 2020 Jan;6(1):eaaw6443. PMID: 31911938
  • Paavola J, Alakoski T, Ulvila J, Kilpiö T et al. Vezf1 regulates cardiac structure and contractile function. EBioMedicine 2020 Jan;51:102608. PMID: 31911272
  • Liu R, Hu R, Zeng Y, Zhang W et al. Tumour immune cell infiltration and survival after platinum-based chemotherapy in high-grade serous ovarian cancer subtypes: A gene expression-based computational study. EBioMedicine 2020 Jan;51:102602. PMID: 31911269
  • Zhang C, Leng L, Li Z, Zhao Y et al. Identification of biomarkers and drug repurposing candidates based on an immune-, inflammation- and membranous glomerulonephritis-associated triplets network for membranous glomerulonephritis. BMC Med Genomics 2020 Jan 7;13(1):5. PMID: 31910852
  • Ferrero G, Gomez E, Lyer S, Rovira M et al. The macrophage-expressed gene (mpeg) 1 identifies a subpopulation of B cells in the adult zebrafish. J Leukoc Biol 2020 Mar;107(3):431-443. PMID: 31909502
  • Nelson BS, Lin L, Kremer DM, Sousa CM et al. Tissue of origin dictates GOT1 dependence and confers synthetic lethality to radiotherapy. Cancer Metab 2020;8:1. PMID: 31908776
  • Wang T, Du M, Zhang W, Bai H et al. MicroRNA-432 Suppresses Invasion and Migration via E2F3 in Nasopharyngeal Carcinoma. Onco Targets Ther 2019;12:11271-11280. PMID: 31908492
  • Lange C, Rost F, Machate A, Reinhardt S et al. Single cell sequencing of radial glia progeny reveals the diversity of newborn neurons in the adult zebrafish brain. Development 2020 Jan 9;147(1). PMID: 31908317
  • Rodriguez S, Little HC, Daneshpajouhnejad P, Shepard BD et al. Late-onset renal hypertrophy and dysfunction in mice lacking CTRP1. FASEB J 2020 Feb;34(2):2657-2676. PMID: 31908037
  • Nuñez FJ, Johnstone TB, Corpuz ML, Kazarian AG et al. Glucocorticoids rapidly activate cAMP production via G(αs) to initiate non-genomic signaling that contributes to one-third of their canonical genomic effects. FASEB J 2020 Feb;34(2):2882-2895. PMID: 31908022
  • Soliman H, Wagner S, Flake DD 2nd, Robson M et al. Evaluation of the 12-Gene Molecular Score and the 21-Gene Recurrence Score as Predictors of Response to Neo-adjuvant Chemotherapy in Estrogen Receptor-Positive, HER2-Negative Breast Cancer. Ann Surg Oncol 2020 Mar;27(3):765-771. PMID: 31907749
  • Rahimmanesh I, Fatehi R et al. Systems biology approaches toward autosomal dominant polycystic kidney disease (ADPKD). Clin Transl Med 2020 Jan 6;9(1):1. PMID: 31907669
  • Guan XW, Wang HQ, Ban WW, Chang Z et al. Novel HDAC inhibitor Chidamide synergizes with Rituximab to inhibit diffuse large B-cell lymphoma tumour growth by upregulating CD20. Cell Death Dis 2020 Jan 6;11(1):20. PMID: 31907371
  • Estrada SM, Thagard AS, Dehart MJ, Damicis JR et al. The orphan nuclear receptor Nr4a1 mediates perinatal neuroinflammation in a murine model of preterm labor. Cell Death Dis 2020 Jan 6;11(1):11. PMID: 31907354
  • Wang M, Peng IF, Li S, Hu X et al. Dysregulation of antimicrobial peptide expression distinguishes Alzheimer's disease from normal aging. Aging (Albany NY) 2020 Jan 6;12(1):690-706. PMID: 31907335
  • Lin Y, Liu T, Cui T, Wang Z et al. RNAInter in 2020: RNA interactome repository with increased coverage and annotation. Nucleic Acids Res 2020 Jan 8;48(D1):D189-D197. PMID: 31906603
  • Minna E, Brich S, Todoerti K, Pilotti S et al. Cancer Associated Fibroblasts and Senescent Thyroid Cells in the Invasive Front of Thyroid Carcinoma. Cancers (Basel) 2020 Jan 1;12(1). PMID: 31906302
  • Sun W, Wang B, Qu XL, Zheng BQ et al. Metabolism of Reactive Oxygen Species in Osteosarcoma and Potential Treatment Applications. Cells 2019 Dec 30;9(1). PMID: 31905813
  • Chen X, Huang L, Yang Y, Chen S et al. ASPM promotes glioblastoma growth by regulating G1 restriction point progression and Wnt-β-catenin signaling. Aging (Albany NY) 2020 Jan 6;12(1):224-241. PMID: 31905171
  • Zhang S, Shao J, Yu D, Qiu X et al. MatchMixeR: a cross-platform normalization method for gene expression data integration. Bioinformatics 2020 Apr 15;36(8):2486-2491. PMID: 31904810
  • Wan Q, Tang J, Lu J, Jin L et al. Six-gene-based prognostic model predicts overall survival in patients with uveal melanoma. Cancer Biomark 2020;27(3):343-356. PMID: 31903983
  • Pan T, Liu J, Xu S, Yu Q et al. ANKRD22, a novel tumor microenvironment-induced mitochondrial protein promotes metabolic reprogramming of colorectal cancer cells. Theranostics 2020;10(2):516-536. PMID: 31903135
  • Chen Y, Chen Y, Zhang J, Cao P et al. Fusobacterium nucleatum Promotes Metastasis in Colorectal Cancer by Activating Autophagy Signaling via the Upregulation of CARD3 Expression. Theranostics 2020;10(1):323-339. PMID: 31903123
  • Sultan G, Zubair S, Tayubi IA, Dahms HU et al. Towards the early detection of ductal carcinoma (a common type of breast cancer) using biomarkers linked to the PPAR(γ) signaling pathway. Bioinformation 2019;15(11):799-805. PMID: 31902979
  • Serin Harmanci A, Harmanci AO, Zhou X et al. CaSpER identifies and visualizes CNV events by integrative analysis of single-cell or bulk RNA-sequencing data. Nat Commun 2020 Jan 3;11(1):89. PMID: 31900397
  • Huang M, Zeki J, Sumarsono N, Coles GL et al. Epigenetic Targeting of TERT-Associated Gene Expression Signature in Human Neuroblastoma with TERT Overexpression. Cancer Res 2020 Mar 1;80(5):1024-1035. PMID: 31900258
  • Voigtländer T, Metzger J, Husi H, Kirstein MM et al. Bile and urine peptide marker profiles: access keys to molecular pathways and biological processes in cholangiocarcinoma. J Biomed Sci 2020 Jan 3;27(1):13. PMID: 31900160
  • Lim KPH, Milne P, Poidinger M, Duan K et al. Circulating CD1c+ myeloid dendritic cells are potential precursors to LCH lesion CD1a+CD207+ cells. Blood Adv 2020 Jan 14;4(1):87-99. PMID: 31899802
  • Lv Y, He XY, Li D, Liu T et al. Sex-specific and opposite modulatory aspects revealed by PPI network and pathway analysis of ischemic stroke in humans. PLoS One 2020;15(1):e0227481. PMID: 31899762
  • Benítez-Burraco AGenes dysregulated in the blood of people with Williams syndrome are enriched in protein-coding genes positively selected in humans. Eur J Med Genet 2020 Apr;63(4):103828. PMID: 31899327
  • Aflakparast M, Geeven G, de Gunst MCM et al. Bayesian mixture regression analysis for regulation of Pluripotency in ES cells. BMC Bioinformatics 2020 Jan 2;21(1):3. PMID: 31898480
  • Xu W, Liu Z, Ren H, Peng X et al. Twenty Metabolic Genes Based Signature Predicts Survival of Glioma Patients. J Cancer 2020;11(2):441-449. PMID: 31897239
  • Chen W, Peng J, Ye J, Dai W et al. Aberrant AFP expression characterizes a subset of hepatocellular carcinoma with distinct gene expression patterns and inferior prognosis. J Cancer 2020;11(2):403-413. PMID: 31897235
  • Yu H, Zhao F, Li J, Zhu K et al. TBX2 Identified as a Potential Predictor of Bone Metastasis in Lung Adenocarcinoma via Integrated Bioinformatics Analyses and Verification of Functional Assay. J Cancer 2020;11(2):388-402. PMID: 31897234
  • Dai GP, Wang LP, Wen YQ, Ren XQ et al. Identification of key genes for predicting colorectal cancer prognosis by integrated bioinformatics analysis. Oncol Lett 2020 Jan;19(1):388-398. PMID: 31897151
  • Miura T, Ishiguro M, Ishikawa T, Okazaki S et al. Methylation of bone morphogenetic protein 2 is associated with poor prognosis in colorectal cancer. Oncol Lett 2020 Jan;19(1):229-238. PMID: 31897134
  • Sun Y, Zhao C, Ye Y, Wang Z et al. High expression of fibronectin 1 indicates poor prognosis in gastric cancer. Oncol Lett 2020 Jan;19(1):93-102. PMID: 31897119
  • Fohlin H, Bekkhus T, Sandström J, Fornander T et al. RAB6C is an independent prognostic factor of estrogen receptor-positive/progesterone receptor-negative breast cancer. Oncol Lett 2020 Jan;19(1):52-60. PMID: 31897114
  • Shen Z, Chen Q, Ying H, Ma Z et al. Identification of differentially expressed genes in the endothelial precursor cells of patients with type 2 diabetes mellitus by bioinformatics analysis. Exp Ther Med 2020 Jan;19(1):499-510. PMID: 31897097
  • Liao J, Yu Z, Chen Y, Bao M et al. Single-cell RNA sequencing of human kidney. Sci Data 2020 Jan 2;7(1):4. PMID: 31896769
  • Noguchi G, Kawahara T, Kobayashi K, Tsutsumi S et al. A lower psoas muscle volume was associated with a higher rate of recurrence in male clear cell renal cell carcinoma. PLoS One 2020;15(1):e0226581. PMID: 31895931
  • Lin Y, Fu F, Lv J, Wang M et al. Identification of potential key genes for HER-2 positive breast cancer based on bioinformatics analysis. Medicine (Baltimore) 2020 Jan;99(1):e18445. PMID: 31895772
  • Park S, Lim JM, Chun JN, Lee S et al. Altered expression of fucosylation pathway genes is associated with poor prognosis and tumor metastasis in non‑small cell lung cancer. Int J Oncol 2020 Feb;56(2):559-567. PMID: 31894325
  • Li W, Wang L, Wu Y, Yuan Z et al. Weighted gene co‑expression network analysis to identify key modules and hub genes associated with atrial fibrillation. Int J Mol Med 2020 Feb;45(2):401-416. PMID: 31894294
  • Luo H, Zhao Q, Wei W, Zheng L et al. Circulating tumor DNA methylation profiles enable early diagnosis, prognosis prediction, and screening for colorectal cancer. Sci Transl Med 2020 Jan 1;12(524). PMID: 31894106
  • Lu W, Fu D, Kong X, Huang Z et al. FOLFOX treatment response prediction in metastatic or recurrent colorectal cancer patients via machine learning algorithms. Cancer Med 2020 Feb;9(4):1419-1429. PMID: 31893575
  • Hsu HP, Wang CY, Hsieh PY, Fang JH et al. Knockdown of serine/threonine-protein kinase 24 promotes tumorigenesis and myeloid-derived suppressor cell expansion in an orthotopic immunocompetent gastric cancer animal model. J Cancer 2020;11(1):213-228. PMID: 31892988
  • Qin S, Yi M, Jiao D, Li A et al. Distinct Roles of VEGFA and ANGPT2 in Lung Adenocarcinoma and Squamous Cell Carcinoma. J Cancer 2020;11(1):153-167. PMID: 31892982
  • Monaco A, Amoroso N, Bellantuono L, Lella E et al. Shannon entropy approach reveals relevant genes in Alzheimer's disease. PLoS One 2019;14(12):e0226190. PMID: 31891941
  • Zhang C, Zhang B, Meng D, Ge C et al. Comprehensive analysis of DNA methylation and gene expression profiles in cholangiocarcinoma. Cancer Cell Int 2019;19:352. PMID: 31889904
  • Xu X, Chen B, Zhu S, Zhang J et al. Hyperglycemia promotes Snail-induced epithelial-mesenchymal transition of gastric cancer via activating ENO1 expression. Cancer Cell Int 2019;19:344. PMID: 31889896
  • Feng J, Zhou Q, Gao W, Wu Y et al. Seeking for potential pathogenic genes of major depressive disorder in the Gene Expression Omnibus database. Asia Pac Psychiatry 2020 Mar;12(1):e12379. PMID: 31889427
  • Sibai M, Parlayan C, Tuğlu P, Öztürk G et al. Integrative Analysis of Axolotl Gene Expression Data from Regenerative and Wound Healing Limb Tissues. Sci Rep 2019 Dec 30;9(1):20280. PMID: 31889169
  • Asano N, Takeshima H, Yamashita S, Takamatsu H et al. Epigenetic reprogramming underlies efficacy of DNA demethylation therapy in osteosarcomas. Sci Rep 2019 Dec 30;9(1):20360. PMID: 31889115
  • Gross N, Strillacci MG, Peñagaricano F, Khatib H et al. Characterization and functional roles of paternal RNAs in 2-4 cell bovine embryos. Sci Rep 2019 Dec 30;9(1):20347. PMID: 31889064
  • Wang X, Yu Q, Ghareeb WM, Zhang Y et al. Downregulated SPINK4 is associated with poor survival in colorectal cancer. BMC Cancer 2019 Dec 30;19(1):1258. PMID: 31888570
  • Yue H, Wang J, Chen R, Hou X et al. Gene signature characteristic of elevated stromal infiltration and activation is associated with increased risk of hematogenous and lymphatic metastasis in serous ovarian cancer. BMC Cancer 2019 Dec 30;19(1):1266. PMID: 31888563
  • Suh HY, Choi H, Paeng JC, Cheon GJ et al. Comprehensive gene expression analysis for exploring the association between glucose metabolism and differentiation of thyroid cancer. BMC Cancer 2019 Dec 30;19(1):1260. PMID: 31888560
  • Benis N, Wells JM, Smits MA, Kar SK et al. High-level integration of murine intestinal transcriptomics data highlights the importance of the complement system in mucosal homeostasis. BMC Genomics 2019 Dec 30;20(1):1028. PMID: 31888466
  • Ferguson LB, Patil S, Moskowitz BA, Ponomarev I et al. A Pathway-Based Genomic Approach to Identify Medications: Application to Alcohol Use Disorder. Brain Sci 2019 Dec 16;9(12). PMID: 31888299
  • Dubois C, Martin F, Hassel C, Magnier F et al. Low-Dose and Long-Term Olaparib Treatment Sensitizes MDA-MB-231 and SUM1315 Triple-Negative Breast Cancers Spheroids to Fractioned Radiotherapy. J Clin Med 2019 Dec 26;9(1). PMID: 31888054
  • Jiang Y, He J, Guo Y, Tao H et al. Identification of genes related to low-grade glioma progression and prognosis based on integrated transcriptome analysis. J Cell Biochem 2020 Jun;121(5-6):3099-3111. PMID: 31886582
  • Chen M, Yan J, Han Q, Luo J et al. Identification of hub-methylated differentially expressed genes in patients with gestational diabetes mellitus by multi-omic WGCNA basing epigenome-wide and transcriptome-wide profiling. J Cell Biochem 2020 Jun;121(5-6):3173-3184. PMID: 31886571
  • Wang W, Liu Q, Wang Y, Piao H et al. Integration of Gene Expression Profile Data of Human Epicardial Adipose Tissue from Coronary Artery Disease to Verification of Hub Genes and Pathways. Biomed Res Int 2019;2019:8567306. PMID: 31886261
  • Qiu CC, Su QS, Zhu SY, Liu RC et al. Identification of Potential Biomarkers and Biological Pathways in Juvenile Dermatomyositis Based on miRNA-mRNA Network. Biomed Res Int 2019;2019:7814287. PMID: 31886250
  • Xie H, Xie C et al. A Six-Gene Signature Predicts Survival of Adenocarcinoma Type of Non-Small-Cell Lung Cancer Patients: A Comprehensive Study Based on Integrated Analysis and Weighted Gene Coexpression Network. Biomed Res Int 2019;2019:4250613. PMID: 31886214
  • Wang S, Wang H, Liu W, Wei B et al. Identification of Key Genes and Pathways Associated with Sex Differences in Osteoarthritis Based on Bioinformatics Analysis. Biomed Res Int 2019;2019:3482751. PMID: 31886203
  • Zhou D, Gao B, Yang Q, Kong Y et al. Integrative Analysis of ceRNA Network Reveals Functional lncRNAs in Intrahepatic Cholangiocarcinoma. Biomed Res Int 2019;2019:2601271. PMID: 31886187
  • Hu D, Zhou M, Zhu X et al. Deciphering Immune-Associated Genes to Predict Survival in Clear Cell Renal Cell Cancer. Biomed Res Int 2019;2019:2506843. PMID: 31886185
  • Teng L, Wang K, Liu Y, Ma Y et al. Based on Integrated Bioinformatics Analysis Identification of Biomarkers in Hepatocellular Carcinoma Patients from Different Regions. Biomed Res Int 2019;2019:1742341. PMID: 31886176
  • Ning L, Li S, Gao J, Ding L et al. Tenascin-C Is Increased in Inflammatory Bowel Disease and Is Associated with response to Infliximab Therapy. Biomed Res Int 2019;2019:1475705. PMID: 31886172
  • Wang M, Wang L, Wu S, Zhou D et al. Identification of Key Genes and Prognostic Value Analysis in Hepatocellular Carcinoma by Integrated Bioinformatics Analysis. Int J Genomics 2019;2019:3518378. PMID: 31886163
  • Zhao Y, Yang SM, Jin YL, Xiong GW et al. A Robust Gene Expression Prognostic Signature for Overall Survival in High-Grade Serous Ovarian Cancer. J Oncol 2019;2019:3614207. PMID: 31885574
  • Liu Y, Wang X, Wang H, Hu T et al. Identification of key genes and pathways in abdominal aortic aneurysm by integrated bioinformatics analysis. J Int Med Res 2020 Apr;48(4):300060519894437. PMID: 31885343
  • Sladitschek HL, Neveu PA et al. A gene regulatory network controls the balance between mesendoderm and ectoderm at pluripotency exit. Mol Syst Biol 2019 Dec;15(12):e9043. PMID: 31885203
  • Nunez FJ, Schulte NA, Fogel DM, Michalski J et al. Agonist-specific desensitization of PGE(2)-stimulated cAMP signaling due to upregulated phosphodiesterase expression in human lung fibroblasts. Naunyn Schmiedebergs Arch Pharmacol 2020 May;393(5):843-856. PMID: 31884570
  • Namani A, Liu K, Wang S, Zhou X et al. Genome-wide global identification of NRF2 binding sites in A549 non-small cell lung cancer cells by ChIP-Seq reveals NRF2 regulation of genes involved in focal adhesion pathways. Aging (Albany NY) 2019 Dec 28;11(24):12600-12623. PMID: 31884422
  • Blackledge NP, Fursova NA, Kelley JR, Huseyin MK et al. PRC1 Catalytic Activity Is Central to Polycomb System Function. Mol Cell 2020 Feb 20;77(4):857-874.e9. PMID: 31883950
  • Xiong Y, Yuan L, Xiong J, Xu H et al. An outcome model for human bladder cancer: A comprehensive study based on weighted gene co-expression network analysis. J Cell Mol Med 2020 Feb;24(3):2342-2355. PMID: 31883309
  • Song F, Tao Y, Sun Y, Saffen D et al. A multiple coefficient of determination-based method for parsing SNPs that correlate with mRNA expression. Sci Rep 2019 Dec 27;9(1):20110. PMID: 31882953
  • Smaldone G, Beneduce G, Incoronato M, Pane K et al. KCTD15 is overexpressed in human childhood B-cell acute lymphoid leukemia. Sci Rep 2019 Dec 27;9(1):20108. PMID: 31882877
  • Lukowicz C, Ellero-Simatos S, Régnier M, Oliviero F et al. Dimorphic metabolic and endocrine disorders in mice lacking the constitutive androstane receptor. Sci Rep 2019 Dec 27;9(1):20169. PMID: 31882815
  • Yu J, Zhu M, Lv M, Wu X et al. Characterization of a five-microRNA signature as a prognostic biomarker for esophageal squamous cell carcinoma. Sci Rep 2019 Dec 27;9(1):19847. PMID: 31882677
  • Mugahid DA, Sengul TG, You X, Wang Y et al. Proteomic and Transcriptomic Changes in Hibernating Grizzly Bears Reveal Metabolic and Signaling Pathways that Protect against Muscle Atrophy. Sci Rep 2019 Dec 27;9(1):19976. PMID: 31882638
  • Karimizadeh E, Sharifi-Zarchi A, Nikaein H, Salehi S et al. Analysis of gene expression profiles and protein-protein interaction networks in multiple tissues of systemic sclerosis. BMC Med Genomics 2019 Dec 27;12(1):199. PMID: 31881890
  • Li E, Luo T, Wang Y et al. Identification of diagnostic biomarkers in patients with gestational diabetes mellitus based on transcriptome gene expression and methylation correlation analysis. Reprod Biol Endocrinol 2019 Dec 27;17(1):112. PMID: 31881887
  • Teles SP, Oliveira P, Ferreira M, Carvalho J et al. Integrated Analysis of Structural Variation and RNA Expression of FGFR2 and Its Splicing Modulator ESRP1 Highlight the ESRP1(amp)-FGFR2(norm)-FGFR2-IIIc(high) Axis in Diffuse Gastric Cancer. Cancers (Basel) 2019 Dec 25;12(1). PMID: 31881796
  • Naipauer J, Rosario S, Gupta S, Premer C et al. PDGFRA defines the mesenchymal stem cell Kaposi's sarcoma progenitors by enabling KSHV oncogenesis in an angiogenic environment. PLoS Pathog 2019 Dec;15(12):e1008221. PMID: 31881074
  • Coe EA, Tan JY, Shapiro M, Louphrasitthiphol P et al. The MITF-SOX10 regulated long non-coding RNA DIRC3 is a melanoma tumour suppressor. PLoS Genet 2019 Dec;15(12):e1008501. PMID: 31881017
  • Li B, Li M, Li X, Li H et al. Sirt1-inducible deacetylation of p21 promotes cardiomyocyte proliferation. Aging (Albany NY) 2019 Dec 26;11(24):12546-12567. PMID: 31881009
  • Bermúdez-Barrientos JR, Ramírez-Sánchez O, Chow FW, Buck AH et al. Disentangling sRNA-Seq data to study RNA communication between species. Nucleic Acids Res 2020 Feb 28;48(4):e21. PMID: 31879784
  • Cunningham PS, Meijer P, Nazgiewicz A, Anderson SG et al. The circadian clock protein REVERBα inhibits pulmonary fibrosis development. Proc Natl Acad Sci U S A 2020 Jan 14;117(2):1139-1147. PMID: 31879343
  • Neubauer M, Serrano I, Rodibaugh N, Bhandari DD et al. Arabidopsis EDR1 Protein Kinase Regulates the Association of EDS1 and PAD4 to Inhibit Cell Death. Mol Plant Microbe Interact 2020 Apr;33(4):693-703. PMID: 31876224
  • Li G, Chen Z, Zhang Y, Wu Z et al. Effects of left ventricular assist device on heart failure patients: A bioinformatics analysis. Artif Organs 2020 Jun;44(6):577-583. PMID: 31875973
  • Song X, Sun X, Oh SF, Wu M et al. Microbial bile acid metabolites modulate gut RORγ(+) regulatory T cell homeostasis. Nature 2020 Jan;577(7790):410-415. PMID: 31875848
  • Shinoda K, Maman Y, Canela A, Schatz DG et al. Intra-Vκ Cluster Recombination Shapes the Ig Kappa Locus Repertoire. Cell Rep 2019 Dec 24;29(13):4471-4481.e6. PMID: 31875554
  • Parashar D, Geethadevi A, Aure MR, Mishra J et al. miRNA551b-3p Activates an Oncostatin Signaling Module for the Progression of Triple-Negative Breast Cancer. Cell Rep 2019 Dec 24;29(13):4389-4406.e10. PMID: 31875548
  • Wang W, Zhang K, Zhang H, Li M et al. Underlying Genes Involved in Atherosclerotic Macrophages: Insights from Microarray Data Mining. Med Sci Monit 2019 Dec 25;25:9949-9962. PMID: 31875420
  • Zhao J, Xu C, Cao H, Zhang L et al. Identification of target genes in neuroinflammation and neurodegeneration after traumatic brain injury in rats. PeerJ 2019;7:e8324. PMID: 31875163
  • Rostami-Nejad M, Rezaei-Tavirani M, Zadeh-Esmaeel MM, RezaeiTavirani S et al. Assessment of Cytokine-Mediated Signaling Pathway Dysregulation in Arm Skin After CO2 Laser Therapy. J Lasers Med Sci 2019 Fall;10(4):257-263. PMID: 31875116
  • Coilly A, Desterke C, Guettier C, Samuel D et al. FABP4 and MMP9 levels identified as predictive factors for poor prognosis in patients with nonalcoholic fatty liver using data mining approaches and gene expression analysis. Sci Rep 2019 Dec 24;9(1):19785. PMID: 31874999
  • Zhou Y, Cui Q, Zhou Y et al. NmSEER V2.0: a prediction tool for 2'-O-methylation sites based on random forest and multi-encoding combination. BMC Bioinformatics 2019 Dec 24;20(Suppl 25):690. PMID: 31874624
  • Li M, Tang L, Wu FX, Pan Y et al. CSA: a web service for the complete process of ChIP-Seq analysis. BMC Bioinformatics 2019 Dec 24;20(Suppl 15):515. PMID: 31874601
  • Sun HZ, Zhou M, Wang O, Chen Y et al. Multi-omics reveals functional genomic and metabolic mechanisms of milk production and quality in dairy cows. Bioinformatics 2020 Apr 15;36(8):2530-2537. PMID: 31873721
  • Chen P, Guo H, Wu X, Li J et al. Epigenetic silencing of microRNA-204 by Helicobacter pylori augments the NF-κB signaling pathway in gastric cancer development and progression. Carcinogenesis 2020 Jun 17;41(4):430-441. PMID: 31873718
  • Detavernier A, Azouz A, Shehade H, Splittgerber M et al. Monocytes undergo multi-step differentiation in mice during oral infection by Toxoplasma gondii. Commun Biol 2019;2:472. PMID: 31872076
  • Qin D, Wei R, Liu S, Zhu S et al. A Circulating miRNA-Based Scoring System Established by WGCNA to Predict Colon Cancer. Anal Cell Pathol (Amst) 2019;2019:1571045. PMID: 31871878
  • Du R, Shen W, Liu Y, Gao W et al. TGIF2 promotes the progression of lung adenocarcinoma by bridging EGFR/RAS/ERK signaling to cancer cell stemness. Signal Transduct Target Ther 2019;4:60. PMID: 31871777
  • Dong MY, Fan XW, Pang XY, Li YZ et al. Decrypting tubby-like protein gene family of multiple functions in starch root crop cassava. AoB Plants 2019 Dec;11(6):plz075. PMID: 31871614
  • Shi J, Xu X, Du J, Cui H et al. Expression of Oncostatin M in Early Gastric Cancer and Precancerous Lesions. Gastroenterol Res Pract 2019;2019:3616140. PMID: 31871447
  • Winkler I, Bitter C, Winkler S, Weichenhan D et al. Identification of Pparγ-modulated miRNA hubs that target the fibrotic tumor microenvironment. Proc Natl Acad Sci U S A 2020 Jan 7;117(1):454-463. PMID: 31871210
  • Jin Z, Zhao X, Cui L, Xu X et al. UBE2C promotes the progression of head and neck squamous cell carcinoma. Biochem Biophys Res Commun 2020 Mar 5;523(2):389-397. PMID: 31870550
  • Kazachenka A, Young GR, Attig J, Kordella C et al. Epigenetic therapy of myelodysplastic syndromes connects to cellular differentiation independently of endogenous retroelement derepression. Genome Med 2019 Dec 23;11(1):86. PMID: 31870430
  • Zhang Z, Zhan Q, Eckert M, Zhu A et al. RADAR: differential analysis of MeRIP-seq data with a random effect model. Genome Biol 2019 Dec 23;20(1):294. PMID: 31870409
  • Chen L, Yao Y, Jin C, Wu S et al. Integrative genomic analysis identified common regulatory networks underlying the correlation between coronary artery disease and plasma lipid levels. BMC Cardiovasc Disord 2019 Dec 23;19(1):310. PMID: 31870308
  • Schneider K, Adams CE, Elmer KR et al. Parallel selection on ecologically relevant gene functions in the transcriptomes of highly diversifying salmonids. BMC Genomics 2019 Dec 23;20(1):1010. PMID: 31870285
  • Ko EA, Lee H, Sanders KM, Koh SD et al. Expression of Alpha-type Platelet-derived Growth Factor Receptor-influenced Genes Predicts Clinical Outcome in Glioma. Transl Oncol 2020 Feb;13(2):233-240. PMID: 31869747
  • Etheridge AS, Gallins PJ, Jima D, Broadaway KA et al. A New Liver Expression Quantitative Trait Locus Map From 1,183 Individuals Provides Evidence for Novel Expression Quantitative Trait Loci of Drug Response, Metabolic, and Sex-Biased Phenotypes. Clin Pharmacol Ther 2020 Jun;107(6):1383-1393. PMID: 31868224
  • Kerr SR, Katz SG et al. Activation of the Unfolded Protein Response Pathway in Cytotoxic T Cells: A Comparison Between in vitro Stimulation, Infection, and the Tumor Microenvironment. Yale J Biol Med 2019 Dec;92(4):675-685. PMID: 31866782
  • Zhang PB, Huang ZL, Xu YH, Huang J et al. Systematic analysis of gene expression profiles reveals prognostic stratification and underlying mechanisms for muscle-invasive bladder cancer. Cancer Cell Int 2019;19:337. PMID: 31866765
  • Liu C, Zhou L, Wang Y, Tian S et al. UGM: a more stable procedure for large-scale multiple testing problems, new solutions to identify oncogene. Theor Biol Med Model 2019 Dec 23;16(1):20. PMID: 31865918
  • Ong E, Sun P, Berke K, Zheng J et al. VIO: ontology classification and study of vaccine responses given various experimental and analytical conditions. BMC Bioinformatics 2019 Dec 23;20(Suppl 21):704. PMID: 31865910
  • Yang Q, Soltis AR, Sukumar G, Zhang X et al. Gene therapy-emulating small molecule treatments in cystic fibrosis airway epithelial cells and patients. Respir Res 2019 Dec 21;20(1):290. PMID: 31864360
  • Chen S, Zhao Y, Jin H, Qi X et al. TROVE2 strengthens the anti-inflammatory effect via macrophage polarization by estrogen induction in abdominal aortic aneurysm. Life Sci 2020 Feb 1;242:117207. PMID: 31863777
  • Xue K, Cao J, Wang Y, Zhao X et al. Identification of Potential Therapeutic Gene Markers in Nasopharyngeal Carcinoma Based on Bioinformatics Analysis. Clin Transl Sci 2020 Mar;13(2):265-274. PMID: 31863646
  • Cui D, Qian R, Li Y et al. Circular RNA circ-CMPK1 contributes to cell proliferation of non-small cell lung cancer by elevating cyclin D1 via sponging miR-302e. Mol Genet Genomic Med 2020 Feb;8(2):e999. PMID: 31863641
  • Kindgren P, Ivanov M, Marquardt S et al. Native elongation transcript sequencing reveals temperature dependent dynamics of nascent RNAPII transcription in Arabidopsis. Nucleic Acids Res 2020 Mar 18;48(5):2332-2347. PMID: 31863587
  • Pang K, Park J, Ahn SG, Lee J et al. RNF208, an estrogen-inducible E3 ligase, targets soluble Vimentin to suppress metastasis in triple-negative breast cancers. Nat Commun 2019 Dec 20;10(1):5805. PMID: 31862882
  • Cao H, Salazar-García L, Gao F, Wahlestedt T et al. Novel approach reveals genomic landscapes of single-strand DNA breaks with nucleotide resolution in human cells. Nat Commun 2019 Dec 20;10(1):5799. PMID: 31862872
  • Church BV, Williams HT, Mar JC et al. Investigating skewness to understand gene expression heterogeneity in large patient cohorts. BMC Bioinformatics 2019 Dec 20;20(Suppl 24):668. PMID: 31861976
  • Tarazona A, Forment J, Elena SF et al. Identifying Early Warning Signals for the Sudden Transition from Mild to Severe Tobacco Etch Disease by Dynamical Network Biomarkers. Viruses 2019 Dec 20;12(1). PMID: 31861938
  • Osorio D, Yu X, Zhong Y, Li G et al. Single-Cell Expression Variability Implies Cell Function. Cells 2019 Dec 19;9(1). PMID: 31861624
  • Xing M, Li P, Wang X, Li J et al. Overexpression of p62/IMP2 can Promote Cell Migration in Hepatocellular Carcinoma via Activation of the Wnt/β-Catenin Pathway. Cancers (Basel) 2019 Dec 18;12(1). PMID: 31861402
  • Taborska E, Pasulka J, Malik R, Horvat F et al. Restricted and non-essential redundancy of RNAi and piRNA pathways in mouse oocytes. PLoS Genet 2019 Dec;15(12):e1008261. PMID: 31860668
  • Xu X, Zhang C, Xia Y, Yu J et al. Over expression of METRN predicts poor clinical prognosis in colorectal cancer. Mol Genet Genomic Med 2020 Mar;8(3):e1102. PMID: 31859449
  • Price AJ, Manjegowda MC, Kain J, Anandh S et al. Hdac3, Setdb1, and Kap1 mark H3K9me3/H3K14ac bivalent regions in young and aged liver. Aging Cell 2020 Feb;19(2):e13092. PMID: 31858687
  • Tian Y, Su Y, Ye Q, Chen L et al. Silencing of TXNIP Alleviated Oxidative Stress Injury by Regulating MAPK-Nrf2 Axis in Ischemic Stroke. Neurochem Res 2020 Feb;45(2):428-436. PMID: 31858374
  • Ghandhi SA, Smilenov L, Shuryak I, Pujol-Canadell M et al. Discordant gene responses to radiation in humans and mice and the role of hematopoietically humanized mice in the search for radiation biomarkers. Sci Rep 2019 Dec 19;9(1):19434. PMID: 31857640
  • Zhao Y, Zhou J, He L, Li Y et al. MyoD induced enhancer RNA interacts with hnRNPL to activate target gene transcription during myogenic differentiation. Nat Commun 2019 Dec 19;10(1):5787. PMID: 31857580
  • Kim J, Gupta R, Blanco LP, Yang S et al. VDAC oligomers form mitochondrial pores to release mtDNA fragments and promote lupus-like disease. Science 2019 Dec 20;366(6472):1531-1536. PMID: 31857488
  • Pennock ND, Jindal S, Horton W, Sun D et al. RNA-seq from archival FFPE breast cancer samples: molecular pathway fidelity and novel discovery. BMC Med Genomics 2019 Dec 19;12(1):195. PMID: 31856832
  • Zhao Z, Peng H, Zhang X, Zheng Y et al. Identification of lung cancer gene markers through kernel maximum mean discrepancy and information entropy. BMC Med Genomics 2019 Dec 20;12(Suppl 8):183. PMID: 31856830
  • Chiu YJ, Hsieh YH, Huang YH et al. Improved cell composition deconvolution method of bulk gene expression profiles to quantify subsets of immune cells. BMC Med Genomics 2019 Dec 20;12(Suppl 8):169. PMID: 31856824
  • Zeng S, Lyu Z, Narisetti SRK, Xu D et al. Knowledge Base Commons (KBCommons) v1.1: a universal framework for multi-omics data integration and biological discoveries. BMC Genomics 2019 Dec 20;20(Suppl 11):947. PMID: 31856718
  • Al Chiblak M, Steinbeck F, Thiesen HJ, Lorenz P et al. DUF3669, a "domain of unknown function" within ZNF746 and ZNF777, oligomerizes and contributes to transcriptional repression. BMC Mol Cell Biol 2019 Dec 19;20(1):60. PMID: 31856708
  • Wu C, He L, Wei Q, Li Q et al. Bioinformatic profiling identifies a platinum-resistant-related risk signature for ovarian cancer. Cancer Med 2020 Feb;9(3):1242-1253. PMID: 31856408
  • Cristino AS, Nourse J, West RA, Sabdia MB et al. EBV microRNA-BHRF1-2-5p targets the 3'UTR of immune checkpoint ligands PD-L1 and PD-L2. Blood 2019 Dec 19;134(25):2261-2270. PMID: 31856276
  • Kim HJ, Osteil P, Humphrey SJ, Cinghu S et al. Transcriptional network dynamics during the progression of pluripotency revealed by integrative statistical learning. Nucleic Acids Res 2020 Feb 28;48(4):1828-1842. PMID: 31853542
  • Dai FF, Bao AY, Luo B, Zeng ZH et al. Identification of differentially expressed genes and signaling pathways involved in endometriosis by integrated bioinformatics analysis. Exp Ther Med 2020 Jan;19(1):264-272. PMID: 31853298
  • Tang R, Chen J, Tang M, Liao Z et al. LncRNA SLCO4A1-AS1 predicts poor prognosis and promotes proliferation and metastasis via the EGFR/MAPK pathway in colorectal cancer. Int J Biol Sci 2019;15(13):2885-2896. PMID: 31853225
  • Li D, Zhong J, Zhang G, Lin L et al. Oncogenic Role and Prognostic Value of MicroRNA-937-3p in Patients with Breast Cancer. Onco Targets Ther 2019;12:11045-11056. PMID: 31853188
  • Chen X, Burkhardt DB, Hartman AA, Hu X et al. MLL-AF9 initiates transformation from fast-proliferating myeloid progenitors. Nat Commun 2019 Dec 18;10(1):5767. PMID: 31852898
  • Ciuculete DM, Voisin S, Kular L, Welihinda N et al. Longitudinal DNA methylation changes at MET may alter HGF/c-MET signalling in adolescents at risk for depression. Epigenetics 2020 Jun-Jul;15(6-7):646-663. PMID: 31852353
  • Godoy PM, Barczak AJ, DeHoff P, Srinivasan S et al. Comparison of Reproducibility, Accuracy, Sensitivity, and Specificity of miRNA Quantification Platforms. Cell Rep 2019 Dec 17;29(12):4212-4222.e5. PMID: 31851944
  • Shetty AC, Mattick J, Chung M, McCracken C et al. Cost effective, experimentally robust differential-expression analysis for human/mammalian, pathogen and dual-species transcriptomics. Microb Genom 2020 Jan;6(1). PMID: 31851607
  • Yang JF, Shi SN, Xu WH, Qiu YH et al. Screening, identification and validation of CCND1 and PECAM1/CD31 for predicting prognosis in renal cell carcinoma patients. Aging (Albany NY) 2019 Dec 18;11(24):12057-12079. PMID: 31850854
  • Zhou Z, Ma J et al. Expression and Clinical Significance of Long-chain Noncoding RNA LINC00261 in Colon Cancer. Clin Lab 2019 Dec 1;65(12). PMID: 31850713
  • Chen L, Pan X, Zeng T, Zhang YH et al. Immunosignature Screening for Multiple Cancer Subtypes Based on Expression Rule. Front Bioeng Biotechnol 2019;7:370. PMID: 31850330
  • Qi M, Fan S, Wang Z, Yang X et al. Identifying Common Genes, Cell Types and Brain Regions Between Diseases of the Nervous System. Front Genet 2019;10:1202. PMID: 31850066
  • Meier K, Ehbrecht MD, Wittstock U et al. Glucosinolate Content in Dormant and Germinating Arabidopsis thaliana Seeds Is Affected by Non-Functional Alleles of Classical Myrosinase and Nitrile-Specifier Protein Genes. Front Plant Sci 2019;10:1549. PMID: 31850033
  • Borden ES, Kang P, Natri HM, Phung TN et al. Neoantigen Fitness Model Predicts Lower Immune Recognition of Cutaneous Squamous Cell Carcinomas Than Actinic Keratoses. Front Immunol 2019;10:2799. PMID: 31849976
  • Tanaka Y, Momose S, Tabayashi T, Sawada K et al. Abemaciclib, a CDK4/6 inhibitor, exerts preclinical activity against aggressive germinal center-derived B-cell lymphomas. Cancer Sci 2020 Feb;111(2):749-759. PMID: 31849147
  • Yu C, Chen J, Ma J, Zang L et al. Identification of Key Genes and Signaling Pathways Associated with the Progression of Gastric Cancer. Pathol Oncol Res 2020 Jul;26(3):1903-1919. PMID: 31848941
  • Tang F, Gao R, Jeevan-Raj B, Wyss CB et al. LATS1 but not LATS2 represses autophagy by a kinase-independent scaffold function. Nat Commun 2019 Dec 17;10(1):5755. PMID: 31848340
  • El Khoury LY, Gorrie-Stone T, Smart M, Hughes A et al. Systematic underestimation of the epigenetic clock and age acceleration in older subjects. Genome Biol 2019 Dec 17;20(1):283. PMID: 31847916
  • Demond H, Anvar Z, Jahromi BN, Sparago A et al. A KHDC3L mutation resulting in recurrent hydatidiform mole causes genome-wide DNA methylation loss in oocytes and persistent imprinting defects post-fertilisation. Genome Med 2019 Dec 17;11(1):84. PMID: 31847873
  • An L, Yang T, Yang J, Nuebler J et al. OnTAD: hierarchical domain structure reveals the divergence of activity among TADs and boundaries. Genome Biol 2019 Dec 18;20(1):282. PMID: 31847870
  • Gurung PD, Upadhyay AK, Bhardwaj PK, Sowdhamini R et al. Transcriptome analysis reveals plasticity in gene regulation due to environmental cues in Primula sikkimensis, a high altitude plant species. BMC Genomics 2019 Dec 17;20(1):989. PMID: 31847812
  • Hsieh IY, He J, Wang L, Lin B et al. H3K27me3 loss plays a vital role in CEMIP mediated carcinogenesis and progression of breast cancer with poor prognosis. Biomed Pharmacother 2020 Mar;123:109728. PMID: 31846842
  • Zhang L, Peng R, Sun Y, Wang J et al. Identification of key genes in non-small cell lung cancer by bioinformatics analysis. PeerJ 2019;7:e8215. PMID: 31844590
  • Sng LMF, Thomson PC, Trabzuni D et al. Genome-wide human brain eQTLs: In-depth analysis and insights using the UKBEC dataset. Sci Rep 2019 Dec 16;9(1):19201. PMID: 31844111
  • Lückel C, Picard F, Raifer H, Campos Carrascosa L et al. IL-17(+) CD8(+) T cell suppression by dimethyl fumarate associates with clinical response in multiple sclerosis. Nat Commun 2019 Dec 16;10(1):5722. PMID: 31844089
  • Mitchell KA, Nichols N, Tang W, Walling J et al. Recurrent PTPRT/JAK2 mutations in lung adenocarcinoma among African Americans. Nat Commun 2019 Dec 16;10(1):5735. PMID: 31844068
  • Malaria Genomic Epidemiology NetworkInsights into malaria susceptibility using genome-wide data on 17,000 individuals from Africa, Asia and Oceania. Nat Commun 2019 Dec 16;10(1):5732. PMID: 31844061
  • Shen S, Faouzi S, Bastide A, Martineau S et al. An epitranscriptomic mechanism underlies selective mRNA translation remodelling in melanoma persister cells. Nat Commun 2019 Dec 16;10(1):5713. PMID: 31844050
  • He R, Wang J, Ye K, Du J et al. Reduced miR-203 predicts metastasis and poor survival in esophageal carcinoma. Aging (Albany NY) 2019 Dec 16;11(24):12114-12130. PMID: 31844033
  • Noreen F, Küng T, Tornillo L, Parker H et al. DNA methylation instability by BRAF-mediated TET silencing and lifestyle-exposure divides colon cancer pathways. Clin Epigenetics 2019 Dec 16;11(1):196. PMID: 31842975
  • Zhang C, Bo C, Guo L, Yu P et al. BCL2 and hsa-miR-181a-5p are potential biomarkers associated with papillary thyroid cancer based on bioinformatics analysis. World J Surg Oncol 2019 Dec 16;17(1):221. PMID: 31842912
  • Zoni E, Minoli M, Bovet C, Wehrhan A et al. Preoperative plasma fatty acid metabolites inform risk of prostate cancer progression and may be used for personalized patient stratification. BMC Cancer 2019 Dec 16;19(1):1216. PMID: 31842810
  • Arakelyan A, Nersisyan L, Nikoghosyan M, Hakobyan S et al. Transcriptome-Guided Drug Repositioning. Pharmaceutics 2019 Dec 12;11(12). PMID: 31842375
  • Lareau CA, Ludwig LS, Sankaran VG et al. Longitudinal assessment of clonal mosaicism in human hematopoiesis via mitochondrial mutation tracking. Blood Adv 2019 Dec 23;3(24):4161-4165. PMID: 31841597
  • Cortez LM, Brown AL, Dennis MA, Collins CD et al. APOBEC3A is a prominent cytidine deaminase in breast cancer. PLoS Genet 2019 Dec;15(12):e1008545. PMID: 31841499
  • Laban KG, Rijken R, Hiddingh S, Mertens JS et al. cDC2 and plasmacytoid dendritic cells diminish from tissues of patients with non-Hodgkin orbital lymphoma and idiopathic orbital inflammation. Eur J Immunol 2020 Apr;50(4):548-557. PMID: 31841217
  • Abrahams L, Hurst LD et al. A Depletion of Stop Codons in lincRNA is Owing to Transfer of Selective Constraint from Coding Sequences. Mol Biol Evol 2020 Apr 1;37(4):1148-1164. PMID: 31841162
  • Yamaguchi N, Weinberg EM, Nguyen A, Liberti MV et al. PCK1 and DHODH drive colorectal cancer liver metastatic colonization and hypoxic growth by promoting nucleotide synthesis. Elife 2019 Dec 16;8. PMID: 31841108
  • Sunitha P, Raju R, Sajil CK, Abhinand CS et al. Temporal VEGFA responsive genes in HUVECs: Gene signatures and potential ligands/receptors fine-tuning angiogenesis. J Cell Commun Signal 2019 Dec;13(4):561-571. PMID: 31840205
  • Piccaluga PP, Navari M, Visani A, Rigotti F et al. Interferon gamma inducible protein 16 (IFI16) expression is reduced in mantle cell lymphoma. Heliyon 2019 Nov;5(11):e02643. PMID: 31840115
  • Agarwal D, Zhang NR et al. Semblance: An empirical similarity kernel on probability spaces. Sci Adv 2019 Dec;5(12):eaau9630. PMID: 31840051
  • Vidula N, Yau C, Wolf D, Rugo HS et al. Androgen receptor gene expression in primary breast cancer. NPJ Breast Cancer 2019;5:47. PMID: 31840050
  • Shi Z, Zhang Q, Yan H, Yang Y et al. More than one antibody of individual B cells revealed by single-cell immune profiling. Cell Discov 2019;5:64. PMID: 31839985
  • Wang J, Wu L, Jin Y, Li S et al. Identification of key miRNAs in papillary thyroid carcinoma based on data mining and bioinformatics methods. Biomed Rep 2020 Jan;12(1):11-16. PMID: 31839944
  • Li D, Zhong C, Cheng Y, Zhu N et al. A Competing Nomogram to Predict Survival Outcomes in Invasive Micropapillary Breast Cancer. J Cancer 2019;10(27):6801-6812. PMID: 31839814
  • Hsiao YT, Chang WA, Kuo MT, Lo J et al. Systematic Analysis of Transcriptomic Profile of the Effects of Low Dose Atropine Treatment on Scleral Fibroblasts using Next-Generation Sequencing and Bioinformatics. Int J Med Sci 2019;16(12):1652-1667. PMID: 31839753
  • Hu Y, Cheng L, Zhong W, Chen M et al. Bioinformatics Analysis of Gene Expression Profiles for Risk Prediction in Patients with Septic Shock. Med Sci Monit 2019 Dec 15;25:9563-9571. PMID: 31838482
  • Li D, Wang J, Zhang M, Hu X et al. LncRNA MAGI2-AS3 Is Regulated by BRD4 and Promotes Gastric Cancer Progression via Maintaining ZEB1 Overexpression by Sponging miR-141/200a. Mol Ther Nucleic Acids 2020 Mar 6;19:109-123. PMID: 31837602
  • Khattar E, Maung KZY, Chew CL, Ghosh A et al. Rap1 regulates hematopoietic stem cell survival and affects oncogenesis and response to chemotherapy. Nat Commun 2019 Dec 13;10(1):5349. PMID: 31836706
  • Xu F, Zhang H, Chen J, Lin L et al. Immune signature of T follicular helper cells predicts clinical prognostic and therapeutic impact in lung squamous cell carcinoma. Int Immunopharmacol 2020 Apr;81:105932. PMID: 31836430
  • Huang Y, McCarthy DJ, Stegle O et al. Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference. Genome Biol 2019 Dec 13;20(1):273. PMID: 31836005
  • Hodgson SH, Muller J, Lockstone HE, Hill AVS et al. Use of gene expression studies to investigate the human immunological response to malaria infection. Malar J 2019 Dec 13;18(1):418. PMID: 31835999
  • Hamzeh O, Alkhateeb A, Zheng JZ, Kandalam S et al. A Hierarchical Machine Learning Model to Discover Gleason Grade-Specific Biomarkers in Prostate Cancer. Diagnostics (Basel) 2019 Dec 11;9(4). PMID: 31835700
  • Li D, Zhang L, Liu Y, Sun H et al. Specific DNA methylation markers in the diagnosis and prognosis of esophageal cancer. Aging (Albany NY) 2019 Dec 13;11(23):11640-11658. PMID: 31834866
  • Zhou Y, Zhang D, Liu B, Hu D et al. Bioinformatic identification of key genes and molecular pathways in the spermatogenic process of cryptorchidism. Genes Dis 2019 Dec;6(4):431-440. PMID: 31832523
  • Wang Y, Cheng T, Lu M, Mu Y et al. TMT-based quantitative proteomics revealed follicle-stimulating hormone (FSH)-related molecular characterizations for potentially prognostic assessment and personalized treatment of FSH-positive non-functional pituitary adenomas. EPMA J 2019 Dec;10(4):395-414. PMID: 31832114
  • Rougeot J, Torraca V, Zakrzewska A, Kanwal Z et al. Corrigendum: RNAseq Profiling of Leukocyte Populations in Zebrafish Larvae Reveals a cxcl11 Chemokine Gene as a Marker of Macrophage Polarization During Mycobacterial Infection. Front Immunol 2019;10:2720. PMID: 31832066
  • Xiao F, Dai Y, Hu Y, Lu M et al. Expression profile analysis identifies IER3 to predict overall survival and promote lymph node metastasis in tongue cancer. Cancer Cell Int 2019;19:307. PMID: 31832020
  • Koshimizu S, Nakamura Y, Nishitani C, Kobayashi M et al. TRANSNAP: a web database providing comprehensive information on Japanese pear transcriptome. Sci Rep 2019 Dec 12;9(1):18922. PMID: 31831861
  • Peña-Chilet M, Esteban-Medina M, Falco MM, Rian K et al. Using mechanistic models for the clinical interpretation of complex genomic variation. Sci Rep 2019 Dec 12;9(1):18937. PMID: 31831811
  • Iwasaki O, Tanizawa H, Kim KD, Kossenkov A et al. Involvement of condensin in cellular senescence through gene regulation and compartmental reorganization. Nat Commun 2019 Dec 12;10(1):5688. PMID: 31831736
  • Li F, Yang W, Jiang H, Guo C et al. TRPV1 activity and substance P release are required for corneal cold nociception. Nat Commun 2019 Dec 12;10(1):5678. PMID: 31831729
  • Llères D, Moindrot B, Pathak R, Piras V et al. CTCF modulates allele-specific sub-TAD organization and imprinted gene activity at the mouse Dlk1-Dio3 and Igf2-H19 domains. Genome Biol 2019 Dec 12;20(1):272. PMID: 31831055
  • Qin C, He X, Zhao Y, Tong CY et al. Systematic computational identification of prognostic cytogenetic markers in neuroblastoma. BMC Med Genomics 2019 Dec 12;12(1):192. PMID: 31831008
  • Xiang L, Yin Y, Zheng Y, Ma Y et al. A developmental landscape of 3D-cultured human pre-gastrulation embryos. Nature 2020 Jan;577(7791):537-542. PMID: 31830756
  • Pique-Regi R, Romero R, Tarca AL, Sendler ED et al. Single cell transcriptional signatures of the human placenta in term and preterm parturition. Elife 2019 Dec 12;8. PMID: 31829938
  • Alquicira-Hernandez J, Sathe A, Ji HP, Nguyen Q et al. scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data. Genome Biol 2019 Dec 12;20(1):264. PMID: 31829268
  • Aprato J, Sock E, Weider M, Elsesser O et al. Myrf guides target gene selection of transcription factor Sox10 during oligodendroglial development. Nucleic Acids Res 2020 Feb 20;48(3):1254-1270. PMID: 31828317
  • Shi Y, Wei J, Chen Z, Yuan Y et al. Integrative Analysis Reveals Comprehensive Altered Metabolic Genes Linking with Tumor Epigenetics Modification in Pan-Cancer. Biomed Res Int 2019;2019:6706354. PMID: 31828117
  • Rock LD, Minatel BC, Marshall EA, Guisier F et al. Expanding the Transcriptome of Head and Neck Squamous Cell Carcinoma Through Novel MicroRNA Discovery. Front Oncol 2019;9:1305. PMID: 31828039
  • Lu J, Zhang Y, Dong X, Lu J et al. Association between MIC-1 and Type 2 Diabetes: A Combined Analysis. Dis Markers 2019;2019:7284691. PMID: 31827641
  • Li X, Yang Z, Xu S, Wang Z et al. Targeting INHBA in Ovarian Cancer Cells Suppresses Cancer Xenograft Growth by Attenuating Stromal Fibroblast Activation. Dis Markers 2019;2019:7275289. PMID: 31827640
  • Mosquera Orgueira A, Antelo Rodríguez B, Díaz Arias JÁ, Díaz Varela N et al. A Three-Gene Expression Signature Identifies a Cluster of Patients with Short Survival in Chronic Lymphocytic Leukemia. J Oncol 2019;2019:9453539. PMID: 31827514
  • Declerck K, Vanden Berghe W et al. Characterization of Blood Surrogate Immune-Methylation Biomarkers for Immune Cell Infiltration in Chronic Inflammaging Disorders. Front Genet 2019;10:1229. PMID: 31827492
  • Wang X, Zeng Y, Zhou M, Zhang X et al. SKA1 promotes malignant phenotype and progression of glioma via multiple signaling pathways. Cancer Cell Int 2019;19:324. PMID: 31827398
  • Jeyakumar T, Fodil N, Van Der Kraak L, Meunier C et al. Inactivation of Interferon Regulatory Factor 1 Causes Susceptibility to Colitis-Associated Colorectal Cancer. Sci Rep 2019 Dec 11;9(1):18897. PMID: 31827213
  • Glaich O, Parikh S, Bell RE, Mekahel K et al. DNA methylation directs microRNA biogenesis in mammalian cells. Nat Commun 2019 Dec 11;10(1):5657. PMID: 31827083
  • Nagel S, Scherr M, MacLeod RAF, Pommerenke C et al. NKL homeobox gene activities in normal and malignant myeloid cells. PLoS One 2019;14(12):e0226212. PMID: 31825998
  • Vasighizaker A, Sharma A, Dehzangi A et al. A novel one-class classification approach to accurately predict disease-gene association in acute myeloid leukemia cancer. PLoS One 2019;14(12):e0226115. PMID: 31825992
  • Vijayaraj P, Minasyan A, Durra A, Karumbayaram S et al. Modeling Progressive Fibrosis with Pluripotent Stem Cells Identifies an Anti-fibrotic Small Molecule. Cell Rep 2019 Dec 10;29(11):3488-3505.e9. PMID: 31825831
  • Li J, Xie Y, Wang X, Jiang C et al. Overexpression of VEGF-C and MMP-9 predicts poor prognosis in Kazakh patients with esophageal squamous cell carcinoma. PeerJ 2019;7:e8182. PMID: 31824776
  • Yao Y, Gu Y, Yang M, Cao D et al. The Gene Expression Biomarkers for Chronic Obstructive Pulmonary Disease and Interstitial Lung Disease. Front Genet 2019;10:1154. PMID: 31824564
  • Wang H, Deng Q, Lv Z, Ling Y et al. N6-methyladenosine induced miR-143-3p promotes the brain metastasis of lung cancer via regulation of VASH1. Mol Cancer 2019 Dec 10;18(1):181. PMID: 31823788
  • Gür B, Sporar K, Lopez-Behling A, Silies M et al. Distinct expression of potassium channels regulates visual response properties of lamina neurons in Drosophila melanogaster. J Comp Physiol A Neuroethol Sens Neural Behav Physiol 2020 Mar;206(2):273-287. PMID: 31823004
  • Saraç H, Morova T, Pires E, McCullagh J et al. Systematic characterization of chromatin modifying enzymes identifies KDM3B as a critical regulator in castration resistant prostate cancer. Oncogene 2020 Mar;39(10):2187-2201. PMID: 31822799
  • Schmid V, Lafleur VN, Lombardi O, Li R et al. Co-incidence of RCC-susceptibility polymorphisms with HIF cis-acting sequences supports a pathway tuning model of cancer. Sci Rep 2019 Dec 10;9(1):18768. PMID: 31822727
  • Zhao Z, Kurimchak A, Nikonova AS, Feiser F et al. PPP2R2A prostate cancer haploinsufficiency is associated with worse prognosis and a high vulnerability to B55α/PP2A reconstitution that triggers centrosome destabilization. Oncogenesis 2019 Dec 10;8(12):72. PMID: 31822657
  • Yao Z, Xu R, Yuan L, Xu M et al. Circ_0001955 facilitates hepatocellular carcinoma (HCC) tumorigenesis by sponging miR-516a-5p to release TRAF6 and MAPK11. Cell Death Dis 2019 Dec 10;10(12):945. PMID: 31822654
  • Wang Z, López-Giráldez F, Wang J, Trail F et al. Integrative Activity of Mating Loci, Environmentally Responsive Genes, and Secondary Metabolism Pathways during Sexual Development of Chaetomium globosum. mBio 2019 Dec 10;10(6). PMID: 31822585
  • Hagihara H, Horikawa T, Irino Y, Nakamura HK et al. Peripheral blood metabolome predicts mood change-related activity in mouse model of bipolar disorder. Mol Brain 2019 Dec 10;12(1):107. PMID: 31822292
  • Khodayari Moez E, Hajihosseini M, Andrews JL, Dinu I et al. Longitudinal linear combination test for gene set analysis. BMC Bioinformatics 2019 Dec 10;20(1):650. PMID: 31822265
  • Zhou Z, Li Y, Hao H, Wang Y et al. Screening Hub Genes as Prognostic Biomarkers of Hepatocellular Carcinoma by Bioinformatics Analysis. Cell Transplant 2019 Dec;28(1_suppl):76S-86S. PMID: 31822116
  • Zhang Q, Xing Y, Jiang S, Xu C et al. Integrated analysis identifies DUSP5 as a novel prognostic indicator for thyroid follicular carcinoma. Thorac Cancer 2020 Feb;11(2):336-345. PMID: 31821724
  • Huang P, Guo YD, Zhang HW et al. Identification of Hub Genes in Pediatric Medulloblastoma by Multiple-Microarray Analysis. J Mol Neurosci 2020 Apr;70(4):522-531. PMID: 31820345
  • Huang T, Wang Y, Wang Z, Cui Y et al. Weighted Gene Co-Expression Network Analysis Identified Cancer Cell Proliferation as a Common Phenomenon During Perineural Invasion. Onco Targets Ther 2019;12:10361-10374. PMID: 31819519
  • Gao L, Xiong DD, He RQ, Yang X et al. MIR22HG As A Tumor Suppressive lncRNA In HCC: A Comprehensive Analysis Integrating RT-qPCR, mRNA-Seq, And Microarrays. Onco Targets Ther 2019;12:9827-9848. PMID: 31819482
  • Blum M, Cholley PE, Malysheva V, Nicaise S et al. A comprehensive resource for retrieving, visualizing, and integrating functional genomics data. Life Sci Alliance 2020 Jan;3(1). PMID: 31818883
  • Winter J, Hammer E, Heger J, Schultheiss HP et al. Adenine Nucleotide Translocase 1 Expression is Coupled to the HSP27-Mediated TLR4 Signaling in Cardiomyocytes. Cells 2019 Dec 6;8(12). PMID: 31817787
  • Ahmad S, Singh P, Sharma A, Arora S et al. Transcriptome Meta-Analysis Deciphers a Dysregulation in Immune Response-Associated Gene Signatures during Sepsis. Genes (Basel) 2019 Dec 4;10(12). PMID: 31817302
  • Knipper JA, Ivens A, Taylor MD et al. Helminth-induced Th2 cell dysfunction is distinct from exhaustion and is maintained in the absence of antigen. PLoS Negl Trop Dis 2019 Dec;13(12):e0007908. PMID: 31815932
  • Peng L, Guo JC, Long L, Pan F et al. A Novel Clinical Six-Flavoprotein-Gene Signature Predicts Prognosis in Esophageal Squamous Cell Carcinoma. Biomed Res Int 2019;2019:3869825. PMID: 31815134
  • Xie B, Bai B, Xu Y, Liu Y et al. Tumor-suppressive function and mechanism of HOXB13 in right-sided colon cancer. Signal Transduct Target Ther 2019;4:51. PMID: 31815008
  • Wang F, Chen X, Yu X, Lin Q et al. Degradation of CCNB1 mediated by APC11 through UBA52 ubiquitination promotes cell cycle progression and proliferation of non-small cell lung cancer cells. Am J Transl Res 2019;11(11):7166-7185. PMID: 31814919
  • Yang Y, Sui Y, Xie B, Qu H et al. GliomaDB: A Web Server for Integrating Glioma Omics Data and Interactive Analysis. Genomics Proteomics Bioinformatics 2019 Aug;17(4):465-471. PMID: 31811943
  • Janssen WJ, Danhorn T, Harris C, Mould KJ et al. Inflammation-Induced Alternative Pre-mRNA Splicing in Mouse Alveolar Macrophages. G3 (Bethesda) 2020 Feb 6;10(2):555-567. PMID: 31810980
  • Bashkeel N, Perkins TJ, Kærn M, Lee JM et al. Human gene expression variability and its dependence on methylation and aging. BMC Genomics 2019 Dec 7;20(1):941. PMID: 31810449
  • Mansier O, Prouzet-Mauléon V, Jégou G, Barroso K et al. The Expression of Myeloproliferative Neoplasm-Associated Calreticulin Variants Depends on the Functionality of ER-Associated Degradation. Cancers (Basel) 2019 Dec 2;11(12). PMID: 31810292
  • Noori E, Kazemi B, Bandehpour M, Zali H et al. Deciphering crucial genes in coeliac disease by bioinformatics analysis. Autoimmunity 2020 Mar;53(2):102-113. PMID: 31809599
  • Tang X, Shu Z, Zhang W, Cheng L et al. Clinical significance of the immune cell landscape in hepatocellular carcinoma patients with different degrees of fibrosis. Ann Transl Med 2019 Oct;7(20):528. PMID: 31807510
  • McCool KW, Freeman ZT, Zhai Y, Wu R et al. Murine Oviductal High-Grade Serous Carcinomas Mirror the Genomic Alterations, Gene Expression Profiles, and Immune Microenvironment of Their Human Counterparts. Cancer Res 2020 Feb 15;80(4):877-889. PMID: 31806642
  • Eaton JD, Francis L, Davidson L, West S et al. A unified allosteric/torpedo mechanism for transcriptional termination on human protein-coding genes. Genes Dev 2020 Jan 1;34(1-2):132-145. PMID: 31805520
  • Chen KC, Chen PH, Ho KH, Shih CM et al. IGF-1-enhanced miR-513a-5p signaling desensitizes glioma cells to temozolomide by targeting the NEDD4L-inhibited Wnt/β-catenin pathway. PLoS One 2019;14(12):e0225913. PMID: 31805126
  • Wang L, Zheng Z, Feng X, Zang X et al. circRNA/lncRNA-miRNA-mRNA Network in Oxidized, Low-Density, Lipoprotein-Induced Foam Cells. DNA Cell Biol 2019 Dec;38(12):1499-1511. PMID: 31804889
  • Ghandhi SA, Shuryak I, Morton SR, Amundson SA et al. New Approaches for Quantitative Reconstruction of Radiation Dose in Human Blood Cells. Sci Rep 2019 Dec 5;9(1):18441. PMID: 31804590
  • Sharma A, Osato N, Liu H, Asthana S et al. Common genetic variants associated with Parkinson's disease display widespread signature of epigenetic plasticity. Sci Rep 2019 Dec 5;9(1):18464. PMID: 31804560
  • Hou Y, Wang Z, Huang S, Sun C et al. SKA3 Promotes tumor growth by regulating CDK2/P53 phosphorylation in hepatocellular carcinoma. Cell Death Dis 2019 Dec 5;10(12):929. PMID: 31804459
  • Pan X, Zeng T, Yuan F, Zhang YH et al. Screening of Methylation Signature and Gene Functions Associated With the Subtypes of Isocitrate Dehydrogenase-Mutation Gliomas. Front Bioeng Biotechnol 2019;7:339. PMID: 31803734
  • Bao B, Zheng C, Yang B, Jin Y et al. Identification of Subtype-Specific Three-Gene Signature for Prognostic Prediction in Diffuse Type Gastric Cancer. Front Oncol 2019;9:1243. PMID: 31803620
  • Le YScreening and identification of key candidate genes and pathways in myelodysplastic syndrome by bioinformatic analysis. PeerJ 2019;7:e8162. PMID: 31803541
  • Yue C, Ma H, Zhou Y et al. Identification of prognostic gene signature associated with microenvironment of lung adenocarcinoma. PeerJ 2019;7:e8128. PMID: 31803536
  • Ermakov A, Bobrovskikh A, Zubairova U, Konstantinov D et al. Stress-induced changes in the expression of antioxidant system genes for rice (Oryza sativa L.) and bread wheat (Triticum aestivum L.). PeerJ 2019;7:e7791. PMID: 31803533
  • Tao L, Yang L, Huang X, Hua F et al. Reconstruction and Analysis of the lncRNA-miRNA-mRNA Network Based on Competitive Endogenous RNA Reveal Functional lncRNAs in Dilated Cardiomyopathy. Front Genet 2019;10:1149. PMID: 31803236
  • Wu M, Yuan H, Li X, Liao Q et al. Identification of a Five-Gene Signature and Establishment of a Prognostic Nomogram to Predict Progression-Free Interval of Papillary Thyroid Carcinoma. Front Endocrinol (Lausanne) 2019;10:790. PMID: 31803141
  • Mehmood A, Laiho A, Venäläinen MS, McGlinchey AJ et al. Systematic evaluation of differential splicing tools for RNA-seq studies. Brief Bioinform 2020 Dec 1;21(6):2052-2065. PMID: 31802105
  • Guo C, Li Z et al. Bioinformatics Analysis of Key Genes and Pathways Associated with Thrombosis in Essential Thrombocythemia. Med Sci Monit 2019 Dec 5;25:9262-9271. PMID: 31801935
  • Deutschmeyer V, Breuer J, Walesch SK, Sokol AM et al. Epigenetic therapy of novel tumour suppressor ZAR1 and its cancer biomarker function. Clin Epigenetics 2019 Dec 4;11(1):182. PMID: 31801617
  • Chen Y, Zhou ZF, Wang Y et al. Prediction and analysis of weighted genes in isoflurane induced general anesthesia based on network analysis. Int J Neurosci 2020 Jun;130(6):610-620. PMID: 31801399
  • Magen A, Nie J, Ciucci T, Tamoutounour S et al. Single-Cell Profiling Defines Transcriptomic Signatures Specific to Tumor-Reactive versus Virus-Responsive CD4(+) T Cells. Cell Rep 2019 Dec 3;29(10):3019-3032.e6. PMID: 31801070
  • Yim A, Koti P, Bonnard A, Marchiano F et al. mitoXplorer, a visual data mining platform to systematically analyze and visualize mitochondrial expression dynamics and mutations. Nucleic Acids Res 2020 Jan 24;48(2):605-632. PMID: 31799603
  • Zhao Y, Zhao B, Wang X, Guan G et al. Macrophage transcriptome modification induced by hypoxia and lactate. Exp Ther Med 2019 Dec;18(6):4811-4819. PMID: 31798707
  • Yao Q, Song Z, Wang B, Qin Q et al. Identifying Key Genes and Functionally Enriched Pathways in Sjögren's Syndrome by Weighted Gene Co-Expression Network Analysis. Front Genet 2019;10:1142. PMID: 31798636
  • Pandey R, Zhou M, Islam S, Chen B et al. Carcinoembryonic antigen cell adhesion molecule 6 (CEACAM6) in Pancreatic Ductal Adenocarcinoma (PDA): An integrative analysis of a novel therapeutic target. Sci Rep 2019 Dec 4;9(1):18347. PMID: 31797958
  • Miao L, Yin RX, Zhang QH, Liao PJ et al. A novel circRNA-miRNA-mRNA network identifies circ-YOD1 as a biomarker for coronary artery disease. Sci Rep 2019 Dec 4;9(1):18314. PMID: 31797949
  • Sastry AV, Gao Y, Szubin R, Hefner Y et al. The Escherichia coli transcriptome mostly consists of independently regulated modules. Nat Commun 2019 Dec 4;10(1):5536. PMID: 31797920
  • Che X, Zhao R, Xu H, Liu X et al. Differently Expressed Genes (DEGs) Relevant to Type 2 Diabetes Mellitus Identification and Pathway Analysis via Integrated Bioinformatics Analysis. Med Sci Monit 2019 Dec 4;25:9237-9244. PMID: 31797865
  • Schaafsma E, Yuan Y, Zhao Y, Cheng C et al. Computational STAT3 activity inference reveals its roles in the pancreatic tumor microenvironment. Sci Rep 2019 Dec 3;9(1):18257. PMID: 31796877
  • de Araujo LS, Ribeiro-Alves M, Leal-Calvo T, Leung J et al. Reprogramming of Small Noncoding RNA Populations in Peripheral Blood Reveals Host Biomarkers for Latent and Active Mycobacterium tuberculosis Infection. mBio 2019 Dec 3;10(6). PMID: 31796535
  • Weber S, Koschade SE, Hoffmann CM, Dubash TD et al. The notch target gene HEYL modulates metastasis forming capacity of colorectal cancer patient-derived spheroid cells in vivo. BMC Cancer 2019 Dec 3;19(1):1181. PMID: 31796022
  • Smolander J, Stupnikov A, Glazko G, Dehmer M et al. Comparing biological information contained in mRNA and non-coding RNAs for classification of lung cancer patients. BMC Cancer 2019 Dec 3;19(1):1176. PMID: 31796020
  • Chhatriya B, Mukherjee M, Ray S, Sarkar P et al. Comparison of tumour and serum specific microRNA changes dissecting their role in pancreatic ductal adenocarcinoma: a meta-analysis. BMC Cancer 2019 Dec 3;19(1):1175. PMID: 31795960
  • Okada R, Koshizuka K, Yamada Y, Moriya S et al. Regulation of Oncogenic Targets by miR-99a-3p (Passenger Strand of miR-99a-Duplex) in Head and Neck Squamous Cell Carcinoma. Cells 2019 Nov 28;8(12). PMID: 31795200
  • Chujan S, Suriyo T, Satayavivad J et al. Integrative In Silico and In Vitro Transcriptomics Analysis Revealed Gene Expression Changes and Oncogenic Features of Normal Cholangiocytes after Chronic Alcohol Exposure. Int J Mol Sci 2019 Nov 28;20(23). PMID: 31795085
  • Xu Z, Jiang P, He S et al. Identification for Exploring Underlying Pathogenesis and Therapy Strategy of Oral Squamous Cell Carcinoma by Bioinformatics Analysis. Med Sci Monit 2019 Dec 3;25:9216-9226. PMID: 31794546
  • Hall BS, Barnett YA, Crofts JJ, Chuzhanova N et al. Identification of novel genes associated with longevity in Drosophila melanogaster - a computational approach. Aging (Albany NY) 2019 Dec 3;11(23):11244-11267. PMID: 31794428
  • Germann M, Zangger N, Sauvain MO, Sempoux C et al. Neutrophils suppress tumor-infiltrating T cells in colon cancer via matrix metalloproteinase-mediated activation of TGFβ. EMBO Mol Med 2020 Jan 9;12(1):e10681. PMID: 31793740
  • Yu Y, Li Z, Huang C, Fang H et al. Integrated analysis of genomic and transcriptomic profiles identified a prognostic immunohistochemistry panel for esophageal squamous cell cancer. Cancer Med 2020 Jan;9(2):575-585. PMID: 31793228
  • Abdulkina LR, Kobayashi C, Lovell JT, Chastukhina IB et al. Components of the ribosome biogenesis pathway underlie establishment of telomere length set point in Arabidopsis. Nat Commun 2019 Dec 2;10(1):5479. PMID: 31792215
  • Li Q, Liu B, Chao HP, Ji Y et al. LRIG1 is a pleiotropic androgen receptor-regulated feedback tumor suppressor in prostate cancer. Nat Commun 2019 Dec 2;10(1):5494. PMID: 31792211
  • Zhang N, Meng Y, Li X, Zhou Y et al. Metabolite-mediated TOR signaling regulates the circadian clock in Arabidopsis. Proc Natl Acad Sci U S A 2019 Dec 17;116(51):25395-25397. PMID: 31792194
  • Batista RA, Moreno-Romero J, Qiu Y, van Boven J et al. The MADS-box transcription factor PHERES1 controls imprinting in the endosperm by binding to domesticated transposons. Elife 2019 Dec 2;8. PMID: 31789592
  • Wang F, Li Z, Wang G, Tian X et al. Integrated transcriptomic and epigenetic data analysis identifiesaberrant expression of genes in acute myeloid leukemia with MLL‑AF9 translocation. Mol Med Rep 2020 Feb;21(2):883-893. PMID: 31789407
  • Chen Z, Lin Y, Gao J, Lin S et al. Identification of key candidate genes for colorectal cancer by bioinformatics analysis. Oncol Lett 2019 Dec;18(6):6583-6593. PMID: 31788116
  • Luo X, Xu S, Zhong Y, Tu T et al. High gene expression levels of VEGFA and CXCL8 in the peritumoral brain zone are associated with the recurrence of glioblastoma: A bioinformatics analysis. Oncol Lett 2019 Dec;18(6):6171-6179. PMID: 31788092
  • Wang W, Mu S, Zhao Q, Xue L et al. Identification of differentially expressed microRNAs and the potential of microRNA-455-3p as a novel prognostic biomarker in glioma. Oncol Lett 2019 Dec;18(6):6150-6156. PMID: 31788089
  • Yang B, Dai JX, Pan YB, Ma YB et al. Identification of biomarkers and construction of a microRNA-mRNA regulatory network for ependymoma using integrated bioinformatics analysis. Oncol Lett 2019 Dec;18(6):6079-6089. PMID: 31788082
  • Xue J, Gao HX, Sang W, Cui WL et al. Identification of core differentially methylated genes in glioma. Oncol Lett 2019 Dec;18(6):6033-6045. PMID: 31788078
  • Liu Z, Zhao X, Zhang L, Pei B et al. Cytochrome C inhibits tumor growth and predicts favorable prognosis in clear cell renal cell carcinoma. Oncol Lett 2019 Dec;18(6):6026-6032. PMID: 31788077
  • Yi Y, Liu Y, Wu K, Wu W et al. The core genes involved in the promotion of depression in patients with ovarian cancer. Oncol Lett 2019 Dec;18(6):5995-6007. PMID: 31788074
  • Zhong P, Liu L, Shen A, Chen Z et al. Five extracellular matrix-associated genes upregulated in oral tongue squamous cell carcinoma: An integrated bioinformatics analysis. Oncol Lett 2019 Dec;18(6):5959-5967. PMID: 31788070
  • Zou H, Liao M, Xu W, Yao R et al. Data mining of the expression and regulatory role of BCAT1 in hepatocellular carcinoma. Oncol Lett 2019 Dec;18(6):5879-5888. PMID: 31788061
  • Bai J, Zhang X, Kang X, Jin L et al. Screening of core genes and pathways in breast cancer development via comprehensive analysis of multi gene expression datasets. Oncol Lett 2019 Dec;18(6):5821-5830. PMID: 31788055
  • Rogers LRK, de Los Campos G, Mias GI et al. Microarray Gene Expression Dataset Re-analysis Reveals Variability in Influenza Infection and Vaccination. Front Immunol 2019;10:2616. PMID: 31787983
  • Skupsky J, Sabui S, Hwang M, Nakasaki M et al. Biotin Supplementation Ameliorates Murine Colitis by Preventing NF-κB Activation. Cell Mol Gastroenterol Hepatol 2020;9(4):557-567. PMID: 31786364
  • Čančer M, Hutter S, Holmberg KO, Rosén G et al. Humanized Stem Cell Models of Pediatric Medulloblastoma Reveal an Oct4/mTOR Axis that Promotes Malignancy. Cell Stem Cell 2019 Dec 5;25(6):855-870.e11. PMID: 31786016
  • Sarfraz I, Asif M, Hijazi K et al. MiCA: An extended tool for microarray gene expression analysis. Comput Biol Med 2020 Jan;116:103561. PMID: 31785415
  • Zhang R, Gao X, Zuo J, Hu B et al. STMN1 upregulation mediates hepatocellular carcinoma and hepatic stellate cell crosstalk to aggravate cancer by triggering the MET pathway. Cancer Sci 2020 Feb;111(2):406-417. PMID: 31785057
  • Fang K, Hu C, Zhang X, Hou Y et al. LncRNA ST8SIA6-AS1 promotes proliferation, migration and invasion in breast cancer through the p38 MAPK signalling pathway. Carcinogenesis 2020 Sep 24;41(9):1273-1281. PMID: 31784750
  • Lemaire S, Fontrodona N, Aubé F, Claude JB et al. Characterizing the interplay between gene nucleotide composition bias and splicing. Genome Biol 2019 Nov 29;20(1):259. PMID: 31783898
  • Hicks SC, Irizarry RA et al. methylCC: technology-independent estimation of cell type composition using differentially methylated regions. Genome Biol 2019 Nov 29;20(1):261. PMID: 31783894
  • Drucker E, Holzer K, Pusch S, Winkler J et al. Karyopherin α2-dependent import of E2F1 and TFDP1 maintains protumorigenic stathmin expression in liver cancer. Cell Commun Signal 2019 Nov 29;17(1):159. PMID: 31783876
  • Kim IV, Ross EJ, Dietrich S, Döring K et al. Efficient depletion of ribosomal RNA for RNA sequencing in planarians. BMC Genomics 2019 Nov 29;20(1):909. PMID: 31783730
  • Prigigallo MI, Križnik M, Paola D, Catalano D et al. Potato Virus Y Infection Alters Small RNA Metabolism and Immune Response in Tomato. Viruses 2019 Nov 27;11(12). PMID: 31783643
  • Fu R, Yu D, Ren J, Li C et al. Domesticated cynomolgus monkey embryonic stem cells allow the generation of neonatal interspecies chimeric pigs. Protein Cell 2020 Feb;11(2):97-107. PMID: 31781970
  • Zhong Y, Zhu Y, Dong J, Zhou W et al. Identification of Key Transcription Factors AP-1 and AP-1-Dependent miRNAs Forming a Co-Regulatory Network Controlling PTEN in Liver Ischemia/Reperfusion Injury. Biomed Res Int 2019;2019:8962682. PMID: 31781649
  • Jeon J, Park JS, Min B, Chung SK et al. Retroelement Insertion in a CRISPR/Cas9 Editing Site in the Early Embryo Intensifies Genetic Mosaicism. Front Cell Dev Biol 2019;7:273. PMID: 31781562
  • Song W, Fu T et al. Circular RNA-Associated Competing Endogenous RNA Network and Prognostic Nomogram for Patients With Colorectal Cancer. Front Oncol 2019;9:1181. PMID: 31781492
  • Guo ZW, Meng Y, Zhai XM, Xie C et al. Translated Long Non-Coding Ribonucleic Acid ZFAS1 Promotes Cancer Cell Migration by Elevating Reactive Oxygen Species Production in Hepatocellular Carcinoma. Front Genet 2019;10:1111. PMID: 31781169
  • Shi C, Xie LY, Tang YP, Long L et al. Hypermethylation of N-Acetyltransferase 1 Is a Prognostic Biomarker in Colon Adenocarcinoma. Front Genet 2019;10:1097. PMID: 31781164
  • Fukutani ER, Ramos PIP, Kasprzykowski JI, Azevedo LG et al. Meta-Analysis of HTLV-1-Infected Patients Identifies CD40LG and GBP2 as Markers of ATLL and HAM/TSP Clinical Status: Two Genes Beat as One. Front Genet 2019;10:1056. PMID: 31781157
  • Aljaibeji H, Mukhopadhyay D, Mohammed AK, Dhaiban S et al. Reduced Expression of PLCXD3 Associates With Disruption of Glucose Sensing and Insulin Signaling in Pancreatic β-Cells. Front Endocrinol (Lausanne) 2019;10:735. PMID: 31781030
  • Filippova JA, Matveeva AM, Zhuravlev ES, Balakhonova EA et al. Are Small Nucleolar RNAs "CRISPRable"? A Report on Box C/D Small Nucleolar RNA Editing in Human Cells. Front Pharmacol 2019;10:1246. PMID: 31780925
  • Enfield KSS, Marshall EA, Anderson C, Ng KW et al. Epithelial tumor suppressor ELF3 is a lineage-specific amplified oncogene in lung adenocarcinoma. Nat Commun 2019 Nov 28;10(1):5438. PMID: 31780666
  • Trigg RM, Lee LC, Prokoph N, Jahangiri L et al. The targetable kinase PIM1 drives ALK inhibitor resistance in high-risk neuroblastoma independent of MYCN status. Nat Commun 2019 Nov 28;10(1):5428. PMID: 31780656
  • Grau M, Lenz G, Lenz P et al. Dissection of gene expression datasets into clinically relevant interaction signatures via high-dimensional correlation maximization. Nat Commun 2019 Nov 28;10(1):5417. PMID: 31780653
  • Ho CH, Chang CM, Li HY, Shen HY et al. Dysregulated immunological and metabolic functions discovered by a polygenic integrative analysis for PCOS. Reprod Biomed Online 2020 Jan;40(1):160-167. PMID: 31780352
  • Lorenz DR, Misra V, Gabuzda D et al. Transcriptomic analysis of monocytes from HIV-positive men on antiretroviral therapy reveals effects of tobacco smoking on interferon and stress response systems associated with depressive symptoms. Hum Genomics 2019 Nov 28;13(1):59. PMID: 31779701
  • Gorkin DU, Qiu Y, Hu M, Fletez-Brant K et al. Common DNA sequence variation influences 3-dimensional conformation of the human genome. Genome Biol 2019 Nov 28;20(1):255. PMID: 31779666
  • Luo C, Lei M, Zhang Y, Zhang Q et al. Systematic construction and validation of an immune prognostic model for lung adenocarcinoma. J Cell Mol Med 2020 Jan;24(2):1233-1244. PMID: 31779055
  • Dart DA, Ashelford K, Jiang WG et al. AR mRNA stability is increased with AR-antagonist resistance via 3'UTR variants. Endocr Connect 2020 Jan;9(1):9-19. PMID: 31778359
  • Sha QQ, Zhu YZ, Li S, Jiang Y et al. Characterization of zygotic genome activation-dependent maternal mRNA clearance in mouse. Nucleic Acids Res 2020 Jan 24;48(2):879-894. PMID: 31777931
  • Wang J, Zhao H, Dong H, Zhu L et al. LAT, HOXD3 and NFE2L3 identified as novel DNA methylation-driven genes and prognostic markers in human clear cell renal cell carcinoma by integrative bioinformatics approaches. J Cancer 2019;10(26):6726-6737. PMID: 31777602
  • Qi L, Zhou B, Chen J, Hu W et al. Significant prognostic values of differentially expressed-aberrantly methylated hub genes in breast cancer. J Cancer 2019;10(26):6618-6634. PMID: 31777591
  • Yang L, Wang L, Yang Z, Jin H et al. Up-regulation of EMT-related gene VCAN by NPM1 mutant-driven TGF-β/cPML signalling promotes leukemia cell invasion. J Cancer 2019;10(26):6570-6583. PMID: 31777586
  • Wang Y, Dai G, Li L, Liu L et al. Transcriptome signatures reveal candidate key genes in the whole blood of patients with lumbar disc prolapse. Exp Ther Med 2019 Dec;18(6):4591-4602. PMID: 31777557
  • Wu J, Niu Q, Yuan J, Xu X et al. Novel compound cedrelone inhibits hepatocellular carcinoma progression via PBLD and Ras/Rap1. Exp Ther Med 2019 Dec;18(6):4209-4220. PMID: 31777531
  • Liu S, Liu G, Cheng P, Xue C et al. Genome-wide Profiling of Histone Lysine Butyrylation Reveals its Role in the Positive Regulation of Gene Transcription in Rice. Rice (N Y) 2019 Nov 27;12(1):86. PMID: 31776817
  • Zhang H, Emerson DJ, Gilgenast TG, Titus KR et al. Chromatin structure dynamics during the mitosis-to-G1 phase transition. Nature 2019 Dec;576(7785):158-162. PMID: 31776509
  • Li JH, Zhu XX, Li FX, Huang CS et al. MFAP5 facilitates the aggressiveness of intrahepatic Cholangiocarcinoma by activating the Notch1 signaling pathway. J Exp Clin Cancer Res 2019 Nov 27;38(1):476. PMID: 31775892
  • Wu TI, Huang RL, Su PH, Mao SP et al. Ovarian cancer detection by DNA methylation in cervical scrapings. Clin Epigenetics 2019 Nov 27;11(1):166. PMID: 31775891
  • Sarajlic M, Neuper T, Föhrenbach Quiroz KT, Michelini S et al. IL-1β Induces SOCS2 Expression in Human Dendritic Cells. Int J Mol Sci 2019 Nov 25;20(23). PMID: 31775389
  • Kelly TJ, Brümmer A, Hooshdaran N, Tariveranmoshabad M et al. Temporal Control of the TGF-β Signaling Network by Mouse ESC MicroRNA Targets of Different Affinities. Cell Rep 2019 Nov 26;29(9):2702-2717.e7. PMID: 31775039
  • Park S, Brugiolo M, Akerman M, Das S et al. Differential Functions of Splicing Factors in Mammary Transformation and Breast Cancer Metastasis. Cell Rep 2019 Nov 26;29(9):2672-2688.e7. PMID: 31775037
  • Paananen J, Fortino V et al. An omics perspective on drug target discovery platforms. Brief Bioinform 2020 Dec 1;21(6):1937-1953. PMID: 31774113
  • Liu J, Tang X, Lv J, Peng X et al. LncRNAs SNHG12 and LINC00152 were associated with progression of patients with papillary thyroid carcinoma. Future Oncol 2019 Dec;15(36):4167-4179. PMID: 31773972
  • Trindade C, Juchem ALM, Guecheva TN, de Oliveira IM et al. Diphenyl Ditelluride: Redox-Modulating and Antiproliferative Properties. Oxid Med Cell Longev 2019;2019:2510936. PMID: 31772702
  • Yuan F, Yi L, Hai L, Wang Y et al. Identification of Key Pathways and Genes in the Orai2 Mediated Classical and Mesenchymal Subtype of Glioblastoma by Bioinformatic Analyses. Dis Markers 2019;2019:7049294. PMID: 31772693
  • He X, Li S, Yu B, Kuang G et al. Up-regulation of LINC00467 promotes the tumourigenesis in colorectal cancer. J Cancer 2019;10(25):6405-6413. PMID: 31772673
  • Chen Z, Yuan W, Liu T, Huang D et al. Bioinformatics analysis of hepatic gene expression profiles in type 2 diabetes mellitus. Exp Ther Med 2019 Dec;18(6):4303-4312. PMID: 31772629
  • Chen DQ, Kong XS, Shen XB, Huang MZ et al. Identification of Differentially Expressed Genes and Signaling Pathways in Acute Myocardial Infarction Based on Integrated Bioinformatics Analysis. Cardiovasc Ther 2019;2019:8490707. PMID: 31772617
  • Yang CX, Shi H, Ding I, Milne S et al. Widespread Sexual Dimorphism in the Transcriptome of Human Airway Epithelium in Response to Smoking. Sci Rep 2019 Nov 26;9(1):17600. PMID: 31772224
  • Zanardi N, Morini M, Tangaro MA, Zambelli F et al. PIPE-T: a new Galaxy tool for the analysis of RT-qPCR expression data. Sci Rep 2019 Nov 26;9(1):17550. PMID: 31772190
  • Sun Y, Li W, Shen S, Yang X et al. Loss of alanine-glyoxylate and serine-pyruvate aminotransferase expression accelerated the progression of hepatocellular carcinoma and predicted poor prognosis. J Transl Med 2019 Nov 26;17(1):390. PMID: 31771612
  • Zhang JZ, Wu ZH, Cheng Q et al. Screening and identification of key biomarkers in nasopharyngeal carcinoma: Evidence from bioinformatic analysis. Medicine (Baltimore) 2019 Nov;98(48):e17997. PMID: 31770211
  • Pei JF, Li XK, Li WQ, Gao Q et al. Diurnal oscillations of endogenous H(2)O(2) sustained by p66(Shc) regulate circadian clocks. Nat Cell Biol 2019 Dec;21(12):1553-1564. PMID: 31768048
  • Harvey T, Flamenco S, Fan CM et al. A Tppp3(+)Pdgfra(+) tendon stem cell population contributes to regeneration and reveals a shared role for PDGF signalling in regeneration and fibrosis. Nat Cell Biol 2019 Dec;21(12):1490-1503. PMID: 31768046
  • Pan S, Shen M, Zhou M, Shi X et al. Long noncoding RNA LINC01111 suppresses pancreatic cancer aggressiveness by regulating DUSP1 expression via microRNA-3924. Cell Death Dis 2019 Nov 25;10(12):883. PMID: 31767833
  • Cuadros M, Andrades Á, Coira IF, Baliñas C et al. Expression of the long non-coding RNA TCL6 is associated with clinical outcome in pediatric B-cell acute lymphoblastic leukemia. Blood Cancer J 2019 Nov 25;9(12):93. PMID: 31767830
  • Cho DS, Lee B, Doles JD et al. Refining the adipose progenitor cell landscape in healthy and obese visceral adipose tissue using single-cell gene expression profiling. Life Sci Alliance 2019 Dec;2(6). PMID: 31767614
  • Kim M, Zheng M, Tian SZ, Lee B et al. MIA-Sig: multiplex chromatin interaction analysis by signal processing and statistical algorithms. Genome Biol 2019 Nov 25;20(1):251. PMID: 31767038
  • Li X, Zhang S, Wa M, Liu Z et al. MicroRNA-101 Protects Against Cardiac Remodeling Following Myocardial Infarction via Downregulation of Runt-Related Transcription Factor 1. J Am Heart Assoc 2019 Dec 3;8(23):e013112. PMID: 31766975
  • Li C, Sun Y, Li J, Jiang C et al. PCV2 Regulates Cellular Inflammatory Responses through Dysregulating Cellular miRNA-mRNA Networks. Viruses 2019 Nov 13;11(11). PMID: 31766254
  • Zhang Z, Yuan W, Deng J, Wang D et al. Granulocyte colony stimulating factor (G-CSF) regulates neutrophils infiltration and periodontal tissue destruction in an experimental periodontitis. Mol Immunol 2020 Jan;117:110-121. PMID: 31765840
  • Zhao JG, Wang JF, Feng JF, Jin XY et al. HHIP overexpression inhibits the proliferation, migration and invasion of non-small cell lung cancer. PLoS One 2019;14(11):e0225755. PMID: 31765425
  • Zhang SC, Hu ZQ, Long JH, Zhu GM et al. Clinical Implications of Tumor-Infiltrating Immune Cells in Breast Cancer. J Cancer 2019;10(24):6175-6184. PMID: 31762828
  • Tian N, Shangguan W, Zhou Z, Yao Y et al. Lin28b is involved in curcumin-reversed paclitaxel chemoresistance and associated with poor prognosis in hepatocellular carcinoma. J Cancer 2019;10(24):6074-6087. PMID: 31762817
  • Wang H, Wang M, Xiao K, Zhang X et al. Bioinformatics analysis on differentially expressed genes of alveolar macrophage in IPF. Exp Lung Res 2019 Nov-Dec;45(9-10):288-296. PMID: 31762326
  • Chen Q, Liu Y, Jeong HW, Stehling M et al. Apelin(+) Endothelial Niche Cells Control Hematopoiesis and Mediate Vascular Regeneration after Myeloablative Injury. Cell Stem Cell 2019 Dec 5;25(6):768-783.e6. PMID: 31761723
  • Tan TZ, Ye J, Yee CV, Lim D et al. Analysis of gene expression signatures identifies prognostic and functionally distinct ovarian clear cell carcinoma subtypes. EBioMedicine 2019 Dec;50:203-210. PMID: 31761620
  • Sun Y, Mironova V, Chen Y, Lundh EPF et al. Molecular Pathway Analysis Indicates a Distinct Metabolic Phenotype in Women With Right-Sided Colon Cancer. Transl Oncol 2020 Jan;13(1):42-56. PMID: 31760268
  • Morais-Rodrigues F, Silv Erio-Machado R, Kato RB, Rodrigues DLN et al. Analysis of the microarray gene expression for breast cancer progression after the application modified logistic regression. Gene 2020 Feb 5;726:144168. PMID: 31759986
  • Galupa R, Nora EP, Worsley-Hunt R, Picard C et al. A Conserved Noncoding Locus Regulates Random Monoallelic Xist Expression across a Topological Boundary. Mol Cell 2020 Jan 16;77(2):352-367.e8. PMID: 31759823
  • Ferrari R, de Llobet Cucalon LI, Di Vona C, Le Dilly F et al. TFIIIC Binding to Alu Elements Controls Gene Expression via Chromatin Looping and Histone Acetylation. Mol Cell 2020 Feb 6;77(3):475-487.e11. PMID: 31759822
  • Fu Y, Zhou QZ, Zhang XL, Wang ZZ et al. Identification of Hub Genes Using Co-Expression Network Analysis in Breast Cancer as a Tool to Predict Different Stages. Med Sci Monit 2019 Nov 23;25:8873-8890. PMID: 31758680
  • Nambara S, Masuda T, Kobayashi Y, Sato K et al. GTF2IRD1 on chromosome 7 is a novel oncogene regulating the tumor-suppressor gene TGFβR2 in colorectal cancer. Cancer Sci 2020 Feb;111(2):343-355. PMID: 31758608
  • Sun F, Li L, Yan P, Zhou J et al. Causative role of PDLIM2 epigenetic repression in lung cancer and therapeutic resistance. Nat Commun 2019 Nov 22;10(1):5324. PMID: 31757943
  • Alaimo S, Di Maria A, Shasha D, Ferro A et al. TACITuS: transcriptomic data collector, integrator, and selector on big data platform. BMC Bioinformatics 2019 Nov 22;20(Suppl 9):366. PMID: 31757212
  • Govek KW, Yamajala VS, Camara PG et al. Clustering-independent analysis of genomic data using spectral simplicial theory. PLoS Comput Biol 2019 Nov;15(11):e1007509. PMID: 31756191
  • Cao H, Li D, Lu H, Sun J et al. Uncovering potential lncRNAs and nearby mRNAs in systemic lupus erythematosus from the Gene Expression Omnibus dataset. Epigenomics 2019 Dec;11(16):1795-1809. PMID: 31755746
  • Puig Lombardi E, Londoño-Vallejo A et al. A guide to computational methods for G-quadruplex prediction. Nucleic Acids Res 2020 Jan 10;48(1):1-15. PMID: 31754698
  • Yu Y, Jia W, Lyu Y, Su D et al. Pwp1 regulates telomere length by stabilizing shelterin complex and maintaining histone H4K20 trimethylation. Cell Discov 2019;5:47. PMID: 31754456
  • Gwynne WD, Shakeel MS, Wu J, Hallett RM et al. Monoamine oxidase-A activity is required for clonal tumorsphere formation by human breast tumor cells. Cell Mol Biol Lett 2019;24:59. PMID: 31754354
  • Liu X, Cao X, Liu C, Cao Y et al. MTERFD1 promotes cell growth and irradiation resistance in colorectal cancer by upregulating interleukin-6 and interleukin-11. Int J Biol Sci 2019;15(12):2750-2762. PMID: 31754344
  • Fako V, Martin SP, Pomyen Y, Budhu A et al. Gene signature predictive of hepatocellular carcinoma patient response to transarterial chemoembolization. Int J Biol Sci 2019;15(12):2654-2663. PMID: 31754337
  • Li M, Qi Y, Chen M, Wang Z et al. GATA Binding Protein 3 Boosts Extracellular ATP Hydrolysis and Inhibits Metastasis of Breast Cancer by Up-regulating Ectonucleoside Triphosphate Diphosphohydrolase 3. Int J Biol Sci 2019;15(12):2522-2537. PMID: 31754326
  • Xiao KW, Li JL, Zeng ZH, Liu ZB et al. Monocytes affect bone mineral density in pre- and postmenopausal women through ribonucleoprotein complex biogenesis by integrative bioinformatics analysis. Sci Rep 2019 Nov 21;9(1):17290. PMID: 31754224
  • Li C, Xu J et al. Feature selection with the Fisher score followed by the Maximal Clique Centrality algorithm can accurately identify the hub genes of hepatocellular carcinoma. Sci Rep 2019 Nov 21;9(1):17283. PMID: 31754223
  • Banerjee S, Wei T, Wang J, Lee JJ et al. Inhibition of dual-specificity tyrosine phosphorylation-regulated kinase 2 perturbs 26S proteasome-addicted neoplastic progression. Proc Natl Acad Sci U S A 2019 Dec 3;116(49):24881-24891. PMID: 31754034
  • Wang Y, Song W, Wang J, Wang T et al. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine. J Exp Med 2020 Feb 3;217(2). PMID: 31753849
  • Hu YP, Jin YP, Wu XS, Yang Y et al. LncRNA-HGBC stabilized by HuR promotes gallbladder cancer progression by regulating miR-502-3p/SET/AKT axis. Mol Cancer 2019 Nov 21;18(1):167. PMID: 31752906
  • Zhang L, Thapa I, Haas C, Bastola D et al. Multiplatform biomarker identification using a data-driven approach enables single-sample classification. BMC Bioinformatics 2019 Nov 21;20(1):601. PMID: 31752658
  • Bajusz I, Henry S, Sutus E, Kovács G et al. Evolving Role of RING1 and YY1 Binding Protein in the Regulation of Germ-Cell-Specific Transcription. Genes (Basel) 2019 Nov 19;10(11). PMID: 31752312
  • Ibrahim J, Op de Beeck K, Fransen E, Peeters M et al. The Gasdermin E Gene Has Potential as a Pan-Cancer Biomarker, While Discriminating between Different Tumor Types. Cancers (Basel) 2019 Nov 18;11(11). PMID: 31752152
  • Kong J, Li L, Zhimin L, Yan J et al. Potential protein biomarkers for systemic lupus erythematosus determined by bioinformatics analysis. Comput Biol Chem 2019 Dec;83:107135. PMID: 31751880
  • Menelaou K, Prater M, Tunster SJ, Blake GET et al. Blastocyst transfer in mice alters the placental transcriptome and growth. Reproduction 2020 Feb;159(2):115-132. PMID: 31751309
  • Liu J, Qiao L, Li J, Xu Y et al. [Bioinformatical analysis of function and differentiation of Th1/17 cells]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2019 Sep;35(9):783-788. PMID: 31750818
  • Nersisyan L, Hopp L, Loeffler-Wirth H, Galle J et al. Telomere Length Maintenance and Its Transcriptional Regulation in Lynch Syndrome and Sporadic Colorectal Carcinoma. Front Oncol 2019;9:1172. PMID: 31750255
  • Wang X, Wang X, Li W, Zhang Q et al. Up-Regulation of hsa_circ_0000517 Predicts Adverse Prognosis of Hepatocellular Carcinoma. Front Oncol 2019;9:1105. PMID: 31750237
  • Di Filippo L, Righelli D, Gagliardi M, Matarazzo MR et al. HiCeekR: A Novel Shiny App for Hi-C Data Analysis. Front Genet 2019;10:1079. PMID: 31749839
  • Alam A, Imam N, Ahmed MM, Tazyeen S et al. Identification and Classification of Differentially Expressed Genes and Network Meta-Analysis Reveals Potential Molecular Signatures Associated With Tuberculosis. Front Genet 2019;10:932. PMID: 31749827
  • Olbrich M, Künstner A, Witte M, Busch H et al. Genetics and Omics Analysis of Autoimmune Skin Blistering Diseases. Front Immunol 2019;10:2327. PMID: 31749790
  • Xie L, Wang Q, Nan F, Ge L et al. OSacc: Gene Expression-Based Survival Analysis Web Tool For Adrenocortical Carcinoma. Cancer Manag Res 2019;11:9145-9152. PMID: 31749633
  • Schmidt A, Mächtel R, Ammon A, Engelsdorf T et al. Reactive oxygen species dosage in Arabidopsis chloroplasts can improve resistance towards Colletotrichum higginsianum by the induction of WRKY33. New Phytol 2020 Apr;226(1):189-204. PMID: 31749193
  • Zhang J, Wang JL, Zhang CY, Ma YF et al. The prognostic role of FZD6 in esophageal squamous cell carcinoma patients. Clin Transl Oncol 2020 Jul;22(7):1172-1179. PMID: 31748958
  • Nitzan M, Karaiskos N, Friedman N, Rajewsky N et al. Gene expression cartography. Nature 2019 Dec;576(7785):132-137. PMID: 31748748
  • Tsantoulis P, Delorenzi M, Bièche I, Vacher S et al. Prospective validation in epithelial tumors of a gene expression predictor of liver metastasis derived from uveal melanoma. Sci Rep 2019 Nov 20;9(1):17178. PMID: 31748560
  • van Dessel LF, van Riet J, Smits M, Zhu Y et al. The genomic landscape of metastatic castration-resistant prostate cancers reveals multiple distinct genotypes with potential clinical impact. Nat Commun 2019 Nov 20;10(1):5251. PMID: 31748536
  • Wang Q, Zhang Y, Wang M, Song WM et al. The landscape of multiscale transcriptomic networks and key regulators in Parkinson's disease. Nat Commun 2019 Nov 20;10(1):5234. PMID: 31748532
  • Wu L, Jiang Y, Zheng Z, Li H et al. mRNA and P-element-induced wimpy testis-interacting RNA profile in chemical-induced oral squamous cell carcinoma mice model. Exp Anim 2020 Apr 24;69(2):168-177. PMID: 31748426
  • Bao X, Anastasov N, Wang Y, Rosemann M et al. A novel epigenetic signature for overall survival prediction in patients with breast cancer. J Transl Med 2019 Nov 20;17(1):380. PMID: 31747912
  • Yang G, Zhang Y, Yang J et al. Identification of Potentially Functional CircRNA-miRNA-mRNA Regulatory Network in Gastric Carcinoma using Bioinformatics Analysis. Med Sci Monit 2019 Nov 20;25:8777-8796. PMID: 31747387
  • Racioppi C, Wiechecki KA, Christiaen L et al. Combinatorial chromatin dynamics foster accurate cardiopharyngeal fate choices. Elife 2019 Nov 20;8. PMID: 31746740
  • González-Morales N, Xiao YS, Schilling MA, Marescal O et al. Myofibril diameter is set by a finely tuned mechanism of protein oligomerization in Drosophila. Elife 2019 Nov 20;8. PMID: 31746737
  • Zhang J, Li D, Zhang Y, Ding Z et al. Integrative analysis of mRNA and miRNA expression profiles reveals seven potential diagnostic biomarkers for non‑small cell lung cancer. Oncol Rep 2020 Jan;43(1):99-112. PMID: 31746439
  • Liu Q, Liu H, Li L, Dong X et al. ATAD2 predicts poor outcomes in patients with ovarian cancer and is a marker of proliferation. Int J Oncol 2020 Jan;56(1):219-231. PMID: 31746426
  • Wang Q, Zhang L, Cui Y, Zhang C et al. Increased RLIP76 expression in IDH1 wild‑type glioblastoma multiforme is associated with worse prognosis. Oncol Rep 2020 Jan;43(1):188-200. PMID: 31746408
  • Song X, Du R, Gui H, Zhou M et al. Identification of potential hub genes related to the progression and prognosis of hepatocellular carcinoma through integrated bioinformatics analysis. Oncol Rep 2020 Jan;43(1):133-146. PMID: 31746405
  • Zhang H, Xie T, Shui Y, Qi Y et al. Knockdown of PLCB2 expression reduces melanoma cell viability and promotes melanoma cell apoptosis by altering Ras/Raf/MAPK signals. Mol Med Rep 2020 Jan;21(1):420-428. PMID: 31746389
  • Huang T, Zhou X, Mao X, Yu C et al. Lactate-fueled oxidative metabolism drives DNA methyltransferase 1-mediated transcriptional co-activator with PDZ binding domain protein activation. Cancer Sci 2020 Jan;111(1):186-199. PMID: 31746077
  • Kong Y, Rose CM, Cass AA, Williams AG et al. Transposable element expression in tumors is associated with immune infiltration and increased antigenicity. Nat Commun 2019 Nov 19;10(1):5228. PMID: 31745090
  • Chen R, Goodison S, Sun Y et al. Molecular Profiles of Matched Primary and Metastatic Tumor Samples Support a Linear Evolutionary Model of Breast Cancer. Cancer Res 2020 Jan 15;80(2):170-174. PMID: 31744819
  • Sallinen H, Janhonen S, Pölönen P, Niskanen H et al. Comparative transcriptome analysis of matched primary and distant metastatic ovarian carcinoma. BMC Cancer 2019 Nov 19;19(1):1121. PMID: 31744494
  • Listopad SA, Norden-Krichmar TM et al. A-Lister: a tool for analysis of differentially expressed omics entities across multiple pairwise comparisons. BMC Bioinformatics 2019 Nov 19;20(1):595. PMID: 31744472
  • Duan W, Wang K, Duan Y, Chu X et al. Integrated Transcriptome Analyses Revealed Key Target Genes in Mouse Models of Autism. Autism Res 2020 Mar;13(3):352-368. PMID: 31743624
  • Ma B, Li Y, Ren Y et al. Identification of a 6-lncRNA prognostic signature based on microarray re-annotation in gastric cancer. Cancer Med 2020 Jan;9(1):335-349. PMID: 31743579
  • Zhu J, Wang Z, Chen F, Liu C et al. Identification of genes and functional coexpression modules closely related to ulcerative colitis by gene datasets analysis. PeerJ 2019;7:e8061. PMID: 31741804
  • Leick KM, Obeid JM, Bekiranov S, Slingluff CL Jr et al. Systems analysis of barrier molecule and ARNT-related gene expression regulation in melanoma. Oncoimmunology 2019;8(12):e1665978. PMID: 31741768
  • Kats D, Ricker CA, Berlow NE, Noblet B et al. Volasertib preclinical activity in high-risk hepatoblastoma. Oncotarget 2019 Nov 5;10(60):6403-6417. PMID: 31741706
  • Cao L, Zhang W, Liu X, Yang P et al. The Prognostic Significance of PDE7B in Cytogenetically Normal Acute Myeloid Leukemia. Sci Rep 2019 Nov 18;9(1):16991. PMID: 31740742
  • Ganguly B, Chaudhary A, Dakhar H, Singh IP et al. Methanolic extract of Potentilla fulgens root and its ethyl-acetate fraction delays the process of carcinogenesis in mice. Sci Rep 2019 Nov 18;9(1):16985. PMID: 31740710
  • Cheng Z, Phokaew C, Chou YL, Lai D et al. A regulatory variant of CHRM3 is associated with cannabis-induced hallucinations in European Americans. Transl Psychiatry 2019 Nov 18;9(1):309. PMID: 31740666
  • Lu G, Lai Y, Wang T, Lin W et al. Mitochondrial fission regulator 2 (MTFR2) promotes growth, migration, invasion and tumour progression in breast cancer cells. Aging (Albany NY) 2019 Nov 18;11(22):10203-10219. PMID: 31740625
  • Chen H, Lareau C, Andreani T, Vinyard ME et al. Assessment of computational methods for the analysis of single-cell ATAC-seq data. Genome Biol 2019 Nov 18;20(1):241. PMID: 31739806
  • Kang X, Wang J, Li C et al. Exposing the Underlying Relationship of Cancer Metastasis to Metabolism and Epithelial-Mesenchymal Transitions. iScience 2019 Nov 22;21:754-772. PMID: 31739095
  • Zhang GL, Pan LL, Huang T, Wang JH et al. The transcriptome difference between colorectal tumor and normal tissues revealed by single-cell sequencing. J Cancer 2019;10(23):5883-5890. PMID: 31737124
  • Pan B, Qin J, Liu X, He B et al. Identification of Serum Exosomal hsa-circ-0004771 as a Novel Diagnostic Biomarker of Colorectal Cancer. Front Genet 2019;10:1096. PMID: 31737058
  • Liu H, Ye T, Yang X, Liu J et al. H19 promote calcium oxalate nephrocalcinosis-induced renal tubular epithelial cell injury via a ceRNA pathway. EBioMedicine 2019 Dec;50:366-378. PMID: 31735555
  • Yu M, Wu G, Chen Y, Wang H et al. Bioinformatic screening and experimental analysis identify SFRP1 as a prognostic biomarker for tongue squamous cell carcinomas. Arch Oral Biol 2020 Feb;110:104587. PMID: 31734541
  • Zhang R, Ji Z, Qu Y, Yang M et al. Clinical value of ARG1 in acute myocardial infarction patients: Bioinformatics-based approach. Biomed Pharmacother 2020 Jan;121:109590. PMID: 31733574
  • Fortriede JD, Pells TJ, Chu S, Chaturvedi P et al. Xenbase: deep integration of GEO & SRA RNA-seq and ChIP-seq data in a model organism database. Nucleic Acids Res 2020 Jan 8;48(D1):D776-D782. PMID: 31733057
  • He H, Wu Z, Li S, Chen K et al. TRAF7 enhances ubiquitin-degradation of KLF4 to promote hepatocellular carcinoma progression. Cancer Lett 2020 Jan 28;469:380-389. PMID: 31730901
  • Shen J, Yu S, Sun X, Yin M et al. Identification of key biomarkers associated with development and prognosis in patients with ovarian carcinoma: evidence from bioinformatic analysis. J Ovarian Res 2019 Nov 15;12(1):110. PMID: 31729978
  • Kwon SM, Budhu A, Woo HG, Chaisaingmongkol J et al. Functional Genomic Complexity Defines Intratumor Heterogeneity and Tumor Aggressiveness in Liver Cancer. Sci Rep 2019 Nov 15;9(1):16930. PMID: 31729408
  • Bristot G, De Bastiani MA, Pfaffenseller B, Kapczinski F et al. Gene Regulatory Network of Dorsolateral Prefrontal Cortex: a Master Regulator Analysis of Major Psychiatric Disorders. Mol Neurobiol 2020 Mar;57(3):1305-1316. PMID: 31728928
  • Liu A, Trairatphisan P, Gjerga E, Didangelos A et al. From expression footprints to causal pathways: contextualizing large signaling networks with CARNIVAL. NPJ Syst Biol Appl 2019;5:40. PMID: 31728204
  • Montero J, Gstalder C, Kim DJ, Sadowicz D et al. Destabilization of NOXA mRNA as a common resistance mechanism to targeted therapies. Nat Commun 2019 Nov 14;10(1):5157. PMID: 31727958
  • Lin K, Ma J, Peng Y, Sun M et al. Autocrine Production of Interleukin-34 Promotes the Development of Endometriosis through CSF1R/JAK3/STAT6 signaling. Sci Rep 2019 Nov 14;9(1):16781. PMID: 31727934
  • Hammoutene A, Biquard L, Lasselin J, Kheloufi M et al. A defect in endothelial autophagy occurs in patients with non-alcoholic steatohepatitis and promotes inflammation and fibrosis. J Hepatol 2020 Mar;72(3):528-538. PMID: 31726115
  • Zhao CH, Qu L, Zhang H, Qu R et al. Identification of breast cancer-related circRNAs by analysis of microarray and RNA-sequencing data: An observational study. Medicine (Baltimore) 2019 Nov;98(46):e18042. PMID: 31725681
  • Grzybowski AT, Shah RN, Richter WF, Ruthenburg AJ et al. Native internally calibrated chromatin immunoprecipitation for quantitative studies of histone post-translational modifications. Nat Protoc 2019 Dec;14(12):3275-3302. PMID: 31723301
  • Lewandowski JP, Lee JC, Hwang T, Sunwoo H et al. The Firre locus produces a trans-acting RNA molecule that functions in hematopoiesis. Nat Commun 2019 Nov 13;10(1):5137. PMID: 31723143
  • Majidi SP, Reddy NC, Moore MJ, Chen H et al. Chromatin Environment and Cellular Context Specify Compensatory Activity of Paralogous MEF2 Transcription Factors. Cell Rep 2019 Nov 12;29(7):2001-2015.e5. PMID: 31722213
  • McLaughlin K, Flyamer IM, Thomson JP, Mjoseng HK et al. DNA Methylation Directs Polycomb-Dependent 3D Genome Re-organization in Naive Pluripotency. Cell Rep 2019 Nov 12;29(7):1974-1985.e6. PMID: 31722211
  • Hsieh AL, Zheng X, Yue Z, Stine ZE et al. Misregulation of Drosophila Myc Disrupts Circadian Behavior and Metabolism. Cell Rep 2019 Nov 12;29(7):1778-1788.e4. PMID: 31722196
  • Jiang T, Si L et al. Identification of the molecular mechanisms associated with acute type A aortic dissection through bioinformatics methods. Braz J Med Biol Res 2019;52(11):e8950. PMID: 31721906
  • Pouliot GP, Degar J, Hinze L, Kochupurakkal B et al. Fanconi-BRCA pathway mutations in childhood T-cell acute lymphoblastic leukemia. PLoS One 2019;14(11):e0221288. PMID: 31721781
  • Wang X, Gao S, Dai L, Wang Z et al. Identification of key microRNAs in the carotid arteries of ApoE(-/-) mice exposed to disturbed flow. Hereditas 2019;156:35. PMID: 31719822
  • Vijayaraj M, Abhinand PA, Ragunath PK et al. Virtual screening of a MDR-TB WhiB6 target identified by gene expression profiling. Bioinformation 2019;15(8):557-567. PMID: 31719765
  • Grozhik AV, Olarerin-George AO, Sindelar M, Li X et al. Antibody cross-reactivity accounts for widespread appearance of m(1)A in 5'UTRs. Nat Commun 2019 Nov 12;10(1):5126. PMID: 31719534
  • Perez de Souza L, Garbowicz K, Brotman Y, Tohge T et al. The Acetate Pathway Supports Flavonoid and Lipid Biosynthesis in Arabidopsis. Plant Physiol 2020 Feb;182(2):857-869. PMID: 31719153
  • Bovet L, Cheval C, Hilfiker A, Battey J et al. Asparagine Synthesis During Tobacco Leaf Curing. Plants (Basel) 2019 Nov 11;8(11). PMID: 31718005
  • Tsai YT, Wu AC, Yang WB, Kao TJ et al. ANGPTL4 Induces TMZ Resistance of Glioblastoma by Promoting Cancer Stemness Enrichment via the EGFR/AKT/4E-BP1 Cascade. Int J Mol Sci 2019 Nov 11;20(22). PMID: 31717924
  • Sanchez R, Yang X, Maher T, Mackenzie SA et al. Discrimination of DNA Methylation Signal from Background Variation for Clinical Diagnostics. Int J Mol Sci 2019 Oct 27;20(21). PMID: 31717838
  • Velthaus A, Cornils K, Hennigs JK, Grüb S et al. The Actin Binding Protein Plastin-3 Is Involved in the Pathogenesis of Acute Myeloid Leukemia. Cancers (Basel) 2019 Oct 26;11(11). PMID: 31717802
  • McCown PJ, Wang MC, Jaeger L, Brown JA et al. Secondary Structural Model of Human MALAT1 Reveals Multiple Structure-Function Relationships. Int J Mol Sci 2019 Nov 9;20(22). PMID: 31717552
  • Desterke C, Chiappini F et al. Lipid Related Genes Altered in NASH Connect Inflammation in Liver Pathogenesis Progression to HCC: A Canonical Pathway. Int J Mol Sci 2019 Nov 8;20(22). PMID: 31717414
  • Mandelboum S, Manber Z, Elroy-Stein O, Elkon R et al. Recurrent functional misinterpretation of RNA-seq data caused by sample-specific gene length bias. PLoS Biol 2019 Nov;17(11):e3000481. PMID: 31714939
  • Laban KG, Kalmann R, Bekker CPJ, Hiddingh S et al. A pan-inflammatory microRNA-cluster is associated with orbital non-Hodgkin lymphoma and idiopathic orbital inflammation. Eur J Immunol 2020 Jan;50(1):86-96. PMID: 31713839
  • Zheng Y, Keleş S et al. FreeHi-C simulates high-fidelity Hi-C data for benchmarking and data augmentation. Nat Methods 2020 Jan;17(1):37-40. PMID: 31712779
  • Girgenti MJ, Wohleb ES, Mehta S, Ghosal S et al. Prefrontal cortex interneurons display dynamic sex-specific stress-induced transcriptomes. Transl Psychiatry 2019 Nov 11;9(1):292. PMID: 31712551
  • Yin L, Luo Y, Xu X, Wen S et al. Virtual methylome dissection facilitated by single-cell analyses. Epigenetics Chromatin 2019 Nov 11;12(1):66. PMID: 31711526
  • Arshad H, Alfonso JCL, Franke R, Michaelis K et al. Decreased plasma phospholipid concentrations and increased acid sphingomyelinase activity are accurate biomarkers for community-acquired pneumonia. J Transl Med 2019 Nov 11;17(1):365. PMID: 31711507
  • Manthey CL, Moore BA, Chen Y, Loza MJ et al. The CSF-1-receptor inhibitor, JNJ-40346527 (PRV-6527), reduced inflammatory macrophage recruitment to the intestinal mucosa and suppressed murine T cell mediated colitis. PLoS One 2019;14(11):e0223918. PMID: 31710624
  • Ge Y, Li Q, Lin L, Jiang M et al. Downregulation of NUSAP1 suppresses cell proliferation, migration, and invasion via inhibiting mTORC1 signalling pathway in gastric cancer. Cell Biochem Funct 2020 Jan;38(1):28-37. PMID: 31710389
  • Zhou Y, Wang X, Huang X, Li XD et al. High expression of COPB2 predicts adverse outcomes: A potential therapeutic target for glioma. CNS Neurosci Ther 2020 Mar;26(3):309-318. PMID: 31710183
  • Heo J, Noh BJ, Lee S, Lee HY et al. Phosphorylation of TFCP2L1 by CDK1 is required for stem cell pluripotency and bladder carcinogenesis. EMBO Mol Med 2020 Jan 9;12(1):e10880. PMID: 31709755
  • Li H, Yang F, Hu A, Wang X et al. Therapeutic targeting of circ-CUX1/EWSR1/MAZ axis inhibits glycolysis and neuroblastoma progression. EMBO Mol Med 2019 Dec;11(12):e10835. PMID: 31709724
  • Das S, Camphausen K, Shankavaram U et al. Pan-Cancer Analysis of Potential Synthetic Lethal Drug Targets Specific to Alterations in DNA Damage Response. Front Oncol 2019;9:1136. PMID: 31709193
  • Megdiche S, Mastrangelo S, Ben Hamouda M, Lenstra JA et al. A Combined Multi-Cohort Approach Reveals Novel and Known Genome-Wide Selection Signatures for Wool Traits in Merino and Merino-Derived Sheep Breeds. Front Genet 2019;10:1025. PMID: 31708969
  • Gonçalves ANA, Lever M, Russo PST, Gomes-Correia B et al. Assessing the Impact of Sample Heterogeneity on Transcriptome Analysis of Human Diseases Using MDP Webtool. Front Genet 2019;10:971. PMID: 31708960
  • Jo YD, Lee HY, Ro NY, Kim SH et al. Mitotypes Based on Structural Variation of Mitochondrial Genomes Imply Relationships With Morphological Phenotypes and Cytoplasmic Male Sterility in Peppers. Front Plant Sci 2019;10:1343. PMID: 31708952
  • Millen S, Gross C, Donhauser N, Mann MC et al. Collagen IV (COL4A1, COL4A2), a Component of the Viral Biofilm, Is Induced by the HTLV-1 Oncoprotein Tax and Impacts Virus Transmission. Front Microbiol 2019;10:2439. PMID: 31708905
  • Ban E, Jeong S, Park M, Kwon H et al. Accelerated wound healing in diabetic mice by miRNA-497 and its anti-inflammatory activity. Biomed Pharmacother 2020 Jan;121:109613. PMID: 31707336
  • Cho SY, Kim S, Son MJ, Kim G et al. Dual oxidase 1 and NADPH oxidase 2 exert favorable effects in cervical cancer patients by activating immune response. BMC Cancer 2019 Nov 9;19(1):1078. PMID: 31706280
  • Zhong S, Bai Y, Wu B, Ge J et al. Selected by gene co-expression network and molecular docking analyses, ENMD-2076 is highly effective in glioblastoma-bearing rats. Aging (Albany NY) 2019 Nov 9;11(21):9738-9766. PMID: 31706255
  • Fallahi H, Godini R et al. System-level responses to cisplatin in pro-apoptotic stages of breast cancer MCF-7 cell line. Comput Biol Chem 2019 Dec;83:107155. PMID: 31706153
  • Peña CJ, Smith M, Ramakrishnan A, Cates HM et al. Early life stress alters transcriptomic patterning across reward circuitry in male and female mice. Nat Commun 2019 Nov 8;10(1):5098. PMID: 31704941
  • Barrenas F, Raehtz K, Xu C, Law L et al. Macrophage-associated wound healing contributes to African green monkey SIV pathogenesis control. Nat Commun 2019 Nov 8;10(1):5101. PMID: 31704931
  • Lee J, Lee J, Kim JH et al. Identification of Matrix Metalloproteinase 11 as a Prognostic Biomarker in Pancreatic Cancer. Anticancer Res 2019 Nov;39(11):5963-5971. PMID: 31704821
  • Huang B, Wang B, Yuk-Wai Lee W, Pong U K et al. KDM3A and KDM4C Regulate Mesenchymal Stromal Cell Senescence and Bone Aging via Condensin-mediated Heterochromatin Reorganization. iScience 2019 Nov 22;21:375-390. PMID: 31704649
  • Li Y, Li L et al. Prognostic values and prospective pathway signaling of MicroRNA-182 in ovarian cancer: a study based on gene expression omnibus (GEO) and bioinformatics analysis. J Ovarian Res 2019 Nov 8;12(1):106. PMID: 31703725
  • Xiao Y, Najeeb RM, Ma D, Yang K et al. Upregulation of CENPM promotes hepatocarcinogenesis through mutiple mechanisms. J Exp Clin Cancer Res 2019 Nov 8;38(1):458. PMID: 31703591
  • Kim J, Jo YH, Jang M, Nguyen NNY et al. PAC-5 Gene Expression Signature for Predicting Prognosis of Patients with Pancreatic Adenocarcinoma. Cancers (Basel) 2019 Nov 7;11(11). PMID: 31703415
  • Sergeeva O, Kepe V, Zhang Y, Miller-Atkins GA et al. [(18)F] Clofarabine for PET Imaging of Hepatocellular Carcinoma. Cancers (Basel) 2019 Nov 7;11(11). PMID: 31703407
  • Panga V, Kallor AA, Nair A, Harshan S et al. Mitochondrial dysfunction in rheumatoid arthritis: A comprehensive analysis by integrating gene expression, protein-protein interactions and gene ontology data. PLoS One 2019;14(11):e0224632. PMID: 31703070
  • Weiterer SS, Meier-Soelch J, Georgomanolis T, Mizi A et al. Distinct IL-1α-responsive enhancers promote acute and coordinated changes in chromatin topology in a hierarchical manner. EMBO J 2020 Jan 2;39(1):e101533. PMID: 31701553
  • Raza A, Xie Z, Chan EC, Chen WS et al. A natural mouse model reveals genetic determinants of systemic capillary leak syndrome (Clarkson disease). Commun Biol 2019;2:398. PMID: 31701027
  • Zhang C, Hu X, Qi F, Luo J et al. Identification of CD2, CCL5 and CCR5 as potential therapeutic target genes for renal interstitial fibrosis. Ann Transl Med 2019 Sep;7(18):454. PMID: 31700890
  • Loberman-Nachum N, Sosnovski K, Di Segni A, Efroni G et al. Defining the Celiac Disease Transcriptome using Clinical Pathology Specimens Reveals Biologic Pathways and Supports Diagnosis. Sci Rep 2019 Nov 7;9(1):16163. PMID: 31700112
  • Zhu L, Lin ZW, Wang G, Zhang H et al. MicroRNA-495 downregulates AQP1 and facilitates proliferation and differentiation of osteoblasts in mice with tibial fracture through activation of p38 MAPK signaling pathway. Sci Rep 2019 Nov 7;9(1):16171. PMID: 31700003
  • Xiong K, Ma J et al. Revealing Hi-C subcompartments by imputing inter-chromosomal chromatin interactions. Nat Commun 2019 Nov 7;10(1):5069. PMID: 31699985
  • Guo A, Wang W, Shi H, Wang J et al. Identification of Hub Genes and Pathways in a Rat Model of Renal Ischemia-Reperfusion Injury Using Bioinformatics Analysis of the Gene Expression Omnibus (GEO) Dataset and Integration of Gene Expression Profiles. Med Sci Monit 2019 Nov 8;25:8403-8411. PMID: 31699960
  • Fernandez MA, Belda-Palazon B, Julian J, Coego A et al. RBR-Type E3 Ligases and the Ubiquitin-Conjugating Enzyme UBC26 Regulate Abscisic Acid Receptor Levels and Signaling. Plant Physiol 2020 Apr;182(4):1723-1742. PMID: 31699847
  • Araya P, Waugh KA, Sullivan KD, Núñez NG et al. Trisomy 21 dysregulates T cell lineages toward an autoimmunity-prone state associated with interferon hyperactivity. Proc Natl Acad Sci U S A 2019 Nov 26;116(48):24231-24241. PMID: 31699819
  • Ramisch A, Heinrich V, Glaser LV, Fuchs A et al. CRUP: a comprehensive framework to predict condition-specific regulatory units. Genome Biol 2019 Nov 8;20(1):227. PMID: 31699133
  • Zou Y, Yang R, Huang ML, Kong YG et al. NOTCH2 negatively regulates metastasis and epithelial-Mesenchymal transition via TRAF6/AKT in nasopharyngeal carcinoma. J Exp Clin Cancer Res 2019 Nov 7;38(1):456. PMID: 31699119
  • Gloux A, Duclos MJ, Brionne A, Bourin M et al. Integrative analysis of transcriptomic data related to the liver of laying hens: from physiological basics to newly identified functions. BMC Genomics 2019 Nov 7;20(1):821. PMID: 31699050
  • Liu G, Zeng X, Wu B, Zhao J et al. RNA-Seq analysis of peripheral blood mononuclear cells reveals unique transcriptional signatures associated with radiotherapy response of nasopharyngeal carcinoma and prognosis of head and neck cancer. Cancer Biol Ther 2020;21(2):139-146. PMID: 31698994
  • Ni KW, Sun GZ et al. The identification of key biomarkers in patients with lung adenocarcinoma based on bioinformatics. Math Biosci Eng 2019 Aug 21;16(6):7671-7687. PMID: 31698633
  • Müller J, Tanner R, Matsumiya M, Snowden MA et al. Cytomegalovirus infection is a risk factor for tuberculosis disease in infants. JCI Insight 2019 Dec 5;4(23). PMID: 31697647
  • Liu J, Li W, Zhang J, Ma Z et al. Identification of key genes and long non-coding RNA associated ceRNA networks in hepatocellular carcinoma. PeerJ 2019;7:e8021. PMID: 31695969
  • Balic A, Chintoan-Uta C, Vohra P, Sutton KM et al. Antigen Sampling CSF1R-Expressing Epithelial Cells Are the Functional Equivalents of Mammalian M Cells in the Avian Follicle-Associated Epithelium. Front Immunol 2019;10:2495. PMID: 31695701
  • Harris VM, Koelsch KA, Kurien BT, Harley ITW et al. Characterization of cxorf21 Provides Molecular Insight Into Female-Bias Immune Response in SLE Pathogenesis. Front Immunol 2019;10:2160. PMID: 31695690
  • Zhang L, Zhu P, Tong Y, Wang Y et al. An immune-related gene pairs signature predicts overall survival in serous ovarian carcinoma. Onco Targets Ther 2019;12:7005-7014. PMID: 31695415
  • Zhu C, Yu M, Huang H, Juric I et al. An ultra high-throughput method for single-cell joint analysis of open chromatin and transcriptome. Nat Struct Mol Biol 2019 Nov;26(11):1063-1070. PMID: 31695190
  • Wang Z, Li Y, Wu D, Yu S et al. Nuclear receptor HNF4α performs a tumor suppressor function in prostate cancer via its induction of p21-driven cellular senescence. Oncogene 2020 Feb;39(7):1572-1589. PMID: 31695151
  • Tang X, Feng D, Li M, Zhou J et al. Transcriptomic Analysis of mRNA-lncRNA-miRNA Interactions in Hepatocellular Carcinoma. Sci Rep 2019 Nov 6;9(1):16096. PMID: 31695090
  • De Cegli R, Iacobacci S, Fedele A, Ballabio A et al. A transcriptomic study of Williams-Beuren syndrome associated genes in mouse embryonic stem cells. Sci Data 2019 Nov 6;6(1):262. PMID: 31695049
  • Tyler A, Mahoney JM, Carter GW et al. Genetic Interactions Affect Lung Function in Patients with Systemic Sclerosis. G3 (Bethesda) 2020 Jan 7;10(1):151-163. PMID: 31694854
  • Metzger P, Kirchleitner SV, Kluge M, Koenig LM et al. Immunostimulatory RNA leads to functional reprogramming of myeloid-derived suppressor cells in pancreatic cancer. J Immunother Cancer 2019 Nov 6;7(1):288. PMID: 31694706
  • Jiang L, Xue C, Dai S, Chen S et al. DESE: estimating driver tissues by selective expression of genes associated with complex diseases or traits. Genome Biol 2019 Nov 6;20(1):233. PMID: 31694669
  • Marcišauskas S, Ji B, Nielsen J et al. Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model. BMC Bioinformatics 2019 Nov 6;20(1):551. PMID: 31694544
  • Yang PP, Yu XH, Zhou J et al. Tryptophanyl-tRNA synthetase (WARS) expression in uveal melanoma - possible contributor during uveal melanoma progression. Biosci Biotechnol Biochem 2020 Mar;84(3):471-480. PMID: 31694485
  • Barreiro-Alonso A, Cámara-Quílez M, Salamini-Montemurri M, Lamas-Maceiras M et al. Characterization of HMGB1/2 Interactome in Prostate Cancer by Yeast Two Hybrid Approach: Potential Pathobiological Implications. Cancers (Basel) 2019 Nov 5;11(11). PMID: 31694235
  • Lin HP, Ho HM, Chang CW, Yeh SD et al. DUSP22 suppresses prostate cancer proliferation by targeting the EGFR-AR axis. FASEB J 2019 Dec;33(12):14653-14667. PMID: 31693867
  • Weizman EN, Tannenbaum M, Tarrant AM, Hakim O et al. Chromatin dynamics enable transcriptional rhythms in the cnidarian Nematostella vectensis. PLoS Genet 2019 Nov;15(11):e1008397. PMID: 31693674
  • He P, Mo XB, Lei SF, Deng FY et al. Epigenetically regulated co-expression network of genes significant for rheumatoid arthritis. Epigenomics 2019 Nov;11(14):1601-1612. PMID: 31693422
  • Wang ZL, Wang C, Liu W, Ai ZL et al. Emerging roles of the long non-coding RNA 01296/microRNA-143-3p/MSI2 axis in development of thyroid cancer. Biosci Rep 2019 Nov 29;39(11). PMID: 31693087
  • Zhang D, Hou J, Wu Y, Liu Y et al. Distinct gene expression characteristics in epithelial cell-Porphyromonas gingivalis interactions by integrating transcriptome analyses. Int J Med Sci 2019;16(10):1320-1327. PMID: 31692996
  • Rojec M, Hocher A, Stevens KM, Merkenschlager M et al. Chromatinization of Escherichia coli with archaeal histones. Elife 2019 Nov 6;8. PMID: 31692448
  • Luo D, Liang XZ, Xu B, Liu JB et al. Rapid Discovery of Potential Drugs for Osteonecrosis of Femoral Head Based on Gene Expression Omnibus Database and Connectivity Map. Orthop Surg 2019 Dec;11(6):1209-1219. PMID: 31692295
  • Liu F, Liao Z, Song J, Yuan C et al. Genome-wide screening diagnostic biomarkers and the construction of prognostic model of hepatocellular carcinoma. J Cell Biochem 2020 Mar;121(3):2582-2594. PMID: 31692036
  • Song F, Xuan Z, Yang X, Ye X et al. Identification of key microRNAs and hub genes in non-small-cell lung cancer using integrative bioinformatics and functional analyses. J Cell Biochem 2020 Mar;121(3):2690-2703. PMID: 31692035
  • Yao J, Zhang Z, Li S, Li B et al. Melittin inhibits proliferation, migration and invasion of bladder cancer cells by regulating key genes based on bioinformatics and experimental assays. J Cell Mol Med 2020 Jan;24(1):655-670. PMID: 31691530
  • Lauer V, Grampp S, Platt J, Lafleur V et al. Hypoxia drives glucose transporter 3 expression through hypoxia-inducible transcription factor (HIF)-mediated induction of the long noncoding RNA NICI. J Biol Chem 2020 Mar 27;295(13):4065-4078. PMID: 31690629
  • Zhang S, Zhao X, Xu S, Yuan J et al. Low free triiodothyronineis predicts worsen neurological outcome of patients with acute ischemic stroke: a retrospective study with bioinformatics analysis. BMC Neurol 2019 Nov 5;19(1):272. PMID: 31690277
  • Zhao X, Liu J, Liu S, Yang F et al. Construction and Validation of an Immune-Related Prognostic Model Based on TP53 Status in Colorectal Cancer. Cancers (Basel) 2019 Nov 4;11(11). PMID: 31689990
  • Chen Z, Ju H, Zhao T, Yu S et al. hsa_circ_0092306 Targeting miR-197-3p Promotes Gastric Cancer Development by Regulating PRKCB in MKN-45 Cells. Mol Ther Nucleic Acids 2019 Dec 6;18:617-626. PMID: 31689616
  • Park TH, Kim D, Lee YS, Kim SY et al. A meta-analysis to identify novel diagnostic and therapeutic targets for Dupuytren's disease. Wound Repair Regen 2020 Mar;28(2):202-210. PMID: 31688987
  • Sauerwald N, Singhal A, Kingsford C et al. Analysis of the structural variability of topologically associated domains as revealed by Hi-C. NAR Genom Bioinform 2020 Mar;2(1). PMID: 31687663
  • Shen SM, Zhang C, Ge MK, Dong SS et al. PTENα and PTENβ promote carcinogenesis through WDR5 and H3K4 trimethylation. Nat Cell Biol 2019 Nov;21(11):1436-1448. PMID: 31685992
  • Seo D, Jung SM, Park JS, Lee J et al. The deubiquitinating enzyme PSMD14 facilitates tumor growth and chemoresistance through stabilizing the ALK2 receptor in the initiation of BMP6 signaling pathway. EBioMedicine 2019 Nov;49:55-71. PMID: 31685442
  • Segura-Lepe MP, Keun HC, Ebbels TMD et al. Predictive modelling using pathway scores: robustness and significance of pathway collections. BMC Bioinformatics 2019 Nov 4;20(1):543. PMID: 31684857
  • Huang YM, Cheng CH, Pan SL, Yang PM et al. Gene Expression Signature-Based Approach Identifies Antifungal Drug Ciclopirox As a Novel Inhibitor of HMGA2 in Colorectal Cancer. Biomolecules 2019 Nov 2;9(11). PMID: 31684108
  • IJpma A, Te Riet L, van de Luijtgaarden KM, van Heijningen PM et al. Inflammation and TGF-β Signaling Differ between Abdominal Aneurysms and Occlusive Disease. J Cardiovasc Dev Dis 2019 Nov 1;6(4). PMID: 31683995
  • Salataj E, Stathopoulou C, Hafþórsson RA, Nikolaou C et al. Developmental conservation of microRNA gene localization at the nuclear periphery. PLoS One 2019;14(11):e0223759. PMID: 31682635
  • Jansen C, Ramirez RN, El-Ali NC, Gomez-Cabrero D et al. Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps. PLoS Comput Biol 2019 Nov;15(11):e1006555. PMID: 31682608
  • Vijayabaskar MS, Goode DK, Obier N, Lichtinger M et al. Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells: An integrative approach using high-throughput datasets. PLoS Comput Biol 2019 Nov;15(11):e1007337. PMID: 31682597
  • Hahn MA, Jin SG, Li AX, Liu J et al. Reprogramming of DNA methylation at NEUROD2-bound sequences during cortical neuron differentiation. Sci Adv 2019 Oct;5(10):eaax0080. PMID: 31681843
  • Huang GZ, Wu QQ, Zheng ZN, Shao TR et al. Identification of Candidate Biomarkers and Analysis of Prognostic Values in Oral Squamous Cell Carcinoma. Front Oncol 2019;9:1054. PMID: 31681590
  • Wang Y, Chen L, Ju L, Qian K et al. Novel Biomarkers Associated With Progression and Prognosis of Bladder Cancer Identified by Co-expression Analysis. Front Oncol 2019;9:1030. PMID: 31681575
  • Li W, Wang H, Ma Z, Zhang J et al. Multi-omics Analysis of Microenvironment Characteristics and Immune Escape Mechanisms of Hepatocellular Carcinoma. Front Oncol 2019;9:1019. PMID: 31681571
  • Ahmed FIntegrated Network Analysis Reveals FOXM1 and MYBL2 as Key Regulators of Cell Proliferation in Non-small Cell Lung Cancer. Front Oncol 2019;9:1011. PMID: 31681566
  • Soufan O, Ewald J, Viau C, Crump D et al. T1000: a reduced gene set prioritized for toxicogenomic studies. PeerJ 2019;7:e7975. PMID: 31681519
  • Cheng X, Wang S, Xu D, Liu X et al. Identification and Analysis of the GASR Gene Family in Common Wheat (Triticum aestivum L.) and Characterization of TaGASR34, a Gene Associated With Seed Dormancy and Germination. Front Genet 2019;10:980. PMID: 31681420
  • Hou Y, Zhang R, Sun X et al. Enhancer LncRNAs Influence Chromatin Interactions in Different Ways. Front Genet 2019;10:936. PMID: 31681405
  • Corley MJ, Vargas-Maya N, Pang APS, Lum-Jones A et al. Epigenetic Delay in the Neurodevelopmental Trajectory of DNA Methylation States in Autism Spectrum Disorders. Front Genet 2019;10:907. PMID: 31681403
  • Roelands J, Garand M, Hinchcliff E, Ma Y et al. Long-Chain Acyl-CoA Synthetase 1 Role in Sepsis and Immunity: Perspectives From a Parallel Review of Public Transcriptome Datasets and of the Literature. Front Immunol 2019;10:2410. PMID: 31681299
  • Ye L, Zhang T, Kang Z, Guo G et al. Tumor-Infiltrating Immune Cells Act as a Marker for Prognosis in Colorectal Cancer. Front Immunol 2019;10:2368. PMID: 31681276
  • Liu C, Wang K, Zhuang J, Gao C et al. The Modulatory Properties of Astragalus membranaceus Treatment on Triple-Negative Breast Cancer: An Integrated Pharmacological Method. Front Pharmacol 2019;10:1171. PMID: 31680955
  • Lv J, Guo Y, Yan L, Lu Y et al. Development and validation of a five-lncRNA signature with prognostic value in colon cancer. J Cell Biochem 2020 Aug;121(8-9):3780-3793. PMID: 31680309
  • Tan-Wong SM, Dhir S, Proudfoot NJ et al. R-Loops Promote Antisense Transcription across the Mammalian Genome. Mol Cell 2019 Nov 21;76(4):600-616.e6. PMID: 31679819
  • Tang S, Huang T, Jing H, Huang Z et al. Aldehyde dehydrogenase-2 acts as a potential genetic target for renal fibrosis. Life Sci 2019 Dec 15;239:117015. PMID: 31678551
  • Gamble J, Chick J, Seltzer K, Graber JH et al. An expanded mouse testis transcriptome and mass spectrometry defines novel proteins. Reproduction 2020 Jan;159(1):15-26. PMID: 31677600
  • Zhang Y, Du H, Li Y, Yuan Y et al. Elevated TRIM23 expression predicts cisplatin resistance in lung adenocarcinoma. Cancer Sci 2020 Feb;111(2):637-646. PMID: 31677335
  • Mohamed FEA, Khalil EZI, Toni NDM et al. Caveolin-1 Expression Together with VEGF can be a Predictor for Lung Metastasis and Poor Prognosis in Osteosarcoma. Pathol Oncol Res 2020 Jul;26(3):1787-1795. PMID: 31676993
  • Li M, Cao L, Mwimba M, Zhou Y et al. Comprehensive mapping of abiotic stress inputs into the soybean circadian clock. Proc Natl Acad Sci U S A 2019 Nov 19;116(47):23840-23849. PMID: 31676549
  • Yang F, Zhai Z, Luo X, Luo G et al. Bioinformatics identification of key candidate genes and pathways associated with systemic lupus erythematosus. Clin Rheumatol 2020 Feb;39(2):425-434. PMID: 31673979
  • Valbuena GN, Apostolidou S, Roberts R, Barnes J et al. The 14q32 maternally imprinted locus is a major source of longitudinally stable circulating microRNAs as measured by small RNA sequencing. Sci Rep 2019 Oct 31;9(1):15787. PMID: 31673048
  • Peskova L, Cerna K, Oppelt J, Mraz M et al. Oct4-mediated reprogramming induces embryonic-like microRNA expression signatures in human fibroblasts. Sci Rep 2019 Oct 31;9(1):15759. PMID: 31673026
  • Chervova O, Conde L, Guerra-Assunção JA, Moghul I et al. The Personal Genome Project-UK, an open access resource of human multi-omics data. Sci Data 2019 Oct 31;6(1):257. PMID: 31672996
  • Gomez-Cabrero D, Tarazona S, Ferreirós-Vidal I, Ramirez RN et al. STATegra, a comprehensive multi-omics dataset of B-cell differentiation in mouse. Sci Data 2019 Oct 31;6(1):256. PMID: 31672995
  • Ochsner SA, Abraham D, Martin K, Ding W et al. The Signaling Pathways Project, an integrated 'omics knowledgebase for mammalian cellular signaling pathways. Sci Data 2019 Oct 31;6(1):252. PMID: 31672983
  • Kim DH, Jang JH, Kwon OS, Cha HJ et al. Nuclear Factor Erythroid-Derived 2-Like 2-Induced Reductive Stress Favors Self-Renewal of Breast Cancer Stem-Like Cells via the FoxO3a-Bmi-1 Axis. Antioxid Redox Signal 2020 Jun;32(18):1313-1329. PMID: 31672029
  • Deng X, Das S, Valdez K, Camphausen K et al. SL-BioDP: Multi-Cancer Interactive Tool for Prediction of Synthetic Lethality and Response to Cancer Treatment. Cancers (Basel) 2019 Oct 29;11(11). PMID: 31671773
  • Mourits VP, Arts RJW, Novakovic B, Matzaraki V et al. The role of Toll-like receptor 10 in modulation of trained immunity. Immunology 2020 Mar;159(3):289-297. PMID: 31671203
  • Wang N, He L, Yang Y, Li S et al. Integrated analysis of competing endogenous RNA (ceRNA) networks in subacute stage of spinal cord injury. Gene 2020 Feb 5;726:144171. PMID: 31669638
  • Malliaraki N, Lakiotaki K, Vamvoukaki R, Notas G et al. Translating vitamin D transcriptomics to clinical evidence: Analysis of data in asthma and chronic obstructive pulmonary disease, followed by clinical data meta-analysis. J Steroid Biochem Mol Biol 2020 Mar;197:105505. PMID: 31669573
  • D'Antonio-Chronowska A, Donovan MKR, Young Greenwald WW, Nguyen JP et al. Association of Human iPSC Gene Signatures and X Chromosome Dosage with Two Distinct Cardiac Differentiation Trajectories. Stem Cell Reports 2019 Nov 12;13(5):924-938. PMID: 31668852
  • Unterleuthner D, Neuhold P, Schwarz K, Janker L et al. Cancer-associated fibroblast-derived WNT2 increases tumor angiogenesis in colon cancer. Angiogenesis 2020 May;23(2):159-177. PMID: 31667643
  • Cheng CF, Ku HC, Cheng JJ, Chao SW et al. Adipocyte browning and resistance to obesity in mice is induced by expression of ATF3. Commun Biol 2019;2:389. PMID: 31667363
  • Liu Z, Zhang R, Chen X, Yao P et al. Identification of hub genes and small-molecule compounds related to intracerebral hemorrhage with bioinformatics analysis. PeerJ 2019;7:e7782. PMID: 31667013
  • Kim H, Kim B, Il Kim S, Kim HJ et al. S100A4 released from highly bone-metastatic breast cancer cells plays a critical role in osteolysis. Bone Res 2019;7:30. PMID: 31667000
  • Gupta N, Park JE, Tse W, Low JK et al. ERO1α promotes hypoxic tumor progression and is associated with poor prognosis in pancreatic cancer. Oncotarget 2019 Oct 15;10(57):5970-5982. PMID: 31666928
  • Goetzke R, Keijdener H, Franzen J, Ostrowska A et al. Differentiation of Induced Pluripotent Stem Cells towards Mesenchymal Stromal Cells is Hampered by Culture in 3D Hydrogels. Sci Rep 2019 Oct 30;9(1):15578. PMID: 31666572
  • Poppenberg KE, Jiang K, Tso MK, Snyder KV et al. Epigenetic landscapes suggest that genetic risk for intracranial aneurysm operates on the endothelium. BMC Med Genomics 2019 Oct 30;12(1):149. PMID: 31666072
  • Martín-Hernández R, Reglero G, Ordovás JM, Dávalos A et al. NutriGenomeDB: a nutrigenomics exploratory and analytical platform. Database (Oxford) 2019 Jan 1;2019. PMID: 31665759
  • Pham D, Moseley CE, Gao M, Savic D et al. Batf Pioneers the Reorganization of Chromatin in Developing Effector T Cells via Ets1-Dependent Recruitment of Ctcf. Cell Rep 2019 Oct 29;29(5):1203-1220.e7. PMID: 31665634
  • McMackin MZ, Durbin-Johnson B, Napierala M, Napierala JS et al. Potential biomarker identification for Friedreich's ataxia using overlapping gene expression patterns in patient cells and mouse dorsal root ganglion. PLoS One 2019;14(10):e0223209. PMID: 31665133
  • Chen J, Liu G, Wu Y, Ma J et al. CircMYO10 promotes osteosarcoma progression by regulating miR-370-3p/RUVBL1 axis to enhance the transcriptional activity of β-catenin/LEF1 complex via effects on chromatin remodeling. Mol Cancer 2019 Oct 29;18(1):150. PMID: 31665067
  • Leng X, Wei H, Xu X, Ghuge SA et al. Genome-wide identification and transcript analysis of TCP transcription factors in grapevine. BMC Genomics 2019 Oct 29;20(1):786. PMID: 31664916
  • Qi X, Yu C, Wang Y, Lin Y et al. Network vulnerability-based and knowledge-guided identification of microRNA biomarkers indicating platinum resistance in high-grade serous ovarian cancer. Clin Transl Med 2019 Oct 29;8(1):28. PMID: 31664600
  • Ivashko-Pachima Y, Hadar A, Grigg I, Korenková V et al. Discovery of autism/intellectual disability somatic mutations in Alzheimer's brains: mutated ADNP cytoskeletal impairments and repair as a case study. Mol Psychiatry 2021 May;26(5):1619-1633. PMID: 31664177
  • Bhagat TD, Von Ahrens D, Dawlaty M, Zou Y et al. Lactate-mediated epigenetic reprogramming regulates formation of human pancreatic cancer-associated fibroblasts. Elife 2019 Nov 1;8. PMID: 31663852
  • Datta A, Das P, Dey S, Ghuwalewala S et al. Genome-Wide Small RNA Sequencing Identifies MicroRNAs Deregulated in Non-Small Cell Lung Carcinoma Harboring Gain-of-Function Mutant p53. Genes (Basel) 2019 Oct 28;10(11). PMID: 31661871
  • Liu S, Deng X, Zhang J et al. Identification of dysregulated serum miR-508-3p and miR-885-5p as potential diagnostic biomarkers of clear cell renal carcinoma. Mol Med Rep 2019 Dec;20(6):5075-5083. PMID: 31661117
  • Zhu R, Yang X, Guo W, Xu XJ et al. An eight-mRNA signature predicts the prognosis of patients with bladder urothelial carcinoma. PeerJ 2019;7:e7836. PMID: 31660264
  • Lu T, Chen S, Qu L, Wang Y et al. Identification of a five-miRNA signature predicting survival in cutaneous melanoma cancer patients. PeerJ 2019;7:e7831. PMID: 31660262
  • Táncsics A, Farkas M, Horváth B, Maróti G et al. Genome analysis provides insights into microaerobic toluene-degradation pathway of Zoogloea oleivorans Buc(T). Arch Microbiol 2020 Mar;202(2):421-426. PMID: 31659381
  • King JR, Wilson ML, Hetey S, Kiraly P et al. Dysregulation of Placental Functions and Immune Pathways in Complete Hydatidiform Moles. Int J Mol Sci 2019 Oct 10;20(20). PMID: 31658584
  • Olson A, Le V, Aldahl J, Yu EJ et al. The comprehensive role of E-cadherin in maintaining prostatic epithelial integrity during oncogenic transformation and tumor progression. PLoS Genet 2019 Oct;15(10):e1008451. PMID: 31658259
  • Ye L, Lin C, Wang X, Li Q et al. Epigenetic silencing of SALL2 confers tamoxifen resistance in breast cancer. EMBO Mol Med 2019 Dec;11(12):e10638. PMID: 31657150
  • Tsagris M, Tsamardinos I et al. Feature selection with the R package MXM. F1000Res 2018;7:1505. PMID: 31656581
  • Pokornowska M, Milewski MC, Ciechanowska K, Szczepańska A et al. The RNA-RNA base pairing potential of human Dicer and Ago2 proteins. Cell Mol Life Sci 2020 Aug;77(16):3231-3244. PMID: 31655860
  • Fattahi F, Kiani J, Khosravi M, Vafaei S et al. Enrichment of Up-regulated and Down-regulated Gene Clusters Using Gene Ontology, miRNAs and lncRNAs in Colorectal Cancer. Comb Chem High Throughput Screen 2019;22(8):534-545. PMID: 31654507
  • Shi Y, Fan S, Wu M, Zuo Z et al. YTHDF1 links hypoxia adaptation and non-small cell lung cancer progression. Nat Commun 2019 Oct 25;10(1):4892. PMID: 31653849
  • Kuijjer ML, Hsieh PH, Quackenbush J, Glass K et al. lionessR: single sample network inference in R. BMC Cancer 2019 Oct 25;19(1):1003. PMID: 31653243
  • Ibn-Salem J, Andrade-Navarro MA et al. 7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs. BMC Genomics 2019 Oct 25;20(1):777. PMID: 31653198
  • Thangavel H, De Angelis C, Vasaikar S, Bhat R et al. A CTC-Cluster-Specific Signature Derived from OMICS Analysis of Patient-Derived Xenograft Tumors Predicts Outcomes in Basal-Like Breast Cancer. J Clin Med 2019 Oct 24;8(11). PMID: 31652963
  • Saha SK, Biswas PK, Gil M, Cho SG et al. High Expression of TTYH3 is Related to Poor Clinical Outcomes in Human Gastric Cancer. J Clin Med 2019 Oct 23;8(11). PMID: 31652813
  • Ho CL, Geisler M et al. Genome-Wide Computational Identification of Biologically Significant Cis-Regulatory Elements and Associated Transcription Factors from Rice. Plants (Basel) 2019 Oct 23;8(11). PMID: 31652796
  • Alam I, Liu CC, Ge HL, Batool K et al. Genome wide survey, evolution and expression analysis of PHD finger genes reveal their diverse roles during the development and abiotic stress responses in Brassica rapa L. BMC Genomics 2019 Oct 24;20(1):773. PMID: 31651238
  • Wang Y, Zeng L, Liang C, Zan R et al. Integrated analysis of transcriptome-wide m(6)A methylome of osteosarcoma stem cells enriched by chemotherapy. Epigenomics 2019 Nov 1;11(15):1693-1715. PMID: 31650864
  • Yan H, Qu J, Cao W, Liu Y et al. Identification of prognostic genes in the acute myeloid leukemia immune microenvironment based on TCGA data analysis. Cancer Immunol Immunother 2019 Dec;68(12):1971-1978. PMID: 31650199
  • Rezaei Javan R, Ramos-Sevillano E, Akter A, Brown J et al. Prophages and satellite prophages are widespread in Streptococcus and may play a role in pneumococcal pathogenesis. Nat Commun 2019 Oct 24;10(1):4852. PMID: 31649284
  • Gittens WH, Johnson DJ, Allison RM, Cooper TJ et al. A nucleotide resolution map of Top2-linked DNA breaks in the yeast and human genome. Nat Commun 2019 Oct 24;10(1):4846. PMID: 31649282
  • Lhoumaud P, Badri S, Rodriguez-Hernaez J, Sakellaropoulos T et al. NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains. Nat Commun 2019 Oct 24;10(1):4843. PMID: 31649247
  • Vahrenkamp JM, Szczotka K, Dodson MK, Jarboe EA et al. FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples. Genome Res 2019 Nov;29(11):1826-1835. PMID: 31649055
  • Baquero-Perez B, Antanaviciute A, Yonchev ID, Carr IM et al. The Tudor SND1 protein is an m(6)A RNA reader essential for replication of Kaposi's sarcoma-associated herpesvirus. Elife 2019 Oct 24;8. PMID: 31647415
  • Filomena MC, Yamamoto DL, Caremani M, Kadarla VK et al. Myopalladin promotes muscle growth through modulation of the serum response factor pathway. J Cachexia Sarcopenia Muscle 2020 Feb;11(1):169-194. PMID: 31647200
  • Zheng Y, Han J, Wang B, Hu X et al. Characterization and repurposing of the endogenous Type I-F CRISPR-Cas system of Zymomonas mobilis for genome engineering. Nucleic Acids Res 2019 Dec 2;47(21):11461-11475. PMID: 31647102
  • Wang Y, Gao R, Wu J, Xiong YC et al. Comparison of cytosine base editors and development of the BEable-GPS database for targeting pathogenic SNVs. Genome Biol 2019 Oct 23;20(1):218. PMID: 31647030
  • Fu Y, Qi L, Guo W, Jin L et al. A qualitative transcriptional signature for predicting microsatellite instability status of right-sided Colon Cancer. BMC Genomics 2019 Oct 23;20(1):769. PMID: 31646964
  • Sriram K, Wiley SZ, Moyung K, Gorr MW et al. Detection and Quantification of GPCR mRNA: An Assessment and Implications of Data from High-Content Methods. ACS Omega 2019 Oct 15;4(16):17048-17059. PMID: 31646252
  • Matsumoto Y, Nakanishi Y, Yoshioka T, Yamaga Y et al. Epithelial EP4 plays an essential role in maintaining homeostasis in colon. Sci Rep 2019 Oct 23;9(1):15244. PMID: 31645712
  • Li M, Wang P, Zhang N, Guo L et al. Identification of genes of four malignant tumors and a novel prediction model development based on PPI data and support vector machines. Cancer Gene Ther 2020 Sep;27(9):715-725. PMID: 31645679
  • Neidlin M, Dimitrakopoulou S, Alexopoulos LG et al. Multi-tissue network analysis for drug prioritization in knee osteoarthritis. Sci Rep 2019 Oct 23;9(1):15176. PMID: 31645614
  • Cocce KJ, Jasper JS, Desautels TK, Everett L et al. The Lineage Determining Factor GRHL2 Collaborates with FOXA1 to Establish a Targetable Pathway in Endocrine Therapy-Resistant Breast Cancer. Cell Rep 2019 Oct 22;29(4):889-903.e10. PMID: 31644911
  • Sun D, Han L, Cao R, Wang H et al. Prediction of a miRNA-mRNA functional synergistic network for cervical squamous cell carcinoma. FEBS Open Bio 2019 Dec;9(12):2080-2092. PMID: 31642613
  • Zheng Y, Yu K, Huang C, Liu L et al. Integrated bioinformatics analysis reveals role of the LINC01093/miR-96-5p/ZFAND5/NF-κB signaling axis in hepatocellular carcinoma. Exp Ther Med 2019 Nov;18(5):3853-3860. PMID: 31641376
  • Santibáñez R, Garrido D, Martin AJM et al. Pleione: A tool for statistical and multi-objective calibration of Rule-based models. Sci Rep 2019 Oct 22;9(1):15104. PMID: 31641245
  • Sagar V, Vatapalli R, Lysy B, Pamarthy S et al. EPHB4 inhibition activates ER stress to promote immunogenic cell death of prostate cancer cells. Cell Death Dis 2019 Oct 22;10(11):801. PMID: 31641103
  • Toth R, Schiffmann H, Hube-Magg C, Büscheck F et al. Random forest-based modelling to detect biomarkers for prostate cancer progression. Clin Epigenetics 2019 Oct 22;11(1):148. PMID: 31640781
  • Su F, Wang BF, Zhang T, Hou XM et al. TRPM7 deficiency suppresses cell proliferation, migration, and invasion in human colorectal cancer via regulation of epithelial-mesenchymal transition. Cancer Biomark 2019;26(4):451-460. PMID: 31640089
  • Zhu Z, He A, Lv T, Xu C et al. Overexpression of P4HB is correlated with poor prognosis in human clear cell renal cell carcinoma. Cancer Biomark 2019;26(4):431-439. PMID: 31640086
  • Yang L, Jiang Q, Li DZ, Zhou X et al. TIMP1 mRNA in tumor-educated platelets is diagnostic biomarker for colorectal cancer. Aging (Albany NY) 2019 Oct 22;11(20):8998-9012. PMID: 31639773
  • Sheikh Hassani M, Green JR et al. A semi-supervised machine learning framework for microRNA classification. Hum Genomics 2019 Oct 22;13(Suppl 1):43. PMID: 31639051
  • Cao Y, Tang W, Tang W et al. Immune cell infiltration characteristics and related core genes in lupus nephritis: results from bioinformatic analysis. BMC Immunol 2019 Oct 21;20(1):37. PMID: 31638917
  • Ba Y, Su L, Liu M, Yuan Q et al. [Bioinformatical analysis of differently expressed genes related to mitochondrial function in systemic sclerosis]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2019 Aug;35(8):707-713. PMID: 31638568
  • Dong X, Yu X, Li H, Kang H et al. Identification of Marker Genes and Pathways in Patients with Primary Biliary Cholangitis. J Comput Biol 2020 Jun;27(6):923-933. PMID: 31638426
  • Zhang M, Di CY, Guo P, Meng LB et al. Screening and Identification of Key Biomarkers in Pancreatic Cancer: Evidence from Bioinformatic Analysis. J Comput Biol 2020 Jul;27(7):1079-1091. PMID: 31638423
  • Nie K, Shi L, Wen Y, Pan J et al. Identification of hub genes correlated with the pathogenesis and prognosis of gastric cancer via bioinformatics methods. Minerva Med 2020 Jun;111(3):213-225. PMID: 31638362
  • Zhu B, Xue F, Li G, Zhang C et al. CRYAB promotes osteogenic differentiation of human bone marrow stem cells via stabilizing β-catenin and promoting the Wnt signalling. Cell Prolif 2020 Jan;53(1):e12709. PMID: 31638302
  • Li CY, Zhang WW, Xiang JL, Wang XH et al. Integrated analysis highlights multiple long non‑coding RNAs and their potential roles in the progression of human esophageal squamous cell carcinoma. Oncol Rep 2019 Dec;42(6):2583-2599. PMID: 31638253
  • Wu HY, Xia S, Liu AG, Wei MD et al. Upregulation of miR‑132‑3p in cholangiocarcinoma tissues: A study based on RT‑qPCR, The Cancer Genome Atlas miRNA sequencing, Gene Expression Omnibus microarray data and bioinformatics analyses. Mol Med Rep 2019 Dec;20(6):5002-5020. PMID: 31638221
  • Wang M, Xie S, Yuan W, Xie T et al. Minichromosome maintenance protein 10 as a marker for proliferation and prognosis in lung cancer. Int J Oncol 2019 Dec;55(6):1349-1360. PMID: 31638210
  • Freese K, Seitz T, Dietrich P, Lee SML et al. Histone Deacetylase Expressions in Hepatocellular Carcinoma and Functional Effects of Histone Deacetylase Inhibitors on Liver Cancer Cells In Vitro. Cancers (Basel) 2019 Oct 18;11(10). PMID: 31635225
  • Kong L, Zhang L et al. i6mA-DNCP: Computational Identification of DNA N(6)-Methyladenine Sites in the Rice Genome Using Optimized Dinucleotide-Based Features. Genes (Basel) 2019 Oct 20;10(10). PMID: 31635172
  • Picardo F, Romanelli A, Muinelo-Romay L, Mazza T et al. Diagnostic and Prognostic Value of B4GALT1 Hypermethylation and Its Clinical Significance as a Novel Circulating Cell-Free DNA Biomarker in Colorectal Cancer. Cancers (Basel) 2019 Oct 19;11(10). PMID: 31635093
  • Zhang X, Pavlicev M, Jones HN, Muglia LJ et al. Eutherian-Specific Gene TRIML2 Attenuates Inflammation in the Evolution of Placentation. Mol Biol Evol 2020 Feb 1;37(2):507-523. PMID: 31633784
  • Murphy DP, Hughes AE, Lawrence KA, Myers CA et al. Cis-regulatory basis of sister cell type divergence in the vertebrate retina. Elife 2019 Oct 21;8. PMID: 31633482
  • Kong J, Wang T, Zhang Z, Yang X et al. Five Core Genes Related to the Progression and Prognosis of Hepatocellular Carcinoma Identified by Analysis of a Coexpression Network. DNA Cell Biol 2019 Dec;38(12):1564-1576. PMID: 31633379
  • Yang Y, Yan R, Zhang L, Meng X et al. Primary glioblastoma transcriptome data analysis for screening survival-related genes. J Cell Biochem 2020 Feb;121(2):1901-1910. PMID: 31633244
  • Ng HI, Tuong ZK, Fernando GJP, Depelsenaire ACI et al. Microprojection arrays applied to skin generate mechanical stress, induce an inflammatory transcriptome and cell death, and improve vaccine-induced immune responses. NPJ Vaccines 2019;4:41. PMID: 31632742
  • Ye N, Jiang N, Feng C, Wang F et al. Combined Therapy Sensitivity Index Based on a 13-Gene Signature Predicts Prognosis for IDH Wild-type and MGMT Promoter Unmethylated Glioblastoma Patients. J Cancer 2019;10(22):5536-5548. PMID: 31632497
  • Liu L, Liu X, Dong Z, Li J et al. N6-methyladenosine-related Genomic Targets are Altered in Breast Cancer Tissue and Associated with Poor Survival. J Cancer 2019;10(22):5447-5459. PMID: 31632489
  • Zhang L, Luo B, Dang YW, He RQ et al. Clinical Significance of microRNA-196b-5p in Hepatocellular Carcinoma and its Potential Molecular Mechanism. J Cancer 2019;10(22):5355-5370. PMID: 31632480
  • Cheng Q, Huang C, Cao H, Lin J et al. A Novel Prognostic Signature of Transcription Factors for the Prediction in Patients With GBM. Front Genet 2019;10:906. PMID: 31632439
  • Zhang H, Lu Y, Wu J, Feng J et al. LINC00460 Hypomethylation Promotes Metastasis in Colorectal Carcinoma. Front Genet 2019;10:880. PMID: 31632435
  • Khokhar W, Hassan MA, Reddy ASN, Chaudhary S et al. Genome-Wide Identification of Splicing Quantitative Trait Loci (sQTLs) in Diverse Ecotypes of Arabidopsis thaliana. Front Plant Sci 2019;10:1160. PMID: 31632417
  • Lai YW, Pang CNI, Campbell LT, Chen SCA et al. Different Pathways Mediate Amphotericin-Lactoferrin Drug Synergy in Cryptococcus and Saccharomyces. Front Microbiol 2019;10:2195. PMID: 31632362
  • Li P, Chen C, Zhang W, Yu D et al. Detection of Vasodilators From Herbal Components by a Transcriptome-Based Functional Gene Module Reference Approach. Front Pharmacol 2019;10:1144. PMID: 31632278
  • Wang Y, Li H, Ma J, Fang T et al. Integrated Bioinformatics Data Analysis Reveals Prognostic Significance Of SIDT1 In Triple-Negative Breast Cancer. Onco Targets Ther 2019;12:8401-8410. PMID: 31632087
  • Chen D, Wu H, He B, Lu Y et al. Five Hub Genes Can Be The Potential DNA Methylation Biomarkers For Cholangiocarcinoma Using Bioinformatics Analysis. Onco Targets Ther 2019;12:8355-8365. PMID: 31632083
  • Zhai S, Liu Y, Lu X, Qian H et al. INPP4B As A Prognostic And Diagnostic Marker Regulates Cell Growth Of Pancreatic Cancer Via Activating AKT. Onco Targets Ther 2019;12:8287-8299. PMID: 31632078
  • Hu YH, Ma S, Zhang XN, Zhang ZY et al. Hypermethylation Of ADHFE1 Promotes The Proliferation Of Colorectal Cancer Cell Via Modulating Cell Cycle Progression. Onco Targets Ther 2019;12:8105-8115. PMID: 31632063
  • Zhong S, Chen C, Liu N, Yang L et al. Overexpression Of hsa-miR-664a-3p Is Associated With Cigarette Smoke-Induced Chronic Obstructive Pulmonary Disease Via Targeting FHL1. Int J Chron Obstruct Pulmon Dis 2019;14:2319-2329. PMID: 31632001
  • Brooks MJ, Chen HY, Kelley RA, Mondal AK et al. Improved Retinal Organoid Differentiation by Modulating Signaling Pathways Revealed by Comparative Transcriptome Analyses with Development In Vivo. Stem Cell Reports 2019 Nov 12;13(5):891-905. PMID: 31631019
  • Xie SZ, Garcia-Prat L, Voisin V, Ferrari R et al. Sphingolipid Modulation Activates Proteostasis Programs to Govern Human Hematopoietic Stem Cell Self-Renewal. Cell Stem Cell 2019 Nov 7;25(5):639-653.e7. PMID: 31631013
  • Lee BK, Jang YJ, Kim M, LeBlanc L et al. Super-enhancer-guided mapping of regulatory networks controlling mouse trophoblast stem cells. Nat Commun 2019 Oct 18;10(1):4749. PMID: 31628347
  • Hu T, Chong Y, Cai B, Liu Y et al. DNA methyltransferase 1-mediated CpG methylation of the miR-150-5p promoter contributes to fibroblast growth factor receptor 1-driven leukemogenesis. J Biol Chem 2019 Nov 29;294(48):18122-18130. PMID: 31628193
  • Sailer V, Sailer U, Bawden EG, Zarbl R et al. DNA methylation of indoleamine 2,3-dioxygenase 1 (IDO1) in head and neck squamous cell carcinomas correlates with IDO1 expression, HPV status, patients' survival, immune cell infiltrates, mutational load, and interferon γ signature. EBioMedicine 2019 Oct;48:341-352. PMID: 31628024
  • Li R, Zhong C, Yu Y, Liu H et al. Generation of Blastocyst-like Structures from Mouse Embryonic and Adult Cell Cultures. Cell 2019 Oct 17;179(3):687-702.e18. PMID: 31626770
  • Madaro L, Torcinaro A, De Bardi M, Contino FF et al. Macrophages fine tune satellite cell fate in dystrophic skeletal muscle of mdx mice. PLoS Genet 2019 Oct;15(10):e1008408. PMID: 31626629
  • Hartman ML, Czyz M et al. TYRP1 mRNA level is stable and MITF-M-independent in drug-naïve, vemurafenib- and trametinib-resistant BRAF(V600E) melanoma cells. Arch Dermatol Res 2020 Jul;312(5):385-392. PMID: 31624899
  • Saida S, Zhen T, Kim E, Yu K et al. Gata2 deficiency delays leukemogenesis while contributing to aggressive leukemia phenotype in Cbfb-MYH11 knockin mice. Leukemia 2020 Mar;34(3):759-770. PMID: 31624376
  • Klein BJ, Jang SM, Lachance C, Mi W et al. Histone H3K23-specific acetylation by MORF is coupled to H3K14 acylation. Nat Commun 2019 Oct 17;10(1):4724. PMID: 31624313
  • Szabo PA, Levitin HM, Miron M, Snyder ME et al. Single-cell transcriptomics of human T cells reveals tissue and activation signatures in health and disease. Nat Commun 2019 Oct 17;10(1):4706. PMID: 31624246
  • Cheung CHY, Hsu CL, Tsuei CY, Kuo TT et al. Combinatorial targeting of MTHFD2 and PAICS in purine synthesis as a novel therapeutic strategy. Cell Death Dis 2019 Oct 17;10(11):786. PMID: 31624245
  • Zhang S, Wu Z, Xie J, Yang Y et al. DNA methylation exploration for ARDS: a multi-omics and multi-microarray interrelated analysis. J Transl Med 2019 Oct 17;17(1):345. PMID: 31623626
  • Chen R, Xin G, Zhang X et al. Long non-coding RNA HCP5 serves as a ceRNA sponging miR-17-5p and miR-27a/b to regulate the pathogenesis of childhood obesity via the MAPK signaling pathway. J Pediatr Endocrinol Metab 2019 Dec 18;32(12):1327-1339. PMID: 31622249
  • Quan D, Chen K, Zhang J, Guan Y et al. Identification of lncRNA NEAT1/miR-21/RRM2 axis as a novel biomarker in breast cancer. J Cell Physiol 2020 Apr;235(4):3372-3381. PMID: 31621912
  • Li Q, Zhang LY, Wu S, Huang C et al. Bioinformatics Analysis Identifies MicroRNAs and Target Genes Associated with Prognosis in Patients with Melanoma. Med Sci Monit 2019 Oct 17;25:7784-7794. PMID: 31621692
  • Katholnig K, Schütz B, Fritsch SD, Schörghofer D et al. Inactivation of mTORC2 in macrophages is a signature of colorectal cancer that promotes tumorigenesis. JCI Insight 2019 Oct 17;4(20). PMID: 31619583
  • de Jong JJ, Liu Y, Robertson AG, Seiler R et al. Long non-coding RNAs identify a subset of luminal muscle-invasive bladder cancer patients with favorable prognosis. Genome Med 2019 Oct 17;11(1):60. PMID: 31619281
  • Palmer NP, Silvester JA, Lee JJ, Beam AL et al. Concordance between gene expression in peripheral whole blood and colonic tissue in children with inflammatory bowel disease. PLoS One 2019;14(10):e0222952. PMID: 31618209
  • Dong C, Fan W, Fang S et al. PBK as a Potential Biomarker Associated with Prognosis of Glioblastoma. J Mol Neurosci 2020 Jan;70(1):56-64. PMID: 31617063
  • Mitchell HD, Eisfeld AJ, Stratton KG, Heller NC et al. The Role of EGFR in Influenza Pathogenicity: Multiple Network-Based Approaches to Identify a Key Regulator of Non-lethal Infections. Front Cell Dev Biol 2019;7:200. PMID: 31616667
  • Wang B, Wang Z, Zhang T, Yang G et al. Overexpression of thymosin β10 correlates with disease progression and poor prognosis in bladder cancer. Exp Ther Med 2019 Nov;18(5):3759-3766. PMID: 31616507
  • Wei L, Lee D, Law CT, Zhang MS et al. Genome-wide CRISPR/Cas9 library screening identified PHGDH as a critical driver for Sorafenib resistance in HCC. Nat Commun 2019 Oct 15;10(1):4681. PMID: 31615983
  • Blank-Landeshammer B, Teichert I, Märker R, Nowrousian M et al. Combination of Proteogenomics with Peptide De Novo Sequencing Identifies New Genes and Hidden Posttranscriptional Modifications. mBio 2019 Oct 15;10(5). PMID: 31615963
  • Vitobello A, Perner J, Beil J, Zhu J et al. Drug-induced chromatin accessibility changes associate with sensitivity to liver tumor promotion. Life Sci Alliance 2019 Oct;2(5). PMID: 31615920
  • Hua KJ, Ma BG et al. EVR: reconstruction of bacterial chromosome 3D structure models using error-vector resultant algorithm. BMC Genomics 2019 Oct 15;20(1):738. PMID: 31615397
  • Choi JA, Kwon H, Cho H, Chung JY et al. ALDH1A2 Is a Candidate Tumor Suppressor Gene in Ovarian Cancer. Cancers (Basel) 2019 Oct 14;11(10). PMID: 31615043
  • Yu X, Wang M, Zuo J, Wahafu A et al. Nuclear factor I A promotes temozolomide resistance in glioblastoma via activation of nuclear factor κB pathway. Life Sci 2019 Nov 1;236:116917. PMID: 31614149
  • Suda K, Muraoka Y, Ortega-Yáñez A, Yoshida H et al. Reduction of Rpd3 suppresses defects in locomotive ability and neuronal morphology induced by the knockdown of Drosophila SLC25A46 via an epigenetic pathway. Exp Cell Res 2019 Dec 15;385(2):111673. PMID: 31614134
  • Ng PC, Wong ED, MacPherson KA, Aleksander S et al. Transcriptome visualization and data availability at the Saccharomyces Genome Database. Nucleic Acids Res 2020 Jan 8;48(D1):D743-D748. PMID: 31612944
  • Wang ZH, Liu Y, Chaitankar V, Pirooznia M et al. Electron transport chain biogenesis activated by a JNK-insulin-Myc relay primes mitochondrial inheritance in Drosophila. Elife 2019 Oct 15;8. PMID: 31612862
  • Gao L, Lin P, Chen P, Gao RZ et al. A novel risk signature that combines 10 long noncoding RNAs to predict neuroblastoma prognosis. J Cell Physiol 2020 Apr;235(4):3823-3834. PMID: 31612488
  • Wu M, Li X, Zhang T, Liu Z et al. Identification of a Nine-Gene Signature and Establishment of a Prognostic Nomogram Predicting Overall Survival of Pancreatic Cancer. Front Oncol 2019;9:996. PMID: 31612115
  • Zhu FX, Wang XT, Zeng HQ, Yin ZH et al. A predicted risk score based on the expression of 16 autophagy-related genes for multiple myeloma survival. Oncol Lett 2019 Nov;18(5):5310-5324. PMID: 31612041
  • Bian Q, Chen J, Qiu W, Peng C et al. Four targeted genes for predicting the prognosis of colorectal cancer: A bioinformatics analysis case. Oncol Lett 2019 Nov;18(5):5043-5054. PMID: 31612015
  • Wang H, Zhang Z, Xu K, Wei S et al. Exploration of estrogen receptor-associated hub genes and potential molecular mechanisms in non-smoking females with lung adenocarcinoma using integrated bioinformatics analysis. Oncol Lett 2019 Nov;18(5):4605-4612. PMID: 31611968
  • Huang G, Cheng W, Xi F et al. Integrated genomic and methylation profile analysis to identify candidate tumor marker genes in patients with colorectal cancer. Oncol Lett 2019 Nov;18(5):4503-4514. PMID: 31611959
  • Li Z, Sang M, Tian Z, Liu Z et al. Identification of key biomarkers and potential molecular mechanisms in lung cancer by bioinformatics analysis. Oncol Lett 2019 Nov;18(5):4429-4440. PMID: 31611952
  • Zhou Q, Yu Q, Gong Y, Liu Z et al. Construction of a lncRNA-miRNA-mRNA network to determine the regulatory roles of lncRNAs in psoriasis. Exp Ther Med 2019 Nov;18(5):4011-4021. PMID: 31611939
  • Jin X, Ma X, Zhu Y et al. Investigating Dysregulated Sub-Pathways for Preeclampsia Infants Based on lncRNA-mRNA Expression Data and Pathway Network. Ann Clin Lab Sci 2019 Sep;49(5):598-607. PMID: 31611202
  • Liu H, Feye KM, Nguyen YT, Rakhshandeh A et al. Acute systemic inflammatory response to lipopolysaccharide stimulation in pigs divergently selected for residual feed intake. BMC Genomics 2019 Oct 11;20(1):728. PMID: 31610780
  • Nuwer JL, Fleck MW et al. Anterograde trafficking signals in GABA(A) subunits are required for functional expression. Channels (Austin) 2019 Dec;13(1):440-454. PMID: 31610743
  • Park A, Nam S et al. Deep learning for stage prediction in neuroblastoma using gene expression data. Genomics Inform 2019 Sep;17(3):e30. PMID: 31610626
  • Ma X, Liu C, Xu X, Liu L et al. Biomarker expression analysis in different age groups revealed age was a risk factor for breast cancer. J Cell Physiol 2020 May;235(5):4268-4278. PMID: 31608996
  • Frew JW, Navrazhina K et al. In silico Analysis of Gamma-Secretase-Complex Mutations in Hidradenitis Suppurativa Demonstrates Disease-Specific Substrate Recognition and Cleavage Alterations. Front Med (Lausanne) 2019;6:206. PMID: 31608281
  • Chen S, Yang D, Lei C, Li Y et al. Identification of crucial genes in abdominal aortic aneurysm by WGCNA. PeerJ 2019;7:e7873. PMID: 31608184
  • Zhang X, Zhuang J, Liu L, He Z et al. Integrative transcriptome data mining for identification of core lncRNAs in breast cancer. PeerJ 2019;7:e7821. PMID: 31608179
  • Gu X, Li H, Sha L, Mao Y et al. CELSR3 mRNA expression is increased in hepatocellular carcinoma and indicates poor prognosis. PeerJ 2019;7:e7816. PMID: 31608178
  • Duroux-Richard I, Robin M, Peillex C, Apparailly F et al. MicroRNAs: Fine Tuners of Monocyte Heterogeneity. Front Immunol 2019;10:2145. PMID: 31608049
  • Gifford I, Vance S, Nguyen G, Berry AM et al. A Stable Genetic Transformation System and Implications of the Type IV Restriction System in the Nitrogen-Fixing Plant Endosymbiont Frankia alni ACN14a. Front Microbiol 2019;10:2230. PMID: 31608043
  • Yao Y, Jiang C, Wang F, Yan H et al. Integrative Analysis of miRNA and mRNA Expression Profiles Associated With Human Atrial Aging. Front Physiol 2019;10:1226. PMID: 31607954
  • Xiao Y, Yang Y, Wang Y, Li X et al. Five Novel Genes Related to the Pathogenesis and Progression of Pancreatic Neuroendocrine Tumors by Bioinformatics Analysis With RT-qPCR Verification. Front Neurosci 2019;13:937. PMID: 31607839
  • Yue B, Song C, Yang L, Cui R et al. METTL3-mediated N6-methyladenosine modification is critical for epithelial-mesenchymal transition and metastasis of gastric cancer. Mol Cancer 2019 Oct 13;18(1):142. PMID: 31607270
  • Zhang B, Babu KR, Lim CY, Kwok ZH et al. A comprehensive expression landscape of RNA-binding proteins (RBPs) across 16 human cancer types. RNA Biol 2020 Feb;17(2):211-226. PMID: 31607220
  • Zhang G, Wang H, Zhu K, Yang Y et al. Investigation of candidate molecular biomarkers for expression profile analysis of the Gene expression omnibus (GEO) in acute lymphocytic leukemia (ALL). Biomed Pharmacother 2019 Dec;120:109530. PMID: 31606621
  • Moridi H, Karimi J, Tavilani H, Khodadadi I et al. Overexpression of PURPL and downregulation of NONHSAT062994 as potential biomarkers in gastric cancer. Life Sci 2019 Nov 15;237:116904. PMID: 31606380
  • Ulz P, Perakis S, Zhou Q, Moser T et al. Inference of transcription factor binding from cell-free DNA enables tumor subtype prediction and early detection. Nat Commun 2019 Oct 11;10(1):4666. PMID: 31604930
  • Gardner EJ, Prigmore E, Gallone G, Danecek P et al. Contribution of retrotransposition to developmental disorders. Nat Commun 2019 Oct 11;10(1):4630. PMID: 31604926
  • Sommerfeld SD, Cherry C, Schwab RM, Chung L et al. Interleukin-36γ-producing macrophages drive IL-17-mediated fibrosis. Sci Immunol 2019 Oct 11;4(40). PMID: 31604843
  • Sayers EW, Beck J, Brister JR, Bolton EE et al. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2020 Jan 8;48(D1):D9-D16. PMID: 31602479
  • Beurton F, Stempor P, Caron M, Appert A et al. Physical and functional interaction between SET1/COMPASS complex component CFP-1 and a Sin3S HDAC complex in C. elegans. Nucleic Acids Res 2019 Dec 2;47(21):11164-11180. PMID: 31602465
  • Peters JM, Walter V, Patterson AD, Gonzalez FJ et al. Unraveling the role of peroxisome proliferator-activated receptor-β/δ (PPARβ/δ) expression in colon carcinogenesis. NPJ Precis Oncol 2019;3:26. PMID: 31602402
  • Yang L, Bian Y, Li Z, Yan Y et al. Identification of potential biomarkers and pathways in ulcerative colitis with combined public mRNA and miRNA expression microarray data analysis. J Gastrointest Oncol 2019 Oct;10(5):847-858. PMID: 31602322
  • Li M, Jiang X, Wang G, Zhai C et al. ITGB4 is a novel prognostic factor in colon cancer. J Cancer 2019;10(21):5223-5233. PMID: 31602273
  • Li L, Liu X, Ma X, Deng X et al. Identification of key candidate genes and pathways in glioblastoma by integrated bioinformatical analysis. Exp Ther Med 2019 Nov;18(5):3439-3449. PMID: 31602219
  • Martines AMF, Gerding A, Stolle S, Vieira-Lara MA et al. Transcriptome analysis suggests a compensatory role of the cofactors coenzyme A and NAD(+) in medium-chain acyl-CoA dehydrogenase knockout mice. Sci Rep 2019 Oct 10;9(1):14539. PMID: 31601874
  • Liu M, Sun T, Li N, Peng J et al. BRG1 attenuates colonic inflammation and tumorigenesis through autophagy-dependent oxidative stress sequestration. Nat Commun 2019 Oct 10;10(1):4614. PMID: 31601814
  • Kuppers DA, Arora S, Lim Y, Lim AR et al. N(6)-methyladenosine mRNA marking promotes selective translation of regulons required for human erythropoiesis. Nat Commun 2019 Oct 10;10(1):4596. PMID: 31601799
  • Wang S, He X, Wu Q, Jiang L et al. Transferrin receptor 1-mediated iron uptake plays an essential role in hematopoiesis. Haematologica 2020 Aug;105(8):2071-2082. PMID: 31601687
  • Renschler G, Richard G, Valsecchi CIK, Toscano S et al. Hi-C guided assemblies reveal conserved regulatory topologies on X and autosomes despite extensive genome shuffling. Genes Dev 2019 Nov 1;33(21-22):1591-1612. PMID: 31601616
  • Cárdenas-Ovando RA, Fernández-Figueroa EA, Rueda-Zárate HA, Noguez J et al. A feature selection strategy for gene expression time series experiments with hidden Markov models. PLoS One 2019;14(10):e0223183. PMID: 31600242
  • Teles RMB, Lu J, Tió-Coma M, Goulart IMB et al. Identification of a systemic interferon-γ inducible antimicrobial gene signature in leprosy patients undergoing reversal reaction. PLoS Negl Trop Dis 2019 Oct;13(10):e0007764. PMID: 31600201
  • Soulette CM, Oliverio O, Roy SW et al. On the Function of Trans-Splicing: No Evidence for Widespread Proteome Diversification in Trypanosomes. Genome Biol Evol 2019 Oct 1;11(10):3014-3021. PMID: 31599940
  • Owens N, Papadopoulou T, Festuccia N, Tachtsidi A et al. CTCF confers local nucleosome resiliency after DNA replication and during mitosis. Elife 2019 Oct 10;8. PMID: 31599722
  • Rahman RU, Liebhoff AM, Bansal V, Fiosins M et al. SEAweb: the small RNA Expression Atlas web application. Nucleic Acids Res 2020 Jan 8;48(D1):D204-D219. PMID: 31598718
  • Feng C, Song C, Liu Y, Qian F et al. KnockTF: a comprehensive human gene expression profile database with knockdown/knockout of transcription factors. Nucleic Acids Res 2020 Jan 8;48(D1):D93-D100. PMID: 31598675
  • He Z, Duan X, Zeng G et al. Identification of potential biomarkers and pivotal biological pathways for prostate cancer using bioinformatics analysis methods. PeerJ 2019;7:e7872. PMID: 31598425
  • Li J, Wang X, Zheng K, Liu Y et al. The clinical significance of collagen family gene expression in esophageal squamous cell carcinoma. PeerJ 2019;7:e7705. PMID: 31598423
  • Bhavsar-Jog YP, Van Dornshuld E, Brooks TA, Tschumper GS et al. Co-Localization of DNA i-Motif-Forming Sequences and 5-Hydroxymethyl-cytosines in Human Embryonic Stem Cells. Molecules 2019 Oct 8;24(19). PMID: 31597270
  • Mills BN, Connolly KA, Ye J, Murphy JD et al. Stereotactic Body Radiation and Interleukin-12 Combination Therapy Eradicates Pancreatic Tumors by Repolarizing the Immune Microenvironment. Cell Rep 2019 Oct 8;29(2):406-421.e5. PMID: 31597100
  • Carpentier KS, Davenport BJ, Haist KC, McCarthy MK et al. Discrete viral E2 lysine residues and scavenger receptor MARCO are required for clearance of circulating alphaviruses. Elife 2019 Oct 9;8. PMID: 31596239
  • Leng D, Huang C, Lei KC, Sun S et al. Co-expression network analysis of lncRNAs and mRNAs in rat liver tissue reveals the complex interactions in response to pathogenic cytotoxicity. Int J Biol Sci 2019;15(11):2296-2307. PMID: 31595148
  • Zhou C, Zhao Y, Yin Y, Hu Z et al. A robust 6-mRNA signature for prognosis prediction of pancreatic ductal adenocarcinoma. Int J Biol Sci 2019;15(11):2282-2295. PMID: 31595147
  • Smith MA, Henault J, Karnell JL, Parker ML et al. SLE Plasma Profiling Identifies Unique Signatures of Lupus Nephritis and Discoid Lupus. Sci Rep 2019 Oct 8;9(1):14433. PMID: 31594956
  • Xiong L, Xu K, Tian K, Shao Y et al. SCALE method for single-cell ATAC-seq analysis via latent feature extraction. Nat Commun 2019 Oct 8;10(1):4576. PMID: 31594952
  • Zhang Z, Lee JH, Ruan H, Ye Y et al. Transcriptional landscape and clinical utility of enhancer RNAs for eRNA-targeted therapy in cancer. Nat Commun 2019 Oct 8;10(1):4562. PMID: 31594934
  • Smalley I, Kim E, Li J, Spence P et al. Leveraging transcriptional dynamics to improve BRAF inhibitor responses in melanoma. EBioMedicine 2019 Oct;48:178-190. PMID: 31594749
  • Bai L, Ren Y, Cui T et al. Overexpression of CDCA5, KIF4A, TPX2, and FOXM1 Coregulated Cell Cycle and Promoted Hepatocellular Carcinoma Development. J Comput Biol 2020 Jun;27(6):965-974. PMID: 31593490
  • Theodoropoulou E, Alfredsson L, Piehl F, Marabita F et al. Different epigenetic clocks reflect distinct pathophysiological features of multiple sclerosis. Epigenomics 2019 Sep;11(12):1429-1439. PMID: 31592692
  • Alcedo KP, Guerrero A, Basrur V, Fu D et al. Tumor-Selective Altered Glycosylation and Functional Attenuation of CD73 in Human Hepatocellular Carcinoma. Hepatol Commun 2019 Oct;3(10):1400-1414. PMID: 31592495
  • Wang X, Fan H, Xu C, Jiang G et al. KDM3B suppresses APL progression by restricting chromatin accessibility and facilitating the ATRA-mediated degradation of PML/RARα. Cancer Cell Int 2019;19:256. PMID: 31592194
  • Yang H, Li H et al. CD36 identified by weighted gene co-expression network analysis as a hub candidate gene in lupus nephritis. PeerJ 2019;7:e7722. PMID: 31592160
  • Chen Z, Pang M, Zhao Z, Li S et al. Feature selection may improve deep neural networks for the bioinformatics problems. Bioinformatics 2020 Mar 1;36(5):1542-1552. PMID: 31591638
  • Houlahan KE, Shiah YJ, Gusev A, Yuan J et al. Genome-wide germline correlates of the epigenetic landscape of prostate cancer. Nat Med 2019 Oct;25(10):1615-1626. PMID: 31591588
  • Palmisano I, Danzi MC, Hutson TH, Zhou L et al. Epigenomic signatures underpin the axonal regenerative ability of dorsal root ganglia sensory neurons. Nat Neurosci 2019 Nov;22(11):1913-1924. PMID: 31591560
  • Veschi V, Mangiapane LR, Nicotra A, Di Franco S et al. Targeting chemoresistant colorectal cancer via systemic administration of a BMP7 variant. Oncogene 2020 Jan;39(5):987-1003. PMID: 31591478
  • Fang CH, Theera-Ampornpunt N, Roth MA, Grama A et al. AIKYATAN: mapping distal regulatory elements using convolutional learning on GPU. BMC Bioinformatics 2019 Oct 7;20(1):488. PMID: 31590652
  • Liu B, Liu Y, Pan X, Li M et al. DNA Methylation Markers for Pan-Cancer Prediction by Deep Learning. Genes (Basel) 2019 Oct 4;10(10). PMID: 31590287
  • Zhang L, Hu D, Wang S, Zhang Y et al. Association between dense PAX1 promoter methylation and HPV16 infection in cervical squamous epithelial neoplasms of Xin Jiang Uyghur and Han women. Gene 2020 Jan 10;723:144142. PMID: 31589957
  • Delker RK, Ranade V, Loker R, Voutev R et al. Low affinity binding sites in an activating CRM mediate negative autoregulation of the Drosophila Hox gene Ultrabithorax. PLoS Genet 2019 Oct;15(10):e1008444. PMID: 31589607
  • Zeng H, Li H, Zhao Y, Chen L et al. Transcripto-based network analysis reveals a model of gene activation in tongue squamous cell carcinomas. Head Neck 2019 Dec;41(12):4098-4110. PMID: 31589000
  • Wang Z, Li W, Jing H, Ding M et al. Generation of hepatic spheroids using human hepatocyte-derived liver progenitor-like cells for hepatotoxicity screening. Theranostics 2019;9(22):6690-6705. PMID: 31588244
  • Jiang G, Wang X, Sheng D, Zhou L et al. Cooperativity of co-factor NR2F2 with Pioneer Factors GATA3, FOXA1 in promoting ERα function. Theranostics 2019;9(22):6501-6516. PMID: 31588232
  • Zaunbrecher RJ, Abel AN, Beussman K, Leonard A et al. Cronos Titin Is Expressed in Human Cardiomyocytes and Necessary for Normal Sarcomere Function. Circulation 2019 Nov 12;140(20):1647-1660. PMID: 31587567
  • Caeser R, Di Re M, Krupka JA, Gao J et al. Genetic modification of primary human B cells to model high-grade lymphoma. Nat Commun 2019 Oct 4;10(1):4543. PMID: 31586074
  • Thodberg M, Thieffry A, Vitting-Seerup K, Andersson R et al. CAGEfightR: analysis of 5'-end data using R/Bioconductor. BMC Bioinformatics 2019 Oct 4;20(1):487. PMID: 31585526
  • Fairley S, Lowy-Gallego E, Perry E, Flicek P et al. The International Genome Sample Resource (IGSR) collection of open human genomic variation resources. Nucleic Acids Res 2020 Jan 8;48(D1):D941-D947. PMID: 31584097
  • Tran KA, Dillingham CM, Sridharan R et al. Coordinated removal of repressive epigenetic modifications during induced reversal of cell identity. EMBO J 2019 Nov 15;38(22):e101681. PMID: 31583744
  • List M, Alcaraz N, Batra R et al. De Novo Pathway-Based Classification of Breast Cancer Subtypes. Methods Mol Biol 2020;2074:201-213. PMID: 31583640
  • Díez-Fuertes F, De La Torre-Tarazona HE, Calonge E, Pernas M et al. Transcriptome Sequencing of Peripheral Blood Mononuclear Cells from Elite Controller-Long Term Non Progressors. Sci Rep 2019 Oct 3;9(1):14265. PMID: 31582776
  • Erceg J, AlHaj Abed J, Goloborodko A, Lajoie BR et al. The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos. Nat Commun 2019 Oct 3;10(1):4486. PMID: 31582744
  • Yang Y, Yang HH, Tang B, Wu AML et al. The Outcome of TGFβ Antagonism in Metastatic Breast Cancer Models In Vivo Reflects a Complex Balance between Tumor-Suppressive and Proprogression Activities of TGFβ. Clin Cancer Res 2020 Feb 1;26(3):643-656. PMID: 31582516
  • Aragón E, Wang Q, Zou Y, Morgani SM et al. Structural basis for distinct roles of SMAD2 and SMAD3 in FOXH1 pioneer-directed TGF-β signaling. Genes Dev 2019 Nov 1;33(21-22):1506-1524. PMID: 31582430
  • Reilly B, Tanaka TN, Diep D, Yeerna H et al. DNA methylation identifies genetically and prognostically distinct subtypes of myelodysplastic syndromes. Blood Adv 2019 Oct 8;3(19):2845-2858. PMID: 31582393
  • Delmonico L, Obenauer JC, Qureshi F, Alves G et al. A Novel Panel of 80 RNA Biomarkers with Differential Expression in Multiple Human Solid Tumors against Healthy Blood Samples. Int J Mol Sci 2019 Oct 2;20(19). PMID: 31581693
  • Moon KM, Min KW, Kim MH, Kim DH et al. Higher Acid-Base Imbalance Associated with Respiratory Failure Could Decrease the Survival of Patients with Scrub Typhus during Intensive Care Unit Stay: A Gene Set Enrichment Analysis. J Clin Med 2019 Oct 2;8(10). PMID: 31581612
  • Zerdes I, Wallerius M, Sifakis EG, Wallmann T et al. STAT3 Activity Promotes Programmed-Death Ligand 1 Expression and Suppresses Immune Responses in Breast Cancer. Cancers (Basel) 2019 Oct 1;11(10). PMID: 31581535
  • Chae DK, Park J, Cho M, Ban E et al. MiR-195 and miR-497 suppress tumorigenesis in lung cancer by inhibiting SMURF2-induced TGF-β receptor I ubiquitination. Mol Oncol 2019 Dec;13(12):2663-2678. PMID: 31581360
  • Otalora L, Chavez E, Watford D, Tueros L et al. Identification of glomerular and podocyte-specific genes and pathways activated by sera of patients with focal segmental glomerulosclerosis. PLoS One 2019;14(10):e0222948. PMID: 31581251
  • Dapper AL, Payseur BA et al. Molecular evolution of the meiotic recombination pathway in mammals. Evolution 2019 Dec;73(12):2368-2389. PMID: 31579931
  • Wang J, Zuo J, Wang MD, Xie WF et al. Retraction: Receptor tyrosine kinase AXL is correlated with poor prognosis and induces temozolomide resistance in glioblastoma. CNS Neurosci Ther 2020 Jul;26(7):777. PMID: 31578804
  • Yamanoi K, Baba T, Abiko K, Hamanishi J et al. Acquisition of a side population fraction augments malignant phenotype in ovarian cancer. Sci Rep 2019 Oct 2;9(1):14215. PMID: 31578411
  • Kim SK, Kim SY, Kim CW, Roh SA et al. A prognostic index based on an eleven gene signature to predict systemic recurrences in colorectal cancer. Exp Mol Med 2019 Oct 2;51(10):1-12. PMID: 31578316
  • Xiang J, Rauch DA, Huey DD, Panfil AR et al. HTLV-1 viral oncogene HBZ drives bone destruction in adult T cell leukemia. JCI Insight 2019 Oct 3;4(19). PMID: 31578308
  • Ghoveud E, Teimuri S, Vatandoost J, Hosseini A et al. Potential Biomarker and Therapeutic LncRNAs in Multiple Sclerosis Through Targeting Memory B Cells. Neuromolecular Med 2020 Mar;22(1):111-120. PMID: 31576494
  • Gu X, Mao Y, Shi C, Ye W et al. MAGEC2 Correlates With Unfavorable Prognosis And Promotes Tumor Development In HCC Via Epithelial-Mesenchymal Transition. Onco Targets Ther 2019;12:7843-7855. PMID: 31576142
  • Arthur SE, Sorgeloos F, Hosmillo M, Goodfellow IG et al. Epigenetic Suppression of Interferon Lambda Receptor Expression Leads to Enhanced Human Norovirus Replication In Vitro. mBio 2019 Oct 1;10(5). PMID: 31575769
  • Mukherjee AK, Sharma S, Bagri S, Kutum R et al. Telomere repeat-binding factor 2 binds extensively to extra-telomeric G-quadruplexes and regulates the epigenetic status of several gene promoters. J Biol Chem 2019 Nov 22;294(47):17709-17722. PMID: 31575660
  • Chen YC, Suresh A, Underbayev C, Sun C et al. IKAP-Identifying K mAjor cell Population groups in single-cell RNA-sequencing analysis. Gigascience 2019 Oct 1;8(10). PMID: 31574155
  • Huang J, Luo JY, Tan HZ et al. Associations of MGMT promoter hypermethylation with squamous intraepithelial lesion and cervical carcinoma: A meta-analysis. PLoS One 2019;14(10):e0222772. PMID: 31574102
  • Ying X, Zhu J, Zhang Y et al. Circular RNA circ-TSPAN4 promotes lung adenocarcinoma metastasis by upregulating ZEB1 via sponging miR-665. Mol Genet Genomic Med 2019 Dec;7(12):e991. PMID: 31573758
  • Poleshko A, Smith CL, Nguyen SC, Sivaramakrishnan P et al. H3K9me2 orchestrates inheritance of spatial positioning of peripheral heterochromatin through mitosis. Elife 2019 Oct 1;8. PMID: 31573510
  • Zhang Y, Yu F, Bao S, Sun J et al. Systematic Characterization of Circular RNA-Associated CeRNA Network Identified Novel circRNA Biomarkers in Alzheimer's Disease. Front Bioeng Biotechnol 2019;7:222. PMID: 31572720
  • Lin DD, Shen Y, Qiao S, Liu WW et al. Upregulation of OTUD7B (Cezanne) Promotes Tumor Progression via AKT/VEGF Pathway in Lung Squamous Carcinoma and Adenocarcinoma. Front Oncol 2019;9:862. PMID: 31572671
  • Gao X, Sun Y, Li X et al. Identification of key gene modules and transcription factors for human osteoarthritis by weighted gene co-expression network analysis. Exp Ther Med 2019 Oct;18(4):2479-2490. PMID: 31572500
  • Yu P, Guo J, Li J, Chen W et al. Co-expression network analysis revealing the key lncRNAs in diabetic foot ulcers. Arch Med Sci 2019 Sep;15(5):1123-1132. PMID: 31572456
  • Xu WH, Wu J, Wang J, Wan FN et al. Screening and Identification of Potential Prognostic Biomarkers in Adrenocortical Carcinoma. Front Genet 2019;10:821. PMID: 31572440
  • Lu L, Wu M, Lu Y, Zhao Z et al. MicroRNA-424 regulates cisplatin resistance of gastric cancer by targeting SMURF1 based on GEO database and primary validation in human gastric cancer tissues. Onco Targets Ther 2019;12:7623-7636. PMID: 31571913
  • Wang H, Gu R, Tian F, Liu Y et al. PHLPP2 as a novel metastatic and prognostic biomarker in non-small cell lung cancer patients. Thorac Cancer 2019 Nov;10(11):2124-2132. PMID: 31571378
  • Yuan K, Xie K, Lan T, Xu L et al. TXNDC12 promotes EMT and metastasis of hepatocellular carcinoma cells via activation of β-catenin. Cell Death Differ 2020 Apr;27(4):1355-1368. PMID: 31570854
  • Li X, Ding J, Wang X, Cheng Z et al. NUDT21 regulates circRNA cyclization and ceRNA crosstalk in hepatocellular carcinoma. Oncogene 2020 Jan;39(4):891-904. PMID: 31570791
  • Hanlon KS, Kleinstiver BP, Garcia SP, Zaborowski MP et al. High levels of AAV vector integration into CRISPR-induced DNA breaks. Nat Commun 2019 Sep 30;10(1):4439. PMID: 31570731
  • Thakurela S, Sindhu C, Yurkovsky E, Riemenschneider C et al. Differential regulation of OCT4 targets facilitates reacquisition of pluripotency. Nat Commun 2019 Sep 30;10(1):4444. PMID: 31570708
  • Ginley-Hidinger M, Carleton JB, Rodriguez AC, Berrett KC et al. Sufficiency analysis of estrogen responsive enhancers using synthetic activators. Life Sci Alliance 2019 Oct;2(5). PMID: 31570515
  • Rahman MM, Lai YC, Husna AA, Chen HW et al. Micro RNA Transcriptome Profile in Canine Oral Melanoma. Int J Mol Sci 2019 Sep 28;20(19). PMID: 31569419
  • Wan Q, Yiner-Lee Leemaqz S, Pederson SM, McCullough D et al. Quality control measures for placental sample purity in DNA methylation array analyses. Placenta 2019 Dec;88:8-11. PMID: 31569011
  • Mirza M, Vainshtein A, DiRonza A, Chandrachud U et al. The CLN3 gene and protein: What we know. Mol Genet Genomic Med 2019 Dec;7(12):e859. PMID: 31568712
  • Bendall ML, de Mulder M, Iñiguez LP, Lecanda-Sánchez A et al. Telescope: Characterization of the retrotranscriptome by accurate estimation of transposable element expression. PLoS Comput Biol 2019 Sep;15(9):e1006453. PMID: 31568525
  • Han A, Li C, Zahed T, Wong M et al. Calreticulin is a Critical Cell Survival Factor in Malignant Neoplasms. PLoS Biol 2019 Sep;17(9):e3000402. PMID: 31568485
  • Buddenborg SK, Kamel B, Hanelt B, Bu L et al. The in vivo transcriptome of Schistosoma mansoni in the prominent vector species Biomphalaria pfeifferi with supporting observations from Biomphalaria glabrata. PLoS Negl Trop Dis 2019 Sep;13(9):e0007013. PMID: 31568484
  • Huang J, Jiang W, Tong X, Zhang L et al. Identification of gene and microRNA changes in response to smoking in human airway epithelium by bioinformatics analyses. Medicine (Baltimore) 2019 Sep;98(38):e17267. PMID: 31568004
  • Qin Y, Guo X, Yu Y, Dong S et al. Screening key genes and microRNAs in sepsis by RNA-sequencing. J Chin Med Assoc 2020 Jan;83(1):41-47. PMID: 31567880
  • Hui L, Wang J, Zhang J, Long J et al. lncRNA TMEM51-AS1 and RUSC1-AS1 function as ceRNAs for induction of laryngeal squamous cell carcinoma and prediction of prognosis. PeerJ 2019;7:e7456. PMID: 31565549
  • Dong Z, Chen Y, Yang C, Zhang M et al. STAT gene family mRNA expression and prognostic value in hepatocellular carcinoma. Onco Targets Ther 2019;12:7175-7191. PMID: 31564902
  • Burr ML, Sparbier CE, Chan KL, Chan YC et al. An Evolutionarily Conserved Function of Polycomb Silences the MHC Class I Antigen Presentation Pathway and Enables Immune Evasion in Cancer. Cancer Cell 2019 Oct 14;36(4):385-401.e8. PMID: 31564637
  • Li H, Zhang X, Jin Z, Yin T et al. MiR-122 Promotes the Development of Colon Cancer by Targeting ALDOA In Vitro. Technol Cancer Res Treat 2019 Jan 1;18:1533033819871300. PMID: 31564215
  • Chen Y, Yu M, Zheng Y, Fu G et al. CXCR5(+)PD-1(+) follicular helper CD8 T cells control B cell tolerance. Nat Commun 2019 Sep 27;10(1):4415. PMID: 31562329
  • You C, He W, Hang R, Zhang C et al. FIERY1 promotes microRNA accumulation by suppressing rRNA-derived small interfering RNAs in Arabidopsis. Nat Commun 2019 Sep 27;10(1):4424. PMID: 31562313
  • Zhang Z, Pi J, Zou D, Wang X et al. microRNA arm-imbalance in part from complementary targets mediated decay promotes gastric cancer progression. Nat Commun 2019 Sep 27;10(1):4397. PMID: 31562301
  • Ge Y, Li W, Ni Q, He Y et al. Weighted Gene Co-Expression Network Analysis Identifies Hub Genes Associated with Occurrence and Prognosis of Oral Squamous Cell Carcinoma. Med Sci Monit 2019 Sep 28;25:7272-7288. PMID: 31562292
  • Tian S, Feng J, Cao Y, Shen S et al. Glycine cleavage system determines the fate of pluripotent stem cells via the regulation of senescence and epigenetic modifications. Life Sci Alliance 2019 Oct;2(5). PMID: 31562192
  • Varré JS, D'Agostino N, Touzet P, Gallina S et al. Complete Sequence, Multichromosomal Architecture and Transcriptome Analysis of the Solanum tuberosum Mitochondrial Genome. Int J Mol Sci 2019 Sep 26;20(19). PMID: 31561566
  • Cui Y, Jiao Y, Wang K, He M et al. A new prognostic factor of breast cancer: High carboxyl ester lipase expression related to poor survival. Cancer Genet 2019 Nov;239:54-61. PMID: 31561066
  • Zou J, Li Z, Deng H, Hao J et al. TMEM213 as a novel prognostic and predictive biomarker for patients with lung adenocarcinoma after curative resection: a study based on bioinformatics analysis. J Thorac Dis 2019 Aug;11(8):3399-3410. PMID: 31559044
  • Bougarn S, Boughorbel S, Chaussabel D, Marr N et al. A curated transcriptome dataset collection to investigate inborn errors of immunity. F1000Res 2019;8:188. PMID: 31559014
  • Shi J, Peng P, Liu W, Mi P et al. Bioinformatics analysis of genes associated with the patchy-type alopecia areata: CD2 may be a new therapeutic target. Biomed Pap Med Fac Univ Palacky Olomouc Czech Repub 2020 Dec;164(4):380-386. PMID: 31558844
  • Ershaid N, Sharon Y, Doron H, Raz Y et al. NLRP3 inflammasome in fibroblasts links tissue damage with inflammation in breast cancer progression and metastasis. Nat Commun 2019 Sep 26;10(1):4375. PMID: 31558756
  • Topal S, Vasseur P, Radman-Livaja M, Peterson CL et al. Distinct transcriptional roles for Histone H3-K56 acetylation during the cell cycle in Yeast. Nat Commun 2019 Sep 26;10(1):4372. PMID: 31558720
  • DeTomaso D, Jones MG, Subramaniam M, Ashuach T et al. Functional interpretation of single cell similarity maps. Nat Commun 2019 Sep 26;10(1):4376. PMID: 31558714
  • Benner L, Castro EA, Whitworth C, Venken KJT et al. Drosophila Heterochromatin Stabilization Requires the Zinc-Finger Protein Small Ovary. Genetics 2019 Nov;213(3):877-895. PMID: 31558581
  • Fang SS, Guo JC, Zhang JH, Liu JN et al. A P53-related microRNA model for predicting the prognosis of hepatocellular carcinoma patients. J Cell Physiol 2020 Apr;235(4):3569-3578. PMID: 31556110
  • Yoshida A, Bu Y, Qie S, Wrangle J et al. SLC36A1-mTORC1 signaling drives acquired resistance to CDK4/6 inhibitors. Sci Adv 2019 Sep;5(9):eaax6352. PMID: 31555743
  • He B, Wang B, Wang H, Zhang C et al. RBAK is upregulated in non-small cell lung cancer and promotes cell migration and invasion. Exp Ther Med 2019 Oct;18(4):2942-2948. PMID: 31555381
  • Zhang L, Gao X, Zhou X, Qin Z et al. Identification of key genes and microRNAs involved in kidney Wilms tumor by integrated bioinformatics analysis. Exp Ther Med 2019 Oct;18(4):2554-2564. PMID: 31555364
  • Gunderstofte C, Iversen MB, Peri S, Thielke A et al. Nrf2 Negatively Regulates Type I Interferon Responses and Increases Susceptibility to Herpes Genital Infection in Mice. Front Immunol 2019;10:2101. PMID: 31555293
  • Kulyté A, Kwok KHM, de Hoon M, Carninci P et al. MicroRNA-27a/b-3p and PPARG regulate SCAMP3 through a feed-forward loop during adipogenesis. Sci Rep 2019 Sep 25;9(1):13891. PMID: 31554889
  • He C, Teixeira da Silva JA, Wang H, Si C et al. Mining MYB transcription factors from the genomes of orchids (Phalaenopsis and Dendrobium) and characterization of an orchid R2R3-MYB gene involved in water-soluble polysaccharide biosynthesis. Sci Rep 2019 Sep 25;9(1):13818. PMID: 31554868
  • Price AJ, Collado-Torres L, Ivanov NA, Xia W et al. Divergent neuronal DNA methylation patterns across human cortical development reveal critical periods and a unique role of CpH methylation. Genome Biol 2019 Sep 26;20(1):196. PMID: 31554518
  • Torres ERS, Hall R, Bobe G, Choi J et al. Integrated Metabolomics-DNA Methylation Analysis Reveals Significant Long-Term Tissue-Dependent Directional Alterations in Aminoacyl-tRNA Biosynthesis in the Left Ventricle of the Heart and Hippocampus Following Proton Irradiation. Front Mol Biosci 2019;6:77. PMID: 31552266
  • Yao Z, Du L, Xu M, Li K et al. MTA3-SOX2 Module Regulates Cancer Stemness and Contributes to Clinical Outcomes of Tongue Carcinoma. Front Oncol 2019;9:816. PMID: 31552166
  • Jia N, Tong H, Zhang Y, Katayama H et al. CeRNA Expression Profiling Identifies KIT-Related circRNA-miRNA-mRNA Networks in Gastrointestinal Stromal Tumour. Front Genet 2019;10:825. PMID: 31552107
  • Kochmanski J, Savonen C, Bernstein AI et al. A Novel Application of Mixed Effects Models for Reconciling Base-Pair Resolution 5-Methylcytosine and 5-Hydroxymethylcytosine Data in Neuroepigenetics. Front Genet 2019;10:801. PMID: 31552098
  • Lv H, Dao FY, Guan ZX, Zhang D et al. iDNA6mA-Rice: A Computational Tool for Detecting N6-Methyladenine Sites in Rice. Front Genet 2019;10:793. PMID: 31552096
  • Reis CF, de Souza ID, Morais DAA, Oliveira RAC et al. Systems Biology-Based Analysis Indicates Global Transcriptional Impairment in Lead-Treated Human Neural Progenitor Cells. Front Genet 2019;10:791. PMID: 31552095
  • Zhang H, Hu Q, Zhang M, Yang F et al. Bach2 Deficiency Leads to Spontaneous Expansion of IL-4-Producing T Follicular Helper Cells and Autoimmunity. Front Immunol 2019;10:2050. PMID: 31552021
  • Jia X, Zhai T et al. Integrated Analysis of Multiple Microarray Studies to Identify Novel Gene Signatures in Non-alcoholic Fatty Liver Disease. Front Endocrinol (Lausanne) 2019;10:599. PMID: 31551930
  • Wu RC, Young IC, Chen YF, Chuang ST et al. Identification of the PTEN-ARID4B-PI3K pathway reveals the dependency on ARID4B by PTEN-deficient prostate cancer. Nat Commun 2019 Sep 24;10(1):4332. PMID: 31551414
  • Frantzeskakis L, Németh MZ, Barsoum M, Kusch S et al. The Parauncinula polyspora Draft Genome Provides Insights into Patterns of Gene Erosion and Genome Expansion in Powdery Mildew Fungi. mBio 2019 Sep 24;10(5). PMID: 31551331
  • Gu J, Zhu H, Zhu D, Li M et al. VWF, CXCL8 and IL6 might be potential druggable genes for acute coronary syndrome (ACS). Comput Biol Chem 2019 Dec;83:107125. PMID: 31550669
  • Chen F, Yang Y, Zhao Y, Pei L et al. Immune Infiltration Profiling in Nonsmall Cell Lung Cancer and Their Clinical Significance: Study Based on Gene Expression Measurements. DNA Cell Biol 2019 Nov;38(11):1387-1401. PMID: 31549881
  • Xu Y, Xing L, Su J, Zhang X et al. Model-based clustering for identifying disease-associated SNPs in case-control genome-wide association studies. Sci Rep 2019 Sep 23;9(1):13686. PMID: 31548641
  • Cui K, Liu C, Li X, Zhang Q et al. Comprehensive characterization of the rRNA metabolism-related genes in human cancer. Oncogene 2020 Jan;39(4):786-800. PMID: 31548613
  • Shin SB, Jang HR, Xu R, Won JY et al. Active PLK1-driven metastasis is amplified by TGF-β signaling that forms a positive feedback loop in non-small cell lung cancer. Oncogene 2020 Jan;39(4):767-785. PMID: 31548612
  • Wu Y, Konaté MM, Lu J, Makhlouf H et al. IL-4 and IL-17A Cooperatively Promote Hydrogen Peroxide Production, Oxidative DNA Damage, and Upregulation of Dual Oxidase 2 in Human Colon and Pancreatic Cancer Cells. J Immunol 2019 Nov 1;203(9):2532-2544. PMID: 31548328
  • Patel D, Patel M, Datta S, Singh U et al. CGGBP1 regulates CTCF occupancy at repeats. Epigenetics Chromatin 2019 Sep 23;12(1):57. PMID: 31547883
  • Liu Y, Liu X, Jia J, Zheng J et al. Comprehensive analysis of aberrantly expressed profiles of mRNA and its relationship with serum galactose-deficient IgA1 level in IgA nephropathy. J Transl Med 2019 Sep 23;17(1):320. PMID: 31547815
  • Ruan GT, Gong YZ, Liao XW, Wang S et al. Diagnostic and prognostic values of C‑X‑C motif chemokine ligand 3 in patients with colon cancer. Oncol Rep 2019 Nov;42(5):1996-2008. PMID: 31545503
  • Zhao B, Gao C, Shi D, Mao J et al. Knockdown of Nedd8‑conjugating enzyme UBE2M suppresses the proliferation and induces the apoptosis of intrahepatic cholangiocarcinoma cells. Oncol Rep 2019 Dec;42(6):2670-2679. PMID: 31545502
  • Su C, Zhao J, Hong X, Yang S et al. Microarray‑based analysis of COL11A1 and TWIST1 as important differentially‑expressed pathogenic genes between left and right‑sided colon cancer. Mol Med Rep 2019 Nov;20(5):4202-4214. PMID: 31545476
  • Zhao Q, Sun H, Yin L, Wang L et al. miR‑126a‑5p‑Dbp and miR‑31a‑Crot/Mrpl4 interaction pairs crucial for the development of hypertension and stroke. Mol Med Rep 2019 Nov;20(5):4151-4167. PMID: 31545431
  • Xu C, Meng LB, Duan YC, Cheng YJ et al. Screening and identification of biomarkers for systemic sclerosis via microarray technology. Int J Mol Med 2019 Nov;44(5):1753-1770. PMID: 31545397
  • G N S HS, Ganesan Rajalekshmi S, Murahari M, Burri RR et al. Reappraisal of FDA approved drugs against Alzheimer's disease based on differential gene expression and protein interaction network analysis: an in silico approach. J Biomol Struct Dyn 2020 Aug;38(13):3972-3989. PMID: 31543038
  • Li J, Huang X, Huang H, Huo H et al. Cloning and characterization of the lignin biosynthesis genes NcCSE and NcHCT from Neolamarckia cadamba. AMB Express 2019 Sep 21;9(1):152. PMID: 31542835
  • Robinson MH, Maximov V, Lallani S, Farooq H et al. Upregulation of the chromatin remodeler HELLS is mediated by YAP1 in Sonic Hedgehog Medulloblastoma. Sci Rep 2019 Sep 20;9(1):13611. PMID: 31541170
  • Lund J, Ouwens DM, Wettergreen M, Bakke SS et al. Increased Glycolysis and Higher Lactate Production in Hyperglycemic Myotubes. Cells 2019 Sep 18;8(9). PMID: 31540443
  • Zhang W, Hu C, Wang X, Bai S et al. Role of GDF15 in methylseleninic acid-mediated inhibition of cell proliferation and induction of apoptosis in prostate cancer cells. PLoS One 2019;14(9):e0222812. PMID: 31539407
  • Purushothaman S, Elewa A, Seifert AW et al. Fgf-signaling is compartmentalized within the mesenchyme and controls proliferation during salamander limb development. Elife 2019 Sep 20;8. PMID: 31538936
  • Li X, Wu N, Ji H, Huang Y et al. A male-specific association between AGTR1 hypermethylation and coronary heart disease. Bosn J Basic Med Sci 2020 Feb 5;20(1):31-36. PMID: 31538912
  • Wang J, Wang Y, Kong F, Han R et al. Identification of a six-gene prognostic signature for oral squamous cell carcinoma. J Cell Physiol 2020 Mar;235(3):3056-3068. PMID: 31538341
  • Dou X, Boyd-Kirkup JD, McDermott J, Zhang X et al. The strand-biased mitochondrial DNA methylome and its regulation by DNMT3A. Genome Res 2019 Oct;29(10):1622-1634. PMID: 31537639
  • Liu X, Zhu X, Wei X, Lu C et al. The wheat LLM-domain-containing transcription factor TaGATA1 positively modulates host immune response to Rhizoctonia cerealis. J Exp Bot 2020 Jan 1;71(1):344-355. PMID: 31536614
  • Islam MA, Neuhoff C, Aqter Rony S, Große-Brinkhaus C et al. PBMCs transcriptome profiles identified breed-specific transcriptome signatures for PRRSV vaccination in German Landrace and Pietrain pigs. PLoS One 2019;14(9):e0222513. PMID: 31536525
  • Molina-Obando S, Vargas-Fique JF, Henning M, Gür B et al. ON selectivity in the Drosophila visual system is a multisynaptic process involving both glutamatergic and GABAergic inhibition. Elife 2019 Sep 19;8. PMID: 31535971
  • Wang Q, Sharma VP, Shen H, Xiao Y et al. The hepatokine Tsukushi gates energy expenditure via brown fat sympathetic innervation. Nat Metab 2019 Feb;1(2):251-260. PMID: 31535079
  • Li C, Qin F, Hong H, Tang H et al. Identification of Flap endonuclease 1 as a potential core gene in hepatocellular carcinoma by integrated bioinformatics analysis. PeerJ 2019;7:e7619. PMID: 31534853
  • Chen K, Xie S, Jin W et al. Crucial lncRNAs associated with adipocyte differentiation from human adipose-derived stem cells based on co-expression and ceRNA network analyses. PeerJ 2019;7:e7544. PMID: 31534842
  • Jiang C, Wu S, Jiang L, Gao Z et al. Network-based approach to identify biomarkers predicting response and prognosis for HER2-negative breast cancer treatment with taxane-anthracycline neoadjuvant chemotherapy. PeerJ 2019;7:e7515. PMID: 31534839
  • Jia J, Zhang HB, Shi Q, Yang C et al. KLF5 downregulation desensitizes castration-resistant prostate cancer cells to docetaxel by increasing BECN1 expression and inducing cell autophagy. Theranostics 2019;9(19):5464-5477. PMID: 31534497
  • Tarjan DR, Flavahan WA, Bernstein BE et al. Epigenome editing strategies for the functional annotation of CTCF insulators. Nat Commun 2019 Sep 18;10(1):4258. PMID: 31534142
  • Puelles VG, van der Wolde JW, Wanner N, Scheppach MW et al. mTOR-mediated podocyte hypertrophy regulates glomerular integrity in mice and humans. JCI Insight 2019 Sep 19;4(18). PMID: 31534053
  • Wang Q, Onuma K, Liu C, Wong H et al. Dysregulated integrin αVβ3 and CD47 signaling promotes joint inflammation, cartilage breakdown, and progression of osteoarthritis. JCI Insight 2019 Sep 19;4(18). PMID: 31534047
  • Nguyen PM, Gandasi NR, Xie B, Sugahara S et al. The PI(4)P phosphatase Sac2 controls insulin granule docking and release. J Cell Biol 2019 Nov 4;218(11):3714-3729. PMID: 31533953
  • Niu Y, Sun W, Chen K, Fu Z et al. A Novel Scoring System for Pivotal Autophagy-Related Genes Predicts Outcomes after Chemotherapy in Advanced Ovarian Cancer Patients. Cancer Epidemiol Biomarkers Prev 2019 Dec;28(12):2106-2114. PMID: 31533939
  • Xu N, Wu YP, Ke ZB, Liang YC et al. Identification of key DNA methylation-driven genes in prostate adenocarcinoma: an integrative analysis of TCGA methylation data. J Transl Med 2019 Sep 18;17(1):311. PMID: 31533842
  • Lopez-Rincon A, Martinez-Archundia M, Martinez-Ruiz GU, Schoenhuth A et al. Automatic discovery of 100-miRNA signature for cancer classification using ensemble feature selection. BMC Bioinformatics 2019 Sep 18;20(1):480. PMID: 31533612
  • Peng X, Zhang Z, Ye D, Xing P et al. Gene dysregulation in peripheral blood of moyamoya disease and comparison with other vascular disorders. PLoS One 2019;14(9):e0221811. PMID: 31532776
  • Wang D, Li Y, Gu C, Liu M et al. Identification of Key Pathways and Genes of Acute Respiratory Distress Syndrome Specific Neutrophil Phenotype. Biomed Res Int 2019;2019:9528584. PMID: 31531373
  • Jiang X, Zhang B, Zhao J, Xu Y et al. Identification and characterization of SEC24D as a susceptibility gene for hepatitis B virus infection. Sci Rep 2019 Sep 17;9(1):13425. PMID: 31530870
  • Wang S, Shi X, Wu M, Ma S et al. Horizontal and vertical integrative analysis methods for mental disorders omics data. Sci Rep 2019 Sep 17;9(1):13430. PMID: 31530853
  • Voinsky I, Bennuri SC, Svigals J, Frye RE et al. Peripheral Blood Mononuclear Cell Oxytocin and Vasopressin Receptor Expression Positively Correlates with Social and Behavioral Function in Children with Autism. Sci Rep 2019 Sep 17;9(1):13443. PMID: 31530830
  • Bhattacharyya S, Chandra V, Vijayanand P, Ay F et al. Identification of significant chromatin contacts from HiChIP data by FitHiChIP. Nat Commun 2019 Sep 17;10(1):4221. PMID: 31530818
  • Tarallo S, Ferrero G, Gallo G, Francavilla A et al. Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples. mSystems 2019 Sep 17;4(5). PMID: 31530647
  • Zhu Q, Tekpli X, Troyanskaya OG, Kristensen VN et al. Subtype-specific transcriptional regulators in breast tumors subjected to genetic and epigenetic alterations. Bioinformatics 2020 Feb 15;36(4):994-999. PMID: 31529022
  • Rezaei-Tavirani S, Rostami-Nejad M, Montazar F et al. Highlighted role of VEGFA in follow up of celiac disease. Gastroenterol Hepatol Bed Bench 2019 Summer;12(3):254-259. PMID: 31528310
  • Ma W, Wang B, Zhang Y, Wang Z et al. Prognostic significance of TOP2A in non-small cell lung cancer revealed by bioinformatic analysis. Cancer Cell Int 2019;19:239. PMID: 31528121
  • Zang HL, Huang GM, Ju HY, Tian XF et al. Integrative analysis of the inverse expression patterns in pancreas development and cancer progression. World J Gastroenterol 2019 Aug 28;25(32):4727-4738. PMID: 31528097
  • Pavlova GA, Popova JV, Andreyeva EN, Yarinich LA et al. RNAi-mediated depletion of the NSL complex subunits leads to abnormal chromosome segregation and defective centrosome duplication in Drosophila mitosis. PLoS Genet 2019 Sep;15(9):e1008371. PMID: 31527906
  • McClure RS, Wendler JP, Adkins JN, Swanstrom J et al. Unified feature association networks through integration of transcriptomic and proteomic data. PLoS Comput Biol 2019 Sep;15(9):e1007241. PMID: 31527878
  • Narula A, Ellis J, Taliaferro JM, Rissland OS et al. Coding regions affect mRNA stability in human cells. RNA 2019 Dec;25(12):1751-1764. PMID: 31527111
  • Lei J, Jayaprakasha GK, Singh J, Uckoo R et al. CIRCADIAN CLOCK-ASSOCIATED1 Controls Resistance to Aphids by Altering Indole Glucosinolate Production. Plant Physiol 2019 Nov;181(3):1344-1359. PMID: 31527087
  • Jackstadt R, van Hooff SR, Leach JD, Cortes-Lavaud X et al. Epithelial NOTCH Signaling Rewires the Tumor Microenvironment of Colorectal Cancer to Drive Poor-Prognosis Subtypes and Metastasis. Cancer Cell 2019 Sep 16;36(3):319-336.e7. PMID: 31526760
  • Fakih M, Ouyang C, Wang C, Tu TY et al. Immune overdrive signature in colorectal tumor subset predicts poor clinical outcome. J Clin Invest 2019 Oct 1;129(10):4464-4476. PMID: 31524634
  • Tarashansky AJ, Xue Y, Li P, Quake SR et al. Self-assembling manifolds in single-cell RNA sequencing data. Elife 2019 Sep 16;8. PMID: 31524596
  • Wang J, Yu XF, OUYang N, Luo Q et al. Role of DNA methylation regulation of miR-130b expression in human lung cancer using bioinformatics analysis. J Toxicol Environ Health A 2019;82(17):935-943. PMID: 31524549
  • Xu Y, Zhang Q, Lin F, Zhu L et al. Casiopeina II‑gly acts on lncRNA MALAT1 by miR‑17‑5p to inhibit FZD2 expression via the Wnt signaling pathway during the treatment of cervical carcinoma. Oncol Rep 2019 Oct;42(4):1365-1379. PMID: 31524268
  • Zhang H, Cheng J, Li Z, Xi Y et al. Identification of hub genes and molecular mechanisms in infant acute lymphoblastic leukemia with MLL gene rearrangement. PeerJ 2019;7:e7628. PMID: 31523525
  • Konttinen H, Cabral-da-Silva MEC, Ohtonen S, Wojciechowski S et al. PSEN1ΔE9, APPswe, and APOE4 Confer Disparate Phenotypes in Human iPSC-Derived Microglia. Stem Cell Reports 2019 Oct 8;13(4):669-683. PMID: 31522977
  • Huang C, Wu S, Li W, Herkilini A et al. Zinc-finger protein p52-ZER6 accelerates colorectal cancer cell proliferation and tumour progression through promoting p53 ubiquitination. EBioMedicine 2019 Oct;48:248-263. PMID: 31521611
  • Du T, Liu B, Wang Z, Wan X et al. CpG methylation signature predicts prognosis in breast cancer. Breast Cancer Res Treat 2019 Dec;178(3):565-572. PMID: 31520283
  • Griss J, Bauer W, Wagner C, Simon M et al. B cells sustain inflammation and predict response to immune checkpoint blockade in human melanoma. Nat Commun 2019 Sep 13;10(1):4186. PMID: 31519915
  • Tan L, Lacko LA, Zhou T, Tomoiaga D et al. Pre- and peri-implantation Zika virus infection impairs fetal development by targeting trophectoderm cells. Nat Commun 2019 Sep 13;10(1):4155. PMID: 31519912
  • Best SA, Ding S, Kersbergen A, Dong X et al. Distinct initiating events underpin the immune and metabolic heterogeneity of KRAS-mutant lung adenocarcinoma. Nat Commun 2019 Sep 13;10(1):4190. PMID: 31519898
  • Wang LW, Wang Z, Ersing I, Nobre L et al. Epstein-Barr virus subverts mevalonate and fatty acid pathways to promote infected B-cell proliferation and survival. PLoS Pathog 2019 Sep;15(9):e1008030. PMID: 31518366
  • Zhang SP, Yang RH, Shang J, Gao T et al. FOXC1 up-regulates the expression of toll-like receptors in myocardial ischaemia. J Cell Mol Med 2019 Nov;23(11):7566-7580. PMID: 31517441
  • Zhao H, He L, Yin D, Song B et al. Identification of β-catenin target genes in colorectal cancer by interrogating gene fitness screening data. Oncol Lett 2019 Oct;18(4):3769-3777. PMID: 31516589
  • Liao Y, Yin G, Wang X, Zhong P et al. Identification of candidate genes associated with the pathogenesis of small cell lung cancer via integrated bioinformatics analysis. Oncol Lett 2019 Oct;18(4):3723-3733. PMID: 31516585
  • Zhang W, He X, Hu J, Yang P et al. Dysregulation of N(6)-methyladenosine regulators predicts poor patient survival in mantle cell lymphoma. Oncol Lett 2019 Oct;18(4):3682-3690. PMID: 31516580
  • Liu K, Kang M, Zhou Z, Qin W et al. Bioinformatics analysis identifies hub genes and pathways in nasopharyngeal carcinoma. Oncol Lett 2019 Oct;18(4):3637-3645. PMID: 31516577
  • Wang B, Li J, Li X, Ou Y et al. Identifying prognosis and metastasis-associated genes associated with Ewing sarcoma by weighted gene co-expression network analysis. Oncol Lett 2019 Oct;18(4):3527-3536. PMID: 31516570
  • Sun S, Wu C, Yang C, Chen J et al. Prognostic roles of mitochondrial transcription termination factors in non-small cell lung cancer. Oncol Lett 2019 Oct;18(4):3453-3462. PMID: 31516563
  • Rhie SK, Perez AA, Lay FD, Schreiner S et al. A high-resolution 3D epigenomic map reveals insights into the creation of the prostate cancer transcriptome. Nat Commun 2019 Sep 12;10(1):4154. PMID: 31515496
  • Bao Y, Tang J, Qian Y, Sun T et al. Long noncoding RNA BFAL1 mediates enterotoxigenic Bacteroides fragilis-related carcinogenesis in colorectal cancer via the RHEB/mTOR pathway. Cell Death Dis 2019 Sep 12;10(9):675. PMID: 31515468
  • Janiszewski A, Talon I, Chappell J, Collombet S et al. Dynamic reversal of random X-Chromosome inactivation during iPSC reprogramming. Genome Res 2019 Oct;29(10):1659-1672. PMID: 31515287
  • Sanada H, Seki N, Mizuno K, Misono S et al. Involvement of Dual Strands of miR-143 (miR-143-5p and miR-143-3p) and Their Target Oncogenes in the Molecular Pathogenesis of Lung Adenocarcinoma. Int J Mol Sci 2019 Sep 11;20(18). PMID: 31514295
  • de Lombares C, Heude E, Alfama G, Fontaine A et al. Dlx5 and Dlx6 expression in GABAergic neurons controls behavior, metabolism, healthy aging and lifespan. Aging (Albany NY) 2019 Sep 12;11(17):6638-6656. PMID: 31514171
  • Song SK, Jung WY, Park SK, Chung CW et al. Significantly different expression levels of microRNAs associated with vascular invasion in hepatocellular carcinoma and their prognostic significance after surgical resection. PLoS One 2019;14(9):e0216847. PMID: 31513595
  • Wang Q, Zhang L, Yan Z, Xie L et al. OScc: an online survival analysis web server to evaluate the prognostic value of biomarkers in cervical cancer. Future Oncol 2019 Nov;15(32):3693-3699. PMID: 31512935
  • Liu LD, Hsiao YC, Chen HC, Yang YW et al. Construction of gene causal regulatory networks using microarray data with the coefficient of intrinsic dependence. Bot Stud 2019 Sep 11;60(1):22. PMID: 31512008
  • Premanand A, Rajkumari BR et al. In silico analysis of gene expression data from bald frontal and haired occipital scalp to identify candidate genes in male androgenetic alopecia. Arch Dermatol Res 2019 Dec;311(10):815-824. PMID: 31511972
  • Félix C, Meneses R, Gonçalves MFM, Tilleman L et al. A multi-omics analysis of the grapevine pathogen Lasiodiplodia theobromae reveals that temperature affects the expression of virulence- and pathogenicity-related genes. Sci Rep 2019 Sep 11;9(1):13144. PMID: 31511626
  • Musa J, Cidre-Aranaz F, Aynaud MM, Orth MF et al. Cooperation of cancer drivers with regulatory germline variants shapes clinical outcomes. Nat Commun 2019 Sep 11;10(1):4128. PMID: 31511524
  • Park SY, Lee CJ, Choi JH, Kim JH et al. The JAK2/STAT3/CCND2 Axis promotes colorectal Cancer stem cell persistence and radioresistance. J Exp Clin Cancer Res 2019 Sep 11;38(1):399. PMID: 31511084
  • Diaz-Mejia JJ, Meng EC, Pico AR, MacParland SA et al. Evaluation of methods to assign cell type labels to cell clusters from single-cell RNA-sequencing data. F1000Res 2019;8. PMID: 31508207
  • Zhao J, Huang J, Geng X, Chu W et al. Polycystic Ovary Syndrome: Novel and Hub lncRNAs in the Insulin Resistance-Associated lncRNA-mRNA Network. Front Genet 2019;10:772. PMID: 31507635
  • Zhang Y, Manjunath M, Yan J, Baur BA et al. The Cancer-Associated Genetic Variant Rs3903072 Modulates Immune Cells in the Tumor Microenvironment. Front Genet 2019;10:754. PMID: 31507631
  • Shi Y, Wang Z, Zhu X, Chen L et al. Exosomal miR-1246 in serum as a potential biomarker for early diagnosis of gastric cancer. Int J Clin Oncol 2020 Jan;25(1):89-99. PMID: 31506750
  • Pintarelli G, Noci S, Maspero D, Pettinicchio A et al. Cigarette smoke alters the transcriptome of non-involved lung tissue in lung adenocarcinoma patients. Sci Rep 2019 Sep 10;9(1):13039. PMID: 31506599
  • Lee KL, Kuo YC, Ho YS, Huang YH et al. Triple-Negative Breast Cancer: Current Understanding and Future Therapeutic Breakthrough Targeting Cancer Stemness. Cancers (Basel) 2019 Sep 9;11(9). PMID: 31505803
  • Kim B, Kim H, Jung S, Moon A et al. A CTGF-RUNX2-RANKL Axis in Breast and Prostate Cancer Cells Promotes Tumor Progression in Bone. J Bone Miner Res 2020 Jan;35(1):155-166. PMID: 31505052
  • Buitrago D, Codó L, Illa R, de Jorge P et al. Nucleosome Dynamics: a new tool for the dynamic analysis of nucleosome positioning. Nucleic Acids Res 2019 Oct 10;47(18):9511-9523. PMID: 31504766
  • Versmée G, Versmée L, Dusenne M, Jalali N et al. dbgap2x: an R package to explore and extract data from the database of Genotypes and Phenotypes (dbGaP). Bioinformatics 2020 Feb 15;36(4):1305-1306. PMID: 31504194
  • Pusa T, Ferrarini MG, Andrade R, Mary A et al. MOOMIN - Mathematical explOration of 'Omics data on a MetabolIc Network. Bioinformatics 2020 Jan 15;36(2):514-523. PMID: 31504164
  • Dejene SB, Ohman AW, Du W, Randhawa D et al. Defining fallopian tube-derived miRNA cancer signatures. Cancer Med 2019 Nov;8(15):6709-6716. PMID: 31503420
  • Lu Y, Lu Q, Liu H, Yu J et al. Time-Series Expression Analysis of Epidermal Stem Cells from High Fat Diet Mice. J Comput Biol 2020 May;27(5):769-778. PMID: 31502860
  • Zhang Z, Tang D, Wang B, Wang Z et al. Analysis of miRNA-mRNA regulatory network revealed key genes induced by aflatoxin B1 exposure in primary human hepatocytes. Mol Genet Genomic Med 2019 Nov;7(11):e971. PMID: 31502424
  • Wang L, Ni S, Du Z, Li X et al. A six-CpG-based methylation markers for the diagnosis of ovarian cancer in blood. J Cell Biochem 2020 Feb;121(2):1409-1419. PMID: 31502352
  • Bhalla P, Shukla A, Vernekar DV, Arimbasseri AG et al. Yeast PAF1 complex counters the pol III accumulation and replication stress on the tRNA genes. Sci Rep 2019 Sep 9;9(1):12892. PMID: 31501524
  • Liu Y, Zhang X, Lin J, Chen Y et al. CCT3 acts upstream of YAP and TFCP2 as a potential target and tumour biomarker in liver cancer. Cell Death Dis 2019 Sep 9;10(9):644. PMID: 31501420
  • Li R, Quon G et al. scBFA: modeling detection patterns to mitigate technical noise in large-scale single-cell genomics data. Genome Biol 2019 Sep 9;20(1):193. PMID: 31500668
  • Zhu Q, Liu N, Orkin SH, Yuan GC et al. CUT&RUNTools: a flexible pipeline for CUT&RUN processing and footprint analysis. Genome Biol 2019 Sep 9;20(1):192. PMID: 31500663
  • Uddin MN, Li M, Wang X et al. Identification of Transcriptional Markers and microRNA-mRNA Regulatory Networks in Colon Cancer by Integrative Analysis of mRNA and microRNA Expression Profiles in Colon Tumor Stroma. Cells 2019 Sep 8;8(9). PMID: 31500382
  • Yuan LT, Chang JH, Lee HL, Yang YC et al. Genetic Variants of lncRNA MALAT1 Exert Diverse Impacts on the Risk and Clinicopathologic Characteristics of Patients with Hepatocellular Carcinoma. J Clin Med 2019 Sep 6;8(9). PMID: 31500187
  • Zang L, Shimada Y, Nakayama H, Kim Y et al. RNA-seq Based Transcriptome Analysis of the Anti-Obesity Effect of Green Tea Extract Using Zebrafish Obesity Models. Molecules 2019 Sep 6;24(18). PMID: 31500159
  • Zamanian Azodi M, Rezaei-Tavirani M, Rezaei-Tavirani M, Robati RM et al. Gestational Diabetes Mellitus Regulatory Network Identifies hsa-miR-145-5p and hsa-miR-875-5p as Potential Biomarkers. Int J Endocrinol Metab 2019 Jul;17(3):e86640. PMID: 31497041
  • Xiao L, Zhou Z, Li W, Peng J et al. Chromobox homolog 8 (CBX8) Interacts with Y-Box binding protein 1 (YBX1) to promote cellular proliferation in hepatocellular carcinoma cells. Aging (Albany NY) 2019 Sep 8;11(17):7123-7149. PMID: 31495785
  • Harel M, Ortenberg R, Varanasi SK, Mangalhara KC et al. Proteomics of Melanoma Response to Immunotherapy Reveals Mitochondrial Dependence. Cell 2019 Sep 19;179(1):236-250.e18. PMID: 31495571
  • Wang SE, Ko SY, Jo S, Jo HR et al. Downregulation of SIRT2 by Chronic Stress Reduces Expression of Synaptic Plasticity-related Genes through the Upregulation of Ehmt2. Exp Neurobiol 2019 Aug 31;28(4):537-546. PMID: 31495082
  • Mahadevan IA, Pentakota S, Roy R, Bhaduri U et al. TH2BS11ph histone mark is enriched in the unsynapsed axes of the XY body and predominantly associates with H3K4me3-containing genomic regions in mammalian spermatocytes. Epigenetics Chromatin 2019 Sep 7;12(1):53. PMID: 31493790
  • Williams G, Gatt A, Clarke E, Corcoran J et al. Drug repurposing for Alzheimer's disease based on transcriptional profiling of human iPSC-derived cortical neurons. Transl Psychiatry 2019 Sep 6;9(1):220. PMID: 31492831
  • Rutter L, Moran Lauter AN, Graham MA, Cook D et al. Visualization methods for differential expression analysis. BMC Bioinformatics 2019 Sep 6;20(1):458. PMID: 31492109
  • He H, Liang G, Lu S, Wang P et al. Genome-Wide Identification and Expression Analysis of GA2ox, GA3ox, and GA20ox Are Related to Gibberellin Oxidase Genes in Grape (VitisVinifera L.). Genes (Basel) 2019 Sep 5;10(9). PMID: 31492001
  • Jo HJ, Yang JW, Park JH, Choi ES et al. Endoplasmic Reticulum Stress Increases DUSP5 Expression via PERK-CHOP Pathway, Leading to Hepatocyte Death. Int J Mol Sci 2019 Sep 5;20(18). PMID: 31491992
  • Foguet C, Jayaraman A, Marin S, Selivanov VA et al. p13CMFA: Parsimonious 13C metabolic flux analysis. PLoS Comput Biol 2019 Sep;15(9):e1007310. PMID: 31490922
  • Qian YC, Xie YX, Wang CS, Shi ZM et al. Mkrn2 deficiency induces teratozoospermia and male infertility through p53/PERP-mediated apoptosis in testis. Asian J Androl 2020 Jul-Aug;22(4):414-421. PMID: 31489847
  • Gu Y, Feng Q, Liu H, Zhou Q et al. Bioinformatic evidences and analysis of putative biomarkers in pancreatic ductal adenocarcinoma. Heliyon 2019 Aug;5(8):e02378. PMID: 31489384
  • Moerman-Herzog AM, Acheampong DA, Brooks AG, Blair SM et al. Transcriptome analysis of Sézary syndrome and lymphocytic-variant hypereosinophilic syndrome T cells reveals common and divergent genes. Oncotarget 2019 Aug 20;10(49):5052-5069. PMID: 31489115
  • Komura S, Ito K, Ohta S, Ukai T et al. Cell-type dependent enhancer binding of the EWS/ATF1 fusion gene in clear cell sarcomas. Nat Commun 2019 Sep 5;10(1):3999. PMID: 31488818
  • Hua Q, Jin M, Mi B, Xu F et al. LINC01123, a c-Myc-activated long non-coding RNA, promotes proliferation and aerobic glycolysis of non-small cell lung cancer through miR-199a-5p/c-Myc axis. J Hematol Oncol 2019 Sep 5;12(1):91. PMID: 31488218
  • Deegan DF, Karbalaei R, Madzo J, Kulathinal RJ et al. The developmental origins of sex-biased expression in cardiac development. Biol Sex Differ 2019 Sep 5;10(1):46. PMID: 31488212
  • Li Y, Ge D, Gu J, Xu F et al. A large cohort study identifying a novel prognosis prediction model for lung adenocarcinoma through machine learning strategies. BMC Cancer 2019 Sep 5;19(1):886. PMID: 31488089
  • Pin A, Monasta L, Taddio A, Piscianz E et al. An Easy and Reliable Strategy for Making Type I Interferon Signature Analysis Comparable among Research Centers. Diagnostics (Basel) 2019 Sep 4;9(3). PMID: 31487897
  • Meng LB, Shan MJ, Qiu Y, Qi R et al. TPM2 as a potential predictive biomarker for atherosclerosis. Aging (Albany NY) 2019 Sep 5;11(17):6960-6982. PMID: 31487691
  • Wang X, Wang X, Li X, Chang Y et al. Identification of Specific Candidate Diagnostic Biomarkers for Lung Squamous Cell Carcinoma Based on Methylation. J Comput Biol 2020 May;27(5):825-833. PMID: 31486674
  • Liu Q, Zhang W, Wu Z, Liu H et al. Construction of a circular RNA-microRNA-messengerRNA regulatory network in stomach adenocarcinoma. J Cell Biochem 2020 Feb;121(2):1317-1331. PMID: 31486138
  • Schonkeren SL, Massen M, van der Horst R, Koch A et al. Nervous NDRGs: the N-myc downstream-regulated gene family in the central and peripheral nervous system. Neurogenetics 2019 Oct;20(4):173-186. PMID: 31485792
  • Wang Z, Zhang M, Shan R, Wang YJ et al. MTMR3 is upregulated in patients with breast cancer and regulates proliferation, cell cycle progression and autophagy in breast cancer cells. Oncol Rep 2019 Nov;42(5):1915-1923. PMID: 31485632
  • Hu C, Zhou H, Liu Y, Huang J et al. ROCK1 promotes migration and invasion of non‑small‑cell lung cancer cells through the PTEN/PI3K/FAK pathway. Int J Oncol 2019 Oct;55(4):833-844. PMID: 31485605
  • Shen Y, Liu J, Zhang L, Dong S et al. Identification of Potential Biomarkers and Survival Analysis for Head and Neck Squamous Cell Carcinoma Using Bioinformatics Strategy: A Study Based on TCGA and GEO Datasets. Biomed Res Int 2019;2019:7376034. PMID: 31485443
  • Yousefi M, Marashi SA, Sharifi-Zarchi A, Taleahmad S et al. The metabolic network model of primed/naive human embryonic stem cells underlines the importance of oxidation-reduction potential and tryptophan metabolism in primed pluripotency. Cell Biosci 2019;9:71. PMID: 31485322
  • Gnanakkumaar P, Murugesan R, Ahmed SSSJ et al. Gene Regulatory Networks in Peripheral Mononuclear Cells Reveals Critical Regulatory Modules and Regulators of Multiple Sclerosis. Sci Rep 2019 Sep 4;9(1):12732. PMID: 31484947
  • Li Z, Wu H et al. TOAST: improving reference-free cell composition estimation by cross-cell type differential analysis. Genome Biol 2019 Sep 4;20(1):190. PMID: 31484546
  • Liang J, Iqbal S, Wen F, Tong M et al. Phosphorus-Induced Lipid Class Alteration Revealed by Lipidomic and Transcriptomic Profiling in Oleaginous Microalga Nannochloropsis sp. PJ12. Mar Drugs 2019 Sep 3;17(9). PMID: 31484443
  • Peng S, Zaretsky JM, Ng AHC, Chour W et al. Sensitive Detection and Analysis of Neoantigen-Specific T Cell Populations from Tumors and Blood. Cell Rep 2019 Sep 3;28(10):2728-2738.e7. PMID: 31484081
  • Gutierrez-Perez I, Rowley MJ, Lyu X, Valadez-Graham V et al. Ecdysone-Induced 3D Chromatin Reorganization Involves Active Enhancers Bound by Pipsqueak and Polycomb. Cell Rep 2019 Sep 3;28(10):2715-2727.e5. PMID: 31484080
  • Gargaro M, Vacca C, Massari S, Scalisi G et al. Engagement of Nuclear Coactivator 7 by 3-Hydroxyanthranilic Acid Enhances Activation of Aryl Hydrocarbon Receptor in Immunoregulatory Dendritic Cells. Front Immunol 2019;10:1973. PMID: 31481962
  • Liu Y, Gu HY, Zhu J, Niu YM et al. Identification of Hub Genes and Key Pathways Associated With Bipolar Disorder Based on Weighted Gene Co-expression Network Analysis. Front Physiol 2019;10:1081. PMID: 31481902
  • Schyns J, Bai Q, Ruscitti C, Radermecker C et al. Non-classical tissue monocytes and two functionally distinct populations of interstitial macrophages populate the mouse lung. Nat Commun 2019 Sep 3;10(1):3964. PMID: 31481690
  • Xie Q, Shen W, Li Z, Baranova A et al. A core collection of pan-schizophrenia genes allows building cohort-specific signatures of affected brain. Sci Rep 2019 Sep 3;9(1):12671. PMID: 31481672
  • Khetchoumian K, Balsalobre A, Mayran A, Christian H et al. Pituitary cell translation and secretory capacities are enhanced cell autonomously by the transcription factor Creb3l2. Nat Commun 2019 Sep 3;10(1):3960. PMID: 31481663
  • Chen L, Zeng T, Pan X, Zhang YH et al. Identifying Methylation Pattern and Genes Associated with Breast Cancer Subtypes. Int J Mol Sci 2019 Aug 31;20(17). PMID: 31480430
  • Wang G, Rao N, Liu D, Jiang H et al. Analysis of potential roles of combinatorial microRNA regulation in occurrence of valvular heart disease with atrial fibrillation based on computational evidences. PLoS One 2019;14(9):e0221900. PMID: 31479479
  • McMahon M, Contreras A, Holm M, Uechi T et al. A single H/ACA small nucleolar RNA mediates tumor suppression downstream of oncogenic RAS. Elife 2019 Sep 3;8. PMID: 31478838
  • Arina A, Beckett M, Fernandez C, Zheng W et al. Tumor-reprogrammed resident T cells resist radiation to control tumors. Nat Commun 2019 Sep 2;10(1):3959. PMID: 31477729
  • Novakovic B, Lewis S, Halliday J, Kennedy J et al. Assisted reproductive technologies are associated with limited epigenetic variation at birth that largely resolves by adulthood. Nat Commun 2019 Sep 2;10(1):3922. PMID: 31477727
  • Lv X, Ren SQ, Zhang XJ, Shen Z et al. TBR2 coordinates neurogenesis expansion and precise microcircuit organization via Protocadherin 19 in the mammalian cortex. Nat Commun 2019 Sep 2;10(1):3946. PMID: 31477701
  • Hong SP, Chan TE, Lombardo Y, Corleone G et al. Single-cell transcriptomics reveals multi-step adaptations to endocrine therapy. Nat Commun 2019 Sep 2;10(1):3840. PMID: 31477698
  • Tiihonen J, Koskuvi M, Storvik M, Hyötyläinen I et al. Sex-specific transcriptional and proteomic signatures in schizophrenia. Nat Commun 2019 Sep 2;10(1):3933. PMID: 31477693
  • Zhang L, Chen J, Yong J, Qiao L et al. An essential role of RNF187 in Notch1 mediated metastasis of hepatocellular carcinoma. J Exp Clin Cancer Res 2019 Sep 2;38(1):384. PMID: 31477177
  • Liang X, He X, Li Y, Wang J et al. Lyn regulates epithelial-mesenchymal transition in CS-exposed model through Smad2/3 signaling. Respir Res 2019 Sep 2;20(1):201. PMID: 31477108
  • Zhang J, Cong R, Zhao K, Wang Y et al. High TRIAP1 expression in penile carcinoma is associated with high risk of recurrence and poor survival. Ann Transl Med 2019 Jul;7(14):330. PMID: 31475200
  • Xue G, Cui ZJ, Zhou XH, Zhu YX et al. DNA Methylation Biomarkers Predict Objective Responses to PD-1/PD-L1 Inhibition Blockade. Front Genet 2019;10:724. PMID: 31475034
  • Martin JC, Chang C, Boschetti G, Ungaro R et al. Single-Cell Analysis of Crohn's Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF Therapy. Cell 2019 Sep 5;178(6):1493-1508.e20. PMID: 31474370
  • Morag S, Salmon-Divon M et al. Characterizing Human Cell Types and Tissue Origin Using the Benford Law. Cells 2019 Aug 29;8(9). PMID: 31470662
  • Liang T, Wang X, Wang F, Feng E et al. Galectin-9: A Predictive Biomarker Negatively Regulating Immune Response in Glioma Patients. World Neurosurg 2019 Dec;132:e455-e462. PMID: 31470166
  • Ni Y, Zhang Z, Chen G, Long W et al. Integrated analyses identify potential prognostic markers for uveal melanoma. Exp Eye Res 2019 Oct;187:107780. PMID: 31469983
  • Chen R, Sugiyama A, Seno H, Sugimoto M et al. Identification of modules and functional analysis in CRC subtypes by integrated bioinformatics analysis. PLoS One 2019;14(8):e0221772. PMID: 31469863
  • Ghosal S, Das S, Pang Y, Gonzales MK et al. Long intergenic noncoding RNA profiles of pheochromocytoma and paraganglioma: A novel prognostic biomarker. Int J Cancer 2020 Apr 15;146(8):2326-2335. PMID: 31469413
  • Choi HJ, Jin S, Cho H, Won HY et al. CDK12 drives breast tumor initiation and trastuzumab resistance via WNT and IRS1-ErbB-PI3K signaling. EMBO Rep 2019 Oct 4;20(10):e48058. PMID: 31468695
  • Zhang J, Guo S, Wu Y, Zheng ZC et al. P4HB, a Novel Hypoxia Target Gene Related to Gastric Cancer Invasion and Metastasis. Biomed Res Int 2019;2019:9749751. PMID: 31467922
  • Zhang H, Du Y, Wang Z, Lou R et al. Integrated Analysis of Oncogenic Networks in Colorectal Cancer Identifies GUCA2A as a Molecular Marker. Biochem Res Int 2019;2019:6469420. PMID: 31467713
  • Wu L, Shang W, Zhao H, Rong G et al. In Silico Screening of Circulating MicroRNAs as Potential Biomarkers for the Diagnosis of Ovarian Cancer. Dis Markers 2019;2019:7541857. PMID: 31467618
  • Mori T, Takaoka H, Yamane J, Alev C et al. Novel computational model of gastrula morphogenesis to identify spatial discriminator genes by self-organizing map (SOM) clustering. Sci Rep 2019 Aug 29;9(1):12597. PMID: 31467377
  • Konno M, Koseki J, Asai A, Yamagata A et al. Distinct methylation levels of mature microRNAs in gastrointestinal cancers. Nat Commun 2019 Aug 29;10(1):3888. PMID: 31467274
  • Li B, Sun L, Huang J, Göschl C et al. GSNOR provides plant tolerance to iron toxicity via preventing iron-dependent nitrosative and oxidative cytotoxicity. Nat Commun 2019 Aug 29;10(1):3896. PMID: 31467270
  • Shi G, Thirumalai D et al. Conformational heterogeneity in human interphase chromosome organization reconciles the FISH and Hi-C paradox. Nat Commun 2019 Aug 29;10(1):3894. PMID: 31467267
  • Lieberman-Lazarovich M, Yahav C, Israeli A, Efroni I et al. Deep Conservation of cis-Element Variants Regulating Plant Hormonal Responses. Plant Cell 2019 Nov;31(11):2559-2572. PMID: 31467248
  • Zeng X, Li C, Li Y, Yu H et al. A network-based variable selection approach for identification of modules and biomarker genes associated with end-stage kidney disease. Nephrology (Carlton) 2020 Oct;25(10):775-784. PMID: 31464346
  • Børretzen A, Gravdal K, Haukaas SA, Beisland C et al. FOXC2 expression and epithelial-mesenchymal phenotypes are associated with castration resistance, metastasis and survival in prostate cancer. J Pathol Clin Res 2019 Oct;5(4):272-286. PMID: 31464093
  • Song WM, Lin X, Liao X, Hu D et al. Multiscale network analysis reveals molecular mechanisms and key regulators of the tumor microenvironment in gastric cancer. Int J Cancer 2020 Mar 1;146(5):1268-1280. PMID: 31463974
  • Xu J, Lv H, Zhang B, Xu F et al. miR-30b-5p acts as a tumor suppressor microRNA in esophageal squamous cell carcinoma. J Thorac Dis 2019 Jul;11(7):3015-3029. PMID: 31463131
  • Ehrenberg PK, Shangguan S, Issac B, Alter G et al. A vaccine-induced gene expression signature correlates with protection against SIV and HIV in multiple trials. Sci Transl Med 2019 Aug 28;11(507). PMID: 31462510
  • Bordignon P, Bottoni G, Xu X, Popescu AS et al. Dualism of FGF and TGF-β Signaling in Heterogeneous Cancer-Associated Fibroblast Activation with ETV1 as a Critical Determinant. Cell Rep 2019 Aug 27;28(9):2358-2372.e6. PMID: 31461652
  • Li M, Fine RD, Dinda M, Bekiranov S et al. A Sir2-regulated locus control region in the recombination enhancer of Saccharomyces cerevisiae specifies chromosome III structure. PLoS Genet 2019 Aug;15(8):e1008339. PMID: 31461456
  • Zhang Z, Liu Y, Wang W, Xing Y et al. Identification of Differentially Expressed Genes Associated with Lymph Node Tuberculosis by the Bioinformatic Analysis Based on a Microarray. J Comput Biol 2020 Jan;27(1):121-130. PMID: 31460784
  • Shi K, Ge MN, Chen XQ et al. Coordinated DNA Methylation and Gene Expression Data for Identification of the Critical Genes Associated with Childhood Atopic Asthma. J Comput Biol 2020 Jan;27(1):109-120. PMID: 31460781
  • Sugasawa S, Noma H et al. Estimating individual treatment effects by gradient boosting trees. Stat Med 2019 Nov 20;38(26):5146-5159. PMID: 31460679
  • Chen L, Pan X, Zhang YH, Hu X et al. Primary Tumor Site Specificity is Preserved in Patient-Derived Tumor Xenograft Models. Front Genet 2019;10:738. PMID: 31456818
  • Schroder WA, Hirata TD, Le TT, Gardner J et al. SerpinB2 inhibits migration and promotes a resolution phase signature in large peritoneal macrophages. Sci Rep 2019 Aug 27;9(1):12421. PMID: 31455834
  • Estill M, Hauser R, Nassan FL, Moss A et al. The effects of di-butyl phthalate exposure from medications on human sperm RNA among men. Sci Rep 2019 Aug 27;9(1):12397. PMID: 31455814
  • Woo AJ, Patry CA, Ghamari A, Pregernig G et al. Zfp281 (ZBP-99) plays a functionally redundant role with Zfp148 (ZBP-89) during erythroid development. Blood Adv 2019 Aug 27;3(16):2499-2511. PMID: 31455666
  • Gervin K, Salas LA, Bakulski KM, van Zelm MC et al. Systematic evaluation and validation of reference and library selection methods for deconvolution of cord blood DNA methylation data. Clin Epigenetics 2019 Aug 27;11(1):125. PMID: 31455416
  • Cury SS, de Moraes D, Freire PP, de Oliveira G et al. Tumor Transcriptome Reveals High Expression of IL-8 in Non-Small Cell Lung Cancer Patients with Low Pectoralis Muscle Area and Reduced Survival. Cancers (Basel) 2019 Aug 26;11(9). PMID: 31455042
  • Frydrych Capelari É, da Fonseca GC, Guzman F, Margis R et al. Circular and Micro RNAs from Arabidopsis thaliana Flowers Are Simultaneously Isolated from AGO-IP Libraries. Plants (Basel) 2019 Aug 26;8(9). PMID: 31454955
  • Yamamoto S, Takayama KI, Obinata D, Fujiwara K et al. Identification of new octamer transcription factor 1-target genes upregulated in castration-resistant prostate cancer. Cancer Sci 2019 Nov;110(11):3476-3485. PMID: 31454442
  • Aquilano K, Ceci V, Gismondi A, De Stefano S et al. Adipocyte metabolism is improved by TNF receptor-targeting small RNAs identified from dried nuts. Commun Biol 2019;2:317. PMID: 31453381
  • Loi E, Moi L, Fadda A, Satta G et al. Methylation alteration of SHANK1 as a predictive, diagnostic and prognostic biomarker for chronic lymphocytic leukemia. Oncotarget 2019 Aug 13;10(48):4987-5002. PMID: 31452839
  • Abbas A, Romigh T, Eng C et al. PTEN interacts with RNA polymerase II to dephosphorylate polymerase II C-terminal domain. Oncotarget 2019 Aug 13;10(48):4951-4959. PMID: 31452836
  • Boonsongserm P, Angsuwatcharakon P, Puttipanyalears C, Aporntewan C et al. Tumor-induced DNA methylation in the white blood cells of patients with colorectal cancer. Oncol Lett 2019 Sep;18(3):3039-3048. PMID: 31452782
  • Chen F, Zheng A, Li F, Wen S et al. Screening and identification of potential target genes in head and neck cancer using bioinformatics analysis. Oncol Lett 2019 Sep;18(3):2955-2966. PMID: 31452775
  • Liu J, Ma Z, Liu Y, Wu L et al. Screening of potential biomarkers in hepatitis C virus-induced hepatocellular carcinoma using bioinformatic analysis. Oncol Lett 2019 Sep;18(3):2500-2508. PMID: 31452738
  • Yang G, Zhou D, Li J, Wang W et al. VDAC1 is regulated by BRD4 and contributes to JQ1 resistance in breast cancer. Oncol Lett 2019 Sep;18(3):2340-2347. PMID: 31452730
  • Meng X, Zhao Y, Liu J, Wang L et al. Comprehensive analysis of histone modification-associated genes on differential gene expression and prognosis in gastric cancer. Exp Ther Med 2019 Sep;18(3):2219-2230. PMID: 31452712
  • Zhang M, Lv X, Jiang Y, Li G et al. Identification of aberrantly methylated differentially expressed genes in glioblastoma multiforme and their association with patient survival. Exp Ther Med 2019 Sep;18(3):2140-2152. PMID: 31452706
  • Yang B, Fu L, Xu S, Xiao J et al. A nomogram based on a gene signature for predicting the prognosis of patients with head and neck squamous cell carcinoma. Int J Biol Markers 2019 Sep;34(3):309-317. PMID: 31452437
  • Marquardt N, Kekäläinen E, Chen P, Lourda M et al. Unique transcriptional and protein-expression signature in human lung tissue-resident NK cells. Nat Commun 2019 Aug 26;10(1):3841. PMID: 31451696
  • Ragazzini R, Pérez-Palacios R, Baymaz IH, Diop S et al. EZHIP constrains Polycomb Repressive Complex 2 activity in germ cells. Nat Commun 2019 Aug 26;10(1):3858. PMID: 31451685
  • Akbari V, Kallhor M, Mollashahi B, Movafagh A et al. Transcriptome and Network Dissection of Microsatellite Stable and Highly Instable Colorectal Cancer. Asian Pac J Cancer Prev 2019 Aug 1;20(8):2445-2454. PMID: 31450919
  • Chang YC, Tsai HF, Huang SP, Chen CL et al. Enrichment of Aldolase C Correlates with Low Non-Mutated IDH1 Expression and Predicts a Favorable Prognosis in Glioblastomas. Cancers (Basel) 2019 Aug 23;11(9). PMID: 31450822
  • Madrid-Espinoza J, Salinas-Cornejo J, Ruiz-Lara S et al. The RabGAP Gene Family in Tomato (Solanum lycopersicum) and Wild Relatives: Identification, Interaction Networks, and Transcriptional Analysis during Plant Development and in Response to Salt Stress. Genes (Basel) 2019 Aug 23;10(9). PMID: 31450820
  • Chaves G, Stanley J, Pourmand N et al. Mutant Huntingtin Affects Diabetes and Alzheimer's Markers in Human and Cell Models of Huntington's Disease. Cells 2019 Aug 23;8(9). PMID: 31450785
  • Long J, Xiong J, Bai Y, Mao J et al. Construction and Investigation of a lncRNA-Associated ceRNA Regulatory Network in Cholangiocarcinoma. Front Oncol 2019;9:649. PMID: 31448221
  • Zhang RJ, Li Y, Liu Q, Gao YJ et al. Differential Expression Profiles and Functional Prediction of Circular RNAs and Long Non-coding RNAs in the Hippocampus of Nrf2-Knockout Mice. Front Mol Neurosci 2019;12:196. PMID: 31447646
  • Mori S, Sakakura E, Tsunekawa Y, Hagiwara M et al. Self-organized formation of developing appendages from murine pluripotent stem cells. Nat Commun 2019 Aug 23;10(1):3802. PMID: 31444329
  • Wei Q, Leclercq S, Bhasme P, Xu A et al. Diguanylate Cyclases and Phosphodiesterases Required for Basal-Level c-di-GMP in Pseudomonas aeruginosa as Revealed by Systematic Phylogenetic and Transcriptomic Analyses. Appl Environ Microbiol 2019 Nov 1;85(21). PMID: 31444209
  • Zhang Q, Vallerga CL, Walker RM, Lin T et al. Improved precision of epigenetic clock estimates across tissues and its implication for biological ageing. Genome Med 2019 Aug 23;11(1):54. PMID: 31443728
  • Zeng JH, Lu W, Liang L, Chen G et al. Prognosis of clear cell renal cell carcinoma (ccRCC) based on a six-lncRNA-based risk score: an investigation based on RNA-sequencing data. J Transl Med 2019 Aug 23;17(1):281. PMID: 31443717
  • Qadir F, Lalli A, Dar HH, Hwang S et al. Clinical correlation of opposing molecular signatures in head and neck squamous cell carcinoma. BMC Cancer 2019 Aug 23;19(1):830. PMID: 31443700
  • Engebretsen S, Bohlin J et al. Statistical predictions with glmnet. Clin Epigenetics 2019 Aug 23;11(1):123. PMID: 31443682
  • Wang G, Lou HH, Salit J, Leopold PL et al. Characterization of an immortalized human small airway basal stem/progenitor cell line with airway region-specific differentiation capacity. Respir Res 2019 Aug 23;20(1):196. PMID: 31443657
  • El-Athman R, Knezevic D, Fuhr L, Relógio A et al. A Computational Analysis of Alternative Splicing across Mammalian Tissues Reveals Circadian and Ultradian Rhythms in Splicing Events. Int J Mol Sci 2019 Aug 15;20(16). PMID: 31443305
  • Dong MB, Wang G, Chow RD, Ye L et al. Systematic Immunotherapy Target Discovery Using Genome-Scale In Vivo CRISPR Screens in CD8 T Cells. Cell 2019 Aug 22;178(5):1189-1204.e23. PMID: 31442407
  • Piovesan A, Antonaros F, Strippoli P, Vitale L et al. Reference quantitative transcriptome dataset for adult Caenorhabditis elegans. Data Brief 2019 Aug;25:104152. PMID: 31440537
  • Ma L, Hu J, Cao Y, Xie Y et al. Maintained Properties of Aged Dental Pulp Stem Cells for Superior Periodontal Tissue Regeneration. Aging Dis 2019 Aug;10(4):793-806. PMID: 31440385
  • Boshans LL, Factor DC, Singh V, Liu J et al. The Chromatin Environment Around Interneuron Genes in Oligodendrocyte Precursor Cells and Their Potential for Interneuron Reprograming. Front Neurosci 2019;13:829. PMID: 31440130
  • Abdalla MOA, Yamamoto T, Maehara K, Nogami J et al. The Eleanor ncRNAs activate the topological domain of the ESR1 locus to balance against apoptosis. Nat Commun 2019 Aug 22;10(1):3778. PMID: 31439835
  • Zhou C, Wang M, Yang J, Xiong H et al. Integral membrane protein 2A inhibits cell growth in human breast cancer via enhancing autophagy induction. Cell Commun Signal 2019 Aug 22;17(1):105. PMID: 31438969
  • Chen Y, Peng C, Chen J, Chen D et al. WTAP facilitates progression of hepatocellular carcinoma via m6A-HuR-dependent epigenetic silencing of ETS1. Mol Cancer 2019 Aug 22;18(1):127. PMID: 31438961
  • Liu Q, Hou A, Zhang Y, Guo Y et al. MiR-190a potentially ameliorates postoperative cognitive dysfunction by regulating Tiam1. BMC Genomics 2019 Aug 22;20(1):670. PMID: 31438846
  • Torang A, Gupta P, Klinke DJ 2nd et al. An elastic-net logistic regression approach to generate classifiers and gene signatures for types of immune cells and T helper cell subsets. BMC Bioinformatics 2019 Aug 22;20(1):433. PMID: 31438843
  • Yan J, Su P, Li W, Xiao G et al. Genome-wide and evolutionary analysis of the class III peroxidase gene family in wheat and Aegilops tauschii reveals that some members are involved in stress responses. BMC Genomics 2019 Aug 22;20(1):666. PMID: 31438842
  • Wu H, Zhang R, Fan X, Lian Z et al. FoxOs could play an important role during influenza A viruses infection via microarray analysis based on GEO database. Infect Genet Evol 2019 Nov;75:104009. PMID: 31437558
  • Xie C, Bekpen C, Künzel S, Keshavarz M et al. A de novo evolved gene in the house mouse regulates female pregnancy cycles. Elife 2019 Aug 22;8. PMID: 31436535
  • Uzawa K, Amelio AL, Kasamatsu A, Saito T et al. Resveratrol Targets Urokinase-Type Plasminogen Activator Receptor Expression to Overcome Cetuximab-Resistance in Oral Squamous Cell Carcinoma. Sci Rep 2019 Aug 21;9(1):12179. PMID: 31434965
  • Zou JB, Chai HB, Zhang XF, Guo DY et al. Reconstruction of the lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveal functional lncRNAs in Cerebral Infarction. Sci Rep 2019 Aug 21;9(1):12176. PMID: 31434962
  • Zamani-Ahmadmahmudi M, Nassiri SM et al. Development of a Reproducible Prognostic Gene Signature to Predict the Clinical Outcome in Patients with Diffuse Large B-Cell Lymphoma. Sci Rep 2019 Aug 21;9(1):12198. PMID: 31434961
  • Xiao Z, Dai Z, Locasale JW et al. Metabolic landscape of the tumor microenvironment at single cell resolution. Nat Commun 2019 Aug 21;10(1):3763. PMID: 31434891
  • Cao L, Wu G, Zhu J, Tan Z et al. Genotoxic stress-triggered β-catenin/JDP2/PRMT5 complex facilitates reestablishing glutathione homeostasis. Nat Commun 2019 Aug 21;10(1):3761. PMID: 31434880
  • Yue C, Liang C, Ge H, Yan L et al. SUCO as a Promising Diagnostic Biomarker of Hepatocellular Carcinoma: Integrated Analysis and Experimental Validation. Med Sci Monit 2019 Aug 22;25:6292-6303. PMID: 31434866
  • Xie MM, Fang S, Chen Q, Liu H et al. Follicular regulatory T cells inhibit the development of granzyme B-expressing follicular helper T cells. JCI Insight 2019 Aug 22;4(16). PMID: 31434804
  • Dvinge H, Guenthoer J, Porter PL, Bradley RK et al. RNA components of the spliceosome regulate tissue- and cancer-specific alternative splicing. Genome Res 2019 Oct;29(10):1591-1604. PMID: 31434678
  • Buj R, Chen CW, Dahl ES, Leon KE et al. Suppression of p16 Induces mTORC1-Mediated Nucleotide Metabolic Reprogramming. Cell Rep 2019 Aug 20;28(8):1971-1980.e8. PMID: 31433975
  • Shi X, Dong X, Young S, Chen AM et al. The impact of angiogenesis inhibitors on survival of patients with small cell lung cancer. Cancer Med 2019 Oct;8(13):5930-5938. PMID: 31433125
  • Chen W, Wang ZK, Ren YQ, Zhang L et al. Silencing of keratin 1 inactivates the Notch signaling pathway to inhibit renal interstitial fibrosis and glomerular sclerosis in uremia. J Cell Physiol 2020 Feb;235(2):1674-1688. PMID: 31432509
  • Zhu J, Zhang X, Gao W, Hu H et al. lncRNA/circRNA‑miRNA‑mRNA ceRNA network in lumbar intervertebral disc degeneration. Mol Med Rep 2019 Oct;20(4):3160-3174. PMID: 31432173
  • Sun J, Xu H, Qi M, Zhang C et al. Identification of key genes in osteosarcoma by meta‑analysis of gene expression microarray. Mol Med Rep 2019 Oct;20(4):3075-3084. PMID: 31432118
  • Li H, Wan HQ, Zhao HJ, Luan SX et al. Identification of candidate genes and miRNAs associated with neuropathic pain induced by spared nerve injury. Int J Mol Med 2019 Oct;44(4):1205-1218. PMID: 31432094
  • Lucchetta M, da Piedade I, Mounir M, Vabistsevits M et al. Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response. BMC Cancer 2019 Aug 20;19(1):824. PMID: 31429720
  • Chen W, Morabito SJ, Kessenbrock K, Enver T et al. Single-cell landscape in mammary epithelium reveals bipotent-like cells associated with breast cancer risk and outcome. Commun Biol 2019;2:306. PMID: 31428694
  • Merlotti A, Malizia AL, Michea P, Bonte PE et al. Aberrant fucosylation enables breast cancer clusterin to interact with dendritic cell-specific ICAM-grabbing non-integrin (DC-SIGN). Oncoimmunology 2019;8(9):e1629257. PMID: 31428526
  • Deng JL, Xu YH, Wang G et al. Identification of Potential Crucial Genes and Key Pathways in Breast Cancer Using Bioinformatic Analysis. Front Genet 2019;10:695. PMID: 31428132
  • Czubak K, Taylor K, Piasecka A, Sobczak K et al. Global Increase in Circular RNA Levels in Myotonic Dystrophy. Front Genet 2019;10:649. PMID: 31428124
  • Aamir M, Kashyap SP, Zehra A, Dubey MK et al. Trichoderma erinaceum Bio-Priming Modulates the WRKYs Defense Programming in Tomato Against the Fusarium oxysporum f. sp. lycopersici (Fol) Challenged Condition. Front Plant Sci 2019;10:911. PMID: 31428107
  • Licht K, Kapoor U, Amman F, Picardi E et al. A high resolution A-to-I editing map in the mouse identifies editing events controlled by pre-mRNA splicing. Genome Res 2019 Sep;29(9):1453-1463. PMID: 31427386
  • Sannino G, Marchetto A, Ranft A, Jabar S et al. Gene expression and immunohistochemical analyses identify SOX2 as major risk factor for overall survival and relapse in Ewing sarcoma patients. EBioMedicine 2019 Sep;47:156-162. PMID: 31427232
  • Qin X, Chen R, Xiong R, Tan Z et al. Comprehensive analysis of non-small-cell lung cancer microarray datasets identifies several prognostic biomarkers. Future Oncol 2019 Sep;15(27):3135-3148. PMID: 31426680
  • Zou YF, Meng LB, Wang QQ, He ZK et al. Identification and Functional Enrichment Analysis of Potential Diagnostic and Therapeutic Targets in Adamantinomatous Craniopharyngioma. J Comput Biol 2020 Jan;27(1):55-68. PMID: 31424286
  • Yang B, Dong K, Guo P, Guo P et al. Identification of Key Biomarkers and Potential Molecular Mechanisms in Oral Squamous Cell Carcinoma by Bioinformatics Analysis. J Comput Biol 2020 Jan;27(1):40-54. PMID: 31424263
  • Shaji SK, Sunilkumar D, Mahalakshmi NV, Kumar GB et al. Analysis of microarray data for identification of key microRNA signatures in glioblastoma multiforme. Oncol Lett 2019 Aug;18(2):1938-1948. PMID: 31423264
  • Kan S, Chai S, Chen W, Yu B et al. DNA methylation profiling identifies potentially significant epigenetically-regulated genes in glioblastoma multiforme. Oncol Lett 2019 Aug;18(2):1679-1688. PMID: 31423235
  • Lan L, Xu B, Chen Q, Jiang J et al. Weighted correlation network analysis of triple-negative breast cancer progression: Identifying specific modules and hub genes based on the GEO and TCGA database. Oncol Lett 2019 Aug;18(2):1207-1217. PMID: 31423181
  • Yuan YH, Zhou J, Zhang Y, Xu MD et al. Identification of key genes and pathways downstream of the β-catenin-TCF7L1 complex in pancreatic cancer cells using bioinformatics analysis. Oncol Lett 2019 Aug;18(2):1117-1132. PMID: 31423172
  • Jin H, Huang X, Shao K, Li G et al. Integrated bioinformatics analysis to identify 15 hub genes in breast cancer. Oncol Lett 2019 Aug;18(2):1023-1034. PMID: 31423162
  • Yan P, Yang X, Wang J, Wang S et al. A novel CpG island methylation panel predicts survival in lung adenocarcinomas. Oncol Lett 2019 Aug;18(2):1011-1022. PMID: 31423161
  • Xu J, Hu J, Xu H, Zhou H et al. Long Non-coding RNA Expression Profiling in Biopsy to Identify Renal Allograft at Risk of Chronic Damage and Future Graft Loss. Appl Biochem Biotechnol 2020 Feb;190(2):660-673. PMID: 31422559
  • Cai J, Yu Y, Xu Y, Liu H et al. Exploring the role of Mir204/211 in HNSCC by the combination of bioinformatic analysis of ceRNA and transcription factor regulation. Oral Oncol 2019 Sep;96:153-160. PMID: 31422208
  • Laaniste L, Srivastava PK, Stylianou J, Syed N et al. Integrated systems-genetic analyses reveal a network target for delaying glioma progression. Ann Clin Transl Neurol 2019 Sep;6(9):1616-1638. PMID: 31420939
  • Gao F, Wang W, Tan M, Zhu L et al. DeepCC: a novel deep learning-based framework for cancer molecular subtype classification. Oncogenesis 2019 Aug 16;8(9):44. PMID: 31420533
  • Félix Garza ZC, Lenz M, Liebmann J, Ertaylan G et al. Characterization of disease-specific cellular abundance profiles of chronic inflammatory skin conditions from deconvolution of biopsy samples. BMC Med Genomics 2019 Aug 17;12(1):121. PMID: 31420038
  • Ci C, Wu C, Lyu D, Chang X et al. Downregulation of kynureninase restrains cutaneous squamous cell carcinoma proliferation and represses the PI3K/AKT pathway. Clin Exp Dermatol 2020 Mar;45(2):194-201. PMID: 31419330
  • Huang X, Li Y, Guo X, Zhu Z et al. Identification of differentially expressed genes and signaling pathways in chronic obstructive pulmonary disease via bioinformatic analysis. FEBS Open Bio 2019 Nov;9(11):1880-1899. PMID: 31419078
  • Qin J, Yang T, Zeng N, Wan C et al. Differential coexpression networks in bronchiolitis and emphysema phenotypes reveal heterogeneous mechanisms of chronic obstructive pulmonary disease. J Cell Mol Med 2019 Oct;23(10):6989-6999. PMID: 31419013
  • Zander M, Willige BC, He Y, Nguyen TA et al. Epigenetic silencing of a multifunctional plant stress regulator. Elife 2019 Aug 16;8. PMID: 31418686
  • Viswanathan R, Cheruba E, Cheow LF et al. DNA Analysis by Restriction Enzyme (DARE) enables concurrent genomic and epigenomic characterization of single cells. Nucleic Acids Res 2019 Nov 4;47(19):e122. PMID: 31418018
  • He R, Zuo S et al. A Robust 8-Gene Prognostic Signature for Early-Stage Non-small Cell Lung Cancer. Front Oncol 2019;9:693. PMID: 31417870
  • Zhang C, Aldrees M, Arif M, Li X et al. Elucidating the Reprograming of Colorectal Cancer Metabolism Using Genome-Scale Metabolic Modeling. Front Oncol 2019;9:681. PMID: 31417867
  • Ghaemi Z, Soltani BM, Mowla SJ et al. MicroRNA-326 Functions as a Tumor Suppressor in Breast Cancer by Targeting ErbB/PI3K Signaling Pathway. Front Oncol 2019;9:653. PMID: 31417861
  • Isles HM, Herman KD, Robertson AL, Loynes CA et al. The CXCL12/CXCR4 Signaling Axis Retains Neutrophils at Inflammatory Sites in Zebrafish. Front Immunol 2019;10:1784. PMID: 31417560
  • Sirard MADistribution and dynamics of mitochondrial DNA methylation in oocytes, embryos and granulosa cells. Sci Rep 2019 Aug 15;9(1):11937. PMID: 31417147
  • Lim SB, Yeo T, Lee WD, Bhagat AAS et al. Addressing cellular heterogeneity in tumor and circulation for refined prognostication. Proc Natl Acad Sci U S A 2019 Sep 3;116(36):17957-17962. PMID: 31416912
  • Liu K, Fu Q, Liu Y, Wang C et al. An integrative bioinformatics analysis of microarray data for identifying hub genes as diagnostic biomarkers of preeclampsia. Biosci Rep 2019 Sep 30;39(9). PMID: 31416885
  • Greenblatt R, Bacchetti P, Boylan R, Kober K et al. Genetic and clinical predictors of CD4 lymphocyte recovery during suppressive antiretroviral therapy: Whole exome sequencing and antiretroviral therapy response phenotypes. PLoS One 2019;14(8):e0219201. PMID: 31415590
  • Luo J, Wang D, Zhang S, Hu K et al. BolA family member 2 enhances cell proliferation and predicts a poor prognosis in hepatocellular carcinoma with tumor hemorrhage. J Cancer 2019;10(18):4293-4304. PMID: 31413749
  • Li J, Liu L, Liu X, Xu P et al. The Role of Upregulated DDX11 as A Potential Prognostic and Diagnostic Biomarker in Lung Adenocarcinoma. J Cancer 2019;10(18):4208-4216. PMID: 31413739
  • He Y, Zhou Y, Ma W, Wang J et al. An integrated transcriptomic analysis of autism spectrum disorder. Sci Rep 2019 Aug 14;9(1):11818. PMID: 31413321
  • Lu W, Li N, Liao F et al. Identification of Key Genes and Pathways in Pancreatic Cancer Gene Expression Profile by Integrative Analysis. Genes (Basel) 2019 Aug 13;10(8). PMID: 31412643
  • Baker-Williams AJ, Hashmi F, Budzyński MA, Woodford MR et al. Co-chaperones TIMP2 and AHA1 Competitively Regulate Extracellular HSP90:Client MMP2 Activity and Matrix Proteolysis. Cell Rep 2019 Aug 13;28(7):1894-1906.e6. PMID: 31412254
  • Hennessy EJ, van Solingen C, Scacalossi KR, Ouimet M et al. The long noncoding RNA CHROME regulates cholesterol homeostasis in primate. Nat Metab 2019 Jan;1(1):98-110. PMID: 31410392
  • Liu ZK, Zhang RY, Yong YL, Zhang ZY et al. Identification of crucial genes based on expression profiles of hepatocellular carcinomas by bioinformatics analysis. PeerJ 2019;7:e7436. PMID: 31410310
  • Chen JJ, Xiao ZJ, Meng X, Wang Y et al. MRP4 sustains Wnt/β-catenin signaling for pregnancy, endometriosis and endometrial cancer. Theranostics 2019;9(17):5049-5064. PMID: 31410201
  • Boso D, Rampazzo E, Zanon C, Bresolin S et al. HIF-1α/Wnt signaling-dependent control of gene transcription regulates neuronal differentiation of glioblastoma stem cells. Theranostics 2019;9(17):4860-4877. PMID: 31410187
  • Petralia MC, Mazzon E, Fagone P, Falzone L et al. Retrospective follow-up analysis of the transcriptomic patterns of cytokines, cytokine receptors and chemokines at preconception and during pregnancy, in women with post-partum depression. Exp Ther Med 2019 Sep;18(3):2055-2062. PMID: 31410161
  • Li X, Fang Y et al. Bioinformatics identification of potential genes and pathways in preeclampsia based on functional gene set enrichment analyses. Exp Ther Med 2019 Sep;18(3):1837-1844. PMID: 31410145
  • Kurşun D, Küçük C et al. Systematic analysis of the frequently amplified 2p15-p16.1 locus reveals PAPOLG as a potential proto-oncogene in follicular and transformed follicular lymphoma. Turk J Biol 2019;43:124-132. PMID: 31410080
  • Gómez-Carballa A, Cebey-López M, Pardo-Seco J, Barral-Arca R et al. A qPCR expression assay of IFI44L gene differentiates viral from bacterial infections in febrile children. Sci Rep 2019 Aug 13;9(1):11780. PMID: 31409879
  • Broderick L, Yost S, Li D, McGeough MD et al. Mutations in topoisomerase IIβ result in a B cell immunodeficiency. Nat Commun 2019 Aug 13;10(1):3644. PMID: 31409799
  • Zhuang X, Tong H, Ding Y, Wu L et al. Long noncoding RNA ABHD11-AS1 functions as a competing endogenous RNA to regulate papillary thyroid cancer progression by miR-199a-5p/SLC1A5 axis. Cell Death Dis 2019 Aug 14;10(8):620. PMID: 31409775
  • Yang Z, Liang X, Fu Y, Liu Y et al. Identification of AUNIP as a candidate diagnostic and prognostic biomarker for oral squamous cell carcinoma. EBioMedicine 2019 Sep;47:44-57. PMID: 31409573
  • Pienkowska M, Choufani S, Turinsky AL, Guha T et al. DNA methylation signature is prognostic of choroid plexus tumor aggressiveness. Clin Epigenetics 2019 Aug 13;11(1):117. PMID: 31409384
  • Martin-Herranz DE, Aref-Eshghi E, Bonder MJ, Stubbs TM et al. Screening for genes that accelerate the epigenetic aging clock in humans reveals a role for the H3K36 methyltransferase NSD1. Genome Biol 2019 Aug 14;20(1):146. PMID: 31409373
  • Zhang Y, Zheng Y, Fu Y, Wang C et al. Identification of biomarkers, pathways and potential therapeutic agents for white adipocyte insulin resistance using bioinformatics analysis. Adipocyte 2019 Dec;8(1):318-329. PMID: 31407623
  • Mohrherr J, Haber M, Breitenecker K, Aigner P et al. JAK-STAT inhibition impairs K-RAS-driven lung adenocarcinoma progression. Int J Cancer 2019 Dec 15;145(12):3376-3388. PMID: 31407334
  • Patel NB, Ostilla LA, Cuervo-Pardo L, Berdnikovs S et al. Gene expression of TMEM178, which encodes a negative regulator of NFATc1, decreases with the progression of asthma severity. Clin Transl Allergy 2019;9:38. PMID: 31406566
  • Brionne A, Juanchich A, Hennequet-Antier C et al. ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and semantic similarity. BioData Min 2019;12:16. PMID: 31406507
  • Volodko N, Gutor T, Petronchak O, Huley R et al. Low infiltration of tumor-associated macrophages in high c-Myb-expressing breast tumors. Sci Rep 2019 Aug 12;9(1):11634. PMID: 31406165
  • Chen Z, Song X, Li Q, Xie L et al. Androgen Receptor-Activated Enhancers Simultaneously Regulate Oncogene TMPRSS2 and lncRNA PRCAT38 in Prostate Cancer. Cells 2019 Aug 9;8(8). PMID: 31405024
  • Choi EA, Choi YS, Lee EJ, Singh SR et al. A pharmacogenomic analysis using L1000CDS(2) identifies BX-795 as a potential anticancer drug for primary pancreatic ductal adenocarcinoma cells. Cancer Lett 2019 Nov 28;465:82-93. PMID: 31404615
  • Taggart AJ, Fairbrother WG et al. ShapeShifter: a novel approach for identifying and quantifying stable lariat intronic species in RNAseq data. Quant Biol 2018 Sep;6(3):267-274. PMID: 31404415
  • Park MR, Wong MS, Araúzo-Bravo MJ, Lee H et al. Oct4 and Hnf4α-induced hepatic stem cells ameliorate chronic liver injury in liver fibrosis model. PLoS One 2019;14(8):e0221085. PMID: 31404112
  • Liao C, Huang X, Gong Y, Lin Q et al. Discovery of core genes in colorectal cancer by weighted gene co-expression network analysis. Oncol Lett 2019 Sep;18(3):3137-3149. PMID: 31402962
  • Li Z, Yuan B, Pei Z, Zhang K et al. Circ_0136474 and MMP-13 suppressed cell proliferation by competitive binding to miR-127-5p in osteoarthritis. J Cell Mol Med 2019 Oct;23(10):6554-6564. PMID: 31402547
  • Deng W, Mou T, Kalari KR, Niu N et al. Alternating EM algorithm for a bilinear model in isoform quantification from RNA-seq data. Bioinformatics 2020 Feb 1;36(3):805-812. PMID: 31400221
  • Ramsay L, Quillé ML, Orset C, de la Grange P et al. Blood transcriptomic biomarker as a surrogate of ischemic brain gene expression. Ann Clin Transl Neurol 2019 Sep;6(9):1681-1695. PMID: 31400065
  • Tan MSY, Sandanaraj E, Chong YK, Lim SW et al. A STAT3-based gene signature stratifies glioma patients for targeted therapy. Nat Commun 2019 Aug 9;10(1):3601. PMID: 31399589
  • Annunziata I, van de Vlekkert D, Wolf E, Finkelstein D et al. MYC competes with MiT/TFE in regulating lysosomal biogenesis and autophagy through an epigenetic rheostat. Nat Commun 2019 Aug 9;10(1):3623. PMID: 31399583
  • Gressel S, Schwalb B, Cramer P et al. The pause-initiation limit restricts transcription activation in human cells. Nat Commun 2019 Aug 9;10(1):3603. PMID: 31399571
  • Li XY, Zhou LY, Luo H, Zhu Q et al. The long noncoding RNA MIR210HG promotes tumor metastasis by acting as a ceRNA of miR-1226-3p to regulate mucin-1c expression in invasive breast cancer. Aging (Albany NY) 2019 Aug 10;11(15):5646-5665. PMID: 31399552
  • Cruz-Tapias P, Zakharova V, Perez-Fernandez OM, Mantilla W et al. Expression of the Major and Pro-Oncogenic H3K9 Lysine Methyltransferase SETDB1 in Non-Small Cell Lung Cancer. Cancers (Basel) 2019 Aug 8;11(8). PMID: 31398867
  • Liu Y, Liu C, Zhang A, Yin S et al. Down-regulation of long non-coding RNA MEG3 suppresses osteogenic differentiation of periodontal ligament stem cells (PDLSCs) through miR-27a-3p/IGF1 axis in periodontitis. Aging (Albany NY) 2019 Aug 9;11(15):5334-5350. PMID: 31398715
  • Corton JC, Witt KL, Yauk CL et al. Identification of p53 Activators in a Human Microarray Compendium. Chem Res Toxicol 2019 Sep 16;32(9):1748-1759. PMID: 31397557
  • Schreiner WP, Pagliuso DC, Garrigues JM, Chen JS et al. Remodeling of the Caenorhabditis elegans non-coding RNA transcriptome by heat shock. Nucleic Acids Res 2019 Oct 10;47(18):9829-9841. PMID: 31396626
  • Kim IW, Kim JH, Oh JM et al. Screening of Drug Repositioning Candidates for Castration Resistant Prostate Cancer. Front Oncol 2019;9:661. PMID: 31396486
  • Ma L, Deng C et al. Identification of a novel four-lncRNA signature as a prognostic indicator in cirrhotic hepatocellular carcinoma. PeerJ 2019;7:e7413. PMID: 31396449
  • Cao R, Wu Q, Li Q, Yao M et al. A 3-mRNA-based prognostic signature of survival in oral squamous cell carcinoma. PeerJ 2019;7:e7360. PMID: 31396442
  • Liu X, Liu L, Dong Z, Li J et al. Expression patterns and prognostic value of m(6)A-related genes in colorectal cancer. Am J Transl Res 2019;11(7):3972-3991. PMID: 31396313
  • Hoppstädter J, Dembek A, Linnenberger R, Dahlem C et al. Toll-Like Receptor 2 Release by Macrophages: An Anti-inflammatory Program Induced by Glucocorticoids and Lipopolysaccharide. Front Immunol 2019;10:1634. PMID: 31396208
  • Dvoriantchikova G, Seemungal RJ, Ivanov D et al. DNA Methylation Dynamics During the Differentiation of Retinal Progenitor Cells Into Retinal Neurons Reveal a Role for the DNA Demethylation Pathway. Front Mol Neurosci 2019;12:182. PMID: 31396051
  • Wu L, Liu X, Xu J et al. HetEnc: a deep learning predictive model for multi-type biological dataset. BMC Genomics 2019 Aug 8;20(1):638. PMID: 31395005
  • Holtan SG, Shabaneh A, Betts BC, Rashidi A et al. Stress responses, M2 macrophages, and a distinct microbial signature in fatal intestinal acute graft-versus-host disease. JCI Insight 2019 Aug 8;5(17). PMID: 31393854
  • Wulfridge P, Langmead B, Feinberg AP, Hansen KD et al. Analyzing whole genome bisulfite sequencing data from highly divergent genotypes. Nucleic Acids Res 2019 Nov 4;47(19):e117. PMID: 31392989
  • Lou X, Li J, Yu D, Wei YQ et al. Comprehensive analysis of five long noncoding RNAs expression as competing endogenous RNAs in regulating hepatoma carcinoma. Cancer Med 2019 Sep;8(12):5735-5749. PMID: 31392826
  • Xie S, Jiang X, Zhang J, Xie S et al. Identification of significant gene and pathways involved in HBV-related hepatocellular carcinoma by bioinformatics analysis. PeerJ 2019;7:e7408. PMID: 31392101
  • Mouchiroud M, Camiré É, Aldow M, Caron A et al. The hepatokine Tsukushi is released in response to NAFLD and impacts cholesterol homeostasis. JCI Insight 2019 Aug 8;4(15). PMID: 31391339
  • Theofilatos K, Korfiati A, Mavroudi S, Cowperthwaite MC et al. Discovery of stroke-related blood biomarkers from gene expression network models. BMC Med Genomics 2019 Aug 7;12(1):118. PMID: 31391037
  • Jiang W, Qu Y, Yang Q, Ma X et al. D-lnc: a comprehensive database and analytical platform to dissect the modification of drugs on lncRNA expression. RNA Biol 2019 Nov;16(11):1586-1591. PMID: 31390943
  • Sidahmed-Adrar N, Ottavi JF, Benzoubir N, Ait Saadi T et al. Tspan15 Is a New Stemness-Related Marker in Hepatocellular Carcinoma. Proteomics 2019 Nov;19(21-22):e1900025. PMID: 31390680
  • Su J, Zhu D, Huo Z, Gingold JA et al. Genomic Integrity Safeguards Self-Renewal in Embryonic Stem Cells. Cell Rep 2019 Aug 6;28(6):1400-1409.e4. PMID: 31390555
  • Zhang R, Lv L, Ban W, Dang X et al. Identification of Hub Genes in Duchenne Muscular Dystrophy: Evidence from Bioinformatic Analysis. J Comput Biol 2020 Jan;27(1):1-8. PMID: 31390219
  • Kouyama Y, Masuda T, Fujii A, Ogawa Y et al. Oncogenic splicing abnormalities induced by DEAD-Box Helicase 56 amplification in colorectal cancer. Cancer Sci 2019 Oct;110(10):3132-3144. PMID: 31390121
  • Gomes JDA, Kowalski TW, Fraga LR, Macedo GS et al. The role of ESCO2, SALL4 and TBX5 genes in the susceptibility to thalidomide teratogenesis. Sci Rep 2019 Aug 6;9(1):11413. PMID: 31388035
  • Chen S, Feng M, Zhang S, Dong Z et al. Angptl8 mediates food-driven resetting of hepatic circadian clock in mice. Nat Commun 2019 Aug 6;10(1):3518. PMID: 31388006
  • Liao W, Ning Y, Xu HJ, Zou WZ et al. BMSC-derived exosomes carrying microRNA-122-5p promote proliferation of osteoblasts in osteonecrosis of the femoral head. Clin Sci (Lond) 2019 Sep 30;133(18):1955-1975. PMID: 31387936
  • Sun YM, Wang WT, Zeng ZC, Chen TQ et al. circMYBL2, a circRNA from MYBL2, regulates FLT3 translation by recruiting PTBP1 to promote FLT3-ITD AML progression. Blood 2019 Oct 31;134(18):1533-1546. PMID: 31387917
  • Wu Z, Liu Z, Jiang X, Mi Z et al. Depleting PTOV1 sensitizes non-small cell lung cancer cells to chemotherapy through attenuating cancer stem cell traits. J Exp Clin Cancer Res 2019 Aug 6;38(1):341. PMID: 31387622
  • Uzbas F, Opperer F, Sönmezer C, Shaposhnikov D et al. BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis. Genome Biol 2019 Aug 6;20(1):155. PMID: 31387612
  • Lian H, Han YP, Zhang YC, Zhao Y et al. Integrative analysis of gene expression and DNA methylation through one-class logistic regression machine learning identifies stemness features in medulloblastoma. Mol Oncol 2019 Oct;13(10):2227-2245. PMID: 31385424
  • Lari N, Jalal R, Minuchehr Z, Rajabian Noghondar M et al. Identifying miltefosine-resistant key genes in protein-protein interactions network and experimental verification in Iranian Leishmania major. Mol Biol Rep 2019 Oct;46(5):5371-5388. PMID: 31385238
  • Hua S, Quan Y, Zhan M, Liao H et al. miR-125b-5p inhibits cell proliferation, migration, and invasion in hepatocellular carcinoma via targeting TXNRD1. Cancer Cell Int 2019;19:203. PMID: 31384178
  • Siena ÁDD, Plaça JR, Araújo LF, de Barros II et al. Whole transcriptome analysis reveals correlation of long noncoding RNA ZEB1-AS1 with invasive profile in melanoma. Sci Rep 2019 Aug 5;9(1):11350. PMID: 31383874
  • Perez-Riverol Y, Zorin A, Dass G, Vu MT et al. Quantifying the impact of public omics data. Nat Commun 2019 Aug 5;10(1):3512. PMID: 31383865
  • Kim EY, Jin BR, Chung TW, Bae SJ et al. 6-sialyllactose ameliorates dihydrotestosterone-induced benign prostatic hyperplasia through suppressing VEGF-mediated angiogenesis. BMB Rep 2019 Sep;52(9):560-565. PMID: 31383249
  • Rodger EJ, Chatterjee A, Stockwell PA, Eccles MR et al. Characterisation of DNA methylation changes in EBF3 and TBC1D16 associated with tumour progression and metastasis in multiple cancer types. Clin Epigenetics 2019 Aug 5;11(1):114. PMID: 31383000
  • Yi L, Zhou X, Li T, Liu P et al. Notch1 signaling pathway promotes invasion, self-renewal and growth of glioma initiating cells via modulating chemokine system CXCL12/CXCR4. J Exp Clin Cancer Res 2019 Aug 5;38(1):339. PMID: 31382985
  • Wang CCN, Li CY, Cai JH, Sheu PC et al. Identification of Prognostic Candidate Genes in Breast Cancer by Integrated Bioinformatic Analysis. J Clin Med 2019 Aug 2;8(8). PMID: 31382519
  • Xiao Y, Chen B, Yang K, Wang Q et al. Down-regulation of MARCO associates with tumor progression in hepatocellular carcinoma. Exp Cell Res 2019 Oct 15;383(2):111542. PMID: 31381879
  • Wang W, Wang T, Wang Y, Piao H et al. Integration of Gene Expression Profile Data to Verify Hub Genes of Patients with Stanford A Aortic Dissection. Biomed Res Int 2019;2019:3629751. PMID: 31380418
  • Zong Z, Zou J, Mao R, Ma C et al. M1 Macrophages Induce PD-L1 Expression in Hepatocellular Carcinoma Cells Through IL-1β Signaling. Front Immunol 2019;10:1643. PMID: 31379842
  • Wang B, Ran Z, Liu M, Ou Y et al. Prognostic Significance of Potential Immune Checkpoint Member HHLA2 in Human Tumors: A Comprehensive Analysis. Front Immunol 2019;10:1573. PMID: 31379814
  • Koeken VACM, Verrall AJ, Ardiansyah E, Apriani L et al. IL-32 and its splice variants are associated with protection against Mycobacterium tuberculosis infection and skewing of Th1/Th17 cytokines. J Leukoc Biol 2020 Jan;107(1):113-118. PMID: 31378983
  • Zhou L, Li Z, Shao X, Yang B et al. Prognostic value of long non-coding RNA FOXD2-AS1 expression in patients with solid tumors. Pathol Res Pract 2019 Sep;215(9):152449. PMID: 31378453
  • Zhou X, Zhang Z, Liang X et al. Regulatory Network Analysis to Reveal Important miRNAs and Genes in Non-Small Cell Lung Cancer. Cell J 2020 Jan;21(4):459-466. PMID: 31376328
  • Eich ML, Chandrashekar DS, Rodriguez Pen A MDC, Robinson AD et al. Characterization of glycine-N-acyltransferase like 1 (GLYATL1) in prostate cancer. Prostate 2019 Oct;79(14):1629-1639. PMID: 31376196
  • Mohammed A, Cui Y, Mas VR, Kamaleswaran R et al. Differential gene expression analysis reveals novel genes and pathways in pediatric septic shock patients. Sci Rep 2019 Aug 2;9(1):11270. PMID: 31375728
  • Dammert MA, Brägelmann J, Olsen RR, Böhm S et al. MYC paralog-dependent apoptotic priming orchestrates a spectrum of vulnerabilities in small cell lung cancer. Nat Commun 2019 Aug 2;10(1):3485. PMID: 31375684
  • Tang J, Yan T, Bao Y, Shen C et al. LncRNA GLCC1 promotes colorectal carcinogenesis and glucose metabolism by stabilizing c-Myc. Nat Commun 2019 Aug 2;10(1):3499. PMID: 31375671
  • Malik V, Glaser LV, Zimmer D, Velychko S et al. Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2. Nat Commun 2019 Aug 2;10(1):3477. PMID: 31375664
  • Zhang J, Xiang J, Wu D, Dai Y et al. Shared gene signature between pterygium and meibomian gland dysfunction uncovered through gene-expression meta-analysis. Ann Hum Genet 2019 Nov;83(6):397-404. PMID: 31373692
  • Johnstone AL, Andrade NS, Barbier E, Khomtchouk BB et al. Dysregulation of the histone demethylase KDM6B in alcohol dependence is associated with epigenetic regulation of inflammatory signaling pathways. Addict Biol 2021 Jan;26(1):e12816. PMID: 31373129
  • Zhu A, Srivastava A, Ibrahim JG, Patro R et al. Nonparametric expression analysis using inferential replicate counts. Nucleic Acids Res 2019 Oct 10;47(18):e105. PMID: 31372651
  • Mazumdar A, Tahaney WM, Reddy Bollu L, Poage G et al. The phosphatase PPM1A inhibits triple negative breast cancer growth by blocking cell cycle progression. NPJ Breast Cancer 2019;5:22. PMID: 31372497
  • Han D, Wang M, Yu Z, Yin L et al. FGF5 promotes osteosarcoma cells proliferation via activating MAPK signaling pathway. Cancer Manag Res 2019;11:6457-6466. PMID: 31372048
  • Vaikari VP, Du Y, Wu S, Zhang T et al. Clinical and preclinical characterization of CD99 isoforms in acute myeloid leukemia. Haematologica 2020 Apr;105(4):999-1012. PMID: 31371417
  • Mousavian Z, Nowzari-Dalini A, Rahmatallah Y, Masoudi-Nejad A et al. Differential network analysis and protein-protein interaction study reveals active protein modules in glucocorticoid resistance for infant acute lymphoblastic leukemia. Mol Med 2019 Aug 1;25(1):36. PMID: 31370801
  • Dong S, Ding Z, Zhang H, Chen Q et al. Identification of Prognostic Biomarkers and Drugs Targeting Them in Colon Adenocarcinoma: A Bioinformatic Analysis. Integr Cancer Ther 2019 Jan-Dec;18:1534735419864434. PMID: 31370719
  • Jiang WD, Yuan PC et al. Molecular network-based identification of competing endogenous RNAs in bladder cancer. PLoS One 2019;14(8):e0220118. PMID: 31369587
  • Xie L, Wang Q, Dang Y, Ge L et al. OSkirc: a web tool for identifying prognostic biomarkers in kidney renal clear cell carcinoma. Future Oncol 2019 Sep;15(27):3103-3110. PMID: 31368353
  • Prieto-Fernández E, Aransay AM, Royo F, González E et al. A Comprehensive Study of Vesicular and Non-Vesicular miRNAs from a Volume of Cerebrospinal Fluid Compatible with Clinical Practice. Theranostics 2019;9(16):4567-4579. PMID: 31367240
  • Tang BM, Shojaei M, Teoh S, Meyers A et al. Neutrophils-related host factors associated with severe disease and fatality in patients with influenza infection. Nat Commun 2019 Jul 31;10(1):3422. PMID: 31366921
  • Rahmani E, Schweiger R, Rhead B, Criswell LA et al. Cell-type-specific resolution epigenetics without the need for cell sorting or single-cell biology. Nat Commun 2019 Jul 31;10(1):3417. PMID: 31366909
  • Sumithra B, Saxena U, Das AB et al. A comprehensive study on genome-wide coexpression network of KHDRBS1/Sam68 reveals its cancer and patient-specific association. Sci Rep 2019 Jul 31;9(1):11083. PMID: 31366900
  • Ravindran SP, Lüneburg J, Gottschlich L, Tams V et al. Daphnia stressor database: Taking advantage of a decade of Daphnia '-omics' data for gene annotation. Sci Rep 2019 Jul 31;9(1):11135. PMID: 31366898
  • Rana P, Franco EF, Rao Y, Syed K et al. Evaluation of the Common Molecular Basis in Alzheimer's and Parkinson's Diseases. Int J Mol Sci 2019 Jul 30;20(15). PMID: 31366155
  • Wang MY, Chen P, Wang CP et al. Targeted regulation of miR-17-5p on TMOD1 promotes the development of cardia cancer. Eur Rev Med Pharmacol Sci 2019 Jul;23(14):6170-6178. PMID: 31364131
  • Genov N, Basti A, Abreu M, Astaburuaga R et al. A bioinformatic analysis identifies circadian expression of splicing factors and time-dependent alternative splicing events in the HD-MY-Z cell line. Sci Rep 2019 Jul 30;9(1):11062. PMID: 31363108
  • Bhardwaj V, Semplicio G, Erdogdu NU, Manke T et al. MAPCap allows high-resolution detection and differential expression analysis of transcription start sites. Nat Commun 2019 Jul 30;10(1):3219. PMID: 31363093
  • Ro EJ, Cho YH, Jeong WJ, Park JC et al. WDR76 degrades RAS and suppresses cancer stem cell activation in colorectal cancer. Cell Commun Signal 2019 Jul 30;17(1):88. PMID: 31362761
  • Sadowski M, Kraft A, Szalaj P, Wlasnowolski M et al. Spatial chromatin architecture alteration by structural variations in human genomes at the population scale. Genome Biol 2019 Jul 30;20(1):148. PMID: 31362752
  • Xie X, Hanson C, Sinha S et al. Mechanistic interpretation of non-coding variants for discovering transcriptional regulators of drug response. BMC Biol 2019 Jul 30;17(1):62. PMID: 31362726
  • He Y, Liu H, Wang S, Chen Y et al. In Silico Detection and Characterization of microRNAs and Their Target Genes in microRNA Microarray Datasets from Patients with Systemic Sclerosis-Interstitial Lung Disease. DNA Cell Biol 2019 Sep;38(9):933-944. PMID: 31361540
  • Derbyshire M, Mbengue M, Barascud M, Navaud O et al. Small RNAs from the plant pathogenic fungus Sclerotinia sclerotiorum highlight host candidate genes associated with quantitative disease resistance. Mol Plant Pathol 2019 Sep;20(9):1279-1297. PMID: 31361080
  • Sahu D, Ho SY, Juan HF, Huang HC et al. High-risk, Expression-Based Prognostic Long Noncoding RNA Signature in Neuroblastoma. JNCI Cancer Spectr 2018 Apr;2(2):pky015. PMID: 31360848
  • Sheikh Hassani M, Green JR et al. Multi-view Co-training for microRNA Prediction. Sci Rep 2019 Jul 29;9(1):10931. PMID: 31358877
  • Yang Q, Li R, Lyu Q, Hou L et al. Single-cell CAS-seq reveals a class of short PIWI-interacting RNAs in human oocytes. Nat Commun 2019 Jul 29;10(1):3389. PMID: 31358756
  • Wang Y, Guo B, Xiao Z, Lin H et al. Long noncoding RNA CCDC144NL-AS1 knockdown induces naïve-like state conversion of human pluripotent stem cells. Stem Cell Res Ther 2019 Jul 29;10(1):220. PMID: 31358062
  • Gawel DR, Serra-Musach J, Lilja S, Aagesen J et al. A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases. Genome Med 2019 Jul 30;11(1):47. PMID: 31358043
  • Locati LD, Serafini MS, Iannò MF, Carenzo A et al. Mining of Self-Organizing Map Gene-Expression Portraits Reveals Prognostic Stratification of HPV-Positive Head and Neck Squamous Cell Carcinoma. Cancers (Basel) 2019 Jul 26;11(8). PMID: 31357501
  • Kulcenty K, Wroblewska JP, Rucinski M, Kozlowska E et al. MicroRNA Profiling During Neural Differentiation of Induced Pluripotent Stem Cells. Int J Mol Sci 2019 Jul 26;20(15). PMID: 31357387
  • Yang Y, Chen L et al. Downregulation of lncRNA UCA1 facilitates apoptosis and reduces proliferation in multiple myeloma via regulation of the miR-1271-5p/HGF axis. J Chin Med Assoc 2019 Sep;82(9):699-709. PMID: 31356563
  • Liu X, Li X et al. Key Genes Involved in Diabetic Nephropathy Investigated by Microarray Analysis. J Comput Biol 2019 Dec;26(12):1438-1447. PMID: 31356112
  • Shen L, Zhao K, Li H, Ning B et al. Downregulation of UBE2T can enhance the radiosensitivity of osteosarcoma in vitro and in vivo. Epigenomics 2019 Aug;11(11):1283-1305. PMID: 31355678
  • Li Y, Liu PP, Ni X et al. Molecular Evolution and Functional Analysis of Rubredoxin-Like Proteins in Plants. Biomed Res Int 2019;2019:2932585. PMID: 31355252
  • Yuan C, Xiang L, Bai R, Cao K et al. MiR-195 restrains lung adenocarcinoma by regulating CD4+ T cell activation via the CCDC88C/Wnt signaling pathway: a study based on the Cancer Genome Atlas (TCGA), Gene Expression Omnibus (GEO) and bioinformatic analysis. Ann Transl Med 2019 Jun;7(12):263. PMID: 31355230
  • Wang J, Lai B, Nanayakkara G, Yang Q et al. Experimental Data-Mining Analyses Reveal New Roles of Low-Intensity Ultrasound in Differentiating Cell Death Regulatome in Cancer and Non-cancer Cells via Potential Modulation of Chromatin Long-Range Interactions. Front Oncol 2019;9:600. PMID: 31355136
  • Dong Y, Duan L, Chen HW, Liu YM et al. Network Pharmacology-Based Prediction and Verification of the Targets and Mechanism for Panax Notoginseng Saponins against Coronary Heart Disease. Evid Based Complement Alternat Med 2019;2019:6503752. PMID: 31354855
  • Czyz M, Sztiller-Sikorska M, Gajos-Michniewicz A, Osrodek M et al. Plasticity of Drug-Naïve and Vemurafenib- or Trametinib-Resistant Melanoma Cells in Execution of Differentiation/Pigmentation Program. J Oncol 2019;2019:1697913. PMID: 31354817
  • Dai F, Chen G, Wang Y, Zhang L et al. Identification of candidate biomarkers correlated with the diagnosis and prognosis of cervical cancer via integrated bioinformatics analysis. Onco Targets Ther 2019;12:4517-4532. PMID: 31354287
  • Pillai JA, Maxwell S, Bena J, Bekris LM et al. Key inflammatory pathway activations in the MCI stage of Alzheimer's disease. Ann Clin Transl Neurol 2019 Jul;6(7):1248-1262. PMID: 31353852
  • Kim HD, Park S, Jeong S, Lee YJ et al. 4-1BB Delineates Distinct Activation Status of Exhausted Tumor-Infiltrating CD8(+) T Cells in Hepatocellular Carcinoma. Hepatology 2020 Mar;71(3):955-971. PMID: 31353502
  • Tyshkovskiy A, Bozaykut P, Borodinova AA, Gerashchenko MV et al. Identification and Application of Gene Expression Signatures Associated with Lifespan Extension. Cell Metab 2019 Sep 3;30(3):573-593.e8. PMID: 31353263
  • Khyzha N, Khor M, DiStefano PV, Wang L et al. Regulation of CCL2 expression in human vascular endothelial cells by a neighboring divergently transcribed long noncoding RNA. Proc Natl Acad Sci U S A 2019 Aug 13;116(33):16410-16419. PMID: 31350345
  • Sun YH, Xie M, Wu SD, Zhang J et al. Identification and Interaction Analysis of Key Genes and MicroRNAs in Systemic Sclerosis by Bioinformatics Approaches. Curr Med Sci 2019 Aug;39(4):645-652. PMID: 31347003
  • Espinosa-Cotton M, Fertig EJ, Stabile LP, Gaither-Davis A et al. A preliminary analysis of interleukin-1 ligands as potential predictive biomarkers of response to cetuximab. Biomark Res 2019;7:14. PMID: 31346466
  • Yan T, Ding F, Zhao Y et al. Integrated identification of key genes and pathways in Alzheimer's disease via comprehensive bioinformatical analyses. Hereditas 2019;156:25. PMID: 31346329
  • Guan YJ, Ma JY, Song W et al. Identification of circRNA-miRNA-mRNA regulatory network in gastric cancer by analysis of microarray data. Cancer Cell Int 2019;19:183. PMID: 31346318
  • Zhou X, Chen Y, Mok KY, Kwok TCY et al. Non-coding variability at the APOE locus contributes to the Alzheimer's risk. Nat Commun 2019 Jul 25;10(1):3310. PMID: 31346172
  • Wong M, Sun Y, Xi Z, Milazzo G et al. JMJD6 is a tumorigenic factor and therapeutic target in neuroblastoma. Nat Commun 2019 Jul 25;10(1):3319. PMID: 31346162
  • Moeini A, Torrecilla S, Tovar V, Montironi C et al. An Immune Gene Expression Signature Associated With Development of Human Hepatocellular Carcinoma Identifies Mice That Respond to Chemopreventive Agents. Gastroenterology 2019 Nov;157(5):1383-1397.e11. PMID: 31344396
  • Swamy V, McGaughey D et al. Eye in a Disk: eyeIntegration Human Pan-Eye and Body Transcriptome Database Version 1.0. Invest Ophthalmol Vis Sci 2019 Jul 1;60(8):3236-3246. PMID: 31343654
  • Jia H, Wang X, Sun Z et al. Exploring the long noncoding RNAs-based biomarkers and pathogenesis of malignant transformation from dysplasia to oral squamous cell carcinoma by bioinformatics method. Eur J Cancer Prev 2020 Mar;29(2):174-181. PMID: 31343435
  • Fu Q, Liao M, Feng C, Tang J et al. Profiling of mRNA of interstitial fibrosis and tubular atrophy with subclinical inflammation in recipients after kidney transplantation. Aging (Albany NY) 2019 Jul 25;11(14):5215-5231. PMID: 31343413
  • He S, Sun H, Huang Y, Dong S et al. Identification and Interaction Analysis of Significant Genes and MicroRNAs in Pterygium. Biomed Res Int 2019;2019:2767512. PMID: 31341891
  • Sooklert K, Wongjarupong A, Cherdchom S, Wongjarupong N et al. Molecular and Morphological Evidence of Hepatotoxicity after Silver Nanoparticle Exposure: A Systematic Review, In Silico, and Ultrastructure Investigation. Toxicol Res 2019 Jul;35(3):257-270. PMID: 31341555
  • Yi Z, Wenwen L, Kun W, Jian S et al. [Overexpression of histone deacetylase 11 suppresses basal-like breast cancer cell invasion and metastasis]. Nan Fang Yi Ke Da Xue Xue Bao 2019 Jul 30;39(7):751-759. PMID: 31340905
  • Zhou Q, Zhang W, Wang Z, Liu S et al. Long non-coding RNA PTTG3P functions as an oncogene by sponging miR-383 and up-regulating CCND1 and PARP2 in hepatocellular carcinoma. BMC Cancer 2019 Jul 24;19(1):731. PMID: 31340767
  • Volkmann A, De Bin R, Sauerbrei W, Boulesteix AL et al. A plea for taking all available clinical information into account when assessing the predictive value of omics data. BMC Med Res Methodol 2019 Jul 24;19(1):162. PMID: 31340753
  • Liu MM, Wang MM, Yang J, Wen J et al. Evolutionary and Comparative Expression Analyses of TCP Transcription Factor Gene Family in Land Plants. Int J Mol Sci 2019 Jul 23;20(14). PMID: 31340456
  • Lu S, Zhang J, Lian X, Sun L et al. A hidden human proteome encoded by 'non-coding' genes. Nucleic Acids Res 2019 Sep 5;47(15):8111-8125. PMID: 31340039
  • Zhang Y, Yang A, Huang J et al. Identification of Gene Changes Induced by Dexamethasone in the Anterior Segment of the Human Eye Using Bioinformatics Analysis. Med Sci Monit 2019 Jul 24;25:5501-5509. PMID: 31339875
  • Li M, Dong X, Chen S, Wang W et al. Genetic polymorphisms and transcription profiles associated with intracranial aneurysm: a key role for NOTCH3. Aging (Albany NY) 2019 Jul 23;11(14):5173-5191. PMID: 31339861
  • Bai Y, Xie F, Miao F, Long J et al. The diagnostic and prognostic role of RhoA in hepatocellular carcinoma. Aging (Albany NY) 2019 Jul 22;11(14):5158-5172. PMID: 31339860
  • Shriwash N, Singh P, Arora S, Ali SM et al. Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA. Heliyon 2019 Jun;5(6):e01707. PMID: 31338439
  • Gao Y, Liu S, Guo Q, Zhang S et al. Increased expression of TRIP13 drives the tumorigenesis of bladder cancer in association with the EGFR signaling pathway. Int J Biol Sci 2019;15(7):1488-1499. PMID: 31337978
  • de Oliveira JL, Morales AC, Stewart B, Gruenheit N et al. Conditional expression explains molecular evolution of social genes in a microbe. Nat Commun 2019 Jul 23;10(1):3284. PMID: 31337766
  • Zhang Y, Zhou CM, Pu Q, Wu Q et al. Pseudomonas aeruginosa Regulatory Protein AnvM Controls Pathogenicity in Anaerobic Environments and Impacts Host Defense. mBio 2019 Jul 23;10(4). PMID: 31337721
  • Chakroborty D, Emani MR, Klén R, Böckelman C et al. L1TD1 - a prognostic marker for colon cancer. BMC Cancer 2019 Jul 23;19(1):727. PMID: 31337362
  • Li G, Sun T, Chang H, Cai L et al. Chromatin Interaction Analysis with Updated ChIA-PET Tool (V3). Genes (Basel) 2019 Jul 22;10(7). PMID: 31336684
  • Devin J, Kassambara A, Bruyer A, Moreaux J et al. Phenotypic Characterization of Diffuse Large B-Cell Lymphoma Cells and Prognostic Impact. J Clin Med 2019 Jul 22;8(7). PMID: 31336593
  • Shukla A, Chen C, Jellusova J, Leung CR et al. Self-reactive B cells in the GALT are actively curtailed to prevent gut inflammation. JCI Insight 2019 Jul 23;5(16). PMID: 31335327
  • Tian F, Yu C, Wu M, Wu X et al. MicroRNA-191 promotes hepatocellular carcinoma cell proliferation by has_circ_0000204/miR-191/KLF6 axis. Cell Prolif 2019 Sep;52(5):e12635. PMID: 31334580
  • Wang Y, Zhu P, Luo J, Wang J et al. LncRNA HAND2-AS1 promotes liver cancer stem cell self-renewal via BMP signaling. EMBO J 2019 Sep 2;38(17):e101110. PMID: 31334575
  • Vlassi M, Kyritsis KA, Vizirianakis IS, Giannakouros T et al. Data on the expression of SRPK1a in mammals. Data Brief 2019 Aug;25:104210. PMID: 31334320
  • Pan S, Zhan Y, Chen X, Wu B et al. Identification of Biomarkers for Controlling Cancer Stem Cell Characteristics in Bladder Cancer by Network Analysis of Transcriptome Data Stemness Indices. Front Oncol 2019;9:613. PMID: 31334127
  • Allain EP, Rouleau M, Le T, Vanura K et al. Inactivation of Prostaglandin E(2) as a Mechanism for UGT2B17-Mediated Adverse Effects in Chronic Lymphocytic Leukemia. Front Oncol 2019;9:606. PMID: 31334126
  • Guo T, Ma H, Zhou Y et al. Bioinformatics analysis of microarray data to identify the candidate biomarkers of lung adenocarcinoma. PeerJ 2019;7:e7313. PMID: 31333911
  • Nagy Á, Ősz Á, Budczies J, Krizsán S et al. Elevated HOX gene expression in acute myeloid leukemia is associated with NPM1 mutations and poor survival. J Adv Res 2019 Nov;20:105-116. PMID: 31333881
  • de Wit J, van Wijck RTA, Dalm VASH, Snyder KL et al. Molecular clustering of genes related to the atopic syndrome: Towards a more tailored approach and personalized medicine? Clin Transl Allergy 2019;9:34. PMID: 31333817
  • Zhang H, Guo L, Zhang Z, Sun Y et al. Co-Expression Network Analysis Identified Gene Signatures in Osteosarcoma as a Predictive Tool for Lung Metastasis and Survival. J Cancer 2019;10(16):3706-3716. PMID: 31333788
  • Bossel Ben-Moshe N, Hen-Avivi S, Levitin N, Yehezkel D et al. Predicting bacterial infection outcomes using single cell RNA-sequencing analysis of human immune cells. Nat Commun 2019 Jul 22;10(1):3266. PMID: 31332193
  • Matsumura Y, Ito Y, Mezawa Y, Sulidan K et al. Stromal fibroblasts induce metastatic tumor cell clusters via epithelial-mesenchymal plasticity. Life Sci Alliance 2019 Aug;2(4). PMID: 31331982
  • Ferri F, Petit V, Barroca V, Romeo PH et al. Interplay between FACT subunit SPT16 and TRIM33 can remodel chromatin at macrophage distal regulatory elements. Epigenetics Chromatin 2019 Jul 22;12(1):46. PMID: 31331374
  • Nikolaou N, Gathercole LL, Marchand L, Althari S et al. AKR1D1 is a novel regulator of metabolic phenotype in human hepatocytes and is dysregulated in non-alcoholic fatty liver disease. Metabolism 2019 Oct;99:67-80. PMID: 31330134
  • Huang W, Cheng C, Shan WS, Ding ZF et al. Knockdown of SGK1 alleviates the IL-1β-induced chondrocyte anabolic and catabolic imbalance by activating FoxO1-mediated autophagy in human chondrocytes. FEBS J 2020 Jan;287(1):94-107. PMID: 31330080
  • Mehtonen J, Pölönen P, Häyrynen S, Dufva O et al. Data-driven characterization of molecular phenotypes across heterogeneous sample collections. Nucleic Acids Res 2019 Jul 26;47(13):e76. PMID: 31329928
  • Barros-Filho MC, Dos Reis MB, Beltrami CM, de Mello JBH et al. DNA Methylation-Based Method to Differentiate Malignant from Benign Thyroid Lesions. Thyroid 2019 Sep;29(9):1244-1254. PMID: 31328658
  • Hakem Zadeh F, Teng ACT, Kuzmanov U, Chambers PJ et al. AKAP6 and phospholamban colocalize and interact in HEK-293T cells and primary murine cardiomyocytes. Physiol Rep 2019 Jul;7(14):e14144. PMID: 31325238
  • Cardoso CM, de Jesus SF, de Souza MG, Queiroz LDRP et al. High levels of ANXA2 are characteristic of malignant salivary gland tumors. J Oral Pathol Med 2019 Nov;48(10):929-934. PMID: 31325182
  • Pirrò S, Gadaleta E, Galgani A, Colizzi V et al. SMAC, a computational system to link literature, biomedical and expression data. Sci Rep 2019 Jul 19;9(1):10480. PMID: 31324861
  • Park S, Shin B, Sang Shim W, Choi Y et al. Wx: a neural network-based feature selection algorithm for transcriptomic data. Sci Rep 2019 Jul 19;9(1):10500. PMID: 31324856
  • Ghosh RP, Shi Q, Yang L, Reddick MP et al. Satb1 integrates DNA binding site geometry and torsional stress to differentially target nucleosome-dense regions. Nat Commun 2019 Jul 19;10(1):3221. PMID: 31324780
  • Wang XD, Hu R, Ding Q, Savage TK et al. Subtype-specific secretomic characterization of pulmonary neuroendocrine tumor cells. Nat Commun 2019 Jul 19;10(1):3201. PMID: 31324758
  • Jin Y, Yang Y et al. Bioinformatics-based discovery of PYGM and TNNC2 as potential biomarkers of head and neck squamous cell carcinoma. Biosci Rep 2019 Jul 31;39(7). PMID: 31324732
  • Faux T, Rytkönen KT, Laiho A, Elo LL et al. RepViz: a replicate-driven R tool for visualizing genomic regions. BMC Res Notes 2019 Jul 19;12(1):441. PMID: 31324268
  • Zhang Z, Wiencke JK, Koestler DC, Salas LA et al. Absence of an embryonic stem cell DNA methylation signature in human cancer. BMC Cancer 2019 Jul 19;19(1):711. PMID: 31324166
  • Park SY, Choi JH, Nam JS et al. Targeting Cancer Stem Cells in Triple-Negative Breast Cancer. Cancers (Basel) 2019 Jul 9;11(7). PMID: 31324052
  • Li X, Cai Y et al. Better prognostic determination and feature characterization of cutaneous melanoma through integrative genomic analysis. Aging (Albany NY) 2019 Jul 18;11(14):5081-5107. PMID: 31322504
  • Yang K, Chen Y, Zhou J, Ma L et al. Ursolic acid promotes apoptosis and mediates transcriptional suppression of CT45A2 gene expression in non-small-cell lung carcinoma harbouring EGFR T790M mutations. Br J Pharmacol 2019 Dec;176(24):4609-4624. PMID: 31322286
  • Zhang Z, Wang S, Liu Y, Meng Z et al. Low lncRNA ZNF385D‑AS2 expression and its prognostic significance in liver cancer. Oncol Rep 2019 Sep;42(3):1110-1124. PMID: 31322274
  • Chen Y, Yang Z, Wu D, Min Z et al. Upregulation of interleukin‑17F in colorectal cancer promotes tumor invasion by inducing epithelial‑mesenchymal transition. Oncol Rep 2019 Sep;42(3):1141-1148. PMID: 31322258
  • Candido S, Lupo G, Pennisi M, Basile MS et al. The analysis of miRNA expression profiling datasets reveals inverse microRNA patterns in glioblastoma and Alzheimer's disease. Oncol Rep 2019 Sep;42(3):911-922. PMID: 31322245
  • Han Q, Wang X, Liao X, Han C et al. Diagnostic and prognostic value of WNT family gene expression in hepatitis B virus‑related hepatocellular carcinoma. Oncol Rep 2019 Sep;42(3):895-910. PMID: 31322232
  • Zhang L, Lu D, Liu M, Zhang M et al. Identification and interaction analysis of key miRNAs in medullary thyroid carcinoma by bioinformatics analysis. Mol Med Rep 2019 Sep;20(3):2316-2324. PMID: 31322209
  • Li WC, Bai L, Xu Y, Xu RJ et al. Identification of differentially expressed genes in hip cartilage with femoral head necrosis, based on genome‑wide expression profiles. Mol Med Rep 2019 Sep;20(3):2073-2082. PMID: 31322206
  • Liu Y, Lu P, Wang Y, Morrow BE et al. Spatiotemporal Gene Coexpression and Regulation in Mouse Cardiomyocytes of Early Cardiac Morphogenesis. J Am Heart Assoc 2019 Aug 6;8(15):e012941. PMID: 31322043
  • Smeby J, Sveen A, Bergsland CH, Eilertsen IA et al. Exploratory analyses of consensus molecular subtype-dependent associations of TP53 mutations with immunomodulation and prognosis in colorectal cancer. ESMO Open 2019;4(3):e000523. PMID: 31321083
  • Hsu JH, Chang PM, Cheng TS, Kuo YL et al. Identification of Withaferin A as a Potential Candidate for Anti-Cancer Therapy in Non-Small Cell Lung Cancer. Cancers (Basel) 2019 Jul 17;11(7). PMID: 31319622
  • Li W, Shen W, Zhang B, Tian K et al. Long non-coding RNA LncKdm2b regulates cortical neuronal differentiation by cis-activating Kdm2b. Protein Cell 2020 Mar;11(3):161-186. PMID: 31317506
  • McCray T, Moline D, Baumann B, Vander Griend DJ et al. Single-cell RNA-Seq analysis identifies a putative epithelial stem cell population in human primary prostate cells in monolayer and organoid culture conditions. Am J Clin Exp Urol 2019;7(3):123-138. PMID: 31317052
  • Wu Q, Liu Q, Zhan J, Wang Q et al. Cited2 regulates proliferation and survival in young and old mouse cardiac stem cells. BMC Mol Cell Biol 2019 Jul 17;20(1):25. PMID: 31315556
  • Wang S, Yin C, Zhang Y, Zhang L et al. Overexpression of ICAM-1 Predicts Poor Survival in High-Grade Serous Ovarian Carcinoma: A Study Based on TCGA and GEO Databases and Tissue Microarray. Biomed Res Int 2019;2019:2867372. PMID: 31312656
  • Hu J, Wu J, Li Y, Wang Z et al. Sclerostin domain-containing protein 1 is dispensable for the differentiation of follicular helper and follicular regulatory T cells during acute viral infection. Am J Transl Res 2019;11(6):3722-3736. PMID: 31312383
  • Gu Y, Zhou JD, Xu ZJ, Zhang TJ et al. Promoter methylation of the candidate tumor suppressor gene TCF21 in myelodysplastic syndrome and acute myeloid leukemia. Am J Transl Res 2019;11(6):3450-3460. PMID: 31312357
  • Zhou J, Hui X, Mao Y, Fan L et al. Identification of novel genes associated with a poor prognosis in pancreatic ductal adenocarcinoma via a bioinformatics analysis. Biosci Rep 2019 Aug 30;39(8). PMID: 31311829
  • Hu X, Feng H, Huang H, Gu W et al. Downregulated Long Noncoding RNA PART1 Inhibits Proliferation and Promotes Apoptosis in Bladder Cancer. Technol Cancer Res Treat 2019 Jan 1;18:1533033819846638. PMID: 31311442
  • Zhang H, Zhao X, Wang M, Ji W et al. Key modules and hub genes identified by coexpression network analysis for revealing novel biomarkers for larynx squamous cell carcinoma. J Cell Biochem 2019 Dec;120(12):19832-19840. PMID: 31310372
  • Flint Brodsly N, Bitman-Lotan E, Boico O, Shafat A et al. The transcription factor Hey and nuclear lamins specify and maintain cell identity. Elife 2019 Jul 16;8. PMID: 31310235
  • Liu GM, Xie WX, Zhang CY, Xu JW et al. Identification of a four-gene metabolic signature predicting overall survival for hepatocellular carcinoma. J Cell Physiol 2020 Feb;235(2):1624-1636. PMID: 31309563
  • Wan Q, Tang J et al. Exploration of potential key pathways and genes in multiple ocular cancers through bioinformatics analysis. Graefes Arch Clin Exp Ophthalmol 2019 Oct;257(10):2329-2341. PMID: 31309275
  • Lei Y, Guo P, Li X, Zhang Y et al. Identification of Differentially Expressed miRNAs and mRNAs in Vestibular Schwannoma by Integrated Analysis. Biomed Res Int 2019;2019:7267816. PMID: 31309113
  • Liu D, Ma X, Yang F, Xiao D et al. Discovery and validation of methylated-differentially expressed genes in Helicobacter pylori-induced gastric cancer. Cancer Gene Ther 2020 Jun;27(6):473-485. PMID: 31308482
  • Luo X, Yang C, Wei Y et al. Detection of cell-type-specific risk-CpG sites in epigenome-wide association studies. Nat Commun 2019 Jul 15;10(1):3113. PMID: 31308366
  • Emami NC, Kachuri L, Meyers TJ, Das R et al. Association of imputed prostate cancer transcriptome with disease risk reveals novel mechanisms. Nat Commun 2019 Jul 15;10(1):3107. PMID: 31308362
  • Li S, Kvon EZ, Visel A, Pennacchio LA et al. Stable enhancers are active in development, and fragile enhancers are associated with evolutionary adaptation. Genome Biol 2019 Jul 15;20(1):140. PMID: 31307522
  • Polte C, Wedemeyer D, Oliver KE, Wagner J et al. Assessing cell-specific effects of genetic variations using tRNA microarrays. BMC Genomics 2019 Jul 16;20(Suppl 8):549. PMID: 31307398
  • Yuan X, Meng D, Cao P, Sun L et al. Identification of pathogenic genes and transcription factors in vitiligo. Dermatol Ther 2019 Sep;32(5):e13025. PMID: 31306558
  • Fernández-Barral A, Costales-Carrera A, Buira SP, Jung P et al. Vitamin D differentially regulates colon stem cells in patient-derived normal and tumor organoids. FEBS J 2020 Jan;287(1):53-72. PMID: 31306552
  • Song ZY, Chao F, Zhuo Z, Ma Z et al. Identification of hub genes in prostate cancer using robust rank aggregation and weighted gene co-expression network analysis. Aging (Albany NY) 2019 Jul 15;11(13):4736-4756. PMID: 31306099
  • Nam H, Jeon S, An H, Yoo J et al. Critical roles of ARHGAP36 as a signal transduction mediator of Shh pathway in lateral motor columnar specification. Elife 2019 Jul 15;8. PMID: 31305241
  • Wang L, Pei Y, Li S, Zhang S et al. Distinct Molecular Mechanisms Analysis of Three Lung Cancer Subtypes Based on Gene Expression Profiles. J Comput Biol 2019 Oct;26(10):1140-1155. PMID: 31305128
  • Zhang X, Gibhardt CS, Will T, Stanisz H et al. Redox signals at the ER-mitochondria interface control melanoma progression. EMBO J 2019 Aug 1;38(15):e100871. PMID: 31304984
  • Jiang SY, Jin J, Sarojam R, Ramachandran S et al. A Comprehensive Survey on the Terpene Synthase Gene Family Provides New Insight into Its Evolutionary Patterns. Genome Biol Evol 2019 Aug 1;11(8):2078-2098. PMID: 31304957
  • Jin Y, Yang Y et al. Identification and analysis of genes associated with head and neck squamous cell carcinoma by integrated bioinformatics methods. Mol Genet Genomic Med 2019 Aug;7(8):e857. PMID: 31304688
  • Guo F, Fu Q, Wang Y, Sui G et al. Long non-coding RNA NR2F1-AS1 promoted proliferation and migration yet suppressed apoptosis of thyroid cancer cells through regulating miRNA-338-3p/CCND1 axis. J Cell Mol Med 2019 Sep;23(9):5907-5919. PMID: 31304680
  • Vlaming H, McLean CM, Korthout T, Alemdehy MF et al. Conserved crosstalk between histone deacetylation and H3K79 methylation generates DOT1L-dose dependency in HDAC1-deficient thymic lymphoma. EMBO J 2019 Jul 15;38(14):e101564. PMID: 31304633
  • Zhang W, Chen F, Chen R, Xie D et al. Zscan4c activates endogenous retrovirus MERVL and cleavage embryo genes. Nucleic Acids Res 2019 Sep 19;47(16):8485-8501. PMID: 31304534
  • Lei F, Zhang H, Xie X et al. Comprehensive analysis of an lncRNA-miRNA-mRNA competing endogenous RNA network in pulpitis. PeerJ 2019;7:e7135. PMID: 31304055
  • Huo Z, Zhai S, Weng Y, Qian H et al. PRPF40A as a potential diagnostic and prognostic marker is upregulated in pancreatic cancer tissues and cell lines: an integrated bioinformatics data analysis. Onco Targets Ther 2019;12:5037-5051. PMID: 31303762
  • Kang H, Heo S, Shin JJ, Ji E et al. A miR-194/PTBP1/CCND3 axis regulates tumor growth in human hepatocellular carcinoma. J Pathol 2019 Nov;249(3):395-408. PMID: 31301177
  • Wardle FCMaster control: transcriptional regulation of mammalian Myod. J Muscle Res Cell Motil 2019 Jun;40(2):211-226. PMID: 31301002
  • Esse R, Gushchanskaia ES, Lord A, Grishok A et al. DOT1L complex suppresses transcription from enhancer elements and ectopic RNAi in Caenorhabditis elegans. RNA 2019 Oct;25(10):1259-1273. PMID: 31300558
  • Wang SM, Lin HY, Chen YL, Hsu TI et al. CCAAT/enhancer-binding protein delta regulates the stemness of glioma stem-like cells through activating PDGFA expression upon inflammatory stimulation. J Neuroinflammation 2019 Jul 12;16(1):146. PMID: 31300060
  • Thompson M, Chen ZJ, Rahmani E, Halperin E et al. CONFINED: distinguishing biological from technical sources of variation by leveraging multiple methylation datasets. Genome Biol 2019 Jul 12;20(1):138. PMID: 31300005
  • Rodríguez-Carballo E, Lopez-Delisle L, Yakushiji-Kaminatsui N, Ullate-Agote A et al. Impact of genome architecture on the functional activation and repression of Hox regulatory landscapes. BMC Biol 2019 Jul 12;17(1):55. PMID: 31299961
  • Tracy S, Yuan GC, Dries R et al. RESCUE: imputing dropout events in single-cell RNA-sequencing data. BMC Bioinformatics 2019 Jul 12;20(1):388. PMID: 31299886
  • Jiang M, Shi X, Zhu H, Wei W et al. Two GEO MicroRNA Expression Profile Based High-Throughput Screen to Identify MicroRNA-31-3p Regulating Growth of Medullary Thyroid Carcinoma Cell by Targeting RASA2. Med Sci Monit 2019 Jul 12;25:5170-5180. PMID: 31298226
  • Chen Q, Yu D, Zhao Y, Qiu J et al. Screening and identification of hub genes in pancreatic cancer by integrated bioinformatics analysis. J Cell Biochem 2019 Dec;120(12):19496-19508. PMID: 31297881
  • Liu YR, Hu Y, Zeng Y, Li ZX et al. Neurexophilin and PC-esterase domain family member 4 (NXPE4) and prostate androgen-regulated mucin-like protein 1 (PARM1) as prognostic biomarkers for colorectal cancer. J Cell Biochem 2019 Oct;120(10):18041-18052. PMID: 31297877
  • Santos-Pereira JM, Gallardo-Fuentes L, Neto A, Acemel RD et al. Pioneer and repressive functions of p63 during zebrafish embryonic ectoderm specification. Nat Commun 2019 Jul 11;10(1):3049. PMID: 31296872
  • Skvortsova K, Tarbashevich K, Stehling M, Lister R et al. Retention of paternal DNA methylome in the developing zebrafish germline. Nat Commun 2019 Jul 11;10(1):3054. PMID: 31296860
  • Batlle R, Andrés E, Gonzalez L, Llonch E et al. Regulation of tumor angiogenesis and mesenchymal-endothelial transition by p38α through TGF-β and JNK signaling. Nat Commun 2019 Jul 11;10(1):3071. PMID: 31296856
  • Lin YF, Xiao MH, Chen HX, Meng Y et al. A novel mitochondrial micropeptide MPM enhances mitochondrial respiratory activity and promotes myogenic differentiation. Cell Death Dis 2019 Jul 11;10(7):528. PMID: 31296841
  • Park SJ, Yoon BH, Kim SK, Kim SY et al. GENT2: an updated gene expression database for normal and tumor tissues. BMC Med Genomics 2019 Jul 11;12(Suppl 5):101. PMID: 31296229
  • Jung J, Kim GW, Lee B, Joo JWJ et al. Integrative genomic and transcriptomic analysis of genetic markers in Dupuytren's disease. BMC Med Genomics 2019 Jul 11;12(Suppl 5):98. PMID: 31296227
  • Chen X, Hu L, Wang Y, Sun W et al. Single Cell Gene Co-Expression Network Reveals FECH/CROT Signature as a Prognostic Marker. Cells 2019 Jul 10;8(7). PMID: 31295943
  • Jia H, Janjanam J, Wu SC, Wang R et al. The tumor cell-secreted matricellular protein WISP1 drives pro-metastatic collagen linearization. EMBO J 2019 Aug 15;38(16):e101302. PMID: 31294477
  • Wang P, Liu J, Song Y, Liu Q et al. Screening of immunosuppressive factors for biomarkers of breast cancer malignancy phenotypes and subtype-specific targeted therapy. PeerJ 2019;7:e7197. PMID: 31293831
  • Zhang T, Guo J, Gu J, Chen K et al. KIAA0101 is a novel transcriptional target of FoxM1 and is involved in the regulation of hepatocellular carcinoma microvascular invasion by regulating epithelial-mesenchymal transition. J Cancer 2019;10(15):3501-3516. PMID: 31293655
  • Qiu L, Wang T, Ge Q, Xu H et al. Circular RNA Signature in Hepatocellular Carcinoma. J Cancer 2019;10(15):3361-3372. PMID: 31293639
  • Li Y, Wu Y, Zhang X, Bai Y et al. SCIA: A Novel Gene Set Analysis Applicable to Data With Different Characteristics. Front Genet 2019;10:598. PMID: 31293623
  • Cortesi M, Pasini A, Furini S, Giordano E et al. Identification via Numerical Computation of Transcriptional Determinants of a Cell Phenotype Decision Making. Front Genet 2019;10:575. PMID: 31293614
  • Hu D, Kan G, Hu W, Li Y et al. Identification of Loci and Candidate Genes Responsible for Pod Dehiscence in Soybean via Genome-Wide Association Analysis Across Multiple Environments. Front Plant Sci 2019;10:811. PMID: 31293609
  • Malvia S, Bagadi SAR, Pradhan D, Chintamani C et al. Study of Gene Expression Profiles of Breast Cancers in Indian Women. Sci Rep 2019 Jul 10;9(1):10018. PMID: 31292488
  • Penas C, Maloof ME, Stathias V, Long J et al. Time series modeling of cell cycle exit identifies Brd4 dependent regulation of cerebellar neurogenesis. Nat Commun 2019 Jul 10;10(1):3028. PMID: 31292434
  • Riba A, Di Nanni N, Mittal N, Arhné E et al. Protein synthesis rates and ribosome occupancies reveal determinants of translation elongation rates. Proc Natl Acad Sci U S A 2019 Jul 23;116(30):15023-15032. PMID: 31292258
  • Neavin DR, Lee JH, Liu D, Ye Z et al. Single Nucleotide Polymorphisms at a Distance from Aryl Hydrocarbon Receptor (AHR) Binding Sites Influence AHR Ligand-Dependent Gene Expression. Drug Metab Dispos 2019 Sep;47(9):983-994. PMID: 31292129
  • He C, Zhang Y, Duan Y, Yu J et al. [Identification of differentially expressed genes and pathways changing in neutrophils of patients with sepsis by bioinformatics analysis]. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi 2019 Jun;35(6):481-490. PMID: 31292051
  • Yu H, Blair RH et al. Integration of probabilistic regulatory networks into constraint-based models of metabolism with applications to Alzheimer's disease. BMC Bioinformatics 2019 Jul 10;20(1):386. PMID: 31291905
  • Gomez L, Odom GJ, Young JI, Martin ER et al. coMethDMR: accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies with continuous phenotypes. Nucleic Acids Res 2019 Sep 26;47(17):e98. PMID: 31291459
  • Godini R, Pocock R, Fallahi H et al. Caenorhabditis elegans hub genes that respond to amyloid beta are homologs of genes involved in human Alzheimer's disease. PLoS One 2019;14(7):e0219486. PMID: 31291334
  • Wu J, Zhang Y, Li M et al. Identification of Methylation Markers and Differentially Expressed Genes with Prognostic Value in Breast Cancer. J Comput Biol 2019 Dec;26(12):1394-1408. PMID: 31290690
  • Qiu Y, Meng LB, Di CY, Huo YH et al. Exploration of the Differentially Expressed Long Noncoding RNAs and Genes of Morphine Tolerance via Bioinformatic Analysis. J Comput Biol 2019 Dec;26(12):1379-1393. PMID: 31290683
  • Jia X, Zhao Q, Zhang Y, Dong Y et al. Identification of a Five-CpG Signature with Diagnostic Value in Thyroid Cancer. J Comput Biol 2019 Dec;26(12):1409-1417. PMID: 31290678
  • Huang SSY, Al Ali F, Boughorbel S, Toufiq M et al. A curated collection of transcriptome datasets to investigate the molecular mechanisms of immunoglobulin E-mediated atopic diseases. Database (Oxford) 2019 Jan 1;2019. PMID: 31290545
  • Wang XH, Yao DX, Luan XS, Wang Y et al. MicroRNA expression in the hippocampal CA1 region under deep hypothermic circulatory arrest. Neural Regen Res 2019 Nov;14(11):2003-2010. PMID: 31290459
  • Liu Q, Pan LZ, Hu M, Ma JY et al. Molecular Network-Based Identification of Circular RNA-Associated ceRNA Network in Papillary Thyroid Cancer. Pathol Oncol Res 2020 Apr;26(2):1293-1299. PMID: 31289996
  • Bao M, Jiang G et al. Differential expression and functional analysis of lung cancer gene expression datasets: A systems biology perspective. Oncol Lett 2019 Jul;18(1):776-782. PMID: 31289554
  • Yu Z, Xu Q, Wang G, Rowe M et al. DNA topoisomerase IIα and RAD21 cohesin complex component are predicted as potential therapeutic targets in bladder cancer. Oncol Lett 2019 Jul;18(1):518-528. PMID: 31289523
  • Yang B, Dai JX, Pan YB, Ma YB et al. Examining the biomarkers and molecular mechanisms of medulloblastoma based on bioinformatics analysis. Oncol Lett 2019 Jul;18(1):433-441. PMID: 31289514
  • Yan Z, Yang J, Fan L, Xu D et al. 31 gene expression-based signatures serve as indicators of prognosis for patients with glioma. Oncol Lett 2019 Jul;18(1):291-297. PMID: 31289499
  • Green NH, Galvan DL, Badal SS, Chang BH et al. MTHFD2 links RNA methylation to metabolic reprogramming in renal cell carcinoma. Oncogene 2019 Aug;38(34):6211-6225. PMID: 31289360
  • Lima K, Carlos JAEG, Alves-Paiva RM, Vicari HP et al. Reversine exhibits antineoplastic activity in JAK2(V617F)-positive myeloproliferative neoplasms. Sci Rep 2019 Jul 9;9(1):9895. PMID: 31289316
  • Chater-Diehl E, Ejaz R, Cytrynbaum C, Siu MT et al. New insights into DNA methylation signatures: SMARCA2 variants in Nicolaides-Baraitser syndrome. BMC Med Genomics 2019 Jul 9;12(1):105. PMID: 31288860
  • Vega-Benedetti AF, Loi E, Moi L, Blois S et al. Clustered protocadherins methylation alterations in cancer. Clin Epigenetics 2019 Jul 9;11(1):100. PMID: 31288858
  • Li X, Zhang W, Song J, Zhang X et al. SLCO4C1 promoter methylation is a potential biomarker for prognosis associated with biochemical recurrence-free survival after radical prostatectomy. Clin Epigenetics 2019 Jul 9;11(1):99. PMID: 31288850
  • Mendizabal I, Berto S, Usui N, Toriumi K et al. Cell type-specific epigenetic links to schizophrenia risk in the brain. Genome Biol 2019 Jul 9;20(1):135. PMID: 31288836
  • Lim PJ, Lindert U, Opitz L, Hausser I et al. Transcriptome Profiling of Primary Skin Fibroblasts Reveal Distinct Molecular Features Between PLOD1- and FKBP14-Kyphoscoliotic Ehlers-Danlos Syndrome. Genes (Basel) 2019 Jul 8;10(7). PMID: 31288483
  • Tanaka T, Ono Y, Hikihara N, Yoshida A et al. Transcriptome analysis revealed bisphenol A and nonylphenol affect reproduction. Reprod Toxicol 2019 Sep;88:39-47. PMID: 31288075
  • Wan Y, Liu X, Zheng D, Wang Y et al. Systematic identification of intergenic long-noncoding RNAs in mouse retinas using full-length isoform sequencing. BMC Genomics 2019 Jul 8;20(1):559. PMID: 31286854
  • Cai Y, Mei J, Xiao Z, Xu B et al. Identification of five hub genes as monitoring biomarkers for breast cancer metastasis in silico. Hereditas 2019;156:20. PMID: 31285741
  • Li MW, Gao L, Dang YW, Li P et al. Protective potential of miR-146a-5p and its underlying molecular mechanism in diverse cancers: a comprehensive meta-analysis and bioinformatics analysis. Cancer Cell Int 2019;19:167. PMID: 31285693
  • Zhang S, Che L, He C, Huang J et al. Drp1 and RB interaction to mediate mitochondria-dependent necroptosis induced by cadmium in hepatocytes. Cell Death Dis 2019 Jul 8;10(7):523. PMID: 31285421
  • Wu Y, Liu F, Luo S, Yin X et al. Co-expression of key gene modules and pathways of human breast cancer cell lines. Biosci Rep 2019 Jul 31;39(7). PMID: 31285391
  • Kotliar D, Veres A, Nagy MA, Tabrizi S et al. Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq. Elife 2019 Jul 8;8. PMID: 31282856
  • Zhang Z, Chen LQ, Zhao YL, Yang CG et al. Single-base mapping of m(6)A by an antibody-independent method. Sci Adv 2019 Jul;5(7):eaax0250. PMID: 31281898
  • Pan J, Dai Q, Xiang Z, Liu B et al. Three Biomarkers Predict Gastric Cancer Patients' Susceptibility To Fluorouracil-based Chemotherapy. J Cancer 2019;10(13):2953-2960. PMID: 31281472
  • Lv K, Yang J, Sun J, Guan J et al. Identification of key candidate genes for pancreatic cancer by bioinformatics analysis. Exp Ther Med 2019 Jul;18(1):451-458. PMID: 31281439
  • Landskron G, De la Fuente López M, Dubois-Camacho K, Díaz-Jiménez D et al. Interleukin 33/ST2 Axis Components Are Associated to Desmoplasia, a Metastasis-Related Factor in Colorectal Cancer. Front Immunol 2019;10:1394. PMID: 31281317
  • Peng H, Deng Y, Wang L, Cheng Y et al. Identification of Potential Biomarkers with Diagnostic Value in Pituitary Adenomas Using Prediction Analysis for Microarrays Method. J Mol Neurosci 2019 Nov;69(3):399-410. PMID: 31280474
  • Li D, Lin C, Li N, Du Y et al. PLAGL2 and POFUT1 are regulated by an evolutionarily conserved bidirectional promoter and are collaboratively involved in colorectal cancer by maintaining stemness. EBioMedicine 2019 Jul;45:124-138. PMID: 31279780
  • Fang R, Uchiyama R, Sakai S, Hara H et al. ASC and NLRP3 maintain innate immune homeostasis in the airway through an inflammasome-independent mechanism. Mucosal Immunol 2019 Sep;12(5):1092-1103. PMID: 31278375
  • Reichelt-Wurm S, Wirtz T, Chittka D, Lindenmeyer M et al. Glomerular expression pattern of long non-coding RNAs in the type 2 diabetes mellitus BTBR mouse model. Sci Rep 2019 Jul 5;9(1):9765. PMID: 31278342
  • Koedoot E, Fokkelman M, Rogkoti VM, Smid M et al. Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes. Nat Commun 2019 Jul 5;10(1):2983. PMID: 31278301
  • Hu M, Wang Y, Xu L, An S et al. Relaxin gene delivery mitigates liver metastasis and synergizes with check point therapy. Nat Commun 2019 Jul 5;10(1):2993. PMID: 31278269
  • Tsoucas D, Dong R, Chen H, Zhu Q et al. Accurate estimation of cell-type composition from gene expression data. Nat Commun 2019 Jul 5;10(1):2975. PMID: 31278265
  • Czystowska-Kuzmicz M, Sosnowska A, Nowis D, Ramji K et al. Small extracellular vesicles containing arginase-1 suppress T-cell responses and promote tumor growth in ovarian carcinoma. Nat Commun 2019 Jul 5;10(1):3000. PMID: 31278254
  • Gong HB, Wu XJ, Pu XM, Kang XJ et al. Bioinformatics analysis of key biomarkers and pathways in KSHV infected endothelial cells. Medicine (Baltimore) 2019 Jul;98(27):e16277. PMID: 31277155
  • Jiang B, Sun Q, Tong Y, Wang Y et al. An immune-related gene signature predicts prognosis of gastric cancer. Medicine (Baltimore) 2019 Jul;98(27):e16273. PMID: 31277152
  • Zhou J, Li C, Yu A, Jie S et al. Bioinformatics analysis of differentially expressed genes involved in human developmental chondrogenesis. Medicine (Baltimore) 2019 Jul;98(27):e16240. PMID: 31277141
  • Yang F, Cui Z, Deng H, Wang Y et al. Identification of miRNAs-genes regulatory network in diabetic nephropathy based on bioinformatics analysis. Medicine (Baltimore) 2019 Jul;98(27):e16225. PMID: 31277135
  • Wang H, Zhang M, Xie Q, Yu J et al. Identification of diagnostic markers for major depressive disorder by cross-validation of data from whole blood samples. PeerJ 2019;7:e7171. PMID: 31275757
  • Liu Y, Zheng J, Zhao N, Jia J et al. ELL2 Is Downregulated and Associated with Galactose-Deficient IgA1 in IgA Nephropathy. Dis Markers 2019;2019:2407067. PMID: 31275443
  • Trescher S, Leser U et al. Estimation of Transcription Factor Activity in Knockdown Studies. Sci Rep 2019 Jul 3;9(1):9593. PMID: 31270369
  • Kegerreis B, Catalina MD, Bachali P, Geraci NS et al. Machine learning approaches to predict lupus disease activity from gene expression data. Sci Rep 2019 Jul 3;9(1):9617. PMID: 31270349
  • Hsu J, Arand J, Chaikovsky A, Mooney NA et al. E2F4 regulates transcriptional activation in mouse embryonic stem cells independently of the RB family. Nat Commun 2019 Jul 3;10(1):2939. PMID: 31270324
  • Wang CY, Colognori D, Sunwoo H, Wang D et al. PRC1 collaborates with SMCHD1 to fold the X-chromosome and spread Xist RNA between chromosome compartments. Nat Commun 2019 Jul 3;10(1):2950. PMID: 31270318
  • Bacci M, Lorito N, Ippolito L, Ramazzotti M et al. Reprogramming of Amino Acid Transporters to Support Aspartate and Glutamate Dependency Sustains Endocrine Resistance in Breast Cancer. Cell Rep 2019 Jul 2;28(1):104-118.e8. PMID: 31269432
  • Komljenovic A, Li H, Sorrentino V, Kutalik Z et al. Cross-species functional modules link proteostasis to human normal aging. PLoS Comput Biol 2019 Jul;15(7):e1007162. PMID: 31269015
  • Hirakata S, Ishizu H, Fujita A, Tomoe Y et al. Requirements for multivalent Yb body assembly in transposon silencing in Drosophila. EMBO Rep 2019 Jul;20(7):e47708. PMID: 31267711
  • Yang F, Li J, Deng H, Wang Y et al. GSTZ1-1 Deficiency Activates NRF2/IGF1R Axis in HCC via Accumulation of Oncometabolite Succinylacetone. EMBO J 2019 Aug 1;38(15):e101964. PMID: 31267557
  • Kusakabe M, Sun AC, Tyshchenko K, Wong R et al. Synthetic modeling reveals HOXB genes are critical for the initiation and maintenance of human leukemia. Nat Commun 2019 Jul 2;10(1):2913. PMID: 31266935
  • Gantner J, Ordon J, Kretschmer C, Guerois R et al. An EDS1-SAG101 Complex Is Essential for TNL-Mediated Immunity in Nicotiana benthamiana. Plant Cell 2019 Oct;31(10):2456-2474. PMID: 31266900
  • Xia L, Zhu X, Zhao Y, Yang G et al. Genome-wide RNA sequencing analysis reveals that IGF-2 attenuates memory decline, oxidative stress and amyloid plaques in an Alzheimer's disease mouse model (AD) by activating the PI3K/AKT/CREB signaling pathway. Int Psychogeriatr 2019 Jul;31(7):947-959. PMID: 31266549
  • Liu Y, Liu K, Yin L, Yu Y et al. H3K4me2 functions as a repressive epigenetic mark in plants. Epigenetics Chromatin 2019 Jul 2;12(1):40. PMID: 31266517
  • Esteban-Medina M, Peña-Chilet M, Loucera C, Dopazo J et al. Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic models. BMC Bioinformatics 2019 Jul 2;20(1):370. PMID: 31266445
  • Kurochkin I, Khrameeva E, Tkachev A, Stepanova V et al. Metabolome signature of autism in the human prefrontal cortex. Commun Biol 2019;2:234. PMID: 31263778
  • McCart Reed AE, Lal S, Kutasovic JR, Wockner L et al. LobSig is a multigene predictor of outcome in invasive lobular carcinoma. NPJ Breast Cancer 2019;5:18. PMID: 31263747
  • Crotti A, Sait HR, McAvoy KM, Estrada K et al. BIN1 favors the spreading of Tau via extracellular vesicles. Sci Rep 2019 Jul 1;9(1):9477. PMID: 31263146
  • Smith HW, Hirukawa A, Sanguin-Gendreau V, Nandi I et al. An ErbB2/c-Src axis links bioenergetics with PRC2 translation to drive epigenetic reprogramming and mammary tumorigenesis. Nat Commun 2019 Jul 1;10(1):2901. PMID: 31263101
  • Jacenik D, Cygankiewicz AI, Mokrowiecka A, Małecka-Panas E et al. Sex- and Age-Related Estrogen Signaling Alteration in Inflammatory Bowel Diseases: Modulatory Role of Estrogen Receptors. Int J Mol Sci 2019 Jun 28;20(13). PMID: 31261736
  • Schulten HJ, Bakhashab S et al. Meta-Analysis of Microarray Expression Studies on Metformin in Cancer Cell Lines. Int J Mol Sci 2019 Jun 28;20(13). PMID: 31261735
  • Piróg KA, Dennis EP, Hartley CL, Jackson RM et al. XBP1 signalling is essential for alleviating mutant protein aggregation in ER-stress related skeletal disease. PLoS Genet 2019 Jul;15(7):e1008215. PMID: 31260448
  • Shen K, Zhang S, Ma S, Zhang H et al. Molecular Markers and Diagnostic Model Specific for Barrett's Esophagus. J Comput Biol 2019 Dec;26(12):1367-1378. PMID: 31259619
  • Szenasi NL, Toth E, Balogh A, Juhasz K et al. Proteomic identification of membrane-associated placental protein 4 (MP4) as perlecan and characterization of its placental expression in normal and pathologic pregnancies. PeerJ 2019;7:e6982. PMID: 31259093
  • Chen X, Tan W, Li W, Li W et al. miR-1226-3p Promotes Sorafenib Sensitivity of Hepatocellular Carcinoma via Downregulation of DUSP4 Expression. J Cancer 2019;10(12):2745-2753. PMID: 31258782
  • Li H, Zhang SR, Xu HX, Wang WQ et al. SRPX2 and RAB31 are effective prognostic biomarkers in pancreatic cancer. J Cancer 2019;10(12):2670-2678. PMID: 31258775
  • Tang G, Zeng Z, Sun W, Li S et al. Small Nucleolar RNA 71A Promotes Lung Cancer Cell Proliferation, Migration and Invasion via MAPK/ERK Pathway. J Cancer 2019;10(10):2261-2275. PMID: 31258730
  • Mao Y, Xue P, Li L, Xu P et al. Bioinformatics analysis of mRNA and miRNA microarray to identify the key miRNA‑gene pairs in small‑cell lung cancer. Mol Med Rep 2019 Sep;20(3):2199-2208. PMID: 31257520
  • Guo Y, Ma J, Xiao L, Fang J et al. Identification of key pathways and genes in different types of chronic kidney disease based on WGCNA. Mol Med Rep 2019 Sep;20(3):2245-2257. PMID: 31257514
  • Wang L, Zhang C, Xie Y, Jiang W et al. Detecting the long non‑coding RNA signature related to spinal cord ependymal tumor subtype using a genome‑wide methylome analysis approach. Mol Med Rep 2019 Aug;20(2):1531-1540. PMID: 31257484
  • Wang S, Jiang C, Zhang K et al. Significantly dysregulated genes in osteoarthritic labrum cells identified through gene expression profiling. Mol Med Rep 2019 Aug;20(2):1716-1724. PMID: 31257478
  • Zhang C, Ma P, Zhao Z, Jiang N et al. miRNA‑mRNA regulatory network analysis of mesenchymal stem cell treatment in cisplatin‑induced acute kidney injury identifies roles for miR‑210/Serpine1 and miR‑378/Fos in regulating inflammation. Mol Med Rep 2019 Aug;20(2):1509-1522. PMID: 31257474
  • Kong D, Zhao Q, Liu W, Wang F et al. Identification of crucial miRNAs and lncRNAs for ossification of ligamentum flavum. Mol Med Rep 2019 Aug;20(2):1683-1699. PMID: 31257472
  • Ponzetta A, Carriero R, Carnevale S, Barbagallo M et al. Neutrophils Driving Unconventional T Cells Mediate Resistance against Murine Sarcomas and Selected Human Tumors. Cell 2019 Jul 11;178(2):346-360.e24. PMID: 31257026
  • Conte M, Dell'Aversana C, Sgueglia G, Carissimo A et al. HDAC2-dependent miRNA signature in acute myeloid leukemia. FEBS Lett 2019 Sep;593(18):2574-2584. PMID: 31254352
  • Fang H, ULTRA-DD Consortium, De Wolf H, Knezevic B et al. A genetics-led approach defines the drug target landscape of 30 immune-related traits. Nat Genet 2019 Jul;51(7):1082-1091. PMID: 31253980
  • Mishra S, Bernal C, Silvano M, Anand S et al. The protein secretion modulator TMED9 drives CNIH4/TGFα/GLI signaling opposing TMED3-WNT-TCF to promote colon cancer metastases. Oncogene 2019 Jul;38(29):5817-5837. PMID: 31253868
  • Singhania A, Graham CM, Gabryšová L, Moreira-Teixeira L et al. Transcriptional profiling unveils type I and II interferon networks in blood and tissues across diseases. Nat Commun 2019 Jun 28;10(1):2887. PMID: 31253760
  • Tsai YS, Jou YC, Tsai HT, Cheong IS et al. Indoleamine-2,3-dioxygenase-1 expression predicts poorer survival and up-regulates ZEB2 expression in human early stage bladder cancer. Urol Oncol 2019 Nov;37(11):810.e17-810.e27. PMID: 31253481
  • Dye CK, Corley MJ, Li D, Khadka VS et al. Comparative DNA methylomic analyses reveal potential origins of novel epigenetic biomarkers of insulin resistance in monocytes from virally suppressed HIV-infected adults. Clin Epigenetics 2019 Jun 28;11(1):95. PMID: 31253200
  • Guigon I, Legrand S, Berthelot JF, Bini S et al. miRkwood: a tool for the reliable identification of microRNAs in plant genomes. BMC Genomics 2019 Jun 28;20(1):532. PMID: 31253093
  • Wang R, Yang Z, Fei Y, Feng J et al. Construction and analysis of degradome-dependent microRNA regulatory networks in soybean. BMC Genomics 2019 Jun 28;20(1):534. PMID: 31253085
  • Rushing AW, Rushing B, Hoang K, Sanders SV et al. HTLV-1 basic leucine zipper factor protects cells from oxidative stress by upregulating expression of Heme Oxygenase I. PLoS Pathog 2019 Jun;15(6):e1007922. PMID: 31251786
  • Lake BB, Chen S, Hoshi M, Plongthongkum N et al. A single-nucleus RNA-sequencing pipeline to decipher the molecular anatomy and pathophysiology of human kidneys. Nat Commun 2019 Jun 27;10(1):2832. PMID: 31249312
  • Gómez-Zambrano Á, Merini W, Calonje M et al. The repressive role of Arabidopsis H2A.Z in transcriptional regulation depends on AtBMI1 activity. Nat Commun 2019 Jun 27;10(1):2828. PMID: 31249301
  • Zhang R, Zhang S, Hao W, Song G et al. Lineage-Specific Evolved MicroRNAs Regulating NB-LRR Defense Genes in Triticeae. Int J Mol Sci 2019 Jun 26;20(13). PMID: 31248042
  • Boer EF, Van Hollebeke HF, Park S, Infante CR et al. Pigeon foot feathering reveals conserved limb identity networks. Dev Biol 2019 Oct 15;454(2):128-144. PMID: 31247188
  • Xi YB, Zhang HM, Yang B, Chen XM et al. [Bioinformatics analysis of genes related to poor prognosis of human hepatocellular carcinoma and its clinical significance]. Zhongguo Ying Yong Sheng Li Xue Za Zhi 2019 Jan;35(1):90-96. PMID: 31245960
  • Mo XG, Liu W, Yang Y, Imani S et al. NCF2, MYO1F, S1PR4, and FCN1 as potential noninvasive diagnostic biomarkers in patients with obstructive coronary artery: A weighted gene co-expression network analysis. J Cell Biochem 2019 Oct;120(10):18219-18235. PMID: 31245869
  • Pandey S, Sahoo D et al. Identification of gene expression logical invariants in Arabidopsis. Plant Direct 2019 Mar;3(3):e00123. PMID: 31245766
  • Mo M, Liu S, Ma X, Tan C et al. A liver-specific lncRNA, FAM99B, suppresses hepatocellular carcinoma progression through inhibition of cell proliferation, migration, and invasion. J Cancer Res Clin Oncol 2019 Aug;145(8):2027-2038. PMID: 31243545
  • Jiao C, Li L, Zhang P, Zhang L et al. REGγ ablation impedes dedifferentiation of anaplastic thyroid carcinoma and accentuates radio-therapeutic response by regulating the Smad7-TGF-β pathway. Cell Death Differ 2020 Feb;27(2):497-508. PMID: 31243343
  • Kim D, Chen R, Sheu M, Kim N et al. Noncoding dsRNA induces retinoic acid synthesis to stimulate hair follicle regeneration via TLR3. Nat Commun 2019 Jun 26;10(1):2811. PMID: 31243280
  • Zhao N, Peacock SO, Lo CH, Heidman LM et al. Arginine vasopressin receptor 1a is a therapeutic target for castration-resistant prostate cancer. Sci Transl Med 2019 Jun 26;11(498). PMID: 31243151
  • Yang S, Liu T, Nan H, Wang Y et al. Comprehensive analysis of prognostic immune-related genes in the tumor microenvironment of cutaneous melanoma. J Cell Physiol 2020 Feb;235(2):1025-1035. PMID: 31240705
  • Li H, Wang FL, Shan LP, An J et al. Comprehensive analysis of gene expression and DNA methylation for human nasopharyngeal carcinoma. Eur Arch Otorhinolaryngol 2019 Sep;276(9):2565-2576. PMID: 31240455
  • Thomas A, Barriere S, Broseus L, Brooke J et al. GECKO is a genetic algorithm to classify and explore high throughput sequencing data. Commun Biol 2019;2:222. PMID: 31240260
  • Li X, Liu Z, Mi M, Zhang C et al. Identification of hub genes and key pathways associated with angioimmunoblastic T-cell lymphoma using weighted gene co-expression network analysis. Cancer Manag Res 2019;11:5209-5220. PMID: 31239775
  • Yang M, Zhai Z, Guo S, Li X et al. Long non-coding RNA FLJ33360 participates in ovarian cancer progression by sponging miR-30b-3p. Onco Targets Ther 2019;12:4469-4480. PMID: 31239715
  • Deng R, Cheng Y, Ye S, Zhang J et al. m(6)A methyltransferase METTL3 suppresses colorectal cancer proliferation and migration through p38/ERK pathways. Onco Targets Ther 2019;12:4391-4402. PMID: 31239708
  • Sousa A, Gonçalves E, Mirauta B, Ochoa D et al. Multi-omics Characterization of Interaction-mediated Control of Human Protein Abundance levels. Mol Cell Proteomics 2019 Aug 9;18(8 suppl 1):S114-S125. PMID: 31239291
  • Sun Y, Song Y, Liu C, Geng J et al. LncRNA NEAT1-MicroRNA-140 axis exacerbates nonalcoholic fatty liver through interrupting AMPK/SREBP-1 signaling. Biochem Biophys Res Commun 2019 Aug 20;516(2):584-590. PMID: 31239155
  • Xiong HG, Li H, Xiao Y, Yang QC et al. Long noncoding RNA MYOSLID promotes invasion and metastasis by modulating the partial epithelial-mesenchymal transition program in head and neck squamous cell carcinoma. J Exp Clin Cancer Res 2019 Jun 25;38(1):278. PMID: 31238980
  • Yuan X, Wang H, Cai J, Bi Y et al. Rice NAC transcription factor ONAC066 functions as a positive regulator of drought and oxidative stress response. BMC Plant Biol 2019 Jun 25;19(1):278. PMID: 31238869
  • Cheng Q, Li Z, Wang R, Zhang H et al. Genetic Profiles Related to Pathogenesis in Sporadic Intracranial Aneurysm Patients. World Neurosurg 2019 Nov;131:e23-e31. PMID: 31238169
  • Hummels KR, Kearns DB et al. Suppressor mutations in ribosomal proteins and FliY restore Bacillus subtilis swarming motility in the absence of EF-P. PLoS Genet 2019 Jun;15(6):e1008179. PMID: 31237868
  • Li X, Xiao X, Chang R, Zhang C et al. Comprehensive bioinformatics analysis identifies lncRNA HCG22 as a migration inhibitor in esophageal squamous cell carcinoma. J Cell Biochem 2020 Jan;121(1):468-481. PMID: 31236983
  • Nguyen CH, Glüxam T, Schlerka A, Bauer K et al. SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. Sci Rep 2019 Jun 24;9(1):9139. PMID: 31235852
  • Jadhav B, Monajemi R, Gagalova KK, Ho D et al. RNA-Seq in 296 phased trios provides a high-resolution map of genomic imprinting. BMC Biol 2019 Jun 24;17(1):50. PMID: 31234833
  • Smestad JA, Maher LJ 3rd et al. Master regulator analysis of paragangliomas carrying SDHx, VHL, or MAML3 genetic alterations. BMC Cancer 2019 Jun 24;19(1):619. PMID: 31234811
  • Bhatia S, Monkman J, Blick T, Pinto C et al. Interrogation of Phenotypic Plasticity between Epithelial and Mesenchymal States in Breast Cancer. J Clin Med 2019 Jun 21;8(6). PMID: 31234417
  • Wang X, Gao J, Zhou B, Xie J et al. Identification of prognostic markers for hepatocellular carcinoma based on miRNA expression profiles. Life Sci 2019 Sep 1;232:116596. PMID: 31233760
  • Li F, Guo P, Dong K, Guo P et al. Identification of Key Biomarkers and Potential Molecular Mechanisms in Renal Cell Carcinoma by Bioinformatics Analysis. J Comput Biol 2019 Nov;26(11):1278-1295. PMID: 31233342
  • Liang L, Zhao K, Zhu JH, Chen G et al. Comprehensive evaluation of FKBP10 expression and its prognostic potential in gastric cancer. Oncol Rep 2019 Aug;42(2):615-628. PMID: 31233188
  • Kuo SJ, Liu SC, Huang YL, Tsai CH et al. TGF-β1 enhances FOXO3 expression in human synovial fibroblasts by inhibiting miR-92a through AMPK and p38 pathways. Aging (Albany NY) 2019 Jun 21;11(12):4075-4089. PMID: 31232696
  • Civita P, Franceschi S, Aretini P, Ortenzi V et al. Laser Capture Microdissection and RNA-Seq Analysis: High Sensitivity Approaches to Explain Histopathological Heterogeneity in Human Glioblastoma FFPE Archived Tissues. Front Oncol 2019;9:482. PMID: 31231613
  • Bougarn S, Boughorbel S, Chaussabel D, Marr N et al. A curated transcriptome dataset collection to investigate the blood transcriptional response to viral respiratory tract infection and vaccination. F1000Res 2019;8:284. PMID: 31231515
  • Barupal DK, Gao B, Budczies J, Phinney BS et al. Prioritization of metabolic genes as novel therapeutic targets in estrogen-receptor negative breast tumors using multi-omics data and text mining. Oncotarget 2019 Jun 11;10(39):3894-3909. PMID: 31231467
  • Tribelli PM, Lujan AM, Pardo A, Ibarra JG et al. Core regulon of the global anaerobic regulator Anr targets central metabolism functions in Pseudomonas species. Sci Rep 2019 Jun 21;9(1):9065. PMID: 31227753
  • Eissmann MF, Dijkstra C, Jarnicki A, Phesse T et al. IL-33-mediated mast cell activation promotes gastric cancer through macrophage mobilization. Nat Commun 2019 Jun 21;10(1):2735. PMID: 31227713
  • Morgan EL, Macdonald A et al. Autocrine STAT3 activation in HPV positive cervical cancer through a virus-driven Rac1-NFκB-IL-6 signalling axis. PLoS Pathog 2019 Jun;15(6):e1007835. PMID: 31226168
  • Goad B, Harris LK et al. Identification and prioritization of macrolideresistance genes with hypothetical annotation inStreptococcus pneumoniae. Bioinformation 2018;14(9):488-498. PMID: 31223208
  • Xie HM, Taylor DM, Zhang Z, McDonald-McGinn DM et al. Copy number variations in individuals with conotruncal heart defects reveal some shared developmental pathways irrespective of 22q11.2 deletion status. Birth Defects Res 2019 Aug 1;111(13):888-905. PMID: 31222980
  • Song G, Xu J, He L, Sun X et al. Systematic profiling identifies PDLIM2 as a novel prognostic predictor for oesophageal squamous cell carcinoma (ESCC). J Cell Mol Med 2019 Aug;23(8):5751-5761. PMID: 31222932
  • Seo SB, Baek JY, Lim JH, Jin X et al. 14-3-3ζ targeting induced senescence in Hep-2 laryngeal cancer cell through deneddylation of Cullin1 in the Skp1-Cullin-F-box protein complex. Cell Prolif 2019 Sep;52(5):e12654. PMID: 31222857
  • Chen Z, Zhuang W, Wang Z, Xiao W et al. MicroRNA-450b-3p inhibits cell growth by targeting phosphoglycerate kinase 1 in hepatocellular carcinoma. J Cell Biochem 2019 Nov;120(11):18805-18815. PMID: 31222833
  • Sun X, Ge X, Xu Z, Chen D et al. Identification of circular RNA-microRNA-messenger RNA regulatory network in hepatocellular carcinoma by integrated analysis. J Gastroenterol Hepatol 2020 Jan;35(1):157-164. PMID: 31222831
  • Wang S, Li GX, Tan CC, He R et al. FOXF2 reprograms breast cancer cells into bone metastasis seeds. Nat Commun 2019 Jun 20;10(1):2707. PMID: 31222004
  • Ghashghaei M, Niazi TM, Aguilar-Mahecha A, Klein KO et al. Identification of a Radiosensitivity Molecular Signature Induced by Enzalutamide in Hormone-sensitive and Hormone-resistant Prostate Cancer Cells. Sci Rep 2019 Jun 20;9(1):8838. PMID: 31221986
  • van Weverwijk A, Koundouros N, Iravani M, Ashenden M et al. Metabolic adaptability in metastatic breast cancer by AKR1B10-dependent balancing of glycolysis and fatty acid oxidation. Nat Commun 2019 Jun 20;10(1):2698. PMID: 31221959
  • Ahn J, Suh Y, Lee K et al. Adipose-Specific Expression, Developmental and Nutritional Regulation of the Gene-Encoding Retinol-Binding Protein 7 in Pigs. Lipids 2019 Jun;54(6-7):359-367. PMID: 31218688
  • Xu B, Bai Z, Yin J, Zhang Z et al. Global transcriptomic analysis identifies SERPINE1 as a prognostic biomarker associated with epithelial-to-mesenchymal transition in gastric cancer. PeerJ 2019;7:e7091. PMID: 31218131
  • Huang W, Huang Y, Gu J, Zhang J et al. miR-23a-5p inhibits cell proliferation and invasion in pancreatic ductal adenocarcinoma by suppressing ECM1 expression. Am J Transl Res 2019;11(5):2983-2994. PMID: 31217868
  • Du Z, Xia Q, Wu B, Ding J et al. The analyses of SRCR genes based on protein-protein interaction network in esophageal squamous cell carcinoma. Am J Transl Res 2019;11(5):2683-2705. PMID: 31217847
  • Riccardo F, Tarone L, Iussich S, Giacobino D et al. Identification of CSPG4 as a promising target for translational combinatorial approaches in osteosarcoma. Ther Adv Med Oncol 2019;11:1758835919855491. PMID: 31217827
  • Perco P, Ju W, Kerschbaum J, Leierer J et al. Identification of dicarbonyl and L-xylulose reductase as a therapeutic target in human chronic kidney disease. JCI Insight 2019 Jun 20;4(12). PMID: 31217356
  • Sen M, Wang X, Hamdan FH, Rapp J et al. ARID1A facilitates KRAS signaling-regulated enhancer activity in an AP1-dependent manner in colorectal cancer cells. Clin Epigenetics 2019 Jun 19;11(1):92. PMID: 31217031
  • Strikoudis A, Cieślak A, Loffredo L, Chen YW et al. Modeling of Fibrotic Lung Disease Using 3D Organoids Derived from Human Pluripotent Stem Cells. Cell Rep 2019 Jun 18;27(12):3709-3723.e5. PMID: 31216486
  • Lee MH, Gallo PM, Hooper KM, Corradetti C et al. The cytokine network type I IFN-IL-27-IL-10 is augmented in murine and human lupus. J Leukoc Biol 2019 Oct;106(4):967-975. PMID: 31216373
  • Alag AMachine learning approach yields epigenetic biomarkers of food allergy: A novel 13-gene signature to diagnose clinical reactivity. PLoS One 2019;14(6):e0218253. PMID: 31216310
  • Huang L, Chen J, Zhao Y, Gu L et al. Key candidate genes of STAT1 and CXCL10 in melanoma identified by integrated bioinformatical analysis. IUBMB Life 2019 Oct;71(10):1634-1644. PMID: 31216116
  • Vishnoi M, Liu NH, Yin W, Boral D et al. The identification of a TNBC liver metastasis gene signature by sequential CTC-xenograft modeling. Mol Oncol 2019 Sep;13(9):1913-1926. PMID: 31216110
  • Gushchanskaia ES, Esse R, Ma Q, Lau NC et al. Interplay between small RNA pathways shapes chromatin landscapes in C. elegans. Nucleic Acids Res 2019 Jun 20;47(11):5603-5616. PMID: 31216042
  • Zhang J, Bing Z, Yan P, Tian J et al. Identification of 17 mRNAs and a miRNA as an integrated prognostic signature for lung squamous cell carcinoma. J Gene Med 2019 Aug;21(8):e3105. PMID: 31215090
  • Yan H, Zheng G, Qu J, Liu Y et al. Identification of key candidate genes and pathways in multiple myeloma by integrated bioinformatics analysis. J Cell Physiol 2019 Dec;234(12):23785-23797. PMID: 31215027
  • Zou Y, Bui TT, Selvarajoo K et al. ABioTrans: A Biostatistical Tool for Transcriptomics Analysis. Front Genet 2019;10:499. PMID: 31214245
  • Zhang C, Yu R, Li Z, Song H et al. Comprehensive analysis of genes based on chr1p/19q co-deletion reveals a robust 4-gene prognostic signature for lower grade glioma. Cancer Manag Res 2019;11:4971-4984. PMID: 31213913
  • Zhang QN, Zhu HL, Xia MT, Liao J et al. A panel of collagen genes are associated with prognosis of patients with gastric cancer and regulated by microRNA-29c-3p: an integrated bioinformatics analysis and experimental validation. Cancer Manag Res 2019;11:4757-4772. PMID: 31213898
  • Li G, Zhang P, Zhang W, Lei Z et al. Identification of key genes and pathways in Ewing's sarcoma patients associated with metastasis and poor prognosis. Onco Targets Ther 2019;12:4153-4165. PMID: 31213834
  • Canto LMD, Cury SS, Barros-Filho MC, Kupper BEC et al. Locally advanced rectal cancer transcriptomic-based secretome analysis reveals novel biomarkers useful to identify patients according to neoadjuvant chemoradiotherapy response. Sci Rep 2019 Jun 18;9(1):8702. PMID: 31213644
  • Burga A, Ben-David E, Lemus Vergara T, Boocock J et al. Fast genetic mapping of complex traits in C. elegans using millions of individuals in bulk. Nat Commun 2019 Jun 18;10(1):2680. PMID: 31213597
  • Jiang WD, Ye ZH et al. Integrated analysis of a competing endogenous RNA network in renal cell carcinoma using bioinformatics tools. Biosci Rep 2019 Jul 31;39(7). PMID: 31213578
  • Pfefferle AD, Darr DB, Calhoun BC, Mott KR et al. The MMTV-Wnt1 murine model produces two phenotypically distinct subtypes of mammary tumors with unique therapeutic responses to an EGFR inhibitor. Dis Model Mech 2019 Jul 5;12(7). PMID: 31213486
  • Yeo MS, Subhash VV, Suda K, Balcıoğlu HE et al. FBXW5 Promotes Tumorigenesis and Metastasis in Gastric Cancer via Activation of the FAK-Src Signaling Pathway. Cancers (Basel) 2019 Jun 17;11(6). PMID: 31213005
  • Shahjaman M, Rahman MR, Islam SMS, Mollah MNH et al. A Robust Approach for Identification of Cancer Biomarkers and Candidate Drugs. Medicina (Kaunas) 2019 Jun 11;55(6). PMID: 31212673
  • Soares-Schanoski A, Baptista Cruz N, de Castro-Jorge LA, de Carvalho RVH et al. Systems analysis of subjects acutely infected with the Chikungunya virus. PLoS Pathog 2019 Jun;15(6):e1007880. PMID: 31211814
  • Liu BX, Huang GJ, Cheng HB et al. Comprehensive Analysis of Core Genes and Potential Mechanisms in Rectal Cancer. J Comput Biol 2019 Nov;26(11):1262-1277. PMID: 31211595
  • Xiong Y, Ren Y, Li W, Wu F et al. NF-YC12 is a key multi-functional regulator of accumulation of seed storage substances in rice. J Exp Bot 2019 Aug 7;70(15):3765-3780. PMID: 31211389
  • Ma SY, Wei P, Qu F et al. KCNMA1-AS1 attenuates apoptosis of epithelial ovarian cancer cells and serves as a risk factor for poor prognosis of epithelial ovarian cancer. Eur Rev Med Pharmacol Sci 2019 Jun;23(11):4629-4641. PMID: 31210304
  • McCarthy FM, Pendarvis K, Cooksey AM, Gresham CR et al. Chickspress: a resource for chicken gene expression. Database (Oxford) 2019 Jan 1;2019. PMID: 31210271
  • Yao C, Sun HW, Lacey NE, Ji Y et al. Single-cell RNA-seq reveals TOX as a key regulator of CD8(+) T cell persistence in chronic infection. Nat Immunol 2019 Jul;20(7):890-901. PMID: 31209400
  • Shetty AC, Jacob CG, Huang F, Li Y et al. Genomic structure and diversity of Plasmodium falciparum in Southeast Asia reveal recent parasite migration patterns. Nat Commun 2019 Jun 17;10(1):2665. PMID: 31209259
  • Li J, Halfter K, Zhang M, Saad C et al. Computational analysis of receptor tyrosine kinase inhibitors and cancer metabolism: implications for treatment and discovery of potential therapeutic signatures. BMC Cancer 2019 Jun 17;19(1):600. PMID: 31208363
  • Lai SW, Liu YS, Lu DY, Tsai CF et al. Melatonin Modulates the Microenvironment of Glioblastoma Multiforme by Targeting Sirtuin 1. Nutrients 2019 Jun 14;11(6). PMID: 31207928
  • Boufaied N, Takhar M, Nash C, Erho N et al. Development of a predictive model for stromal content in prostate cancer samples to improve signature performance. J Pathol 2019 Dec;249(4):411-424. PMID: 31206668
  • Zhang Y, Zhao H, Xu W, Jiang D et al. High Expression of PQBP1 and Low Expression of PCK2 are Associated with Metastasis and Recurrence of Osteosarcoma and Unfavorable Survival Outcomes of the Patients. J Cancer 2019;10(9):2091-2101. PMID: 31205570
  • Du P, Hu C, Qin Y, Zhao J et al. LncRNA PVT1 Mediates Antiapoptosis and 5-Fluorouracil Resistance via Increasing Bcl2 Expression in Gastric Cancer. J Oncol 2019;2019:9325407. PMID: 31205469
  • Huang M, Tailor J, Zhen Q, Gillmor AH et al. Engineering Genetic Predisposition in Human Neuroepithelial Stem Cells Recapitulates Medulloblastoma Tumorigenesis. Cell Stem Cell 2019 Sep 5;25(3):433-446.e7. PMID: 31204176
  • Yang K, Kondo MA, Jaaro-Peled H, Cash-Padgett T et al. The transcriptome landscape associated with Disrupted-in-Schizophrenia-1 locus impairment in early development and adulthood. Schizophr Res 2019 Aug;210:149-156. PMID: 31204062
  • Xie L, Bao X, Cai T, Silva SG et al. Elevated Risk of Radiation Therapy-Associated Second Malignant Neoplasms in Young African-American Women Survivors of Stage I-IIIA Breast Cancer. Int J Radiat Oncol Biol Phys 2019 Oct 1;105(2):275-284. PMID: 31201893
  • Lai JKH, Gagalova KK, Kuenne C, El-Brolosy MA et al. Induction of interferon-stimulated genes and cellular stress pathways by morpholinos in zebrafish. Dev Biol 2019 Oct 1;454(1):21-28. PMID: 31201802
  • Tomic A, Tomic I, Rosenberg-Hasson Y, Dekker CL et al. SIMON, an Automated Machine Learning System, Reveals Immune Signatures of Influenza Vaccine Responses. J Immunol 2019 Aug 1;203(3):749-759. PMID: 31201239
  • Bownes RJ, Turnbull AK, Martinez-Perez C, Cameron DA et al. On-treatment biomarkers can improve prediction of response to neoadjuvant chemotherapy in breast cancer. Breast Cancer Res 2019 Jun 14;21(1):73. PMID: 31200764
  • Jiang F, Wu Q, Sun S, Bi G et al. Identification of potential diagnostic biomarkers for Parkinson's disease. FEBS Open Bio 2019 Aug;9(8):1460-1468. PMID: 31199560
  • Yamada Y, Kato M, Arai T, Sanada H et al. Aberrantly expressed PLOD1 promotes cancer aggressiveness in bladder cancer: a potential prognostic marker and therapeutic target. Mol Oncol 2019 Sep;13(9):1898-1912. PMID: 31199049
  • Liu J, Song S, Lin S, Zhang M et al. Circ-SERPINE2 promotes the development of gastric carcinoma by sponging miR-375 and modulating YWHAZ. Cell Prolif 2019 Jul;52(4):e12648. PMID: 31199037
  • Xu W, Wang Y, Wang Y, Lv S et al. Screening of differentially expressed genes and identification of NUF2 as a prognostic marker in breast cancer. Int J Mol Med 2019 Aug;44(2):390-404. PMID: 31198978
  • Bader DA, Hartig SM, Putluri V, Foley C et al. Mitochondrial pyruvate import is a metabolic vulnerability in androgen receptor-driven prostate cancer. Nat Metab 2019 Jan;1(1):70-85. PMID: 31198906
  • Li K, Zhang R, Wei M, Zhao L et al. TROAP Promotes Breast Cancer Proliferation and Metastasis. Biomed Res Int 2019;2019:6140951. PMID: 31198787
  • Liesenborghs I, Eijssen LMT, Kutmon M, Gorgels TGMF et al. Comprehensive bioinformatics analysis of trabecular meshwork gene expression data to unravel the molecular pathogenesis of primary open-angle glaucoma. Acta Ophthalmol 2020 Feb;98(1):48-57. PMID: 31197946
  • Zhai Q, Li H, Sun L, Yuan Y et al. Identification of differentially expressed genes between triple and non-triple-negative breast cancer using bioinformatics analysis. Breast Cancer 2019 Nov;26(6):784-791. PMID: 31197620
  • Magi A, Masselli M, Sala C, Guerriero A et al. The ion channels and transporters gene expression profile indicates a shift in excitability and metabolisms during malignant progression of Follicular Lymphoma. Sci Rep 2019 Jun 13;9(1):8586. PMID: 31197180
  • Zhang X, Xu C, Yosef N et al. Simulating multiple faceted variability in single cell RNA sequencing. Nat Commun 2019 Jun 13;10(1):2611. PMID: 31197158
  • Wang G, Fu X, Chang Y, Li X et al. B7-CD28 gene family expression is associated with prognostic and immunological characteristics of diffuse large B-cell lymphoma. Aging (Albany NY) 2019 Jun 13;11(12):3939-3957. PMID: 31195368
  • Wei KL, Chou JL, Chen YC, Jin H et al. Methylomics analysis identifies a putative STAT3 target, SPG20, as a noninvasive epigenetic biomarker for early detection of gastric cancer. PLoS One 2019;14(6):e0218338. PMID: 31194837
  • Pollino S, Palmerini E, Dozza B, Bientinesi E et al. CXCR4 in human osteosarcoma malignant progression. The response of osteosarcoma cell lines to the fully human CXCR4 antibody MDX1338. J Bone Oncol 2019 Aug;17:100239. PMID: 31193811
  • Peng LN, Xu YQ, Wang X, Feng X et al. Overexpression of paralogues of the wheat expansin gene TaEXPA8 improves low-temperature tolerance in Arabidopsis. Plant Biol (Stuttg) 2019 Nov;21(6):1119-1131. PMID: 31192523
  • Rezaei Tavirani M, Rezaei Tavirani M, Zamanian Azodi M et al. ANXA2, PRKCE, and OXT are critical differentially genes in Nonalcoholic fatty liver disease. Gastroenterol Hepatol Bed Bench 2019 Spring;12(2):131-137. PMID: 31191837
  • Duan JE, Jiang ZC, Alqahtani F, Mandoiu I et al. Methylome Dynamics of Bovine Gametes and in vivo Early Embryos. Front Genet 2019;10:512. PMID: 31191619
  • Dreval K, Tryndyak V, de Conti A, Beland FA et al. Gene Expression and DNA Methylation Alterations During Non-alcoholic Steatohepatitis-Associated Liver Carcinogenesis. Front Genet 2019;10:486. PMID: 31191608
  • Khatun MR, Arifuzzaman S et al. RETRACTED ARTICLE: Selected TLR7/8 agonist and type I interferon (IFN-α) cooperatively redefine the microglia transcriptome. Inflammopharmacology 2020 Jul 17;:547. PMID: 31190206
  • Yanan W, Wenyong Z, Ze L, Jingxia G et al. Identification of genes and pathways in human antigen-presenting cell subsets in response to polio vaccine by bioinformatical analysis. J Med Virol 2019 Oct;91(10):1729-1736. PMID: 31187886
  • Ke ZB, Cai H, Wu YP, Lin YZ et al. Identification of key genes and pathways in benign prostatic hyperplasia. J Cell Physiol 2019 Nov;234(11):19942-19950. PMID: 31187492
  • Zhang H, Zhuo C, Zhou D, Zhang F et al. Association between the expression of carbonic anhydrase II and clinicopathological features of hepatocellular carcinoma. Oncol Lett 2019 Jun;17(6):5721-5728. PMID: 31186798
  • Wei Z, Liu Y, Qiao S, Li X et al. Identification of the potential therapeutic target gene UBE2C in human hepatocellular carcinoma: An investigation based on GEO and TCGA databases. Oncol Lett 2019 Jun;17(6):5409-5418. PMID: 31186759
  • He L, Cai X, Cheng S, Zhou H et al. Ornithine transcarbamylase downregulation is associated with poor prognosis in hepatocellular carcinoma. Oncol Lett 2019 Jun;17(6):5030-5038. PMID: 31186714
  • Uddin MN, Li M, Wang X et al. Identification of Transcriptional Signatures of Colon Tumor Stroma by a Meta-Analysis. J Oncol 2019;2019:8752862. PMID: 31186640
  • Yuan J, Tan L, Yin Z, Zhu W et al. MIR17HG-miR-18a/19a axis, regulated by interferon regulatory factor-1, promotes gastric cancer metastasis via Wnt/β-catenin signalling. Cell Death Dis 2019 Jun 11;10(6):454. PMID: 31186404
  • Kim H, Sung J, Kim H, Ryu H et al. Expression and secretion of CXCL12 are enhanced in autosomal dominant polycystic kidney disease. BMB Rep 2019 Jul;52(7):463-468. PMID: 31186083
  • Luo K, Geng J, Zhang Q, Xu Y et al. LncRNA CASC9 interacts with CPSF3 to regulate TGF-β signaling in colorectal cancer. J Exp Clin Cancer Res 2019 Jun 11;38(1):249. PMID: 31186036
  • Scheidegger A, Dunn CJ, Samarakkody A, Koney NK et al. Genome-wide RNA pol II initiation and pausing in neural progenitors of the rat. BMC Genomics 2019 Jun 11;20(1):477. PMID: 31185909
  • Muñoz DP, Yannone SM, Daemen A, Sun Y et al. Targetable mechanisms driving immunoevasion of persistent senescent cells link chemotherapy-resistant cancer to aging. JCI Insight 2019 Jun 11;5(14). PMID: 31184599
  • Zhu J, Wang Z, Chen F et al. Association of Key Genes and Pathways with Atopic Dermatitis by Bioinformatics Analysis. Med Sci Monit 2019 Jun 11;25:4353-4361. PMID: 31184315
  • Bi X, Zhai Z, Wang S et al. Identification of the key pathways and genes related to polycystic ovary syndrome using bioinformatics analysis. Gen Physiol Biophys 2019 May;38(3):205-214. PMID: 31184307
  • Hari P, Millar FR, Tarrats N, Birch J et al. The innate immune sensor Toll-like receptor 2 controls the senescence-associated secretory phenotype. Sci Adv 2019 Jun;5(6):eaaw0254. PMID: 31183403
  • Zhu W, Nan Y, Wang S, Liu W et al. Bioinformatics Analysis of Gene Expression Profiles of Sex Differences in Ischemic Stroke. Biomed Res Int 2019;2019:2478453. PMID: 31183363
  • Bao Y, Wang L, Shi L, Yun F et al. Transcriptome profiling revealed multiple genes and ECM-receptor interaction pathways that may be associated with breast cancer. Cell Mol Biol Lett 2019;24:38. PMID: 31182966
  • Ma HP, Chang HL, Bamodu OA, Yadav VK et al. Collagen 1A1 (COL1A1) Is a Reliable Biomarker and Putative Therapeutic Target for Hepatocellular Carcinogenesis and Metastasis. Cancers (Basel) 2019 Jun 7;11(6). PMID: 31181620
  • Qi Y, Zhang B et al. Predicting three-dimensional genome organization with chromatin states. PLoS Comput Biol 2019 Jun;15(6):e1007024. PMID: 31181064
  • Huang H, Huang Q, Tang T, Zhou X et al. Differentially Expressed Gene Screening, Biological Function Enrichment, and Correlation with Prognosis in Non-Small Cell Lung Cancer. Med Sci Monit 2019 Jun 10;25:4333-4341. PMID: 31181055
  • Fagone P, Mazzon E, Mammana S, Di Marco R et al. Identification of CD4+ T cell biomarkers for predicting the response of patients with relapsing‑remitting multiple sclerosis to natalizumab treatment. Mol Med Rep 2019 Jul;20(1):678-684. PMID: 31180553
  • Ning L, Shan G, Sun Z, Zhang F et al. Quantitative Proteomic Analysis Reveals the Deregulation of Nicotinamide Adenine Dinucleotide Metabolism and CD38 in Inflammatory Bowel Disease. Biomed Res Int 2019;2019:3950628. PMID: 31179321
  • Hu P, Sun F, Ran J, Wu L et al. Identify CRNDE and LINC00152 as the key lncRNAs in age-related degeneration of articular cartilage through comprehensive and integrative analysis. PeerJ 2019;7:e7024. PMID: 31179196
  • Zhao J, Zhang H, Qin B, Nikolay R et al. Multifaceted Stoichiometry Control of Bacterial Operons Revealed by Deep Proteome Quantification. Front Genet 2019;10:473. PMID: 31178895
  • Lu X, Gao C, Liu C, Zhuang J et al. Identification of the key pathways and genes involved in HER2-positive breast cancer with brain metastasis. Pathol Res Pract 2019 Aug;215(8):152475. PMID: 31178227
  • Stuart T, Butler A, Hoffman P, Hafemeister C et al. Comprehensive Integration of Single-Cell Data. Cell 2019 Jun 13;177(7):1888-1902.e21. PMID: 31178118
  • Hou Y, Li F, Zhang R, Li S et al. Integrative characterization of G-Quadruplexes in the three-dimensional chromatin structure. Epigenetics 2019 Sep;14(9):894-911. PMID: 31177910
  • Wang Z, Zhu J, Chen F, Ma L et al. Weighted Gene Coexpression Network Analysis Identifies Key Genes and Pathways Associated with Idiopathic Pulmonary Fibrosis. Med Sci Monit 2019 Jun 9;25:4285-4304. PMID: 31177264
  • Lu TX, Wu S, Cai DY, Hong TT et al. Prognostic significance of serum aspartic transaminase in diffuse large B-cell lymphoma. BMC Cancer 2019 Jun 8;19(1):553. PMID: 31176361
  • Zhang Y, Zhang X, Zhao Z, Zheng Y et al. Integrated bioinformatics analysis and validation revealed potential immune-regulatory miR-892b, miR-199b-5p and miR-582-5p as diagnostic biomarkers in active tuberculosis. Microb Pathog 2019 Sep;134:103563. PMID: 31175974
  • Zhang L, Zhang S et al. Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization. Nucleic Acids Res 2019 Jul 26;47(13):6606-6617. PMID: 31175825
  • Zhang JT, Lin YC, Xiao BF, Yu BT et al. Overexpression of Family with Sequence Similarity 83, Member A (FAM83A) Predicts Poor Clinical Outcomes in Lung Adenocarcinoma. Med Sci Monit 2019 Jun 8;25:4264-4272. PMID: 31175804
  • Sato K, Masuda T, Hu Q, Tobo T et al. Novel oncogene 5MP1 reprograms c-Myc translation initiation to drive malignant phenotypes in colorectal cancer. EBioMedicine 2019 Jun;44:387-402. PMID: 31175057
  • Shen H, Yan W, Yuan J, Wang Z et al. Nek2B activates the wnt pathway and promotes triple-negative breast cancer chemothezrapy-resistance by stabilizing β-catenin. J Exp Clin Cancer Res 2019 Jun 7;38(1):243. PMID: 31174562
  • Shi L, Yuan Y, Li HY et al. MicroRNA-139-3p suppresses growth and metastasis of glioblastoma via inhibition of NIN1/RPNI2 binding protein 1 homolog. Eur Rev Med Pharmacol Sci 2019 May;23(10):4264-4274. PMID: 31173298
  • Yu C, Chen F, Jiang J, Zhang H et al. Screening key genes and signaling pathways in colorectal cancer by integrated bioinformatics analysis. Mol Med Rep 2019 Aug;20(2):1259-1269. PMID: 31173250
  • Fan H, Lu S, Wang S, Zhang S et al. Identification of critical genes associated with human osteosarcoma metastasis based on integrated gene expression profiling. Mol Med Rep 2019 Aug;20(2):915-930. PMID: 31173206
  • Wu J, Li Z, Zeng K, Wu K et al. Key genes associated with pancreatic cancer and their association with outcomes: A bioinformatics analysis. Mol Med Rep 2019 Aug;20(2):1343-1352. PMID: 31173193
  • Ahlfors H, Anyanwu N, Pakanavicius E, Dinischiotu N et al. Gene expression dysregulation domains are not a specific feature of Down syndrome. Nat Commun 2019 Jun 6;10(1):2489. PMID: 31171815
  • Chandran AKN, Moon S, Yoo YH, Gho YS et al. A web-based tool for the prediction of rice transcription factor function. Database (Oxford) 2019 Jan 1;2019. PMID: 31169887
  • Guo W, Zhu L, Zhu R, Chen Q et al. A four-DNA methylation biomarker is a superior predictor of survival of patients with cutaneous melanoma. Elife 2019 Jun 6;8. PMID: 31169496
  • Liu L, He C, Zhou Q, Wang G et al. Identification of key genes and pathways of thyroid cancer by integrated bioinformatics analysis. J Cell Physiol 2019 Dec;234(12):23647-23657. PMID: 31169306
  • Zhang Q, Chen W, Chen S, Li S et al. Identification of key genes and upstream regulators in ischemic stroke. Brain Behav 2019 Jul;9(7):e01319. PMID: 31168961
  • Park J, Guan Y, Sheng X, Gluck C et al. Functional methylome analysis of human diabetic kidney disease. JCI Insight 2019 Jun 6;4(11). PMID: 31167971
  • Kim EW, De Leon A, Jiang Z, Radu RA et al. Vitamin A Metabolism by Dendritic Cells Triggers an Antimicrobial Response against Mycobacterium tuberculosis. mSphere 2019 Jun 5;4(3). PMID: 31167948
  • Perkins P, Mazzoni-Putman S, Stepanova A, Alonso J et al. RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data. BMC Genomics 2019 Jun 6;20(Suppl 5):422. PMID: 31167636
  • Cianciaruso C, Beltraminelli T, Duval F, Nassiri S et al. Molecular Profiling and Functional Analysis of Macrophage-Derived Tumor Extracellular Vesicles. Cell Rep 2019 Jun 4;27(10):3062-3080.e11. PMID: 31167148
  • Paraiso KD, Blitz IL, Coley M, Cheung J et al. Endodermal Maternal Transcription Factors Establish Super-Enhancers during Zygotic Genome Activation. Cell Rep 2019 Jun 4;27(10):2962-2977.e5. PMID: 31167141
  • Qu J, Yi G, Zhou H et al. p63 cooperates with CTCF to modulate chromatin architecture in skin keratinocytes. Epigenetics Chromatin 2019 Jun 4;12(1):31. PMID: 31164150
  • Hu B, Zheng L, Long C, Song M et al. EmExplorer: a database for exploring time activation of gene expression in mammalian embryos. Open Biol 2019 Jun 28;9(6):190054. PMID: 31164042
  • Wang Y, Kuai Q, Gao F, Wang Y et al. Overexpression of TIM-3 in Macrophages Aggravates Pathogenesis of Pulmonary Fibrosis in Mice. Am J Respir Cell Mol Biol 2019 Dec;61(6):727-736. PMID: 31162951
  • Gao X, Nowak-Imialek M, Chen X, Chen D et al. Establishment of porcine and human expanded potential stem cells. Nat Cell Biol 2019 Jun;21(6):687-699. PMID: 31160711
  • Quentmeier H, Pommerenke C, Dirks WG, Eberth S et al. The LL-100 panel: 100 cell lines for blood cancer studies. Sci Rep 2019 Jun 3;9(1):8218. PMID: 31160637
  • Maximov V, Chen Z, Wei Y, Robinson MH et al. Tumour-associated macrophages exhibit anti-tumoural properties in Sonic Hedgehog medulloblastoma. Nat Commun 2019 Jun 3;10(1):2410. PMID: 31160587
  • Jeffries AR, Maroofian R, Salter CG, Chioza BA et al. Growth disrupting mutations in epigenetic regulatory molecules are associated with abnormalities of epigenetic aging. Genome Res 2019 Jul;29(7):1057-1066. PMID: 31160375
  • Hwang T, Mathios D, McDonald KL, Daris I et al. Integrative analysis of DNA methylation suggests down-regulation of oncogenic pathways and reduced somatic mutation rates in survival outliers of glioblastoma. Acta Neuropathol Commun 2019 Jun 3;7(1):88. PMID: 31159876
  • Porcelli D, Fischer B, Russell S, White R et al. Chromatin accessibility plays a key role in selective targeting of Hox proteins. Genome Biol 2019 Jun 3;20(1):115. PMID: 31159833
  • O'Brown ZK, Boulias K, Wang J, Wang SY et al. Sources of artifact in measurements of 6mA and 4mC abundance in eukaryotic genomic DNA. BMC Genomics 2019 Jun 3;20(1):445. PMID: 31159718
  • Halajyan A, Weingart N, Yeahia M, Loza-Coll M et al. NetR and AttR, Two New Bioinformatic Tools to Integrate Diverse Datasets into Cytoscape Network and Attribute Files. Genes (Basel) 2019 Jun 1;10(6). PMID: 31159440
  • Chien HT, Cheng SD, Liao CT, Wang HM et al. Amplification of the EGFR and CCND1 Are Coordinated and Play Important Roles in the Progression of Oral Squamous Cell Carcinomas. Cancers (Basel) 2019 May 31;11(6). PMID: 31159251
  • Fongang B, Cunningham KA, Rowicka M, Kudlicki A et al. Coevolution of Residues Provides Evidence of a Functional Heterodimer of 5-HT(2A)R and 5-HT(2C)R Involving Both Intracellular and Extracellular Domains. Neuroscience 2019 Aug 1;412:48-59. PMID: 31158438
  • Yang Q, Li B, Tang J, Cui X et al. Consistent gene signature of schizophrenia identified by a novel feature selection strategy from comprehensive sets of transcriptomic data. Brief Bioinform 2020 May 21;21(3):1058-1068. PMID: 31157371
  • Huang XY, Huang ZL, Zhang PB, Huang XY et al. CircRNA-100338 Is Associated With mTOR Signaling Pathway and Poor Prognosis in Hepatocellular Carcinoma. Front Oncol 2019;9:392. PMID: 31157168
  • Yu CY, Xiang S, Huang Z, Johnson TS et al. Gene Co-expression Network and Copy Number Variation Analyses Identify Transcription Factors Associated With Multiple Myeloma Progression. Front Genet 2019;10:468. PMID: 31156714
  • Qian G, Bao Y, Song D, Chen N et al. SOHLHs Might Be Gametogenesis-Specific bHLH Transcriptional Regulation Factors in Crassostrea gigas. Front Physiol 2019;10:594. PMID: 31156465
  • Lu Y, Sun Y, Drummer C 4th, Nanayakkara GK et al. Increased acetylation of H3K14 in the genomic regions that encode trained immunity enzymes in lysophosphatidylcholine-activated human aortic endothelial cells - Novel qualification markers for chronic disease risk factors and conditional DAMPs. Redox Biol 2019 Jun;24:101221. PMID: 31153039
  • Yu L, Ji KY, Zhang J, Xu Y et al. Core pluripotency factors promote glycolysis of human embryonic stem cells by activating GLUT1 enhancer. Protein Cell 2019 Sep;10(9):668-680. PMID: 31152430
  • Yandım C, Karakülah G et al. Expression dynamics of repetitive DNA in early human embryonic development. BMC Genomics 2019 May 31;20(1):439. PMID: 31151386
  • Zhang J, Wang N, Xu A et al. Cmah deficiency may lead to age-related hearing loss by influencing miRNA-PPAR mediated signaling pathway. PeerJ 2019;7:e6856. PMID: 31149396
  • Liu Q, Gregory RI et al. RNAmod: an integrated system for the annotation of mRNA modifications. Nucleic Acids Res 2019 Jul 2;47(W1):W548-W555. PMID: 31147718
  • Su G, Guo D, Chen J, Liu M et al. A distal enhancer maintaining Hoxa1 expression orchestrates retinoic acid-induced early ESCs differentiation. Nucleic Acids Res 2019 Jul 26;47(13):6737-6752. PMID: 31147716
  • Bewick AJ, Zhang Y, Wendte JM, Zhang X et al. Evolutionary and Experimental Loss of Gene Body Methylation and Its Consequence to Gene Expression. G3 (Bethesda) 2019 Aug 8;9(8):2441-2445. PMID: 31147389
  • Pereira LX, Alves da Silva LC, de Oliveira Feitosa A, Santos Ferreira RJ et al. Correlation between renin-angiotensin system (RAS) related genes, type 2 diabetes, and cancer: Insights from metanalysis of transcriptomics data. Mol Cell Endocrinol 2019 Aug 1;493:110455. PMID: 31145933
  • Tirumalai V, Swetha C, Nair A, Pandit A et al. miR828 and miR858 regulate VvMYB114 to promote anthocyanin and flavonol accumulation in grapes. J Exp Bot 2019 Sep 24;70(18):4775-4792. PMID: 31145783
  • Nagel S, Pommerenke C, MacLeod RAF, Meyer C et al. Deregulated expression of NKL homeobox genes in T-cell lymphomas. Oncotarget 2019 May 14;10(35):3227-3247. PMID: 31143370
  • Mielke LA, Liao Y, Clemens EB, Firth MA et al. TCF-1 limits the formation of Tc17 cells via repression of the MAF-RORγt axis. J Exp Med 2019 Jul 1;216(7):1682-1699. PMID: 31142588
  • Merve A, Zhang X, Pomella N, Acquati S et al. c-MYC overexpression induces choroid plexus papillomas through a T-cell mediated inflammatory mechanism. Acta Neuropathol Commun 2019 May 29;7(1):95. PMID: 31142360
  • Han L, Cui W, Suo F, Miao S et al. Development of a novel strategy for robust synthetic bacterial promoters based on a stepwise evolution targeting the spacer region of the core promoter in Bacillus subtilis. Microb Cell Fact 2019 May 29;18(1):96. PMID: 31142347
  • Spella M, Lilis I, Pepe MA, Chen Y et al. Club cells form lung adenocarcinomas and maintain the alveoli of adult mice. Elife 2019 May 29;8. PMID: 31140976
  • Li Z, Ho IHT, Li X, Xu D et al. Long non-coding RNAs in the spinal cord injury: Novel spotlight. J Cell Mol Med 2019 Aug;23(8):4883-4890. PMID: 31140726
  • Li Z, Zhong L, Du Z, Chen G et al. Network Analyses of Differentially Expressed Genes in Osteoarthritis to Identify Hub Genes. Biomed Res Int 2019;2019:8340573. PMID: 31139654
  • Poon CC, Gordon PMK, Liu K, Yang R et al. Differential microglia and macrophage profiles in human IDH-mutant and -wild type glioblastoma. Oncotarget 2019 May 3;10(33):3129-3143. PMID: 31139325
  • Pachynski RK, Wang P, Salazar N, Zheng Y et al. Chemerin Suppresses Breast Cancer Growth by Recruiting Immune Effector Cells Into the Tumor Microenvironment. Front Immunol 2019;10:983. PMID: 31139180
  • Liu GM, Zeng HD, Zhang CY, Xu JW et al. Identification of a six-gene signature predicting overall survival for hepatocellular carcinoma. Cancer Cell Int 2019;19:138. PMID: 31139015
  • Liu J, Zhou S, Li S, Jiang Y et al. Eleven genes associated with progression and prognosis of endometrial cancer (EC) identified by comprehensive bioinformatics analysis. Cancer Cell Int 2019;19:136. PMID: 31139013
  • Figeac N, Mohamed AD, Sun C, Schönfelder M et al. VGLL3 operates via TEAD1, TEAD3 and TEAD4 to influence myogenesis in skeletal muscle. J Cell Sci 2019 Jul 5;132(13). PMID: 31138678
  • Wang S, Liu F, Wang Y, Fan W et al. Integrated analysis of 34 microarray datasets reveals CBX3 as a diagnostic and prognostic biomarker in glioblastoma. J Transl Med 2019 May 28;17(1):179. PMID: 31138312
  • Hu J, Sun F, Chen W, Zhang J et al. BTF3 sustains cancer stem-like phenotype of prostate cancer via stabilization of BMI1. J Exp Clin Cancer Res 2019 May 28;38(1):227. PMID: 31138311
  • Wu Q, Li J, Li Z, Sun S et al. Exosomes from the tumour-adipocyte interplay stimulate beige/brown differentiation and reprogram metabolism in stromal adipocytes to promote tumour progression. J Exp Clin Cancer Res 2019 May 28;38(1):223. PMID: 31138258
  • Zhao Y, Zhao L, Mao T, Zhong L et al. Assessment of risk based on variant pathways and establishment of an artificial neural network model of thyroid cancer. BMC Med Genet 2019 May 28;20(1):92. PMID: 31138213
  • Alam I, Cui DL, Batool K, Yang YQ et al. Comprehensive Genomic Survey, Characterization and Expression Analysis of the HECT Gene Family in Brassica rapa L. and Brassica oleracea L. Genes (Basel) 2019 May 27;10(5). PMID: 31137879
  • Kulski JKLong Noncoding RNA HCP5, a Hybrid HLA Class I Endogenous Retroviral Gene: Structure, Expression, and Disease Associations. Cells 2019 May 20;8(5). PMID: 31137555
  • Wang M, Xue Y, Shen L, Qin P et al. Inhibition of SGK1 confers vulnerability to redox dysregulation in cervical cancer. Redox Biol 2019 Jun;24:101225. PMID: 31136958
  • Guo HZ, Niu LT, Qiang WT, Chen J et al. Leukemic IL-17RB signaling regulates leukemic survival and chemoresistance. FASEB J 2019 Aug;33(8):9565-9576. PMID: 31136196
  • Zhang X, Zhang W, Jiang Y, Liu K et al. Identification of functional lncRNAs in gastric cancer by integrative analysis of GEO and TCGA data. J Cell Biochem 2019 Oct;120(10):17898-17911. PMID: 31135068
  • Zheng J, Wang F, Yang Y, Xu J et al. Inverse correlation between Naa10p and Pirh2 expression and the combined prognostic value in oral squamous cell carcinoma patients. J Oral Pathol Med 2019 Sep;48(8):686-695. PMID: 31134698
  • Kim HS, Kim KM, Lee SB, Kim GR et al. Clinicopathological and biomolecular characteristics of stage IIB/IIC and stage IIIA colon cancer: Insight into the survival paradox. J Surg Oncol 2019 Sep;120(3):423-430. PMID: 31134644
  • Min MK, Choi EH, Kim JA, Yoon IS et al. Two Clade A Phosphatase 2Cs Expressed in Guard Cells Physically Interact With Abscisic Acid Signaling Components to Induce Stomatal Closure in Rice. Rice (N Y) 2019 May 27;12(1):37. PMID: 31134357
  • Maynard RD, Ackert-Bicknell CL et al. Mouse Models and Online Resources for Functional Analysis of Osteoporosis Genome-Wide Association Studies. Front Endocrinol (Lausanne) 2019;10:277. PMID: 31133984
  • Wu Y, Bi R, Zeng C, Ma C et al. Identification of the primate-specific gene BTN3A2 as an additional schizophrenia risk gene in the MHC loci. EBioMedicine 2019 Jun;44:530-541. PMID: 31133542
  • He SY, Xi WJ, Wang X, Xu CH et al. Identification of a Combined RNA Prognostic Signature in Adenocarcinoma of the Lung. Med Sci Monit 2019 May 27;25:3941-3956. PMID: 31132294
  • Yin W, Tang G, Zhou Q, Cao Y et al. Expression Profile Analysis Identifies a Novel Five-Gene Signature to Improve Prognosis Prediction of Glioblastoma. Front Genet 2019;10:419. PMID: 31130992
  • Tiong SYX, Oka Y, Sasaki T, Taniguchi M et al. Kcnab1 Is Expressed in Subplate Neurons With Unilateral Long-Range Inter-Areal Projections. Front Neuroanat 2019;13:39. PMID: 31130851
  • Ewans LJ, Colley A, Gaston-Massuet C, Gualtieri A et al. Pathogenic variants in PLOD3 result in a Stickler syndrome-like connective tissue disorder with vascular complications. J Med Genet 2019 Sep;56(9):629-638. PMID: 31129566
  • Ma Q, Xu Y, Liao H, Cai Y et al. Identification and validation of key genes associated with non-small-cell lung cancer. J Cell Physiol 2019 Dec;234(12):22742-22752. PMID: 31127628
  • Wang F, Ren D, Liang X, Ke S et al. A long noncoding RNA cluster-based genomic locus maintains proper development and visual function. Nucleic Acids Res 2019 Jul 9;47(12):6315-6329. PMID: 31127312
  • Zhang Y, Jang Y, Lee JE, Ahn J et al. Selective binding of the PHD6 finger of MLL4 to histone H4K16ac links MLL4 and MOF. Nat Commun 2019 May 24;10(1):2314. PMID: 31127101
  • Finotello F, Mayer C, Plattner C, Laschober G et al. Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data. Genome Med 2019 May 24;11(1):34. PMID: 31126321
  • Alexander JM, Guan J, Li B, Maliskova L et al. Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity. Elife 2019 May 24;8. PMID: 31124784
  • Tang J, Cui Q, Zhang D, Liao X et al. An estrogen receptor (ER)-related signature in predicting prognosis of ER-positive breast cancer following endocrine treatment. J Cell Mol Med 2019 Aug;23(8):4980-4990. PMID: 31124293
  • Litman TPersonalized medicine-concepts, technologies, and applications in inflammatory skin diseases. APMIS 2019 May;127(5):386-424. PMID: 31124204
  • Bin Lim S, Chua MLK, Yeong JPS, Tan SJ et al. Pan-cancer analysis connects tumor matrisome to immune response. NPJ Precis Oncol 2019;3:15. PMID: 31123708
  • Bysani M, Agren R, Davegårdh C, Volkov P et al. ATAC-seq reveals alterations in open chromatin in pancreatic islets from subjects with type 2 diabetes. Sci Rep 2019 May 23;9(1):7785. PMID: 31123324
  • Rahman MR, Islam T, Shahjaman M, Zaman T et al. Discovering Biomarkers and Pathways Shared by Alzheimer's Disease and Ischemic Stroke to Identify Novel Therapeutic Targets. Medicina (Kaunas) 2019 May 22;55(5). PMID: 31121943
  • Mitra S, Saha S et al. A multiobjective multi-view cluster ensemble technique: Application in patient subclassification. PLoS One 2019;14(5):e0216904. PMID: 31120942
  • Peters A, Krumbholz P, Jäger E, Heintz-Buschart A et al. Metabolites of lactic acid bacteria present in fermented foods are highly potent agonists of human hydroxycarboxylic acid receptor 3. PLoS Genet 2019 May;15(5):e1008145. PMID: 31120900
  • Sharma AK, Sormanni P, Ahmed N, Ciryam P et al. A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data. PLoS Comput Biol 2019 May;15(5):e1007070. PMID: 31120880
  • Yu H, Meng W, Mao Y, Zhang Y et al. Deciphering the rules of mRNA structure differentiation in Saccharomyces cerevisiae in vivo and in vitro with deep neural networks. RNA Biol 2019 Aug;16(8):1044-1054. PMID: 31119975
  • Sergeeva O, Zhang Y, Kenyon JD, Miller-Atkins GA et al. PET imaging of hepatocellular carcinoma with anti-1-amino-3-[(18)F]fluorocyclobutanecarboxylic acid in comparison with L-[S-methyl-(11)C]methionine. EJNMMI Res 2019 May 22;9(1):47. PMID: 31119488
  • Zhou Y, Yang L, Zhang X, Chen R et al. Identification of Potential Biomarkers in Glioblastoma through Bioinformatic Analysis and Evaluating Their Prognostic Value. Biomed Res Int 2019;2019:6581576. PMID: 31119182
  • Zhao X, Xu M, Cai Z, Yuan W et al. Identification of LIFR, PIK3R1, and MMP12 as Novel Prognostic Signatures in Gallbladder Cancer Using Network-Based Module Analysis. Front Oncol 2019;9:325. PMID: 31119098
  • Li XX, Zhou JD, Wen XM, Zhang TJ et al. Increased MCL-1 expression predicts poor prognosis and disease recurrence in acute myeloid leukemia. Onco Targets Ther 2019;12:3295-3304. PMID: 31118680
  • Xie L, Song X, Lin H, Chen Z et al. Aberrant activation of CYR61 enhancers in colorectal cancer development. J Exp Clin Cancer Res 2019 May 22;38(1):213. PMID: 31118064
  • Ben Zouari Y, Molitor AM, Sikorska N, Pancaldi V et al. ChiCMaxima: a robust and simple pipeline for detection and visualization of chromatin looping in Capture Hi-C. Genome Biol 2019 May 22;20(1):102. PMID: 31118054
  • Swindell WR, Kruse CPS, List EO, Berryman DE et al. ALS blood expression profiling identifies new biomarkers, patient subgroups, and evidence for neutrophilia and hypoxia. J Transl Med 2019 May 22;17(1):170. PMID: 31118040
  • Yuan D, Tao Y, Chen G, Shi T et al. Systematic expression analysis of ligand-receptor pairs reveals important cell-to-cell interactions inside glioma. Cell Commun Signal 2019 May 22;17(1):48. PMID: 31118022
  • Kupari J, Häring M, Agirre E, Castelo-Branco G et al. An Atlas of Vagal Sensory Neurons and Their Molecular Specialization. Cell Rep 2019 May 21;27(8):2508-2523.e4. PMID: 31116992
  • Fernandez-Perez A, Sathe AA, Bhakta M, Leggett K et al. Hand2 Selectively Reorganizes Chromatin Accessibility to Induce Pacemaker-like Transcriptional Reprogramming. Cell Rep 2019 May 21;27(8):2354-2369.e7. PMID: 31116981
  • Omony J, de Jong A, Kok J, van Hijum SAFT et al. Reconstruction and inference of the Lactococcus lactis MG1363 gene co-expression network. PLoS One 2019;14(5):e0214868. PMID: 31116749
  • Liu H, Zhao P, Jin X, Zhao Y et al. A 9‑lncRNA risk score system for predicting the prognosis of patients with hepatitis B virus‑positive hepatocellular carcinoma. Mol Med Rep 2019 Jul;20(1):573-583. PMID: 31115573
  • Kim J, Bae DH, Kim JH, Song KS et al. HOXC10 overexpression promotes cell proliferation and migration in gastric cancer. Oncol Rep 2019 Jul;42(1):202-212. PMID: 31115563
  • Zhang YJ, Sun YZ, Gao XH, Qi RQ et al. Integrated bioinformatic analysis of differentially expressed genes and signaling pathways in plaque psoriasis. Mol Med Rep 2019 Jul;20(1):225-235. PMID: 31115544
  • Feng J, Xu J et al. Identification of pathogenic genes and transcription factors in glaucoma. Mol Med Rep 2019 Jul;20(1):216-224. PMID: 31115504
  • Ung CY, Ghanat Bari M, Zhang C, Liang J et al. Regulostat Inferelator: a novel network biology platform to uncover molecular devices that predetermine cellular response phenotypes. Nucleic Acids Res 2019 Aug 22;47(14):e82. PMID: 31114928
  • Lu J, Cao X, Zhong S et al. EpiAlignment: alignment with both DNA sequence and epigenomic data. Nucleic Acids Res 2019 Jul 2;47(W1):W11-W19. PMID: 31114924
  • Puig Lombardi E, Holmes A, Verga D, Teulade-Fichou MP et al. Thermodynamically stable and genetically unstable G-quadruplexes are depleted in genomes across species. Nucleic Acids Res 2019 Jul 9;47(12):6098-6113. PMID: 31114920
  • Choudhary Spysradb: A Python package to query next-generation sequencing metadata and data from NCBI Sequence Read Archive. F1000Res 2019;8:532. PMID: 31114675
  • Lin TCThe role of visfatin in cancer proliferation, angiogenesis, metastasis, drug resistance and clinical prognosis. Cancer Manag Res 2019;11:3481-3491. PMID: 31114381
  • Chen D, Lu T, Tan J, Zhao K et al. Identification of a transcription factor-microRNA network in esophageal adenocarcinoma through bioinformatics analysis and validation through qRT-PCR. Cancer Manag Res 2019;11:3315-3326. PMID: 31114367
  • Sun H, Liu K, Huang J, Sun Q et al. FAM111B, a direct target of p53, promotes the malignant process of lung adenocarcinoma. Onco Targets Ther 2019;12:2829-2842. PMID: 31114230
  • Lu L, Chen Z, Lin X, Tian L et al. Inhibition of BRD4 suppresses the malignancy of breast cancer cells via regulation of Snail. Cell Death Differ 2020 Jan;27(1):255-268. PMID: 31114028
  • Ragulan C, Eason K, Fontana E, Nyamundanda G et al. Analytical Validation of Multiplex Biomarker Assay to Stratify Colorectal Cancer into Molecular Subtypes. Sci Rep 2019 May 21;9(1):7665. PMID: 31113981
  • Zannas AS, Jia M, Hafner K, Baumert J et al. Epigenetic upregulation of FKBP5 by aging and stress contributes to NF-κB-driven inflammation and cardiovascular risk. Proc Natl Acad Sci U S A 2019 Jun 4;116(23):11370-11379. PMID: 31113877
  • Serra L, Macchietto M, Macias-Muñoz A, McGill CJ et al. Hybrid Assembly of the Genome of the Entomopathogenic Nematode Steinernema carpocapsae Identifies the X-Chromosome. G3 (Bethesda) 2019 Aug 8;9(8):2687-2697. PMID: 31113823
  • Jiang L, Liu JY, Shi Y, Tang B et al. MTMR2 promotes invasion and metastasis of gastric cancer via inactivating IFNγ/STAT1 signaling. J Exp Clin Cancer Res 2019 May 21;38(1):206. PMID: 31113461
  • Donohue TJShedding light on a Group IV (ECF11) alternative σ factor. Mol Microbiol 2019 Aug;112(2):374-384. PMID: 31111523
  • Mahi NA, Najafabadi MF, Pilarczyk M, Kouril M et al. GREIN: An Interactive Web Platform for Re-analyzing GEO RNA-seq Data. Sci Rep 2019 May 20;9(1):7580. PMID: 31110304
  • Duan B, Zhou C, Zhu C, Yu Y et al. Model-based understanding of single-cell CRISPR screening. Nat Commun 2019 May 20;10(1):2233. PMID: 31110232
  • Shen WC, Lai YC, Li LH, Liao K et al. Methylation and PTEN activation in dental pulp mesenchymal stem cells promotes osteogenesis and reduces oncogenesis. Nat Commun 2019 May 20;10(1):2226. PMID: 31110221
  • Ding LW, Sun QY, Edwards JJ, Fernández LT et al. LNK suppresses interferon signaling in melanoma. Nat Commun 2019 May 20;10(1):2230. PMID: 31110180
  • Rubio K, Singh I, Dobersch S, Sarvari P et al. Inactivation of nuclear histone deacetylases by EP300 disrupts the MiCEE complex in idiopathic pulmonary fibrosis. Nat Commun 2019 May 20;10(1):2229. PMID: 31110176
  • Wang Y, Gao J, Wang H, Wang M et al. R-spondin2 promotes hematopoietic differentiation of human pluripotent stem cells by activating TGF beta signaling. Stem Cell Res Ther 2019 May 20;10(1):136. PMID: 31109354
  • Liu P, Lin CW, Park Y, Tseng G et al. MethylSeqDesign: a framework for Methyl-Seq genome-wide power calculation and study design issues. Biostatistics 2021 Jan 28;22(1):35-50. PMID: 31107532
  • Rohraff DM, He Y, Farkash EA, Schonfeld M et al. Inhibition of EZH2 Ameliorates Lupus-Like Disease in MRL/lpr Mice. Arthritis Rheumatol 2019 Oct;71(10):1681-1690. PMID: 31106974
  • Yuan W, Zhou J, Tong J, Zhuo W et al. ALBA protein complex reads genic R-loops to maintain genome stability in Arabidopsis. Sci Adv 2019 May;5(5):eaav9040. PMID: 31106272
  • Chen T, Du D, Chen J, Zhou P et al. ZC3H12A Expression in Different Stages of Colorectal Cancer. Oncoscience 2019 Mar;6(3-4):301-311. PMID: 31106233
  • Tang J, Lu M, Cui Q, Zhang D et al. Overexpression of ASPM, CDC20, and TTK Confer a Poorer Prognosis in Breast Cancer Identified by Gene Co-expression Network Analysis. Front Oncol 2019;9:310. PMID: 31106147
  • Zhong H, Kim S, Zhi D, Cui X et al. Predicting gene expression using DNA methylation in three human populations. PeerJ 2019;7:e6757. PMID: 31106051
  • Liu Y, Xie D, He Z, Zheng L et al. Integrated analysis reveals five potential ceRNA biomarkers in human lung adenocarcinoma. PeerJ 2019;7:e6694. PMID: 31106044
  • Zhang W, Du M, Wang T, Chen W et al. Long non-coding RNA LINC01133 mediates nasopharyngeal carcinoma tumorigenesis by binding to YBX1. Am J Cancer Res 2019;9(4):779-790. PMID: 31106003
  • Meade KJ, Sanchez F, Aguayo A, Nadales N et al. Secretomes from metastatic breast cancer cells, enriched for a prognostically unfavorable LCN2 axis, induce anti-inflammatory MSC actions and a tumor-supportive premetastatic lung. Oncotarget 2019 Apr 30;10(32):3027-3039. PMID: 31105883
  • Liu L, Lin J, He H et al. Identification of Potential Crucial Genes Associated With the Pathogenesis and Prognosis of Endometrial Cancer. Front Genet 2019;10:373. PMID: 31105744
  • Chen X, Jin Y, Feng Y et al. Evaluation of Plasma Extracellular Vesicle MicroRNA Signatures for Lung Adenocarcinoma and Granuloma With Monte-Carlo Feature Selection Method. Front Genet 2019;10:367. PMID: 31105742
  • Thiébaut R, Hejblum BP, Hocini H, Bonnabau H et al. Gene Expression Signatures Associated With Immune and Virological Responses to Therapeutic Vaccination With Dendritic Cells in HIV-Infected Individuals. Front Immunol 2019;10:874. PMID: 31105698
  • Gong H, Liu F, Liu X, Min S et al. APPBP2 enhances non-small cell lung cancer proliferation and invasiveness through regulating PPM1D and SPOP. EBioMedicine 2019 Jun;44:138-149. PMID: 31105033
  • He M, Wang J, Yin Z, Zhao Y et al. MiR-320a induces diabetic nephropathy via inhibiting MafB. Aging (Albany NY) 2019 May 17;11(10):3055-3079. PMID: 31102503
  • Zaitsev K, Bambouskova M, Swain A, Artyomov MN et al. Complete deconvolution of cellular mixtures based on linearity of transcriptional signatures. Nat Commun 2019 May 17;10(1):2209. PMID: 31101809
  • Riolobos L, Gad EA, Treuting PM, Timms AE et al. The Effect of Mouse Strain, Sex, and Carcinogen Dose on Toxicity and the Development of Lung Dysplasia and Squamous Cell Carcinomas in Mice. Cancer Prev Res (Phila) 2019 Aug;12(8):507-516. PMID: 31101634
  • Kim N, Chung W, Eum HH, Lee HO et al. Alternative polyadenylation of single cells delineates cell types and serves as a prognostic marker in early stage breast cancer. PLoS One 2019;14(5):e0217196. PMID: 31100099
  • Ndreshkjana B, Çapci A, Klein V, Chanvorachote P et al. Combination of 5-fluorouracil and thymoquinone targets stem cell gene signature in colorectal cancer cells. Cell Death Dis 2019 May 16;10(6):379. PMID: 31097715
  • Caraffini V, Geiger O, Rosenberger A, Hatzl S et al. Loss of RAF kinase inhibitor protein is involved in myelomonocytic differentiation and aggravates RAS-driven myeloid leukemogenesis. Haematologica 2020;105(2):375-386. PMID: 31097632
  • Sun X, Liu X, Xia M, Shao Y et al. Multicellular gene network analysis identifies a macrophage-related gene signature predictive of therapeutic response and prognosis of gliomas. J Transl Med 2019 May 16;17(1):159. PMID: 31097021
  • Kolte A, König R et al. Temporal progression of gene regulation of peripheral white blood cells explains gender dimorphism of critically ill patients after trauma. Mol Med 2019 May 16;25(1):19. PMID: 31096912
  • Lee M, Han SW, Seok J et al. Prediction of survival risks with adjusted gene expression through risk-gene networks. Bioinformatics 2019 Dec 1;35(23):4898-4906. PMID: 31095279
  • Zhang X, Zhang H, Liu Z, Guan R et al. Inferring immune-associated signatures based on a co-expression network in Guillain-Barré syndrome. Cell Prolif 2019 Jul;52(4):e12634. PMID: 31094043
  • Chen H, Li Y, Li T, Sun H et al. Identification of Potential Transcriptional Biomarkers Differently Expressed in Both S. aureus- and E. coli-Induced Sepsis via Integrated Analysis. Biomed Res Int 2019;2019:2487921. PMID: 31093495
  • Cao Y, Zhu W, Chen W, Wu J et al. Prognostic Value of BIRC5 in Lung Adenocarcinoma Lacking EGFR, KRAS, and ALK Mutations by Integrated Bioinformatics Analysis. Dis Markers 2019;2019:5451290. PMID: 31093306
  • Wuensch T, Wizenty J, Quint J, Spitz W et al. Expression Analysis of Fibronectin Type III Domain-Containing (FNDC) Genes in Inflammatory Bowel Disease and Colorectal Cancer. Gastroenterol Res Pract 2019;2019:3784172. PMID: 31093274
  • Liu K, Newbury PA, Glicksberg BS, Zeng WZD et al. Evaluating cell lines as models for metastatic breast cancer through integrative analysis of genomic data. Nat Commun 2019 May 15;10(1):2138. PMID: 31092827
  • Keenan CR, Iannarella N, Garnham AL, Brown AC et al. Polycomb repressive complex 2 is a critical mediator of allergic inflammation. JCI Insight 2019 May 16;4(10). PMID: 31092733
  • Zou Z, Yang J et al. Genome-wide comparison reveals divergence of cassava and rubber aquaporin family genes after the recent whole-genome duplication. BMC Genomics 2019 May 15;20(1):380. PMID: 31092186
  • Tapparo M, Bruno S, Collino F, Togliatto G et al. Renal Regenerative Potential of Extracellular Vesicles Derived from miRNA-Engineered Mesenchymal Stromal Cells. Int J Mol Sci 2019 May 14;20(10). PMID: 31091699
  • Shulse CN, Cole BJ, Ciobanu D, Lin J et al. High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types. Cell Rep 2019 May 14;27(7):2241-2247.e4. PMID: 31091459
  • Evans R, Flores-Borja F, Nassiri S, Miranda E et al. Integrin-Mediated Macrophage Adhesion Promotes Lymphovascular Dissemination in Breast Cancer. Cell Rep 2019 May 14;27(7):1967-1978.e4. PMID: 31091437
  • Dabydeen SA, Desai A, Sahoo D et al. Unbiased Boolean analysis of public gene expression data for cell cycle gene identification. Mol Biol Cell 2019 Jul 1;30(14):1770-1779. PMID: 31091168
  • Xu W, Li J, Li J, Yang JJ et al. An Investigation about Gene Modules Associated with hDPSC Differentiation for Adolescents. Stem Cells Int 2019;2019:8913287. PMID: 31089336
  • Cao T, Jiang Y, Wang Z, Zhang N et al. H19 lncRNA identified as a master regulator of genes that drive uterine leiomyomas. Oncogene 2019 Jul;38(27):5356-5366. PMID: 31089260
  • Memon D, Bi J, Miller CJ et al. In silico prediction of housekeeping long intergenic non-coding RNAs reveals HKlincR1 as an essential player in lung cancer cell survival. Sci Rep 2019 May 14;9(1):7372. PMID: 31089191
  • Tarkhov AE, Alla R, Ayyadevara S, Pyatnitskiy M et al. A universal transcriptomic signature of age reveals the temporal scaling of Caenorhabditis elegans aging trajectories. Sci Rep 2019 May 14;9(1):7368. PMID: 31089188
  • Lee MY, Kim TK, Walters KA, Wang K et al. A biological function based biomarker panel optimization process. Sci Rep 2019 May 14;9(1):7365. PMID: 31089177
  • Liu J, Wang T, Creighton CJ, Wu SP et al. JNK(1/2) represses Lkb(1)-deficiency-induced lung squamous cell carcinoma progression. Nat Commun 2019 May 14;10(1):2148. PMID: 31089135
  • Holzer K, Ori A, Cooke A, Dauch D et al. Nucleoporin Nup155 is part of the p53 network in liver cancer. Nat Commun 2019 May 14;10(1):2147. PMID: 31089132
  • Qu YM, Sun X, Yan XL, Jin H et al. Identification of microRNAs and messenger RNAs involved in human umbilical cord mesenchymal stem cell treatment of ischemic cerebral infarction using integrated bioinformatics analysis. Neural Regen Res 2019 Sep;14(9):1610-1616. PMID: 31089061
  • Zhong M, Wu Y, Ou W, Huang L et al. Identification of key genes involved in type 2 diabetic islet dysfunction: a bioinformatics study. Biosci Rep 2019 May 31;39(5). PMID: 31088900
  • Yin AA, He YL, Etcheverry A, Liu YH et al. Novel predictive epigenetic signature for temozolomide in non-G-CIMP glioblastomas. Clin Epigenetics 2019 May 14;11(1):76. PMID: 31088577
  • Chen Z, Wu G, Ye F, Chen G et al. High expression of MMP19 is associated with poor prognosis in patients with colorectal cancer. BMC Cancer 2019 May 14;19(1):448. PMID: 31088409
  • Guan L, Luo Q, Liang N, Liu H et al. A prognostic prediction system for hepatocellular carcinoma based on gene co-expression network. Exp Ther Med 2019 Jun;17(6):4506-4516. PMID: 31086582
  • Chang CH, Chavan A, Palladino J, Wei X et al. Islands of retroelements are major components of Drosophila centromeres. PLoS Biol 2019 May;17(5):e3000241. PMID: 31086362
  • Segovia M, Russo S, Jeldres M, Mahmoud YD et al. Targeting TMEM176B Enhances Antitumor Immunity and Augments the Efficacy of Immune Checkpoint Blockers by Unleashing Inflammasome Activation. Cancer Cell 2019 May 13;35(5):767-781.e6. PMID: 31085177
  • Wang Q, Lepus CM, Raghu H, Reber LL et al. IgE-mediated mast cell activation promotes inflammation and cartilage destruction in osteoarthritis. Elife 2019 May 14;8. PMID: 31084709
  • Holding AN, Giorgi FM, Donnelly A, Cullen AE et al. VULCAN integrates ChIP-seq with patient-derived co-expression networks to identify GRHL2 as a key co-regulator of ERa at enhancers in breast cancer. Genome Biol 2019 May 13;20(1):91. PMID: 31084623
  • Schulten HJ, Hussein D et al. Array expression meta-analysis of cancer stem cell genes identifies upregulation of PODXL especially in DCC low expression meningiomas. PLoS One 2019;14(5):e0215452. PMID: 31083655
  • Chen J, Qian X, He Y, Han X et al. Novel key genes in triple-negative breast cancer identified by weighted gene co-expression network analysis. J Cell Biochem 2019 Oct;120(10):16900-16912. PMID: 31081967
  • Yu H, Dilbaz S, Coßmann J, Hoang AC et al. Breast milk alkylglycerols sustain beige adipocytes through adipose tissue macrophages. J Clin Invest 2019 May 13;129(6):2485-2499. PMID: 31081799
  • Han X, Li X, Zhao H, Zhou D et al. Serum miR-515-3p, a potential new RNA biomarker, is involved in gastric carcinoma. J Cell Biochem 2019 Sep;120(9):15834-15843. PMID: 31081157
  • Elsesser O, Fröb F, Küspert M, Tamm ER et al. Chromatin remodeler Ep400 ensures oligodendrocyte survival and is required for myelination in the vertebrate central nervous system. Nucleic Acids Res 2019 Jul 9;47(12):6208-6224. PMID: 31081019
  • Zhao AD, Huang YJ, Zhang HF, Tang W et al. [Study on DNA methylation profiles in non-syndromic cleft lip/palate based on bioinformatics]. Shanghai Kou Qiang Yi Xue 2019 Feb;28(1):57-62. PMID: 31081001
  • Smith EN, D'Antonio-Chronowska A, Greenwald WW, Borja V et al. Human iPSC-Derived Retinal Pigment Epithelium: A Model System for Prioritizing and Functionally Characterizing Causal Variants at AMD Risk Loci. Stem Cell Reports 2019 Jun 11;12(6):1342-1353. PMID: 31080113
  • Porter EG, Dhiman A, Chowdhury B, Carter BC et al. PBRM1 Regulates Stress Response in Epithelial Cells. iScience 2019 May 31;15:196-210. PMID: 31077944
  • Wang J, Ye W, Yan X, Guo Q et al. Low expression of ACLY associates with favorable prognosis in acute myeloid leukemia. J Transl Med 2019 May 10;17(1):149. PMID: 31077215
  • Liu F, Wu Y, Mi Y, Gu L et al. Identification of core genes and potential molecular mechanisms in breast cancer using bioinformatics analysis. Pathol Res Pract 2019 Jul;215(7):152436. PMID: 31076281
  • Smolander J, Dehmer M, Emmert-Streib F et al. Comparing deep belief networks with support vector machines for classifying gene expression data from complex disorders. FEBS Open Bio 2019 Jul;9(7):1232-1248. PMID: 31074948
  • Procko C, Morrison S, Dunar C, Mills S et al. Big Data to the Bench: Transcriptome Analysis for Undergraduates. CBE Life Sci Educ 2019 Jun;18(2):ar19. PMID: 31074696
  • Chen S, Hua K, Cui H, Jiang R et al. VPAC: Variational projection for accurate clustering of single-cell transcriptomic data. BMC Bioinformatics 2019 May 1;20(Suppl 7):0. PMID: 31074382
  • Lu H, Wang C, Xue L, Zhang Q et al. Human Mitotic Centromere-Associated Kinesin Is Targeted by MicroRNA 485-5p/181c and Prognosticates Poor Survivability of Breast Cancer. J Oncol 2019;2019:2316237. PMID: 31073307
  • Choi S, Wang D, Chen X, Tang LH et al. Function and clinical relevance of RHAMM isoforms in pancreatic tumor progression. Mol Cancer 2019 May 9;18(1):92. PMID: 31072393
  • Patel R, Brophy C, Hickling M, Neve J et al. Alternative cleavage and polyadenylation of genes associated with protein turnover and mitochondrial function are deregulated in Parkinson's, Alzheimer's and ALS disease. BMC Med Genomics 2019 May 9;12(1):60. PMID: 31072331
  • Park YJ, Kim JY, Lee DY, Zhang X et al. PKM2 enhances cancer invasion via ETS-1-dependent induction of matrix metalloproteinase in oral squamous cell carcinoma cells. PLoS One 2019;14(5):e0216661. PMID: 31071178
  • Nandakumar SK, McFarland SK, Mateyka LM, Lareau CA et al. Gene-centric functional dissection of human genetic variation uncovers regulators of hematopoiesis. Elife 2019 May 9;8. PMID: 31070582
  • Li F, Wang NN, Chang X, Wang SL et al. Bioinformatics analysis suggests that COL4A1 may play an important role in gastric carcinoma recurrence. J Dig Dis 2019 Aug;20(8):391-400. PMID: 31069993
  • Phillips EH, Lorch AH, Durkes AC, Goergen CJ et al. Early pathological characterization of murine dissecting abdominal aortic aneurysms. APL Bioeng 2018 Dec;2(4):046106. PMID: 31069328
  • Jolly MK, Preca BT, Tripathi SC, Jia D et al. Interconnected feedback loops among ESRP1, HAS2, and CD44 regulate epithelial-mesenchymal plasticity in cancer. APL Bioeng 2018 Sep;2(3):031908. PMID: 31069317
  • Nakamura M, Bax HJ, Scotto D, Souri EA et al. Immune mediator expression signatures are associated with improved outcome in ovarian carcinoma. Oncoimmunology 2019;8(6):e1593811. PMID: 31069161
  • Bunch H, Choe H, Kim J, Jo DS et al. P-TEFb Regulates Transcriptional Activation in Non-coding RNA Genes. Front Genet 2019;10:342. PMID: 31068966
  • Zeng Q, Mallilankaraman K, Schwarz H et al. Increased Akt-Driven Glycolysis Is the Basis for the Higher Potency of CD137L-DCs. Front Immunol 2019;10:868. PMID: 31068941
  • Brooks LRK, Mias GI et al. Data-Driven Analysis of Age, Sex, and Tissue Effects on Gene Expression Variability in Alzheimer's Disease. Front Neurosci 2019;13:392. PMID: 31068785
  • Gonthier K, Poluri RTK, Weidmann C, Tadros M et al. Reprogramming of Isocitrate Dehydrogenases Expression and Activity by the Androgen Receptor in Prostate Cancer. Mol Cancer Res 2019 Aug;17(8):1699-1709. PMID: 31068457
  • Zhu Q, Ramakrishnan M, Park J, Belden WJ et al. Histone H3 lysine 4 methyltransferase is required for facultative heterochromatin at specific loci. BMC Genomics 2019 May 8;20(1):350. PMID: 31068130
  • Banerji CRS, Zammit PS et al. PAX7 target gene repression is a superior FSHD biomarker than DUX4 target gene activation, associating with pathological severity and identifying FSHD at the single-cell level. Hum Mol Genet 2019 Jul 1;28(13):2224-2236. PMID: 31067297
  • Li JY, Liu YF, Xu HY, Zhang JY et al. Basonuclin 1 deficiency causes testicular premature aging: BNC1 cooperates with TAF7L to regulate spermatogenesis. J Mol Cell Biol 2020 Jan 22;12(1):71-83. PMID: 31065688
  • Kanayama K, Chiba T, Oshima M, Kanzaki H et al. Genome-Wide Mapping of Bivalent Histone Modifications in Hepatic Stem/Progenitor Cells. Stem Cells Int 2019;2019:9789240. PMID: 31065285
  • Gordon-Weeks A, Lim SY, Yuzhalin A, Lucotti S et al. Tumour-Derived Laminin α5 (LAMA5) Promotes Colorectal Liver Metastasis Growth, Branching Angiogenesis and Notch Pathway Inhibition. Cancers (Basel) 2019 May 6;11(5). PMID: 31064120
  • Liu L, Zuo L, Yang J, Xin S et al. Exosomal cyclophilin A as a novel noninvasive biomarker for Epstein-Barr virus associated nasopharyngeal carcinoma. Cancer Med 2019 Jun;8(6):3142-3151. PMID: 31063269
  • Jiang JC, Upton KR et al. Human transposons are an abundant supply of transcription factor binding sites and promoter activities in breast cancer cell lines. Mob DNA 2019;10:16. PMID: 31061680
  • Borghini L, Png E, Binder A, Wright VJ et al. Identification of regulatory variants associated with genetic susceptibility to meningococcal disease. Sci Rep 2019 May 6;9(1):6966. PMID: 31061469
  • Hijazi K, Malyszko B, Steiling K, Xiao X et al. Tobacco-Related Alterations in Airway Gene Expression are Rapidly Reversed Within Weeks Following Smoking-Cessation. Sci Rep 2019 May 6;9(1):6978. PMID: 31061400
  • Sekiya T, Takaki S et al. RGMB enhances the suppressive activity of the monomeric secreted form of CTLA-4. Sci Rep 2019 May 6;9(1):6984. PMID: 31061392
  • Kim YH, Toji N, Kizaki K, Takemura K et al. Effects of ruminal pH on gene expression in the rumen epithelium, peripheral blood mononuclear cell subpopulations, and blood metabolites from Holstein calves during weaning transition. J Vet Med Sci 2019 Jun 6;81(6):808-816. PMID: 31061249
  • Georgescu C, Corbin JM, Thibivilliers S, Webb ZD et al. A TMEFF2-regulated cell cycle derived gene signature is prognostic of recurrence risk in prostate cancer. BMC Cancer 2019 May 6;19(1):423. PMID: 31060542
  • Shah SD, Braun R et al. GeneSurrounder: network-based identification of disease genes in expression data. BMC Bioinformatics 2019 May 6;20(1):229. PMID: 31060502
  • Ekanem TI, Huang CC, Wu MH, Lin DY et al. Glycidamide Promotes the Growth and Migratory Ability of Prostate Cancer Cells by Changing the Protein Expression of Cell Cycle Regulators and Epithelial-to-Mesenchymal Transition (EMT)-Associated Proteins with Prognostic Relevance. Int J Mol Sci 2019 May 4;20(9). PMID: 31060254
  • Hecker M, Rüge A, Putscher E, Boxberger N et al. Aberrant expression of alternative splicing variants in multiple sclerosis - A systematic review. Autoimmun Rev 2019 Jul;18(7):721-732. PMID: 31059848
  • Alam I, Batool K, Cui DL, Yang YQ et al. Comprehensive genomic survey, structural classification and expression analysis of C2H2 zinc finger protein gene family in Brassica rapa L. PLoS One 2019;14(5):e0216071. PMID: 31059545
  • Coates M, Mariottoni P, Corcoran DL, Kirshner HF et al. The skin transcriptome in hidradenitis suppurativa uncovers an antimicrobial and sweat gland gene signature which has distinct overlap with wounded skin. PLoS One 2019;14(5):e0216249. PMID: 31059533
  • Sircar S, Parekh N et al. Meta-analysis of drought-tolerant genotypes in Oryza sativa: A network-based approach. PLoS One 2019;14(5):e0216068. PMID: 31059518
  • Yu J, Wu X, Huang K, Zhu M et al. Bioinformatics identification of lncRNA biomarkers associated with the progression of esophageal squamous cell carcinoma. Mol Med Rep 2019 Jun;19(6):5309-5320. PMID: 31059058
  • Li X, Li B, Jiang H et al. Identification of time‑series differentially expressed genes and pathways associated with heart failure post‑myocardial infarction using integrated bioinformatics analysis. Mol Med Rep 2019 Jun;19(6):5281-5290. PMID: 31059043
  • Fan X, Qi B, Ma L, Ma F et al. Screening of underlying genetic biomarkers for ankylosing spondylitis. Mol Med Rep 2019 Jun;19(6):5263-5274. PMID: 31059041
  • Li X, Qin M, Huang J, Ma J et al. Clinical significance of miRNA‑1 and its potential target gene network in lung squamous cell carcinoma. Mol Med Rep 2019 Jun;19(6):5063-5078. PMID: 31059033
  • Yagi M, Kabata M, Ukai T, Ohta S et al. De Novo DNA Methylation at Imprinted Loci during Reprogramming into Naive and Primed Pluripotency. Stem Cell Reports 2019 May 14;12(5):1113-1128. PMID: 31056481
  • Jia WH, Wang NQ, Yin L, Chen X et al. Effect of skeletal muscle phenotype and gender on fasting-induced myokine expression in mice. Biochem Biophys Res Commun 2019 Jun 25;514(2):407-414. PMID: 31056256
  • Wu P, Cai J, Chen Q, Han B et al. Lnc-TALC promotes O(6)-methylguanine-DNA methyltransferase expression via regulating the c-Met pathway by competitively binding with miR-20b-3p. Nat Commun 2019 May 3;10(1):2045. PMID: 31053733
  • Pai S, Li P, Killinger B, Marshall L et al. Differential methylation of enhancer at IGF2 is associated with abnormal dopamine synthesis in major psychosis. Nat Commun 2019 May 3;10(1):2046. PMID: 31053723
  • Huang S, Sun C, Hou Y, Tang Y et al. Author Correction: A comprehensive bioinformatics analysis on multiple Gene Expression Omnibus datasets of nonalcoholic fatty liver disease and nonalcoholic steatohepatitis. Sci Rep 2019 May 3;9(1):7105. PMID: 31053720
  • Ewing E, Kular L, Fernandes SJ, Karathanasis N et al. Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression. EBioMedicine 2019 May;43:411-423. PMID: 31053557
  • Yang K, Guo W, Ren T, Huang Y et al. Knockdown of HMGA2 regulates the level of autophagy via interactions between MSI2 and Beclin1 to inhibit NF1-associated malignant peripheral nerve sheath tumour growth. J Exp Clin Cancer Res 2019 May 3;38(1):185. PMID: 31053152
  • Misono S, Seki N, Mizuno K, Yamada Y et al. Molecular Pathogenesis of Gene Regulation by the miR-150 Duplex: miR-150-3p Regulates TNS4 in Lung Adenocarcinoma. Cancers (Basel) 2019 Apr 30;11(5). PMID: 31052206
  • Domsch K, Carnesecchi J, Disela V, Friedrich J et al. The Hox transcription factor Ubx stabilizes lineage commitment by suppressing cellular plasticity in Drosophila. Elife 2019 May 3;8. PMID: 31050646
  • Zhang GP, Yue X, Li SQ et al. Cathepsin C Interacts with TNF-α/p38 MAPK Signaling Pathway to Promote Proliferation and Metastasis in Hepatocellular Carcinoma. Cancer Res Treat 2020 Jan;52(1):10-23. PMID: 31048666
  • Wang F, Yan Z, Lv J, Xin J et al. Gene Expression Profiling Reveals Distinct Molecular Subtypes of Esophageal Squamous Cell Carcinoma in Asian Populations. Neoplasia 2019 Jun;21(6):571-581. PMID: 31048097
  • Zhu J, Wu G, Song L, Cao L et al. NKX2-8 deletion-induced reprogramming of fatty acid metabolism confers chemoresistance in epithelial ovarian cancer. EBioMedicine 2019 May;43:238-252. PMID: 31047858
  • Modic M, Grosch M, Rot G, Schirge S et al. Cross-Regulation between TDP-43 and Paraspeckles Promotes Pluripotency-Differentiation Transition. Mol Cell 2019 Jun 6;74(5):951-965.e13. PMID: 31047794
  • Sun H, Zhang Z, Luo W, Liu J et al. NET1 Enhances Proliferation and Chemoresistance in Acute Lymphoblastic Leukemia Cells. Oncol Res 2019 Aug 8;27(8):935-944. PMID: 31046876
  • Tu Y, Wu X, Yu F, Dang J et al. Tristetraprolin specifically regulates the expression and alternative splicing of immune response genes in HeLa cells. BMC Immunol 2019 May 2;20(1):13. PMID: 31046669
  • Wang Z, Hu J, Johnson WE, Campbell JD et al. scruff: an R/Bioconductor package for preprocessing single-cell RNA-sequencing data. BMC Bioinformatics 2019 May 2;20(1):222. PMID: 31046658
  • Catalina MD, Bachali P, Geraci NS, Grammer AC et al. Gene expression analysis delineates the potential roles of multiple interferons in systemic lupus erythematosus. Commun Biol 2019;2:140. PMID: 31044165
  • Wu B, Pan X, Chen X, Chen M et al. Epigenetic drug library screening identified an LSD1 inhibitor to target UTX-deficient cells for differentiation therapy. Signal Transduct Target Ther 2019;4:11. PMID: 31044091
  • Yan H, Zheng C, Li Z, Bao B et al. NPTX1 promotes metastasis via integrin/FAK signaling in gastric cancer. Cancer Manag Res 2019;11:3237-3251. PMID: 31043800
  • Goh TS, Ha M, Lee JS, Jeong DC et al. Prognostic significance of EIF4G1 in patients with pancreatic ductal adenocarcinoma. Onco Targets Ther 2019;12:2853-2859. PMID: 31043796
  • Liu T, Wang X, Hu W, Fang Z et al. Epigenetically Down-Regulated Acetyltransferase PCAF Increases the Resistance of Colorectal Cancer to 5-Fluorouracil. Neoplasia 2019 Jun;21(6):557-570. PMID: 31042625
  • Huang X, Wei C, Li F, Jia L et al. PCGF6 regulates stem cell pluripotency as a transcription activator via super-enhancer dependent chromatin interactions. Protein Cell 2019 Oct;10(10):709-725. PMID: 31041782
  • Serpeloni F, Radtke KM, Hecker T, Sill J et al. Does Prenatal Stress Shape Postnatal Resilience? - An Epigenome-Wide Study on Violence and Mental Health in Humans. Front Genet 2019;10:269. PMID: 31040859
  • Li SY, Chu PH, Huang PH, Hsieh TH et al. FHL2 mediates podocyte Rac1 activation and foot process effacement in hypertensive nephropathy. Sci Rep 2019 Apr 30;9(1):6693. PMID: 31040292
  • Steinauer N, Guo C, Huang C, Wong M et al. Myeloid translocation gene CBFA2T3 directs a relapse gene program and determines patient-specific outcomes in AML. Blood Adv 2019 May 14;3(9):1379-1393. PMID: 31040112
  • Johansson A, Palli D, Masala G, Grioni S et al. Epigenome-wide association study for lifetime estrogen exposure identifies an epigenetic signature associated with breast cancer risk. Clin Epigenetics 2019 Apr 30;11(1):66. PMID: 31039828
  • Loeffler-Wirth H, Kreuz M, Hopp L, Arakelyan A et al. A modular transcriptome map of mature B cell lymphomas. Genome Med 2019 Apr 30;11(1):27. PMID: 31039827
  • Afrasiabi A, Parnell GP, Fewings N, Schibeci SD et al. Evidence from genome wide association studies implicates reduced control of Epstein-Barr virus infection in multiple sclerosis susceptibility. Genome Med 2019 Apr 30;11(1):26. PMID: 31039804
  • Yu J, Hu M, Li C et al. Joint analyses of multi-tissue Hi-C and eQTL data demonstrate close spatial proximity between eQTLs and their target genes. BMC Genet 2019 Apr 30;20(1):43. PMID: 31039743
  • Pavlidis S, Monast C, Loza MJ, Branigan P et al. I_MDS: an inflammatory bowel disease molecular activity score to classify patients with differing disease-driving pathways and therapeutic response to anti-TNF treatment. PLoS Comput Biol 2019 Apr;15(4):e1006951. PMID: 31039157
  • Zhang B, Shen R, Cheng S, Feng L et al. Immune microenvironments differ in immune characteristics and outcome of glioblastoma multiforme. Cancer Med 2019 Jun;8(6):2897-2907. PMID: 31038851
  • Kui F, Ye H, Chen XL, Zhang J et al. Microarray meta-analysis identifies candidate genes for human spermatogenic arrest. Andrologia 2019 Sep;51(8):e13301. PMID: 31037746
  • Wu Y, Wang Y, Diao P, Zhang W et al. Therapeutic Targeting of BRD4 in Head Neck Squamous Cell Carcinoma. Theranostics 2019;9(6):1777-1793. PMID: 31037138
  • Ilmjärv S, Augsburger F, Bolleman JT, Liechti R et al. Navigating in vitro bioactivity data by investigating available resources using model compounds. Sci Data 2019 Apr 29;6(1):45. PMID: 31036807
  • Harwood JC, Kent NA, Allen ND, Harwood AJ et al. Nucleosome dynamics of human iPSC during neural differentiation. EMBO Rep 2019 Jun;20(6). PMID: 31036712
  • Díaz M, Pečinková P, Nowicka A, Baroux C et al. The SMC5/6 Complex Subunit NSE4A Is Involved in DNA Damage Repair and Seed Development. Plant Cell 2019 Jul;31(7):1579-1597. PMID: 31036599
  • Wang J, Xi X, Shang W, Acharya A et al. The molecular differences between human papillomavirus-positive and -negative oropharyngeal squamous cell carcinoma: A bioinformatics study. Am J Otolaryngol 2019 Jul-Aug;40(4):547-554. PMID: 31036418
  • Maekawa R, Tamura I, Shinagawa M, Mihara Y et al. Genome-wide DNA methylation analysis revealed stable DNA methylation status during decidualization in human endometrial stromal cells. BMC Genomics 2019 Apr 29;20(1):324. PMID: 31035926
  • Graw S, Henn R, Thompson JA, Koestler DC et al. pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS). BMC Bioinformatics 2019 Apr 29;20(1):218. PMID: 31035919
  • Subbannayya Y, Pinto SM, Bösl K, Prasad TSK et al. Dynamics of Dual Specificity Phosphatases and Their Interplay with Protein Kinases in Immune Signaling. Int J Mol Sci 2019 Apr 27;20(9). PMID: 31035605
  • Chen Y, Bi F, An Y, Yang Q et al. Identification of pathological grade and prognosis-associated lncRNA for ovarian cancer. J Cell Biochem 2019 Sep;120(9):14444-14454. PMID: 31034644
  • Yin X, Yang W, Xie J, Wei Z et al. HOTTIP Functions as a Key Candidate Biomarker in Head and Neck Squamous Cell Carcinoma by Integrated Bioinformatic Analysis. Biomed Res Int 2019;2019:5450617. PMID: 31032351
  • Zhao H, Yu M, Sui L, Gong B et al. High Expression of DEPDC1 Promotes Malignant Phenotypes of Breast Cancer Cells and Predicts Poor Prognosis in Patients With Breast Cancer. Front Oncol 2019;9:262. PMID: 31032225
  • Qin W, Wang X, Zhao H, Lu H et al. A Novel Joint Gene Set Analysis Framework Improves Identification of Enriched Pathways in Cross Disease Transcriptomic Analysis. Front Genet 2019;10:293. PMID: 31031796
  • Benchetrit H, Jaber M, Zayat V, Sebban S et al. Direct Induction of the Three Pre-implantation Blastocyst Cell Types from Fibroblasts. Cell Stem Cell 2019 Jun 6;24(6):983-994.e7. PMID: 31031139
  • Ma X, Bi E, Lu Y, Su P et al. Cholesterol Induces CD8(+) T Cell Exhaustion in the Tumor Microenvironment. Cell Metab 2019 Jul 2;30(1):143-156.e5. PMID: 31031094
  • Wang Z, Zöller M et al. Exosomes, metastases, and the miracle of cancer stem cell markers. Cancer Metastasis Rev 2019 Jun;38(1-2):259-295. PMID: 31030373
  • Fursova NA, Blackledge NP, Nakayama M, Ito S et al. Synergy between Variant PRC1 Complexes Defines Polycomb-Mediated Gene Repression. Mol Cell 2019 Jun 6;74(5):1020-1036.e8. PMID: 31029541
  • Bend EG, Aref-Eshghi E, Everman DB, Rogers RC et al. Gene domain-specific DNA methylation episignatures highlight distinct molecular entities of ADNP syndrome. Clin Epigenetics 2019 Apr 27;11(1):64. PMID: 31029150
  • Adhikari S, Mandal P et al. Integrated analysis of global gene and microRNA expression profiling associated with aplastic anaemia. Life Sci 2019 Jul 1;228:47-52. PMID: 31028805
  • Tian S, Zhan N, Li R, Dong W et al. Downregulation of G Protein-Coupled Estrogen Receptor (GPER) is Associated with Reduced Prognosis in Patients with Gastric Cancer. Med Sci Monit 2019 Apr 27;25:3115-3126. PMID: 31028714
  • Vu TN, Nguyen HN, Calza S, Kalari KR et al. Cell-level somatic mutation detection from single-cell RNA sequencing. Bioinformatics 2019 Nov 1;35(22):4679-4687. PMID: 31028395
  • Stagsted LV, Nielsen KM, Daugaard I, Hansen TB et al. Noncoding AUG circRNAs constitute an abundant and conserved subclass of circles. Life Sci Alliance 2019 Jun;2(3). PMID: 31028096
  • Moncho-Amor V, Pintado-Berninches L, Ibañez de Cáceres I, Martín-Villar E et al. Role of Dusp6 Phosphatase as a Tumor Suppressor in Non-Small Cell Lung Cancer. Int J Mol Sci 2019 Apr 25;20(8). PMID: 31027181
  • Sun T, Zhao Q, Zhang C, Cao L et al. Screening common signaling pathways associated with drug resistance in non-small cell lung cancer via gene expression profile analysis. Cancer Med 2019 Jun;8(6):3059-3071. PMID: 31025554
  • Yang H, Jiang P, Liu D, Wang HQ et al. Matrix Metalloproteinase 11 Is a Potential Therapeutic Target in Lung Adenocarcinoma. Mol Ther Oncolytics 2019 Sep 27;14:82-93. PMID: 31024988
  • Yue XL, Gao ZQ et al. Identification of pathogenic genes of pterygium based on the Gene Expression Omnibus database. Int J Ophthalmol 2019;12(4):529-535. PMID: 31024802
  • Dai Y, Pei G, Zhao Z, Jia P et al. A Convergent Study of Genetic Variants Associated With Crohn's Disease: Evidence From GWAS, Gene Expression, Methylation, eQTL and TWAS. Front Genet 2019;10:318. PMID: 31024628
  • Lin X, Beckers E, Mc Cafferty S, Gansemans Y et al. Bovine Embryo-Secreted microRNA-30c Is a Potential Non-invasive Biomarker for Hampered Preimplantation Developmental Competence. Front Genet 2019;10:315. PMID: 31024625
  • Gao R, Liang X, Cheedipudi S, Cordero J et al. Pioneering function of Isl1 in the epigenetic control of cardiomyocyte cell fate. Cell Res 2019 Jun;29(6):486-501. PMID: 31024170
  • Good AL, Cannon CE, Haemmerle MW, Yang J et al. JUND regulates pancreatic β cell survival during metabolic stress. Mol Metab 2019 Jul;25:95-106. PMID: 31023625
  • Binder H, Willscher E, Loeffler-Wirth H, Hopp L et al. DNA methylation, transcriptome and genetic copy number signatures of diffuse cerebral WHO grade II/III gliomas resolve cancer heterogeneity and development. Acta Neuropathol Commun 2019 Apr 25;7(1):59. PMID: 31023364
  • Luanpitpong S, Janan M, Thumanu K, Poohadsuan J et al. Deciphering the Elevated Lipid via CD36 in Mantle Cell Lymphoma with Bortezomib Resistance Using Synchrotron-Based Fourier Transform Infrared Spectroscopy of Single Cells. Cancers (Basel) 2019 Apr 24;11(4). PMID: 31022903
  • Kong Y, Rastogi D, Seoighe C, Greally JM et al. Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data. PLoS One 2019;14(4):e0215987. PMID: 31022271
  • Li HM, Dai YW, Yu JY, Duan P et al. Comprehensive circRNA/miRNA/mRNA analysis reveals circRNAs protect against toxicity induced by BPA in GC-2 cells. Epigenomics 2019 Jun;11(8):935-949. PMID: 31020848
  • Apolloni S, Amadio S, Fabbrizio P, Morello G et al. Histaminergic transmission slows progression of amyotrophic lateral sclerosis. J Cachexia Sarcopenia Muscle 2019 Aug;10(4):872-893. PMID: 31020811
  • Li D, Cheng P, Wang J, Qiu X et al. IRF6 Is Directly Regulated by ZEB1 and ELF3, and Predicts a Favorable Prognosis in Gastric Cancer. Front Oncol 2019;9:220. PMID: 31019894
  • Acevedo A, Berthel A, DuBois D, Almon RR et al. Pathway-Based Analysis of the Liver Response to Intravenous Methylprednisolone Administration in Rats: Acute Versus Chronic Dosing. Gene Regul Syst Bio 2019;13:1177625019840282. PMID: 31019365
  • Gao Z, Moorjani P, Sasani TA, Pedersen BS et al. Overlooked roles of DNA damage and maternal age in generating human germline mutations. Proc Natl Acad Sci U S A 2019 May 7;116(19):9491-9500. PMID: 31019089
  • Li D, Kular L, Vij M, Herter EK et al. Human skin long noncoding RNA WAKMAR1 regulates wound healing by enhancing keratinocyte migration. Proc Natl Acad Sci U S A 2019 May 7;116(19):9443-9452. PMID: 31019085
  • Teo YV, Rattanavirotkul N, Olova N, Salzano A et al. Notch Signaling Mediates Secondary Senescence. Cell Rep 2019 Apr 23;27(4):997-1007.e5. PMID: 31018144
  • Falcão AM, Meijer M, Scaglione A, Rinwa P et al. PAD2-Mediated Citrullination Contributes to Efficient Oligodendrocyte Differentiation and Myelination. Cell Rep 2019 Apr 23;27(4):1090-1102.e10. PMID: 31018126
  • Wang JY, Wang JQ, Lu SB et al. miR-628-5p promotes growth and migration of osteosarcoma by targeting IFI44L. Biochem Cell Biol 2020 Apr;98(2):99-105. PMID: 31018104
  • Zhang YY, Wang K, Liu YE, Wang W et al. Identification of key transcription factors associated with cerebral ischemia‑reperfusion injury based on gene‑set enrichment analysis. Int J Mol Med 2019 Jun;43(6):2429-2439. PMID: 31017267
  • Gao L, Sun N, Xu Q, Jiang Z et al. Comparative analysis of mRNA expression profiles in Type 1 and Type 2 diabetes mellitus. Epigenomics 2019 May 1;11(6):685-699. PMID: 31016992
  • Wang J, Tian Y, Zheng H, Ding Y et al. An integrated analysis reveals the oncogenic function of lncRNA LINC00511 in human ovarian cancer. Cancer Med 2019 Jun;8(6):3026-3035. PMID: 31016892
  • Kang EM, Yin AA, He YL, Chen WJ et al. A five-CpG signature of microRNA methylation in non-G-CIMP glioblastoma. CNS Neurosci Ther 2019 Sep;25(9):937-950. PMID: 31016891
  • Tian S, Wang C et al. Feature Selection for Longitudinal Data by Using Sign Averages to Summarize Gene Expression Values over Time. Biomed Res Int 2019;2019:1724898. PMID: 31016185
  • Wang Y, Zhang Q, Gao Z, Xin S et al. A novel 4-gene signature for overall survival prediction in lung adenocarcinoma patients with lymph node metastasis. Cancer Cell Int 2019;19:100. PMID: 31015800
  • Ortmayr K, Dubuis S, Zampieri M et al. Metabolic profiling of cancer cells reveals genome-wide crosstalk between transcriptional regulators and metabolism. Nat Commun 2019 Apr 23;10(1):1841. PMID: 31015463
  • Zhang J, Bai R, Li M, Ye H et al. Excessive miR-25-3p maturation via N(6)-methyladenosine stimulated by cigarette smoke promotes pancreatic cancer progression. Nat Commun 2019 Apr 23;10(1):1858. PMID: 31015415
  • Pastore A, Gaiti F, Lu SX, Brand RM et al. Corrupted coordination of epigenetic modifications leads to diverging chromatin states and transcriptional heterogeneity in CLL. Nat Commun 2019 Apr 23;10(1):1874. PMID: 31015400
  • Katz M, Corson F, Keil W, Singhal A et al. Glutamate spillover in C. elegans triggers repetitive behavior through presynaptic activation of MGL-2/mGluR5. Nat Commun 2019 Apr 23;10(1):1882. PMID: 31015396
  • Yadav H, Dreher D, Athmer B, Porzel A et al. Medicago TERPENE SYNTHASE 10 Is Involved in Defense Against an Oomycete Root Pathogen. Plant Physiol 2019 Jul;180(3):1598-1613. PMID: 31015300
  • Zhao Q, Wirka R, Nguyen T, Nagao M et al. TCF21 and AP-1 interact through epigenetic modifications to regulate coronary artery disease gene expression. Genome Med 2019 May 2;11(1):23. PMID: 31014396
  • Sabir JSM, El Omri A, Shaik NA, Banaganapalli B et al. Identification of key regulatory genes connected to NF-κB family of proteins in visceral adipose tissues using gene expression and weighted protein interaction network. PLoS One 2019;14(4):e0214337. PMID: 31013288
  • Warsinske H, Vashisht R, Khatri P et al. Host-response-based gene signatures for tuberculosis diagnosis: A systematic comparison of 16 signatures. PLoS Med 2019 Apr;16(4):e1002786. PMID: 31013272
  • Feng H, Gu ZY, Li Q, Liu QH et al. Identification of significant genes with poor prognosis in ovarian cancer via bioinformatical analysis. J Ovarian Res 2019 Apr 22;12(1):35. PMID: 31010415
  • Zhu Y, Yin X, Li J, Zhang L et al. Overexpression of microRNA-204-5p alleviates renal ischemia-reperfusion injury in mice through blockage of Fas/FasL pathway. Exp Cell Res 2019 Aug 15;381(2):208-214. PMID: 31009621
  • Pačínková A, Popovici V et al. Cross-platform Data Analysis Reveals a Generic Gene Expression Signature for Microsatellite Instability in Colorectal Cancer. Biomed Res Int 2019;2019:6763596. PMID: 31008109
  • Forés-Martos J, Catalá-López F, Sánchez-Valle J, Ibáñez K et al. Transcriptomic metaanalyses of autistic brains reveals shared gene expression and biological pathway abnormalities with cancer. Mol Autism 2019;10:17. PMID: 31007884
  • Zou B, Li J, Xu K, Liu JL et al. Identification of key candidate genes and pathways in oral squamous cell carcinoma by integrated Bioinformatics analysis. Exp Ther Med 2019 May;17(5):4089-4099. PMID: 31007745
  • Zahid KR, Su M, Khan ARR, Han S et al. Systems biology based meth-miRNA-mRNA regulatory network identifies metabolic imbalance and hyperactive cell cycle signaling involved in hepatocellular carcinoma onset and progression. Cancer Cell Int 2019;19:89. PMID: 31007607
  • Kounatidou E, Nakjang S, McCracken SRC, Dehm SM et al. A novel CRISPR-engineered prostate cancer cell line defines the AR-V transcriptome and identifies PARP inhibitor sensitivities. Nucleic Acids Res 2019 Jun 20;47(11):5634-5647. PMID: 31006810
  • Lee T, Lee S, Yang S, Lee I et al. MaizeNet: a co-functional network for network-assisted systems genetics in Zea mays. Plant J 2019 Aug;99(3):571-582. PMID: 31006149
  • Li Q, Pan X, Zhu D, Deng Z et al. Circular RNA MAT2B Promotes Glycolysis and Malignancy of Hepatocellular Carcinoma Through the miR-338-3p/PKM2 Axis Under Hypoxic Stress. Hepatology 2019 Oct;70(4):1298-1316. PMID: 31004447
  • Liu Y, Chanana P, Davila JI, Hou X et al. Gene expression differences between matched pairs of ovarian cancer patient tumors and patient-derived xenografts. Sci Rep 2019 Apr 19;9(1):6314. PMID: 31004097
  • Kedlian VR, Donertas HM, Thornton JM et al. The widespread increase in inter-individual variability of gene expression in the human brain with age. Aging (Albany NY) 2019 Apr 19;11(8):2253-2280. PMID: 31003228
  • Dhingra R, Kwee LC, Diaz-Sanchez D, Devlin RB et al. Evaluating DNA methylation age on the Illumina MethylationEPIC Bead Chip. PLoS One 2019;14(4):e0207834. PMID: 31002714
  • Shaabanpour Aghamaleki F, Mollashahi B, Nosrati M, Moradi A et al. Application of an Artificial Neural Network in the Diagnosis of Chronic Lymphocytic Leukemia. Cureus 2019 Feb 4;11(2):e4004. PMID: 31001458
  • Shan S, Chen W, Jia JD et al. Transcriptome Analysis Revealed a Highly Connected Gene Module Associated With Cirrhosis to Hepatocellular Carcinoma Development. Front Genet 2019;10:305. PMID: 31001331
  • Laimighofer M, Lickert R, Fuerst R, Theis FJ et al. Common patterns of gene regulation associated with Cesarean section and the development of islet autoimmunity - indications of immune cell activation. Sci Rep 2019 Apr 18;9(1):6250. PMID: 31000755
  • Guo J, Duan H, Li Y, Yang L et al. A novel circular RNA circ-ZNF652 promotes hepatocellular carcinoma metastasis through inducing snail-mediated epithelial-mesenchymal transition by sponging miR-203/miR-502-5p. Biochem Biophys Res Commun 2019 Jun 11;513(4):812-819. PMID: 31000195
  • Xu S, Wang P, Zhang J, Wu H et al. Ai-lncRNA EGOT enhancing autophagy sensitizes paclitaxel cytotoxicity via upregulation of ITPR1 expression by RNA-RNA and RNA-protein interactions in human cancer. Mol Cancer 2019 Apr 18;18(1):89. PMID: 30999914
  • Granata I, Troiano E, Sangiovanni M, Guarracino MR et al. Integration of transcriptomic data in a genome-scale metabolic model to investigate the link between obesity and breast cancer. BMC Bioinformatics 2019 Apr 18;20(Suppl 4):162. PMID: 30999849
  • Sangiovanni M, Granata I, Thind AS, Guarracino MR et al. From trash to treasure: detecting unexpected contamination in unmapped NGS data. BMC Bioinformatics 2019 Apr 18;20(Suppl 4):168. PMID: 30999839
  • Frisch BJ, Hoffman CM, Latchney SE, LaMere MW et al. Aged marrow macrophages expand platelet-biased hematopoietic stem cells via Interleukin1B. JCI Insight 2019 Apr 18;5(10). PMID: 30998506
  • Liu SQ, Cheng JY, Jiang YJ, Li Y et al. [Bioinformatics Analysis and Verification of Aging-Related Genes of Bone Marrow Mesenchymal Stem Cells in Patients with Acute Myeloid Leukemia]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2019 Apr;27(2):311-317. PMID: 30998131
  • Xian D, Zhao Y et al. LncRNA KCNQ1OT1 enhanced the methotrexate resistance of colorectal cancer cells by regulating miR-760/PPP1R1B via the cAMP signalling pathway. J Cell Mol Med 2019 Jun;23(6):3808-3823. PMID: 30997746
  • Zhuang J, Zhang L, Dai S, Cui L et al. Comparison of multi-tissue aging between human and mouse. Sci Rep 2019 Apr 17;9(1):6220. PMID: 30996271
  • Billi AC, Gharaee-Kermani M, Fullmer J, Tsoi LC et al. The female-biased factor VGLL3 drives cutaneous and systemic autoimmunity. JCI Insight 2019 Apr 18;4(8). PMID: 30996136
  • Shokri L, Inukai S, Hafner A, Weinand K et al. A Comprehensive Drosophila melanogaster Transcription Factor Interactome. Cell Rep 2019 Apr 16;27(3):955-970.e7. PMID: 30995488
  • Kanagalingam T, Solomon L, Vijeyakumaran M, Palikhe NS et al. IL-2 modulates Th2 cell responses to glucocorticosteroid: A cause of persistent type 2 inflammation? Immun Inflamm Dis 2019 Sep;7(3):112-124. PMID: 30994266
  • Ibrahim J, Op de Beeck K, Fransen E, Croes L et al. Methylation analysis of Gasdermin E shows great promise as a biomarker for colorectal cancer. Cancer Med 2019 May;8(5):2133-2145. PMID: 30993897
  • Chen G, Yu W, Li Z, Wang Q et al. Potential Regulatory Effects of miR-182-3p in Osteosarcoma via Targeting EBF2. Biomed Res Int 2019;2019:4897905. PMID: 30993113
  • Muhammad SA, Fatima N, Paracha RZ, Ali A et al. A systematic simulation-based meta-analytical framework for prediction of physiological biomarkers in alopecia. J Biol Res (Thessalon) 2019 Dec;26:2. PMID: 30993080
  • Karunanithi S, Simon M, Schulz MH et al. Automated analysis of small RNA datasets with RAPID. PeerJ 2019;7:e6710. PMID: 30993044
  • Yang Y, Tang X, Song X, Tang L et al. Evidence for an oncogenic role of HOXC6 in human non-small cell lung cancer. PeerJ 2019;7:e6629. PMID: 30993034
  • Al-Toub M, Almohawes M, Vishnubalaji R, Alfayez M et al. CXCR7 signaling promotes breast cancer survival in response to mesenchymal stromal stem cell-derived factors. Cell Death Discov 2019;5:87. PMID: 30993013
  • Care MA, Westhead DR, Tooze RM et al. Parsimonious Gene Correlation Network Analysis (PGCNA): a tool to define modular gene co-expression for refined molecular stratification in cancer. NPJ Syst Biol Appl 2019;5:13. PMID: 30993001
  • Xiong B, Yang Y, Fineis FR, Wang JP et al. DegNorm: normalization of generalized transcript degradation improves accuracy in RNA-seq analysis. Genome Biol 2019 Apr 16;20(1):75. PMID: 30992037
  • Lee S, Kambhampati M, Yadavilli S, Gordish-Dressman H et al. Differential Expression of Wilms' Tumor Protein in Diffuse Intrinsic Pontine Glioma. J Neuropathol Exp Neurol 2019 May 1;78(5):380-388. PMID: 30990879
  • Walens A, DiMarco AV, Lupo R, Kroger BR et al. CCL5 promotes breast cancer recurrence through macrophage recruitment in residual tumors. Elife 2019 Apr 16;8. PMID: 30990165
  • Hu Z, Yang D, Tang Y, Zhang X et al. Five-long non-coding RNA risk score system for the effective prediction of gastric cancer patient survival. Oncol Lett 2019 May;17(5):4474-4486. PMID: 30988816
  • Stanfield Z, Lai PF, Lei K, Johnson MR et al. Myometrial Transcriptional Signatures of Human Parturition. Front Genet 2019;10:185. PMID: 30988671
  • Yang H, Lian D, Zhang X, Li H et al. Key Genes and Signaling Pathways Contribute to the Pathogensis of Diabetic Nephropathy. Iran J Kidney Dis 2019 Mar;13(2):87-97. PMID: 30988245
  • Butler AA, Zhang J, Price CA, Stevens JR et al. Low plasma adropin concentrations increase risks of weight gain and metabolic dysregulation in response to a high-sugar diet in male nonhuman primates. J Biol Chem 2019 Jun 21;294(25):9706-9719. PMID: 30988006
  • Mele L, la Noce M, Paino F, Regad T et al. Glucose-6-phosphate dehydrogenase blockade potentiates tyrosine kinase inhibitor effect on breast cancer cells through autophagy perturbation. J Exp Clin Cancer Res 2019 Apr 12;38(1):160. PMID: 30987650
  • Untaroiu AM, Carey MA, Guler JL, Papin JA et al. Leveraging the effects of chloroquine on resistant malaria parasites for combination therapies. BMC Bioinformatics 2019 Apr 15;20(1):186. PMID: 30987583
  • Hao S, Huo S, Du Z, Yang Q et al. MicroRNA-related transcription factor regulatory networks in human colorectal cancer. Medicine (Baltimore) 2019 Apr;98(15):e15158. PMID: 30985693
  • Wang Q, Xie L, Dang Y, Sun X et al. OSlms: A Web Server to Evaluate the Prognostic Value of Genes in Leiomyosarcoma. Front Oncol 2019;9:190. PMID: 30984618
  • Xian J, Zhang Q, Guo X, Liang X et al. A prognostic signature based on three non-coding RNAs for prediction of the overall survival of glioma patients. FEBS Open Bio 2019 Apr;9(4):682-692. PMID: 30984542
  • Xu A, Chen J, Peng H, Han G et al. Simultaneous Interrogation of Cancer Omics to Identify Subtypes With Significant Clinical Differences. Front Genet 2019;10:236. PMID: 30984238
  • Wang P, Wang Y, Xie L, Xiao M et al. The Transcription Factor T-Bet Is Required for Optimal Type I Follicular Helper T Cell Maintenance During Acute Viral Infection. Front Immunol 2019;10:606. PMID: 30984183
  • Lang W, Wang J, Ma X, Zhang N et al. Identification of Shared Genes Between Ischemic Stroke and Parkinson's Disease Using Genome-Wide Association Studies. Front Neurol 2019;10:297. PMID: 30984102
  • Du Z, Zhang S, Lin Y, Zhou L et al. Momordicoside G Regulates Macrophage Phenotypes to Stimulate Efficient Repair of Lung Injury and Prevent Urethane-Induced Lung Carcinoma Lesions. Front Pharmacol 2019;10:321. PMID: 30984004
  • Traka MH, Melchini A, Coode-Bate J, Al Kadhi O et al. Transcriptional changes in prostate of men on active surveillance after a 12-mo glucoraphanin-rich broccoli intervention-results from the Effect of Sulforaphane on prostate CAncer PrEvention (ESCAPE) randomized controlled trial. Am J Clin Nutr 2019 Apr 1;109(4):1133-1144. PMID: 30982861
  • Kweon SM, Chen Y, Moon E, Kvederaviciutė K et al. An Adversarial DNA N(6)-Methyladenine-Sensor Network Preserves Polycomb Silencing. Mol Cell 2019 Jun 20;74(6):1138-1147.e6. PMID: 30982744
  • Nakanishi M, Mitchell RR, Benoit YD, Orlando L et al. Human Pluripotency Is Initiated and Preserved by a Unique Subset of Founder Cells. Cell 2019 May 2;177(4):910-924.e22. PMID: 30982595
  • Yang C, Huang D, Ma C, Ren J et al. Identification of Pathogenic Genes and Transcription Factors in Osteosarcoma. Pathol Oncol Res 2020 Apr;26(2):1041-1048. PMID: 30982140
  • Kuijjer ML, Tung MG, Yuan G, Quackenbush J et al. Estimating Sample-Specific Regulatory Networks. iScience 2019 Apr 26;14:226-240. PMID: 30981959
  • Long Q, Zou X, Song Y, Duan Z et al. PFKFB3/HIF-1α feedback loop modulates sorafenib resistance in hepatocellular carcinoma cells. Biochem Biophys Res Commun 2019 Jun 4;513(3):642-650. PMID: 30981500
  • Li S, Song Y, Quach C, Guo H et al. Transcriptional regulation of autophagy-lysosomal function in BRAF-driven melanoma progression and chemoresistance. Nat Commun 2019 Apr 12;10(1):1693. PMID: 30979895
  • Fang C, Li J, Qi S, Lei Y et al. An alternatively transcribed TAZ variant negatively regulates JAK-STAT signaling. EMBO Rep 2019 Jun;20(6). PMID: 30979708
  • Wu Y, Yang X, Chen Z, Tian L et al. m(6)A-induced lncRNA RP11 triggers the dissemination of colorectal cancer cells via upregulation of Zeb1. Mol Cancer 2019 Apr 13;18(1):87. PMID: 30979372
  • Ma JQ, Wei LJ, Lin A, Zhang C et al. Brassica napus Infected with Leptosphaeria maculans. Genes (Basel) 2019 Apr 11;10(4). PMID: 30979089
  • Hao J, Zeltz C, Pintilie M, Li Q et al. Characterization of Distinct Populations of Carcinoma-Associated Fibroblasts from Non-Small Cell Lung Carcinoma Reveals a Role for ST8SIA2 in Cancer Cell Invasion. Neoplasia 2019 May;21(5):482-493. PMID: 30978569
  • Stellwagen SD, Renberg RL et al. Toward Spider Glue: Long Read Scaffolding for Extreme Length and Repetitious Silk Family Genes AgSp1 and AgSp2 with Insights into Functional Adaptation. G3 (Bethesda) 2019 Jun 5;9(6):1909-1919. PMID: 30975702
  • Pascual M, Mena-Varas M, Robles EF, Garcia-Barchino MJ et al. PD-1/PD-L1 immune checkpoint and p53 loss facilitate tumor progression in activated B-cell diffuse large B-cell lymphomas. Blood 2019 May 30;133(22):2401-2412. PMID: 30975638
  • Wu Q, Zhang B, Wang Z, Hu X et al. Integrated bioinformatics analysis reveals novel key biomarkers and potential candidate small molecule drugs in gastric cancer. Pathol Res Pract 2019 May;215(5):1038-1048. PMID: 30975489
  • Li X, Zhong Q, Luo D, Du Q et al. The prognostic value of CXC subfamily ligands in stage I-III patients with colorectal cancer. PLoS One 2019;14(4):e0214611. PMID: 30973890
  • Chen YL, Zhang Y, Wang J, Chen N et al. A 17 gene panel for non-small-cell lung cancer prognosis identified through integrative epigenomic-transcriptomic analyses of hypoxia-induced epithelial-mesenchymal transition. Mol Oncol 2019 Jul;13(7):1490-1502. PMID: 30973670
  • Mini E, Lapucci A, Perrone G, D'Aurizio R et al. RNA sequencing reveals PNN and KCNQ1OT1 as predictive biomarkers of clinical outcome in stage III colorectal cancer patients treated with adjuvant chemotherapy. Int J Cancer 2019 Nov 1;145(9):2580-2593. PMID: 30973654
  • Ingiosi AM, Schoch H, Wintler T, Singletary KG et al. Shank3 modulates sleep and expression of circadian transcription factors. Elife 2019 Apr 11;8. PMID: 30973326
  • Sun S, Sun F, Wang Y et al. Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes. Front Genet 2019;10:252. PMID: 30972105
  • Verma S, Shukla S, Pandey M, MacLennan GT et al. Differentially Expressed Genes and Molecular Pathways in an Autochthonous Mouse Prostate Cancer Model. Front Genet 2019;10:235. PMID: 30972102
  • Li J, Yuan X, March ME, Yao X et al. Identification of Target Genes at Juvenile Idiopathic Arthritis GWAS Loci in Human Neutrophils. Front Genet 2019;10:181. PMID: 30972099
  • Martin F, Talikka M, Ivanov NV, Haziza C et al. A Meta-Analysis of the Performance of a Blood-Based Exposure Response Gene Signature Across Clinical Studies on the Tobacco Heating System 2.2 (THS 2.2). Front Pharmacol 2019;10:198. PMID: 30971916
  • Lou W, Ding B, Xu L, Fan W et al. Construction of Potential Glioblastoma Multiforme-Related miRNA-mRNA Regulatory Network. Front Mol Neurosci 2019;12:66. PMID: 30971889
  • Park J, Hescott BJ, Slonim DK et al. Pathway centrality in protein interaction networks identifies putative functional mediating pathways in pulmonary disease. Sci Rep 2019 Apr 10;9(1):5863. PMID: 30971743
  • Kubota S, Tokunaga K, Umezu T, Yokomizo-Nakano T et al. Lineage-specific RUNX2 super-enhancer activates MYC and promotes the development of blastic plasmacytoid dendritic cell neoplasm. Nat Commun 2019 Apr 10;10(1):1653. PMID: 30971697
  • Liu ZZ, Yan LN, Dong CN, Ma N et al. Cytochrome P450 family members are associated with fast-growing hepatocellular carcinoma and patient survival: An integrated analysis of gene expression profiles. Saudi J Gastroenterol 2019 May-Jun;25(3):167-175. PMID: 30971588
  • Choi S, Kim HY, Cha PH, Seo SH et al. CXXC5 mediates growth plate senescence and is a target for enhancement of longitudinal bone growth. Life Sci Alliance 2019 Apr;2(2). PMID: 30971423
  • Tian SIdentification of monotonically differentially expressed genes for non-small cell lung cancer. BMC Bioinformatics 2019 Apr 11;20(1):177. PMID: 30971213
  • Huang J, Liu F, Wang B, Tang H et al. Central and Peripheral Changes in FOS Expression in Schizophrenia Based on Genome-Wide Gene Expression. Front Genet 2019;10:232. PMID: 30967896
  • Alexandre PA, Naval-Sanchez M, Porto-Neto LR, Ferraz JBS et al. Systems Biology Reveals NR2F6 and TGFB1 as Key Regulators of Feed Efficiency in Beef Cattle. Front Genet 2019;10:230. PMID: 30967894
  • Zhou P, Li Y, Li B, Zhang M et al. NMIIA promotes tumor growth and metastasis by activating the Wnt/β-catenin signaling pathway and EMT in pancreatic cancer. Oncogene 2019 Jul;38(27):5500-5515. PMID: 30967633
  • Liu Y, Xue M, Du S, Feng W et al. Competitive endogenous RNA is an intrinsic component of EMT regulatory circuits and modulates EMT. Nat Commun 2019 Apr 9;10(1):1637. PMID: 30967542
  • Tian Q, Zou J, Tang J, Fang Y et al. MRCNN: a deep learning model for regression of genome-wide DNA methylation. BMC Genomics 2019 Apr 4;20(Suppl 2):192. PMID: 30967120
  • An S, Ma L, Wan L et al. TSEE: an elastic embedding method to visualize the dynamic gene expression patterns of time series single-cell RNA sequencing data. BMC Genomics 2019 Apr 4;20(Suppl 2):224. PMID: 30967106
  • Lee NH, Park SR, Lee JW, Lim S et al. SERPINB2 Is a Novel Indicator of Cancer Stem Cell Tumorigenicity in Multiple Cancer Types. Cancers (Basel) 2019 Apr 8;11(4). PMID: 30965654
  • Gasic I, Boswell SA, Mitchison TJ et al. Tubulin mRNA stability is sensitive to change in microtubule dynamics caused by multiple physiological and toxic cues. PLoS Biol 2019 Apr;17(4):e3000225. PMID: 30964857
  • Pan XM, He XY, Yang YL, Jia WJ et al. MiR-630 inhibits papillary thyroid carcinoma cell growth, metastasis, and epithelial-mesenchymal transition by suppressing JAK2/STAT3 signaling pathway. Eur Rev Med Pharmacol Sci 2019 Mar;23(6):2453-2460. PMID: 30964171
  • Sabi R, Tuller T et al. Novel insights into gene expression regulation during meiosis revealed by translation elongation dynamics. NPJ Syst Biol Appl 2019;5:12. PMID: 30962948
  • Li XY, Hu Y, Li NS, Wan JH et al. RACK1 Acts as a Potential Tumor Promoter in Colorectal Cancer. Gastroenterol Res Pract 2019;2019:5625026. PMID: 30962803
  • Gisler S, Gonçalves JP, Akhtar W, de Jong J et al. Multiplexed Cas9 targeting reveals genomic location effects and gRNA-based staggered breaks influencing mutation efficiency. Nat Commun 2019 Apr 8;10(1):1598. PMID: 30962441
  • Zou Y, Palte MJ, Deik AA, Li H et al. A GPX4-dependent cancer cell state underlies the clear-cell morphology and confers sensitivity to ferroptosis. Nat Commun 2019 Apr 8;10(1):1617. PMID: 30962421
  • Fu H, Ge B, Chen D, Wu Y et al. Phytanoyl-CoA 2-Hydroxylase-Interacting Protein-Like Gene Is a Therapeutic Target Gene for Glioblastoma Multiforme. Med Sci Monit 2019 Apr 9;25:2583-2590. PMID: 30962415
  • Castro JC, Valdés I, Gonzalez-García LN, Danies G et al. Gene regulatory networks on transfer entropy (GRNTE): a novel approach to reconstruct gene regulatory interactions applied to a case study for the plant pathogen Phytophthora infestans. Theor Biol Med Model 2019 Apr 9;16(1):7. PMID: 30961611
  • Djordjevic D, Tang JYS, Chen YX, Kwan SLS et al. Discovery of perturbation gene targets via free text metadata mining in Gene Expression Omnibus. Comput Biol Chem 2019 Jun;80:152-158. PMID: 30959271
  • Menchero S, Rollan I, Lopez-Izquierdo A, Andreu MJ et al. Transitions in cell potency during early mouse development are driven by Notch. Elife 2019 Apr 8;8. PMID: 30958266
  • Xu J, Nuno K, Litzenburger UM, Qi Y et al. Single-cell lineage tracing by endogenous mutations enriched in transposase accessible mitochondrial DNA. Elife 2019 Apr 9;8. PMID: 30958261
  • Zhang WL, Chi CT, Meng XH, Liang SD et al. miRNA‑15a‑5p facilitates the bone marrow stem cell apoptosis of femoral head necrosis through the Wnt/β‑catenin/PPARγ signaling pathway. Mol Med Rep 2019 Jun;19(6):4779-4787. PMID: 30957181
  • Alsagaby SATranscriptomics-based validation of the relatedness of heterogeneous nuclear ribonucleoproteins to chronic lymphocytic leukemia as potential biomarkers of the disease aggressiveness. Saudi Med J 2019 Apr;40(4):328-338. PMID: 30957125
  • Shao M, Li W et al. Transcriptional factor regulation network and competitive endogenous RNA (ceRNA) network determining response of esophageal squamous cell carcinomas to neoadjuvant chemoradiotherapy. PeerJ 2019;7:e6668. PMID: 30956903
  • Li Y, Xiao X, Bossé Y, Gorlova O et al. Genetic interaction analysis among oncogenesis-related genes revealed novel genes and networks in lung cancer development. Oncotarget 2019 Mar 5;10(19):1760-1774. PMID: 30956756
  • Binnewies M, Mujal AM, Pollack JL, Combes AJ et al. Unleashing Type-2 Dendritic Cells to Drive Protective Antitumor CD4(+) T Cell Immunity. Cell 2019 Apr 18;177(3):556-571.e16. PMID: 30955881
  • Wang Y, Hou Y, Zhang W, Alvarez AA et al. Lipolytic inhibitor G0S2 modulates glioma stem-like cell radiation response. J Exp Clin Cancer Res 2019 Apr 5;38(1):147. PMID: 30953555
  • Zhai W, Zhu R, Ma J, Gong D et al. A positive feed-forward loop between LncRNA-URRCC and EGFL7/P-AKT/FOXO3 signaling promotes proliferation and metastasis of clear cell renal cell carcinoma. Mol Cancer 2019 Apr 5;18(1):81. PMID: 30953521
  • Guo Y, Krismer K, Closser M, Wichterle H et al. High resolution discovery of chromatin interactions. Nucleic Acids Res 2019 Apr 8;47(6):e35. PMID: 30953075
  • Rombaut D, Chiu HS, Decaesteker B, Everaert C et al. Integrative analysis identifies lincRNAs up- and downstream of neuroblastoma driver genes. Sci Rep 2019 Apr 5;9(1):5685. PMID: 30952905
  • Šimečková Š, Kahounová Z, Fedr R, Remšík J et al. High Skp2 expression is associated with a mesenchymal phenotype and increased tumorigenic potential of prostate cancer cells. Sci Rep 2019 Apr 5;9(1):5695. PMID: 30952903
  • Pérez-Pena J, Páez R, Nieto-Jiménez C, Sánchez VC et al. Mapping Bromodomains in breast cancer and association with clinical outcome. Sci Rep 2019 Apr 5;9(1):5734. PMID: 30952871
  • Saito T, Kuma A, Sugiura Y, Ichimura Y et al. Autophagy regulates lipid metabolism through selective turnover of NCoR1. Nat Commun 2019 Apr 5;10(1):1567. PMID: 30952864
  • Murillo OD, Thistlethwaite W, Rozowsky J, Subramanian SL et al. exRNA Atlas Analysis Reveals Distinct Extracellular RNA Cargo Types and Their Carriers Present across Human Biofluids. Cell 2019 Apr 4;177(2):463-477.e15. PMID: 30951672
  • Franzén O, Gan LM, Björkegren JLM et al. PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data. Database (Oxford) 2019 Jan 1;2019. PMID: 30951143
  • Sui Y, Ju C, Shao B et al. A lymph node metastasis-related protein-coding genes combining with long noncoding RNA signature for breast cancer survival prediction. J Cell Physiol 2019 Nov;234(11):20036-20045. PMID: 30950057
  • Wang D, Luo H, Huo Z, Chen M et al. Irradiation-induced dynamic changes of gene signatures reveal gain of metastatic ability in nasopharyngeal carcinoma. Am J Cancer Res 2019;9(3):479-495. PMID: 30949405
  • Zamanian-Azodi M, Rezaei-Tavirani M et al. Investigation of health benefits of cocoa in human colorectal cancer cell line, HT-29 through interactome analysis. Gastroenterol Hepatol Bed Bench 2019 Winter;12(1):67-73. PMID: 30949322
  • Hu S, Zuo H, Qi J, Hu Y et al. Analysis of Effect of Schisandra in the Treatment of Myocardial Infarction Based on Three-Mode Gene Ontology Network. Front Pharmacol 2019;10:232. PMID: 30949047
  • van Groningen T, Akogul N, Westerhout EM, Chan A et al. A NOTCH feed-forward loop drives reprogramming from adrenergic to mesenchymal state in neuroblastoma. Nat Commun 2019 Apr 4;10(1):1530. PMID: 30948783
  • Bertero A, Fields PA, Ramani V, Bonora G et al. Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory. Nat Commun 2019 Apr 4;10(1):1538. PMID: 30948719
  • Wiehle L, Thorn GJ, Raddatz G, Clarkson CT et al. DNA (de)methylation in embryonic stem cells controls CTCF-dependent chromatin boundaries. Genome Res 2019 May;29(5):750-761. PMID: 30948436
  • Wei Q, Ramsey SA, Larson MK, Berlow NE et al. Elucidating the transcriptional program of feline injection-site sarcoma using a cross-species mRNA-sequencing approach. BMC Cancer 2019 Apr 4;19(1):311. PMID: 30947707
  • Duan S, Wang P, Liu F, Huang H et al. Novel immune-risk score of gastric cancer: A molecular prediction model combining the value of immune-risk status and chemosensitivity. Cancer Med 2019 May;8(5):2675-2685. PMID: 30945466
  • Xu S, Zhang H, Liu T, Chen Y et al. G Protein γ subunit 7 loss contributes to progression of clear cell renal cell carcinoma. J Cell Physiol 2019 Nov;234(11):20002-20012. PMID: 30945310
  • Francoz E, Ranocha P, Dunand C, Burlat V et al. Medium-Throughput RNA In Situ Hybridization of Serial Sections from Paraffin-Embedded Tissue Microarrays. Methods Mol Biol 2019;1933:99-130. PMID: 30945181
  • Zhang K, Wang M, Zhao Y, Wang W et al. Taiji: System-level identification of key transcription factors reveals transcriptional waves in mouse embryonic development. Sci Adv 2019 Mar;5(3):eaav3262. PMID: 30944857
  • Denecker T, Durand W, Maupetit J, Hébert C et al. Pixel: a content management platform for quantitative omics data. PeerJ 2019;7:e6623. PMID: 30944779
  • Zan XY, Li L et al. Construction of lncRNA-mediated ceRNA network to reveal clinically relevant lncRNA biomarkers in glioblastomas. Oncol Lett 2019 May;17(5):4369-4374. PMID: 30944630
  • Liu L, Pei YF, Liu TL, Hu WZ et al. Identification of a 1p21 independent functional variant for abdominal obesity. Int J Obes (Lond) 2019 Dec;43(12):2480-2490. PMID: 30944420
  • Mohamed RH, Abu-Shahba N, Mahmoud M, Abdelfattah AMH et al. Co-regulatory Network of Oncosuppressor miRNAs and Transcription Factors for Pathology of Human Hepatic Cancer Stem Cells (HCSC). Sci Rep 2019 Apr 3;9(1):5564. PMID: 30944375
  • Saha D, Mukherjee P, Dutta S, Meena K et al. Genomic insights into HSFs as candidate genes for high-temperature stress adaptation and gene editing with minimal off-target effects in flax. Sci Rep 2019 Apr 3;9(1):5581. PMID: 30944362
  • Yang M, Vesterlund M, Siavelis I, Moura-Castro LH et al. Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia. Nat Commun 2019 Apr 3;10(1):1519. PMID: 30944321
  • Hayashi Y, Harada Y, Kagiyama Y, Nishikawa S et al. NUP98-HBO1-fusion generates phenotypically and genetically relevant chronic myelomonocytic leukemia pathogenesis. Blood Adv 2019 Apr 9;3(7):1047-1060. PMID: 30944097
  • Tian S, Peng S, Kalmbach M, Gaonkar KS et al. Identification of factors associated with duplicate rate in ChIP-seq data. PLoS One 2019;14(4):e0214723. PMID: 30943272
  • Ma B, Jiang H, Wen D, Hu J et al. Transcriptome Analyses Identify a Metabolic Gene Signature Indicative of Dedifferentiation of Papillary Thyroid Cancer. J Clin Endocrinol Metab 2019 Sep 1;104(9):3713-3725. PMID: 30942873
  • Ziemann M, Kaspi A, El-Osta A et al. Digital expression explorer 2: a repository of uniformly processed RNA sequencing data. Gigascience 2019 Apr 1;8(4). PMID: 30942868
  • Qian L, Shi H, Ding M et al. Comparative analysis of gene expression profiles in children with type 1 diabetes mellitus. Mol Med Rep 2019 May;19(5):3989-4000. PMID: 30942443
  • Shafi A, Nguyen T, Peyvandipour A, Nguyen H et al. A Multi-Cohort and Multi-Omics Meta-Analysis Framework to Identify Network-Based Gene Signatures. Front Genet 2019;10:159. PMID: 30941158
  • Omura S, Sato F, Martinez NE, Park AM et al. Bioinformatics Analyses Determined the Distinct CNS and Peripheral Surrogate Biomarker Candidates Between Two Mouse Models for Progressive Multiple Sclerosis. Front Immunol 2019;10:516. PMID: 30941144
  • Grimes T, Potter SS, Datta S et al. Integrating gene regulatory pathways into differential network analysis of gene expression data. Sci Rep 2019 Apr 2;9(1):5479. PMID: 30940863
  • Wu RY, Kong PF, Xia LP, Huang Y et al. Regorafenib Promotes Antitumor Immunity via Inhibiting PD-L1 and IDO1 Expression in Melanoma. Clin Cancer Res 2019 Jul 15;25(14):4530-4541. PMID: 30940655
  • Xu J, Su Z, Ding Q, Shen L et al. Inhibition of Proliferation by Knockdown of Transmembrane (TMEM) 168 in Glioblastoma Cells via Suppression of Wnt/β-Catenin Pathway. Oncol Res 2019 Jul 12;27(7):819-826. PMID: 30940290
  • Schubert C, Allhoff M, Tillmann S, Maié T et al. Differential roles of STAT1 and STAT2 in the sensitivity of JAK2V617F- vs. BCR-ABL-positive cells to interferon alpha. J Hematol Oncol 2019 Apr 2;12(1):36. PMID: 30940163
  • Geng L, Wang S, Zhang F, Xiong K et al. SNX17 (Sorting Nexin 17) Mediates Atrial Fibrillation Onset Through Endocytic Trafficking of the Kv1.5 (Potassium Voltage-Gated Channel Subfamily A Member 5) Channel. Circ Arrhythm Electrophysiol 2019 Apr;12(4):e007097. PMID: 30939909
  • Yao C, Pang D, Lu C, Xu A et al. Data Mining and Validation of AMPK Pathway as a Novel Candidate Role Affecting Intramuscular Fat Content in Pigs. Animals (Basel) 2019 Apr 1;9(4). PMID: 30939765
  • Sun M, Zhao W, Chen Z, Li M et al. Circular RNA CEP128 promotes bladder cancer progression by regulating Mir-145-5p/Myd88 via MAPK signaling pathway. Int J Cancer 2019 Oct 15;145(8):2170-2181. PMID: 30939216
  • Cheng Z, Brar GA et al. Global translation inhibition yields condition-dependent de-repression of ribosome biogenesis mRNAs. Nucleic Acids Res 2019 Jun 4;47(10):5061-5073. PMID: 30937450
  • Mandal P, Saha SS, Sen S, Bhattacharya A et al. Cervical cancer subtypes harbouring integrated and/or episomal HPV16 portray distinct molecular phenotypes based on transcriptome profiling of mRNAs and miRNAs. Cell Death Discov 2019;5:81. PMID: 30937183
  • Wu X, Sun L, Wang Z et al. Identification of lncRNA competitively regulated subpathways in myocardial infarction. Exp Ther Med 2019 Apr;17(4):3041-3046. PMID: 30936975
  • Ko PH, Huang CW, Chang HH, Chuang EY et al. Identifying the functions and biomarkers of Codonopsis pilosula and Astragalus membranaceus aqueous extracts in hepatic cells. Chin Med 2019;14:10. PMID: 30936938
  • Chen L, Shi G, Chen G, Li J et al. Transcriptome Analysis Suggests the Roles of Long Intergenic Non-coding RNAs in the Growth Performance of Weaned Piglets. Front Genet 2019;10:196. PMID: 30936891
  • Niego A, Benítez-Burraco A et al. Williams Syndrome, Human Self-Domestication, and Language Evolution. Front Psychol 2019;10:521. PMID: 30936846
  • Yang Z, Li T, Cui Y, Li S et al. Elevated Plasma microRNA-105-5p Level in Patients With Idiopathic Parkinson's Disease: A Potential Disease Biomarker. Front Neurosci 2019;13:218. PMID: 30936821
  • Hadar A, Gurwitz D et al. Peripheral transcriptomic biomarkers for early detection of sporadic Alzheimer disease? Dialogues Clin Neurosci 2018 Dec;20(4):293-300. PMID: 30936769
  • Sawant DV, Yano H, Chikina M, Zhang Q et al. Adaptive plasticity of IL-10(+) and IL-35(+) T(reg) cells cooperatively promotes tumor T cell exhaustion. Nat Immunol 2019 Jun;20(6):724-735. PMID: 30936494
  • Ye Z, Wang F, Yan F, Wang L et al. Bioinformatic identification of candidate biomarkers and related transcription factors in nasopharyngeal carcinoma. World J Surg Oncol 2019 Apr 1;17(1):60. PMID: 30935420
  • Bendíčková K, Tidu F, De Zuani M, Kohoutková MH et al. Calcineurin inhibitors reduce NFAT-dependent expression of antifungal pentraxin-3 by human monocytes. J Leukoc Biol 2020 Mar;107(3):497-508. PMID: 30934147
  • Zhao Y, Blencowe M, Shi X, Shu L et al. Integrative Genomics Analysis Unravels Tissue-Specific Pathways, Networks, and Key Regulators of Blood Pressure Regulation. Front Cardiovasc Med 2019;6:21. PMID: 30931314
  • Li M, Guo Y, Feng YM, Zhang N et al. Identification of Triple-Negative Breast Cancer Genes and a Novel High-Risk Breast Cancer Prediction Model Development Based on PPI Data and Support Vector Machines. Front Genet 2019;10:180. PMID: 30930932
  • Jauhiainen S, Laakkonen JP, Ketola K, Toivanen PI et al. Axon Guidance-Related Factor FLRT3 Regulates VEGF-Signaling and Endothelial Cell Function. Front Physiol 2019;10:224. PMID: 30930791
  • Peterson J, Lin B, Barrios-Camacho CM, Herrick DB et al. Activating a Reserve Neural Stem Cell Population In Vitro Enables Engraftment and Multipotency after Transplantation. Stem Cell Reports 2019 Apr 9;12(4):680-695. PMID: 30930245
  • Cassetta L, Fragkogianni S, Sims AH, Swierczak A et al. Human Tumor-Associated Macrophage and Monocyte Transcriptional Landscapes Reveal Cancer-Specific Reprogramming, Biomarkers, and Therapeutic Targets. Cancer Cell 2019 Apr 15;35(4):588-602.e10. PMID: 30930117
  • Aref-Eshghi E, Bend EG, Colaiacovo S, Caudle M et al. Diagnostic Utility of Genome-wide DNA Methylation Testing in Genetically Unsolved Individuals with Suspected Hereditary Conditions. Am J Hum Genet 2019 Apr 4;104(4):685-700. PMID: 30929737
  • Díaz-Rodríguez E, Pérez-Peña J, Ríos-Luci C, Arribas J et al. TRAIL receptor activation overcomes resistance to trastuzumab in HER2 positive breast cancer cells. Cancer Lett 2019 Jul 1;453:34-44. PMID: 30928382
  • Sachini N, Arampatzi P, Klonizakis A, Nikolaou C et al. Promyelocytic leukemia protein (PML) controls breast cancer cell proliferation by modulating Forkhead transcription factors. Mol Oncol 2019 Jun;13(6):1369-1387. PMID: 30927552
  • Zhou L, Jia S, Chen Y, Wang W et al. The distinct role of CD73 in the progression of pancreatic cancer. J Mol Med (Berl) 2019 Jun;97(6):803-815. PMID: 30927045
  • Oertlin C, Lorent J, Murie C, Furic L et al. Generally applicable transcriptome-wide analysis of translation using anota2seq. Nucleic Acids Res 2019 Jul 9;47(12):e70. PMID: 30926999
  • Kerdidani D, Chouvardas P, Arjo AR, Giopanou I et al. Wnt1 silences chemokine genes in dendritic cells and induces adaptive immune resistance in lung adenocarcinoma. Nat Commun 2019 Mar 29;10(1):1405. PMID: 30926812
  • Weber J, de la Rosa J, Grove CS, Schick M et al. PiggyBac transposon tools for recessive screening identify B-cell lymphoma drivers in mice. Nat Commun 2019 Mar 29;10(1):1415. PMID: 30926791
  • Salas-Pérez F, Ramos-Lopez O, Mansego ML, Milagro FI et al. DNA methylation in genes of longevity-regulating pathways: association with obesity and metabolic complications. Aging (Albany NY) 2019 Mar 29;11(6):1874-1899. PMID: 30926763
  • Zheng X, Xing J, Zhang K, Pang X et al. Ethylene Response Factor ERF11 Activates BT4 Transcription to Regulate Immunity to Pseudomonas syringae. Plant Physiol 2019 Jun;180(2):1132-1151. PMID: 30926656
  • Chen R, He J, Wang Y, Guo Y et al. Qualitative transcriptional signatures for evaluating the maturity degree of pluripotent stem cell-derived cardiomyocytes. Stem Cell Res Ther 2019 Mar 29;10(1):113. PMID: 30925936
  • Chen Q, Zhu J et al. Detecting virus-specific effects on post-infection temporal gene expression. BMC Bioinformatics 2019 Mar 29;20(Suppl 3):129. PMID: 30925863
  • Kawaguchi R, Kiryu H, Iwakiri J, Sese J et al. reactIDR: evaluation of the statistical reproducibility of high-throughput structural analyses towards a robust RNA structure prediction. BMC Bioinformatics 2019 Mar 29;20(Suppl 3):130. PMID: 30925857
  • Ryu J, Kim H, Yang D, Lee AJ et al. A new class of constitutively active super-enhancers is associated with fast recovery of 3D chromatin loops. BMC Bioinformatics 2019 Mar 29;20(Suppl 3):127. PMID: 30925856
  • Lu Y, Fang Z, Li M, Chen Q et al. Dynamic edge-based biomarker non-invasively predicts hepatocellular carcinoma with hepatitis B virus infection for individual patients based on blood testing. J Mol Cell Biol 2019 Aug 19;11(8):665-677. PMID: 30925583
  • Wu DM, Wen X, Han XR, Wang S et al. Bone Marrow Mesenchymal Stem Cell-Derived Exosomal MicroRNA-126-3p Inhibits Pancreatic Cancer Development by Targeting ADAM9. Mol Ther Nucleic Acids 2019 Jun 7;16:229-245. PMID: 30925451
  • Sun W, Dai L, Yu H, Puspita B et al. Monitoring structural modulation of redox-sensitive proteins in cells with MS-CETSA. Redox Biol 2019 Jun;24:101168. PMID: 30925293
  • Zhou C, Pan R, Li B, Huang T et al. GPX3 hypermethylation in gastric cancer and its prognostic value in patients aged over 60. Future Oncol 2019 Apr;15(11):1279-1289. PMID: 30924352
  • Hu X, Hao C, Cheng ZM, Zhong Y et al. Genome-Wide Identification, Characterization, and Expression Analysis of the Grapevine Superoxide Dismutase (SOD) Family. Int J Genomics 2019;2019:7350414. PMID: 30923713
  • Li N, Wang Y, Lu J, Liu C et al. Genome-Wide Identification and Characterization of the ALOG Domain Genes in Rice. Int J Genomics 2019;2019:2146391. PMID: 30923712
  • Zhan Z, Chen Y, Duan Y, Li L et al. Identification of key genes, pathways and potential therapeutic agents for liver fibrosis using an integrated bioinformatics analysis. PeerJ 2019;7:e6645. PMID: 30923657
  • Yu J, Lin Y, Xiong X, Li K et al. Detection of Exosomal PD-L1 RNA in Saliva of Patients With Periodontitis. Front Genet 2019;10:202. PMID: 30923536
  • Pandit A, De Boer RJ et al. Stochastic Inheritance of Division and Death Times Determines the Size and Phenotype of CD8(+) T Cell Families. Front Immunol 2019;10:436. PMID: 30923522
  • Sheng M, Xie X, Wang J, Gu W et al. A Pathway-Based Strategy to Identify Biomarkers for Lung Cancer Diagnosis and Prognosis. Evol Bioinform Online 2019;15:1176934319838494. PMID: 30923439
  • Vodnala SK, Eil R, Kishton RJ, Sukumar M et al. T cell stemness and dysfunction in tumors are triggered by a common mechanism. Science 2019 Mar 29;363(6434). PMID: 30923193
  • Xu ZJ, Ma JC, Zhou JD, Wen XM et al. Reduced protocadherin17 expression in leukemia stem cells: the clinical and biological effect in acute myeloid leukemia. J Transl Med 2019 Mar 29;17(1):102. PMID: 30922328
  • Niu Y, Lin Z, Wan A, Chen H et al. RNA N6-methyladenosine demethylase FTO promotes breast tumor progression through inhibiting BNIP3. Mol Cancer 2019 Mar 28;18(1):46. PMID: 30922314
  • Suzuki A, Horie T, Numabe Y et al. Investigation of molecular biomarker candidates for diagnosis and prognosis of chronic periodontitis by bioinformatics analysis of pooled microarray gene expression datasets in Gene Expression Omnibus (GEO). BMC Oral Health 2019 Mar 28;19(1):52. PMID: 30922293
  • Zhu W, Xu X, Wang X, Liu J et al. Reprogramming histone modification patterns to coordinate gene expression in early zebrafish embryos. BMC Genomics 2019 Mar 28;20(1):248. PMID: 30922236
  • Pichitpunpong C, Thongkorn S, Kanlayaprasit S, Yuwattana W et al. Phenotypic subgrouping and multi-omics analyses reveal reduced diazepam-binding inhibitor (DBI) protein levels in autism spectrum disorder with severe language impairment. PLoS One 2019;14(3):e0214198. PMID: 30921354
  • Chen W, Wu X, Yan X, Xu A et al. Multitranscriptome analyses reveal prioritized genes specifically associated with liver fibrosis progression independent of etiology. Am J Physiol Gastrointest Liver Physiol 2019 Jun 1;316(6):G744-G754. PMID: 30920297
  • Zhang X, Gao C, Liu L, Zhou C et al. DNA methylation-based diagnostic and prognostic biomarkers of nonsmoking lung adenocarcinoma patients. J Cell Biochem 2019 Aug;120(8):13520-13530. PMID: 30920015
  • Guo Y, Yao S, Yuan T, Wang Y et al. The spatiotemporal control of KatG2 catalase-peroxidase contributes to the invasiveness of Fusarium graminearum in host plants. Mol Plant Pathol 2019 May;20(5):685-700. PMID: 30919582
  • Umezaki N, Nakagawa S, Yamashita YI, Kitano Y et al. Lysyl oxidase induces epithelial-mesenchymal transition and predicts intrahepatic metastasis of hepatocellular carcinoma. Cancer Sci 2019 Jun;110(6):2033-2043. PMID: 30919528
  • Ma G, Liu M, Du K, Zhong X et al. Differential Expression of mRNAs in the Brain Tissues of Patients with Alzheimer's Disease Based on GEO Expression Profile and Its Clinical Significance. Biomed Res Int 2019;2019:8179145. PMID: 30918899
  • Zhang Y, He W, Zhang S et al. Seeking for Correlative Genes and Signaling Pathways With Bone Metastasis From Breast Cancer by Integrated Analysis. Front Oncol 2019;9:138. PMID: 30918839
  • Qiao GJ, Chen L, Wu JC, Li ZR et al. Identification of an eight-gene signature for survival prediction for patients with hepatocellular carcinoma based on integrated bioinformatics analysis. PeerJ 2019;7:e6548. PMID: 30918751
  • Niu C, Jiang M, Li N, Cao J et al. Integrated bioinformatics analysis of As, Au, Cd, Pb and Cu heavy metal responsive marker genes through Arabidopsis thaliana GEO datasets. PeerJ 2019;7:e6495. PMID: 30918749
  • Tripathi B, Parthasarathy S, Sinha H, Raman K et al. Adapting Community Detection Algorithms for Disease Module Identification in Heterogeneous Biological Networks. Front Genet 2019;10:164. PMID: 30918511
  • Yang R, Klimentová J, Göckel-Krzikalla E, Ly R et al. Combined Transcriptome and Proteome Analysis of Immortalized Human Keratinocytes Expressing Human Papillomavirus 16 (HPV16) Oncogenes Reveals Novel Key Factors and Networks in HPV-Induced Carcinogenesis. mSphere 2019 Mar 27;4(2). PMID: 30918060
  • Zhou R, Zeng D, Zhang J, Sun H et al. A robust panel based on tumour microenvironment genes for prognostic prediction and tailoring therapies in stage I-III colon cancer. EBioMedicine 2019 Apr;42:420-430. PMID: 30917936
  • Zehnder T, Benner P, Vingron M et al. Predicting enhancers in mammalian genomes using supervised hidden Markov models. BMC Bioinformatics 2019 Mar 27;20(1):157. PMID: 30917778
  • Pervouchine D, Popov Y, Berry A, Borsari B et al. Integrative transcriptomic analysis suggests new autoregulatory splicing events coupled with nonsense-mediated mRNA decay. Nucleic Acids Res 2019 Jun 4;47(10):5293-5306. PMID: 30916337
  • Xiong Y, Mi BB, Liu MF, Xue H et al. Bioinformatics Analysis and Identification of Genes and Molecular Pathways Involved in Synovial Inflammation in Rheumatoid Arthritis. Med Sci Monit 2019 Mar 27;25:2246-2256. PMID: 30916045
  • Xunlu Y, Minshan F, Liguo Z, Jiawen Z et al. Integrative Bioinformatics Analysis Reveals Potential Gene Biomarkers and Analysis of Function in Human Degenerative Disc Annulus Fibrosus Cells. Biomed Res Int 2019;2019:9890279. PMID: 30915367
  • Harrison BJ, Park JW, Gomes C, Petruska JC et al. Detection of Differentially Expressed Cleavage Site Intervals Within 3' Untranslated Regions Using CSI-UTR Reveals Regulated Interaction Motifs. Front Genet 2019;10:182. PMID: 30915105
  • Gülich AF, Preglej T, Hamminger P, Alteneder M et al. Differential Requirement of Cd8 Enhancers E8(I) and E8(VI) in Cytotoxic Lineage T Cells and in Intestinal Intraepithelial Lymphocytes. Front Immunol 2019;10:409. PMID: 30915074
  • Zhang J, Wang J, Marzese DM, Wang X et al. B7H3 regulates differentiation and serves as a potential biomarker and theranostic target for human glioblastoma. Lab Invest 2019 Jul;99(8):1117-1129. PMID: 30914782
  • Yerukala Sathipati S, Sahu D, Huang HC, Lin Y et al. Identification and characterization of the lncRNA signature associated with overall survival in patients with neuroblastoma. Sci Rep 2019 Mar 26;9(1):5125. PMID: 30914706
  • Shi L, Jiang Q, Bushkin Y, Subbian S et al. Biphasic Dynamics of Macrophage Immunometabolism during Mycobacterium tuberculosis Infection. mBio 2019 Mar 26;10(2). PMID: 30914513
  • Mulas C, Kalkan T, von Meyenn F, Leitch HG et al. Defined conditions for propagation and manipulation of mouse embryonic stem cells. Development 2019 Mar 26;146(6). PMID: 30914406
  • Tian K, Wang J, Liu P, Zhang H et al. [Characteristic bioanalysis of skeletal muscle cells gene markers in septic patients]. Zhonghua Wei Zhong Bing Ji Jiu Yi Xue 2019 Mar;31(3):293-297. PMID: 30914088
  • Farbehi N, Patrick R, Dorison A, Xaymardan M et al. Single-cell expression profiling reveals dynamic flux of cardiac stromal, vascular and immune cells in health and injury. Elife 2019 Mar 26;8. PMID: 30912746
  • Basnet H, Tian L, Ganesh K, Huang YH et al. Flura-seq identifies organ-specific metabolic adaptations during early metastatic colonization. Elife 2019 Mar 26;8. PMID: 30912515
  • Pan J, Xiang Z, Dai Q, Wang Z et al. Prediction of platinum-resistance patients of gastric cancer using bioinformatics. J Cell Biochem 2019 Aug;120(8):13478-13486. PMID: 30912200
  • Luan C, Ye Y, Singh T, Barghouth M et al. The calcium channel subunit gamma-4 is regulated by MafA and necessary for pancreatic beta-cell specification. Commun Biol 2019;2:106. PMID: 30911681
  • Quinn MA, McCalla A, He B, Xu X et al. Silencing of maternal hepatic glucocorticoid receptor is essential for normal fetal development in mice. Commun Biol 2019;2:104. PMID: 30911679
  • Eng CL, Lawson M, Zhu Q, Dries R et al. Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH. Nature 2019 Apr;568(7751):235-239. PMID: 30911168
  • Fischer J, Walter C, Tönges A, Aleth H et al. Safeguard function of PU.1 shapes the inflammatory epigenome of neutrophils. Nat Immunol 2019 May;20(5):546-558. PMID: 30911105
  • Dong L, Ma L, Ma GH, Ren H et al. Genome-wide Analysis Reveals DNA Methylation Alterations in Obesity Associated with High Risk of Colorectal Cancer. Sci Rep 2019 Mar 25;9(1):5100. PMID: 30911103
  • Liu X, Gao H, Zhang J, Xue D et al. FAM83D is associated with gender, AJCC stage, overall survival and disease-free survival in hepatocellular carcinoma. Biosci Rep 2019 May 31;39(5). PMID: 30910840
  • Iwasaki M, Hyvärinen L, Piskurewicz U, Lopez-Molina L et al. Non-canonical RNA-directed DNA methylation participates in maternal and environmental control of seed dormancy. Elife 2019 Mar 26;8. PMID: 30910007
  • Li H, Liu L, Zhuang J, Liu C et al. Deciphering the mechanism of Indirubin and its derivatives in the inhibition of Imatinib resistance using a "drug target prediction-gene microarray analysis-protein network construction" strategy. BMC Complement Altern Med 2019 Mar 25;19(1):75. PMID: 30909944
  • Pranavathiyani G, Thanmalagan RR, Leimarembi Devi N, Venkatesan A et al. Integrated transcriptome interactome study of oncogenes and tumor suppressor genes in breast cancer. Genes Dis 2019 Mar;6(1):78-87. PMID: 30906836
  • Yamada Y, Arai T, Kato M, Kojima S et al. Role of pre-miR-532 (miR-532-5p and miR-532-3p) in regulation of gene expression and molecular pathogenesis in renal cell carcinoma. Am J Clin Exp Urol 2019;7(1):11-30. PMID: 30906802
  • Yang MW, Tao LY, Yang JY, Jiang YS et al. SFRP4 is a prognostic marker and correlated with Treg cell infiltration in pancreatic ductal adenocarcinoma. Am J Cancer Res 2019;9(2):363-377. PMID: 30906634
  • Wu J, Wang B, Zhou J, Ji F et al. MicroRNA target gene prediction of ischemic stroke by using variational Bayesian inference for Gauss mixture model. Exp Ther Med 2019 Apr;17(4):2734-2740. PMID: 30906463
  • Hass DT, Barnstable CJ et al. Cell Autonomous Neuroprotection by the Mitochondrial Uncoupling Protein 2 in a Mouse Model of Glaucoma. Front Neurosci 2019;13:201. PMID: 30906248
  • Zhou J, Zheng X, Feng M, Mo Z et al. Upregulated MMP28 in Hepatocellular Carcinoma Promotes Metastasis via Notch3 Signaling and Predicts Unfavorable Prognosis. Int J Biol Sci 2019;15(4):812-825. PMID: 30906212
  • Zhu C, Wu L, Lv Y, Guan J et al. The fusion landscape of hepatocellular carcinoma. Mol Oncol 2019 May;13(5):1214-1225. PMID: 30903738
  • Chen Y, Xu L, Mayakonda A, Huang ML et al. Bromodomain and extraterminal proteins foster the core transcriptional regulatory programs and confer vulnerability in liposarcoma. Nat Commun 2019 Mar 22;10(1):1353. PMID: 30903020
  • Blum Y, Meiller C, Quetel L, Elarouci N et al. Dissecting heterogeneity in malignant pleural mesothelioma through histo-molecular gradients for clinical applications. Nat Commun 2019 Mar 22;10(1):1333. PMID: 30902996
  • Sachs P, Ding D, Bergmaier P, Lamp B et al. SMARCAD1 ATPase activity is required to silence endogenous retroviruses in embryonic stem cells. Nat Commun 2019 Mar 22;10(1):1335. PMID: 30902974
  • Kelly MJ, So J, Rogers AJ, Gregory G et al. Bcor loss perturbs myeloid differentiation and promotes leukaemogenesis. Nat Commun 2019 Mar 22;10(1):1347. PMID: 30902969
  • Lee J, Lee J, Kim JH et al. Scattered DUSP28 is a novel biomarker responsible for aggravating malignancy via the autocrine and paracrine signaling in metastatic pancreatic cancer. Cancer Lett 2019 Aug 1;456:1-12. PMID: 30902562
  • McFarlane S, Orr A, Roberts APE, Conn KL et al. The histone chaperone HIRA promotes the induction of host innate immune defences in response to HSV-1 infection. PLoS Pathog 2019 Mar;15(3):e1007667. PMID: 30901352
  • Holst CB, Brøchner CB, Vitting-Seerup K, Møllgård K et al. Astrogliogenesis in human fetal brain: complex spatiotemporal immunoreactivity patterns of GFAP, S100, AQP4 and YKL-40. J Anat 2019 Sep;235(3):590-615. PMID: 30901080
  • Wang L, Hu J, Qiu D, Gao H et al. Dual-specificity phosphatase 5 suppresses ovarian cancer progression by inhibiting IL-33 signaling. Am J Transl Res 2019;11(2):844-854. PMID: 30899384
  • Behr FM, Kragten NAM, Wesselink TH, Nota B et al. Blimp-1 Rather Than Hobit Drives the Formation of Tissue-Resident Memory CD8(+) T Cells in the Lungs. Front Immunol 2019;10:400. PMID: 30899267
  • Klopfenstein Q, Truntzer C, Vincent J, Ghiringhelli F et al. Cell lines and immune classification of glioblastoma define patient's prognosis. Br J Cancer 2019 Apr;120(8):806-814. PMID: 30899088
  • Trieu T, Oluwadare O, Cheng J et al. Hierarchical Reconstruction of High-Resolution 3D Models of Large Chromosomes. Sci Rep 2019 Mar 21;9(1):4971. PMID: 30899036
  • Qie S, Yoshida A, Parnham S, Oleinik N et al. Targeting glutamine-addiction and overcoming CDK4/6 inhibitor resistance in human esophageal squamous cell carcinoma. Nat Commun 2019 Mar 21;10(1):1296. PMID: 30899002
  • Kapourani CA, Sanguinetti G et al. Melissa: Bayesian clustering and imputation of single-cell methylomes. Genome Biol 2019 Mar 21;20(1):61. PMID: 30898142
  • Cucè M, Gallo Cantafio ME, Siciliano MA, Riillo C et al. Trabectedin triggers direct and NK-mediated cytotoxicity in multiple myeloma. J Hematol Oncol 2019 Mar 21;12(1):32. PMID: 30898137
  • Zhou L, Liu S, Li X, Yin M et al. Diagnostic and prognostic value of CEP55 in clear cell renal cell carcinoma as determined by bioinformatics analysis. Mol Med Rep 2019 May;19(5):3485-3496. PMID: 30896867
  • Gao L, Guo YN, Zeng JH, Ma FC et al. The expression, significance and function of cancer susceptibility candidate 9 in lung squamous cell carcinoma: A bioinformatics and in vitro investigation. Int J Oncol 2019 May;54(5):1651-1664. PMID: 30896821
  • Guo Z, Cao Y et al. An lncRNA‑miRNA‑mRNA ceRNA network for adipocyte differentiation from human adipose‑derived stem cells. Mol Med Rep 2019 May;19(5):4271-4287. PMID: 30896814
  • Li H, Zhang W, Niu C, Lin C et al. Nuclear orphan receptor NR2F6 confers cisplatin resistance in epithelial ovarian cancer cells by activating the Notch3 signaling pathway. Int J Cancer 2019 Oct 1;145(7):1921-1934. PMID: 30895619
  • Spetz J, Langen B, Rudqvist NP, Parris TZ et al. Transcriptional effects of (177)Lu-octreotate therapy using a priming treatment schedule on GOT1 tumor in nude mice. EJNMMI Res 2019 Mar 20;9(1):28. PMID: 30895393
  • Cardozo LE, Russo PST, Gomes-Correia B, Araujo-Pereira M et al. webCEMiTool: Co-expression Modular Analysis Made Easy. Front Genet 2019;10:146. PMID: 30894872
  • Kato M, Natarajan R et al. Epigenetics and epigenomics in diabetic kidney disease and metabolic memory. Nat Rev Nephrol 2019 Jun;15(6):327-345. PMID: 30894700
  • Vijay A, Jha PK, Garg I, Sharma M et al. micro-RNAs dependent regulation of DNMT and HIF1α gene expression in thrombotic disorders. Sci Rep 2019 Mar 20;9(1):4815. PMID: 30894555
  • Shooshtarizadeh P, Helness A, Vadnais C, Brouwer N et al. Gfi1b regulates the level of Wnt/β-catenin signaling in hematopoietic stem cells and megakaryocytes. Nat Commun 2019 Mar 20;10(1):1270. PMID: 30894540
  • Hsing EW, Shiah SG, Peng HY, Chen YW et al. TNF-α-induced miR-450a mediates TMEM182 expression to promote oral squamous cell carcinoma motility. PLoS One 2019;14(3):e0213463. PMID: 30893332
  • Wang K, Wang W, Li M et al. A brief procedure for big data analysis of gene expression. Animal Model Exp Med 2018 Sep;1(3):189-193. PMID: 30891564
  • Twohig JP, Cardus Figueras A, Andrews R, Wiede F et al. Activation of naïve CD4(+) T cells re-tunes STAT1 signaling to deliver unique cytokine responses in memory CD4(+) T cells. Nat Immunol 2019 Apr;20(4):458-470. PMID: 30890796
  • Kaasinen E, Kuismin O, Rajamäki K, Ristolainen H et al. Impact of constitutional TET2 haploinsufficiency on molecular and clinical phenotype in humans. Nat Commun 2019 Mar 19;10(1):1252. PMID: 30890702
  • Ernst C, Eling N, Martinez-Jimenez CP, Marioni JC et al. Staged developmental mapping and X chromosome transcriptional dynamics during mouse spermatogenesis. Nat Commun 2019 Mar 19;10(1):1251. PMID: 30890697
  • Chen Y, Lin Y, Bai Y, Cheng D et al. A Long Noncoding RNA (lncRNA)-Associated Competing Endogenous RNA (ceRNA) Network Identifies Eight lncRNA Biomarkers in Patients with Osteoarthritis of the Knee. Med Sci Monit 2019 Mar 20;25:2058-2065. PMID: 30890688
  • Cao L, Yang G, Gao S, Jing C et al. HIPK2 is necessary for type I interferon-mediated antiviral immunity. Sci Signal 2019 Mar 19;12(573). PMID: 30890658
  • Sun D, Liu M, Huang F, Huang F et al. [Bioinformatics analysis of expression and function of EXD3 gene in gastric cancer]. Nan Fang Yi Ke Da Xue Xue Bao 2019 Feb 28;39(2):215-221. PMID: 30890511
  • Wolf FA, Hamey FK, Plass M, Solana J et al. PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells. Genome Biol 2019 Mar 19;20(1):59. PMID: 30890159
  • Zapata I, Moraes LE, Fiala EM, Zaldivar-Lopez S et al. Risk-modeling of dog osteosarcoma genome scans shows individuals with Mendelian-level polygenic risk are common. BMC Genomics 2019 Mar 19;20(1):226. PMID: 30890123
  • Zhang X, Miao R, Liu T, Xiang X et al. IDH1 as a frequently mutated gene has potential effect on exosomes releasement by epigenetically regulating P2RX7 in intrahepatic cholangiocarcinoma. Biomed Pharmacother 2019 May;113:108774. PMID: 30889491
  • Hsu YH, Estrada K, Evangelou E, Ackert-Bicknell C et al. Meta-Analysis of Genomewide Association Studies Reveals Genetic Variants for Hip Bone Geometry. J Bone Miner Res 2019 Jul;34(7):1284-1296. PMID: 30888730
  • Zhang L, Wang X, Lai C, Zhang H et al. PMEPA1 induces EMT via a non-canonical TGF-β signalling in colorectal cancer. J Cell Mol Med 2019 May;23(5):3603-3615. PMID: 30887697
  • Li Y, He XN, Li C, Gong L et al. Identification of Candidate Genes and MicroRNAs for Acute Myocardial Infarction by Weighted Gene Coexpression Network Analysis. Biomed Res Int 2019;2019:5742608. PMID: 30886860
  • Shi G, Chen L, Chen G, Zou C et al. Identification and Functional Prediction of Long Intergenic Non-coding RNAs Related to Subcutaneous Adipose Development in Pigs. Front Genet 2019;10:160. PMID: 30886630
  • Liu S, Lu M, Li H, Zuo Y et al. Prediction of Gene Expression Patterns With Generalized Linear Regression Model. Front Genet 2019;10:120. PMID: 30886626
  • Dantoft W, Robertson KA, Watkins WJ, Strobl B et al. Metabolic Regulators Nampt and Sirt6 Serially Participate in the Macrophage Interferon Antiviral Cascade. Front Microbiol 2019;10:355. PMID: 30886604
  • Utnes P, Løkke C, Flægstad T, Einvik C et al. Clinically Relevant Biomarker Discovery in High-Risk Recurrent Neuroblastoma. Cancer Inform 2019;18:1176935119832910. PMID: 30886518
  • Deng Y, Bao F, Dai Q, Wu LF et al. Scalable analysis of cell-type composition from single-cell transcriptomics using deep recurrent learning. Nat Methods 2019 Apr;16(4):311-314. PMID: 30886411
  • Zhang Z, Yu D, Seo M, Hersh CP et al. Novel Data Transformations for RNA-seq Differential Expression Analysis. Sci Rep 2019 Mar 18;9(1):4820. PMID: 30886278
  • Jiang P, Scarpa JR, Gao VD, Vitaterna MH et al. Parkinson's Disease is Associated with Dysregulations of a Dopamine-Modulated Gene Network Relevant to Sleep and Affective Neurobehaviors in the Striatum. Sci Rep 2019 Mar 18;9(1):4808. PMID: 30886221
  • Kessler M, Hoffmann K, Fritsche K, Brinkmann V et al. Chronic Chlamydia infection in human organoids increases stemness and promotes age-dependent CpG methylation. Nat Commun 2019 Mar 18;10(1):1194. PMID: 30886143
  • Li Z, Lin Y, Zhang S, Zhou L et al. Emodin regulates neutrophil phenotypes to prevent hypercoagulation and lung carcinogenesis. J Transl Med 2019 Mar 18;17(1):90. PMID: 30885207
  • Xiong Y, Wang L, Jiang W, Pang L et al. MEF2A alters the proliferation, inflammation-related gene expression profiles and its silencing induces cellular senescence in human coronary endothelial cells. BMC Mol Biol 2019 Mar 18;20(1):8. PMID: 30885136
  • Tiong KL, Yeang CH et al. MGSEA - a multivariate Gene set enrichment analysis. BMC Bioinformatics 2019 Mar 18;20(1):145. PMID: 30885118
  • Dell'Aversana C, Cuomo F, Botti C, Maione C et al. Hypoxia-Regulated miRNAs in Human Mesenchymal Stem Cells: Exploring the Regulatory Effects in Ischemic Disorders. Int J Mol Sci 2019 Mar 16;20(6). PMID: 30884856
  • Naka A, Veit J, Shababo B, Chance RK et al. Complementary networks of cortical somatostatin interneurons enforce layer specific control. Elife 2019 Mar 18;8. PMID: 30883329
  • Yin L, Wang Y, Ma G, Deng Y et al. Villi development core-related gene expression associated with lung squamous cancer prognosis. Medicine (Baltimore) 2019 Mar;98(11):e14714. PMID: 30882635
  • Dong Z, Lin W, Kujawa SA, Wu S et al. Predicting MicroRNA Target Genes and Identifying Hub Genes in IIA Stage Colon Cancer Patients Using Bioinformatics Analysis. Biomed Res Int 2019;2019:6341967. PMID: 30881993
  • Liu W, Ye J, Yan H et al. Investigation of Key Genes and Pathways in Inhibition of Oxycodone on Vincristine-Induced Microglia Activation by Using Bioinformatics Analysis. Dis Markers 2019;2019:3521746. PMID: 30881521
  • Feng X, Wang E, Cui Q et al. Gene Expression-Based Predictive Markers for Paclitaxel Treatment in ER+ and ER- Breast Cancer. Front Genet 2019;10:156. PMID: 30881385
  • Mukherjee I, Roy S, Chakrabarti S et al. Identification of Important Effector Proteins in the FOXJ1 Transcriptional Network Associated With Ciliogenesis and Ciliary Function. Front Genet 2019;10:23. PMID: 30881373
  • Zhao H, Bo Q, Wu Z, Liu Q et al. KIF15 promotes bladder cancer proliferation via the MEK-ERK signaling pathway. Cancer Manag Res 2019;11:1857-1868. PMID: 30881113
  • Peng T, Li Z, Li D, Wang S et al. MACC1 promotes angiogenesis in cholangiocarcinoma by upregulating VEGFA. Onco Targets Ther 2019;12:1893-1903. PMID: 30881041
  • He S, Shi J, Mao J, Luo X et al. The expression of miR-375 in prostate cancer: A study based on GEO, TCGA data and bioinformatics analysis. Pathol Res Pract 2019 Jun;215(6):152375. PMID: 30879885
  • Humby F, Lewis M, Ramamoorthi N, Hackney JA et al. Synovial cellular and molecular signatures stratify clinical response to csDMARD therapy and predict radiographic progression in early rheumatoid arthritis patients. Ann Rheum Dis 2019 Jun;78(6):761-772. PMID: 30878974
  • Lehman NL, Usubalieva A, Lin T, Allen SJ et al. Genomic analysis demonstrates that histologically-defined astroblastomas are molecularly heterogeneous and that tumors with MN1 rearrangement exhibit the most favorable prognosis. Acta Neuropathol Commun 2019 Mar 15;7(1):42. PMID: 30876455
  • Winter C, Kosch R, Ludlow M, Osterhaus ADME et al. Network meta-analysis correlates with analysis of merged independent transcriptome expression data. BMC Bioinformatics 2019 Mar 15;20(1):144. PMID: 30876387
  • Ogawa D, Ansari K, Nowicki MO, Salińska E et al. MicroRNA-451 Inhibits Migration of Glioblastoma while Making It More Susceptible to Conventional Therapy. Noncoding RNA 2019 Mar 15;5(1). PMID: 30875963
  • Gorrie-Stone TJ, Smart MC, Saffari A, Malki K et al. Bigmelon: tools for analysing large DNA methylation datasets. Bioinformatics 2019 Mar 15;35(6):981-986. PMID: 30875430
  • Bian Y, Yang L, Zhao M, Li Z et al. Identification of Key Genes and Pathways in Post-traumatic Stress Disorder Using Microarray Analysis. Front Psychol 2019;10:302. PMID: 30873067
  • Wu K, Yin X, Jin Y, Liu F et al. Identification of aberrantly methylated differentially expressed genes in prostate carcinoma using integrated bioinformatics. Cancer Cell Int 2019;19:51. PMID: 30872976
  • Hsu HM, Chu CM, Chang YJ, Yu JC et al. Six novel immunoglobulin genes as biomarkers for better prognosis in triple-negative breast cancer by gene co-expression network analysis. Sci Rep 2019 Mar 14;9(1):4484. PMID: 30872752
  • Yu S, Jiang X, Li J, Li C et al. Comprehensive analysis of the GATA transcription factor gene family in breast carcinoma using gene microarrays, online databases and integrated bioinformatics. Sci Rep 2019 Mar 14;9(1):4467. PMID: 30872657
  • Zhang S, Wang Q, Han Q, Han H et al. Identification and analysis of genes associated with papillary thyroid carcinoma by bioinformatics methods. Biosci Rep 2019 Apr 30;39(4). PMID: 30872410
  • Müller F, Scherer M, Assenov Y, Lutsik P et al. RnBeads 2.0: comprehensive analysis of DNA methylation data. Genome Biol 2019 Mar 14;20(1):55. PMID: 30871603
  • Saik OV, Nimaev VV, Usmonov DB, Demenkov PS et al. Prioritization of genes involved in endothelial cell apoptosis by their implication in lymphedema using an analysis of associative gene networks with ANDSystem. BMC Med Genomics 2019 Mar 13;12(Suppl 2):47. PMID: 30871556
  • Wainer Katsir K, Linial M et al. Human genes escaping X-inactivation revealed by single cell expression data. BMC Genomics 2019 Mar 12;20(1):201. PMID: 30871455
  • Kong W, Zhong H, Gong Z, Fang X et al. Meta-Analysis of Salt Stress Transcriptome Responses in Different Rice Genotypes at the Seedling Stage. Plants (Basel) 2019 Mar 12;8(3). PMID: 30871082
  • Lev I, Gingold H, Rechavi O et al. H3K9me3 is required for inheritance of small RNAs that target a unique subset of newly evolved genes. Elife 2019 Mar 14;8. PMID: 30869075
  • Zhang L, Wang H, Wang C et al. Persistence of smoking induced non-small cell lung carcinogenesis by decreasing ERBB pathway-related microRNA expression. Thorac Cancer 2019 Apr;10(4):890-897. PMID: 30868748
  • Zhong XL, Liao XM, Shen F, Yu HJ et al. Genome-wide profiling of mRNA and lncRNA expression in dengue fever and dengue hemorrhagic fever. FEBS Open Bio 2019 Mar;9(3):468-477. PMID: 30868055
  • Guo L, Chen Y, Luo J, Zheng J et al. YAP1 overexpression is associated with poor prognosis of breast cancer patients and induces breast cancer cell growth by inhibiting PTEN. FEBS Open Bio 2019 Mar;9(3):437-445. PMID: 30868052
  • Xu Y, Geng R, Yuan F, Sun Q et al. Identification of differentially expressed key genes between glioblastoma and low-grade glioma by bioinformatics analysis. PeerJ 2019;7:e6560. PMID: 30867991
  • Deng F, Zhou R, Lin C, Yang S et al. Tumor-secreted dickkopf2 accelerates aerobic glycolysis and promotes angiogenesis in colorectal cancer. Theranostics 2019;9(4):1001-1014. PMID: 30867812
  • Zhang Q, Zhang Q, Jiang X, Ye Y et al. Collaborative ISL1/GATA3 interaction in controlling neuroblastoma oncogenic pathways overlapping with but distinct from MYCN. Theranostics 2019;9(4):986-1000. PMID: 30867811
  • Jiang K, Liu H, Xie D, Xiao Q et al. Differentially expressed genes ASPN, COL1A1, FN1, VCAN and MUC5AC are potential prognostic biomarkers for gastric cancer. Oncol Lett 2019 Mar;17(3):3191-3202. PMID: 30867749
  • Tan Y, Liu L et al. Prediction of pivotal pathways and hub genes associated with osteoporosis by Gibbs sampling. Exp Ther Med 2019 Mar;17(3):2107-2112. PMID: 30867698
  • Tong Y, Song Y, Deng S et al. Combined analysis and validation for DNA methylation and gene expression profiles associated with prostate cancer. Cancer Cell Int 2019;19:50. PMID: 30867653
  • Huang H, Weng H, Zhou K, Wu T et al. Histone H3 trimethylation at lysine 36 guides m(6)A RNA modification co-transcriptionally. Nature 2019 Mar;567(7748):414-419. PMID: 30867593
  • Mishra P, Ngo J, Ashkani J, Pio F et al. Meta-analysis suggests evidence of novel stress-related pathway components in Orsay virus - Caenorhabditis elegans viral model. Sci Rep 2019 Mar 13;9(1):4399. PMID: 30867481
  • Talifu A, Saimaiti R, Maitinuer Y, Liu G et al. Multiomics analysis profile acute liver injury module clusters to compare the therapeutic efficacy of bifendate and muaddil sapra. Sci Rep 2019 Mar 13;9(1):4335. PMID: 30867448
  • Gonen N, Sabath N, Burge CB, Shalgi R et al. Widespread PERK-dependent repression of ER targets in response to ER stress. Sci Rep 2019 Mar 13;9(1):4330. PMID: 30867432
  • Ecker BL, Lee JY, Sterner CJ, Solomon AC et al. Impact of obesity on breast cancer recurrence and minimal residual disease. Breast Cancer Res 2019 Mar 13;21(1):41. PMID: 30867005
  • Jiao J, Sagnelli M, Shi B, Fang Y et al. Genetic and epigenetic characteristics in ovarian tissues from polycystic ovary syndrome patients with irregular menstruation resemble those of ovarian cancer. BMC Endocr Disord 2019 Mar 12;19(1):30. PMID: 30866919
  • Liu J, Liu Z, Zhang X, Gong T et al. Bioinformatic exploration of OLFML2B overexpression in gastric cancer base on multiple analyzing tools. BMC Cancer 2019 Mar 13;19(1):227. PMID: 30866865
  • Lahiri A, Venkatasubramani PS, Datta A et al. Bayesian modeling of plant drought resistance pathway. BMC Plant Biol 2019 Mar 12;19(1):96. PMID: 30866813
  • Li K, Qiu C, Sun P, Liu DC et al. Ets1-Mediated Acetylation of FoxO1 Is Critical for Gluconeogenesis Regulation during Feed-Fast Cycles. Cell Rep 2019 Mar 12;26(11):2998-3010.e5. PMID: 30865889
  • Jabbari K, Wirtz J, Rauscher M, Wiehe T et al. A common genomic code for chromatin architecture and recombination landscape. PLoS One 2019;14(3):e0213278. PMID: 30865674
  • Zhou G, Zhang X, Wang W, Zhang W et al. Both Peripheral Blood and Urinary miR-195-5p, miR-192-3p, miR-328-5p and Their Target Genes PPM1A, RAB1A and BRSK1 May Be Potential Biomarkers for Membranous Nephropathy. Med Sci Monit 2019 Mar 13;25:1903-1916. PMID: 30865617
  • Lang Y, Zhang J, Yuan Z et al. Construction and dissection of the ceRNA‑ceRNA network reveals critical modules in depression. Mol Med Rep 2019 May;19(5):3411-3420. PMID: 30864711
  • Feng Y, Hang W, Sang Z, Li S et al. Identification of exosomal and non‑exosomal microRNAs associated with the drug resistance of ovarian cancer. Mol Med Rep 2019 May;19(5):3376-3392. PMID: 30864705
  • He K, Zhou X, Jiang H, Wen X et al. False discovery control for penalized variable selections with high-dimensional covariates. Stat Appl Genet Mol Biol 2018 Dec 15;17(6). PMID: 30864387
  • Xie D, Zhou Y, Luo X et al. Amorphous silica nanoparticles induce tumorigenesis via regulating ATP5H/SOD1-related oxidative stress, oxidative phosphorylation and EIF4G2/PABPC1-associated translational initiation. PeerJ 2019;7:e6455. PMID: 30863671
  • Cherradi S, Martineau P, Gongora C, Del Rio M et al. Claudin gene expression profiles and clinical value in colorectal tumors classified according to their molecular subtype. Cancer Manag Res 2019;11:1337-1348. PMID: 30863148
  • Wang Y, Yang S, Zhao J, Du W et al. Using Machine Learning to Measure Relatedness Between Genes: A Multi-Features Model. Sci Rep 2019 Mar 12;9(1):4192. PMID: 30862804
  • Francesconi M, Di Stefano B, Berenguer C, de Andrés-Aguayo L et al. Single cell RNA-seq identifies the origins of heterogeneity in efficient cell transdifferentiation and reprogramming. Elife 2019 Mar 12;8. PMID: 30860479
  • Wei CJ, Cui P, Li H, Lang WJ et al. Shared genes between Alzheimer's disease and ischemic stroke. CNS Neurosci Ther 2019 Aug;25(8):855-864. PMID: 30859738
  • Wang X, Ghareeb WM, Zhang Y, Yu Q et al. Hypermethylated and downregulated MEIS2 are involved in stemness properties and oxaliplatin-based chemotherapy resistance of colorectal cancer. J Cell Physiol 2019 Aug;234(10):18180-18191. PMID: 30859572
  • Greenberg SA, Kong SW, Thompson E, Gulla SV et al. Co-inhibitory T cell receptor KLRG1: human cancer expression and efficacy of neutralization in murine cancer models. Oncotarget 2019 Feb 15;10(14):1399-1406. PMID: 30858925
  • Syafruddin SE, Rodrigues P, Vojtasova E, Patel SA et al. A KLF6-driven transcriptional network links lipid homeostasis and tumour growth in renal carcinoma. Nat Commun 2019 Mar 11;10(1):1152. PMID: 30858363
  • Eykelenboom JK, Gierliński M, Yue Z, Hegarat N et al. Live imaging of marked chromosome regions reveals their dynamic resolution and compaction in mitosis. J Cell Biol 2019 May 6;218(5):1531-1552. PMID: 30858191
  • Pin-On P, Aporntewan C, Siriluksana J, Bhummaphan N et al. Targeting high transcriptional control activity of long mononucleotide A-T repeats in cancer by Argonaute 1. Gene 2019 May 30;699:54-61. PMID: 30858133
  • Zhou C, Chen Y, Kang W, Lv H et al. Mir-455-3p-1 represses FGF7 expression to inhibit pulmonary arterial hypertension through inhibiting the RAS/ERK signaling pathway. J Mol Cell Cardiol 2019 May;130:23-35. PMID: 30858037
  • Salinas EA, Miller MD, Newtson AM, Sharma D et al. A Prediction Model for Preoperative Risk Assessment in Endometrial Cancer Utilizing Clinical and Molecular Variables. Int J Mol Sci 2019 Mar 9;20(5). PMID: 30857319
  • de Almeida BP, Vieira AF, Paredes J, Bettencourt-Dias M et al. Pan-cancer association of a centrosome amplification gene expression signature with genomic alterations and clinical outcome. PLoS Comput Biol 2019 Mar;15(3):e1006832. PMID: 30856170
  • Zhang H, Wang Y, Chen T, Zhang Y et al. Aberrant Activation Of Hedgehog Signalling Promotes Cell Migration And Invasion Via Matrix Metalloproteinase-7 In Ovarian Cancer Cells. J Cancer 2019;10(4):990-1003. PMID: 30854105
  • Dai D, Zhou B, Xu W, Jin H et al. CHFR Promoter Hypermethylation Is Associated with Gastric Cancer and Plays a Protective Role in Gastric Cancer Process. J Cancer 2019;10(4):949-956. PMID: 30854101
  • Bo H, Cao K, Tang R, Zhang H et al. A network-based approach to identify DNA methylation and its involved molecular pathways in testicular germ cell tumors. J Cancer 2019;10(4):893-902. PMID: 30854095
  • Han X, Huang C, Qu X, Liu S et al. Tripartite motif-containing 15 overexpression in non-small cell lung cancer is associated with poor patient prognoses. J Cancer 2019;10(4):843-852. PMID: 30854090
  • Qi F, Qin WX, Zang YS et al. Molecular mechanism of triple-negative breast cancer-associated BRCA1 and the identification of signaling pathways. Oncol Lett 2019 Mar;17(3):2905-2914. PMID: 30854067
  • Yan W, Li SX, Gao H, Yang W et al. Identification of B-cell translocation gene 1-controlled gene networks in diffuse large B-cell lymphoma: A study based on bioinformatics analysis. Oncol Lett 2019 Mar;17(3):2825-2835. PMID: 30854058
  • Schlicht K, Nyczka P, Caliebe A, Freitag-Wolf S et al. The metabolic network coherence of human transcriptomes is associated with genetic variation at the cadherin 18 locus. Hum Genet 2019 Apr;138(4):375-388. PMID: 30852652
  • Jayanthi VSPKSA, Das AB, Saxena U et al. Grade-specific diagnostic and prognostic biomarkers in breast cancer. Genomics 2020 Jan;112(1):388-396. PMID: 30851359
  • Li R, Zhou R, Wang H, Li W et al. Gut microbiota-stimulated cathepsin K secretion mediates TLR4-dependent M2 macrophage polarization and promotes tumor metastasis in colorectal cancer. Cell Death Differ 2019 Nov;26(11):2447-2463. PMID: 30850734
  • Frank AC, Ebersberger S, Fink AF, Lampe S et al. Apoptotic tumor cell-derived microRNA-375 uses CD36 to alter the tumor-associated macrophage phenotype. Nat Commun 2019 Mar 8;10(1):1135. PMID: 30850595
  • Wang GZ, Zhang L, Zhao XC, Gao SH et al. The Aryl hydrocarbon receptor mediates tobacco-induced PD-L1 expression and is associated with response to immunotherapy. Nat Commun 2019 Mar 8;10(1):1125. PMID: 30850589
  • Zhang H, Pan YZ, Cheung M, Cao M et al. LAMB3 mediates apoptotic, proliferative, invasive, and metastatic behaviors in pancreatic cancer by regulating the PI3K/Akt signaling pathway. Cell Death Dis 2019 Mar 8;10(3):230. PMID: 30850586
  • O'Koren EG, Yu C, Klingeborn M, Wong AYW et al. Microglial Function Is Distinct in Different Anatomical Locations during Retinal Homeostasis and Degeneration. Immunity 2019 Mar 19;50(3):723-737.e7. PMID: 30850344
  • Smit SJ, Vivier MA, Young PR et al. Linking Terpene Synthases to Sesquiterpene Metabolism in Grapevine Flowers. Front Plant Sci 2019;10:177. PMID: 30846994
  • Coleman DJ, Gao L, Schwartzman J, Korkola JE et al. Maintenance of MYC expression promotes de novo resistance to BET bromodomain inhibition in castration-resistant prostate cancer. Sci Rep 2019 Mar 7;9(1):3823. PMID: 30846826
  • Dvoriantchikova G, Seemungal RJ, Ivanov D et al. The epigenetic basis for the impaired ability of adult murine retinal pigment epithelium cells to regenerate retinal tissue. Sci Rep 2019 Mar 7;9(1):3860. PMID: 30846751
  • Heurtier V, Owens N, Gonzalez I, Mueller F et al. The molecular logic of Nanog-induced self-renewal in mouse embryonic stem cells. Nat Commun 2019 Mar 7;10(1):1109. PMID: 30846691
  • Crow M, Lim N, Ballouz S, Pavlidis P et al. Predictability of human differential gene expression. Proc Natl Acad Sci U S A 2019 Mar 26;116(13):6491-6500. PMID: 30846554
  • Seah MKY, Wang Y, Goy PA, Loh HM et al. The KRAB-zinc-finger protein ZFP708 mediates epigenetic repression at RMER19B retrotransposons. Development 2019 Jul 10;146(19). PMID: 30846446
  • Pece S, Disalvatore D, Tosoni D, Vecchi M et al. Identification and clinical validation of a multigene assay that interrogates the biology of cancer stem cells and predicts metastasis in breast cancer: A retrospective consecutive study. EBioMedicine 2019 Apr;42:352-362. PMID: 30846393
  • Lv S, Wang W, Wang H, Zhu Y et al. PPARγ activation serves as therapeutic strategy against bladder cancer via inhibiting PI3K-Akt signaling pathway. BMC Cancer 2019 Mar 7;19(1):204. PMID: 30845932
  • Badr MT, Häcker G et al. Gene expression profiling meta-analysis reveals novel gene signatures and pathways shared between tuberculosis and rheumatoid arthritis. PLoS One 2019;14(3):e0213470. PMID: 30845171
  • Liu YJ, Janssens GE, McIntyre RL, Molenaars M et al. Glycine promotes longevity in Caenorhabditis elegans in a methionine cycle-dependent fashion. PLoS Genet 2019 Mar;15(3):e1007633. PMID: 30845140
  • Miao L, Yin RX, Zhang QH, Hu XJ et al. Integrated DNA methylation and gene expression analysis in the pathogenesis of coronary artery disease. Aging (Albany NY) 2019 Mar 7;11(5):1486-1500. PMID: 30844764
  • Maglione PJ, Gyimesi G, Cols M, Radigan L et al. BAFF-driven B cell hyperplasia underlies lung disease in common variable immunodeficiency. JCI Insight 2019 Mar 7;4(5). PMID: 30843876
  • He W, Wang B, Li Q, Yao Q et al. Aberrant Expressions of Co-stimulatory and Co-inhibitory Molecules in Autoimmune Diseases. Front Immunol 2019;10:261. PMID: 30842773
  • Shiraishi K, Shichino S, Tsukui T, Hashimoto S et al. Engraftment and proliferation potential of embryonic lung tissue cells in irradiated mice with emphysema. Sci Rep 2019 Mar 6;9(1):3657. PMID: 30842492
  • Ou J, Peng Y, Yang W, Zhang Y et al. ABHD5 blunts the sensitivity of colorectal cancer to fluorouracil via promoting autophagic uracil yield. Nat Commun 2019 Mar 6;10(1):1078. PMID: 30842415
  • Zhao P, Wu J, Lu F, Peng X et al. The imbalance in the complement system and its possible physiological mechanisms in patients with lung cancer. BMC Cancer 2019 Mar 6;19(1):201. PMID: 30841875
  • Łastowska M, Karkucińska-Więckowska A, Waschek JA, Niewiadomski P et al. Differential Expression of Mitochondrial Biogenesis Markers in Mouse and Human SHH-Subtype Medulloblastoma. Cells 2019 Mar 5;8(3). PMID: 30841515
  • Colunga T, Hayworth M, Kreß S, Reynolds DM et al. Human Pluripotent Stem Cell-Derived Multipotent Vascular Progenitors of the Mesothelium Lineage Have Utility in Tissue Engineering and Repair. Cell Rep 2019 Mar 5;26(10):2566-2579.e10. PMID: 30840882
  • Miura K, Harikae K, Nakaguchi M, Imaimatsu K et al. Molecular and genetic characterization of partial masculinization in embryonic ovaries grafted into male nude mice. PLoS One 2019;14(3):e0212367. PMID: 30840652
  • Cesari G, Algaba E, Moretti S, Nepomuceno JA et al. An application of the Shapley value to the analysis of co-expression networks. Appl Netw Sci 2018;3(1):35. PMID: 30839839
  • Chen B, Sun H, Zhao Y, Lun P et al. An 85-Gene Coexpression Module for Progression of Hypertension-Induced Spontaneous Intracerebral Hemorrhage. DNA Cell Biol 2019 May;38(5):449-456. PMID: 30839233
  • Goulart MR, Hlavaty SI, Chang YM, Polton G et al. Phenotypic and transcriptomic characterization of canine myeloid-derived suppressor cells. Sci Rep 2019 Mar 5;9(1):3574. PMID: 30837603
  • Hamdane N, Jühling F, Crouchet E, El Saghire H et al. HCV-Induced Epigenetic Changes Associated With Liver Cancer Risk Persist After Sustained Virologic Response. Gastroenterology 2019 Jun;156(8):2313-2329.e7. PMID: 30836093
  • Bradley PH, Gibney PA, Botstein D, Troyanskaya OG et al. Minor Isozymes Tailor Yeast Metabolism to Carbon Availability. mSystems 2019 Jan-Feb;4(1). PMID: 30834327
  • Sibley L, Gooch K, Wareham A, Gray S et al. Differences in monocyte: lymphocyte ratio and Tuberculosis disease progression in genetically distinct populations of macaques. Sci Rep 2019 Mar 4;9(1):3340. PMID: 30833652
  • Gorbatenko A, Søkilde R, Sorensen EE, Newie I et al. HER2 and p95HER2 differentially regulate miRNA expression in MCF-7 breast cancer cells and downregulate MYB proteins through miR-221/222 and miR-503. Sci Rep 2019 Mar 4;9(1):3352. PMID: 30833639
  • Wiberg A, Ng M, Schmid AB, Smillie RW et al. A genome-wide association analysis identifies 16 novel susceptibility loci for carpal tunnel syndrome. Nat Commun 2019 Mar 4;10(1):1030. PMID: 30833571
  • Wei CY, Zhu MX, Yang YW, Zhang PF et al. Downregulation of RNF128 activates Wnt/β-catenin signaling to induce cellular EMT and stemness via CD44 and CTTN ubiquitination in melanoma. J Hematol Oncol 2019 Mar 4;12(1):21. PMID: 30832692
  • Song Q, Shang J, Yang Z, Zhang L et al. Identification of an immune signature predicting prognosis risk of patients in lung adenocarcinoma. J Transl Med 2019 Mar 4;17(1):70. PMID: 30832680
  • Chen YJ, Guo YN, Shi K, Huang HM et al. Down-regulation of microRNA-144-3p and its clinical value in non-small cell lung cancer: a comprehensive analysis based on microarray, miRNA-sequencing, and quantitative real-time PCR data. Respir Res 2019 Mar 4;20(1):48. PMID: 30832674
  • Currey N, Jahan Z, Caldon CE, Tran PN et al. Mouse Model of Mutated in Colorectal Cancer Gene Deletion Reveals Novel Pathways in Inflammation and Cancer. Cell Mol Gastroenterol Hepatol 2019;7(4):819-839. PMID: 30831321
  • Lai PMR, Du R et al. Differentially Expressed Genes Associated with the Estrogen Receptor Pathway in Cerebral Aneurysms. World Neurosurg 2019 Jun;126:e557-e563. PMID: 30831289
  • Wiegmans AP, Saunus JM, Ham S, Lobb R et al. Secreted cellular prion protein binds doxorubicin and correlates with anthracycline resistance in breast cancer. JCI Insight 2019 Feb 26;5(6). PMID: 30830863
  • Ge Y, He Z, Xiang Y, Wang D et al. The identification of key genes in nasopharyngeal carcinoma by bioinformatics analysis of high-throughput data. Mol Biol Rep 2019 Jun;46(3):2829-2840. PMID: 30830589
  • Eugene AR, Masiak J, Eugene B et al. Predicting lithium treatment response in bipolar patients using gender-specific gene expression biomarkers and machine learning. F1000Res 2018;7:474. PMID: 30828420
  • Liu L, Li QZ, Jin W, Lv H et al. Revealing Gene Function and Transcription Relationship by Reconstructing Gene-Level Chromatin Interaction. Comput Struct Biotechnol J 2019;17:195-205. PMID: 30828411
  • Reina-Campos M, Linares JF, Duran A, Cordes T et al. Increased Serine and One-Carbon Pathway Metabolism by PKCλ/ι Deficiency Promotes Neuroendocrine Prostate Cancer. Cancer Cell 2019 Mar 18;35(3):385-400.e9. PMID: 30827887
  • Li C, Zhou D, Jiang X, Liu M et al. Identifying hepatocellular carcinoma-related hub genes by bioinformatics analysis and CYP2C8 is a potential prognostic biomarker. Gene 2019 May 25;698:9-18. PMID: 30825595
  • Shang J, Wang S, Jiang Y, Duan Y et al. Identification of key lncRNAs contributing to diabetic nephropathy by gene co-expression network analysis. Sci Rep 2019 Mar 1;9(1):3328. PMID: 30824724
  • Dong S, Wang R, Wang H, Ding Q et al. HOXD-AS1 promotes the epithelial to mesenchymal transition of ovarian cancer cells by regulating miR-186-5p and PIK3R3. J Exp Clin Cancer Res 2019 Mar 1;38(1):110. PMID: 30823895
  • Lei X, Wang S, Wu F et al. Identification of Essential Proteins Based on Improved HITS Algorithm. Genes (Basel) 2019 Feb 25;10(2). PMID: 30823614
  • Lu TP, Kuo KT, Chen CH, Chang MC et al. Developing a Prognostic Gene Panel of Epithelial Ovarian Cancer Patients by a Machine Learning Model. Cancers (Basel) 2019 Feb 25;11(2). PMID: 30823599
  • Shen H, Zhang J, Zhang Y, Feng Q et al. Knockdown of tripartite motif 59 (TRIM59) inhibits proliferation in cholangiocarcinoma via the PI3K/AKT/mTOR signalling pathway. Gene 2019 May 25;698:50-60. PMID: 30822475
  • Zhang J, Chen H, Li R, Taft DA et al. Spatial clustering and common regulatory elements correlate with coordinated gene expression. PLoS Comput Biol 2019 Mar;15(3):e1006786. PMID: 30822341
  • Berchtold E, Csaba G, Zimmer R et al. YESdb: integrative analysis of environmental stress in yeast. Database (Oxford) 2019 Jan 1;2019. PMID: 30821814
  • Ma KY, Schonnesen AA, Brock A, Van Den Berg C et al. Single-cell RNA sequencing of lung adenocarcinoma reveals heterogeneity of immune response-related genes. JCI Insight 2019 Feb 21;4(4). PMID: 30821712
  • Hao Y, Kacal M, Ouchida AT, Zhang B et al. Targetome analysis of chaperone-mediated autophagy in cancer cells. Autophagy 2019 Sep;15(9):1558-1571. PMID: 30821613
  • Nunes C, Mestre I, Marcelo A, Koppenol R et al. MSGP: the first database of the protein components of the mammalian stress granules. Database (Oxford) 2019 Jan 1;2019. PMID: 30820574
  • Dong J, Pan YB, Wu XR, He LN et al. A neuronal molecular switch through cell-cell contact that regulates quiescent neural stem cells. Sci Adv 2019 Feb;5(2):eaav4416. PMID: 30820459
  • Kamieniarz-Gdula K, Gdula MR, Panser K, Nojima T et al. Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination. Mol Cell 2019 Apr 4;74(1):158-172.e9. PMID: 30819644
  • Yan H, Li M, Cao L, Chen H et al. A robust qualitative transcriptional signature for the correct pathological diagnosis of gastric cancer. J Transl Med 2019 Feb 28;17(1):63. PMID: 30819200
  • Arai T, Kojima S, Yamada Y, Sugawara S et al. Micro-ribonucleic acid expression signature of metastatic castration-resistant prostate cancer: Regulation of NCAPH by antitumor miR-199a/b-3p. Int J Urol 2019 Apr;26(4):506-520. PMID: 30818424
  • Damiani C, Maspero D, Di Filippo M, Colombo R et al. Integration of single-cell RNA-seq data into population models to characterize cancer metabolism. PLoS Comput Biol 2019 Feb;15(2):e1006733. PMID: 30818329
  • Yi Y, Liu Y, Wu W, Wu K et al. Reconstruction and analysis of circRNA‑miRNA‑mRNA network in the pathology of cervical cancer. Oncol Rep 2019 Apr;41(4):2209-2225. PMID: 30816541
  • Xiong DD, Xu WQ, He RQ, Dang YW et al. In silico analysis identified miRNA‑based therapeutic agents against glioblastoma multiforme. Oncol Rep 2019 Apr;41(4):2194-2208. PMID: 30816530
  • Bi Y, Meng Y, Niu Y, Li S et al. Genome‑wide DNA methylation profile of thymomas and potential epigenetic regulation of thymoma subtypes. Oncol Rep 2019 May;41(5):2762-2774. PMID: 30816514
  • Shen Z, Zhu L, Zhang C, Cui X et al. Overexpression of BHLHE41, correlated with DNA hypomethylation in 3'UTR region, promotes the growth of human clear cell renal cell carcinoma. Oncol Rep 2019 Apr;41(4):2137-2147. PMID: 30816499
  • Chu Z, Zhang X, Li Q, Hu G et al. CDC20 contributes to the development of human cutaneous squamous cell carcinoma through the Wnt/β‑catenin signaling pathway. Int J Oncol 2019 May;54(5):1534-1544. PMID: 30816486
  • Li Y, Xiao F, Li W, Hu P et al. Overexpression of Opa interacting protein 5 increases the progression of liver cancer via BMPR2/JUN/CHEK1/RAC1 dysregulation. Oncol Rep 2019 Apr;41(4):2075-2088. PMID: 30816485
  • Zhang S, Ding L, Li X, Fan H et al. Identification of biomarkers associated with the recurrence of osteosarcoma using ceRNA regulatory network analysis. Int J Mol Med 2019 Apr;43(4):1723-1733. PMID: 30816442
  • Ahn J, Wu H, Lee K et al. Integrative Analysis Revealing Human Adipose-Specific Genes and Consolidating Obesity Loci. Sci Rep 2019 Feb 28;9(1):3087. PMID: 30816281
  • Hiramatsu S, Watanabe KS, Zeggar S, Asano Y et al. Regulation of Cathepsin E gene expression by the transcription factor Kaiso in MRL/lpr mice derived CD4+ T cells. Sci Rep 2019 Feb 28;9(1):3054. PMID: 30816218
  • Kan M, Shumyatcher M, Diwadkar A, Soliman G et al. Integration of Transcriptomic Data Identifies Global and Cell-Specific Asthma-Related Gene Expression Signatures. AMIA Annu Symp Proc 2018;2018:1338-1347. PMID: 30815178
  • Berrios DC, Beheshti A, Costes SV et al. FAIRness and Usability for Open-access Omics Data Systems. AMIA Annu Symp Proc 2018;2018:232-241. PMID: 30815061
  • Moradzadeh K, Gheisari Y et al. The analysis of a time-course transcriptome profile by systems biology approaches reveals key molecular processes in acute kidney injury. J Res Med Sci 2019;24:3. PMID: 30815016
  • Öztemur Islakoğlu Y, Noyan S, Gür Dedeoğlu B et al. hsa-miR-301a- and SOX10-dependent miRNA-TF-mRNA regulatory circuits in breast cancer. Turk J Biol 2018;42(2):103-112. PMID: 30814872
  • Subramanian VV, Zhu X, Markowitz TE, Vale-Silva LA et al. Persistent DNA-break potential near telomeres increases initiation of meiotic recombination on short chromosomes. Nat Commun 2019 Feb 27;10(1):970. PMID: 30814509
  • Sasako T, Ohsugi M, Kubota N, Itoh S et al. Hepatic Sdf2l1 controls feeding-induced ER stress and regulates metabolism. Nat Commun 2019 Feb 27;10(1):947. PMID: 30814508
  • Angelidis I, Simon LM, Fernandez IE, Strunz M et al. An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics. Nat Commun 2019 Feb 27;10(1):963. PMID: 30814501
  • Peixoto P, Etcheverry A, Aubry M, Missey A et al. EMT is associated with an epigenetic signature of ECM remodeling genes. Cell Death Dis 2019 Feb 27;10(3):205. PMID: 30814494
  • Banerjee S, Gusho E, Gaughan C, Dong B et al. OAS-RNase L innate immune pathway mediates the cytotoxicity of a DNA-demethylating drug. Proc Natl Acad Sci U S A 2019 Mar 12;116(11):5071-5076. PMID: 30814222
  • Sainz de Aja J, Menchero S, Rollan I, Barral A et al. The pluripotency factor NANOG controls primitive hematopoiesis and directly regulates Tal1. EMBO J 2019 Apr 1;38(7). PMID: 30814124
  • Muller J, Duray E, Lejeune M, Dubois S et al. Loss of Stromal Galectin-1 Enhances Multiple Myeloma Development: Emphasis on a Role in Osteoclasts. Cancers (Basel) 2019 Feb 23;11(2). PMID: 30813402
  • Uchida A, Seki N, Mizuno K, Yamada Y et al. Regulation of KIF2A by Antitumor miR-451a Inhibits Cancer Cell Aggressiveness Features in Lung Squamous Cell Carcinoma. Cancers (Basel) 2019 Feb 22;11(2). PMID: 30813343
  • Fang L, Zhou Y, Liu S, Jiang J et al. Comparative analyses of sperm DNA methylomes among human, mouse and cattle provide insights into epigenomic evolution and complex traits. Epigenetics 2019 Mar;14(3):260-276. PMID: 30810461
  • Gong R, Ren S, Chen M, Wang Y et al. Bioinformatics Analysis Reveals the Altered Gene Expression of Patients with Postmenopausal Osteoporosis Using Liuweidihuang Pills Treatment. Biomed Res Int 2019;2019:1907906. PMID: 30809532
  • Morard M, Macías LG, Adam AC, Lairón-Peris M et al. Aneuploidy and Ethanol Tolerance in Saccharomyces cerevisiae. Front Genet 2019;10:82. PMID: 30809248
  • Oosterhoff LA, Kruitwagen HS, van Wolferen ME, van Balkom BWM et al. Characterization of Endothelial and Smooth Muscle Cells From Different Canine Vessels. Front Physiol 2019;10:101. PMID: 30809157
  • Lee J, Lee J, Choi C, Kim JH et al. Blockade of integrin α3 attenuates human pancreatic cancer via inhibition of EGFR signalling. Sci Rep 2019 Feb 26;9(1):2793. PMID: 30808960
  • Pabon NA, Zhang Q, Cruz JA, Schipper DL et al. A network-centric approach to drugging TNF-induced NF-κB signaling. Nat Commun 2019 Feb 26;10(1):860. PMID: 30808860
  • Sun K, Jiang P, Cheng SH, Cheng THT et al. Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin. Genome Res 2019 Mar;29(3):418-427. PMID: 30808726
  • Monteagudo-Sánchez A, Sánchez-Delgado M, Mora JRH, Santamaría NT et al. Differences in expression rather than methylation at placenta-specific imprinted loci is associated with intrauterine growth restriction. Clin Epigenetics 2019 Feb 26;11(1):35. PMID: 30808399
  • Li Z, Schulz MH, Look T, Begemann M et al. Identification of transcription factor binding sites using ATAC-seq. Genome Biol 2019 Feb 26;20(1):45. PMID: 30808370
  • Makondi PT, Wei PL, Huang CY, Chang YJ et al. Development of novel predictive miRNA/target gene pathways for colorectal cancer distance metastasis to the liver using a bioinformatic approach. PLoS One 2019;14(2):e0211968. PMID: 30807603
  • Magli A, Baik J, Mills LJ, Kwak IY et al. Time-dependent Pax3-mediated chromatin remodeling and cooperation with Six4 and Tead2 specify the skeletal myogenic lineage in developing mesoderm. PLoS Biol 2019 Feb;17(2):e3000153. PMID: 30807574
  • Gong J, Wang F, Xiao B, Panjwani N et al. Genetic association and transcriptome integration identify contributing genes and tissues at cystic fibrosis modifier loci. PLoS Genet 2019 Feb;15(2):e1008007. PMID: 30807572
  • Liu X, Chen S, Chen M, Zheng G et al. Association Study Reveals Genetic Loci Responsible for Arsenic, Cadmium and Lead Accumulation in Rice Grain in Contaminated Farmlands. Front Plant Sci 2019;10:61. PMID: 30804959
  • Mariotti B, Servaas NH, Rossato M, Tamassia N et al. The Long Non-coding RNA NRIR Drives IFN-Response in Monocytes: Implication for Systemic Sclerosis. Front Immunol 2019;10:100. PMID: 30804934
  • Torres A, Kasturiarachi N, DuPont M, Cooper VS et al. NADH Dehydrogenases in Pseudomonas aeruginosa Growth and Virulence. Front Microbiol 2019;10:75. PMID: 30804898
  • Wang H, Liu R, Schyman P, Wallqvist A et al. Deep Neural Network Models for Predicting Chemically Induced Liver Toxicity Endpoints From Transcriptomic Responses. Front Pharmacol 2019;10:42. PMID: 30804783
  • Yadav BS, Mani A et al. Analysis of bHLH coding genes of Cicer arietinum during heavy metal stress using biological network. Physiol Mol Biol Plants 2019 Jan;25(1):113-121. PMID: 30804634
  • Jeon HY, Ham SW, Kim JK, Jin X et al. Ly6G(+) inflammatory cells enable the conversion of cancer cells to cancer stem cells in an irradiated glioblastoma model. Cell Death Differ 2019 Oct;26(10):2139-2156. PMID: 30804471
  • Liberante FG, Lappin K, Barros EM, Vohhodina J et al. Altered splicing and cytoplasmic levels of tRNA synthetases in SF3B1-mutant myelodysplastic syndromes as a therapeutic vulnerability. Sci Rep 2019 Feb 25;9(1):2678. PMID: 30804405
  • Cavalli M, Baltzer N, Umer HM, Grau J et al. Allele specific chromatin signals, 3D interactions, and motif predictions for immune and B cell related diseases. Sci Rep 2019 Feb 25;9(1):2695. PMID: 30804403
  • Kim IW, Jang H, Kim JH, Kim MG et al. Computational Drug Repositioning for Gastric Cancer using Reversal Gene Expression Profiles. Sci Rep 2019 Feb 25;9(1):2660. PMID: 30804389
  • He B, Gao R, Lv D, Wen Y et al. The prognostic landscape of interactive biological processes presents treatment responses in cancer. EBioMedicine 2019 Mar;41:120-133. PMID: 30799199
  • Narbe U, Sjöström M, Forsare C, Bendahl PO et al. The estrogen receptor coactivator AIB1 is a new putative prognostic biomarker in ER-positive/HER2-negative invasive lobular carcinoma of the breast. Breast Cancer Res Treat 2019 Jun;175(2):305-316. PMID: 30796653
  • Mahmoudi E, Cairns MJ et al. Circular RNAs are temporospatially regulated throughout development and ageing in the rat. Sci Rep 2019 Feb 22;9(1):2564. PMID: 30796328
  • Rasmussen KD, Berest I, Keβler S, Nishimura K et al. TET2 binding to enhancers facilitates transcription factor recruitment in hematopoietic cells. Genome Res 2019 Apr;29(4):564-575. PMID: 30796038
  • Fu T, Coulter S, Yoshihara E, Oh TG et al. FXR Regulates Intestinal Cancer Stem Cell Proliferation. Cell 2019 Feb 21;176(5):1098-1112.e18. PMID: 30794774
  • Welchowski T, Zuber V, Schmid M et al. Correlation-adjusted regression survival scores for high-dimensional variable selection. Stat Med 2019 Jun 15;38(13):2413-2427. PMID: 30793795
  • Culibrk L, Croft CA, Toor A, Yang SJ et al. Phagocytosis of Aspergillus fumigatus by Human Bronchial Epithelial Cells Is Mediated by the Arp2/3 Complex and WIPF2. Front Cell Infect Microbiol 2019;9:16. PMID: 30792969
  • Wei C, Dong X, Lu H, Tong F et al. LPCAT1 promotes brain metastasis of lung adenocarcinoma by up-regulating PI3K/AKT/MYC pathway. J Exp Clin Cancer Res 2019 Feb 21;38(1):95. PMID: 30791942
  • Moreno-Romero J, Del Toro-De León G, Yadav VK, Santos-González J et al. Epigenetic signatures associated with imprinted paternally expressed genes in the Arabidopsis endosperm. Genome Biol 2019 Feb 21;20(1):41. PMID: 30791924
  • Penninckx S, Heuskin AC, Michiels C, Lucas S et al. Thioredoxin Reductase Activity Predicts Gold Nanoparticle Radiosensitization Effect. Nanomaterials (Basel) 2019 Feb 19;9(2). PMID: 30791480
  • Feltes BC, Chandelier EB, Grisci BI, Dorn M et al. CuMiDa: An Extensively Curated Microarray Database for Benchmarking and Testing of Machine Learning Approaches in Cancer Research. J Comput Biol 2019 Apr;26(4):376-386. PMID: 30789283
  • Jing L, Gong M, Lu X, Jiang Y et al. LINC01127 promotes the development of ovarian tumors by regulating the cell cycle. Am J Transl Res 2019;11(1):406-417. PMID: 30787997
  • Guo YN, Luo B, Chen WJ, Chen X et al. Comprehensive clinical implications of homeobox A10 in 3,199 cases of non-small cell lung cancer tissue samples combining qRT-PCR, RNA sequencing and microarray data. Am J Transl Res 2019;11(1):45-66. PMID: 30787969
  • Neuner SM, Heuer SE, Zhang JG, Philip VM et al. Identification of Pre-symptomatic Gene Signatures That Predict Resilience to Cognitive Decline in the Genetically Diverse AD-BXD Model. Front Genet 2019;10:35. PMID: 30787942
  • Deng M, Lv XD, Fang ZX, Xie XS et al. The blood transcriptional signature for active and latent tuberculosis. Infect Drug Resist 2019;12:321-328. PMID: 30787624
  • Marcher AB, Bendixen SM, Terkelsen MK, Hohmann SS et al. Transcriptional regulation of Hepatic Stellate Cell activation in NASH. Sci Rep 2019 Feb 20;9(1):2324. PMID: 30787418
  • Tanase-Nakao K, Mizuno K, Hayashi Y, Kojima Y et al. Dihydrotestosterone induces minor transcriptional alterations in genital skin fibroblasts of children with and without androgen insensitivity. Endocr J 2019 Apr 25;66(4):387-393. PMID: 30787207
  • Zheng Y, Xu Q, Liu M, Hu H et al. lnCAR: A Comprehensive Resource for lncRNAs from Cancer Arrays. Cancer Res 2019 Apr 15;79(8):2076-2083. PMID: 30786995
  • Zhao B, Baloch Z, Ma Y, Wan Z et al. Identification of Potential Key Genes and Pathways in Early-Onset Colorectal Cancer Through Bioinformatics Analysis. Cancer Control 2019 Jan-Dec;26(1):1073274819831260. PMID: 30786729
  • van IJzendoorn DGP, Szuhai K, Briaire-de Bruijn IH, Kostine M et al. Machine learning analysis of gene expression data reveals novel diagnostic and prognostic biomarkers and identifies therapeutic targets for soft tissue sarcomas. PLoS Comput Biol 2019 Feb;15(2):e1006826. PMID: 30785874
  • Wang H, Liu D, Yang J et al. Prognostic risk model construction and molecular marker identification in glioblastoma multiforme based on mRNA/microRNA/long non-coding RNA analysis using random survival forest method. Neoplasma 2019 May 23;66(3):459-469. PMID: 30784292
  • Tanigawa K, Maekawa M, Kiyoi T, Nakayama J et al. SNX9 determines the surface levels of integrin β1 in vascular endothelial cells: Implication in poor prognosis of human colorectal cancers overexpressing SNX9. J Cell Physiol 2019 Aug;234(10):17280-17294. PMID: 30784076
  • Liao Y, Smyth GK, Shi W et al. The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads. Nucleic Acids Res 2019 May 7;47(8):e47. PMID: 30783653
  • Gordian E, Welsh EA, Gimbrone N, Siegel EM et al. Transforming growth factor β-induced epithelial-to-mesenchymal signature predicts metastasis-free survival in non-small cell lung cancer. Oncotarget 2019 Jan 25;10(8):810-824. PMID: 30783512
  • Kim YH, Choi J, Yang MJ, Hong SP et al. A MST1-FOXO1 cascade establishes endothelial tip cell polarity and facilitates sprouting angiogenesis. Nat Commun 2019 Feb 19;10(1):838. PMID: 30783090
  • Wang Y, Yang L, Chen T, Liu X et al. A novel lncRNA MCM3AP-AS1 promotes the growth of hepatocellular carcinoma by targeting miR-194-5p/FOXA1 axis. Mol Cancer 2019 Feb 19;18(1):28. PMID: 30782188
  • Amodio N, Gallo Cantafio ME, Botta C, Agosti V et al. Replacement of miR-155 Elicits Tumor Suppressive Activity and Antagonizes Bortezomib Resistance in Multiple Myeloma. Cancers (Basel) 2019 Feb 18;11(2). PMID: 30781685
  • Peng H, Zeng X, Zhou Y, Zhang D et al. A component overlapping attribute clustering (COAC) algorithm for single-cell RNA sequencing data analysis and potential pathobiological implications. PLoS Comput Biol 2019 Feb;15(2):e1006772. PMID: 30779739
  • Lipka A, Paukszto L, Majewska M, Jastrzebski JP et al. De novo characterization of placental transcriptome in the Eurasian beaver (Castor fiber L.). Funct Integr Genomics 2019 May;19(3):421-435. PMID: 30778795
  • Gonçalves RS, Musen MA et al. The variable quality of metadata about biological samples used in biomedical experiments. Sci Data 2019 Feb 19;6:190021. PMID: 30778255
  • Agirre X, Meydan C, Jiang Y, Garate L et al. Long non-coding RNAs discriminate the stages and gene regulatory states of human humoral immune response. Nat Commun 2019 Feb 18;10(1):821. PMID: 30778059
  • Liu XX, Yang YE, Liu X, Zhang MY et al. A two-circular RNA signature as a noninvasive diagnostic biomarker for lung adenocarcinoma. J Transl Med 2019 Feb 18;17(1):50. PMID: 30777071
  • Heravi M, Dargahi L, Parsafar S, Tayaranian Marvian A et al. The primary neuronal cells are more resistant than PC12 cells to α-synuclein toxic aggregates. Neurosci Lett 2019 May 14;701:38-47. PMID: 30776494
  • George G, Valiya Parambath S, Lokappa SB, Varkey J et al. Construction of Parkinson's disease marker-based weighted protein-protein interaction network for prioritization of co-expressed genes. Gene 2019 May 20;697:67-77. PMID: 30776463
  • Yambire KF, Fernandez-Mosquera L, Steinfeld R, Mühle C et al. Mitochondrial biogenesis is transcriptionally repressed in lysosomal lipid storage diseases. Elife 2019 Feb 18;8. PMID: 30775969
  • Shehwana H, Konu O et al. Comparative Transcriptomics Between Zebrafish and Mammals: A Roadmap for Discovery of Conserved and Unique Signaling Pathways in Physiology and Disease. Front Cell Dev Biol 2019;7:5. PMID: 30775367
  • He S, Wang F, Zhang Y, Chen J et al. Hemi-methylated CpG sites connect Dnmt1-knockdown-induced and Tet1-induced DNA demethylation during somatic cell reprogramming. Cell Discov 2019;5:11. PMID: 30774978
  • Rostami-Nejad M, Mansouri V, Mahmoud Robati R, Mohaghegh Shalmani H et al. Network analysis of grade II into grade III transition in rectum cancer patients. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S118-S123. PMID: 30774817
  • Malekpour H, Heidari MH, Vafaee R, Moravvej Farshi H et al. Gene expression analysis of colon high-grade dysplasia revealed new molecular mechanism of disease. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S111-S117. PMID: 30774816
  • Asadzadeh-Aghdaei H, Zamanian Azodi M, Vafaee R, Moravvej Farshi H et al. SRC and TP53 play critical role in low-grade dysplasia colorectal mucosa transformation into cancer. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S104-S110. PMID: 30774815
  • Zali MR, Zadeh-Esmaeel MM, Rezaei Tavirani M, Rezaei Tavirani S et al. Barrett's esophagus network analysis revealed that arginine, alanine, aspartate, glutamate, valine, leucine and isoleucine can be biomarkers. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S98-S104. PMID: 30774814
  • Naderi N, Zamanian Azodi M, Daskar Abkenar E, Shahidi Dadras M et al. Insulin dysregulation plays a critical role in colon inflammation: a bioinformatics approach. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S85-S91. PMID: 30774812
  • Zali MR, Zadeh-Esmaeel MM, Rezaei-Tavirani M, Sadat Tabatabaei E et al. Barrett's esophagus transits to a cancer condition via potential biomarkers. Gastroenterol Hepatol Bed Bench 2018 Winter;11(Suppl 1):S80-S84. PMID: 30774811
  • Laursen MB, Reinholdt L, Schönherz AA, Due H et al. High CXCR4 expression impairs rituximab response and the prognosis of R-CHOP-treated diffuse large B-cell lymphoma patients. Oncotarget 2019 Jan 22;10(7):717-731. PMID: 30774774
  • Gao X, Wang J, Zhang S et al. Integrated Bioinformatics Analysis of Hub Genes and Pathways in Anaplastic Thyroid Carcinomas. Int J Endocrinol 2019;2019:9651380. PMID: 30774662
  • Chen Q, Liu D, Hu Z, Luo C et al. miRNA-101-5p inhibits the growth and aggressiveness of NSCLC cells through targeting CXCL6. Onco Targets Ther 2019;12:835-848. PMID: 30774371
  • Roychowdhury T, Abyzov A et al. Chromatin organization modulates the origin of heritable structural variations in human genome. Nucleic Acids Res 2019 Apr 8;47(6):2766-2777. PMID: 30773596
  • Zhang J, Zheng ZQ, Yuan YW, Zhang PP et al. NFAT1 Hypermethylation Promotes Epithelial-Mesenchymal Transition and Metastasis in Nasopharyngeal Carcinoma by Activating ITGA6 Transcription. Neoplasia 2019 Mar;21(3):311-321. PMID: 30772768
  • Xu TP, Ma P, Wang WY, Shuai Y et al. KLF5 and MYC modulated LINC00346 contributes to gastric cancer progression through acting as a competing endogeous RNA and indicates poor outcome. Cell Death Differ 2019 Nov;26(11):2179-2193. PMID: 30770877
  • Lu H, Arshad M, Thornton A, Avesani G et al. A mathematical-descriptor of tumor-mesoscopic-structure from computed-tomography images annotates prognostic- and molecular-phenotypes of epithelial ovarian cancer. Nat Commun 2019 Feb 15;10(1):764. PMID: 30770825
  • Wang A, Bao Y, Wu Z, Zhao T et al. Long noncoding RNA EGFR-AS1 promotes cell growth and metastasis via affecting HuR mediated mRNA stability of EGFR in renal cancer. Cell Death Dis 2019 Feb 15;10(3):154. PMID: 30770799
  • Liu JY, Jiang L, He T, Liu JJ et al. NETO2 promotes invasion and metastasis of gastric cancer cells via activation of PI3K/Akt/NF-κB/Snail axis and predicts outcome of the patients. Cell Death Dis 2019 Feb 15;10(3):162. PMID: 30770791
  • Yeh SJ, Yeh CC, Lan CY, Chen BS et al. Investigating Common Pathogenic Mechanisms between Homo sapiens and Different Strains of Candida albicans for Drug Design: Systems Biology Approach via Two-Sided NGS Data Identification. Toxins (Basel) 2019 Feb 15;11(2). PMID: 30769958
  • Aya-Bonilla C, Gray ES, Manikandan J, Freeman JB et al. Immunomagnetic-Enriched Subpopulations of Melanoma Circulating Tumour Cells (CTCs) Exhibit Distinct Transcriptome Profiles. Cancers (Basel) 2019 Jan 30;11(2). PMID: 30769764
  • Zhang L, Luo B, Dang YW, He RQ et al. The clinical significance of endothelin receptor type B in hepatocellular carcinoma and its potential molecular mechanism. Exp Mol Pathol 2019 Apr;107:141-157. PMID: 30768923
  • Shapiguzov A, Vainonen JP, Hunter K, Tossavainen H et al. Arabidopsis RCD1 coordinates chloroplast and mitochondrial functions through interaction with ANAC transcription factors. Elife 2019 Feb 15;8. PMID: 30767893
  • Wang Y, Liu K, Ma Q, Tan Y et al. Pancreatic cancer biomarker detection by two support vector strategies for recursive feature elimination. Biomark Med 2019 Feb;13(2):105-121. PMID: 30767554
  • Dazhi W, Jing D, Chunling R, Mi Z et al. Elevated SLC6A6 expression drives tumorigenesis and affects clinical outcomes in gastric cancer. Biomark Med 2019 Feb;13(2):95-104. PMID: 30767502
  • Klein K, Tremmel R, Winter S, Fehr S et al. A New Panel-Based Next-Generation Sequencing Method for ADME Genes Reveals Novel Associations of Common and Rare Variants With Expression in a Human Liver Cohort. Front Genet 2019;10:7. PMID: 30766545
  • Ragan C, Goodall GJ, Shirokikh NE, Preiss T et al. Insights into the biogenesis and potential functions of exonic circular RNA. Sci Rep 2019 Feb 14;9(1):2048. PMID: 30765711
  • Dong S, Huang F, Zhang H, Chen Q et al. Overexpression of BUB1B, CCNA2, CDC20, and CDK1 in tumor tissues predicts poor survival in pancreatic ductal adenocarcinoma. Biosci Rep 2019 Feb 28;39(2). PMID: 30765611
  • Ogawa Y, Shiraki T, Asano Y, Muto A et al. Six6 and Six7 coordinately regulate expression of middle-wavelength opsins in zebrafish. Proc Natl Acad Sci U S A 2019 Mar 5;116(10):4651-4660. PMID: 30765521
  • Haage V, Semtner M, Vidal RO, Hernandez DP et al. Comprehensive gene expression meta-analysis identifies signature genes that distinguish microglia from peripheral monocytes/macrophages in health and glioma. Acta Neuropathol Commun 2019 Feb 14;7(1):20. PMID: 30764877
  • He J, Xu X, Monavarfeshani A, Banerjee S et al. Retinal-input-induced epigenetic dynamics in the developing mouse dorsal lateral geniculate nucleus. Epigenetics Chromatin 2019 Feb 14;12(1):13. PMID: 30764861
  • Pang B, Wang Q, Ning S, Wu J et al. Landscape of tumor suppressor long noncoding RNAs in breast cancer. J Exp Clin Cancer Res 2019 Feb 14;38(1):79. PMID: 30764831
  • Dawidowska M, Jaksik R, Drobna M, Szarzyńska-Zawadzka B et al. Comprehensive Investigation of miRNome Identifies Novel Candidate miRNA-mRNA Interactions Implicated in T-Cell Acute Lymphoblastic Leukemia. Neoplasia 2019 Mar;21(3):294-310. PMID: 30763910
  • Wang S, Shen HW, Chai H, Liang Y et al. Complex harmonic regularization with differential evolution in a memetic framework for biomarker selection. PLoS One 2019;14(2):e0210786. PMID: 30763332
  • Xuan C, Gao Y, Jin M, Xu S et al. Bioinformatic analysis of Cacybp-associated proteins using human glioma databases. IUBMB Life 2019 Jul;71(7):827-834. PMID: 30762928
  • Zeng M, Liu J, Yang W, Zhang S et al. Multiple-microarray analysis for identification of hub genes involved in tubulointerstial injury in diabetic nephropathy. J Cell Physiol 2019 Sep;234(9):16447-16462. PMID: 30761531
  • Xu H, Jiao Y, Yi M, Zhao W et al. EYA2 Correlates With Clinico-Pathological Features of Breast Cancer, Promotes Tumor Proliferation, and Predicts Poor Survival. Front Oncol 2019;9:26. PMID: 30761270
  • Mongia A, Sengupta D, Majumdar A et al. McImpute: Matrix Completion Based Imputation for Single Cell RNA-seq Data. Front Genet 2019;10:9. PMID: 30761179
  • Velazquez-Caldelas TE, Alcalá-Corona SA, Espinal-Enríquez J, Hernandez-Lemus E et al. Unveiling the Link Between Inflammation and Adaptive Immunity in Breast Cancer. Front Immunol 2019;10:56. PMID: 30761130
  • Nomura M, Saito K, Aihara K, Nagae G et al. DNA demethylation is associated with malignant progression of lower-grade gliomas. Sci Rep 2019 Feb 13;9(1):1903. PMID: 30760837
  • Kumari K, Das B, Adhya AK, Rath AK et al. Genome-wide expression analysis reveals six contravened targets of EZH2 associated with breast cancer patient survival. Sci Rep 2019 Feb 13;9(1):1974. PMID: 30760814
  • Ferrari C, Proost S, Janowski M, Becker J et al. Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida. Nat Commun 2019 Feb 13;10(1):737. PMID: 30760717
  • Zou R, Zhang D, Lv L, Shi W et al. Bioinformatic gene analysis for potential biomarkers and therapeutic targets of atrial fibrillation-related stroke. J Transl Med 2019 Feb 13;17(1):45. PMID: 30760287
  • Kim H, Joe A, Lee M, Yang S et al. A Genome-Scale Co-Functional Network of Xanthomonas Genes Can Accurately Reconstruct Regulatory Circuits Controlled by Two-Component Signaling Systems. Mol Cells 2019 Feb 28;42(2):166-174. PMID: 30759970
  • Tyler SR, Rotti PG, Sun X, Yi Y et al. PyMINEr Finds Gene and Autocrine-Paracrine Networks from Human Islet scRNA-Seq. Cell Rep 2019 Feb 12;26(7):1951-1964.e8. PMID: 30759402
  • Roci I, Watrous JD, Lagerborg KA, Lafranchi L et al. Mapping Metabolic Events in the Cancer Cell Cycle Reveals Arginine Catabolism in the Committed SG(2)M Phase. Cell Rep 2019 Feb 12;26(7):1691-1700.e5. PMID: 30759381
  • Beauvarlet J, Bensadoun P, Darbo E, Labrunie G et al. Modulation of the ATM/autophagy pathway by a G-quadruplex ligand tips the balance between senescence and apoptosis in cancer cells. Nucleic Acids Res 2019 Apr 8;47(6):2739-2756. PMID: 30759257
  • Mei Q, Xu C, Gogol M, Tang J et al. Set1-catalyzed H3K4 trimethylation antagonizes the HIR/Asf1/Rtt106 repressor complex to promote histone gene expression and chronological life span. Nucleic Acids Res 2019 Apr 23;47(7):3434-3449. PMID: 30759223
  • Hung S, Saiakhova A, Faber ZJ, Bartels CF et al. Mismatch repair-signature mutations activate gene enhancers across human colorectal cancer epigenomes. Elife 2019 Feb 13;8. PMID: 30759065
  • Liu Q, Deng J, Wei X, Yuan W et al. Integrated analysis of competing endogenous RNA networks revealing five prognostic biomarkers associated with colorectal cancer. J Cell Biochem 2019 Jul;120(7):11256-11264. PMID: 30756409
  • Zhang X, Kang C, Li N, Liu X et al. Identification of special key genes for alcohol-related hepatocellular carcinoma through bioinformatic analysis. PeerJ 2019;7:e6375. PMID: 30755830
  • Jia K, Wu Y, Ju J, Wang L et al. The identification of gene signature and critical pathway associated with childhood-onset type 2 diabetes. PeerJ 2019;7:e6343. PMID: 30755828
  • Fukushima A, Sugimoto M, Hiwa S, Hiroyasu T et al. Elastic net-based prediction of IFN-β treatment response of patients with multiple sclerosis using time series microarray gene expression profiles. Sci Rep 2019 Feb 12;9(1):1822. PMID: 30755676
  • Ma H, Hockla A, Mehner C, Coban M et al. PRSS3/Mesotrypsin and kallikrein-related peptidase 5 are associated with poor prognosis and contribute to tumor cell invasion and growth in lung adenocarcinoma. Sci Rep 2019 Feb 12;9(1):1844. PMID: 30755669
  • Lee JH, Jung S, Park WS, Choe EK et al. Prognostic nomogram of hypoxia-related genes predicting overall survival of colorectal cancer-Analysis of TCGA database. Sci Rep 2019 Feb 12;9(1):1803. PMID: 30755640
  • Giles KA, Gould CM, Du Q, Skvortsova K et al. Integrated epigenomic analysis stratifies chromatin remodellers into distinct functional groups. Epigenetics Chromatin 2019 Feb 12;12(1):12. PMID: 30755246
  • Mlakar V, Jurkovic Mlakar S, Lesne L, Marino D et al. PRIMA-1(MET)-induced neuroblastoma cell death is modulated by p53 and mycn through glutathione level. J Exp Clin Cancer Res 2019 Feb 12;38(1):69. PMID: 30755224
  • Azimi I, Milevskiy MJG, Chalmers SB, Yapa KTDS et al. ORAI1 and ORAI3 in Breast Cancer Molecular Subtypes and the Identification of ORAI3 as a Hypoxia Sensitive Gene and a Regulator of Hypoxia Responses. Cancers (Basel) 2019 Feb 11;11(2). PMID: 30754719
  • Kim JA, Shim D, Kumari S, Jung HE et al. Transcriptome Analysis of Diurnal Gene Expression in Chinese Cabbage. Genes (Basel) 2019 Feb 11;10(2). PMID: 30754711
  • Anderson AE, Maney NJ, Nair N, Lendrem DW et al. Expression of STAT3-regulated genes in circulating CD4+ T cells discriminates rheumatoid arthritis independently of clinical parameters in early arthritis. Rheumatology (Oxford) 2019 Jul 1;58(7):1250-1258. PMID: 30753680
  • Castillo D, Galvez JM, Herrera LJ, Rojas F et al. Leukemia multiclass assessment and classification from Microarray and RNA-seq technologies integration at gene expression level. PLoS One 2019;14(2):e0212127. PMID: 30753220
  • Tong J, Han CJ, Zhang JZ, He WZ et al. Hepatic Interferon Regulatory Factor 6 Alleviates Liver Steatosis and Metabolic Disorder by Transcriptionally Suppressing Peroxisome Proliferator-Activated Receptor γ in Mice. Hepatology 2019 Jun;69(6):2471-2488. PMID: 30748020
  • Cortés-Pereira E, Fernández-Tajes J, Fernández-Moreno M, Vázquez-Mosquera ME et al. Differential Association of Mitochondrial DNA Haplogroups J and H With the Methylation Status of Articular Cartilage: Potential Role in Apoptosis and Metabolic and Developmental Processes. Arthritis Rheumatol 2019 Jul;71(7):1191-1200. PMID: 30747498
  • Wang C, Zheng W, Yao D, Chen Q et al. Upregulation of DNA Metabolism-Related Genes Contributes to Radioresistance of Glioblastoma. Hum Gene Ther Clin Dev 2019 Jun;30(2):74-87. PMID: 30746964
  • Wu J, Dai W, Wu L, Li W et al. Decoding genetic and epigenetic information embedded in cell free DNA with adapted SALP-seq. Int J Cancer 2019 Nov 1;145(9):2395-2406. PMID: 30746694
  • Chen X, Huang Y, Wang Y, Wu Q et al. THBS4 predicts poor outcomes and promotes proliferation and metastasis in gastric cancer. J Physiol Biochem 2019 Feb;75(1):117-123. PMID: 30746617
  • Zhu Y, Zhao J, Maifiah MHM, Velkov T et al. Metabolic Responses to Polymyxin Treatment in Acinetobacter baumannii ATCC 19606: Integrating Transcriptomics and Metabolomics with Genome-Scale Metabolic Modeling. mSystems 2019 Jan-Feb;4(1). PMID: 30746493
  • Liu F, Xia Z, Zhang M, Ding J et al. SMARCAD1 Promotes Pancreatic Cancer Cell Growth and Metastasis through Wnt/β-catenin-Mediated EMT. Int J Biol Sci 2019;15(3):636-646. PMID: 30745850
  • Huang Z, Sun Z, Zhang X, Niu K et al. Loss of stretch-activated channels, PIEZOs, accelerates non-small cell lung cancer progression and cell migration. Biosci Rep 2019 Mar 29;39(3). PMID: 30745454
  • Yin JC, Zhang L, Ma NX, Wang Y et al. Chemical Conversion of Human Fetal Astrocytes into Neurons through Modulation of Multiple Signaling Pathways. Stem Cell Reports 2019 Mar 5;12(3):488-501. PMID: 30745031
  • Sato K, Tsuyuzaki K, Shimizu K, Nikaido I et al. CellFishing.jl: an ultrafast and scalable cell search method for single-cell RNA sequencing. Genome Biol 2019 Feb 11;20(1):31. PMID: 30744683
  • Wang C, Chen L, Yang Y, Zhang M et al. Identification of potential blood biomarkers for Parkinson's disease by gene expression and DNA methylation data integration analysis. Clin Epigenetics 2019 Feb 11;11(1):24. PMID: 30744671
  • Tsukita Y, Fujino N, Miyauchi E, Saito R et al. Axl kinase drives immune checkpoint and chemokine signalling pathways in lung adenocarcinomas. Mol Cancer 2019 Feb 11;18(1):24. PMID: 30744655
  • Dallmayer M, Li J, Ohmura S, Alba Rubio R et al. Targeting the CALCB/RAMP1 axis inhibits growth of Ewing sarcoma. Cell Death Dis 2019 Feb 11;10(2):116. PMID: 30741933
  • Tan C, Liu L, Liu X, Qi L et al. Activation of PTGS2/NF-κB signaling pathway enhances radiation resistance of glioma. Cancer Med 2019 Mar;8(3):1175-1185. PMID: 30740906
  • Young WC, Raftery AE, Yeung KY et al. Model-Based Clustering With Data Correction For Removing Artifacts In Gene Expression Data. Ann Appl Stat 2016 Feb;11(4):1998-2026. PMID: 30740193
  • Agarwal S, Mirzoeva S, Readhead B, Dudley JT et al. PI3K inhibitors protect against glucocorticoid-induced skin atrophy. EBioMedicine 2019 Mar;41:526-537. PMID: 30737086
  • Li W, Zhang L, Guo B, Deng J et al. Exosomal FMR1-AS1 facilitates maintaining cancer stem-like cell dynamic equilibrium via TLR7/NFκB/c-Myc signaling in female esophageal carcinoma. Mol Cancer 2019 Feb 8;18(1):22. PMID: 30736860
  • Chamberlain N, Korwin-Mihavics BR, Nakada EM, Bruno SR et al. Lung epithelial protein disulfide isomerase A3 (PDIA3) plays an important role in influenza infection, inflammation, and airway mechanics. Redox Biol 2019 Apr;22:101129. PMID: 30735910
  • Gobé C, Elzaiat M, Meunier N, André M et al. Dual role of DMXL2 in olfactory information transmission and the first wave of spermatogenesis. PLoS Genet 2019 Feb;15(2):e1007909. PMID: 30735494
  • Jaiswal B, Utkarsh K, Bhattacharyya DK et al. PNME - A gene-gene parallel network module extraction method. J Genet Eng Biotechnol 2018 Dec;16(2):447-457. PMID: 30733759
  • Tonnessen BW, Bossa-Castro AM, Mauleon R, Alexandrov N et al. Shared cis-regulatory architecture identified across defense response genes is associated with broad-spectrum quantitative resistance in rice. Sci Rep 2019 Feb 7;9(1):1536. PMID: 30733489
  • Peace RJ, Sheikh Hassani M, Green JR et al. miPIE: NGS-based Prediction of miRNA Using Integrated Evidence. Sci Rep 2019 Feb 7;9(1):1548. PMID: 30733467
  • Hu Q, Peng J, Chen X, Li H et al. Obesity and genes related to lipid metabolism predict poor survival in oral squamous cell carcinoma. Oral Oncol 2019 Feb;89:14-22. PMID: 30732952
  • Jiang X, Jiang M, Xu M, Xu J et al. Identification of diagnostic utility and molecular mechanisms of circulating miR-551b-5p in gastric cancer. Pathol Res Pract 2019 May;215(5):900-904. PMID: 30732916
  • Qiu J, Du Z, Wang Y, Zhou Y et al. Weighted gene co-expression network analysis reveals modules and hub genes associated with the development of breast cancer. Medicine (Baltimore) 2019 Feb;98(6):e14345. PMID: 30732163
  • Zhou X, Kinlough CL, Hughey RP, Jin M et al. Sialylation of MUC4β N-glycans by ST6GAL1 orchestrates human airway epithelial cell differentiation associated with type-2 inflammation. JCI Insight 2019 Mar 7;4(5). PMID: 30730306
  • Ignacio RMC, Gibbs CR, Kim S, Lee ES et al. Serum amyloid A predisposes inflammatory tumor microenvironment in triple negative breast cancer. Oncotarget 2019 Jan 11;10(4):511-526. PMID: 30728901
  • Han SM, Ryu HM, Suh J, Lee KJ et al. Network-based integrated analysis of omics data reveal novel players of TGF-β1-induced EMT in human peritoneal mesothelial cells. Sci Rep 2019 Feb 6;9(1):1497. PMID: 30728376
  • Ye T, Yang M, Huang D, Wang X et al. MicroRNA-7 as a potential therapeutic target for aberrant NF-κB-driven distant metastasis of gastric cancer. J Exp Clin Cancer Res 2019 Feb 6;38(1):55. PMID: 30728051
  • Borisov N, Shabalina I, Tkachev V, Sorokin M et al. Shambhala: a platform-agnostic data harmonizer for gene expression data. BMC Bioinformatics 2019 Feb 6;20(1):66. PMID: 30727942
  • Gunderson AJ, Yamazaki T, McCarty K, Phillips M et al. Blockade of fibroblast activation protein in combination with radiation treatment in murine models of pancreatic adenocarcinoma. PLoS One 2019;14(2):e0211117. PMID: 30726287
  • Mohammad F, Green R, Buskirk AR et al. A systematically-revised ribosome profiling method for bacteria reveals pauses at single-codon resolution. Elife 2019 Feb 6;8. PMID: 30724162
  • Shi Y, Du L, Lv D, Li H et al. Exosomal Interferon-Induced Transmembrane Protein 2 Transmitted to Dendritic Cells Inhibits Interferon Alpha Pathway Activation and Blocks Anti-Hepatitis B Virus Efficacy of Exogenous Interferon Alpha. Hepatology 2019 Jun;69(6):2396-2413. PMID: 30723923
  • Vidal C, Daescu K, Fitzgerald KE, Starokadomska A et al. Amyloid β perturbs elevated heme flux induced with neuronal development. Alzheimers Dement (N Y) 2019;5:27-37. PMID: 30723777
  • Wind TT, Jalving M, de Haan JJ, de Vries EGE et al. A large pooled analysis refines gene expression-based molecular subclasses in cutaneous melanoma. Oncoimmunology 2019;8(3):1558664. PMID: 30723592
  • Van Laar R, Lincoln M, Fereday S et al. Characterisation and validation of Mel38; A multi-tissue microRNA signature of cutaneous melanoma. PLoS One 2019;14(2):e0211504. PMID: 30721246
  • de Santiago I, Yau C, Heij L, Middleton MR et al. Immunophenotypes of pancreatic ductal adenocarcinoma: Meta-analysis of transcriptional subtypes. Int J Cancer 2019 Aug 15;145(4):1125-1137. PMID: 30720864
  • Yehya N, Thomas NJ, Wong HR et al. Evidence of Endotypes in Pediatric Acute Hypoxemic Respiratory Failure Caused by Sepsis. Pediatr Crit Care Med 2019 Feb;20(2):110-112. PMID: 30720645
  • Zheng YQ, Cui YR, Yang S, Wang YP et al. Opa interacting protein 5 promotes metastasis of nasopharyngeal carcinoma cells by promoting EMT via modulation of JAK2/STAT3 signal. Eur Rev Med Pharmacol Sci 2019 Jan;23(2):613-621. PMID: 30720169
  • Zhang Q, Sun S, Zhu C, Zheng Y et al. Prediction and analysis of weighted genes in hepatocellular carcinoma using bioinformatics analysis. Mol Med Rep 2019 Apr;19(4):2479-2488. PMID: 30720105
  • Wang JS, Duan MY, Zhong YS, Li XD et al. Investigating age‑induced differentially expressed genes and potential molecular mechanisms in osteosarcoma based on integrated bioinformatics analysis. Mol Med Rep 2019 Apr;19(4):2729-2739. PMID: 30720085
  • Sheu CC, Chang WA, Tsai MJ, Liao SH et al. Bioinformatic analysis of next‑generation sequencing data to identify dysregulated genes in fibroblasts of idiopathic pulmonary fibrosis. Int J Mol Med 2019 Apr;43(4):1643-1656. PMID: 30720061
  • Peng J, Song J, Zhou J, Yin X et al. Effects of CPAP on the transcriptional signatures in patients with obstructive sleep apnea via coexpression network analysis. J Cell Biochem 2019 Jun;120(6):9277-9290. PMID: 30719767
  • Mooney R, Majid AA, Batalla-Covello J, Machado D et al. Enhanced Delivery of Oncolytic Adenovirus by Neural Stem Cells for Treatment of Metastatic Ovarian Cancer. Mol Ther Oncolytics 2019 Mar 29;12:79-92. PMID: 30719498
  • Moeckel S, LaFrance K, Wetsch J, Seliger C et al. ATF4 contributes to autophagy and survival in sunitinib treated brain tumor initiating cells (BTICs). Oncotarget 2019 Jan 8;10(3):368-382. PMID: 30719230
  • Cai C, Wang W, Tu Z et al. Aberrantly DNA Methylated-Differentially Expressed Genes and Pathways in Hepatocellular Carcinoma. J Cancer 2019;10(2):355-366. PMID: 30719129
  • Liu X, Wang J, Chen M, Liu S et al. Combining data from TCGA and GEO databases and reverse transcription quantitative PCR validation to identify gene prognostic markers in lung cancer. Onco Targets Ther 2019;12:709-720. PMID: 30718962
  • Katsuta E, Qi Q, Peng X, Hochwald SN et al. Pancreatic adenocarcinomas with mature blood vessels have better overall survival. Sci Rep 2019 Feb 4;9(1):1310. PMID: 30718678
  • Chen C, Zhang D, Hazbun TR, Zhang M et al. Inferring Gene Regulatory Networks from a Population of Yeast Segregants. Sci Rep 2019 Feb 4;9(1):1197. PMID: 30718595
  • Xue Y, Meehan B, Fu Z, Wang XQD et al. SMARCA4 loss is synthetic lethal with CDK4/6 inhibition in non-small cell lung cancer. Nat Commun 2019 Feb 4;10(1):557. PMID: 30718506
  • Penrose HM, Cable C, Heller S, Ungerleider N et al. Loss of Forkhead Box O3 Facilitates Inflammatory Colon Cancer: Transcriptome Profiling of the Immune Landscape and Novel Targets. Cell Mol Gastroenterol Hepatol 2019;7(2):391-408. PMID: 30718226
  • Dhifli W, Puig J, Dispot A, Elati M et al. Latent network-based representations for large-scale gene expression data analysis. BMC Bioinformatics 2019 Feb 4;19(Suppl 13):466. PMID: 30717663
  • Di Mauro R, Cantarella G, Bernardini R, Di Rosa M et al. The Biochemical and Pharmacological Properties of Ozone: The Smell of Protection in Acute and Chronic Diseases. Int J Mol Sci 2019 Feb 1;20(3). PMID: 30717203
  • Zhao Y, Zhang Y, Teng Y, Liu K et al. SpyCLIP: an easy-to-use and high-throughput compatible CLIP platform for the characterization of protein-RNA interactions with high accuracy. Nucleic Acids Res 2019 Apr 8;47(6):e33. PMID: 30715466
  • Yan S, Wong KC et al. GESgnExt: Gene Expression Signature Extraction and Meta-Analysis on Gene Expression Omnibus. IEEE J Biomed Health Inform 2020 Jan;24(1):311-318. PMID: 30714937
  • Wang YS, Wu L et al. Enhanced expression of son of sevenless homolog 1 is predictive of poor prognosis in uveal malignant melanoma patients. Ophthalmic Genet 2019 Feb;40(1):22-28. PMID: 30714452
  • Li G, Quan Y, Wang X, Liu R et al. Trinucleotide Base Pair Stacking Free Energy for Understanding TF-DNA Recognition and the Functions of SNPs. Front Chem 2018;6:666. PMID: 30713839
  • Jabeen S, Espinoza JA, Torland LA, Zucknick M et al. Noninvasive profiling of serum cytokines in breast cancer patients and clinicopathological characteristics. Oncoimmunology 2019;8(2):e1537691. PMID: 30713794
  • Eisfeld AJ, Gasper DJ, Suresh M, Kawaoka Y et al. C57BL/6J and C57BL/6NJ Mice Are Differentially Susceptible to Inflammation-Associated Disease Caused by Influenza A Virus. Front Microbiol 2018;9:3307. PMID: 30713529
  • Nishihara K, Shiga T, Nakamura E, Akiyama T et al. Induced Pluripotent Stem Cells Reprogrammed with Three Inhibitors Show Accelerated Differentiation Potentials with High Levels of 2-Cell Stage Marker Expression. Stem Cell Reports 2019 Feb 12;12(2):305-318. PMID: 30713040
  • Georgouli M, Herraiz C, Crosas-Molist E, Fanshawe B et al. Regional Activation of Myosin II in Cancer Cells Drives Tumor Progression via a Secretory Cross-Talk with the Immune Microenvironment. Cell 2019 Feb 7;176(4):757-774.e23. PMID: 30712866
  • Du J, Jia P, Dai Y, Tao C et al. Gene2vec: distributed representation of genes based on co-expression. BMC Genomics 2019 Feb 4;20(Suppl 1):82. PMID: 30712510
  • Xu Y, Ji K, Wu M, Hao B et al. A miRNA-HERC4 pathway promotes breast tumorigenesis by inactivating tumor suppressor LATS1. Protein Cell 2019 Aug;10(8):595-605. PMID: 30710319
  • He Y, Bouwstra R, Wiersma VR, de Jong M et al. Cancer cell-expressed SLAMF7 is not required for CD47-mediated phagocytosis. Nat Commun 2019 Feb 1;10(1):533. PMID: 30710089
  • Chathoth KT, Zabet NR et al. Chromatin architecture reorganization during neuronal cell differentiation in Drosophila genome. Genome Res 2019 Apr;29(4):613-625. PMID: 30709849
  • Chao C, You J, Li H, Xue H et al. Elevated SUV39H2 attributes to the progression of nasopharyngeal carcinoma via regulation of NRIP1. Biochem Biophys Res Commun 2019 Mar 5;510(2):290-295. PMID: 30709585
  • Zhao L, Alto BW, Shin D et al. Transcriptional Profile of Aedes aegypti Leucine-Rich Repeat Proteins in Response to Zika and Chikungunya Viruses. Int J Mol Sci 2019 Jan 31;20(3). PMID: 30708982
  • Gupta MK, Vadde R et al. Identification and characterization of differentially expressed genes in Type 2 Diabetes using in silico approach. Comput Biol Chem 2019 Apr;79:24-35. PMID: 30708140
  • Peng H, Wang S, Pang L, Yang L et al. Comprehensive bioinformation analysis of methylated and differentially expressed genes in esophageal squamous cell carcinoma. Mol Omics 2019 Feb 11;15(1):88-100. PMID: 30706927
  • Edwards LA, Kim S, Madany M, Nuno M et al. ZEB1 Is a Transcription Factor That Is Prognostic and Predictive in Diffuse Gliomas. Front Neurol 2018;9:1199. PMID: 30705664
  • Wang N, Zhang Y, Xu L, Jin S et al. Relationship Between Alzheimer's Disease and the Immune System: A Meta-Analysis of Differentially Expressed Genes. Front Neurosci 2018;12:1026. PMID: 30705616
  • Castagnoli L, Cancila V, Cordoba-Romero SL, Faraci S et al. WNT signaling modulates PD-L1 expression in the stem cell compartment of triple-negative breast cancer. Oncogene 2019 May;38(21):4047-4060. PMID: 30705400
  • Rivero S, Gómez-Marín E, Guerrero-Martínez JA, García-Martínez J et al. TBL1 is required for the mesenchymal phenotype of transformed breast cancer cells. Cell Death Dis 2019 Jan 31;10(2):95. PMID: 30705280
  • Akhtar J, Kreim N, Marini F, Mohana G et al. Promoter-proximal pausing mediated by the exon junction complex regulates splicing. Nat Commun 2019 Jan 31;10(1):521. PMID: 30705266
  • Li A, Qin G, Suzuki A, Gajera M et al. Network-based identification of critical regulators as putative drivers of human cleft lip. BMC Med Genomics 2019 Jan 31;12(Suppl 1):16. PMID: 30704473
  • Cheng L, Pandya PH, Liu E, Chandra P et al. Integration of genomic copy number variations and chemotherapy-response biomarkers in pediatric sarcoma. BMC Med Genomics 2019 Jan 31;12(Suppl 1):23. PMID: 30704460
  • Kanitz A, Syed AP, Kaji K, Zavolan M et al. Conserved regulation of RNA processing in somatic cell reprogramming. BMC Genomics 2019 Jan 31;20(1):100. PMID: 30704403
  • Choi Y, Yoo JH, Lee Y, Bae MK et al. Calcium-Phosphate Crystals Promote RANKL Expression via the Downregulation of DUSP1. Mol Cells 2019 Feb 28;42(2):183-188. PMID: 30703868
  • Baumann B, Acosta AM, Richards Z, Deaton R et al. Association of High miR-182 Levels with Low-Risk Prostate Cancer. Am J Pathol 2019 Apr;189(4):911-923. PMID: 30703341
  • Wu M, Liu Z, Zhang A, Li N et al. Identification of key genes and pathways in hepatocellular carcinoma: A preliminary bioinformatics analysis. Medicine (Baltimore) 2019 Feb;98(5):e14287. PMID: 30702595
  • Dai J, Li ZX, Zhang Y, Ma JL et al. Whole Genome Messenger RNA Profiling Identifies a Novel Signature to Predict Gastric Cancer Survival. Clin Transl Gastroenterol 2019 Jan;10(1):e00004. PMID: 30702489
  • Zheng Y, Ay F, Keles S et al. Generative modeling of multi-mapping reads with mHi-C advances analysis of Hi-C studies. Elife 2019 Jan 31;8. PMID: 30702424
  • Hoang GT, Van Dinh L, Nguyen TT, Ta NK et al. Genome-wide Association Study of a Panel of Vietnamese Rice Landraces Reveals New QTLs for Tolerance to Water Deficit During the Vegetative Phase. Rice (N Y) 2019 Jan 28;12(1):4. PMID: 30701393
  • Diesch J, Bywater MJ, Sanij E, Cameron DP et al. Changes in long-range rDNA-genomic interactions associate with altered RNA polymerase II gene programs during malignant transformation. Commun Biol 2019;2:39. PMID: 30701204
  • Liu J, Wang D, Zhang C, Zhang Z et al. Identification of liver metastasis-associated genes in human colon carcinoma by mRNA profiling. Chin J Cancer Res 2018 Dec;30(6):633-646. PMID: 30700932
  • Weaver TM, Liu J, Connelly KE, Coble C et al. The EZH2 SANT1 domain is a histone reader providing sensitivity to the modification state of the H4 tail. Sci Rep 2019 Jan 30;9(1):987. PMID: 30700785
  • Theka I, Sottile F, Cammisa M, Bonnin S et al. Wnt/β-catenin signaling pathway safeguards epigenetic stability and homeostasis of mouse embryonic stem cells. Sci Rep 2019 Jan 30;9(1):948. PMID: 30700782
  • Bae SJ, Shin MW, Son T, Lee HS et al. Ninjurin1 positively regulates osteoclast development by enhancing the survival of prefusion osteoclasts. Exp Mol Med 2019 Jan 16;51(1):1-16. PMID: 30700695
  • Zhu X, Li HD, Xu Y, Guo L et al. A Hybrid Clustering Algorithm for Identifying Cell Types from Single-Cell RNA-Seq Data. Genes (Basel) 2019 Jan 29;10(2). PMID: 30700040
  • Armstrong RL, Penke TJR, Chao SK, Gentile GM et al. H3K9 Promotes Under-Replication of Pericentromeric Heterochromatin in Drosophila Salivary Gland Polytene Chromosomes. Genes (Basel) 2019 Jan 29;10(2). PMID: 30700014
  • Robinson M, Sweeney TE, Barouch-Bentov R, Sahoo MK et al. A 20-Gene Set Predictive of Progression to Severe Dengue. Cell Rep 2019 Jan 29;26(5):1104-1111.e4. PMID: 30699342
  • Perez S, Gevor M, Davidovich A, Kaspi A et al. Dysregulation of the cohesin subunit RAD21 by Hepatitis C virus mediates host-virus interactions. Nucleic Acids Res 2019 Mar 18;47(5):2455-2471. PMID: 30698808
  • Ghatak S, King ZA, Sastry A, Palsson BO et al. The y-ome defines the 35% of Escherichia coli genes that lack experimental evidence of function. Nucleic Acids Res 2019 Mar 18;47(5):2446-2454. PMID: 30698741
  • Kuo CC, Hänzelmann S, Sentürk Cetin N, Frank S et al. Detection of RNA-DNA binding sites in long noncoding RNAs. Nucleic Acids Res 2019 Apr 8;47(6):e32. PMID: 30698727
  • Cao PL, Kumagai N, Inoue T, Agata K et al. JmjC Domain-Encoding Genes Are Conserved in Highly Regenerative Metazoans and Are Associated with Planarian Whole-Body Regeneration. Genome Biol Evol 2019 Feb 1;11(2):552-564. PMID: 30698705
  • Blanck S, Marot G et al. SMAGEXP: a galaxy tool suite for transcriptomics data meta-analysis. Gigascience 2019 Feb 1;8(2). PMID: 30698691
  • Liu H, Chen D, Liu P, Xu S et al. Secondary analysis of existing microarray data reveals potential gene drivers of cutaneous squamous cell carcinoma. J Cell Physiol 2019 Sep;234(9):15270-15278. PMID: 30697722
  • Chapski DJ, Rosa-Garrido M, Hua N, Alber F et al. Spatial Principles of Chromatin Architecture Associated With Organ-Specific Gene Regulation. Front Cardiovasc Med 2018;5:186. PMID: 30697540
  • Tkachev V, Sorokin M, Mescheryakov A, Simonov A et al. FLOating-Window Projective Separator (FloWPS): A Data Trimming Tool for Support Vector Machines (SVM) to Improve Robustness of the Classifier. Front Genet 2018;9:717. PMID: 30697229
  • Li H, Zhao X, Li C, Sheng C et al. Integrated analysis of lncRNA-associated ceRNA network reveals potential biomarkers for the prognosis of hepatitis B virus-related hepatocellular carcinoma. Cancer Manag Res 2019;11:877-897. PMID: 30697079
  • Wang Y, Shu Y, Gu C, Fan Y et al. The novel sugar transporter SLC50A1 as a potential serum-based diagnostic and prognostic biomarker for breast cancer. Cancer Manag Res 2019;11:865-876. PMID: 30697078
  • Mourao L, Jacquemin G, Huyghe M, Nawrocki WJ et al. Lineage tracing of Notch1-expressing cells in intestinal tumours reveals a distinct population of cancer stem cells. Sci Rep 2019 Jan 29;9(1):888. PMID: 30696875
  • Choi J, Strickler SR, Richards EJ et al. Loss of CRWN Nuclear Proteins Induces Cell Death and Salicylic Acid Defense Signaling. Plant Physiol 2019 Apr;179(4):1315-1329. PMID: 30696746
  • Miraldi ER, Pokrovskii M, Watters A, Castro DM et al. Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells. Genome Res 2019 Mar;29(3):449-463. PMID: 30696696
  • Zhang W, Wang S, Yu F, Tang J et al. Genome-wide characterization and expression profiling of SWEET genes in cabbage (Brassica oleracea var. capitata L.) reveal their roles in chilling and clubroot disease responses. BMC Genomics 2019 Jan 29;20(1):93. PMID: 30696401
  • Yang J, Ramadan A, Reichenbach DK, Loschi M et al. Rorc restrains the potency of ST2+ regulatory T cells in ameliorating intestinal graft-versus-host disease. JCI Insight 2019 Mar 7;4(5). PMID: 30694220
  • Sen SQ, Chanchani S, Southall TD, Doe CQ et al. Neuroblast-specific open chromatin allows the temporal transcription factor, Hunchback, to bind neuroblast-specific loci. Elife 2019 Jan 29;8. PMID: 30694180
  • Zhang QW, Zhang XT, Tang CT, Lin XL et al. EGFL6 promotes cell proliferation in colorectal cancer via regulation of the WNT/β-catenin pathway. Mol Carcinog 2019 Jun;58(6):967-979. PMID: 30693973
  • Guo Q, Guan GF, Cao JY, Zou CY et al. Overexpression of oncostatin M receptor regulates local immune response in glioblastoma. J Cell Physiol 2019 Sep;234(9):15496-15509. PMID: 30693511
  • Ararat-Sarria M, Patarroyo MA, Curtidor H et al. Parasite-Related Genetic and Epigenetic Aspects and Host Factors Influencing Plasmodium falciparum Invasion of Erythrocytes. Front Cell Infect Microbiol 2018;8:454. PMID: 30693273
  • Wade AA, Lim K, Catta-Preta R, Nord AS et al. Common CHD8 Genomic Targets Contrast With Model-Specific Transcriptional Impacts of CHD8 Haploinsufficiency. Front Mol Neurosci 2018;11:481. PMID: 30692911
  • Gettler K, Giri M, Kenigsberg E, Martin J et al. Prioritizing Crohn's disease genes by integrating association signals with gene expression implicates monocyte subsets. Genes Immun 2019 Sep;20(7):577-588. PMID: 30692607
  • Neal A, Nornes S, Payne S, Wallace MD et al. Venous identity requires BMP signalling through ALK3. Nat Commun 2019 Jan 28;10(1):453. PMID: 30692543
  • Moretto M, Sonego P, Villaseñor-Altamirano AB, Engelen K et al. First step toward gene expression data integration: transcriptomic data acquisition with COMMAND>_. BMC Bioinformatics 2019 Jan 28;20(1):54. PMID: 30691411
  • Voigt A, Almaas E et al. Assessment of weighted topological overlap (wTO) to improve fidelity of gene co-expression networks. BMC Bioinformatics 2019 Jan 28;20(1):58. PMID: 30691386
  • Zhang H, Wang X, Huang H, Wang Y et al. Hsa_circ_0067997 promotes the progression of gastric cancer by inhibition of miR-515-5p and activation of X chromosome-linked inhibitor of apoptosis (XIAP). Artif Cells Nanomed Biotechnol 2019 Dec;47(1):308-318. PMID: 30688097
  • Zhao Y, Rafatian N, Feric NT, Cox BJ et al. A Platform for Generation of Chamber-Specific Cardiac Tissues and Disease Modeling. Cell 2019 Feb 7;176(4):913-927.e18. PMID: 30686581
  • Yoshida H, Lareau CA, Ramirez RN, Rose SA et al. The cis-Regulatory Atlas of the Mouse Immune System. Cell 2019 Feb 7;176(4):897-912.e20. PMID: 30686579
  • Zhang L, Ji H, Huang Y, Hu H et al. Association of BAX hypermethylation with coronary heart disease is specific to individuals aged over 70. Medicine (Baltimore) 2019 Jan;98(4):e14130. PMID: 30681575
  • Helmkampf M, Bellinger MR, Frazier M, Takabayashi M et al. Symbiont type and environmental factors affect transcriptome-wide gene expression in the coral Montipora capitata. Ecol Evol 2019 Jan;9(1):378-392. PMID: 30680121
  • Fujiwara S, Baek S, Varticovski L, Kim S et al. High Quality ATAC-Seq Data Recovered from Cryopreserved Breast Cell Lines and Tissue. Sci Rep 2019 Jan 24;9(1):516. PMID: 30679562
  • Amemiya T, Gromiha MM, Horimoto K, Fukui K et al. Drug repositioning for dengue haemorrhagic fever by integrating multiple omics analyses. Sci Rep 2019 Jan 24;9(1):523. PMID: 30679503
  • Alonso AM, Corvi MM, Diambra L et al. Gene target discovery with network analysis in Toxoplasma gondii. Sci Rep 2019 Jan 24;9(1):646. PMID: 30679502
  • Du Q, Bert SA, Armstrong NJ, Caldon CE et al. Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer. Nat Commun 2019 Jan 24;10(1):416. PMID: 30679435
  • Fonseca GJ, Tao J, Westin EM, Duttke SH et al. Diverse motif ensembles specify non-redundant DNA binding activities of AP-1 family members in macrophages. Nat Commun 2019 Jan 24;10(1):414. PMID: 30679424
  • Heiss JA, Just AC et al. Improved filtering of DNA methylation microarray data by detection p values and its impact on downstream analyses. Clin Epigenetics 2019 Jan 24;11(1):15. PMID: 30678737
  • Li H, Zhang W, Yan M, Qiu J et al. Nucleolar and spindle associated protein 1 promotes metastasis of cervical carcinoma cells by activating Wnt/β-catenin signaling. J Exp Clin Cancer Res 2019 Jan 24;38(1):33. PMID: 30678687
  • Pujar MK, Vastrad B, Vastrad C et al. Integrative Analyses of Genes Associated with Subcutaneous Insulin Resistance. Biomolecules 2019 Jan 22;9(2). PMID: 30678306
  • Amini M, Foroughi K, Talebi F, Aghagolzade Haji H et al. GHSR DNA hypermethylation is a new epigenetic biomarker for gastric adenocarcinoma and beyond. J Cell Physiol 2019 Sep;234(9):15320-15329. PMID: 30677130
  • Castro DM, de Veaux NR, Miraldi ER, Bonneau R et al. Multi-study inference of regulatory networks for more accurate models of gene regulation. PLoS Comput Biol 2019 Jan;15(1):e1006591. PMID: 30677040
  • Hodgson D, Rowan AD, Falciani F, Proctor CJ et al. Systems biology reveals how altered TGFβ signalling with age reduces protection against pro-inflammatory stimuli. PLoS Comput Biol 2019 Jan;15(1):e1006685. PMID: 30677026
  • Wang D, Liu H, Ren C, Wang L et al. High Expression of ABRACL Is Associated with Tumorigenesis and Affects Clinical Outcome in Gastric Cancer. Genet Test Mol Biomarkers 2019 Feb;23(2):91-97. PMID: 30676103
  • Abe Y, Suzuki Y, Kawamura K, Tanaka N et al. MEP50/PRMT5-mediated methylation activates GLI1 in Hedgehog signalling through inhibition of ubiquitination by the ITCH/NUMB complex. Commun Biol 2019;2:23. PMID: 30675521
  • Su H, Lin Z, Peng W, Hu Z et al. Identification of potential biomarkers of lung adenocarcinoma brain metastases via microarray analysis of cDNA expression profiles. Oncol Lett 2019 Feb;17(2):2228-2236. PMID: 30675288
  • Xu Z, Zhang Q, Luh F, Jin B et al. Overexpression of the ASPM gene is associated with aggressiveness and poor outcome in bladder cancer. Oncol Lett 2019 Feb;17(2):1865-1876. PMID: 30675249
  • Gao B, Li S, Tan Z, Ma L et al. ACTG1 and TLR3 are biomarkers for alcohol-associated hepatocellular carcinoma. Oncol Lett 2019 Feb;17(2):1714-1722. PMID: 30675230
  • Pan WY, Zeng JH, Wen DY, Wang JY et al. Oncogenic value of microRNA-15b-5p in hepatocellular carcinoma and a bioinformatics investigation. Oncol Lett 2019 Feb;17(2):1695-1713. PMID: 30675229
  • Munkácsy G, Herman P, Győrffy B et al. Independent validation of induced overexpression efficiency across 242 experiments shows a success rate of 39. Sci Rep 2019 Jan 23;9(1):343. PMID: 30674897
  • Guo T, Wen XZ, Li ZY, Han HB et al. ISL1 predicts poor outcomes for patients with gastric cancer and drives tumor progression through binding to the ZEB1 promoter together with SETD7. Cell Death Dis 2019 Jan 15;10(2):33. PMID: 30674889
  • Eraslan G, Simon LM, Mircea M, Mueller NS et al. Single-cell RNA-seq denoising using a deep count autoencoder. Nat Commun 2019 Jan 23;10(1):390. PMID: 30674886
  • Huang J, Wang C, Wang H, Lu P et al. Meiocyte-Specific and AtSPO11-1-Dependent Small RNAs and Their Association with Meiotic Gene Expression and Recombination. Plant Cell 2019 Feb;31(2):444-464. PMID: 30674694
  • Combes AN, Zappia L, Er PX, Oshlack A et al. Single-cell analysis reveals congruence between kidney organoids and human fetal kidney. Genome Med 2019 Jan 23;11(1):3. PMID: 30674341
  • Machkovech HM, Bloom JD, Subramaniam AR et al. Comprehensive profiling of translation initiation in influenza virus infected cells. PLoS Pathog 2019 Jan;15(1):e1007518. PMID: 30673779
  • Zhang H, Dong S, Feng J et al. Epigenetic profiling and mRNA expression reveal candidate genes as biomarkers for colorectal cancer. J Cell Biochem 2019 Jun;120(6):10767-10776. PMID: 30672027
  • Li H, Sun S, Lei Q, Lei P et al. M1-Polarized Macrophages Promote Self-Renewing Phenotype of Hepatic Progenitor Cells with Jagged1-Notch Signalling Involved: Relevance in Primary Sclerosing Cholangitis. J Immunol Res 2018;2018:4807145. PMID: 30671485
  • Chen G, Zhong L, Wang Q, Li Z et al. The expression of chondrogenesis-related and arthritis-related genes in human ONFH cartilage with different Ficat stages. PeerJ 2019;7:e6306. PMID: 30671313
  • Yao F, Zhang K, Zhang Y, Guo Y et al. Identification of Blood Biomarkers for Alzheimer's Disease Through Computational Prediction and Experimental Validation. Front Neurol 2018;9:1158. PMID: 30671019
  • Lv J, Guo L, Wang JH, Yan YZ et al. Biomarker identification and trans-regulatory network analyses in esophageal adenocarcinoma and Barrett's esophagus. World J Gastroenterol 2019 Jan 14;25(2):233-244. PMID: 30670912
  • Zhu K, Ou Yang TH, Dorie V, Zheng T et al. Meta-analysis of expression and methylation signatures indicates a stress-related epigenetic mechanism in multiple neuropsychiatric disorders. Transl Psychiatry 2019 Jan 22;9(1):32. PMID: 30670680
  • LaMere SA, Chaillon A, Huynh C, Smith DM et al. Challenges in Quantifying Cytosine Methylation in the HIV Provirus. mBio 2019 Jan 22;10(1). PMID: 30670613
  • Jarman EJ, Ward C, Turnbull AK, Martinez-Perez C et al. HER2 regulates HIF-2α and drives an increased hypoxic response in breast cancer. Breast Cancer Res 2019 Jan 22;21(1):10. PMID: 30670058
  • Denisenko E, Guler R, Mhlanga M, Suzuki H et al. Transcriptionally induced enhancers in the macrophage immune response to Mycobacterium tuberculosis infection. BMC Genomics 2019 Jan 22;20(1):71. PMID: 30669987
  • Zhou Q, Lim JQ, Sung WK, Li G et al. An integrated package for bisulfite DNA methylation data analysis with Indel-sensitive mapping. BMC Bioinformatics 2019 Jan 22;20(1):47. PMID: 30669962
  • Zhang W, Wang S, Yu F, Tang J et al. Genome-Wide Identification and Expression Profiling of Sugar Transporter Protein (STP) Family Genes in Cabbage (Brassica oleracea var. capitata L.) Reveals their Involvement in Clubroot Disease Responses. Genes (Basel) 2019 Jan 21;10(1). PMID: 30669698
  • Li JR, Tong CY, Sung TJ, Kang TY et al. CMEP: a database for circulating microRNA expression profiling. Bioinformatics 2019 Sep 1;35(17):3127-3132. PMID: 30668638
  • Rodríguez-Carrio J, López P, Alperi-López M, Caminal-Montero L et al. IRF4 and IRGs Delineate Clinically Relevant Gene Expression Signatures in Systemic Lupus Erythematosus and Rheumatoid Arthritis. Front Immunol 2018;9:3085. PMID: 30666255
  • Ding J, Ma L, Zhao J, Xie Y et al. An integrative genomic analysis of transcriptional profiles identifies characteristic genes and patterns in HIV-infected long-term non-progressors and elite controllers. J Transl Med 2019 Jan 21;17(1):35. PMID: 30665429
  • Liu X, Chen J, Guan T, Yao H et al. miRNAs and target genes in the blood as biomarkers for the early diagnosis of Parkinson's disease. BMC Syst Biol 2019 Jan 21;13(1):10. PMID: 30665415
  • Campagne A, Lee MK, Zielinski D, Michaud A et al. BAP1 complex promotes transcription by opposing PRC1-mediated H2A ubiquitylation. Nat Commun 2019 Jan 21;10(1):348. PMID: 30664650
  • Chen LT, Jiang CY et al. Bioinformatics analysis of sex differences in arrhythmogenic right ventricular cardiomyopathy. Mol Med Rep 2019 Mar;19(3):2238-2244. PMID: 30664203
  • Yu C, Hong H, Zhang S, Zong Y et al. Identification of key genes and pathways involved in microsatellite instability in colorectal cancer. Mol Med Rep 2019 Mar;19(3):2065-2076. PMID: 30664178
  • Tian W, Du Y, Ma Y, Zhang B et al. miR663a‑TTC22V1 axis inhibits colon cancer metastasis. Oncol Rep 2019 Mar;41(3):1718-1728. PMID: 30664167
  • Xia YF, Chang J, Yang JF, Ouyang W et al. Non‑canonical Wnt signaling contributes to ventilator‑induced lung injury through upregulation of WISP1 expression. Int J Mol Med 2019 Mar;43(3):1217-1228. PMID: 30664165
  • Forsberg F, Brunet A, Ali TML, Collas P et al. Interplay of lamin A and lamin B LADs on the radial positioning of chromatin. Nucleus 2019 Dec;10(1):7-20. PMID: 30663495
  • Chen YL, Hu CM, Hsu JT, Chang CC et al. Cellular 5-hydroxylmethylcytosine content determines tumorigenic potential and prognosis of pancreatic ductal adenocarcinoma. Am J Cancer Res 2018;8(12):2548-2563. PMID: 30662811
  • Zhang Y, Zhang R, Ding X, Ai K et al. EFNB2 acts as the target of miR-557 to facilitate cell proliferation, migration and invasion in pancreatic ductal adenocarcinoma by bioinformatics analysis and verification. Am J Transl Res 2018;10(11):3514-3528. PMID: 30662604
  • Li N, Wu H, Geng R, Tang Q et al. Identification of Core Gene Biomarkers in Patients with Diabetic Cardiomyopathy. Dis Markers 2018;2018:6025061. PMID: 30662576
  • Lin Z, Gu J, Cui X, Huang L et al. Deciphering Microenvironment of NSCLC based on CD8+ TIL Density and PD-1/PD-L1 Expression. J Cancer 2019;10(1):211-222. PMID: 30662542
  • Shi K, Li N, Yang M, Li W et al. Identification of Key Genes and Pathways in Female Lung Cancer Patients Who Never Smoked by a Bioinformatics Analysis. J Cancer 2019;10(1):51-60. PMID: 30662525
  • Yang C, Han C, Wang X, Liao X et al. Clinical Implication and the Hereditary Factors of NM23 in Hepatocellular Carcinoma Based on Bioinformatics Analysis and Genome-Wide Association Study. J Oncol 2018;2018:6594169. PMID: 30662464
  • Lee HY, Chen YJ, Li CC, Li WM et al. Deduction of Novel Genes Potentially Involved in Upper Tract Urothelial Carcinoma Using Next-Generation Sequencing and Bioinformatics Approaches. Int J Med Sci 2019;16(1):93-105. PMID: 30662333
  • Moon HYDifferential expression of genes in the subgranular zone and granular cell layer of the hippocampus after running. J Exerc Nutrition Biochem 2018 Dec 31;22(4):1-6. PMID: 30661326
  • Lee YE, Chan TC, Tian YF, Liang PI et al. High expression of Chitinase 3-like-1 is an unfavorable prognostic factor in urothelial carcinoma of upper urinary tract and urinary bladder. Urol Oncol 2019 May;37(5):299.e7-299.e18. PMID: 30660494
  • Barbash S, Persson T, Lorenzen E, Kazmi MA et al. Detection of Concordance between Transcriptional Levels of GPCRs and Receptor-Activity-Modifying Proteins. iScience 2019 Jan 25;11:366-374. PMID: 30660104
  • Miao R, Ge C, Zhang X, He Y et al. Combined eight-long noncoding RNA signature: a new risk score predicting prognosis in elderly non-small cell lung cancer patients. Aging (Albany NY) 2019 Jan 19;11(2):467-479. PMID: 30659574
  • Vogg MC, Beccari L, Iglesias Ollé L, Rampon C et al. An evolutionarily-conserved Wnt3/β-catenin/Sp5 feedback loop restricts head organizer activity in Hydra. Nat Commun 2019 Jan 18;10(1):312. PMID: 30659200
  • Xiong L, Wu F, Wu Q, Xu L et al. Aberrant enhancer hypomethylation contributes to hepatic carcinogenesis through global transcriptional reprogramming. Nat Commun 2019 Jan 18;10(1):335. PMID: 30659195
  • Wang T, Li B, Nelson CE, Nabavi S et al. Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data. BMC Bioinformatics 2019 Jan 18;20(1):40. PMID: 30658573
  • Rahman MR, Islam T, Gov E, Turanli B et al. Identification of Prognostic Biomarker Signatures and Candidate Drugs in Colorectal Cancer: Insights from Systems Biology Analysis. Medicina (Kaunas) 2019 Jan 17;55(1). PMID: 30658502
  • Robson JP, Remke M, Kool M, Julian E et al. Identification of CD24 as a marker of Patched1 deleted medulloblastoma-initiating neural progenitor cells. PLoS One 2019;14(1):e0210665. PMID: 30657775
  • Wang T, Wu B, Zhang X, Zhang M et al. Identification of gene coexpression modules, hub genes, and pathways related to spinal cord injury using integrated bioinformatics methods. J Cell Biochem 2019 May;120(5):6988-6997. PMID: 30657608
  • Philips RL, Lee JH, Gaonkar K, Chanana P et al. HDAC3 restrains CD8-lineage genes to maintain a bi-potential state in CD4(+)CD8(+) thymocytes for CD4-lineage commitment. Elife 2019 Jan 18;8. PMID: 30657451
  • Qi D, Wang Q, Wu M, Zhang X et al. Comprehensive bioinformatics analysis of lncRNAs in gastric cancer. Oncol Lett 2019 Jan;17(1):1279-1291. PMID: 30655896
  • Zeng Z, Li D, Yu T, Huang Y et al. Association and clinical implication of the USP10 and MSH2 proteins in non-small cell lung cancer. Oncol Lett 2019 Jan;17(1):1128-1138. PMID: 30655874
  • Yang S, Gao K, Li W et al. Identification of hub genes and pathways in glioblastoma by bioinformatics analysis. Oncol Lett 2019 Jan;17(1):1035-1041. PMID: 30655863
  • Liu Y, Hua T, Chi S, Wang H et al. Identification of key pathways and genes in endometrial cancer using bioinformatics analyses. Oncol Lett 2019 Jan;17(1):897-906. PMID: 30655845
  • Chai Y, Tan F, Ye S, Liu F et al. Identification of core genes and prediction of miRNAs associated with osteoporosis using a bioinformatics approach. Oncol Lett 2019 Jan;17(1):468-481. PMID: 30655789
  • Dong C, Cui D, Liu G, Xu H et al. Cancer stem cell associated eight gene-based signature predicts clinical outcomes of colorectal cancer. Oncol Lett 2019 Jan;17(1):442-449. PMID: 30655785
  • An N, Zhao C, Yu Z, Yang X et al. Identification of prognostic genes in colorectal cancer through transcription profiling of multi-stage carcinogenesis. Oncol Lett 2019 Jan;17(1):432-441. PMID: 30655784
  • Hu Z, Wang L, Han Y, Li F et al. Ferritin: A potential serum marker for lymph node metastasis in head and neck squamous cell carcinoma. Oncol Lett 2019 Jan;17(1):314-322. PMID: 30655769
  • Zhong XZ, Deng Y, Chen G, Yang H et al. Investigation of the clinical significance and molecular mechanism of miR-21-5p in hepatocellular carcinoma: A systematic review based on 24 studies and bioinformatics investigation. Oncol Lett 2019 Jan;17(1):230-246. PMID: 30655760
  • Wang D, Wang L, Ren C, Zhang P et al. High expression of density-regulated re-initiation and release factor drives tumourigenesis and affects clinical outcome. Oncol Lett 2019 Jan;17(1):141-148. PMID: 30655749
  • Aguiar JA, Tamminga A, Lobb B, Huff RD et al. The impact of cigarette smoke exposure, COPD, or asthma status on ABC transporter gene expression in human airway epithelial cells. Sci Rep 2019 Jan 17;9(1):153. PMID: 30655622
  • Guo H, Ci X, Ahmed M, Hua JT et al. ONECUT2 is a driver of neuroendocrine prostate cancer. Nat Commun 2019 Jan 17;10(1):278. PMID: 30655535
  • Martínez-Calle N, Pascual M, Ordoñez R, Enériz ESJ et al. Epigenomic profiling of myelofibrosis reveals widespread DNA methylation changes in enhancer elements and ZFP36L1 as a potential tumor suppressor gene that is epigenetically regulated. Haematologica 2019 Aug;104(8):1572-1579. PMID: 30655376
  • Short SP, Thompson JJ, Bilotta AJ, Chen X et al. Serine Threonine Kinase 17A Maintains the Epithelial State in Colorectal Cancer Cells. Mol Cancer Res 2019 Apr;17(4):882-894. PMID: 30655319
  • Poddubskaya EV, Baranova MP, Allina DO, Sekacheva MI et al. Personalized prescription of imatinib in recurrent granulosa cell tumor of the ovary: case report. Cold Spring Harb Mol Case Stud 2019 Apr;5(2). PMID: 30655270
  • Freeman TJ, Sayedyahossein S, Johnston D, Sanchez-Pupo RE et al. Inhibition of Pannexin 1 Reduces the Tumorigenic Properties of Human Melanoma Cells. Cancers (Basel) 2019 Jan 16;11(1). PMID: 30654593
  • Chen L, Lu D, Sun K, Xu Y et al. Identification of biomarkers associated with diagnosis and prognosis of colorectal cancer patients based on integrated bioinformatics analysis. Gene 2019 Apr 15;692:119-125. PMID: 30654001
  • Sun G, Li Y, Peng Y, Lu D et al. Identification of differentially expressed genes and biological characteristics of colorectal cancer by integrated bioinformatics analysis. J Cell Physiol 2019 Sep;234(9):15215-15224. PMID: 30652311
  • Liu JY, Dong XX, Lu JN, Zhang Y et al. Utility of GDF-15 as a diagnostic biomarker in gastric cancer: an investigation combining GEO, TCGA and meta-analysis. FEBS Open Bio 2019 Jan;9(1):35-42. PMID: 30652072
  • Chen X, Yang L, Ge D, Wang W et al. Long non-coding RNA XIST promotes osteoporosis through inhibiting bone marrow mesenchymal stem cell differentiation. Exp Ther Med 2019 Jan;17(1):803-811. PMID: 30651866
  • Seoane M, Buhs S, Iglesias P, Strauss J et al. Lineage-specific control of TFIIH by MITF determines transcriptional homeostasis and DNA repair. Oncogene 2019 May;38(19):3616-3635. PMID: 30651597
  • Horvath R, Laenen B, Takuno S, Slotte T et al. Single-cell expression noise and gene-body methylation in Arabidopsis thaliana. Heredity (Edinb) 2019 Aug;123(2):81-91. PMID: 30651589
  • Fialkowski AC, Levy DJ, Watkins-Chow DE, Palmer JW et al. Identification of Gene Variants Associated with Melanocyte Stem Cell Differentiation in Mice Predisposed for Hair Graying. G3 (Bethesda) 2019 Mar 7;9(3):817-827. PMID: 30651286
  • Huang K, Chen W, Zhu F, Li PW et al. RiboTag translatomic profiling of Drosophila oenocytes under aging and induced oxidative stress. BMC Genomics 2019 Jan 16;20(1):50. PMID: 30651069
  • Huang C, Leng D, Sun S, Zhang XD et al. Re-analysis of the coral Acropora digitifera transcriptome reveals a complex lncRNAs-mRNAs interaction network implicated in Symbiodinium infection. BMC Genomics 2019 Jan 16;20(1):48. PMID: 30651068
  • Schwartz DM, Farley TK, Richoz N, Yao C et al. Retinoic Acid Receptor Alpha Represses a Th9 Transcriptional and Epigenomic Program to Reduce Allergic Pathology. Immunity 2019 Jan 15;50(1):106-120.e10. PMID: 30650370
  • Lawlor N, Márquez EJ, Orchard P, Narisu N et al. Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function. Cell Rep 2019 Jan 15;26(3):788-801.e6. PMID: 30650367
  • Lan Y, Pan H, Li C, Banks KM et al. TETs Regulate Proepicardial Cell Migration through Extracellular Matrix Organization during Zebrafish Cardiogenesis. Cell Rep 2019 Jan 15;26(3):720-732.e4. PMID: 30650362
  • Boscolo Sesillo F, Fox D, Sacco A et al. Muscle Stem Cells Give Rise to Rhabdomyosarcomas in a Severe Mouse Model of Duchenne Muscular Dystrophy. Cell Rep 2019 Jan 15;26(3):689-701.e6. PMID: 30650360
  • Koliaraki V, Chalkidi N, Henriques A, Tzaferis C et al. Innate Sensing through Mesenchymal TLR4/MyD88 Signals Promotes Spontaneous Intestinal Tumorigenesis. Cell Rep 2019 Jan 15;26(3):536-545.e4. PMID: 30650348
  • Chen G, Ramírez JC, Deng N, Qiu X et al. Restructured GEO: restructuring Gene Expression Omnibus metadata for genome dynamics analysis. Database (Oxford) 2019 Jan 1;2019. PMID: 30649296
  • Mose LE, Perou CM, Parker JS et al. Improved indel detection in DNA and RNA via realignment with ABRA2. Bioinformatics 2019 Sep 1;35(17):2966-2973. PMID: 30649250
  • Grativol C, Thiebaut F, Sangi S, Montessoro P et al. A miniature inverted-repeat transposable element, AddIn-MITE, located inside a WD40 gene is conserved in Andropogoneae grasses. PeerJ 2019;7:e6080. PMID: 30648010
  • Hallner A, Bernson E, Hussein BA, Ewald Sander F et al. The HLA-B -21 dimorphism impacts on NK cell education and clinical outcome of immunotherapy in acute myeloid leukemia. Blood 2019 Mar 28;133(13):1479-1488. PMID: 30647027
  • Xia M, Zhang Q, Luo M, Li P et al. Regulatory network analysis reveals the oncogenesis roles of feed-forward loops and therapeutic target in T-cell acute lymphoblastic leukemia. BMC Med Genomics 2019 Jan 15;12(1):8. PMID: 30646895
  • Moskot M, Jakóbkiewicz-Banecka J, Kloska A, Piotrowska E et al. The Role of Dimethyl Sulfoxide (DMSO) in Gene Expression Modulation and Glycosaminoglycan Metabolism in Lysosomal Storage Disorders on an Example of Mucopolysaccharidosis. Int J Mol Sci 2019 Jan 14;20(2). PMID: 30646511
  • Ishay-Ronen D, Diepenbruck M, Kalathur RKR, Sugiyama N et al. Gain Fat-Lose Metastasis: Converting Invasive Breast Cancer Cells into Adipocytes Inhibits Cancer Metastasis. Cancer Cell 2019 Jan 14;35(1):17-32.e6. PMID: 30645973
  • Bos LDJ, Scicluna BP, Ong DSY, Cremer O et al. Understanding Heterogeneity in Biologic Phenotypes of Acute Respiratory Distress Syndrome by Leukocyte Expression Profiles. Am J Respir Crit Care Med 2019 Jul 1;200(1):42-50. PMID: 30645145
  • Zhu B, Li Y, Xiang L, Zhang J et al. Alogliptin improves survival and health of mice on a high-fat diet. Aging Cell 2019 Apr;18(2):e12883. PMID: 30644630
  • Khatri I, Ganguly K, Sharma S, Carmicheal J et al. Systems Biology Approach to Identify Novel Genomic Determinants for Pancreatic Cancer Pathogenesis. Sci Rep 2019 Jan 15;9(1):123. PMID: 30644396
  • Vanichapol T, Chiangjong W, Panachan J, Anurathapan U et al. Secretory High-Mobility Group Box 1 Protein Affects Regulatory T Cell Differentiation in Neuroblastoma Microenvironment In Vitro. J Oncol 2018;2018:7946021. PMID: 30643519
  • Yang W, Ma J, Zhou W, Li Z et al. Identification of hub genes and outcome in colon cancer based on bioinformatics analysis. Cancer Manag Res 2019;11:323-338. PMID: 30643458
  • Yan X, Wan H, Hao X, Lan T et al. Importance of gene expression signatures in pancreatic cancer prognosis and the establishment of a prediction model. Cancer Manag Res 2019;11:273-283. PMID: 30643453
  • D'Amico D, Mottis A, Potenza F, Sorrentino V et al. The RNA-Binding Protein PUM2 Impairs Mitochondrial Dynamics and Mitophagy During Aging. Mol Cell 2019 Feb 21;73(4):775-787.e10. PMID: 30642763
  • Kijewska M, Viski C, Turrell F, Fitzpatrick A et al. Using an in-vivo syngeneic spontaneous metastasis model identifies ID2 as a promoter of breast cancer colonisation in the brain. Breast Cancer Res 2019 Jan 14;21(1):4. PMID: 30642388
  • Miao L, Yin RX, Pan SL, Yang S et al. Circulating miR-3659 may be a potential biomarker of dyslipidemia in patients with obesity. J Transl Med 2019 Jan 14;17(1):25. PMID: 30642348
  • Zhao Y, Jhamb D, Shu L, Arneson D et al. Multi-omics integration reveals molecular networks and regulators of psoriasis. BMC Syst Biol 2019 Jan 14;13(1):8. PMID: 30642337
  • Sartor ITS, Recamonde-Mendoza M, Ashton-Prolla P et al. TULP3: A potential biomarker in colorectal cancer? PLoS One 2019;14(1):e0210762. PMID: 30640939
  • Pezzulo AA, Tudas RA, Stewart CG, Buonfiglio LGV et al. HSP90 inhibitor geldanamycin reverts IL-13- and IL-17-induced airway goblet cell metaplasia. J Clin Invest 2019 Feb 1;129(2):744-758. PMID: 30640172
  • Shiraishi K, Shichino S, Ueha S, Nakajima T et al. Mesenchymal-Epithelial Interactome Analysis Reveals Essential Factors Required for Fibroblast-Free Alveolosphere Formation. iScience 2019 Jan 25;11:318-333. PMID: 30639966
  • Liang C, Peng L, Zeng S, Zhao Q et al. Investigation of indoleamine 2,3-dioxygenase 1 expression in uveal melanoma. Exp Eye Res 2019 Apr;181:112-119. PMID: 30639792
  • Li J, Wang Y, Ma M, Jiang S et al. Autocrine CTHRC1 activates hepatic stellate cells and promotes liver fibrosis by activating TGF-β signaling. EBioMedicine 2019 Feb;40:43-55. PMID: 30639416
  • Cheng Y, Wang K, Geng L, Sun J et al. Identification of candidate diagnostic and prognostic biomarkers for pancreatic carcinoma. EBioMedicine 2019 Feb;40:382-393. PMID: 30639415
  • Mooney MR, Geerts D, Kort EJ, Bachmann AS et al. Anti-tumor effect of sulfasalazine in neuroblastoma. Biochem Pharmacol 2019 Apr;162:237-249. PMID: 30639262
  • Song J, Janiszewski A, De Geest N, Vanheer L et al. X-Chromosome Dosage Modulates Multiple Molecular and Cellular Properties of Mouse Pluripotent Stem Cells Independently of Global DNA Methylation Levels. Stem Cell Reports 2019 Feb 12;12(2):333-350. PMID: 30639215
  • Kagawa H, Shimamoto R, Kim SI, Oceguera-Yanez F et al. OVOL1 Influences the Determination and Expansion of iPSC Reprogramming Intermediates. Stem Cell Reports 2019 Feb 12;12(2):319-332. PMID: 30639212
  • Hu W, Jiang C, Guan D, Dierickx P et al. Patient Adipose Stem Cell-Derived Adipocytes Reveal Genetic Variation that Predicts Antidiabetic Drug Response. Cell Stem Cell 2019 Feb 7;24(2):299-308.e6. PMID: 30639037
  • Joo MS, Koo JH, Kim TH, Kim YS et al. LRH1-driven transcription factor circuitry for hepatocyte identity: Super-enhancer cistromic analysis. EBioMedicine 2019 Feb;40:488-503. PMID: 30638865
  • Li D, Ye L, Lei Y, Wan J et al. Downregulation of FoxM1 sensitizes nasopharyngeal carcinoma cells to cisplatin via inhibition of MRN-ATM-mediated DNA repair. BMB Rep 2019 Mar;52(3):208-213. PMID: 30638177
  • Wang J, Qian Y, Gao M et al. Overexpression of PDK4 is associated with cell proliferation, drug resistance and poor prognosis in ovarian cancer. Cancer Manag Res 2019;11:251-262. PMID: 30636897
  • Teslow EA, Mitrea C, Bao B, Mohammad RM et al. Obesity-induced MBD2_v2 expression promotes tumor-initiating triple-negative breast cancer stem cells. Mol Oncol 2019 Apr;13(4):894-908. PMID: 30636104
  • Adapa SR, Taylor RA, Wang C, Thomson-Luque R et al. Plasmodium vivax readiness to transmit: implication for malaria eradication. BMC Syst Biol 2019 Jan 11;13(1):5. PMID: 30634978
  • Xie L, Dang Y, Guo J, Sun X et al. High KRT8 Expression Independently Predicts Poor Prognosis for Lung Adenocarcinoma Patients. Genes (Basel) 2019 Jan 10;10(1). PMID: 30634629
  • Zheng MJ, Li X, Hu YX, Dong H et al. Identification of molecular marker associated with ovarian cancer prognosis using bioinformatics analysis and experiments. J Cell Physiol 2019 Jul;234(7):11023-11036. PMID: 30633343
  • Li N, Zhao X, You S et al. Identification of key regulators of pancreatic ductal adenocarcinoma using bioinformatics analysis of microarray data. Medicine (Baltimore) 2019 Jan;98(2):e14074. PMID: 30633213
  • Liu Y, Wu X, Wang G, Hu S et al. CALD1, CNN1, and TAGLN identified as potential prognostic molecular markers of bladder cancer by bioinformatics analysis. Medicine (Baltimore) 2019 Jan;98(2):e13847. PMID: 30633156
  • Zhao Z, Zou S, Guan X, Wang M et al. Apolipoprotein E Overexpression Is Associated With Tumor Progression and Poor Survival in Colorectal Cancer. Front Genet 2018;9:650. PMID: 30631342
  • Ghosh D, Bernstein JA, Khurana Hershey GK, Rothenberg ME et al. Leveraging Multilayered "Omics" Data for Atopic Dermatitis: A Road Map to Precision Medicine. Front Immunol 2018;9:2727. PMID: 30631320
  • Jang D, Kwon H, Choi M, Lee J et al. Sumoylation of Flotillin-1 promotes EMT in metastatic prostate cancer by suppressing Snail degradation. Oncogene 2019 Apr;38(17):3248-3260. PMID: 30631151
  • Wang Y, Ruan Z, Yu S, Tian T et al. A four-methylated mRNA signature-based risk score system predicts survival in patients with hepatocellular carcinoma. Aging (Albany NY) 2019 Jan 10;11(1):160-173. PMID: 30631005
  • Brubaker DK, Proctor EA, Haigis KM, Lauffenburger DA et al. Computational translation of genomic responses from experimental model systems to humans. PLoS Comput Biol 2019 Jan;15(1):e1006286. PMID: 30629591
  • Wang X, Liao X, Yang C, Huang K et al. Identification of prognostic biomarkers for patients with hepatocellular carcinoma after hepatectomy. Oncol Rep 2019 Mar;41(3):1586-1602. PMID: 30628708
  • Zhou Z, Chen H, Xie R, Wang H et al. Epigenetically modulated FOXM1 suppresses dendritic cell maturation in pancreatic cancer and colon cancer. Mol Oncol 2019 Apr;13(4):873-893. PMID: 30628173
  • Chen LT, Jiang CY et al. MicroRNA Expression Profiles Identify Biomarker for Differentiating the Embolic Stroke from Thrombotic Stroke. Biomed Res Int 2018;2018:4514178. PMID: 30627556
  • Siddiqa A, Cirillo E, Tareen SHK, Ali A et al. Biological Pathways Leading From ANGPTL8 to Diabetes Mellitus-A Co-expression Network Based Analysis. Front Physiol 2018;9:1841. PMID: 30627105
  • Harder JL, Menon R, Otto EA, Zhou J et al. Organoid single cell profiling identifies a transcriptional signature of glomerular disease. JCI Insight 2019 Jan 10;4(1). PMID: 30626756
  • Gleber-Netto FO, Rao X, Guo T, Xi Y et al. Variations in HPV function are associated with survival in squamous cell carcinoma. JCI Insight 2019 Jan 10;4(1). PMID: 30626753
  • Lee SY, Park YK, Yoon CH, Kim K et al. Meta-analysis of gene expression profiles in long-term non-progressors infected with HIV-1. BMC Med Genomics 2019 Jan 9;12(1):3. PMID: 30626383
  • Wang J, Yu XF, OUYang N, Luo QL et al. Multi-platform analysis of methylation-regulated genes in human lung adenocarcinoma. J Toxicol Environ Health A 2019;82(1):37-45. PMID: 30626254
  • Ng JCF, Quist J, Grigoriadis A, Malim MH et al. Pan-cancer transcriptomic analysis dissects immune and proliferative functions of APOBEC3 cytidine deaminases. Nucleic Acids Res 2019 Feb 20;47(3):1178-1194. PMID: 30624727
  • Cai Z, Cui Y, Tan Z, Zhang G et al. RAEdb: a database of enhancers identified by high-throughput reporter assays. Database (Oxford) 2019 Jan 1;2019. PMID: 30624654
  • Yang WR, Ardeljan D, Pacyna CN, Payer LM et al. SQuIRE reveals locus-specific regulation of interspersed repeat expression. Nucleic Acids Res 2019 Mar 18;47(5):e27. PMID: 30624635
  • D'Arcangelo D, Giampietri C, Muscio M, Scatozza F et al. WIPI1, BAG1, and PEX3 Autophagy-Related Genes Are Relevant Melanoma Markers. Oxid Med Cell Longev 2018;2018:1471682. PMID: 30622661
  • Gullner G, Komives T, Király L, Schröder P et al. Glutathione S-Transferase Enzymes in Plant-Pathogen Interactions. Front Plant Sci 2018;9:1836. PMID: 30622544
  • Manoharan M, Mandloi N, Priyadarshini S, Patil A et al. A Computational Approach Identifies Immunogenic Features of Prognosis in Human Cancers. Front Immunol 2018;9:3017. PMID: 30622534
  • Hausser J, Mayo A, Keren L, Alon U et al. Central dogma rates and the trade-off between precision and economy in gene expression. Nat Commun 2019 Jan 8;10(1):68. PMID: 30622246
  • Zhang S, Zhang H, Ghia EM, Huang J et al. Inhibition of chemotherapy resistant breast cancer stem cells by a ROR1 specific antibody. Proc Natl Acad Sci U S A 2019 Jan 22;116(4):1370-1377. PMID: 30622177
  • Faner R, Morrow JD, Casas-Recasens S, Cloonan SM et al. Do sputum or circulating blood samples reflect the pulmonary transcriptomic differences of COPD patients? A multi-tissue transcriptomic network META-analysis. Respir Res 2019 Jan 8;20(1):5. PMID: 30621695
  • Zhang M, Wang T, Sirianni R, Shaul PW et al. Identifying genes with tri-modal association with survival and tumor grade in cancer patients. BMC Bioinformatics 2019 Jan 8;20(1):13. PMID: 30621577
  • Chen TC, She PY, Chen DF, Lu JH et al. Polybenzyl Glutamate Biocompatible Scaffold Promotes the Efficiency of Retinal Differentiation toward Retinal Ganglion Cell Lineage from Human-Induced Pluripotent Stem Cells. Int J Mol Sci 2019 Jan 5;20(1). PMID: 30621308
  • Lehman RR, Archer KJ et al. Penalized negative binomial models for modeling an overdispersed count outcome with a high-dimensional predictor space: Application predicting micronuclei frequency. PLoS One 2019;14(1):e0209923. PMID: 30620740
  • Zhang L, Jin Y, Zheng K, Wang H et al. Whole-Genome Sequencing Identifies a Novel Variation of WAS Gene Coordinating With Heterozygous Germline Mutation of APC to Enhance Hepatoblastoma Oncogenesis. Front Genet 2018;9:668. PMID: 30619485
  • Guo Q, Zheng R, Huang J, He M et al. Using Integrative Analysis of DNA Methylation and Gene Expression Data in Multiple Tissue Types to Prioritize Candidate Genes for Drug Development in Obesity. Front Genet 2018;9:663. PMID: 30619480
  • Whalen S, Pollard KS et al. Most chromatin interactions are not in linkage disequilibrium. Genome Res 2019 Mar;29(3):334-343. PMID: 30617125
  • Lin S, Liu Y, Goldin LR, Lyu C et al. Sex-related DNA methylation differences in B cell chronic lymphocytic leukemia. Biol Sex Differ 2019 Jan 7;10(1):2. PMID: 30616686
  • Selli C, Turnbull AK, Pearce DA, Li A et al. Molecular changes during extended neoadjuvant letrozole treatment of breast cancer: distinguishing acquired resistance from dormant tumours. Breast Cancer Res 2019 Jan 7;21(1):2. PMID: 30616553
  • Zhang F, Liu X, Zhang A, Jiang Z et al. Genome-wide dynamic network analysis reveals a critical transition state of flower development in Arabidopsis. BMC Plant Biol 2019 Jan 7;19(1):11. PMID: 30616516
  • Ma Y, Liu M, Stiller J, Liu C et al. A pan-transcriptome analysis shows that disease resistance genes have undergone more selection pressure during barley domestication. BMC Genomics 2019 Jan 7;20(1):12. PMID: 30616511
  • Fang F, VanCleave A, Helmuth R, Torres H et al. Targeting the Wnt/β-catenin pathway in human osteosarcoma cells. Oncotarget 2018 Dec 4;9(95):36780-36792. PMID: 30613366
  • Chen B, Tang H, Chen X, Zhang G et al. Transcriptomic analyses identify key differentially expressed genes and clinical outcomes between triple-negative and non-triple-negative breast cancer. Cancer Manag Res 2019;11:179-190. PMID: 30613165
  • Liang R, Zhi Y, Zheng G, Zhang B et al. Analysis of long non-coding RNAs in glioblastoma for prognosis prediction using weighted gene co-expression network analysis, Cox regression, and L1-LASSO penalization. Onco Targets Ther 2019;12:157-168. PMID: 30613154
  • Gasperini M, Hill AJ, McFaline-Figueroa JL, Martin B et al. A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens. Cell 2019 Jan 10;176(1-2):377-390.e19. PMID: 30612741
  • Ajekigbe B, Cheung K, Xu Y, Skelton AJ et al. Identification of long non-coding RNAs expressed in knee and hip osteoarthritic cartilage. Osteoarthritis Cartilage 2019 Apr;27(4):694-702. PMID: 30611906
  • Wang Y, Fan H, Zheng L et al. Biological information analysis of differentially expressed genes in oral squamous cell carcinoma tissues in GEO database. J BUON 2018 Nov-Dec;23(6):1662-1670. PMID: 30610792
  • Lee S, Cook D, Lawrence M et al. plyranges: a grammar of genomic data transformation. Genome Biol 2019 Jan 4;20(1):4. PMID: 30609939
  • Wu SG, Chang TH, Tsai MF, Liu YN et al. IGFBP7 Drives Resistance to Epidermal Growth Factor Receptor Tyrosine Kinase Inhibition in Lung Cancer. Cancers (Basel) 2019 Jan 2;11(1). PMID: 30609749
  • Forshaw TE, Holmila R, Nelson KJ, Lewis JE et al. Peroxiredoxins in Cancer and Response to Radiation Therapies. Antioxidants (Basel) 2019 Jan 1;8(1). PMID: 30609657
  • Kim W, Ryu J, Kim JE et al. CCAR2/DBC1 and Hsp60 Positively Regulate Expression of Survivin in Neuroblastoma Cells. Int J Mol Sci 2019 Jan 1;20(1). PMID: 30609639
  • Zhang W, Chronis C, Chen X, Zhang H et al. The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation. Cell Stem Cell 2019 Jan 3;24(1):138-152.e8. PMID: 30609396
  • Kayser BD, Lhomme M, Prifti E, Da Cunha C et al. Phosphatidylglycerols are induced by gut dysbiosis and inflammation, and favorably modulate adipose tissue remodeling in obesity. FASEB J 2019 Apr;33(4):4741-4754. PMID: 30608881
  • Adriaens ME, Lodder EM, Moreno-Moral A, Šilhavý J et al. Systems Genetics Approaches in Rat Identify Novel Genes and Gene Networks Associated With Cardiac Conduction. J Am Heart Assoc 2018 Nov 6;7(21):e009243. PMID: 30608189
  • Fachrul M, Utomo DH, Parikesit AA et al. lncRNA-based study of epigenetic regulations in diabetic peripheral neuropathy. In Silico Pharmacol 2018;6(1):7. PMID: 30607320
  • Benfeitas R, Bidkhori G, Mukhopadhyay B, Klevstig M et al. Characterization of heterogeneous redox responses in hepatocellular carcinoma patients using network analysis. EBioMedicine 2019 Feb;40:471-487. PMID: 30606699
  • Shukla AK, Spurrier J, Kuzina I, Giniger E et al. Hyperactive Innate Immunity Causes Degeneration of Dopamine Neurons upon Altering Activity of Cdk5. Cell Rep 2019 Jan 2;26(1):131-144.e4. PMID: 30605670
  • Ryu YH, Lee YJ, Kim KJ, Lee SJ et al. Epidermal Growth Factor (EGF)-Like Repeats and Discoidin I-Like Domains 3 (EDIL3): A Potential New Therapeutic Tool for the Treatment of Keloid Scars. Tissue Eng Regen Med 2017 Jun;14(3):267-277. PMID: 30603483
  • Budka JA, Ferris MW, Capone MJ, Hollenhorst PC et al. Common ELF1 deletion in prostate cancer bolsters oncogenic ETS function, inhibits senescence and promotes docetaxel resistance. Genes Cancer 2018 May;9(5-6):198-214. PMID: 30603056
  • Lou W, Liu J, Ding B, Chen D et al. Identification of potential miRNA-mRNA regulatory network contributing to pathogenesis of HBV-related HCC. J Transl Med 2019 Jan 3;17(1):7. PMID: 30602391
  • Islam SA, Goodman SJ, MacIsaac JL, Obradović J et al. Integration of DNA methylation patterns and genetic variation in human pediatric tissues help inform EWAS design and interpretation. Epigenetics Chromatin 2019 Jan 2;12(1):1. PMID: 30602389
  • Yadav R, Srivastava P et al. Clustering, Pathway Enrichment, and Protein-Protein Interaction Analysis of Gene Expression in Neurodevelopmental Disorders. Adv Pharmacol Sci 2018;2018:3632159. PMID: 30598663
  • Xu T, Su N, Liu L, Zhang J et al. miRBaseConverter: an R/Bioconductor package for converting and retrieving miRNA name, accession, sequence and family information in different versions of miRBase. BMC Bioinformatics 2018 Dec 31;19(Suppl 19):514. PMID: 30598108
  • Cai M, Li L et al. rPCMP: robust p-value combination by multiple partitions with applications to ATAC-seq data. BMC Syst Biol 2018 Dec 31;12(Suppl 9):141. PMID: 30598086
  • Zhang K, Geng W, Zhang S et al. Network-based logistic regression integration method for biomarker identification. BMC Syst Biol 2018 Dec 31;12(Suppl 9):135. PMID: 30598085
  • Tan ZW, Guarnera E, Berezovsky IN et al. Exploring chromatin hierarchical organization via Markov State Modelling. PLoS Comput Biol 2018 Dec;14(12):e1006686. PMID: 30596637
  • Miao W, Fan M, Huang M, Li JJ et al. Targeted Profiling of Heat Shock Proteome in Radioresistant Breast Cancer Cells. Chem Res Toxicol 2019 Feb 18;32(2):326-332. PMID: 30596229
  • Yu TNonlinear variable selection with continuous outcome: a fully nonparametric incremental forward stagewise approach. Stat Anal Data Min 2018 Aug;11(4):188-197. PMID: 30595785
  • Wang Z, Lachmann A, Ma'ayan A et al. Mining data and metadata from the gene expression omnibus. Biophys Rev 2019 Feb;11(1):103-110. PMID: 30594974
  • Cao P, Zhang M, Wang L, Sai B et al. miR-18a reactivates the Epstein-Barr virus through defective DNA damage response and promotes genomic instability in EBV-associated lymphomas. BMC Cancer 2018 Dec 29;18(1):1293. PMID: 30594162
  • Tutino VM, Poppenberg KE, Li L, Shallwani H et al. Biomarkers from circulating neutrophil transcriptomes have potential to detect unruptured intracranial aneurysms. J Transl Med 2018 Dec 28;16(1):373. PMID: 30593281
  • Haq F, Sung YN, Park I, Kayani MA et al. FGFR1 expression defines clinically distinct subtypes in pancreatic cancer. J Transl Med 2018 Dec 28;16(1):374. PMID: 30593273
  • Li L, Pan Z, Yang X et al. Key genes and co-expression network analysis in the livers of type 2 diabetes patients. J Diabetes Investig 2019 Jul;10(4):951-962. PMID: 30592156
  • Yang Y, Zhong Z, Ding Y, Zhang W et al. Bioinformatic identification of key genes and pathways that may be involved in the pathogenesis of HBV-associated acute liver failure. Genes Dis 2018 Dec;5(4):349-357. PMID: 30591937
  • Rossi S, Cordella M, Tabolacci C, Nassa G et al. TNF-alpha and metalloproteases as key players in melanoma cells aggressiveness. J Exp Clin Cancer Res 2018 Dec 28;37(1):326. PMID: 30591049
  • He Y, Ji J, Xie L, Zhang X et al. A new insight into underlying disease mechanism through semi-parametric latent differential network model. BMC Bioinformatics 2018 Dec 28;19(Suppl 17):493. PMID: 30591011
  • Olcina MM, Balanis NG, Kim RK, Aksoy BA et al. Mutations in an Innate Immunity Pathway Are Associated with Poor Overall Survival Outcomes and Hypoxic Signaling in Cancer. Cell Rep 2018 Dec 26;25(13):3721-3732.e6. PMID: 30590044
  • Fulciniti M, Lin CY, Samur MK, Lopez MA et al. Non-overlapping Control of Transcriptome by Promoter- and Super-Enhancer-Associated Dependencies in Multiple Myeloma. Cell Rep 2018 Dec 26;25(13):3693-3705.e6. PMID: 30590042
  • Commerford CD, Dieterich LC, He Y, Hell T et al. Mechanisms of Tumor-Induced Lymphovascular Niche Formation in Draining Lymph Nodes. Cell Rep 2018 Dec 26;25(13):3554-3563.e4. PMID: 30590031
  • Chu T, Wang Z, Chou SP, Danko CG et al. Discovering Transcriptional Regulatory Elements From Run-On and Sequencing Data Using the Web-Based dREG Gateway. Curr Protoc Bioinformatics 2019 Jun;66(1):e70. PMID: 30589513
  • Occhipinti A, Eyassu F, Rahman TJ, Rahman PKSM et al. In silico engineering of Pseudomonas metabolism reveals new biomarkers for increased biosurfactant production. PeerJ 2018;6:e6046. PMID: 30588397
  • Bo H, Fan L, Li J, Liu Z et al. High Expression of lncRNA AFAP1-AS1 Promotes the Progression of Colon Cancer and Predicts Poor Prognosis. J Cancer 2018;9(24):4677-4683. PMID: 30588252
  • Zhang MY, Liu XX, Li H, Li R et al. Elevated mRNA Levels of AURKA, CDC20 and TPX2 are associated with poor prognosis of smoking related lung adenocarcinoma using bioinformatics analysis. Int J Med Sci 2018;15(14):1676-1685. PMID: 30588191
  • Tian S, Meng G, Zhang W et al. A six-mRNA prognostic model to predict survival in head and neck squamous cell carcinoma. Cancer Manag Res 2019;11:131-142. PMID: 30588115
  • Xu L, Qi X, Zhu C, Wan L et al. Activation of IL-8 and its participation in cancer in schizophrenia patients: new evidence for the autoimmune hypothesis of schizophrenia. Neuropsychiatr Dis Treat 2018;14:3393-3403. PMID: 30587991
  • Shen Y, Zhao S, Wang S, Pan X et al. S1P/S1PR3 axis promotes aerobic glycolysis by YAP/c-MYC/PGAM1 axis in osteosarcoma. EBioMedicine 2019 Feb;40:210-223. PMID: 30587459
  • Li JR, Liu CC, Sun CH, Chen YT et al. Plant stress RNA-seq Nexus: a stress-specific transcriptome database in plant cells. BMC Genomics 2018 Dec 27;19(1):966. PMID: 30587128
  • Hori Y, Tanimoto Y, Takahashi S, Furukawa T et al. Important cardiac transcription factor genes are accompanied by bidirectional long non-coding RNAs. BMC Genomics 2018 Dec 27;19(1):967. PMID: 30587117
  • Fitzgerald BL, Islam MN, Graham B, Mahapatra S et al. Elucidation of a Human Urine Metabolite as a Seryl-Leucine Glycopeptide and as a Biomarker of Effective Anti-Tuberculosis Therapy. ACS Infect Dis 2019 Mar 8;5(3):353-364. PMID: 30585483
  • Liu G, Chen L, Ren H, Liu F et al. Seven Genes Based Novel Signature Predicts Clinical Outcome and Platinum Sensitivity of High Grade IIIc Serous Ovarian Carcinoma. Int J Biol Sci 2018;14(14):2012-2022. PMID: 30585265
  • Fang J, Wang H, Fang X, Li N et al. Low STYK1 expression indicates poor prognosis in gastric cancer. Cancer Manag Res 2018;10:6669-6676. PMID: 30584361
  • O'Connell GC, Chang JHC et al. Analysis of Early Stroke-induced Changes in Circulating Leukocyte Counts using Transcriptomic Deconvolution. Transl Neurosci 2018;9:161-166. PMID: 30581599
  • Kitadate Y, Jörg DJ, Tokue M, Maruyama A et al. Competition for Mitogens Regulates Spermatogenic Stem Cell Homeostasis in an Open Niche. Cell Stem Cell 2019 Jan 3;24(1):79-92.e6. PMID: 30581080
  • McQuade A, Coburn M, Tu CH, Hasselmann J et al. Development and validation of a simplified method to generate human microglia from pluripotent stem cells. Mol Neurodegener 2018 Dec 22;13(1):67. PMID: 30577865
  • Chiu YC, Hsiao TH, Wang LJ, Chen Y et al. scdNet: a computational tool for single-cell differential network analysis. BMC Syst Biol 2018 Dec 21;12(Suppl 8):124. PMID: 30577836
  • Rush STA, Repsilber D et al. Capturing context-specific regulation in molecular interaction networks. BMC Bioinformatics 2018 Dec 22;19(1):539. PMID: 30577761
  • Xu J, Liu S, Yin P, Bulun S et al. MeDEStrand: an improved method to infer genome-wide absolute methylation levels from DNA enrichment data. BMC Bioinformatics 2018 Dec 22;19(1):540. PMID: 30577750
  • Fu K, Chronis C, Soufi A, Bonora G et al. Comparison of reprogramming factor targets reveals both species-specific and conserved mechanisms in early iPSC reprogramming. BMC Genomics 2018 Dec 22;19(1):956. PMID: 30577748
  • Piras IS, Manchia M, Huentelman MJ, Pinna F et al. Peripheral Biomarkers in Schizophrenia: A Meta-Analysis of Microarray Gene Expression Datasets. Int J Neuropsychopharmacol 2019 Mar 1;22(3):186-193. PMID: 30576541
  • Hoyt CT, Domingo-Fernández D, Hofmann-Apitius M et al. BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database (Oxford) 2018 Jan 1;2018. PMID: 30576488
  • Selimoglu-Buet D, Rivière J, Ghamlouch H, Bencheikh L et al. A miR-150/TET3 pathway regulates the generation of mouse and human non-classical monocyte subset. Nat Commun 2018 Dec 21;9(1):5455. PMID: 30575719
  • Lea AJ, Vockley CM, Johnston RA, Del Carpio CA et al. Genome-wide quantification of the effects of DNA methylation on human gene regulation. Elife 2018 Dec 21;7. PMID: 30575519
  • Zhao C, Lou Y, Wang Y, Wang D et al. A gene expression signature-based nomogram model in prediction of breast cancer bone metastases. Cancer Med 2019 Jan;8(1):200-208. PMID: 30575323
  • Haider Z, Larsson P, Landfors M, Köhn L et al. An integrated transcriptome analysis in T-cell acute lymphoblastic leukemia links DNA methylation subgroups to dysregulated TAL1 and ANTP homeobox gene expression. Cancer Med 2019 Jan;8(1):311-324. PMID: 30575306
  • Park SB, Chung CK, Gonzalez E, Yoo C et al. Causal Inference Network of Genes Related with Bone Metastasis of Breast Cancer and Osteoblasts Using Causal Bayesian Networks. J Bone Metab 2018 Nov;25(4):251-266. PMID: 30574470
  • Ali MRM, Uemura T, Ramadan A, Adachi K et al. The Ring-Type E3 Ubiquitin Ligase JUL1 Targets the VQ-Motif Protein JAV1 to Coordinate Jasmonate Signaling. Plant Physiol 2019 Apr;179(4):1273-1284. PMID: 30573672
  • Al-Raawi D, Jones R, Wijesinghe S, Halsall J et al. A novel form of JARID2 is required for differentiation in lineage-committed cells. EMBO J 2019 Feb 1;38(3). PMID: 30573669
  • Raza KFuzzy logic based approaches for gene regulatory network inference. Artif Intell Med 2019 Jun;97:189-203. PMID: 30573378
  • Gao WZ, Guo LM, Xu TQ, Yin YH et al. Identification of a multidimensional transcriptome signature for survival prediction of postoperative glioblastoma multiforme patients. J Transl Med 2018 Dec 20;16(1):368. PMID: 30572911
  • Chen E, Yang F, He H, Li Q et al. Alteration of tumor suppressor BMP5 in sporadic colorectal cancer: a genomic and transcriptomic profiling based study. Mol Cancer 2018 Dec 20;17(1):176. PMID: 30572883
  • Yan C, Wang Y, Wang Q, Feng X et al. Identification of key genes and pathways in Ewing's sarcoma using bioinformatics analysis. J BUON 2018 Sep-Oct;23(5):1472-1480. PMID: 30570875
  • Wei DM, Jiang MT, Lin P, Yang H et al. Potential ceRNA networks involved in autophagy suppression of pancreatic cancer caused by chloroquine diphosphate: A study based on differentially‑expressed circRNAs, lncRNAs, miRNAs and mRNAs. Int J Oncol 2019 Feb;54(2):600-626. PMID: 30570107
  • Yang C, Ren J, Li B, Jin C et al. Identification of gene biomarkers in patients with postmenopausal osteoporosis. Mol Med Rep 2019 Feb;19(2):1065-1073. PMID: 30569177
  • Wang G, Zheng X, Zheng Y, Cao R et al. Construction and analysis of the lncRNA‑miRNA‑mRNA network based on competitive endogenous RNA reveals functional genes in heart failure. Mol Med Rep 2019 Feb;19(2):994-1003. PMID: 30569169
  • Leng L, Zhang C, Ren L, Li Q et al. Construction of a long non‑coding RNA-mediated competitive endogenous RNA network reveals global patterns and regulatory markers in gestational diabetes. Int J Mol Med 2019 Feb;43(2):927-935. PMID: 30569156
  • Chen X, Cai S, Li B, Zhang X et al. MicroRNA‑21 regulates the biological behavior of esophageal squamous cell carcinoma by targeting RASA1. Oncol Rep 2019 Mar;41(3):1627-1637. PMID: 30569149
  • Sun K, Zhao J et al. A risk assessment model for the prognosis of osteosarcoma utilizing differentially expressed lncRNAs. Mol Med Rep 2019 Feb;19(2):1128-1138. PMID: 30569146
  • Cai KT, Liu AG, Wang ZF, Jiang HW et al. Expression and potential molecular mechanisms of miR‑204‑5p in breast cancer, based on bioinformatics and a meta‑analysis of 2,306 cases. Mol Med Rep 2019 Feb;19(2):1168-1184. PMID: 30569120
  • Li Z, Yao JN, Huang WT, He RQ et al. Expression of miR‑542‑3p in osteosarcoma with miRNA microarray data, and its potential signaling pathways. Mol Med Rep 2019 Feb;19(2):974-983. PMID: 30569116
  • Zhang S, Wang L, Zan L et al. Investigation into the underlying molecular mechanisms of white adipose tissue through comparative transcriptome analysis of multiple tissues. Mol Med Rep 2019 Feb;19(2):959-966. PMID: 30569103
  • Yan P, He Y, Xie K, Kong S et al. In silico analyses for potential key genes associated with gastric cancer. PeerJ 2018;6:e6092. PMID: 30568862
  • Lu Z, Guo Y, Zhang X, Li J et al. ORY-1001 Suppresses Cell Growth and Induces Apoptosis in Lung Cancer Through Triggering HK2 Mediated Warburg Effect. Front Pharmacol 2018;9:1411. PMID: 30568590
  • Wang Q, Wang C, Chen J et al. NLRP6, decreased in gastric cancer, suppresses tumorigenicity of gastric cancer cells. Cancer Manag Res 2018;10:6431-6444. PMID: 30568504
  • Khalighfard S, Alizadeh AM, Irani S, Omranipour R et al. Plasma miR-21, miR-155, miR-10b, and Let-7a as the potential biomarkers for the monitoring of breast cancer patients. Sci Rep 2018 Dec 19;8(1):17981. PMID: 30568292
  • Huang P, Li F, Li L, You Y et al. lncRNA profile study reveals the mRNAs and lncRNAs associated with docetaxel resistance in breast cancer cells. Sci Rep 2018 Dec 19;8(1):17970. PMID: 30568280
  • Lv BM, Tong XY, Quan Y, Liu MY et al. Drug Repurposing for Japanese Encephalitis Virus Infection by Systems Biology Methods. Molecules 2018 Dec 18;23(12). PMID: 30567313
  • Uchimura T, Oyama Y, Deng M, Guo H et al. The Innate Immune Sensor NLRC3 Acts as a Rheostat that Fine-Tunes T Cell Responses in Infection and Autoimmunity. Immunity 2018 Dec 18;49(6):1049-1061.e6. PMID: 30566882
  • Kinouchi K, Magnan C, Ceglia N, Liu Y et al. Fasting Imparts a Switch to Alternative Daily Pathways in Liver and Muscle. Cell Rep 2018 Dec 18;25(12):3299-3314.e6. PMID: 30566858
  • Thodberg M, Thieffry A, Bornholdt J, Boyd M et al. Comprehensive profiling of the fission yeast transcription start site activity during stress and media response. Nucleic Acids Res 2019 Feb 28;47(4):1671-1691. PMID: 30566651
  • Zhu K, Tang Y, Xu X, Dang H et al. Non-proteolytic ubiquitin modification of PPARγ by Smurf1 protects the liver from steatosis. PLoS Biol 2018 Dec;16(12):e3000091. PMID: 30566427
  • Zhou R, Zhang J, Zeng D, Sun H et al. Immune cell infiltration as a biomarker for the diagnosis and prognosis of stage I-III colon cancer. Cancer Immunol Immunother 2019 Mar;68(3):433-442. PMID: 30564892
  • Fröhlich F, Reiser A, Fink L, Woschée D et al. Multi-experiment nonlinear mixed effect modeling of single-cell translation kinetics after transfection. NPJ Syst Biol Appl 2019;5:1. PMID: 30564456
  • Pereira GC, Sanchez L, Schaughency PM, Rubio-Roldán A et al. Properties of LINE-1 proteins and repeat element expression in the context of amyotrophic lateral sclerosis. Mob DNA 2018;9:35. PMID: 30564290
  • Labonte AC, Kegerreis B, Geraci NS, Bachali P et al. Identification of alterations in macrophage activation associated with disease activity in systemic lupus erythematosus. PLoS One 2018;13(12):e0208132. PMID: 30562343
  • Dancik GM, Theodorescu D et al. The Prognostic Value of Cell Cycle Gene Expression Signatures in Muscle Invasive, High-Grade Bladder Cancer. Bladder Cancer 2015 Apr 30;1(1):45-63. PMID: 30561442
  • LeBlanc L, Lee BK, Yu AC, Kim M et al. Yap1 safeguards mouse embryonic stem cells from excessive apoptosis during differentiation. Elife 2018 Dec 18;7. PMID: 30561326
  • Chorro L, Suzuki M, Chin SS, Williams TM et al. Interleukin 2 modulates thymic-derived regulatory T cell epigenetic landscape. Nat Commun 2018 Dec 18;9(1):5368. PMID: 30560927
  • Rogers HA, Chapman R, Kings H, Allard J et al. Limitations of current in vitro models for testing the clinical potential of epigenetic inhibitors for treatment of pediatric ependymoma. Oncotarget 2018 Nov 23;9(92):36530-36541. PMID: 30559935
  • Rodríguez-Blanco G, Zeneyedpour L, Duijvesz D, Hoogland AM et al. Tissue proteomics outlines AGR2 AND LOX5 as markers for biochemical recurrence of prostate cancer. Oncotarget 2018 Nov 23;9(92):36444-36456. PMID: 30559929
  • Hua X, Chen J, Wu L et al. Identification of candidate biomarkers associated with apoptosis in melanosis coli: GNG5, LPAR3, MAPK8, and PSMC6. Biosci Rep 2019 Jan 31;39(1). PMID: 30559147
  • Wang H, Li Y, Ryder JW, Hole JT et al. Genome-wide RNAseq study of the molecular mechanisms underlying microglia activation in response to pathological tau perturbation in the rTg4510 tau transgenic animal model. Mol Neurodegener 2018 Dec 17;13(1):65. PMID: 30558641
  • Mattioli R, Biancucci M, El Shall A, Mosca L et al. Proline synthesis in developing microspores is required for pollen development and fertility. BMC Plant Biol 2018 Dec 17;18(1):356. PMID: 30558541
  • Pang C, Gu Y, Ding Y, Ma C et al. Several genes involved in the JAK-STAT pathway may act as prognostic markers in pancreatic cancer identified by microarray data analysis. Medicine (Baltimore) 2018 Dec;97(50):e13297. PMID: 30557977
  • Chawla AS, Kanodia P, Mukherjee A, Jain V et al. Cell-intrinsic regulation of peripheral memory-phenotype T cell frequencies. PLoS One 2018;13(12):e0200227. PMID: 30557341
  • Luo X, Yu H, Song Y, Sun T et al. Integration of metabolomic and transcriptomic data reveals metabolic pathway alteration in breast cancer and impact of related signature on survival. J Cell Physiol 2019 Aug;234(8):13021-13031. PMID: 30556899
  • Li Z, Liu ZM, Xu BH et al. A meta-analysis of the effect of microRNA-34a on the progression and prognosis of gastric cancer. Eur Rev Med Pharmacol Sci 2018 Dec;22(23):8281-8287. PMID: 30556868
  • Candelli T, Gros J, Libri D et al. Pervasive transcription fine-tunes replication origin activity. Elife 2018 Dec 17;7. PMID: 30556807
  • Goodrich M, Armour AC, Panchapakesan K, You X et al. PAC1R Genotype to Phenotype Correlations in Autism Spectrum Disorder. Autism Res 2019 Feb;12(2):200-211. PMID: 30556326
  • Liu W, Ouyang S, Zhou Z, Wang M et al. Identification of genes associated with cancer progression and prognosis in lung adenocarcinoma: Analyses based on microarray from Oncomine and The Cancer Genome Atlas databases. Mol Genet Genomic Med 2019 Feb;7(2):e00528. PMID: 30556321
  • Mavila N, Tang Y, Berlind J, Ramani K et al. Prohibitin 1 Acts As a Negative Regulator of Wingless/Integrated-Beta-Catenin Signaling in Murine Liver and Human Liver Cancer Cells. Hepatol Commun 2018 Dec;2(12):1583-1600. PMID: 30556043
  • Morrison MC, Verschuren L, Salic K, Verheij J et al. Obeticholic Acid Modulates Serum Metabolites and Gene Signatures Characteristic of Human NASH and Attenuates Inflammation and Fibrosis Progression in Ldlr-/-.Leiden Mice. Hepatol Commun 2018 Dec;2(12):1513-1532. PMID: 30556039
  • Amundson SAGene Expression Studies for the Development of Particle Therapy. Int J Part Ther 2018 Summer;5(1):49-59. PMID: 30555854
  • Izadi F, Soheilifar MH et al. Exploring Potential Biomarkers Underlying Pathogenesis of Alzheimer's Disease by Differential Co-expression Analysis. Avicenna J Med Biotechnol 2018 Oct-Dec;10(4):233-241. PMID: 30555656
  • Villa A, Klein B, Janssen B, Pedragosa J et al. Identification of new molecular targets for PET imaging of the microglial anti-inflammatory activation state. Theranostics 2018;8(19):5400-5418. PMID: 30555554
  • Mai D, Ding P, Tan L, Zhang J et al. PIWI-interacting RNA-54265 is oncogenic and a potential therapeutic target in colorectal adenocarcinoma. Theranostics 2018;8(19):5213-5230. PMID: 30555542
  • Yang J, Liu Y, Yan H, Tian T et al. PlantEAR: Functional Analysis Platform for Plant EAR Motif-Containing Proteins. Front Genet 2018;9:590. PMID: 30555515
  • Zhong X, Liu Y, Liu H, Zhang Y et al. Identification of Potential Prognostic Genes for Neuroblastoma. Front Genet 2018;9:589. PMID: 30555514
  • Sánchez-Gaya V, Casaní-Galdón S, Ugidos M, Kuang Z et al. Elucidating the Role of Chromatin State and Transcription Factors on the Regulation of the Yeast Metabolic Cycle: A Multi-Omic Integrative Approach. Front Genet 2018;9:578. PMID: 30555512
  • Li B, Cao Y, Meng G, Qian L et al. Targeting glutaminase 1 attenuates stemness properties in hepatocellular carcinoma by increasing reactive oxygen species and suppressing Wnt/beta-catenin pathway. EBioMedicine 2019 Jan;39:239-254. PMID: 30555042
  • Yin WC, Satkunendran T, Mo R, Morrissy S et al. Dual Regulatory Functions of SUFU and Targetome of GLI2 in SHH Subgroup Medulloblastoma. Dev Cell 2019 Jan 28;48(2):167-183.e5. PMID: 30554998
  • Chakrabarti AM, Henser-Brownhill T, Monserrat J, Poetsch AR et al. Target-Specific Precision of CRISPR-Mediated Genome Editing. Mol Cell 2019 Feb 21;73(4):699-713.e6. PMID: 30554945
  • Lambert JP, Picaud S, Fujisawa T, Hou H et al. Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains. Mol Cell 2019 Feb 7;73(3):621-638.e17. PMID: 30554943
  • Jiao X, Li Z, Wang M, Katiyar S et al. Dachshund Depletion Disrupts Mammary Gland Development and Diverts the Composition of the Mammary Gland Progenitor Pool. Stem Cell Reports 2019 Jan 8;12(1):135-151. PMID: 30554919
  • Glassberg EC, Gao Z, Harpak A, Lan X et al. Evidence for Weak Selective Constraint on Human Gene Expression. Genetics 2019 Feb;211(2):757-772. PMID: 30554168
  • Calandrelli R, Wu Q, Guan J, Zhong S et al. GITAR: An Open Source Tool for Analysis and Visualization of Hi-C Data. Genomics Proteomics Bioinformatics 2018 Oct;16(5):365-372. PMID: 30553884
  • Nakanishi Y, Duran A, L'Hermitte A, Shelton PM et al. Simultaneous Loss of Both Atypical Protein Kinase C Genes in the Intestinal Epithelium Drives Serrated Intestinal Cancer by Impairing Immunosurveillance. Immunity 2018 Dec 18;49(6):1132-1147.e7. PMID: 30552022
  • Li HZ, Lu HD et al. Transcriptome analyses identify key genes and potential mechanisms in a rat model of osteoarthritis. J Orthop Surg Res 2018 Dec 14;13(1):319. PMID: 30551734
  • Guo M, Lu S, Huang H, Wang Y et al. Increased AURKA promotes cell proliferation and predicts poor prognosis in bladder cancer. BMC Syst Biol 2018 Dec 14;12(Suppl 7):118. PMID: 30547784
  • Karatzas E, Kolios G, Spyrou GM et al. An Application of Computational Drug Repurposing Based on Transcriptomic Signatures. Methods Mol Biol 2019;1903:149-177. PMID: 30547441
  • Siahpirani AF, Chasman D, Roy S et al. Integrative Approaches for Inference of Genome-Scale Gene Regulatory Networks. Methods Mol Biol 2019;1883:161-194. PMID: 30547400
  • Walkowska J, Kallemose T, Jönsson G, Jönsson M et al. Immunoprofiles of colorectal cancer from Lynch syndrome. Oncoimmunology 2019;8(1):e1515612. PMID: 30546958
  • Varn FS, Wang Y, Cheng C et al. A B cell-derived gene expression signature associates with an immunologically active tumor microenvironment and response to immune checkpoint blockade therapy. Oncoimmunology 2019;8(1):e1513440. PMID: 30546953
  • Zhu Q, Sun Y, Zhou Q, He Q et al. Identification of key genes and pathways by bioinformatics analysis with TCGA RNA sequencing data in hepatocellular carcinoma. Mol Clin Oncol 2018 Dec;9(6):597-606. PMID: 30546887
  • Lu HM, Yi WW, Ma YS, Wu W et al. Prognostic implications of decreased microRNA-101-3p expression in patients with non-small cell lung cancer. Oncol Lett 2018 Dec;16(6):7048-7056. PMID: 30546438
  • Wen DY, Huang JC, Wang JY, Pan WY et al. Potential clinical value and putative biological function of miR-122-5p in hepatocellular carcinoma: A comprehensive study using microarray and RNA sequencing data. Oncol Lett 2018 Dec;16(6):6918-6929. PMID: 30546424
  • Meng Q, Wang K, Brunetti T, Xia Y et al. The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes. Sci Transl Med 2018 Dec 19;10(472). PMID: 30545965
  • Chen C, Meng Q, Xia Y, Ding C et al. The transcription factor POU3F2 regulates a gene coexpression network in brain tissue from patients with psychiatric disorders. Sci Transl Med 2018 Dec 19;10(472). PMID: 30545964
  • Wu Z, Gao S, Zhao X, Chen J et al. Long noncoding RNAs of single hematopoietic stem and progenitor cells in healthy and dysplastic human bone marrow. Haematologica 2019 May;104(5):894-906. PMID: 30545929
  • Weerts MJA, Smid M, Foekens JA, Sleijfer S et al. Mitochondrial RNA Expression and Single Nucleotide Variants in Association with Clinical Parameters in Primary Breast Cancers. Cancers (Basel) 2018 Dec 9;10(12). PMID: 30544876
  • Chen YJ, Chang WA, Wu LY, Hsu YL et al. Systematic Analysis of Transcriptomic Profile of Chondrocytes in Osteoarthritic Knee Using Next-Generation Sequencing and Bioinformatics. J Clin Med 2018 Dec 10;7(12). PMID: 30544699
  • Liu XX, Cai L, Liu FJ et al. An in silico analysis of human sperm genes associated with asthenozoospermia and its implication in male infertility. Medicine (Baltimore) 2018 Dec;97(49):e13338. PMID: 30544396
  • Cingir Koker S, Jahja E, Shehwana H, Keskus AG et al. Cholinergic Receptor Nicotinic Alpha 5 (CHRNA5) RNAi is associated with cell cycle inhibition, apoptosis, DNA damage response and drug sensitivity in breast cancer. PLoS One 2018;13(12):e0208982. PMID: 30543688
  • Gan BL, Zhang LJ, Gao L, Ma FC et al. Downregulation of miR‑224‑5p in prostate cancer and its relevant molecular mechanism via TCGA, GEO database and in silico analyses. Oncol Rep 2018 Dec;40(6):3171-3188. PMID: 30542718
  • Zhang T, Guo J, Gu J, Wang Z et al. Identifying the key genes and microRNAs in colorectal cancer liver metastasis by bioinformatics analysis and in vitro experiments. Oncol Rep 2019 Jan;41(1):279-291. PMID: 30542696
  • Ashwin H, Seifert K, Forrester S, Brown N et al. Tissue and host species-specific transcriptional changes in models of experimental visceral leishmaniasis. Wellcome Open Res 2018;3:135. PMID: 30542664
  • Yang B, Bao W, Huang DS, Chen Y et al. Inference of Large-scale Time-delayed Gene Regulatory Network with Parallel MapReduce Cloud Platform. Sci Rep 2018 Dec 12;8(1):17787. PMID: 30542062
  • Li C, Mo D, Li M, Zheng Y et al. Age-related but not longevity-related genes are found by weighted gene co-expression network analysis in the peripheral blood cells of humans. Genes Genet Syst 2019 Jan 19;93(6):221-228. PMID: 30541985
  • Xu DH, Li Q, Hu H, Ni B et al. Transmembrane protein GRINA modulates aerobic glycolysis and promotes tumor progression in gastric cancer. J Exp Clin Cancer Res 2018 Dec 12;37(1):308. PMID: 30541591
  • Neville MDC, Choi J, Lieberman J, Duan QL et al. Identification of deleterious and regulatory genomic variations in known asthma loci. Respir Res 2018 Dec 12;19(1):248. PMID: 30541564
  • Liu F, Zhang J, Qin L, Yang Z et al. Circular RNA EIF6 (Hsa_circ_0060060) sponges miR-144-3p to promote the cisplatin-resistance of human thyroid carcinoma cells by autophagy regulation. Aging (Albany NY) 2018 Dec 12;10(12):3806-3820. PMID: 30540564
  • Spataru A, Le Duc D, Zagrean L, Zagrean AM et al. Ethanol exposed maturing rat cerebellar granule cells show impaired energy metabolism and increased cell death after oxygen-glucose deprivation. Neural Regen Res 2019 Mar;14(3):485-490. PMID: 30539817
  • Zhang K, Li C, Liu J, Li Z et al. Down-Regulation of APTR and it's Diagnostic Value in Papillary and Anaplastic Thyroid Cancer. Pathol Oncol Res 2020 Jan;26(1):559-565. PMID: 30539519
  • Song YJ, Tan J, Gao XH, Wang LX et al. Integrated analysis reveals key genes with prognostic value in lung adenocarcinoma. Cancer Manag Res 2018;10:6097-6108. PMID: 30538558
  • Zheng Y, Liu Y, Zhao S, Zheng Z et al. Large-scale analysis reveals a novel risk score to predict overall survival in hepatocellular carcinoma. Cancer Manag Res 2018;10:6079-6096. PMID: 30538557
  • Zhou Y, Gu C, Li J, Zhu L et al. Aberrantly expressed long noncoding RNAs and genes in Parkinson's disease. Neuropsychiatr Dis Treat 2018;14:3219-3229. PMID: 30538480
  • Sakamoto T, Tsujimoto-Inui Y, Sotta N, Hirakawa T et al. Proteasomal degradation of BRAHMA promotes Boron tolerance in Arabidopsis. Nat Commun 2018 Dec 11;9(1):5285. PMID: 30538237
  • Groff AF, Barutcu AR, Lewandowski JP, Rinn JL et al. Enhancers in the Peril lincRNA locus regulate distant but not local genes. Genome Biol 2018 Dec 11;19(1):219. PMID: 30537984
  • Martinez-Romero J, Bueno-Fortes S, Martín-Merino M, Ramirez de Molina A et al. Survival marker genes of colorectal cancer derived from consistent transcriptomic profiling. BMC Genomics 2018 Dec 11;19(Suppl 8):857. PMID: 30537927
  • Geng XD, Wang WW, Feng Z, Liu R et al. Identification of key genes and pathways in diabetic nephropathy by bioinformatics analysis. J Diabetes Investig 2019 Jul;10(4):972-984. PMID: 30536626
  • Gao X, Chen Y, Chen M, Wang S et al. Identification of key candidate genes and biological pathways in bladder cancer. PeerJ 2018;6:e6036. PMID: 30533316
  • Sung GH, Chang H, Lee JY, Song SY et al. Pancreatic-cancer-cell-derived trefoil factor 2 impairs maturation and migration of human monocyte-derived dendritic cells in vitro. Anim Cells Syst (Seoul) 2018;22(6):368-381. PMID: 30533259
  • Da Ros S, Aresu L, Ferraresso S, Zorzan E et al. Validation of epigenetic mechanisms regulating gene expression in canine B-cell lymphoma: An in vitro and in vivo approach. PLoS One 2018;13(12):e0208709. PMID: 30533020
  • Ryals M, Morell RJ, Martin D, Boger ET et al. The Inner Ear Heat Shock Transcriptional Signature Identifies Compounds That Protect Against Aminoglycoside Ototoxicity. Front Cell Neurosci 2018;12:445. PMID: 30532693
  • Yin L, Wang Y, Guo X, Xu C et al. Comparison of gene expression in liver regeneration and hepatocellular carcinoma formation. Cancer Manag Res 2018;10:5691-5708. PMID: 30532592
  • Sheng M, Dong Z, Xie Y et al. Identification of tumor-educated platelet biomarkers of non-small-cell lung cancer. Onco Targets Ther 2018;11:8143-8151. PMID: 30532555
  • Liang T, Ye X, Liu Y, Qiu X et al. FAM46B inhibits cell proliferation and cell cycle progression in prostate cancer through ubiquitination of β-catenin. Exp Mol Med 2018 Dec 10;50(12):1-12. PMID: 30532005
  • He J, Liu Y, Zhang L, Zhang H et al. Integrin Subunit beta 8 (ITGB8) Upregulation Is an Independent Predictor of Unfavorable Survival of High-Grade Serous Ovarian Carcinoma Patients. Med Sci Monit 2018 Dec 10;24:8933-8940. PMID: 30531684
  • Chen Z, Amro EM, Becker F, Hölzer M et al. Cohesin-mediated NF-κB signaling limits hematopoietic stem cell self-renewal in aging and inflammation. J Exp Med 2019 Jan 7;216(1):152-175. PMID: 30530755
  • Qian Y, Liao J, Suen AHC, Lee AWT et al. Comparative analysis of single-cell parallel sequencing approaches in oocyte application. Int J Biochem Cell Biol 2019 Feb;107:1-5. PMID: 30529019
  • Zhang LS, Kang X, Lu J, Zhang Y et al. Installation of a cancer promoting WNT/SIX1 signaling axis by the oncofusion protein MLL-AF9. EBioMedicine 2019 Jan;39:145-158. PMID: 30528456
  • Wu D, Zhou M, Li L, Leng X et al. Time series analysis of gene changes and processes after burn with human gene expression profiles. Burns 2019 Mar;45(2):387-397. PMID: 30527648
  • Wu S, Wu D, Pan Y, Liu H et al. Correlation between EZH2 and CEP55 and lung adenocarcinoma prognosis. Pathol Res Pract 2019 Feb;215(2):292-301. PMID: 30527357
  • Zufferey M, Tavernari D, Oricchio E, Ciriello G et al. Comparison of computational methods for the identification of topologically associating domains. Genome Biol 2018 Dec 10;19(1):217. PMID: 30526631
  • Tian S, Wang C, Chang HH et al. A longitudinal feature selection method identifies relevant genes to distinguish complicated injury and uncomplicated injury over time. BMC Med Inform Decis Mak 2018 Dec 7;18(Suppl 5):115. PMID: 30526581
  • Ng Kee Kwong F, Nicholson AG, Pavlidis S, Adcock IM et al. PGAM5 expression and macrophage signatures in non-small cell lung cancer associated with chronic obstructive pulmonary disease (COPD). BMC Cancer 2018 Dec 10;18(1):1238. PMID: 30526542
  • Soe S, Park Y, Chae H et al. BiSpark: a Spark-based highly scalable aligner for bisulfite sequencing data. BMC Bioinformatics 2018 Dec 10;19(1):472. PMID: 30526492
  • Shen S, Kong J, Qiu Y, Yang X et al. Identification of core genes and outcomes in hepatocellular carcinoma by bioinformatics analysis. J Cell Biochem 2019 Jun;120(6):10069-10081. PMID: 30525236
  • Alfituri OA, Ajibola O, Brewer JM, Garside P et al. Effects of host-derived chemokines on the motility and viability of Trypanosoma brucei. Parasite Immunol 2019 Feb;41(2):e12609. PMID: 30525202
  • Gao S, Zhang H, Zuo X, Xiao Y et al. Integrated comparison of the miRNAome and mRNAome in muscles of dermatomyositis and polymyositis reveals common and specific miRNA-mRNAs. Epigenomics 2019 Jan;11(1):23-33. PMID: 30523707
  • Grabowski P, Rappsilber J et al. A Primer on Data Analytics in Functional Genomics: How to Move from Data to Insight? Trends Biochem Sci 2019 Jan;44(1):21-32. PMID: 30522862
  • Zhang C, Liang Y, Ma MH, Wu KZ et al. Downregulation of microRNA-376a in Gastric Cancer and Association with Poor Prognosis. Cell Physiol Biochem 2018;51(5):2010-2018. PMID: 30522118
  • Grisci BI, Feltes BC, Dorn M et al. Neuroevolution as a tool for microarray gene expression pattern identification in cancer research. J Biomed Inform 2019 Jan;89:122-133. PMID: 30521855
  • He F, Celik A, Wu C, Jacobson A et al. General decapping activators target different subsets of inefficiently translated mRNAs. Elife 2018 Dec 6;7. PMID: 30520724
  • Li Z, Zhang Y, Zhang Z, Zhao Z et al. A four-gene signature predicts the efficacy of paclitaxel-based neoadjuvant therapy in human epidermal growth factor receptor 2-negative breast cancer. J Cell Biochem 2019 Apr;120(4):6046-6056. PMID: 30520096
  • Xue R, Hua L, Xu W, Gao Y et al. Derivation and Validation of the Potential Core Genes in Pancreatic Cancer for Tumor-Stroma Crosstalk. Biomed Res Int 2018;2018:4283673. PMID: 30519576
  • Son K, Yu S, Shin W, Han K et al. A Simple Guideline to Assess the Characteristics of RNA-Seq Data. Biomed Res Int 2018;2018:2906292. PMID: 30519573
  • Xiao H, Xu D, Chen P, Zeng G et al. Identification of Five Genes as a Potential Biomarker for Predicting Progress and Prognosis in Adrenocortical Carcinoma. J Cancer 2018;9(23):4484-4495. PMID: 30519354
  • Lin H, Zhang X, Liao L, Yu T et al. CPNE3 promotes migration and invasion in non-small cell lung cancer by interacting with RACK1 via FAK signaling activation. J Cancer 2018;9(22):4215-4222. PMID: 30519322
  • Zhu Z, Zhang Y, Huang C, Tang Y et al. Overexpression of RALY promotes migration and predicts poor prognosis in hepatocellular carcinoma. Cancer Manag Res 2018;10:5559-5572. PMID: 30519104
  • Xu Y, Shen K et al. Identification of potential key genes associated with ovarian clear cell carcinoma. Cancer Manag Res 2018;10:5461-5470. PMID: 30519094
  • Zhao F, Yu YQ et al. The prognostic roles of mRNAs of the exosomes derived from bone marrow stromal cells in common malignancies: a bioinformatic study. Onco Targets Ther 2018;11:7979-7986. PMID: 30519039
  • Fadason T, Schierding W, Lumley T, O'Sullivan JM et al. Chromatin interactions and expression quantitative trait loci reveal genetic drivers of multimorbidities. Nat Commun 2018 Dec 5;9(1):5198. PMID: 30518762
  • Caprini E, Bresin A, Cristofoletti C, Helmer Citterich M et al. Loss of the candidate tumor suppressor ZEB1 (TCF8, ZFHX1A) in Sézary syndrome. Cell Death Dis 2018 Dec 5;9(12):1178. PMID: 30518749
  • Towers AJ, Tremblay MW, Chung L, Li XL et al. Epigenetic dysregulation of Oxtr in Tet1-deficient mice has implications for neuropsychiatric disorders. JCI Insight 2018 Dec 6;3(23). PMID: 30518695
  • Foroughi K, Amini M, Atashi A, Mahmoodzadeh H et al. Tissue-Specific Down-Regulation of the Long Non-Coding RNAs PCAT18 and LINC01133 in Gastric Cancer Development. Int J Mol Sci 2018 Dec 4;19(12). PMID: 30518158
  • Sobecki M, Souaid C, Boulay J, Guerineau V et al. MadID, a Versatile Approach to Map Protein-DNA Interactions, Highlights Telomere-Nuclear Envelope Contact Sites in Human Cells. Cell Rep 2018 Dec 4;25(10):2891-2903.e5. PMID: 30517874
  • Jeong H, Jung J, Oh HE, Choi JW et al. Prognostic Characteristics of MACC1 Expression in Epithelial Ovarian Cancer. Biomed Res Int 2018;2018:9207153. PMID: 30515418
  • Woldesemayat AA, Ntwasa M et al. Pathways and Network Based Analysis of Candidate Genes to Reveal Cross-Talk and Specificity in the Sorghum (Sorghum bicolor (L.) Moench) Responses to Drought and It's Co-occurring Stresses. Front Genet 2018;9:557. PMID: 30515190
  • Bartoschek M, Oskolkov N, Bocci M, Lövrot J et al. Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing. Nat Commun 2018 Dec 4;9(1):5150. PMID: 30514914
  • Fukuoka K, Kanemura Y, Shofuda T, Fukushima S et al. Significance of molecular classification of ependymomas: C11orf95-RELA fusion-negative supratentorial ependymomas are a heterogeneous group of tumors. Acta Neuropathol Commun 2018 Dec 4;6(1):134. PMID: 30514397
  • Ye YP, Jiao HL, Wang SY, Xiao ZY et al. Hypermethylation of DMTN promotes the metastasis of colorectal cancer cells by regulating the actin cytoskeleton through Rac1 signaling activation. J Exp Clin Cancer Res 2018 Dec 4;37(1):299. PMID: 30514346
  • Li L, Huang Y, Gao Y, Shi T et al. EGF/EGFR upregulates and cooperates with Netrin-4 to protect glioblastoma cells from DNA damage-induced senescence. BMC Cancer 2018 Dec 4;18(1):1215. PMID: 30514230
  • Gatchalian J, Malik S, Ho J, Lee DS et al. A non-canonical BRD9-containing BAF chromatin remodeling complex regulates naive pluripotency in mouse embryonic stem cells. Nat Commun 2018 Dec 3;9(1):5139. PMID: 30510198
  • Zhang K, Zhang Y, Gu L, Lan M et al. Islr regulates canonical Wnt signaling-mediated skeletal muscle regeneration by stabilizing Dishevelled-2 and preventing autophagy. Nat Commun 2018 Dec 3;9(1):5129. PMID: 30510196
  • Carpenter BL, Zhou W, Madaj Z, DeWitt AK et al. Mother-child transmission of epigenetic information by tunable polymorphic imprinting. Proc Natl Acad Sci U S A 2018 Dec 18;115(51):E11970-E11977. PMID: 30509985
  • Tang D, Zhao X, Zhang L, Wang Z et al. Identification of hub genes to regulate breast cancer metastasis to brain by bioinformatics analyses. J Cell Biochem 2019 Jun;120(6):9522-9531. PMID: 30506958
  • He W, Chen L, Yuan K, Zhou Q et al. Gene set enrichment analysis and meta-analysis to identify six key genes regulating and controlling the prognosis of esophageal squamous cell carcinoma. J Thorac Dis 2018 Oct;10(10):5714-5726. PMID: 30505479
  • Jeon YJ, Kim T, Park D, Nuovo GJ et al. miRNA-mediated TUSC3 deficiency enhances UPR and ERAD to promote metastatic potential of NSCLC. Nat Commun 2018 Nov 30;9(1):5110. PMID: 30504895
  • Li MD, Vera NB, Yang Y, Zhang B et al. Adipocyte OGT governs diet-induced hyperphagia and obesity. Nat Commun 2018 Nov 30;9(1):5103. PMID: 30504766
  • De Robertis M, Mazza T, Fusilli C, Loiacono L et al. EphB2 stem-related and EphA2 progression-related miRNA-based networks in progressive stages of CRC evolution: clinical significance and potential miRNA drivers. Mol Cancer 2018 Nov 30;17(1):169. PMID: 30501625
  • Hosny A, Parmar C, Coroller TP, Grossmann P et al. Deep learning for lung cancer prognostication: A retrospective multi-cohort radiomics study. PLoS Med 2018 Nov;15(11):e1002711. PMID: 30500819
  • Bouyer D, Heese M, Chen P, Harashima H et al. Genome-wide identification of RETINOBLASTOMA RELATED 1 binding sites in Arabidopsis reveals novel DNA damage regulators. PLoS Genet 2018 Nov;14(11):e1007797. PMID: 30500810
  • Peng WC, Logan CY, Fish M, Anbarchian T et al. Inflammatory Cytokine TNFα Promotes the Long-Term Expansion of Primary Hepatocytes in 3D Culture. Cell 2018 Nov 29;175(6):1607-1619.e15. PMID: 30500539
  • Thompson AC, Capellini TD, Guenther CA, Chan YF et al. A novel enhancer near the Pitx1 gene influences development and evolution of pelvic appendages in vertebrates. Elife 2018 Nov 30;7. PMID: 30499775
  • Díaz N, Kruse K, Erdmann T, Staiger AM et al. Chromatin conformation analysis of primary patient tissue using a low input Hi-C method. Nat Commun 2018 Nov 29;9(1):4938. PMID: 30498195
  • Wu S, Wang Y, Chen G, Zhang M et al. 2'-5'-Oligoadenylate synthetase 1 polymorphisms are associated with tuberculosis: a case-control study. BMC Pulm Med 2018 Nov 29;18(1):180. PMID: 30497421
  • Fiscon G, Conte F, Paci P et al. SWIM tool application to expression data of glioblastoma stem-like cell lines, corresponding primary tumors and conventional glioma cell lines. BMC Bioinformatics 2018 Nov 30;19(Suppl 15):436. PMID: 30497369
  • Wang H, Lee JH, Tian Y et al. Critical Genes in White Adipose Tissue Based on Gene Expression Profile Following Exercise. Int J Sports Med 2019 Jan;40(1):57-61. PMID: 30497092
  • Schäpe P, Kwon MJ, Baumann B, Gutschmann B et al. Updating genome annotation for the microbial cell factory Aspergillus niger using gene co-expression networks. Nucleic Acids Res 2019 Jan 25;47(2):559-569. PMID: 30496528
  • Santamaría R, Therón R, Durán L, García A et al. Genome-wide search of nucleosome patterns using visual analytics. Bioinformatics 2019 Jul 1;35(13):2185-2192. PMID: 30496344
  • Naorem LD, Muthaiyan M, Venkatesan A et al. Identification of dysregulated miRNAs in triple negative breast cancer: A meta-analysis approach. J Cell Physiol 2019 Jul;234(7):11768-11779. PMID: 30488443
  • Yu D, Xu M, Ito H, Shao W et al. Tracking microRNA Processing Signals by Degradome Sequencing Data Analysis. Front Genet 2018;9:546. PMID: 30487815
  • Lago TS, Silva JA, Lago EL, Carvalho EM et al. The miRNA 361-3p, a Regulator of GZMB and TNF Is Associated With Therapeutic Failure and Longer Time Healing of Cutaneous Leishmaniasis Caused by L. (viannia) braziliensis. Front Immunol 2018;9:2621. PMID: 30487794
  • Douam F, Ziegler CGK, Hrebikova G, Fant B et al. Selective expansion of myeloid and NK cells in humanized mice yields human-like vaccine responses. Nat Commun 2018 Nov 28;9(1):5031. PMID: 30487575
  • Castiglioni I, Caccia R, Garcia-Manteiga JM, Ferri G et al. The Trithorax protein Ash1L promotes myoblast fusion by activating Cdon expression. Nat Commun 2018 Nov 28;9(1):5026. PMID: 30487570
  • Manicum T, Ni F, Ye Y, Fan X et al. Prognostic values of E2F mRNA expression in human gastric cancer. Biosci Rep 2018 Dec 21;38(6). PMID: 30487158
  • Wang F, Chainani P, White T, Yang J et al. Deep learning identifies genome-wide DNA binding sites of long noncoding RNAs. RNA Biol 2018;15(12):1468-1476. PMID: 30486737
  • Kaur S, Mirza AH, Pociot F et al. Cell Type-Selective Expression of Circular RNAs in Human Pancreatic Islets. Noncoding RNA 2018 Nov 27;4(4). PMID: 30486482
  • Zhou Y, Wang Q, Chu L, Dai W et al. FOXM1c promotes oesophageal cancer metastasis by transcriptionally regulating IRF1 expression. Cell Prolif 2019 Mar;52(2):e12553. PMID: 30485581
  • Xie X, Wang J, Shi D, Zou Y et al. Identification of a 4-mRNA metastasis-related prognostic signature for patients with breast cancer. J Cell Mol Med 2019 Feb;23(2):1439-1447. PMID: 30484951
  • Hollern DP, Contreras CM, Dance-Barnes S, Silva GO et al. A mouse model featuring tissue-specific deletion of p53 and Brca1 gives rise to mammary tumors with genomic and transcriptomic similarities to human basal-like breast cancer. Breast Cancer Res Treat 2019 Feb;174(1):143-155. PMID: 30484104
  • Lu DH, Yang J, Gao LK, Min J et al. Lysine demethylase 2A promotes the progression of ovarian cancer by regulating the PI3K pathway and reversing epithelial‑mesenchymal transition. Oncol Rep 2019 Feb;41(2):917-927. PMID: 30483796
  • Huang P, Gu J, Wu J, Geng L et al. Microarray analysis of the molecular mechanisms associated with age and body mass index in human meniscal injury. Mol Med Rep 2019 Jan;19(1):93-102. PMID: 30483788
  • Nie W, Ni D, Ma X, Zhang Y et al. miR‑122 promotes proliferation and invasion of clear cell renal cell carcinoma by suppressing Forkhead box O3. Int J Oncol 2019 Feb;54(2):559-571. PMID: 30483771
  • Mohammadi-Dehcheshmeh M, Niazi A, Ebrahimi M, Tahsili M et al. Unified Transcriptomic Signature of Arbuscular Mycorrhiza Colonization in Roots of Medicago truncatula by Integration of Machine Learning, Promoter Analysis, and Direct Merging Meta-Analysis. Front Plant Sci 2018;9:1550. PMID: 30483277
  • Zhu T, Zheng SC, Paul DS, Horvath S et al. Cell and tissue type independent age-associated DNA methylation changes are not rare but common. Aging (Albany NY) 2018 Nov 27;10(11):3541-3557. PMID: 30482885
  • Huang XT, Chen LH, Huang CS, Li JH et al. Establishment of a Nomogram by Integrating Molecular Markers and Tumor-Node-Metastasis Staging System for Predicting the Prognosis of Hepatocellular Carcinoma. Dig Surg 2019;36(5):426-432. PMID: 30481744
  • Carter CJGenetic, Transcriptome, Proteomic, and Epidemiological Evidence for Blood-Brain Barrier Disruption and Polymicrobial Brain Invasion as Determinant Factors in Alzheimer's Disease. J Alzheimers Dis Rep 2017 Sep 28;1(1):125-157. PMID: 30480234
  • Kawamura G, Hattori M, Takamatsu K, Tsukada T et al. Cooperative interaction among BMAL1, HSF1, and p53 protects mammalian cells from UV stress. Commun Biol 2018;1:204. PMID: 30480104
  • Ren Y, Tao C, Wang X, Ju Y et al. Identification of RPL5 and RPL10 as novel diagnostic biomarkers of Atypical teratoid/rhabdoid tumors. Cancer Cell Int 2018;18:190. PMID: 30479569
  • Zhang L, Yu X, Zheng L, Zhang Y et al. Lineage tracking reveals dynamic relationships of T cells in colorectal cancer. Nature 2018 Dec;564(7735):268-272. PMID: 30479382
  • Fong KW, Zhao JC, Song B, Zheng B et al. TRIM28 protects TRIM24 from SPOP-mediated degradation and promotes prostate cancer progression. Nat Commun 2018 Nov 27;9(1):5007. PMID: 30479348
  • Zhao L, Wang W, Xu L, Yi T et al. Integrative network biology analysis identifies miR-508-3p as the determinant for the mesenchymal identity and a strong prognostic biomarker of ovarian cancer. Oncogene 2019 Mar;38(13):2305-2319. PMID: 30478449
  • Lee YS, Wong AK, Tadych A, Hartmann BM et al. Interpretation of an individual functional genomics experiment guided by massive public data. Nat Methods 2018 Dec;15(12):1049-1052. PMID: 30478325
  • Normand R, Du W, Briller M, Gaujoux R et al. Found In Translation: a machine learning model for mouse-to-human inference. Nat Methods 2018 Dec;15(12):1067-1073. PMID: 30478323
  • Wheeler LJ, Watson ZL, Qamar L, Yamamoto TM et al. CBX2 identified as driver of anoikis escape and dissemination in high grade serous ovarian cancer. Oncogenesis 2018 Nov 26;7(11):92. PMID: 30478317
  • MacPherson Q, Beltran B, Spakowitz AJ et al. Bottom-up modeling of chromatin segregation due to epigenetic modifications. Proc Natl Acad Sci U S A 2018 Dec 11;115(50):12739-12744. PMID: 30478042
  • Luu AK, Schott CR, Jones R, Poon AC et al. An evaluation of TAZ and YAP crosstalk with TGFβ signalling in canine osteosarcoma suggests involvement of hippo signalling in disease progression. BMC Vet Res 2018 Nov 26;14(1):365. PMID: 30477496
  • Liu K, Xu SH, Chen Z, Zeng QX et al. TRPM7 overexpression enhances the cancer stem cell-like and metastatic phenotypes of lung cancer through modulation of the Hsp90α/uPA/MMP2 signaling pathway. BMC Cancer 2018 Nov 26;18(1):1167. PMID: 30477473
  • Zhao Q, Mao Q, Zhao Z, Dou T et al. Prediction of plant-derived xenomiRs from plant miRNA sequences using random forest and one-dimensional convolutional neural network models. BMC Genomics 2018 Nov 26;19(1):839. PMID: 30477446
  • Zhang X, Pan Y, Fu H, Zhang J et al. Nucleolar and Spindle Associated Protein 1 (NUSAP1) Inhibits Cell Proliferation and Enhances Susceptibility to Epirubicin In Invasive Breast Cancer Cells by Regulating Cyclin D Kinase (CDK1) and DLGAP5 Expression. Med Sci Monit 2018 Nov 26;24:8553-8564. PMID: 30476929
  • He RQ, Xiong DD, Ma J, Hu XH et al. The Clinicopathological Significance and Correlative Signaling Pathways of an Autophagy-Related Gene, Ambra1, in Breast Cancer: a Study of 25 Microarray RNA-Seq Datasets and in-House Gene Silencing. Cell Physiol Biochem 2018;51(3):1027-1040. PMID: 30476925
  • Szklarczyk D, Gable AL, Lyon D, Junge A et al. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res 2019 Jan 8;47(D1):D607-D613. PMID: 30476243
  • Kim HM, Waters A, Turner ME, Rice KC et al. Regulation of cid and lrg expression by CcpA in Streptococcus mutans. Microbiology (Reading) 2019 Jan;165(1):113-123. PMID: 30475201
  • Gamage TKJB, Schierding W, Hurley D, Tsai P et al. The role of DNA methylation in human trophoblast differentiation. Epigenetics 2018;13(12):1154-1173. PMID: 30475094
  • Wu Q, Sun S, Li Z, Yang Q et al. Breast cancer-released exosomes trigger cancer-associated cachexia to promote tumor progression. Adipocyte 2019 Dec;8(1):31-45. PMID: 30474469
  • Zhao X, Li W et al. Gene coexpression network analysis identified potential biomarkers in gestational diabetes mellitus progression. Mol Genet Genomic Med 2019 Jan;7(1):e00515. PMID: 30474315
  • Relli V, Trerotola M, Guerra E, Alberti S et al. Distinct lung cancer subtypes associate to distinct drivers of tumor progression. Oncotarget 2018 Oct 30;9(85):35528-35540. PMID: 30473748
  • Gruenheit N, Parkinson K, Brimson CA, Kuwana S et al. Cell Cycle Heterogeneity Can Generate Robust Cell Type Proportioning. Dev Cell 2018 Nov 19;47(4):494-508.e4. PMID: 30473004
  • Liu W, Cui Z, Zan X et al. Identifying cancer-related microRNAs based on subpathways. IET Syst Biol 2018 Dec;12(6):273-278. PMID: 30472691
  • Zhang X, Li T, Liu F, Chen Y et al. Comparative Analysis of Droplet-Based Ultra-High-Throughput Single-Cell RNA-Seq Systems. Mol Cell 2019 Jan 3;73(1):130-142.e5. PMID: 30472192
  • Hinohara K, Wu HJ, Vigneau S, McDonald TO et al. KDM5 Histone Demethylase Activity Links Cellular Transcriptomic Heterogeneity to Therapeutic Resistance. Cancer Cell 2018 Dec 10;34(6):939-953.e9. PMID: 30472020
  • Hammond TR, Dufort C, Dissing-Olesen L, Giera S et al. Single-Cell RNA Sequencing of Microglia throughout the Mouse Lifespan and in the Injured Brain Reveals Complex Cell-State Changes. Immunity 2019 Jan 15;50(1):253-271.e6. PMID: 30471926
  • Lee YA, Noon LA, Akat KM, Ybanez MD et al. Autophagy is a gatekeeper of hepatic differentiation and carcinogenesis by controlling the degradation of Yap. Nat Commun 2018 Nov 23;9(1):4962. PMID: 30470740
  • Zheng J, Wu M, Wang H, Li S et al. Network Pharmacology to Unveil the Biological Basis of Health-Strengthening Herbal Medicine in Cancer Treatment. Cancers (Basel) 2018 Nov 21;10(11). PMID: 30469422
  • Dreyer A, Dietz KJ et al. Reactive Oxygen Species and the Redox-Regulatory Network in Cold Stress Acclimation. Antioxidants (Basel) 2018 Nov 21;7(11). PMID: 30469375
  • Komljenovic A, Roux J, Wollbrett J, Robinson-Rechavi M et al. BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests. F1000Res 2016;5:2748. PMID: 30467516
  • Peng EY, Shu Y, Wu Y, Zeng F et al. Presence and diagnostic value of circulating tsncRNA for ovarian tumor. Mol Cancer 2018 Nov 22;17(1):163. PMID: 30466461
  • Malgulwar PB, Sharma V, Tomar AS, Verma C et al. Transcriptional co-expression regulatory network analysis for Snail and Slug identifies IL1R1, an inflammatory cytokine receptor, to be preferentially expressed in ST-EPN-RELA and PF-EPN-A molecular subgroups of intracranial ependymomas. Oncotarget 2018 Oct 26;9(84):35480-35492. PMID: 30464804
  • Zamanian Azodi M, Rezaei-Tavirani M, Rostami Nejad M, Rezaei-Tavirani M et al. Human Prolactinoma: A View of Protein-Protein Interaction Pattern. Int J Endocrinol Metab 2018 Oct;16(4):e67332. PMID: 30464775
  • Ke K, Chen G, Cai Z, Huang Y et al. Evaluation and prediction of hepatocellular carcinoma prognosis based on molecular classification. Cancer Manag Res 2018;10:5291-5302. PMID: 30464626
  • Gan Y, Li Y, Li T, Shu G et al. CCNA2 acts as a novel biomarker in regulating the growth and apoptosis of colorectal cancer. Cancer Manag Res 2018;10:5113-5124. PMID: 30464611
  • Fléchard M, Duchesne R, Tahrioui A, Bouffartigues E et al. The absence of SigX results in impaired carbon metabolism and membrane fluidity in Pseudomonas aeruginosa. Sci Rep 2018 Nov 21;8(1):17212. PMID: 30464317
  • Stelloo S, Nevedomskaya E, Kim Y, Schuurman K et al. Integrative epigenetic taxonomy of primary prostate cancer. Nat Commun 2018 Nov 21;9(1):4900. PMID: 30464211
  • Hongzhen Z, Yanyu L, Xuexiang L, Meiyu D et al. The diagnostic and prognostic significance of long non-coding RNA CRNDE in pan-cancer based on TCGA, GEO and comprehensive meta-analysis. Pathol Res Pract 2019 Feb;215(2):256-264. PMID: 30463803
  • Barcella M, Bollen Pinto B, Braga D, D'Avila F et al. Identification of a transcriptome profile associated with improvement of organ function in septic shock patients after early supportive therapy. Crit Care 2018 Nov 21;22(1):312. PMID: 30463588
  • Lemée JM, Clavreul A, Aubry M, Com E et al. Integration of transcriptome and proteome profiles in glioblastoma: looking for the missing link. BMC Mol Biol 2018 Nov 21;19(1):13. PMID: 30463513
  • Yin Z, Li Y, Zhu W, Fu X et al. Identification, Characterization, and Expression Patterns of TCP Genes and microRNA319 in Cotton. Int J Mol Sci 2018 Nov 20;19(11). PMID: 30463287
  • Kim C, Hu B, Jadhav RR, Jin J et al. Activation of miR-21-Regulated Pathways in Immune Aging Selects against Signatures Characteristic of Memory T Cells. Cell Rep 2018 Nov 20;25(8):2148-2162.e5. PMID: 30463012
  • Bowry A, Piberger AL, Rojas P, Saponaro M et al. BET Inhibition Induces HEXIM1- and RAD51-Dependent Conflicts between Transcription and Replication. Cell Rep 2018 Nov 20;25(8):2061-2069.e4. PMID: 30463005
  • Hahn O, Stubbs TM, Reik W, Grönke S et al. Hepatic gene body hypermethylation is a shared epigenetic signature of murine longevity. PLoS Genet 2018 Nov;14(11):e1007766. PMID: 30462643
  • Zheng R, Wan C, Mei S, Qin Q et al. Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis. Nucleic Acids Res 2019 Jan 8;47(D1):D729-D735. PMID: 30462313
  • Megel C, Hummel G, Lalande S, Ubrig E et al. Plant RNases T2, but not Dicer-like proteins, are major players of tRNA-derived fragments biogenesis. Nucleic Acids Res 2019 Jan 25;47(2):941-952. PMID: 30462257
  • Harrison IP, Vinh A, Johnson IRD, Luong R et al. NOX2 oxidase expressed in endosomes promotes cell proliferation and prostate tumour development. Oncotarget 2018 Oct 23;9(83):35378-35393. PMID: 30459931
  • Poirion O, Zhu X, Ching T, Garmire LX et al. Using single nucleotide variations in single-cell RNA-seq to identify subpopulations and genotype-phenotype linkage. Nat Commun 2018 Nov 20;9(1):4892. PMID: 30459309
  • Vizcaya-Molina E, Klein CC, Serras F, Mishra RK et al. Damage-responsive elements in Drosophila regeneration. Genome Res 2018 Dec;28(12):1852-1866. PMID: 30459214
  • Porter DF, Prasad A, Carrick BH, Kroll-Connor P et al. Toward Identifying Subnetworks from FBF Binding Landscapes in Caenorhabditis Spermatogenic or Oogenic Germlines. G3 (Bethesda) 2019 Jan 9;9(1):153-165. PMID: 30459181
  • Lai I, Swaminathan S, Baylot V, Mosley A et al. Lipid nanoparticles that deliver IL-12 messenger RNA suppress tumorigenesis in MYC oncogene-driven hepatocellular carcinoma. J Immunother Cancer 2018 Nov 20;6(1):125. PMID: 30458889
  • Van Renne N, Wei R, Pochet N, Nauwynck HJ et al. Dissecting clinical outcome of porcine circovirus type 2 with in vivo derived transcriptomic signatures of host tissue responses. BMC Genomics 2018 Nov 20;19(1):831. PMID: 30458705
  • Liu LB, Huang J, Zhong JP, Ye GL et al. High Expression of CCDC34 Is Associated with Poor Survival in Cervical Cancer Patients. Med Sci Monit 2018 Nov 20;24:8383-8390. PMID: 30458457
  • Wallach JD, Boyack KW, Ioannidis JPA et al. Reproducible research practices, transparency, and open access data in the biomedical literature, 2015-2017. PLoS Biol 2018 Nov;16(11):e2006930. PMID: 30457984
  • Neu KE, Guthmiller JJ, Huang M, La J et al. Spec-seq unveils transcriptional subpopulations of antibody-secreting cells following influenza vaccination. J Clin Invest 2019 Jan 2;129(1):93-105. PMID: 30457979
  • Cousijn H, Kenall A, Ganley E, Harrison M et al. A data citation roadmap for scientific publishers. Sci Data 2018 Nov 20;5:180259. PMID: 30457573
  • Liu S, Feng S, Luo D et al. Analysis of key genes and micro-RNA-mRNA regulatory networks in women with ulcerative interstitial cystitis/pain bladder syndrome. Int Urogynecol J 2019 Sep;30(9):1487-1495. PMID: 30456462
  • Ma B, Chen K, Liu P, Li M et al. Dichotomal functions of phosphorylated and unphosphorylated STAT1 in hepatocellular carcinoma. J Mol Med (Berl) 2019 Jan;97(1):77-88. PMID: 30456450
  • Furth N, Pateras IS, Rotkopf R, Vlachou V et al. LATS1 and LATS2 suppress breast cancer progression by maintaining cell identity and metabolic state. Life Sci Alliance 2018 Oct;1(5):e201800171. PMID: 30456386
  • Cheng D, Vemulapalli V, Lu Y, Shen J et al. CARM1 methylates MED12 to regulate its RNA-binding ability. Life Sci Alliance 2018 Oct;1(5):e201800117. PMID: 30456381
  • Horvat F, Fulka H, Jankele R, Malik R et al. Role of Cnot6l in maternal mRNA turnover. Life Sci Alliance 2018 Aug;1(4):e201800084. PMID: 30456367
  • Förstner KU, Reuscher CM, Haberzettl K, Weber L et al. RNase E cleavage shapes the transcriptome of Rhodobacter sphaeroides and strongly impacts phototrophic growth. Life Sci Alliance 2018 Aug;1(4):e201800080. PMID: 30456366
  • Mylonas C, Tessarz P et al. Transcriptional repression by FACT is linked to regulation of chromatin accessibility at the promoter of ES cells. Life Sci Alliance 2018 Jun;1(3):e201800085. PMID: 30456357
  • Yang D, Xu A, Shen P, Gao C et al. A two-level model for the role of complex and young genes in the formation of organism complexity and new insights into the relationship between evolution and development. Evodevo 2018;9:22. PMID: 30455862
  • Helzer KT, Szatkowski Ozers M, Meyer MB, Benkusky NA et al. The Phosphorylated Estrogen Receptor α (ER) Cistrome Identifies a Subset of Active Enhancers Enriched for Direct ER-DNA Binding and the Transcription Factor GRHL2. Mol Cell Biol 2019 Feb 1;39(3). PMID: 30455249
  • Kazachenka A, Bertozzi TM, Sjoberg-Herrera MK, Walker N et al. Identification, Characterization, and Heritability of Murine Metastable Epialleles: Implications for Non-genetic Inheritance. Cell 2018 Nov 15;175(5):1259-1271.e13. PMID: 30454646
  • Zhang J, Zou S, Deng L et al. Gene Ontology-based function prediction of long non-coding RNAs using bi-random walk. BMC Med Genomics 2018 Nov 20;11(Suppl 5):99. PMID: 30453964
  • Eidem HR, Steenwyk JL, Wisecaver JH, Capra JA et al. integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth. BMC Med Genomics 2018 Nov 19;11(1):107. PMID: 30453955
  • Bushel PR, Caiment F, Wu H, O'Lone R et al. RATEmiRs: the rat atlas of tissue-specific and enriched miRNAs database. BMC Genomics 2018 Nov 19;19(1):825. PMID: 30453895
  • Yang PS, Hsu HH, Hsu TC, Chen MJ et al. Genome-Wide Scan for Copy Number Alteration Association with Relapse-Free Survival in Colorectal Cancer with Liver Metastasis Patients. J Clin Med 2018 Nov 18;7(11). PMID: 30453668
  • Kamermans A, Planting KE, Jalink K, van Horssen J et al. Reactive astrocytes in multiple sclerosis impair neuronal outgrowth through TRPM7-mediated chondroitin sulfate proteoglycan production. Glia 2019 Jan;67(1):68-77. PMID: 30453391
  • Li J, Wang Y, Ge J, Li W et al. Doublecortin-Like Kinase 1 (DCLK1) Regulates B Cell-Specific Moloney Murine Leukemia Virus Insertion Site 1 (Bmi-1) and is Associated with Metastasis and Prognosis in Pancreatic Cancer. Cell Physiol Biochem 2018;51(1):262-277. PMID: 30453285
  • Del Prete E, Facchiano A, Liò P et al. Bioinformatics methodologies for coeliac disease and its comorbidities. Brief Bioinform 2020 Jan 17;21(1):355-367. PMID: 30452543
  • Jia G, Preussner J, Chen X, Guenther S et al. Single cell RNA-seq and ATAC-seq analysis of cardiac progenitor cell transition states and lineage settlement. Nat Commun 2018 Nov 19;9(1):4877. PMID: 30451828
  • Schmidt L, Møller M, Haldrup C, Strand SH et al. Exploring the transcriptome of hormone-naive multifocal prostate cancer and matched lymph node metastases. Br J Cancer 2018 Dec;119(12):1527-1537. PMID: 30449885
  • Eide PW, Eilertsen IA, Sveen A, Lothe RA et al. Long noncoding RNA MIR31HG is a bona fide prognostic marker with colorectal cancer cell-intrinsic properties. Int J Cancer 2019 Jun 1;144(11):2843-2853. PMID: 30447009
  • El Jamal SM, Grada Z, El Dinali MH, Zhou H et al. MEF2B is a member of the BCL6 gene transcriptional complex and induces its expression in diffuse large B-cell lymphoma of the germinal center B-cell-like type. Lab Invest 2019 Apr;99(4):539-550. PMID: 30446717
  • Liu C, Lou W, Yang JC, Liu L et al. Proteostasis by STUB1/HSP70 complex controls sensitivity to androgen receptor targeted therapy in advanced prostate cancer. Nat Commun 2018 Nov 16;9(1):4700. PMID: 30446660
  • Yuan WC, Pepe-Mooney B, Galli GG, Dill MT et al. NUAK2 is a critical YAP target in liver cancer. Nat Commun 2018 Nov 16;9(1):4834. PMID: 30446657
  • Ye CJ, Chen J, Villani AC, Gate RE et al. Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection. Genome Res 2018 Dec;28(12):1812-1825. PMID: 30446528
  • Hegedüs É, Kókai E, Nánási P, Imre L et al. Endogenous single-strand DNA breaks at RNA polymerase II promoters in Saccharomyces cerevisiae. Nucleic Acids Res 2018 Nov 16;46(20):10649-10668. PMID: 30445637
  • Di Narzo AF, Brodmerkel C, Telesco SE, Argmann C et al. High-Throughput Identification of the Plasma Proteomic Signature of Inflammatory Bowel Disease. J Crohns Colitis 2019 Mar 30;13(4):462-471. PMID: 30445421
  • Moon SJ, Park HJ, Kim TH, Kang JW et al. OsTGA2 confers disease resistance to rice against leaf blight by regulating expression levels of disease related genes via interaction with NH1. PLoS One 2018;13(11):e0206910. PMID: 30444888
  • Arai T, Kojima S, Yamada Y, Sugawara S et al. Pirin: a potential novel therapeutic target for castration-resistant prostate cancer regulated by miR-455-5p. Mol Oncol 2019 Feb;13(2):322-337. PMID: 30444038
  • Haslinger D, Waltes R, Yousaf A, Lindlar S et al. Loss of the Chr16p11.2 ASD candidate gene QPRT leads to aberrant neuronal differentiation in the SH-SY5Y neuronal cell model. Mol Autism 2018;9:56. PMID: 30443311
  • Mei Y, Liu YB, Hu DL, Zhou HH et al. Effect of RIF1 on response of non-small-cell lung cancer patients to platinum-based chemotherapy by regulating MYC signaling pathway. Int J Biol Sci 2018;14(13):1859-1872. PMID: 30443189
  • Ahn HS, Sohn TS, Kim MJ, Cho BK et al. SEPROGADIC - serum protein-based gastric cancer prediction model for prognosis and selection of proper adjuvant therapy. Sci Rep 2018 Nov 15;8(1):16892. PMID: 30442939
  • Mukherjee AK, Sharma S, Sengupta S, Saha D et al. Telomere length-dependent transcription and epigenetic modifications in promoters remote from telomere ends. PLoS Genet 2018 Nov;14(11):e1007782. PMID: 30439955
  • Golob-Schwarzl N, Bettermann K, Mehta AK, Kessler SM et al. High Keratin 8/18 Ratio Predicts Aggressive Hepatocellular Cancer Phenotype. Transl Oncol 2019 Feb;12(2):256-268. PMID: 30439626
  • Zhao L, Chi W, Cao H, Cui W et al. Screening and clinical significance of tumor markers in head and neck squamous cell carcinoma through bioinformatics analysis. Mol Med Rep 2019 Jan;19(1):143-154. PMID: 30431092
  • Gao C, Zhou C, Zhuang J, Liu L et al. Identification of key candidate genes and miRNA‑mRNA target pairs in chronic lymphocytic leukemia by integrated bioinformatics analysis. Mol Med Rep 2019 Jan;19(1):362-374. PMID: 30431072
  • Sun K, Xie Z, Wang J, Ling M et al. Bioinformatics-based study to detect chemical compounds that show potential as treatments for pulmonary thromboembolism. Int J Mol Med 2019 Jan;43(1):276-284. PMID: 30431066
  • Ci C, Tang B, Lyu D, Liu W et al. Overexpression of CDCA8 promotes the malignant progression of cutaneous melanoma and leads to poor prognosis. Int J Mol Med 2019 Jan;43(1):404-412. PMID: 30431060
  • Wei J, Gan Y, Peng D, Jiang X et al. Long non-coding RNA H19 promotes TDRG1 expression and cisplatin resistance by sequestering miRNA-106b-5p in seminoma. Cancer Med 2018 Dec;7(12):6247-6257. PMID: 30430771
  • Lee NCW, Carella MA, Papa S, Bubici C et al. High Expression of Glycolytic Genes in Cirrhosis Correlates With the Risk of Developing Liver Cancer. Front Cell Dev Biol 2018;6:138. PMID: 30430110
  • Li XX, Yin J, Tang J, Li Y et al. Determining the Balance Between Drug Efficacy and Safety by the Network and Biological System Profile of Its Therapeutic Target. Front Pharmacol 2018;9:1245. PMID: 30429792
  • Shen SY, Singhania R, Fehringer G, Chakravarthy A et al. Sensitive tumour detection and classification using plasma cell-free DNA methylomes. Nature 2018 Nov;563(7732):579-583. PMID: 30429608
  • Corre S, Tardif N, Mouchet N, Leclair HM et al. Sustained activation of the Aryl hydrocarbon Receptor transcription factor promotes resistance to BRAF-inhibitors in melanoma. Nat Commun 2018 Nov 14;9(1):4775. PMID: 30429474
  • Liu GM, Li Q, Zhang PF, Shen SL et al. Restoration of FBP1 suppressed Snail-induced epithelial to mesenchymal transition in hepatocellular carcinoma. Cell Death Dis 2018 Nov 14;9(11):1132. PMID: 30429463
  • Lee G, Jeong YS, Kim DW, Kwak MJ et al. Clinical significance of APOB inactivation in hepatocellular carcinoma. Exp Mol Med 2018 Nov 14;50(11):1-12. PMID: 30429453
  • Li C, Zeng X, Yu H, Gu Y et al. Identification of hub genes with diagnostic values in pancreatic cancer by bioinformatics analyses and supervised learning methods. World J Surg Oncol 2018 Nov 14;16(1):223. PMID: 30428899
  • Baccarella A, Williams CR, Parrish JZ, Kim CC et al. Empirical assessment of the impact of sample number and read depth on RNA-Seq analysis workflow performance. BMC Bioinformatics 2018 Nov 14;19(1):423. PMID: 30428853
  • Kolberg L, Kuzmin I, Adler P, Vilo J et al. funcExplorer: a tool for fast data-driven functional characterisation of high-throughput expression data. BMC Genomics 2018 Nov 14;19(1):817. PMID: 30428831
  • Saxena P, Pradhan D, Verma R, Kumar SN et al. Up-regulation of fibroblast growth factor receptor 1 due to prenatal tobacco exposure can lead to developmental defects in new born. J Matern Fetal Neonatal Med 2020 May;33(10):1732-1743. PMID: 30428736
  • Meer MV, Podolskiy DI, Tyshkovskiy A, Gladyshev VN et al. A whole lifespan mouse multi-tissue DNA methylation clock. Elife 2018 Nov 14;7. PMID: 30427307
  • Liu Y, Li Y, Hou R, Shu Z et al. Knockdown GREM1 suppresses cell growth, angiogenesis, and epithelial-mesenchymal transition in colon cancer. J Cell Biochem 2019 Apr;120(4):5583-5596. PMID: 30426548
  • Mansouri V, Rezaei Tavirani S, Zadeh-Esmaeel MM, Rostami-Nejad M et al. Comparative study of gastric cancer and chronic gastritis via network analysis. Gastroenterol Hepatol Bed Bench 2018 Fall;11(4):343-351. PMID: 30425814
  • Talker SC, Baumann A, Barut GT, Keller I et al. Precise Delineation and Transcriptional Characterization of Bovine Blood Dendritic-Cell and Monocyte Subsets. Front Immunol 2018;9:2505. PMID: 30425716
  • Lou W, Liu J, Ding B, Xu L et al. Identification of chemoresistance-associated miRNAs in breast cancer. Cancer Manag Res 2018;10:4747-4757. PMID: 30425571
  • Gao LW, Wang GL et al. Comprehensive bioinformatics analysis identifies several potential diagnostic markers and potential roles of cyclin family members in lung adenocarcinoma. Onco Targets Ther 2018;11:7407-7415. PMID: 30425528
  • Wang J, Sahengbieke S, Xu X, Zhang L et al. Gene expression analyses identify a relationship between stanniocalcin 2 and the malignant behavior of colorectal cancer. Onco Targets Ther 2018;11:7155-7168. PMID: 30425508
  • Alavi A, Ruffalo M, Parvangada A, Huang Z et al. A web server for comparative analysis of single-cell RNA-seq data. Nat Commun 2018 Nov 13;9(1):4768. PMID: 30425249
  • Ren YM, Duan YH, Sun YB, Yang T et al. Bioinformatics analysis of differentially expressed genes in rotator cuff tear patients using microarray data. J Orthop Surg Res 2018 Nov 13;13(1):284. PMID: 30424787
  • Zhang S, Wang L, Li S, Zhang W et al. Identification of Potential Key Genes Associated with Adipogenesis through Integrated Analysis of Five Mouse Transcriptome Datasets. Int J Mol Sci 2018 Nov 12;19(11). PMID: 30424473
  • Wang H, Tian L, Liu J, Goldstein A et al. The Osteogenic Niche Is a Calcium Reservoir of Bone Micrometastases and Confers Unexpected Therapeutic Vulnerability. Cancer Cell 2018 Nov 12;34(5):823-839.e7. PMID: 30423299
  • Pirkl M, Beerenwinkel N et al. Single cell network analysis with a mixture of Nested Effects Models. Bioinformatics 2018 Sep 1;34(17):i964-i971. PMID: 30423100
  • Zhang D, Wei Y, Zhou J, Wang G et al. miR-150 might inhibit cell proliferation and promote cell apoptosis by targeting LMO4 in Burkitt lymphoma. J Cell Physiol 2019 Jun;234(6):9652-9662. PMID: 30422313
  • Phua YL, Clugston A, Chen KH, Kostka D et al. Small non-coding RNA expression in mouse nephrogenic mesenchymal progenitors. Sci Data 2018 Nov 13;5:180218. PMID: 30422124
  • Xiang Z, Chen W, Zhang J, Song S et al. Identification of discrepancy between CTLA4 expression and CTLA4 activation in gastric cancer. Immunopharmacol Immunotoxicol 2019 Jun;41(3):386-393. PMID: 30422018
  • Su Y, Wang J, Quan M et al. Novel insights into the molecular mechanisms underlying the beneficial effects of exercise training on pulmonary arterial hypertension. J Sports Med Phys Fitness 2019 Sep;59(9):1584-1592. PMID: 30421875
  • Huang B, Cai W, Wang Q, Liu F et al. Gankyrin Drives Malignant Transformation of Gastric Cancer and Alleviates Oxidative Stress via mTORC1 Activation. Oxid Med Cell Longev 2018;2018:9480316. PMID: 30420909
  • Bushel PR, Paules RS, Auerbach SS et al. A Comparison of the TempO-Seq S1500+ Platform to RNA-Seq and Microarray Using Rat Liver Mode of Action Samples. Front Genet 2018;9:485. PMID: 30420870
  • Rypdal M, Rypdal V, Burney JA, Cayan D et al. Clustering and climate associations of Kawasaki Disease in San Diego County suggest environmental triggers. Sci Rep 2018 Nov 12;8(1):16140. PMID: 30420674
  • Chen M, Zhou X et al. VIPER: variability-preserving imputation for accurate gene expression recovery in single-cell RNA sequencing studies. Genome Biol 2018 Nov 12;19(1):196. PMID: 30419955
  • Fang J, Hong H, Xue X, Zhu X et al. A novel circular RNA, circFAT1(e2), inhibits gastric cancer progression by targeting miR-548g in the cytoplasm and interacting with YBX1 in the nucleus. Cancer Lett 2019 Feb 1;442:222-232. PMID: 30419346
  • Fernandes M, Patel A, Husi H et al. C/VDdb: A multi-omics expression profiling database for a knowledge-driven approach in cardiovascular disease (CVD). PLoS One 2018;13(11):e0207371. PMID: 30419069
  • Wang Y, Chen L, Wang G, Cheng S et al. Fifteen hub genes associated with progression and prognosis of clear cell renal cell carcinoma identified by coexpression analysis. J Cell Physiol 2019 Jul;234(7):10225-10237. PMID: 30417363
  • Gao F, Jordan MC, Ayele BT et al. Microarray dataset of after-ripening induced mRNA oxidation in wheat seeds. Data Brief 2018 Dec;21:852-855. PMID: 30417044
  • Zeng J, Li G et al. TFmapper: A Tool for Searching Putative Factors Regulating Gene Expression Using ChIP-seq Data. Int J Biol Sci 2018;14(12):1724-1731. PMID: 30416387
  • Li W, Huang H, Li L, Wang L et al. The Pathogenesis of Atherosclerosis Based on Human Signaling Networks and Stem Cell Expression Data. Int J Biol Sci 2018;14(12):1678-1685. PMID: 30416382
  • Zhao L, Cao H, Chi W, Meng W et al. Expression profile analysis identifies the long non-coding RNA landscape and the potential carcinogenic functions of LINC00668 in laryngeal squamous cell carcinoma. Gene 2019 Mar 1;687:47-55. PMID: 30415008
  • Wang C, Luo J, Rong J, He S et al. Distinct prognostic roles of S100 mRNA expression in gastric cancer. Pathol Res Pract 2019 Jan;215(1):127-136. PMID: 30414696
  • Qiu J, Zhang W, Zang C, Liu X et al. Identification of key genes and miRNAs markers of papillary thyroid cancer. Biol Res 2018 Nov 10;51(1):45. PMID: 30414611
  • Wang Z, Ishihara Y, Ishikawa T, Hoshijima M et al. Screening of key candidate genes and pathways for osteocytes involved in the differential response to different types of mechanical stimulation using a bioinformatics analysis. J Bone Miner Metab 2019 Jul;37(4):614-626. PMID: 30413886
  • Jindal A, Gupta P, Jayadeva, Sengupta D et al. Discovery of rare cells from voluminous single cell expression data. Nat Commun 2018 Nov 9;9(1):4719. PMID: 30413715
  • Hwang SM, Sharma G, Verma R, Byun S et al. Inflammation-induced Id2 promotes plasticity in regulatory T cells. Nat Commun 2018 Nov 9;9(1):4736. PMID: 30413714
  • Oki S, Ohta T, Shioi G, Hatanaka H et al. ChIP-Atlas: a data-mining suite powered by full integration of public ChIP-seq data. EMBO Rep 2018 Dec;19(12). PMID: 30413482
  • Xu G, Wang C, Ying X, Kong F et al. Serine hydroxymethyltransferase 1 promoter hypermethylation increases the risk of essential hypertension. J Clin Lab Anal 2019 Mar;33(3):e22712. PMID: 30411815
  • Li Y, Bai W, Zhang L et al. The Overexpression of CD80 and ISG15 Are Associated with the Progression and Metastasis of Breast Cancer by a Meta-Analysis Integrating Three Microarray Datasets. Pathol Oncol Res 2020 Jan;26(1):443-452. PMID: 30411299
  • Liu Y, Guan J, Chen X et al. Identification of Differentially Expressed Genes under the Regulation of Transcription Factors in Osteosarcoma. Pathol Oncol Res 2019 Jul;25(3):1091-1102. PMID: 30411296
  • Chen CL, Tsai YS, Huang YH, Liang YJ et al. Lymphoid Enhancer Factor 1 Contributes to Hepatocellular Carcinoma Progression Through Transcriptional Regulation of Epithelial-Mesenchymal Transition Regulators and Stemness Genes. Hepatol Commun 2018 Nov;2(11):1392-1407. PMID: 30411085
  • An Y, Bi F, You Y, Liu X et al. Development of a Novel Autophagy-related Prognostic Signature for Serous Ovarian Cancer. J Cancer 2018;9(21):4058-4071. PMID: 30410611
  • Lan Y, Xiao X, Luo Y, He Z et al. FEZF1 is an Independent Predictive Factor for Recurrence and Promotes Cell Proliferation and Migration in Cervical Cancer. J Cancer 2018;9(21):3929-3938. PMID: 30410597
  • Chen YX, Guo Y, Dong SS, Chen XF et al. Runs of homozygosity associate with decreased risks of lung cancer in never-smoking East Asian females. J Cancer 2018;9(21):3858-3866. PMID: 30410588
  • Zhang DY, Liu Z, Lu Z, Sun WL et al. Lentivirus-mediated overexpression of HSDL2 suppresses cell proliferation and induces apoptosis in cholangiocarcinoma. Onco Targets Ther 2018;11:7133-7142. PMID: 30410369
  • Dai J, Lin K, Huang Y, Lu Y et al. Identification of critically carcinogenesis-related genes in basal cell carcinoma. Onco Targets Ther 2018;11:6957-6967. PMID: 30410353
  • Liao H, Xie X, Xu Y, Huang G et al. Identification of driver genes associated with chemotherapy resistance of Ewing's sarcoma. Onco Targets Ther 2018;11:6947-6956. PMID: 30410352
  • Hayashi R, Ishikawa Y, Katayama T, Quantock AJ et al. CD200 facilitates the isolation of corneal epithelial cells derived from human pluripotent stem cells. Sci Rep 2018 Nov 8;8(1):16550. PMID: 30410112
  • Chakravarthy A, Khan L, Bensler NP, Bose P et al. TGF-β-associated extracellular matrix genes link cancer-associated fibroblasts to immune evasion and immunotherapy failure. Nat Commun 2018 Nov 8;9(1):4692. PMID: 30410077
  • Ernlund AW, Schneider RJ, Ruggles KV et al. RIVET: comprehensive graphic user interface for analysis and exploration of genome-wide translatomics data. BMC Genomics 2018 Nov 8;19(1):809. PMID: 30409155
  • Kotlyar M, Pastrello C, Malik Z, Jurisica I et al. IID 2018 update: context-specific physical protein-protein interactions in human, model organisms and domesticated species. Nucleic Acids Res 2019 Jan 8;47(D1):D581-D589. PMID: 30407591
  • Choi J, Pacheco CM, Mosbergen R, Korn O et al. Stemformatics: visualize and download curated stem cell data. Nucleic Acids Res 2019 Jan 8;47(D1):D841-D846. PMID: 30407577
  • Kim J, Chung JY, Kim TJ, Lee JW et al. Genomic Network-Based Analysis Reveals Pancreatic Adenocarcinoma Up-Regulating Factor-Related Prognostic Markers in Cervical Carcinoma. Front Oncol 2018;8:465. PMID: 30406031
  • Dakir el-H, Pickard A, Srivastava K, McCrudden CM et al. The anti-psychotic drug pimozide is a novel chemotherapeutic for breast cancer. Oncotarget 2018 Oct 9;9(79):34889-34910. PMID: 30405882
  • Li J, Hu B, Fang L, Gao Y et al. Barrier-to-autointegration factor 1: A novel biomarker for gastric cancer. Oncol Lett 2018 Nov;16(5):6488-6494. PMID: 30405787
  • Liu Y, Liu H, Zhang D et al. Identification of novel long non-coding RNA in diffuse intrinsic pontine gliomas by expression profile analysis. Oncol Lett 2018 Nov;16(5):6401-6406. PMID: 30405776
  • Zhang L, Lv C, Jin Y, Cheng G et al. Deep Learning-Based Multi-Omics Data Integration Reveals Two Prognostic Subtypes in High-Risk Neuroblastoma. Front Genet 2018;9:477. PMID: 30405689
  • Lubbers R, Sutherland JS, Goletti D, de Paus RA et al. Complement Component C1q as Serum Biomarker to Detect Active Tuberculosis. Front Immunol 2018;9:2427. PMID: 30405622
  • Revinski DR, Zaragosi LE, Boutin C, Ruiz-Garcia S et al. CDC20B is required for deuterosome-mediated centriole production in multiciliated cells. Nat Commun 2018 Nov 7;9(1):4668. PMID: 30405130
  • Westoby J, Herrera MS, Ferguson-Smith AC, Hemberg M et al. Simulation-based benchmarking of isoform quantification in single-cell RNA-seq. Genome Biol 2018 Nov 7;19(1):191. PMID: 30404663
  • Yang J, Wei X, Tufan T, Kuscu C et al. Recurrent mutations at estrogen receptor binding sites alter chromatin topology and distal gene expression in breast cancer. Genome Biol 2018 Nov 7;19(1):190. PMID: 30404658
  • Ribeiro AS, Nobre AR, Mendes N, Almeida J et al. SRC inhibition prevents P-cadherin mediated signaling and function in basal-like breast cancer cells. Cell Commun Signal 2018 Nov 7;16(1):75. PMID: 30404626
  • Hu R, Dai Y, Jia P, Zhao Z et al. ANCO-GeneDB: annotations and comprehensive analysis of candidate genes for alcohol, nicotine, cocaine and opioid dependence. Database (Oxford) 2018 Jan 1;2018. PMID: 30403795
  • Wu X, Xie S, Wang L, Fan P et al. A computational strategy for finding novel targets and therapeutic compounds for opioid dependence. PLoS One 2018;13(11):e0207027. PMID: 30403753
  • Zhong M, Zhang Y, Yuan F, Peng Y et al. High FNDC1 expression correlates with poor prognosis in gastric cancer. Exp Ther Med 2018 Nov;16(5):3847-3854. PMID: 30402143
  • Huang C, Clayton EA, Matyunina LV, McDonald LD et al. Machine learning predicts individual cancer patient responses to therapeutic drugs with high accuracy. Sci Rep 2018 Nov 6;8(1):16444. PMID: 30401894
  • Smith MR, Yevoo P, Sadahiro M, Austin C et al. Integrative bioinformatics identifies postnatal lead (Pb) exposure disrupts developmental cortical plasticity. Sci Rep 2018 Nov 6;8(1):16388. PMID: 30401819
  • Soudet J, Gill JK, Stutz F et al. Noncoding transcription influences the replication initiation program through chromatin regulation. Genome Res 2018 Dec;28(12):1882-1893. PMID: 30401734
  • Duan W, Zhang R, Zhao Y, Shen S et al. Bayesian variable selection for parametric survival model with applications to cancer omics data. Hum Genomics 2018 Nov 6;12(1):49. PMID: 30400837
  • Kumar MS, Slud EV, Okrah K, Hicks SC et al. Analysis and correction of compositional bias in sparse sequencing count data. BMC Genomics 2018 Nov 6;19(1):799. PMID: 30400812
  • Wang MM, Liu MM, Ran F, Guo PC et al. Global Analysis of WOX Transcription Factor Gene Family in Brassica napus Reveals Their Stress- and Hormone-Responsive Patterns. Int J Mol Sci 2018 Nov 5;19(11). PMID: 30400610
  • Sirota M, Thomas CG, Liu R, Zuhl M et al. Enabling precision medicine in neonatology, an integrated repository for preterm birth research. Sci Data 2018 Nov 6;5:180219. PMID: 30398470
  • Talwar D, Mongia A, Sengupta D, Majumdar A et al. AutoImpute: Autoencoder based imputation of single-cell RNA-seq data. Sci Rep 2018 Nov 5;8(1):16329. PMID: 30397240
  • Zhao J, Xu J, Shang AQ, Zhang R et al. A Six-LncRNA Expression Signature Associated with Prognosis of Colorectal Cancer Patients. Cell Physiol Biochem 2018;50(5):1882-1890. PMID: 30396175
  • Gao L, He RQ, Wu HY, Zhang TT et al. Expression Signature and Role of miR-30d-5p in Non-Small Cell Lung Cancer: a Comprehensive Study Based on in Silico Analysis of Public Databases and in Vitro Experiments. Cell Physiol Biochem 2018;50(5):1964-1987. PMID: 30396166
  • Santos-Zavaleta A, Salgado H, Gama-Castro S, Sánchez-Pérez M et al. RegulonDB v 10.5: tackling challenges to unify classic and high throughput knowledge of gene regulation in E. coli K-12. Nucleic Acids Res 2019 Jan 8;47(D1):D212-D220. PMID: 30395280
  • Chow CN, Lee TY, Hung YC, Li GZ et al. PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants. Nucleic Acids Res 2019 Jan 8;47(D1):D1155-D1163. PMID: 30395277
  • Srivastava A, Kumar Sarsani V, Fiddes I, Sheehan SM et al. Genome assembly and gene expression in the American black bear provides new insights into the renal response to hibernation. DNA Res 2019 Feb 1;26(1):37-44. PMID: 30395234
  • Sun LL, Yang SL, Sun H, Li WD et al. Molecular differences in Alzheimer's disease between male and female patients determined by integrative network analysis. J Cell Mol Med 2019 Jan;23(1):47-58. PMID: 30394676
  • Xie XP, Xie YF, Liu YT, Wang HQ et al. Adaptively capturing the heterogeneity of expression for cancer biomarker identification. BMC Bioinformatics 2018 Nov 3;19(1):401. PMID: 30390627
  • Liu T, You X, Sui J, Shen B et al. Prognostic value of a two-microRNA signature for papillary thyroid cancer and a bioinformatic analysis of their possible functions. J Cell Biochem 2019 May;120(5):7185-7198. PMID: 30390338
  • Hu YB, Yan C, Mu L, Mi YL et al. Exosomal Wnt-induced dedifferentiation of colorectal cancer cells contributes to chemotherapy resistance. Oncogene 2019 Mar;38(11):1951-1965. PMID: 30390075
  • Yu Y, Zhang M, Liu J, Xu B et al. Long Non-coding RNA PVT1 Promotes Cell Proliferation and Migration by Silencing ANGPTL4 Expression in Cholangiocarcinoma. Mol Ther Nucleic Acids 2018 Dec 7;13:503-513. PMID: 30388624
  • Hu G, Liao K, Niu F, Yang L et al. Astrocyte EV-Induced lincRNA-Cox2 Regulates Microglial Phagocytosis: Implications for Morphine-Mediated Neurodegeneration. Mol Ther Nucleic Acids 2018 Dec 7;13:450-463. PMID: 30388619
  • Blazquez L, Emmett W, Faraway R, Pineda JMB et al. Exon Junction Complex Shapes the Transcriptome by Repressing Recursive Splicing. Mol Cell 2018 Nov 1;72(3):496-509.e9. PMID: 30388411
  • Yamaguchi M, Osuka S, Hankinson O, Murata T et al. Prolonged survival of renal cancer patients is concomitant with a higher regucalcin gene expression in tumor tissues: Overexpression of regucalcin suppresses the growth of human renal cell carcinoma cells in vitro. Int J Oncol 2019 Jan;54(1):188-198. PMID: 30387835
  • Liu H, Wei S, Zhang L, Yuan C et al. Secreted Phosphoprotein 1 Promotes the Development of Small Cell Lung Cancer Cells by Inhibiting Autophagy and Apoptosis. Pathol Oncol Res 2019 Oct;25(4):1487-1495. PMID: 30387012
  • Liu M, Qiu YL, Jin T, Zhou Y et al. Meta-analysis of microarray datasets identify several chromosome segregation-related cancer/testis genes potentially contributing to anaplastic thyroid carcinoma. PeerJ 2018;6:e5822. PMID: 30386706
  • Wei CY, Zhu MX, Lu NH, Peng R et al. Bioinformatics-based analysis reveals elevated MFSD12 as a key promoter of cell proliferation and a potential therapeutic target in melanoma. Oncogene 2019 Mar;38(11):1876-1891. PMID: 30385854
  • Dobnikar L, Taylor AL, Chappell J, Oldach P et al. Disease-relevant transcriptional signatures identified in individual smooth muscle cells from healthy mouse vessels. Nat Commun 2018 Nov 1;9(1):4567. PMID: 30385745
  • Pindyurin AV, Ilyin AA, Ivankin AV, Tselebrovsky MV et al. The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a. Epigenetics Chromatin 2018 Nov 1;11(1):65. PMID: 30384843
  • Piwowar M, Kocemba-Pilarczyk KA, Piwowar P et al. Regularization and grouping -omics data by GCA method: A transcriptomic case. PLoS One 2018;13(11):e0206608. PMID: 30383819
  • Song X, Tang T, Li C, Liu X et al. CBX8 and CD96 Are Important Prognostic Biomarkers of Colorectal Cancer. Med Sci Monit 2018 Nov 1;24:7820-7827. PMID: 30383736
  • Christenson SA, van den Berge M, Faiz A, Inkamp K et al. An airway epithelial IL-17A response signature identifies a steroid-unresponsive COPD patient subgroup. J Clin Invest 2019 Jan 2;129(1):169-181. PMID: 30383540
  • Calcino AD, Fernandez-Valverde SL, Taft RJ, Degnan BM et al. Diverse RNA interference strategies in early-branching metazoans. BMC Evol Biol 2018 Nov 1;18(1):160. PMID: 30382896
  • Xu P, Yang J, Liu J, Yang X et al. Identification of glioblastoma gene prognosis modules based on weighted gene co-expression network analysis. BMC Med Genomics 2018 Nov 1;11(1):96. PMID: 30382873
  • Jagielska B, Sarnowska E, Rusetska N, Jancewicz I et al. Advanced adenoid cystic carcinoma (ACC) is featured by SWI/SNF chromatin remodeling complex aberrations. J Cancer Res Clin Oncol 2019 Jan;145(1):201-211. PMID: 30382367
  • Witkos TM, Krzyzosiak WJ, Fiszer A, Koscianska E et al. A potential role of extended simple sequence repeats in competing endogenous RNA crosstalk. RNA Biol 2018;15(11):1399-1409. PMID: 30381983
  • Luo R, Bai C, Yang L, Zheng Z et al. DNA methylation subpatterns at distinct regulatory regions in human early embryos. Open Biol 2018 Oct 31;8(10). PMID: 30381360
  • Eckstein M, Wirtz RM, Gross-Weege M, Breyer J et al. mRNA-Expression of KRT5 and KRT20 Defines Distinct Prognostic Subgroups of Muscle-Invasive Urothelial Bladder Cancer Correlating with Histological Variants. Int J Mol Sci 2018 Oct 30;19(11). PMID: 30380731
  • Yin J, Gibbs M, Long C, Rosenthal J et al. Transcriptional Regulation of Lipophorin Receptors Supports Neuronal Adaptation to Chronic Elevations of Activity. Cell Rep 2018 Oct 30;25(5):1181-1192.e4. PMID: 30380410
  • Zeng JH, Liang XZ, Lan HH, Zhu X et al. The biological functions of target genes in pan-cancers and cell lines were predicted by miR-375 microarray data from GEO database and bioinformatics. PLoS One 2018;13(10):e0206689. PMID: 30379973
  • Depuydt P, Koster J, Boeva V, Hocking TD et al. Meta-mining of copy number profiles of high-risk neuroblastoma tumors. Sci Data 2018 Oct 30;5:180240. PMID: 30375995
  • Hwang YS, Seo M, Kim SK, Bang S et al. Zygotic gene activation in the chicken occurs in two waves, the first involving only maternally derived genes. Elife 2018 Oct 30;7. PMID: 30375976
  • Uchida A, Seki N, Mizuno K, Misono S et al. Involvement of dual-strand of the miR-144 duplex and their targets in the pathogenesis of lung squamous cell carcinoma. Cancer Sci 2019 Jan;110(1):420-432. PMID: 30375717
  • Mony JT, Schuchert MJ et al. Prognostic Implications of Heterogeneity in Intra-tumoral Immune Composition for Recurrence in Early Stage Lung Cancer. Front Immunol 2018;9:2298. PMID: 30374348
  • Gapp K, van Steenwyk G, Germain PL, Matsushima W et al. Alterations in sperm long RNA contribute to the epigenetic inheritance of the effects of postnatal trauma. Mol Psychiatry 2020 Sep;25(9):2162-2174. PMID: 30374190
  • Xiao FH, Chen XQ, He YH, Kong QP et al. Accelerated DNA methylation changes in middle-aged men define sexual dimorphism in human lifespans. Clin Epigenetics 2018 Oct 29;10(1):133. PMID: 30373676
  • Konwar C, Price EM, Wang LQ, Wilson SL et al. DNA methylation profiling of acute chorioamnionitis-associated placentas and fetal membranes: insights into epigenetic variation in spontaneous preterm births. Epigenetics Chromatin 2018 Oct 29;11(1):63. PMID: 30373633
  • Šmídová K, Ziková A, Pospíšil J, Schwarz M et al. DNA mapping and kinetic modeling of the HrdB regulon in Streptomyces coelicolor. Nucleic Acids Res 2019 Jan 25;47(2):621-633. PMID: 30371884
  • Wang J, Zhang P, Lu Y, Li Y et al. piRBase: a comprehensive database of piRNA sequences. Nucleic Acids Res 2019 Jan 8;47(D1):D175-D180. PMID: 30371818
  • Jiang Y, Qian F, Bai X, Liu Y et al. SEdb: a comprehensive human super-enhancer database. Nucleic Acids Res 2019 Jan 8;47(D1):D235-D243. PMID: 30371817
  • Wu WS, Tu HP, Chu YH, Nordling TEM et al. YHMI: a web tool to identify histone modifications and histone/chromatin regulators from a gene list in yeast. Database (Oxford) 2018 Jan 1;2018. PMID: 30371756
  • Gillan V, Simpson DM, Kinnaird J, Maitland K et al. Characterisation of infection associated microRNA and protein cargo in extracellular vesicles of Theileria annulata infected leukocytes. Cell Microbiol 2019 Jan;21(1):e12969. PMID: 30370674
  • Ni M, Liu X, Wu J, Zhang D et al. Identification of Candidate Biomarkers Correlated With the Pathogenesis and Prognosis of Non-small Cell Lung Cancer via Integrated Bioinformatics Analysis. Front Genet 2018;9:469. PMID: 30369945
  • Lei Y, Guo P, An J, Guo C et al. Identification of pathogenic genes and upstream regulators in allergic rhinitis. Int J Pediatr Otorhinolaryngol 2018 Dec;115:97-103. PMID: 30368403
  • Bonnici V, Busato F, Aldegheri S, Akhmedov M et al. cuRnet: an R package for graph traversing on GPU. BMC Bioinformatics 2018 Oct 15;19(Suppl 10):356. PMID: 30367572
  • Zhu TT, Zhang WF, Yin YL, Liu YH et al. MicroRNA-140-5p targeting tumor necrosis factor-α prevents pulmonary arterial hypertension. J Cell Physiol 2019 Jun;234(6):9535-9550. PMID: 30367500
  • Foj L, Filella X et al. Identification of Potential miRNAs Biomarkers for High-Grade Prostate Cancer by Integrated Bioinformatics Analysis. Pathol Oncol Res 2019 Oct;25(4):1445-1456. PMID: 30367364
  • Li Y, Gu J, Xu F, Zhu Q et al. Transcriptomic and functional network features of lung squamous cell carcinoma through integrative analysis of GEO and TCGA data. Sci Rep 2018 Oct 26;8(1):15834. PMID: 30367091
  • Ibrahim MM, Karabacak A, Glahs A, Kolundzic E et al. Determinants of promoter and enhancer transcription directionality in metazoans. Nat Commun 2018 Oct 26;9(1):4472. PMID: 30367057
  • Yánez DC, Sahni H, Ross S, Solanki A et al. IFITM proteins drive type 2 T helper cell differentiation and exacerbate allergic airway inflammation. Eur J Immunol 2019 Jan;49(1):66-78. PMID: 30365177
  • Ma X, Tao R, Li L, Chen H et al. Identification of a 5‑microRNA signature and hub miRNA‑mRNA interactions associated with pancreatic cancer. Oncol Rep 2019 Jan;41(1):292-300. PMID: 30365134
  • Lin J, Wu G, Zhao Z, Huang Y et al. Bioinformatics analysis to identify key genes and pathways influencing synovial inflammation in osteoarthritis. Mol Med Rep 2018 Dec;18(6):5594-5602. PMID: 30365099
  • Hang W, Feng Y, Sang Z, Yang Y et al. Downregulation of miR-145-5p in cancer cells and their derived exosomes may contribute to the development of ovarian cancer by targeting CT. Int J Mol Med 2019 Jan;43(1):256-266. PMID: 30365097
  • Zhang Y, Li H, Zhang W, Che Y et al. LASSO‑based Cox‑PH model identifies an 11‑lncRNA signature for prognosis prediction in gastric cancer. Mol Med Rep 2018 Dec;18(6):5579-5593. PMID: 30365077
  • Wang Z, Lu B, Sun L, Yan X et al. Identification of candidate genes or microRNAs associated with the lymph node metastasis of SCLC. Cancer Cell Int 2018;18:161. PMID: 30364292
  • Fukushima A, Hikosaka S, Kobayashi M, Nishizawa T et al. A Systems Analysis With "Simplified Source-Sink Model" Reveals Metabolic Reprogramming in a Pair of Source-to-Sink Organs During Early Fruit Development in Tomato by LED Light Treatments. Front Plant Sci 2018;9:1439. PMID: 30364178
  • Zhuang L, Yang Z, Meng Z et al. Upregulation of BUB1B, CCNB1, CDC7, CDC20, and MCM3 in Tumor Tissues Predicted Worse Overall Survival and Disease-Free Survival in Hepatocellular Carcinoma Patients. Biomed Res Int 2018;2018:7897346. PMID: 30363964
  • A P, Xu X, Wang C, Ye L et al. A Bioinformatic Profile of Gene Expression of Colorectal Carcinoma Derived Organoids. Biomed Res Int 2018;2018:2594076. PMID: 30363662
  • Ma W, Liu X, Du W et al. Baicalin induces apoptosis in SW480 cells through downregulation of the SP1 transcription factor. Anticancer Drugs 2019 Feb;30(2):153-158. PMID: 30362980
  • Jänes J, Dong Y, Schoof M, Serizay J et al. Chromatin accessibility dynamics across C. elegans development and ageing. Elife 2018 Oct 26;7. PMID: 30362940
  • Schmid MW, Heichinger C, Coman Schmid D, Guthörl D et al. Contribution of epigenetic variation to adaptation in Arabidopsis. Nat Commun 2018 Oct 25;9(1):4446. PMID: 30361538
  • Mostafaei S, Kazemnejad A, Azimzadeh Jamalkandi S, Amirhashchi S et al. Identification of Novel Genes in Human Airway Epithelial Cells associated with Chronic Obstructive Pulmonary Disease (COPD) using Machine-Based Learning Algorithms. Sci Rep 2018 Oct 25;8(1):15775. PMID: 30361509
  • Mamidi TKK, Wu J, Tchounwou PB, Miele L et al. Whole Genome Transcriptome Analysis of the Association between Obesity and Triple-Negative Breast Cancer in Caucasian Women. Int J Environ Res Public Health 2018 Oct 23;15(11). PMID: 30360534
  • Ma X, Ezer D, Adryan B, Stevens TJ et al. Canonical and single-cell Hi-C reveal distinct chromatin interaction sub-networks of mammalian transcription factors. Genome Biol 2018 Oct 25;19(1):174. PMID: 30359306
  • Abu-Jamous B, Kelly S et al. Clust: automatic extraction of optimal co-expressed gene clusters from gene expression data. Genome Biol 2018 Oct 25;19(1):172. PMID: 30359297
  • Ma N, Xu H, Zhou Y, Liu M et al. Analyzing the molecular mechanism of the tissue specificity of gastrointestinal stromal tumors by using bioinformatics approaches. J BUON 2018 Jul-Aug;23(4):1149-1155. PMID: 30358224
  • Shao N, Yuan K, Zhang Y, Yun Cheang T et al. Identification of key candidate genes, pathways and related prognostic values in ER-negative/HER2-negative breast cancer by bioinformatics analysis. J BUON 2018 Jul-Aug;23(4):891-901. PMID: 30358191
  • Niu Y, Yang X, Chen Y, Zhang L et al. BCL3 Expression Is a Potential Prognostic and Predictive Biomarker in Acute Myeloid Leukemia of FAB Subtype M2. Pathol Oncol Res 2019 Apr;25(2):541-548. PMID: 30357752
  • Athar A, Füllgrabe A, George N, Iqbal H et al. ArrayExpress update - from bulk to single-cell expression data. Nucleic Acids Res 2019 Jan 8;47(D1):D711-D715. PMID: 30357387
  • Khan S, Taverna F, Rohlenova K, Treps L et al. EndoDB: a database of endothelial cell transcriptomics data. Nucleic Acids Res 2019 Jan 8;47(D1):D736-D744. PMID: 30357379
  • Aparicio-Puerta E, Jáspez D, Lebrón R, Koppers-Lalic D et al. liqDB: a small-RNAseq knowledge discovery database for liquid biopsy studies. Nucleic Acids Res 2019 Jan 8;47(D1):D113-D120. PMID: 30357370
  • Yang Q, Wang R, Wei B, Peng C et al. Candidate Biomarkers and Molecular Mechanism Investigation for Glioblastoma Multiforme Utilizing WGCNA. Biomed Res Int 2018;2018:4246703. PMID: 30356407
  • Nazer E, Dale RK, Palmer C, Lei EP et al. Argonaute2 attenuates active transcription by limiting RNA Polymerase II elongation in Drosophila melanogaster. Sci Rep 2018 Oct 24;8(1):15685. PMID: 30356106
  • Bergwall L, Wallentin H, Elvin J, Liu P et al. Amplification of the Melanocortin-1 Receptor in Nephrotic Syndrome Identifies a Target for Podocyte Cytoskeleton Stabilization. Sci Rep 2018 Oct 24;8(1):15731. PMID: 30356069
  • Wang X, Li X, Wang T, Wu SP et al. SOX17 regulates uterine epithelial-stromal cross-talk acting via a distal enhancer upstream of Ihh. Nat Commun 2018 Oct 24;9(1):4421. PMID: 30356064
  • Silke JR, Wei Y, Xia X et al. RNA-Seq-Based Analysis Reveals Heterogeneity in Mature 16S rRNA 3' Termini and Extended Anti-Shine-Dalgarno Motifs in Bacterial Species. G3 (Bethesda) 2018 Dec 10;8(12):3973-3979. PMID: 30355764
  • Ren X, Ji Y, Jiang X, Qi X et al. Down-regulation of siglec-2 (CD22) predicts worse overall survival from HBV-related early-stage hepatocellular carcinoma: a preliminary analysis from Gene Expression Omnibus. Biosci Rep 2018 Dec 21;38(6). PMID: 30355653
  • Yan C, Wang F, Peng Y, Williams CR et al. Microtubule Acetylation Is Required for Mechanosensation in Drosophila. Cell Rep 2018 Oct 23;25(4):1051-1065.e6. PMID: 30355484
  • Jo S, Lee YY, Han J, Lee YL et al. CCAAT/enhancer-binding protein beta (C/EBPβ) is an important mediator of 1,25 dihydroxyvitamin D3 (1,25D3)-induced receptor activator of nuclear factor kappa-B ligand (RANKL) expression in osteoblasts. BMB Rep 2019 Jun;52(6):391-396. PMID: 30355436
  • Lee H, Oliver B et al. Non-canonical Drosophila X chromosome dosage compensation and repressive topologically associated domains. Epigenetics Chromatin 2018 Oct 24;11(1):62. PMID: 30355339
  • Lin SJ, Lu TP, Yu QY, Hsiao CK et al. Probabilistic prioritization of candidate pathway association with pathway score. BMC Bioinformatics 2018 Oct 24;19(1):391. PMID: 30355338
  • Guo X, Tang Y, Zhu W et al. Distinct esophageal adenocarcinoma molecular subtype has subtype-specific gene expression and mutation patterns. BMC Genomics 2018 Oct 24;19(1):769. PMID: 30355311
  • Gysi DM, Voigt A, Fragoso TM, Almaas E et al. wTO: an R package for computing weighted topological overlap and a consensus network with integrated visualization tool. BMC Bioinformatics 2018 Oct 24;19(1):392. PMID: 30355288
  • Modur V, Singh N, Mohanty V, Chung E et al. Defective transcription elongation in a subset of cancers confers immunotherapy resistance. Nat Commun 2018 Oct 23;9(1):4410. PMID: 30353012
  • Kim YJ, Xie P, Cao L, Zhang MQ et al. Global transcriptional activity dynamics reveal functional enhancer RNAs. Genome Res 2018 Dec;28(12):1799-1811. PMID: 30352805
  • Natale F, Scholl A, Rapp A, Yu W et al. DNA replication and repair kinetics of Alu, LINE-1 and satellite III genomic repetitive elements. Epigenetics Chromatin 2018 Oct 23;11(1):61. PMID: 30352618
  • Hühne R, Kessler V, Fürstberger A, Kühlwein S et al. 3D Network exploration and visualisation for lifespan data. BMC Bioinformatics 2018 Oct 23;19(1):390. PMID: 30352578
  • Varga K, Hollósi A, Pászty K, Hegedűs L et al. Expression of calcium pumps is differentially regulated by histone deacetylase inhibitors and estrogen receptor alpha in breast cancer cells. BMC Cancer 2018 Oct 23;18(1):1029. PMID: 30352569
  • You X, Yang S, Sui J, Wu W et al. Molecular characterization of papillary thyroid carcinoma: a potential three-lncRNA prognostic signature. Cancer Manag Res 2018;10:4297-4310. PMID: 30349364
  • Yang G, Chen Q, Xiao J, Zhang H et al. Identification of genes and analysis of prognostic values in nonsmoking females with non-small cell lung carcinoma by bioinformatics analyses. Cancer Manag Res 2018;10:4287-4295. PMID: 30349363
  • Pan B, Han H, Wu L, Xiong Y et al. MTBP promotes migration and invasion by regulation of ZEB2-mediated epithelial-mesenchymal transition in lung cancer cells. Onco Targets Ther 2018;11:6741-6756. PMID: 30349307
  • Kim J, Piao HL, Kim BJ, Yao F et al. Long noncoding RNA MALAT1 suppresses breast cancer metastasis. Nat Genet 2018 Dec;50(12):1705-1715. PMID: 30349115
  • Jain N, Vogel V et al. Spatial confinement downsizes the inflammatory response of macrophages. Nat Mater 2018 Dec;17(12):1134-1144. PMID: 30349032
  • Nozue K, Devisetty UK, Lekkala S, Mueller-Moulé P et al. Network Analysis Reveals a Role for Salicylic Acid Pathway Components in Shade Avoidance. Plant Physiol 2018 Dec;178(4):1720-1732. PMID: 30348816
  • Zhang Q, Marioni RE, Robinson MR, Higham J et al. Genotype effects contribute to variation in longitudinal methylome patterns in older people. Genome Med 2018 Oct 22;10(1):75. PMID: 30348214
  • Adzavon YM, Zhao P, Ma J, Zhang X et al. Macrophage migration inhibitory factor contributes to the pathogenesis of benign lymphoepithelial lesion of the lacrimal gland. Cell Commun Signal 2018 Oct 22;16(1):70. PMID: 30348174
  • Zeng Z, Yang H, Xiao S et al. ACTL6A expression promotes invasion, metastasis and epithelial mesenchymal transition of colon cancer. BMC Cancer 2018 Oct 22;18(1):1020. PMID: 30348114
  • Chaly Y, Barr JY, Sullivan DA, Thomas HE et al. Type I Interferon Signaling Is Required for Dacryoadenitis in the Nonobese Diabetic Mouse Model of Sjögren Syndrome. Int J Mol Sci 2018 Oct 20;19(10). PMID: 30347820
  • Caravia XM, Fanjul V, Oliver E, Roiz-Valle D et al. The microRNA-29/PGC1α regulatory axis is critical for metabolic control of cardiac function. PLoS Biol 2018 Oct;16(10):e2006247. PMID: 30346946
  • Li D, Bao P, Yin Z, Sun L et al. Exploration of the involvement of LncRNA in HIV-associated encephalitis using bioinformatics. PeerJ 2018;6:e5721. PMID: 30345171
  • Li S, Yin Y, Yu H et al. Genetic expression profile-based screening of genes and pathways associated with papillary thyroid carcinoma. Oncol Lett 2018 Nov;16(5):5723-5732. PMID: 30344727
  • Buckle A, Brackley CA, Boyle S, Marenduzzo D et al. Polymer Simulations of Heteromorphic Chromatin Predict the 3D Folding of Complex Genomic Loci. Mol Cell 2018 Nov 15;72(4):786-797.e11. PMID: 30344096
  • Weger BD, Gobet C, Yeung J, Martin E et al. The Mouse Microbiome Is Required for Sex-Specific Diurnal Rhythms of Gene Expression and Metabolism. Cell Metab 2019 Feb 5;29(2):362-382.e8. PMID: 30344015
  • Gubin MM, Esaulova E, Ward JP, Malkova ON et al. High-Dimensional Analysis Delineates Myeloid and Lymphoid Compartment Remodeling during Successful Immune-Checkpoint Cancer Therapy. Cell 2018 Nov 1;175(4):1014-1030.e19. PMID: 30343900
  • Tsai PC, Glastonbury CA, Eliot MN, Bollepalli S et al. Smoking induces coordinated DNA methylation and gene expression changes in adipose tissue with consequences for metabolic health. Clin Epigenetics 2018 Oct 20;10(1):126. PMID: 30342560
  • Wang X, Zhang T, Zhang S, Shan J et al. Prognostic values of F-box members in breast cancer: an online database analysis and literature review. Biosci Rep 2019 Jan 31;39(1). PMID: 30341246
  • Sullivan CR, Mielnik CA, O'Donovan SM, Funk AJ et al. Connectivity Analyses of Bioenergetic Changes in Schizophrenia: Identification of Novel Treatments. Mol Neurobiol 2019 Jun;56(6):4492-4517. PMID: 30338483
  • Bah SY, Forster T, Dickinson P, Kampmann B et al. Meta-Analysis Identification of Highly Robust and Differential Immune-Metabolic Signatures of Systemic Host Response to Acute and Latent Tuberculosis in Children and Adults. Front Genet 2018;9:457. PMID: 30337941
  • Kamstra JH, Hurem S, Martin LM, Lindeman LC et al. Ionizing radiation induces transgenerational effects of DNA methylation in zebrafish. Sci Rep 2018 Oct 18;8(1):15373. PMID: 30337673
  • Martin-Guerrero I, Bilbao-Aldaiturriaga N, Gutierrez-Camino A, Santos-Zorrozua B et al. Variants in the 14q32 miRNA cluster are associated with osteosarcoma risk in the Spanish population. Sci Rep 2018 Oct 18;8(1):15414. PMID: 30337581
  • Godbole M, Togar T, Patel K, Dharavath B et al. Up-regulation of the kinase gene SGK1 by progesterone activates the AP-1-NDRG1 axis in both PR-positive and -negative breast cancer cells. J Biol Chem 2018 Dec 14;293(50):19263-19276. PMID: 30337371
  • Chakraborty B, Mondal P, Gajendra P, Mitra M et al. Deciphering genetic regulation of CD14 by SP1 through characterization of peripheral blood mononuclear transcriptome of P. faiciparum and P. vivax infected malaria patients. EBioMedicine 2018 Nov;37:442-452. PMID: 30337251
  • Yu C, Hong H, Lu J, Zhao X et al. Prediction of Target Genes and Pathways Associated With Cetuximab Insensitivity in Colorectal Cancer. Technol Cancer Res Treat 2018 Jan 1;17:1533033818806905. PMID: 30336768
  • Xing C, Cai Z, Gong J, Zhou J et al. Identification of Potential Biomarkers Involved in Gastric Cancer Through Integrated Analysis of Non-Coding RNA Associated Competing Endogenous RNAs Network. Clin Lab 2018 Oct 1;64(10):1661-1669. PMID: 30336538
  • Kia V, Paryan M, Mortazavi Y, Biglari A et al. Evaluation of exosomal miR-9 and miR-155 targeting PTEN and DUSP14 in highly metastatic breast cancer and their effect on low metastatic cells. J Cell Biochem 2019 Apr;120(4):5666-5676. PMID: 30335891
  • Zhao Y, Wang J, Liang F, Liu Y et al. NucMap: a database of genome-wide nucleosome positioning map across species. Nucleic Acids Res 2019 Jan 8;47(D1):D163-D169. PMID: 30335176
  • Wang N, Yang B, Zhang X, Wang S et al. Network Pharmacology-Based Validation of Caveolin-1 as a Key Mediator of Ai Du Qing Inhibition of Drug Resistance in Breast Cancer. Front Pharmacol 2018;9:1106. PMID: 30333750
  • Takasaka N, Seed RI, Cormier A, Bondesson AJ et al. Integrin αvβ8-expressing tumor cells evade host immunity by regulating TGF-β activation in immune cells. JCI Insight 2018 Oct 18;3(20). PMID: 30333313
  • Mahpour A, Scruggs BS, Smiraglia D, Ouchi T et al. A methyl-sensitive element induces bidirectional transcription in TATA-less CpG island-associated promoters. PLoS One 2018;13(10):e0205608. PMID: 30332484
  • Pincus D, Anandhakumar J, Thiru P, Guertin MJ et al. Genetic and epigenetic determinants establish a continuum of Hsf1 occupancy and activity across the yeast genome. Mol Biol Cell 2018 Dec 15;29(26):3168-3182. PMID: 30332327
  • Corton JC, Williams A, Yauk CL et al. Using a gene expression biomarker to identify DNA damage-inducing agents in microarray profiles. Environ Mol Mutagen 2018 Dec;59(9):772-784. PMID: 30329178
  • Yuan H, Yan M, Zhang G, Liu W et al. CancerSEA: a cancer single-cell state atlas. Nucleic Acids Res 2019 Jan 8;47(D1):D900-D908. PMID: 30329142
  • Kim SJ, Lee SC, Kang HG, Gim J et al. Heat Shock Factor 1 Predicts Poor Prognosis of Gastric Cancer. Yonsei Med J 2018 Nov;59(9):1041-1048. PMID: 30328318
  • Marciniak S, Wnorowski A, Smolińska K, Walczyna B et al. Kynurenic Acid Protects against Thioacetamide-Induced Liver Injury in Rats. Anal Cell Pathol (Amst) 2018;2018:1270483. PMID: 30327755
  • Apostolidis SA, Stifano G, Tabib T, Rice LM et al. Single Cell RNA Sequencing Identifies HSPG2 and APLNR as Markers of Endothelial Cell Injury in Systemic Sclerosis Skin. Front Immunol 2018;9:2191. PMID: 30327649
  • Link S, Spitzer RMM, Sana M, Torrado M et al. PWWP2A binds distinct chromatin moieties and interacts with an MTA1-specific core NuRD complex. Nat Commun 2018 Oct 16;9(1):4300. PMID: 30327463
  • Madeo M, Colbert PL, Vermeer DW, Lucido CT et al. Cancer exosomes induce tumor innervation. Nat Commun 2018 Oct 16;9(1):4284. PMID: 30327461
  • Bacher R, Leng N, Chu LF, Ni Z et al. Trendy: segmented regression analysis of expression dynamics in high-throughput ordered profiling experiments. BMC Bioinformatics 2018 Oct 16;19(1):380. PMID: 30326833
  • Akbarzadeh A, Günther OP, Houde AL, Li S et al. Developing specific molecular biomarkers for thermal stress in salmonids. BMC Genomics 2018 Oct 16;19(1):749. PMID: 30326831
  • Jung CH, Park DJ, Georgeson P, Mahmood K et al. sEst: Accurate Sex-Estimation and Abnormality Detection in Methylation Microarray Data. Int J Mol Sci 2018 Oct 15;19(10). PMID: 30326623
  • Jiang M, Wang YR, Xu N, Zhou L et al. Long noncoding RNA MEG3 play an important role in osteosarcoma development through sponging microRNAs. J Cell Biochem 2019 Apr;120(4):5151-5159. PMID: 30324678
  • Harshan S, Dey P, Ragunathan S et al. Effects of rheumatoid arthritis associated transcriptional changes on osteoclast differentiation network in the synovium. PeerJ 2018;6:e5743. PMID: 30324023
  • Fuja DG, Rainusso NC, Shuck RL, Kurenbekova L et al. Transglutaminase-2 promotes metastatic and stem-like phenotypes in osteosarcoma. Am J Cancer Res 2018;8(9):1752-1763. PMID: 30323968
  • Chen PF, Wang F, Nie JY, Feng JR et al. Co-expression network analysis identified CDH11 in association with progression and prognosis in gastric cancer. Onco Targets Ther 2018;11:6425-6436. PMID: 30323620
  • Cai YD, Zhang S, Zhang YH, Pan X et al. Identification of the Gene Expression Rules That Define the Subtypes in Glioma. J Clin Med 2018 Oct 13;7(10). PMID: 30322114
  • Xu ZY, Zhou C, Zhang KF, Zheng YP et al. Identification of key genes in Ankylosing spondylitis. Immunol Lett 2018 Dec;204:60-66. PMID: 30321561
  • Liu D, Zhao L, Wang Z, Zhou X et al. EWASdb: epigenome-wide association study database. Nucleic Acids Res 2019 Jan 8;47(D1):D989-D993. PMID: 30321400
  • Park J, Ahn SH, Cho KM, Gu D et al. siAbasic: a comprehensive database for potent siRNA-6Ø sequences without off-target effects. Database (Oxford) 2018 Jan 1;2018. PMID: 30321353
  • He H, Brenier-Pinchart MP, Braun L, Kraut A et al. Characterization of a Toxoplasma effector uncovers an alternative GSK3/β-catenin-regulatory pathway of inflammation. Elife 2018 Oct 15;7. PMID: 30320549
  • Cai KT, Feng CX, Zhao JC, He RQ et al. Upregulated miR‑203a‑3p and its potential molecular mechanism in breast cancer: A study based on bioinformatics analyses and a comprehensive meta‑analysis. Mol Med Rep 2018 Dec;18(6):4994-5008. PMID: 30320391
  • Wang W, Xu Z, Zhu X, Chang X et al. Mining the potential therapeutic targets for coronary artery disease by bioinformatics analysis. Mol Med Rep 2018 Dec;18(6):5069-5075. PMID: 30320387
  • Liu C, Chyr J, Zhao W, Xu Y et al. Genome-Wide Association and Mechanistic Studies Indicate That Immune Response Contributes to Alzheimer's Disease Development. Front Genet 2018;9:410. PMID: 30319691
  • Nayler SP, Becker EBE et al. The Use of Stem Cell-Derived Neurons for Understanding Development and Disease of the Cerebellum. Front Neurosci 2018;12:646. PMID: 30319335
  • Wang YZ, Zhu DY, Xie XM, Ding M et al. EA15, MIR22, LINC00472 as diagnostic markers for diabetic kidney disease. J Cell Physiol 2019 Jun;234(6):8797-8803. PMID: 30317603
  • Weinstein AM, Giraldo NA, Petitprez F, Julie C et al. Association of IL-36γ with tertiary lymphoid structures and inflammatory immune infiltrates in human colorectal cancer. Cancer Immunol Immunother 2019 Jan;68(1):109-120. PMID: 30315348
  • Shi X, Liu Z, Liu Z, Feng X et al. Long noncoding RNA PCAT6 functions as an oncogene by binding to EZH2 and suppressing LATS2 in non-small-cell lung cancer. EBioMedicine 2018 Nov;37:177-187. PMID: 30314898
  • Franceschi S, Corsinovi D, Lessi F, Tantillo E et al. Mitochondrial enzyme GLUD2 plays a critical role in glioblastoma progression. EBioMedicine 2018 Nov;37:56-67. PMID: 30314897
  • Barajas-Azpeleta R, Wu J, Gill J, Welte R et al. Antimicrobial peptides modulate long-term memory. PLoS Genet 2018 Oct;14(10):e1007440. PMID: 30312294
  • Yen YP, Hsieh WF, Tsai YY, Lu YL et al. Dlk1-Dio3 locus-derived lncRNAs perpetuate postmitotic motor neuron cell fate and subtype identity. Elife 2018 Oct 12;7. PMID: 30311912
  • Guo Q, Guan GF, Cheng W, Zou CY et al. Integrated profiling identifies caveolae-associated protein 1 as a prognostic biomarker of malignancy in glioblastoma patients. CNS Neurosci Ther 2019 Mar;25(3):343-354. PMID: 30311408
  • Lu W, Ding Z et al. Identification of key genes in prostate cancer gene expression profile by bioinformatics. Andrologia 2019 Feb;51(1):e13169. PMID: 30311263
  • Ji J, Chen H, Liu XP, Wang YH et al. A miRNA Combination as Promising Biomarker for Hepatocellular Carcinoma Diagnosis: A Study Based on Bioinformatics Analysis. J Cancer 2018;9(19):3435-3446. PMID: 30310500
  • Yin Y, Zhou L, Zhan R, Zhang Q et al. Identification of WDR12 as a novel oncogene involved in hepatocellular carcinoma propagation. Cancer Manag Res 2018;10:3985-3993. PMID: 30310320
  • Kai Y, Andricovich J, Zeng Z, Zhu J et al. Predicting CTCF-mediated chromatin interactions by integrating genomic and epigenomic features. Nat Commun 2018 Oct 11;9(1):4221. PMID: 30310060
  • Deng L, Wang J, Xiao Y, Wang Z et al. Accurate prediction of protein-lncRNA interactions by diffusion and HeteSim features across heterogeneous network. BMC Bioinformatics 2018 Oct 11;19(1):370. PMID: 30309340
  • Kang S, Kim BR, Kang MH, Kim DY et al. Anti-metastatic effect of metformin via repression of interleukin 6-induced epithelial-mesenchymal transition in human colon cancer cells. PLoS One 2018;13(10):e0205449. PMID: 30308035
  • Ferino A, Miglietta G, Picco R, Vogel S et al. MicroRNA therapeutics: design of single-stranded miR-216b mimics to target KRAS in pancreatic cancer cells. RNA Biol 2018;15(10):1273-1285. PMID: 30306823
  • Wang H, Deng G, Ai M, Xu Z et al. Hsp90ab1 stabilizes LRP5 to promote epithelial-mesenchymal transition via activating of AKT and Wnt/β-catenin signaling pathways in gastric cancer progression. Oncogene 2019 Feb;38(9):1489-1507. PMID: 30305727
  • Tang J, He D, Yang P, He J et al. Genome-wide expression profiling of glioblastoma using a large combined cohort. Sci Rep 2018 Oct 10;8(1):15104. PMID: 30305647
  • Liu X, Chen X, Zeng K, Xu M et al. DNA-methylation-mediated silencing of miR-486-5p promotes colorectal cancer proliferation and migration through activation of PLAGL2/IGF2/β-catenin signal pathways. Cell Death Dis 2018 Oct 10;9(10):1037. PMID: 30305607
  • Liu L, Shi M, Wang Z, Lu H et al. A molecular and staging model predicts survival in patients with resected non-small cell lung cancer. BMC Cancer 2018 Oct 11;18(1):966. PMID: 30305064
  • Jividen K, Kedzierska KZ, Yang CS, Szlachta K et al. Genomic analysis of DNA repair genes and androgen signaling in prostate cancer. BMC Cancer 2018 Oct 10;18(1):960. PMID: 30305041
  • Liu J, Liang G, Siegmund KD, Lewinger JP et al. Data integration by multi-tuning parameter elastic net regression. BMC Bioinformatics 2018 Oct 10;19(1):369. PMID: 30305021
  • Liu Y, Wu F, Zhang L, Wu X et al. Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing. BMC Genomics 2018 Oct 10;19(1):734. PMID: 30305014
  • Montaldo P, Kaforou M, Pollara G, Hervás-Marín D et al. Whole Blood Gene Expression Reveals Specific Transcriptome Changes in Neonatal Encephalopathy. Neonatology 2019;115(1):68-76. PMID: 30304723
  • Zalocusky KA, Kan MJ, Hu Z, Dunn P et al. The 10,000 Immunomes Project: Building a Resource for Human Immunology. Cell Rep 2018 Oct 9;25(2):513-522.e3. PMID: 30304689
  • Wang Y, Qian M, Ruan P, Teschendorff AE et al. Detection of epigenetic field defects using a weighted epigenetic distance-based method. Nucleic Acids Res 2019 Jan 10;47(1):e6. PMID: 30304472
  • Lieberman Y, Rokach L, Shay T et al. CaSTLe - Classification of single cells by transfer learning: Harnessing the power of publicly available single cell RNA sequencing experiments to annotate new experiments. PLoS One 2018;13(10):e0205499. PMID: 30304022
  • Andersen CL, Boisen MM, Sikora MJ, Ma T et al. The Evolution of Estrogen Receptor Signaling in the Progression of Endometriosis to Endometriosis-Associated Ovarian Cancer. Horm Cancer 2018 Dec;9(6):399-407. PMID: 30302736
  • Gao A, Sun T, Ma G, Cao J et al. LEM4 confers tamoxifen resistance to breast cancer cells by activating cyclin D-CDK4/6-Rb and ERα pathway. Nat Commun 2018 Oct 9;9(1):4180. PMID: 30301939
  • Ormel PR, Vieira de Sá R, van Bodegraven EJ, Karst H et al. Microglia innately develop within cerebral organoids. Nat Commun 2018 Oct 9;9(1):4167. PMID: 30301888
  • Civciristov S, Ellisdon AM, Suderman R, Pon CK et al. Preassembled GPCR signaling complexes mediate distinct cellular responses to ultralow ligand concentrations. Sci Signal 2018 Oct 9;11(551). PMID: 30301787
  • Chiu HW, Chang JS, Lin HY, Lee HH et al. FBXL7 Upregulation Predicts a Poor Prognosis and Associates with a Possible Mechanism for Paclitaxel Resistance in Ovarian Cancer. J Clin Med 2018 Oct 6;7(10). PMID: 30301218
  • Wang S, Li X, Zhang W, Gao Y et al. Genome-Wide Investigation of Genes Regulated by ERα in Breast Cancer Cells. Molecules 2018 Oct 5;23(10). PMID: 30301189
  • Martinez-Soria N, McKenzie L, Draper J, Ptasinska A et al. The Oncogenic Transcription Factor RUNX1/ETO Corrupts Cell Cycle Regulation to Drive Leukemic Transformation. Cancer Cell 2018 Oct 8;34(4):626-642.e8. PMID: 30300583
  • Schiffman C, McHale CM, Hubbard AE, Zhang L et al. Identification of gene expression predictors of occupational benzene exposure. PLoS One 2018;13(10):e0205427. PMID: 30300410
  • Marinelarena A, Bhattacharya P, Kumar P, Maker AV et al. Identification of a Novel OX40L(+) Dendritic Cell Subset That Selectively Expands Regulatory T cells. Sci Rep 2018 Oct 8;8(1):14940. PMID: 30297856
  • Han HW, Hahn S, Jeong HY, Jee JH et al. LINCS L1000 dataset-based repositioning of CGP-60474 as a highly potent anti-endotoxemic agent. Sci Rep 2018 Oct 8;8(1):14969. PMID: 30297806
  • Lucido CT, Callejas-Valera JL, Colbert PL, Vermeer DW et al. β(2)-Adrenergic receptor modulates mitochondrial metabolism and disease progression in recurrent/metastatic HPV(+) HNSCC. Oncogenesis 2018 Oct 8;7(10):81. PMID: 30297705
  • Raveendra BL, Swarnkar S, Avchalumov Y, Liu XA et al. Long noncoding RNA GM12371 acts as a transcriptional regulator of synapse function. Proc Natl Acad Sci U S A 2018 Oct 23;115(43):E10197-E10205. PMID: 30297415
  • Yong L, YuFeng Z, Guang B et al. Association between PPP2CA expression and colorectal cancer prognosis tumor marker prognostic study. Int J Surg 2018 Nov;59:80-89. PMID: 30296597
  • Rath P, Allen JA, Schneider DS et al. Predicting position along a looping immune response trajectory. PLoS One 2018;13(10):e0200147. PMID: 30296270
  • Gökbuget D, Pereira JA, Opitz L, Christe D et al. The miRNA biogenesis pathway prevents inappropriate expression of injury response genes in developing and adult Schwann cells. Glia 2018 Dec;66(12):2632-2644. PMID: 30295958
  • Sun J, Li B, Sun A, Zhao K et al. Comprehensive analysis of aberrantly expressed profiles of messenger RNA in alcoholic liver disease. J Cell Biochem 2019 Mar;120(3):4248-4254. PMID: 30294942
  • Hwang JY, Lee HJ, Go MJ, Jang HB et al. Genome-wide methylation analysis identifies ELOVL5 as an epigenetic biomarker for the risk of type 2 diabetes mellitus. Sci Rep 2018 Oct 5;8(1):14862. PMID: 30291282
  • Shin SH, Lee GY, Lee M, Kang J et al. Aberrant expression of CITED2 promotes prostate cancer metastasis by activating the nucleolin-AKT pathway. Nat Commun 2018 Oct 5;9(1):4113. PMID: 30291252
  • Chen JA, Yu Y, Xue C, Chen XL et al. Low microRNA-139 expression associates with poor prognosis in patients with tumors: A meta-analysis. Hepatobiliary Pancreat Dis Int 2019 Aug;18(4):321-331. PMID: 30290990
  • Pedersen CB, Nielsen FC, Rossing M, Olsen LR et al. Using microarray-based subtyping methods for breast cancer in the era of high-throughput RNA sequencing. Mol Oncol 2018 Dec;12(12):2136-2146. PMID: 30289602
  • Nakayama C, Yamamichi N, Tomida S, Takahashi Y et al. Transduced caudal-type homeobox (CDX) 2/CDX1 can induce growth inhibition on CDX-deficient gastric cancer by rapid intestinal differentiation. Cancer Sci 2018 Dec;109(12):3853-3864. PMID: 30289576
  • Li X, Li J, Wu P, Zhou L et al. Smoker and non-smoker lung adenocarcinoma is characterized by distinct tumor immune microenvironments. Oncoimmunology 2018;7(10):e1494677. PMID: 30288364
  • Wang W, Han T, Tong W, Zhao J et al. Overexpression of GPR35 confers drug resistance in NSCLC cells by β-arrestin/Akt signaling. Onco Targets Ther 2018;11:6249-6257. PMID: 30288060
  • Halim S, Markert EK, Vazquez A et al. Analysis of cell proliferation and tissue remodelling uncovers a KLF4 activity score associated with poor prognosis in colorectal cancer. Br J Cancer 2018 Oct;119(7):855-863. PMID: 30287917
  • Ribeiro-Silva C, Aydin ÖZ, Mesquita-Ribeiro R, Slyskova J et al. DNA damage sensitivity of SWI/SNF-deficient cells depends on TFIIH subunit p62/GTF2H1. Nat Commun 2018 Oct 4;9(1):4067. PMID: 30287812
  • Zhang Y, Zheng D, Zhou T, Song H et al. Androgen deprivation promotes neuroendocrine differentiation and angiogenesis through CREB-EZH2-TSP1 pathway in prostate cancers. Nat Commun 2018 Oct 4;9(1):4080. PMID: 30287808
  • Zhang E, He X, Zhang C, Su J et al. A novel long noncoding RNA HOXC-AS3 mediates tumorigenesis of gastric cancer by binding to YBX1. Genome Biol 2018 Oct 4;19(1):154. PMID: 30286788
  • Herviou L, Kassambara A, Boireau S, Robert N et al. PRC2 targeting is a therapeutic strategy for EZ score defined high-risk multiple myeloma patients and overcome resistance to IMiDs. Clin Epigenetics 2018 Oct 3;10(1):121. PMID: 30285865
  • Tanić M, Krivokuća A, Čavić M, Mladenović J et al. Molecular signature of response to preoperative radiotherapy in locally advanced breast cancer. Radiat Oncol 2018 Oct 1;13(1):193. PMID: 30285791
  • Wang Y, Cho DY, Lee H, Fear J et al. Reprogramming of regulatory network using expression uncovers sex-specific gene regulation in Drosophila. Nat Commun 2018 Oct 3;9(1):4061. PMID: 30283019
  • Lin W, Su F, Gautam R, Wang N et al. Raf kinase inhibitor protein negatively regulates FcεRI-mediated mast cell activation and allergic response. Proc Natl Acad Sci U S A 2018 Oct 16;115(42):E9859-E9868. PMID: 30282734
  • Ji D, Yi H, Zhang D, Zhan T et al. Somatic Mutations and Immune Alternation in Rectal Cancer Following Neoadjuvant Chemoradiotherapy. Cancer Immunol Res 2018 Nov;6(11):1401-1416. PMID: 30282671
  • Wang Z, Qu H, Gong W, Liu A et al. Up-regulation and tumor-promoting role of SPHK1 were attenuated by miR-330-3p in gastric cancer. IUBMB Life 2018 Nov;70(11):1164-1176. PMID: 30281914
  • Kelly RDW, Chandru A, Watson PJ, Song Y et al. Histone deacetylase (HDAC) 1 and 2 complexes regulate both histone acetylation and crotonylation in vivo. Sci Rep 2018 Oct 2;8(1):14690. PMID: 30279482
  • Dusart P, Fagerberg L, Perisic L, Civelek M et al. A systems-approach reveals human nestin is an endothelial-enriched, angiogenesis-independent intermediate filament protein. Sci Rep 2018 Oct 2;8(1):14668. PMID: 30279450
  • Roberts AL, Gladish N, Gatev E, Jones MJ et al. Exposure to childhood abuse is associated with human sperm DNA methylation. Transl Psychiatry 2018 Oct 2;8(1):194. PMID: 30279435
  • Zhao X, Ren Y, Cui N, Wang X et al. Identification of key microRNAs and their targets in exosomes of pancreatic cancer using bioinformatics analysis. Medicine (Baltimore) 2018 Sep;97(39):e12632. PMID: 30278585
  • Dong S, Wu Y, Yu S, Yang Y et al. Increased EXT1 gene copy number correlates with increased mRNA level predicts short disease-free survival in hepatocellular carcinoma without vascular invasion. Medicine (Baltimore) 2018 Sep;97(39):e12625. PMID: 30278583
  • Wurmus R, Uyar B, Osberg B, Franke V et al. PiGx: reproducible genomics analysis pipelines with GNU Guix. Gigascience 2018 Dec 1;7(12). PMID: 30277498
  • Squair JW, Tigchelaar S, Moon KM, Liu J et al. Integrated systems analysis reveals conserved gene networks underlying response to spinal cord injury. Elife 2018 Oct 2;7. PMID: 30277459
  • Yi Y, Liu Y, Wu W, Wu K et al. The role of miR-106p-5p in cervical cancer: from expression to molecular mechanism. Cell Death Discov 2018;4:36. PMID: 30275981
  • Koufaris C, Nilsson R et al. Protein interaction and functional data indicate MTHFD2 involvement in RNA processing and translation. Cancer Metab 2018;6:12. PMID: 30275950
  • Liang S, Ma A, Yang S, Wang Y et al. A Review of Matched-pairs Feature Selection Methods for Gene Expression Data Analysis. Comput Struct Biotechnol J 2018;16:88-97. PMID: 30275937
  • Zhao W, Li W, Dai W, Huang N et al. LINK-A promotes cell proliferation through the regulation of aerobic glycolysis in non-small-cell lung cancer. Onco Targets Ther 2018;11:6071-6080. PMID: 30275711
  • Ouyang X, Huang Y, Jin X, Zhao W et al. Osteopontin promotes cancer cell drug resistance, invasion, and lactate production and is associated with poor outcome of patients with advanced non-small-cell lung cancer. Onco Targets Ther 2018;11:5933-5941. PMID: 30275702
  • Huang YF, Niu WB, Hu R, Wang LJ et al. FIBP knockdown attenuates growth and enhances chemotherapy in colorectal cancer via regulating GSK3β-related pathways. Oncogenesis 2018 Oct 2;7(9):77. PMID: 30275459
  • Cruz C, Della Rosa M, Krueger C, Gao Q et al. Tri-methylation of histone H3 lysine 4 facilitates gene expression in ageing cells. Elife 2018 Oct 2;7. PMID: 30274593
  • Porta F, Ehrsam D, Lengerke C, Meyer Zu Schwabedissen HE et al. Synthesis and Characterization of PDMS-PMOXA-Based Polymersomes Sensitive to MMP-9 for Application in Breast Cancer. Mol Pharm 2018 Nov 5;15(11):4884-4897. PMID: 30274515
  • van Keulen D, Pouwer MG, Pasterkamp G, van Gool AJ et al. Inflammatory cytokine oncostatin M induces endothelial activation in macro- and microvascular endothelial cells and in APOE*3Leiden.CETP mice. PLoS One 2018;13(10):e0204911. PMID: 30273401
  • Garg P, Joshi RS, Watson C, Sharp AJ et al. A survey of inter-individual variation in DNA methylation identifies environmentally responsive co-regulated networks of epigenetic variation in the human genome. PLoS Genet 2018 Oct;14(10):e1007707. PMID: 30273333
  • Xie B, Zhao R, Bai B, Wu Y et al. Identification of key tumorigenesis‑related genes and their microRNAs in colon cancer. Oncol Rep 2018 Dec;40(6):3551-3560. PMID: 30272358
  • Wang Q, Shen Y, Ye B, Hu H et al. Gene expression differences between thyroid carcinoma, thyroid adenoma and normal thyroid tissue. Oncol Rep 2018 Dec;40(6):3359-3369. PMID: 30272326
  • Chen D, Fu LY, Hu D, Klukas C et al. The HTPmod Shiny application enables modeling and visualization of large-scale biological data. Commun Biol 2018;1:89. PMID: 30271970
  • Yang S, Toledo EM, Rosmaninho P, Peng C et al. A Zeb2-miR-200c loop controls midbrain dopaminergic neuron neurogenesis and migration. Commun Biol 2018;1:75. PMID: 30271956
  • Deaton AM, Sulem P, Nioi P, Benonisdottir S et al. A rare missense variant in NR1H4 associates with lower cholesterol levels. Commun Biol 2018;1:14. PMID: 30271901
  • Tosar JP, Rovira C, Cayota A et al. Non-coding RNA fragments account for the majority of annotated piRNAs expressed in somatic non-gonadal tissues. Commun Biol 2018;1:2. PMID: 30271890
  • Tian S, Wang C, Chang HH et al. To select relevant features for longitudinal gene expression data by extending a pathway analysis method. F1000Res 2018;7:1166. PMID: 30271585
  • Mao Y, Feng Q, Zheng P, Yang L et al. Low tumor purity is associated with poor prognosis, heavy mutation burden, and intense immune phenotype in colon cancer. Cancer Manag Res 2018;10:3569-3577. PMID: 30271205
  • Wang L, Li W, Li K, Guo Y et al. The oncogenic roles of nuclear receptor coactivator 1 in human esophageal carcinoma. Cancer Med 2018 Oct;7(10):5205-5216. PMID: 30270520
  • Clouaire T, Rocher V, Lashgari A, Arnould C et al. Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures. Mol Cell 2018 Oct 18;72(2):250-262.e6. PMID: 30270107
  • Zhang X, Sun R, Liu L et al. Potentially critical roles of TNPO1, RAP1B, ZDHHC17, and PPM1B in the progression of coronary atherosclerosis through microarray data analysis. J Cell Biochem 2019 Mar;120(3):4301-4311. PMID: 30269354
  • Lou W, Chen J, Ding B, Chen D et al. Identification of invasion-metastasis-associated microRNAs in hepatocellular carcinoma based on bioinformatic analysis and experimental validation. J Transl Med 2018 Sep 29;16(1):266. PMID: 30268144
  • Zhong Y, Yang S, Wang W, Wei P et al. The interaction of Lin28A/Rho associated coiled-coil containing protein kinase2 accelerates the malignancy of ovarian cancer. Oncogene 2019 Feb;38(9):1381-1397. PMID: 30266988
  • Zhang L, Kang W, Lu X, Ma S et al. Weighted gene co-expression network analysis and connectivity map identifies lovastatin as a treatment option of gastric cancer by inhibiting HDAC2. Gene 2019 Jan 10;681:15-25. PMID: 30266498
  • Qi H, Jiang Z, Zhang K, Yang S et al. PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System. Genomics Proteomics Bioinformatics 2018 Aug;16(4):283-293. PMID: 30266409
  • Weger M, Weger BD, Görling B, Poschet G et al. Glucocorticoid deficiency causes transcriptional and post-transcriptional reprogramming of glutamine metabolism. EBioMedicine 2018 Oct;36:376-389. PMID: 30266295
  • He M, Li Y, Tang Q, Li D et al. Genome-Wide Chromatin Structure Changes During Adipogenesis and Myogenesis. Int J Biol Sci 2018;14(11):1571-1585. PMID: 30263009
  • Neueder A, Dumas AA, Benjamin AC, Bates GP et al. Regulatory mechanisms of incomplete huntingtin mRNA splicing. Nat Commun 2018 Sep 27;9(1):3955. PMID: 30262848
  • Wang X, Gao Y, Gao J, Li M et al. Rheb1 loss leads to increased hematopoietic stem cell proliferation and myeloid-biased differentiation in vivo. Haematologica 2019 Feb;104(2):245-255. PMID: 30262562
  • Cho SH, Pak K, Jeong DC, Han ME et al. The AP2M1 gene expression is a promising biomarker for predicting survival of patients with hepatocellular carcinoma. J Cell Biochem 2019 Mar;120(3):4140-4146. PMID: 30260026
  • Li WC, Bai L, Xu Y, Chen H et al. Identification of differentially expressed genes in synovial tissue of rheumatoid arthritis and osteoarthritis in patients. J Cell Biochem 2019 Mar;120(3):4533-4544. PMID: 30260019
  • Makhijani RK, Raut SA, Purohit HJ et al. Fold change based approach for identification of significant network markers in breast, lung and prostate cancer. IET Syst Biol 2018 Oct;12(5):213-218. PMID: 30259866
  • Rossi C, Zini R, Rontauroli S, Ruberti S et al. Role of TGF-β1/miR-382-5p/SOD2 axis in the induction of oxidative stress in CD34+ cells from primary myelofibrosis. Mol Oncol 2018 Dec;12(12):2102-2123. PMID: 30259659
  • Koç I, Yuksel I, Caetano-Anollés G et al. Metabolite-Centric Reporter Pathway and Tripartite Network Analysis of Arabidopsis Under Cold Stress. Front Bioeng Biotechnol 2018;6:121. PMID: 30258841
  • Poquet I, Saujet L, Canette A, Monot M et al. Clostridium difficile Biofilm: Remodeling Metabolism and Cell Surface to Build a Sparse and Heterogeneously Aggregated Architecture. Front Microbiol 2018;9:2084. PMID: 30258415
  • Jing JJ, Wang ZY, Li H, Sun LP et al. Key elements involved in Epstein-Barr virus-associated gastric cancer and their network regulation. Cancer Cell Int 2018;18:146. PMID: 30258285
  • Nishiguchi MA, Spencer CA, Leung DH, Leung TH et al. Aging Suppresses Skin-Derived Circulating SDF1 to Promote Full-Thickness Tissue Regeneration. Cell Rep 2018 Sep 25;24(13):3383-3392.e5. PMID: 30257200
  • Sun R, Cui C, Zhou Y, Cui Q et al. AGD: Aneurysm Gene Database. Database (Oxford) 2018 Jan 1;2018. PMID: 30256987
  • Tang J, Kong D, Cui Q, Wang K et al. Prognostic Genes of Breast Cancer Identified by Gene Co-expression Network Analysis. Front Oncol 2018;8:374. PMID: 30254986
  • Balasubramanian JB, Gopalakrishnan V et al. Tunable structure priors for Bayesian rule learning for knowledge integrated biomarker discovery. World J Clin Oncol 2018 Sep 14;9(5):98-109. PMID: 30254965
  • Budai Z, Balogh L, Sarang Z et al. Altered Gene Expression of Muscle Satellite Cells Contributes to Agerelated Sarcopenia in Mice. Curr Aging Sci 2018;11(3):165-172. PMID: 30251615
  • Nilubol N, Boufraqech M, Zhang L, Gaskins K et al. Synergistic combination of flavopiridol and carfilzomib targets commonly dysregulated pathways in adrenocortical carcinoma and has biomarkers of response. Oncotarget 2018 Aug 31;9(68):33030-33042. PMID: 30250647
  • Wang S, Chen X et al. Identification of potential biomarkers in cervical cancer with combined public mRNA and miRNA expression microarray data analysis. Oncol Lett 2018 Oct;16(4):5200-5208. PMID: 30250588
  • Jin X, Liu X, Zhang Z, Guan Y et al. Identification of key pathways and genes in lung carcinogenesis. Oncol Lett 2018 Oct;16(4):4185-4192. PMID: 30250533
  • Zhang Y, Zvi YS, Batko B, Zaphiros N et al. Down-regulation of Skp2 expression inhibits invasion and lung metastasis in osteosarcoma. Sci Rep 2018 Sep 24;8(1):14294. PMID: 30250282
  • Gustafsson NMS, Färnegårdh K, Bonagas N, Ninou AH et al. Targeting PFKFB3 radiosensitizes cancer cells and suppresses homologous recombination. Nat Commun 2018 Sep 24;9(1):3872. PMID: 30250201
  • Sharif T, Martell E, Dai C, Ghassemi-Rad MS et al. Phosphoglycerate dehydrogenase inhibition induces p-mTOR-independent autophagy and promotes multilineage differentiation in embryonal carcinoma stem-like cells. Cell Death Dis 2018 Sep 24;9(10):990. PMID: 30250195
  • Zhang Z, Jiang NY, Guan RY, Zhu YK et al. Identification of critical microRNAs in gastrointestinal stromal tumor patients treated with Imatinib. Neoplasma 2018 Sep 19;65(5):683-692. PMID: 30249101
  • Vallejo AF, Read RC, Arevalo-Herrera M, Herrera S et al. Malaria systems immunology: Plasmodium vivax induces tolerance during primary infection through dysregulation of neutrophils and dendritic cells. J Infect 2018 Nov;77(5):440-447. PMID: 30248353
  • Serganova I, Cohen IJ, Vemuri K, Shindo M et al. LDH-A regulates the tumor microenvironment via HIF-signaling and modulates the immune response. PLoS One 2018;13(9):e0203965. PMID: 30248111
  • Long J, Zhang L, Wan X, Lin J et al. A four-gene-based prognostic model predicts overall survival in patients with hepatocellular carcinoma. J Cell Mol Med 2018 Dec;22(12):5928-5938. PMID: 30247807
  • Kleppe AS, Bornberg-Bauer E et al. Robustness by intrinsically disordered C-termini and translational readthrough. Nucleic Acids Res 2018 Nov 2;46(19):10184-10194. PMID: 30247639
  • Fan G, Tu Y, Chen C, Sun H et al. DNA methylation biomarkers for hepatocellular carcinoma. Cancer Cell Int 2018;18:140. PMID: 30245591
  • Mika KM, Li X, DeMayo FJ, Lynch VJ et al. An Ancient Fecundability-Associated Polymorphism Creates a GATA2 Binding Site in a Distal Enhancer of HLA-F. Am J Hum Genet 2018 Oct 4;103(4):509-521. PMID: 30245028
  • Luo B, Gu YY, Wang XD, Chen G et al. Identification of potential drugs for diffuse large b-cell lymphoma based on bioinformatics and Connectivity Map database. Pathol Res Pract 2018 Nov;214(11):1854-1867. PMID: 30244948
  • Trisno SL, Philo KED, McCracken KW, Catá EM et al. Esophageal Organoids from Human Pluripotent Stem Cells Delineate Sox2 Functions during Esophageal Specification. Cell Stem Cell 2018 Oct 4;23(4):501-515.e7. PMID: 30244869
  • Tan Y, Chen Y, Du M, Peng Z et al. USF2 inhibits the transcriptional activity of Smurf1 and Smurf2 to promote breast cancer tumorigenesis. Cell Signal 2019 Jan;53:49-58. PMID: 30244169
  • Cen WN, Pang JS, Huang JC, Hou JY et al. The expression and biological information analysis of miR-375-3p in head and neck squamous cell carcinoma based on 1825 samples from GEO, TCGA, and peer-reviewed publications. Pathol Res Pract 2018 Nov;214(11):1835-1847. PMID: 30243807
  • Jiang B, Hailong S, Yuan J, Zhao H et al. Identification of oncogenic long noncoding RNA SNHG12 and DUXAP8 in human bladder cancer through a comprehensive profiling analysis. Biomed Pharmacother 2018 Dec;108:500-507. PMID: 30243082
  • Häfliger P, Graff J, Rubin M, Stooss A et al. The LAT1 inhibitor JPH203 reduces growth of thyroid carcinoma in a fully immunocompetent mouse model. J Exp Clin Cancer Res 2018 Sep 21;37(1):234. PMID: 30241549
  • Rahmani E, Schweiger R, Shenhav L, Wingert T et al. BayesCCE: a Bayesian framework for estimating cell-type composition from DNA methylation without the need for methylation reference. Genome Biol 2018 Sep 21;19(1):141. PMID: 30241486
  • Lacher SE, Levings DC, Freeman S, Slattery M et al. Identification of a functional antioxidant response element at the HIF1A locus. Redox Biol 2018 Oct;19:401-411. PMID: 30241031
  • Ylla G, Piulachs MD, Belles X et al. Comparative Transcriptomics in Two Extreme Neopterans Reveals General Trends in the Evolution of Modern Insects. iScience 2018 Jun 29;4:164-179. PMID: 30240738
  • Zhu Y, Xu G, Yang YT, Xu Z et al. POSTAR2: deciphering the post-transcriptional regulatory logics. Nucleic Acids Res 2019 Jan 8;47(D1):D203-D211. PMID: 30239819
  • Falk T, Herndon N, Grau E, Buehler S et al. Growing and cultivating the forest genomics database, TreeGenes. Database (Oxford) 2018 Jan 1;2018:1-11. PMID: 30239664
  • Li L, Li Y, Huang Y, Ouyang Y et al. Long non-coding RNA MIF-AS1 promotes gastric cancer cell proliferation and reduces apoptosis to upregulate NDUFA4. Cancer Sci 2018 Dec;109(12):3714-3725. PMID: 30238562
  • Zahid KR, Han S, Zhou F, Raza U et al. Novel tumor suppressor SPRYD4 inhibits tumor progression in hepatocellular carcinoma by inducing apoptotic cell death. Cell Oncol (Dordr) 2019 Feb;42(1):55-66. PMID: 30238408
  • Li S, Xuan Y, Gao B, Sun X et al. Identification of an eight-gene prognostic signature for lung adenocarcinoma. Cancer Manag Res 2018;10:3383-3392. PMID: 30237740
  • Grimm J, Hufnagel A, Wobser M, Borst A et al. BRAF inhibition causes resilience of melanoma cell lines by inducing the secretion of FGF1. Oncogenesis 2018 Sep 20;7(9):71. PMID: 30237393
  • Ng-Blichfeldt JP, Schrik A, Kortekaas RK, Noordhoek JA et al. Retinoic acid signaling balances adult distal lung epithelial progenitor cell growth and differentiation. EBioMedicine 2018 Oct;36:461-474. PMID: 30236449
  • Polewko-Klim A, Lesiński W, Mnich K, Piliszek R et al. Integration of multiple types of genetic markers for neuroblastoma may contribute to improved prediction of the overall survival. Biol Direct 2018 Sep 20;13(1):17. PMID: 30236139
  • Jonckheere N, Van Seuningen I et al. Integrative analysis of the cancer genome atlas and cancer cell lines encyclopedia large-scale genomic databases: MUC4/MUC16/MUC20 signature is associated with poor survival in human carcinomas. J Transl Med 2018 Sep 20;16(1):259. PMID: 30236127
  • Choi JS, Ryu J, Bae WY, Park A et al. Zingerone Suppresses Tumor Development through Decreasing Cyclin D1 Expression and Inducing Mitotic Arrest. Int J Mol Sci 2018 Sep 19;19(9). PMID: 30235818
  • Cohen C, Corpet A, Roubille S, Maroui MA et al. Promyelocytic leukemia (PML) nuclear bodies (NBs) induce latent/quiescent HSV-1 genomes chromatinization through a PML NB/Histone H3.3/H3.3 Chaperone Axis. PLoS Pathog 2018 Sep;14(9):e1007313. PMID: 30235352
  • He F, Ai B, Tian L et al. Identification of genes and pathways in esophageal adenocarcinoma using bioinformatics analysis. Biomed Rep 2018 Oct;9(4):305-312. PMID: 30233782
  • Gu Y, Qiu ZL, Liu DZ, Sun GL et al. Differential gene expression profiling of the sciatic nerve in type 1 and type 2 diabetic mice. Biomed Rep 2018 Oct;9(4):291-304. PMID: 30233781
  • Fujita Y, Khateb A, Li Y, Tinoco R et al. Regulation of S100A8 Stability by RNF5 in Intestinal Epithelial Cells Determines Intestinal Inflammation and Severity of Colitis. Cell Rep 2018 Sep 18;24(12):3296-3311.e6. PMID: 30232010
  • Vandenbon A, Kumagai Y, Lin M, Suzuki Y et al. Waves of chromatin modifications in mouse dendritic cells in response to LPS stimulation. Genome Biol 2018 Sep 19;19(1):138. PMID: 30231913
  • Wu Y, Chen W, Gong L, Ke C et al. Elevated G-Protein Receptor 125 (GPR125) Expression Predicts Good Outcomes in Colorectal Cancer and Inhibits Wnt/β-Catenin Signaling Pathway. Med Sci Monit 2018 Sep 19;24:6608-6616. PMID: 30231258
  • Dunn-Fletcher CE, Muglia LM, Pavlicev M, Wolf G et al. Anthropoid primate-specific retroviral element THE1B controls expression of CRH in placenta and alters gestation length. PLoS Biol 2018 Sep;16(9):e2006337. PMID: 30231016
  • Tian ZG, Zhuang Y, Jin Z, Zhou F et al. MicroRNA-337-5p participates in the development and progression of osteosarcoma via ERBB, MAPK and VEGF pathways. Eur Rev Med Pharmacol Sci 2018 Sep;22(17):5460-5470. PMID: 30229817
  • Zhang Y, Deng Q, Liang W, Zou X et al. An Efficient Feature Selection Strategy Based on Multiple Support Vector Machine Technology with Gene Expression Data. Biomed Res Int 2018;2018:7538204. PMID: 30228989
  • Liu S, Yao X, Zhang D, Sheng J et al. Analysis of Transcription Factor-Related Regulatory Networks Based on Bioinformatics Analysis and Validation in Hepatocellular Carcinoma. Biomed Res Int 2018;2018:1431396. PMID: 30228980
  • Ryzhakov G, West NR, Franchini F, Clare S et al. Alpha kinase 1 controls intestinal inflammation by suppressing the IL-12/Th1 axis. Nat Commun 2018 Sep 18;9(1):3797. PMID: 30228258
  • Callegari K, Maegawa S, Bravo-Alegria J, Gopalakrishnan V et al. Pharmacological inhibition of LSD1 activity blocks REST-dependent medulloblastoma cell migration. Cell Commun Signal 2018 Sep 18;16(1):60. PMID: 30227871
  • Musumeci G, Castrogiovanni P, Barbagallo I, Tibullo D et al. Expression of the OAS Gene Family Is Highly Modulated in Subjects Affected by Juvenile Dermatomyositis, Resembling an Immune Response to a dsRNA Virus Infection. Int J Mol Sci 2018 Sep 17;19(9). PMID: 30227596
  • Huang S, Park J, Qiu C, Chung KW et al. Jagged1/Notch2 controls kidney fibrosis via Tfam-mediated metabolic reprogramming. PLoS Biol 2018 Sep;16(9):e2005233. PMID: 30226866
  • Zhang P, He F, Bai J, Yamamoto S et al. Chromatin regulator Asxl1 loss and Nf1 haploinsufficiency cooperate to accelerate myeloid malignancy. J Clin Invest 2018 Dec 3;128(12):5383-5398. PMID: 30226831
  • Yan W, Li SX, Wei M, Gao H et al. Identification of MMP9 as a novel key gene in mantle cell lymphoma based on bioinformatic analysis and design of cyclic peptides as MMP9 inhibitors based on molecular docking. Oncol Rep 2018 Nov;40(5):2515-2524. PMID: 30226602
  • Lee WH, Tsai MJ, Chang WA, Wu LY et al. Deduction of novel genes potentially involved in hypoxic AC16 human cardiomyocytes using next-generation sequencing and bioinformatics approaches. Int J Mol Med 2018 Nov;42(5):2489-2502. PMID: 30226555
  • Zhao C, Zou H, Zhang J, Wang J et al. An integrated methylation and gene expression microarray analysis reveals significant prognostic biomarkers in oral squamous cell carcinoma. Oncol Rep 2018 Nov;40(5):2637-2647. PMID: 30226546
  • Yang PJ, Hou MF, Tsai EM, Liang SS et al. Breast cancer is associated with methylation and expression of the a disintegrin and metalloproteinase domain 33 (ADAM33) gene affected by endocrine‑disrupting chemicals. Oncol Rep 2018 Nov;40(5):2766-2777. PMID: 30226539
  • Pan Z, Fang Q, Zhang Y, Li L et al. [Identification of key pathways and drug repurposing for anaplastic thyroid carcinoma by integrated bioinformatics analysis]. Zhejiang Da Xue Xue Bao Yi Xue Ban 2018 May 25;47(2):187-193. PMID: 30226315
  • Zhou C, Pan R, Hu H, Li B et al. TNFRSF10C methylation is a new epigenetic biomarker for colorectal cancer. PeerJ 2018;6:e5336. PMID: 30225159
  • Orlando G, Law PJ, Cornish AJ, Dobbins SE et al. Promoter capture Hi-C-based identification of recurrent noncoding mutations in colorectal cancer. Nat Genet 2018 Oct;50(10):1375-1380. PMID: 30224643
  • Müller A, Hennig A, Lorscheid S, Grondona P et al. IκBζ is a key transcriptional regulator of IL-36-driven psoriasis-related gene expression in keratinocytes. Proc Natl Acad Sci U S A 2018 Oct 2;115(40):10088-10093. PMID: 30224457
  • Zhou W, Altman RB et al. Data-driven human transcriptomic modules determined by independent component analysis. BMC Bioinformatics 2018 Sep 17;19(1):327. PMID: 30223787
  • Platania CBM, Leggio GM, Drago F, Salomone S et al. Computational systems biology approach to identify novel pharmacological targets for diabetic retinopathy. Biochem Pharmacol 2018 Dec;158:13-26. PMID: 30222965
  • Ma B, Yang Y, Li Z, Zhao D et al. Modular bioinformatics analysis demonstrates that a Toll‑like receptor signaling pathway is involved in the regulation of macrophage polarization. Mol Med Rep 2018 Nov;18(5):4313-4320. PMID: 30221738
  • Yin X, Sun J, Zhang H, Wang S et al. Comprehensive analysis of multi Ewing sarcoma microarray datasets identifies several prognosis biomarkers. Mol Med Rep 2018 Nov;18(5):4229-4238. PMID: 30221671
  • Vogt TJ, Gevensleben H, Dietrich J, Kristiansen G et al. Detailed analysis of adenosine A2a receptor (ADORA2A) and CD73 (5'-nucleotidase, ecto, NT5E) methylation and gene expression in head and neck squamous cell carcinoma patients. Oncoimmunology 2018;7(8):e1452579. PMID: 30221045
  • Zheng XB, Liu HS, Zhang LJ, Liu XH et al. Engulfment and Cell Motility Protein 1 Protects Against DSS-induced Colonic Injury in Mice via Rac1 Activation. J Crohns Colitis 2019 Jan 1;13(1):100-114. PMID: 30219846
  • DiSpirito JR, Zemmour D, Ramanan D, Cho J et al. Molecular diversification of regulatory T cells in nonlymphoid tissues. Sci Immunol 2018 Sep 14;3(27). PMID: 30217811
  • Xiong TF, Pan FQ, Li D et al. Expression and clinical significance of S100 family genes in patients with melanoma. Melanoma Res 2019 Feb;29(1):23-29. PMID: 30216200
  • Wu C, Zhao Y, Liu Y, Yang X et al. Identifying miRNA-mRNA regulation network of major depressive disorder in ovarian cancer patients. Oncol Lett 2018 Oct;16(4):5375-5382. PMID: 30214617
  • Zhang Z, Zhao L, Wei X, Guo Q et al. Integrated bioinformatic analysis of microarray data reveals shared gene signature between MDS and AML. Oncol Lett 2018 Oct;16(4):5147-5159. PMID: 30214614
  • Liu K, Jin M, Xiao L, Liu H et al. Distinct prognostic values of mRNA expression of glutathione peroxidases in non-small cell lung cancer. Cancer Manag Res 2018;10:2997-3005. PMID: 30214294
  • Cheng X, Hu M, Chen C, Hou D et al. Computational analysis of mRNA expression profiles identifies a novel triple-biomarker model as prognostic predictor of stage II and III colorectal adenocarcinoma patients. Cancer Manag Res 2018;10:2945-2952. PMID: 30214289
  • Feng Z, Peng C, Li D, Zhang D et al. E2F3 promotes cancer growth and is overexpressed through copy number variation in human melanoma. Onco Targets Ther 2018;11:5303-5313. PMID: 30214236
  • Hu S, Liao Y, Chen L et al. Identification of Key Pathways and Genes in Anaplastic Thyroid Carcinoma via Integrated Bioinformatics Analysis. Med Sci Monit 2018 Sep 14;24:6438-6448. PMID: 30213925
  • Potus F, Hindmarch CCT, Dunham-Snary KJ, Stafford J et al. Transcriptomic Signature of Right Ventricular Failure in Experimental Pulmonary Arterial Hypertension: Deep Sequencing Demonstrates Mitochondrial, Fibrotic, Inflammatory and Angiogenic Abnormalities. Int J Mol Sci 2018 Sep 12;19(9). PMID: 30213070
  • Chen X, Pei Z, Peng H, Zheng Z et al. Exploring the molecular mechanism associated with breast cancer bone metastasis using bioinformatic analysis and microarray genetic interaction network. Medicine (Baltimore) 2018 Sep;97(37):e12032. PMID: 30212931
  • Dai H, Zhou J, Zhu B et al. Gene co-expression network analysis identifies the hub genes associated with immune functions for nocturnal hemodialysis in patients with end-stage renal disease. Medicine (Baltimore) 2018 Sep;97(37):e12018. PMID: 30212930
  • Haro M, Orsulic S et al. A Paradoxical Correlation of Cancer-Associated Fibroblasts With Survival Outcomes in B-Cell Lymphomas and Carcinomas. Front Cell Dev Biol 2018;6:98. PMID: 30211161
  • Chen H, Liu X, Jin Z, Gou C et al. A three miRNAs signature for predicting the transformation of oral leukoplakia to oral squamous cell carcinoma. Am J Cancer Res 2018;8(8):1403-1413. PMID: 30210912
  • Ma X, Wang G, Zhai Z, Zhou P et al. Global Transcriptomic Analysis and Function Identification of Malolactic Enzyme Pathway of Lactobacillus paracasei L9 in Response to Bile Stress. Front Microbiol 2018;9:1978. PMID: 30210466
  • Hu Y, Pan J, Xin Y, Mi X et al. Gene Expression Analysis Reveals Novel Gene Signatures Between Young and Old Adults in Human Prefrontal Cortex. Front Aging Neurosci 2018;10:259. PMID: 30210331
  • Kong W, Ding L, Cheng J, Wang B et al. Identification and expression analysis of genes with pathogen-inducible cis-regulatory elements in the promoter regions in Oryza sativa. Rice (N Y) 2018 Sep 12;11(1):52. PMID: 30209707
  • Pan YR, Chen CC, Chan YT, Wang HJ et al. STAT3-coordinated migration facilitates the dissemination of diffuse large B-cell lymphomas. Nat Commun 2018 Sep 12;9(1):3696. PMID: 30209389
  • Mihaylova VT, Kong Y, Fedorova O, Sharma L et al. Regional Differences in Airway Epithelial Cells Reveal Tradeoff between Defense against Oxidative Stress and Defense against Rhinovirus. Cell Rep 2018 Sep 11;24(11):3000-3007.e3. PMID: 30208323
  • Mazzini GS, Khoraki J, Dozmorov M, Browning MG et al. Concomitant PPARα and FXR Activation as a Putative Mechanism of NASH Improvement after Gastric Bypass Surgery: a GEO Datasets Analysis. J Gastrointest Surg 2019 Jan;23(1):51-57. PMID: 30206765
  • Liu DD, Zhang L et al. Trends in the characteristics of human functional genomic data on the gene expression omnibus, 2001-2017. Lab Invest 2019 Jan;99(1):118-127. PMID: 30206311
  • Costa F, Grün D, Backofen R et al. GraphDDP: a graph-embedding approach to detect differentiation pathways in single-cell-data using prior class knowledge. Nat Commun 2018 Sep 11;9(1):3685. PMID: 30206223
  • Troiano G, Guida A, Aquino G, Botti G et al. Integrative Histologic and Bioinformatics Analysis of BIRC5/Survivin Expression in Oral Squamous Cell Carcinoma. Int J Mol Sci 2018 Sep 8;19(9). PMID: 30205554
  • Xu HT, Guo JC, Liu HZ, Jin WW et al. A Time-Series Analysis of Severe Burned Injury of Skin Gene Expression Profiles. Cell Physiol Biochem 2018;49(4):1492-1498. PMID: 30205399
  • Lin T, Fu Y, Zhang X, Gu J et al. A seven-long noncoding RNA signature predicts overall survival for patients with early stage non-small cell lung cancer. Aging (Albany NY) 2018 Sep 11;10(9):2356-2366. PMID: 30205363
  • Lu Y, Li A, Lai X, Jiang J et al. Identification of differentially expressed genes and signaling pathways using bioinformatics in interstitial lung disease due to tyrosine kinase inhibitors targeting the epidermal growth factor receptor. Invest New Drugs 2019 Apr;37(2):384-400. PMID: 30203136
  • Shafiee G, Asgari Y, Soltani A, Larijani B et al. Identification of candidate genes and proteins in aging skeletal muscle (sarcopenia) using gene expression and structural analysis. PeerJ 2018;6:e5239. PMID: 30202641
  • Gruber AJ, Gypas F, Riba A, Schmidt R et al. Terminal exon characterization with TECtool reveals an abundance of cell-specific isoforms. Nat Methods 2018 Oct;15(10):832-836. PMID: 30202060
  • Lin LY, Chun Chang S, O'Hearn J, Hui ST et al. Systems Genetics Approach to Biomarker Discovery: GPNMB and Heart Failure in Mice and Humans. G3 (Bethesda) 2018 Nov 6;8(11):3499-3506. PMID: 30201759
  • Tomkova M, Tomek J, Kriaucionis S, Schuster-Böckler B et al. Mutational signature distribution varies with DNA replication timing and strand asymmetry. Genome Biol 2018 Sep 10;19(1):129. PMID: 30201020
  • Chiu R, Nip KM, Chu J, Birol I et al. TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data. BMC Med Genomics 2018 Sep 10;11(1):79. PMID: 30200994
  • Nakashima Y, Miyagi-Shiohira C, Noguchi H, Omasa T et al. The Healing Effect of Human Milk Fat Globule-EGF Factor 8 Protein (MFG-E8) in A Rat Model of Parkinson's Disease. Brain Sci 2018 Aug 31;8(9). PMID: 30200351
  • Snodgrass RG, Zezina E, Namgaladze D, Gupta S et al. A Novel Function for 15-Lipoxygenases in Cholesterol Homeostasis and CCL17 Production in Human Macrophages. Front Immunol 2018;9:1906. PMID: 30197642
  • Jia L, Zhang R et al. [Alterations in gene expression profiles in children with Type 2 diabetes mellitus and its mechanisms]. Zhong Nan Da Xue Xue Bao Yi Xue Ban 2018 Aug 28;43(8):826-834. PMID: 30197309
  • Wang H, Zhan M, Yang R, Shi Y et al. Elevated expression of NFE2L3 predicts the poor prognosis of pancreatic cancer patients. Cell Cycle 2018;17(17):2164-2174. PMID: 30196752
  • Huan Q, Zhang Y, Wu S, Qian W et al. HeteroMeth: A Database of Cell-to-cell Heterogeneity in DNA Methylation. Genomics Proteomics Bioinformatics 2018 Aug;16(4):234-243. PMID: 30196115
  • Zhou M, Hu L, Zhang Z, Wu N et al. Recurrence-Associated Long Non-coding RNA Signature for Determining the Risk of Recurrence in Patients with Colon Cancer. Mol Ther Nucleic Acids 2018 Sep 7;12:518-529. PMID: 30195788
  • Teimuri S, Hosseini A, Rezaenasab A, Ghaedi K et al. Integrative Analysis of lncRNAs in Th17 Cell Lineage to Discover New Potential Biomarkers and Therapeutic Targets in Autoimmune Diseases. Mol Ther Nucleic Acids 2018 Sep 7;12:393-404. PMID: 30195777
  • Bhattacharjee A, Vishwakarma GK, Thomas A et al. Bayesian state-space modeling in gene expression data analysis: An application with biomarker prediction. Math Biosci 2018 Nov;305:96-101. PMID: 30194959
  • Stylianou N, Lehman ML, Wang C, Fard AT et al. A molecular portrait of epithelial-mesenchymal plasticity in prostate cancer associated with clinical outcome. Oncogene 2019 Feb;38(7):913-934. PMID: 30194451
  • Rafnar T, Gunnarsson B, Stefansson OA, Sulem P et al. Variants associating with uterine leiomyoma highlight genetic background shared by various cancers and hormone-related traits. Nat Commun 2018 Sep 7;9(1):3636. PMID: 30194396
  • Sharma R, Singh G, Bhattacharya S, Singh A et al. Comparative transcriptome meta-analysis of Arabidopsis thaliana under drought and cold stress. PLoS One 2018;13(9):e0203266. PMID: 30192796
  • Ignatius MS, Hayes MN, Moore FE, Tang Q et al. tp53 deficiency causes a wide tumor spectrum and increases embryonal rhabdomyosarcoma metastasis in zebrafish. Elife 2018 Sep 7;7. PMID: 30192230
  • Castellana S, Mazza T, Capocefalo D, Genov N et al. Systematic Analysis of Mouse Genome Reveals Distinct Evolutionary and Functional Properties Among Circadian and Ultradian Genes. Front Physiol 2018;9:1178. PMID: 30190679
  • Paraskevopoulou MD, Karagkouni D, Vlachos IS, Tastsoglou S et al. microCLIP super learning framework uncovers functional transcriptome-wide miRNA interactions. Nat Commun 2018 Sep 6;9(1):3601. PMID: 30190538
  • Li Y, Soendergaard C, Bergenheim FH, Aronoff DM et al. COX-2-PGE(2) Signaling Impairs Intestinal Epithelial Regeneration and Associates with TNF Inhibitor Responsiveness in Ulcerative Colitis. EBioMedicine 2018 Oct;36:497-507. PMID: 30190207
  • Wang Z, Chen X, Zhang D, Cao Y et al. PYCARD Gene Plays a Key Role in Rapidly Progressive Glomerulonephritis: Results of a Weighted Gene Co-Expression Network Analysis. Am J Nephrol 2018;48(3):193-204. PMID: 30189426
  • Nwogu N, Boyne JR, Dobson SJ, Poterlowicz K et al. Cellular sheddases are induced by Merkel cell polyomavirus small tumour antigen to mediate cell dissociation and invasiveness. PLoS Pathog 2018 Sep;14(9):e1007276. PMID: 30188954
  • Pleiman JK, Irving AA, Wang Z, Toraason E et al. The conserved protective cyclic AMP-phosphodiesterase function PDE4B is expressed in the adenoma and adjacent normal colonic epithelium of mammals and silenced in colorectal cancer. PLoS Genet 2018 Sep;14(9):e1007611. PMID: 30188895
  • Chen W, Liu Y, Zhu S, Chen G et al. Inter-nucleosomal communication between histone modifications for nucleosome phasing. PLoS Comput Biol 2018 Sep;14(9):e1006416. PMID: 30188887
  • Li Z, Wang Q, Chen G, Li X et al. Integration of Gene Expression Profile Data to Screen and Verify Hub Genes Involved in Osteoarthritis. Biomed Res Int 2018;2018:9482726. PMID: 30186872
  • Hu G, Lv Q, Yan J, Chen L et al. MicroRNA-17 as a promising diagnostic biomarker of gastric cancer: An investigation combining TCGA, GEO, meta-analysis, and bioinformatics. FEBS Open Bio 2018 Sep;8(9):1508-1523. PMID: 30186751
  • Wan GX, Ji LH, Xia WB, Cheng L et al. Bioinformatics identification of potential candidate blood indicators for doxorubicin-induced heart failure. Exp Ther Med 2018 Sep;16(3):2534-2544. PMID: 30186487
  • Zhang X, Xin G, Sun D et al. Serum exosomal miR-328, miR-575, miR-134 and miR-671-5p as potential biomarkers for the diagnosis of Kawasaki disease and the prediction of therapeutic outcomes of intravenous immunoglobulin therapy. Exp Ther Med 2018 Sep;16(3):2420-2432. PMID: 30186482
  • Han B, Feng D, Yu X, Liu Y et al. MicroRNA-144 mediates chronic inflammation and tumorigenesis in colorectal cancer progression via regulating C-X-C motif chemokine ligand 11. Exp Ther Med 2018 Sep;16(3):1935-1943. PMID: 30186421
  • Huang D, Yuan W, Li H, Li S et al. Identification of key pathways and biomarkers in sorafenib-resistant hepatocellular carcinoma using bioinformatics analysis. Exp Ther Med 2018 Sep;16(3):1850-1858. PMID: 30186410
  • Chen L, Zhang Y, Rao Z, Zhang J et al. Integrated analysis of key mRNAs and lncRNAs in osteoarthritis. Exp Ther Med 2018 Sep;16(3):1841-1849. PMID: 30186409
  • Tsuji-Hosokawa A, Kashimada K, Kato T, Ogawa Y et al. Peptidyl arginine deiminase 2 (Padi2) is expressed in Sertoli cells in a specific manner and regulated by SOX9 during testicular development. Sci Rep 2018 Sep 5;8(1):13263. PMID: 30185873
  • Casar B, Badrock AP, Jiménez I, Arozarena I et al. RAS at the Golgi antagonizes malignant transformation through PTPRκ-mediated inhibition of ERK activation. Nat Commun 2018 Sep 5;9(1):3595. PMID: 30185827
  • Rosen AD, Robertson KD, Hlady RA, Muench C et al. DNA methylation age is accelerated in alcohol dependence. Transl Psychiatry 2018 Sep 5;8(1):182. PMID: 30185790
  • Kojo S, Yasmin N, Muroi S, Tenno M et al. Runx-dependent and silencer-independent repression of a maturation enhancer in the Cd4 gene. Nat Commun 2018 Sep 5;9(1):3593. PMID: 30185787
  • Andrique C, Morardet L, Linares LK, Cissé MY et al. Calpain-6 controls the fate of sarcoma stem cells by promoting autophagy and preventing senescence. JCI Insight 2018 Sep 6;3(17). PMID: 30185659
  • Xie C, Leung YK, Chen A, Long DX et al. Differential methylation values in differential methylation analysis. Bioinformatics 2019 Apr 1;35(7):1094-1097. PMID: 30184051
  • Zhang MX, Gan W, Jing CY, Zheng SS et al. S100A11 promotes cell proliferation via P38/MAPK signaling pathway in intrahepatic cholangiocarcinoma. Mol Carcinog 2019 Jan;58(1):19-30. PMID: 30182496
  • Zeng F, Fu J, Hu F, Tang Y et al. Identification of key pathways and genes in response to trastuzumab treatment in breast cancer using bioinformatics analysis. Oncotarget 2018 Aug 14;9(63):32149-32160. PMID: 30181805
  • Wang W, Liu W et al. Integration of gene interaction information into a reweighted random survival forest approach for accurate survival prediction and survival biomarker discovery. Sci Rep 2018 Sep 4;8(1):13202. PMID: 30181543
  • Yoon S, Kim D, Kang K, Park WJ et al. TraRECo: a greedy approach based de novo transcriptome assembler with read error correction using consensus matrix. BMC Genomics 2018 Sep 4;19(1):653. PMID: 30180798
  • Caratti G, Iqbal M, Hunter L, Kim D et al. REVERBa couples the circadian clock to hepatic glucocorticoid action. J Clin Invest 2018 Oct 1;128(10):4454-4471. PMID: 30179226
  • Zupkovitz G, Kabiljo J, Martin D, Laffer S et al. Phylogenetic analysis and expression profiling of the Klotho gene family in the short-lived African killifish Nothobranchius furzeri. Dev Genes Evol 2018 Dec;228(6):255-265. PMID: 30178389
  • Srivastava PK, van Eyll J, Godard P, Mazzuferi M et al. A systems-level framework for drug discovery identifies Csf1R as an anti-epileptic drug target. Nat Commun 2018 Sep 3;9(1):3561. PMID: 30177815
  • Nwosu ZC, Battello N, Rothley M, Piorońska W et al. Liver cancer cell lines distinctly mimic the metabolic gene expression pattern of the corresponding human tumours. J Exp Clin Cancer Res 2018 Sep 3;37(1):211. PMID: 30176945
  • Matic LP, Jesus Iglesias M, Vesterlund M, Lengquist M et al. Novel Multiomics Profiling of Human Carotid Atherosclerotic Plaques and Plasma Reveals Biliverdin Reductase B as a Marker of Intraplaque Hemorrhage. JACC Basic Transl Sci 2018 Aug;3(4):464-480. PMID: 30175270
  • Dong P, Yu B, Pan L, Tian X et al. Identification of Key Genes and Pathways in Triple-Negative Breast Cancer by Integrated Bioinformatics Analysis. Biomed Res Int 2018;2018:2760918. PMID: 30175120
  • Wang BC, Lin GH, Wang B, Yan M et al. UHRF1 suppression promotes cell differentiation and reduces inflammatory reaction in anaplastic thyroid cancer. Oncotarget 2018 Aug 10;9(62):31945-31957. PMID: 30174788
  • Wu W, Wang X, Shan C, Li Y et al. Minichromosome maintenance protein 2 correlates with the malignant status and regulates proliferation and cell cycle in lung squamous cell carcinoma. Onco Targets Ther 2018;11:5025-5034. PMID: 30174440
  • Sun Z, Zhu M, Lv P, Cheng L et al. The Long Noncoding RNA Lncenc1 Maintains Naive States of Mouse ESCs by Promoting the Glycolysis Pathway. Stem Cell Reports 2018 Sep 11;11(3):741-755. PMID: 30174313
  • Jelcic I, Al Nimer F, Wang J, Lentsch V et al. Memory B Cells Activate Brain-Homing, Autoreactive CD4(+) T Cells in Multiple Sclerosis. Cell 2018 Sep 20;175(1):85-100.e23. PMID: 30173916
  • Eling N, Richard AC, Richardson S, Marioni JC et al. Correcting the Mean-Variance Dependency for Differential Variability Testing Using Single-Cell RNA Sequencing Data. Cell Syst 2018 Sep 26;7(3):284-294.e12. PMID: 30172840
  • Dong R, Ma XK, Li GW, Yang L et al. CIRCpedia v2: An Updated Database for Comprehensive Circular RNA Annotation and Expression Comparison. Genomics Proteomics Bioinformatics 2018 Aug;16(4):226-233. PMID: 30172046
  • Lau BW, Huh K, Madero-Marroquin R, De Marchi F et al. Hedgehog/GLI1 activation leads to leukemic transformation of myelodysplastic syndrome in vivo and GLI1 inhibition results in antitumor activity. Oncogene 2019 Jan;38(5):687-698. PMID: 30171262
  • Oerton E, Roberts I, Lewis PSH, Guilliams T et al. Understanding and predicting disease relationships through similarity fusion. Bioinformatics 2019 Apr 1;35(7):1213-1220. PMID: 30169824
  • Wang Z, He E, Sani K, Jagodnik KM et al. Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures. Bioinformatics 2019 Apr 1;35(7):1247-1248. PMID: 30169739
  • Babonis LS, DeBiasse MB, Francis WR, Christianson LM et al. Integrating Embryonic Development and Evolutionary History to Characterize Tentacle-Specific Cell Types in a Ctenophore. Mol Biol Evol 2018 Dec 1;35(12):2940-2956. PMID: 30169705
  • Yu SH, Vogel J, Förstner KU et al. ANNOgesic: a Swiss army knife for the RNA-seq based annotation of bacterial/archaeal genomes. Gigascience 2018 Sep 1;7(9). PMID: 30169674
  • Han B, Feng D, Yu X, Zhang Y et al. Identification and Interaction Analysis of Molecular Markers in Colorectal Cancer by Integrated Bioinformatics Analysis. Med Sci Monit 2018 Aug 31;24:6059-6069. PMID: 30168505
  • Zheng WJ, Yao M, Fang M, Wang L et al. Abnormal expression of HMGB-3 is significantly associated with malignant transformation of hepatocytes. World J Gastroenterol 2018 Aug 28;24(32):3650-3662. PMID: 30166860
  • Sun D, Liu Y, Zhang XS, Wu LY et al. CEA: Combination-based gene set functional enrichment analysis. Sci Rep 2018 Aug 30;8(1):13085. PMID: 30166636
  • Zhang Z, Pan B, Lv S, Ji Z et al. Integrating MicroRNA Expression Profiling Studies to Systematically Evaluate the Diagnostic Value of MicroRNAs in Pancreatic Cancer and Validate Their Prognostic Significance with the Cancer Genome Atlas Data. Cell Physiol Biochem 2018;49(2):678-695. PMID: 30165365
  • Zhang H, Zhang Y, Chen C, Zhu X et al. A double-negative feedback loop between DEAD-box protein DDX21 and Snail regulates epithelial-mesenchymal transition and metastasis in breast cancer. Cancer Lett 2018 Nov 28;437:67-78. PMID: 30165191
  • Guerrini V, Prideaux B, Blanc L, Bruiners N et al. Storage lipid studies in tuberculosis reveal that foam cell biogenesis is disease-specific. PLoS Pathog 2018 Aug;14(8):e1007223. PMID: 30161232
  • Cao L, Liu J, Pu J, Milne G et al. Polarized retinal pigment epithelium generates electrical signals that diminish with age and regulate retinal pathology. J Cell Mol Med 2018 Nov;22(11):5552-5564. PMID: 30160348
  • Moon S, Chandran AKN, An G, Lee C et al. Genome-wide analysis of root hair-preferential genes in rice. Rice (N Y) 2018 Aug 29;11(1):48. PMID: 30159808
  • Wang X, Lei D, Ding J, Liu S et al. A DNA-Methylated Sight on Autoimmune Inflammation Network across RA, pSS, and SLE. J Immunol Res 2018;2018:4390789. PMID: 30159339
  • Gill MK, Christova T, Zhang YY, Gregorieff A et al. A feed forward loop enforces YAP/TAZ signaling during tumorigenesis. Nat Commun 2018 Aug 29;9(1):3510. PMID: 30158528
  • Cui C, Huang C, Liu K, Xu G et al. Large-scale in silico identification of drugs exerting sex-specific effects in the heart. J Transl Med 2018 Aug 29;16(1):236. PMID: 30157868
  • Musa A, Tripathi S, Kandhavelu M, Dehmer M et al. Harnessing the biological complexity of Big Data from LINCS gene expression signatures. PLoS One 2018;13(8):e0201937. PMID: 30157183
  • Wei H, Li J, Xie M, Lei R et al. Comprehensive analysis of metastasis-related genes reveals a gene signature predicting the survival of colon cancer patients. PeerJ 2018;6:e5433. PMID: 30155352
  • Correia CN, McLoughlin KE, Nalpas NC, Magee DA et al. RNA Sequencing (RNA-Seq) Reveals Extremely Low Levels of Reticulocyte-Derived Globin Gene Transcripts in Peripheral Blood From Horses (Equus caballus) and Cattle (Bos taurus). Front Genet 2018;9:278. PMID: 30154823
  • Ota C, Ng-Blichfeldt JP, Korfei M, Alsafadi HN et al. Dynamic expression of HOPX in alveolar epithelial cells reflects injury and repair during the progression of pulmonary fibrosis. Sci Rep 2018 Aug 28;8(1):12983. PMID: 30154568
  • Kelley KW, Nakao-Inoue H, Molofsky AV, Oldham MC et al. Variation among intact tissue samples reveals the core transcriptional features of human CNS cell classes. Nat Neurosci 2018 Sep;21(9):1171-1184. PMID: 30154505
  • Larriba E, Rial E, Del Mazo J et al. The landscape of mitochondrial small non-coding RNAs in the PGCs of male mice, spermatogonia, gametes and in zygotes. BMC Genomics 2018 Aug 28;19(1):634. PMID: 30153810
  • Yamada Y, Sugawara S, Arai T, Kojima S et al. Molecular pathogenesis of renal cell carcinoma: Impact of the anti-tumor miR-29 family on gene regulation. Int J Urol 2018 Nov;25(11):953-965. PMID: 30153702
  • Chen G, Wang Q, Yang Q, Li Z et al. Circular RNAs hsa_circ_0032462, hsa_circ_0028173, hsa_circ_0005909 are predicted to promote CADM1 expression by functioning as miRNAs sponge in human osteosarcoma. PLoS One 2018;13(8):e0202896. PMID: 30153287
  • Speth C, Szabo EX, Martinho C, Collani S et al. Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes. Elife 2018 Aug 28;7. PMID: 30152752
  • Prasetyanti PR, van Hooff SR, van Herwaarden T, de Vries N et al. Capturing colorectal cancer inter-tumor heterogeneity in patient-derived xenograft (PDX) models. Int J Cancer 2019 Jan 15;144(2):366-371. PMID: 30151914
  • Goto-Yamaguchi L, Yamamoto-Ibusuki M, Yamamoto Y, Fujiki Y et al. Therapeutic predictors of neoadjuvant endocrine therapy response in estrogen receptor-positive breast cancer with reference to optimal gene expression profiling. Breast Cancer Res Treat 2018 Nov;172(2):353-362. PMID: 30151737
  • Zheng F, Wei L, Zhao L, Ni F et al. Pathway Network Analysis of Complex Diseases Based on Multiple Biological Networks. Biomed Res Int 2018;2018:5670210. PMID: 30151386
  • Poling HM, Wu D, Brown N, Baker M et al. Mechanically induced development and maturation of human intestinal organoids in vivo. Nat Biomed Eng 2018 Jun;2(6):429-442. PMID: 30151330
  • Coan M, Rampioni Vinciguerra GL, Cesaratto L, Gardenal E et al. Exploring the Role of Fallopian Ciliated Cells in the Pathogenesis of High-Grade Serous Ovarian Cancer. Int J Mol Sci 2018 Aug 24;19(9). PMID: 30149579
  • Zhang XO, Fu Y, Mou H, Xue W et al. The temporal landscape of recursive splicing during Pol II transcription elongation in human cells. PLoS Genet 2018 Aug;14(8):e1007579. PMID: 30148885
  • Liu D, Skomorovska Y, Song J, Bowler E et al. ELF3 is an antagonist of oncogenic-signalling-induced expression of EMT-TF ZEB1. Cancer Biol Ther 2019;20(1):90-100. PMID: 30148686
  • Ren X, Ji Y, Jiang X, Qi X et al. Downregulation of CYP2A6 and CYP2C8 in Tumor Tissues Is Linked to Worse Overall Survival and Recurrence-Free Survival from Hepatocellular Carcinoma. Biomed Res Int 2018;2018:5859415. PMID: 30148168
  • Ahmed D, Jaworski A, Roy D, Willmore W et al. Transcriptional Profiling Suggests Extensive Metabolic Rewiring of Human and Mouse Macrophages during Early Interferon Alpha Responses. Mediators Inflamm 2018;2018:5906819. PMID: 30147442
  • Mao Q, Zhang L, Zhang Y, Dong G et al. A network-based signature to predict the survival of non-smoking lung adenocarcinoma. Cancer Manag Res 2018;10:2683-2693. PMID: 30147367
  • Ge H, Yan Y, Wu D, Huang Y et al. Potential role of LINC00996 in colorectal cancer: a study based on data mining and bioinformatics. Onco Targets Ther 2018;11:4845-4855. PMID: 30147336
  • Bruning U, Morales-Rodriguez F, Kalucka J, Goveia J et al. Impairment of Angiogenesis by Fatty Acid Synthase Inhibition Involves mTOR Malonylation. Cell Metab 2018 Dec 4;28(6):866-880.e15. PMID: 30146486
  • Li Y, Min L, Zhang L, Hu Q et al. Promoters of Arabidopsis Casein kinase I-like 2 and 7 confer specific high-temperature response in anther. Plant Mol Biol 2018 Sep;98(1-2):33-49. PMID: 30145767
  • Wang R, Zheng D, Yehia G, Tian B et al. A compendium of conserved cleavage and polyadenylation events in mammalian genes. Genome Res 2018 Oct;28(10):1427-1441. PMID: 30143597
  • Kerpedjiev P, Abdennur N, Lekschas F, McCallum C et al. HiGlass: web-based visual exploration and analysis of genome interaction maps. Genome Biol 2018 Aug 24;19(1):125. PMID: 30143029
  • Han Z, Qu J, Zhao J, Zou X et al. Genetic Variant rs755622 Regulates Expression of the Multiple Sclerosis Severity Modifier D-Dopachrome Tautomerase in a Sex-Specific Way. Biomed Res Int 2018;2018:8285653. PMID: 30140701
  • Li MX, Jin LT, Wang TJ, Feng YJ et al. Identification of potential core genes in triple negative breast cancer using bioinformatics analysis. Onco Targets Ther 2018;11:4105-4112. PMID: 30140156
  • Chan HL, Beckedorff F, Zhang Y, Garcia-Huidobro J et al. Polycomb complexes associate with enhancers and promote oncogenic transcriptional programs in cancer through multiple mechanisms. Nat Commun 2018 Aug 23;9(1):3377. PMID: 30139998
  • Hayashi Y, Zhang Y, Yokota A, Yan X et al. Pathobiological Pseudohypoxia as a Putative Mechanism Underlying Myelodysplastic Syndromes. Cancer Discov 2018 Nov;8(11):1438-1457. PMID: 30139811
  • Ye Y, Li SL, Wang SY et al. Construction and analysis of mRNA, miRNA, lncRNA, and TF regulatory networks reveal the key genes associated with prostate cancer. PLoS One 2018;13(8):e0198055. PMID: 30138363
  • Xu W, Rao Q, An Y, Li M et al. Identification of biomarkers for Barcelona Clinic Liver Cancer staging and overall survival of patients with hepatocellular carcinoma. PLoS One 2018;13(8):e0202763. PMID: 30138346
  • Li S, Xu C, Fu Y, Lei PJ et al. DYRK1A interacts with histone acetyl transferase p300 and CBP and localizes to enhancers. Nucleic Acids Res 2018 Nov 30;46(21):11202-11213. PMID: 30137413
  • Toro-Domínguez D, Martorell-Marugán J, López-Domínguez R, García-Moreno A et al. ImaGEO: integrative gene expression meta-analysis from GEO database. Bioinformatics 2019 Mar 1;35(5):880-882. PMID: 30137226
  • Smith CC, Beckermann KE, Bortone DS, De Cubas AA et al. Endogenous retroviral signatures predict immunotherapy response in clear cell renal cell carcinoma. J Clin Invest 2018 Nov 1;128(11):4804-4820. PMID: 30137025
  • Sun C, Huang S, Ju W, Hou Y et al. Elevated DSN1 expression is associated with poor survival in patients with hepatocellular carcinoma. Hum Pathol 2018 Nov;81:113-120. PMID: 30136646
  • Wang MY, Liu XY, Shi L, Liu JL et al. Functional analysis of UGT201D3 associated with abamectin resistance in Tetranychus cinnabarinus (Boisduval). Insect Sci 2020 Apr;27(2):276-291. PMID: 30136378
  • Than NG, Romero R, Tarca AL, Kekesi KA et al. Integrated Systems Biology Approach Identifies Novel Maternal and Placental Pathways of Preeclampsia. Front Immunol 2018;9:1661. PMID: 30135684
  • Ordovas-Montanes J, Dwyer DF, Nyquist SK, Buchheit KM et al. Allergic inflammatory memory in human respiratory epithelial progenitor cells. Nature 2018 Aug;560(7720):649-654. PMID: 30135581
  • Scavuzzo MA, Hill MC, Chmielowiec J, Yang D et al. Endocrine lineage biases arise in temporally distinct endocrine progenitors during pancreatic morphogenesis. Nat Commun 2018 Aug 22;9(1):3356. PMID: 30135482
  • Sweeney JG, Liang J, Antonopoulos A, Giovannone N et al. Loss of GCNT2/I-branched glycans enhances melanoma growth and survival. Nat Commun 2018 Aug 22;9(1):3368. PMID: 30135430
  • Mahadevappa R, Neves H, Yuen SM, Jameel M et al. DNA Replication Licensing Protein MCM10 Promotes Tumor Progression and Is a Novel Prognostic Biomarker and Potential Therapeutic Target in Breast Cancer. Cancers (Basel) 2018 Aug 22;10(9). PMID: 30135378
  • Sontake V, Kasam RK, Sinner D, Korfhagen TR et al. Wilms' tumor 1 drives fibroproliferation and myofibroblast transformation in severe fibrotic lung disease. JCI Insight 2018 Aug 23;3(16). PMID: 30135315
  • Bao J, Perez CJ, Kim J, Zhang H et al. Deficient LRRC8A-dependent volume-regulated anion channel activity is associated with male infertility in mice. JCI Insight 2018 Aug 23;3(16). PMID: 30135305
  • Campbell KM, Lin T, Zolkind P, Barnell EK et al. Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity. Cell Rep 2018 Aug 21;24(8):2167-2178. PMID: 30134176
  • Li CW, Jheng BR, Chen BS et al. Investigating genetic-and-epigenetic networks, and the cellular mechanisms occurring in Epstein-Barr virus-infected human B lymphocytes via big data mining and genome-wide two-sided NGS data identification. PLoS One 2018;13(8):e0202537. PMID: 30133498
  • Rao X, Chen X, Shen H, Ma Q et al. Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum). Plant Biotechnol J 2019 Mar;17(3):580-593. PMID: 30133139
  • Sun G, Li Y, Peng Y, Lu D et al. Identification of a five-gene signature with prognostic value in colorectal cancer. J Cell Physiol 2019 Apr;234(4):3829-3836. PMID: 30132881
  • Castagnoli L, Iorio E, Dugo M, Koschorke A et al. Intratumor lactate levels reflect HER2 addiction status in HER2-positive breast cancer. J Cell Physiol 2019 Feb;234(2):1768-1779. PMID: 30132876
  • Jiao N, Qi Y, Lv C, Li H et al. Identification of protein complexes associated with myocardial infarction using a bioinformatics approach. Mol Med Rep 2018 Oct;18(4):3569-3576. PMID: 30132549
  • Zhou L, Tang H, Wang F, Chen L et al. Bioinformatics analyses of significant genes, related pathways and candidate prognostic biomarkers in glioblastoma. Mol Med Rep 2018 Nov;18(5):4185-4196. PMID: 30132538
  • Zhang Z, Fang C, Wang Y, Zhang J et al. COL1A1: A potential therapeutic target for colorectal cancer expressing wild-type or mutant KRAS. Int J Oncol 2018 Nov;53(5):1869-1880. PMID: 30132520
  • Liu LM, Xiong DD, Lin P, Yang H et al. DNA topoisomerase 1 and 2A function as oncogenes in liver cancer and may be direct targets of nitidine chloride. Int J Oncol 2018 Nov;53(5):1897-1912. PMID: 30132517
  • Pelekanou V, Notas G, Athanasouli P, Alexakis K et al. BCMA (TNFRSF17) Induces APRIL and BAFF Mediated Breast Cancer Cell Stemness. Front Oncol 2018;8:301. PMID: 30131941
  • Guo J, Wang Q, Liu Y, Lu L et al. Association of expression of ZNF606 gene from monocytes with the risk of coronary artery disease. Clin Biochem 2018 Sep;60:44-51. PMID: 30130524
  • Chen WL, Wang XK, Wu W et al. Identification of ITGA3 as an Oncogene in Human Tongue Cancer via Integrated Bioinformatics Analysis. Curr Med Sci 2018 Aug;38(4):714-720. PMID: 30128883
  • Ji J, Lv H, Yang L, Fang Z et al. Genome-wide identification and characterization of non-specific lipid transfer proteins in cabbage. PeerJ 2018;6:e5379. PMID: 30128186
  • Hu X, Qiu Z, Zeng J, Xiao T et al. A novel long non-coding RNA, AC012456.4, as a valuable and independent prognostic biomarker of survival in oral squamous cell carcinoma. PeerJ 2018;6:e5307. PMID: 30128179
  • Li N, Zhao J, Ma Y, Roy B et al. Dissecting the expression landscape of mitochondrial genes in lung squamous cell carcinoma and lung adenocarcinoma. Oncol Lett 2018 Sep;16(3):3992-4000. PMID: 30128019
  • Cai X, Yang X, Jin C, Li L et al. Identification and verification of differentially expressed microRNAs and their target genes for the diagnosis of esophageal cancer. Oncol Lett 2018 Sep;16(3):3642-3650. PMID: 30127973
  • Meng C, Shen X, Jiang W et al. Potential biomarkers of HCC based on gene expression and DNA methylation profiles. Oncol Lett 2018 Sep;16(3):3183-3192. PMID: 30127913
  • Xu B, Chen Q, Yue C, Lan L et al. Prognostic value of IL-6R mRNA in lung adenocarcinoma and squamous cell carcinoma. Oncol Lett 2018 Sep;16(3):2935-2948. PMID: 30127882
  • Zou J, Huang RY, Jiang FN, Chen DX et al. Overexpression of TPX2 is associated with progression and prognosis of prostate cancer. Oncol Lett 2018 Sep;16(3):2823-2832. PMID: 30127868
  • Gutiérrez-Avilés D, Giráldez R, Gil-Cumbreras FJ, Rubio-Escudero C et al. TRIQ: a new method to evaluate triclusters. BioData Min 2018;11:15. PMID: 30127855
  • Chang WA, Tsai MJ, Jian SF, Sheu CC et al. Systematic analysis of transcriptomic profiles of COPD airway epithelium using next-generation sequencing and bioinformatics. Int J Chron Obstruct Pulmon Dis 2018;13:2387-2398. PMID: 30127601
  • Jiang P, Gu S, Pan D, Fu J et al. Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response. Nat Med 2018 Oct;24(10):1550-1558. PMID: 30127393
  • Ashi MO, Srour N, Lambert JM, Marchalot A et al. Physiological and druggable skipping of immunoglobulin variable exons in plasma cells. Cell Mol Immunol 2019 Oct;16(10):810-819. PMID: 30127381
  • Faiz A, Heijink IH, Vermeulen CJ, Guryev V et al. Cigarette smoke exposure decreases CFLAR expression in the bronchial epithelium, augmenting susceptibility for lung epithelial cell death and DAMP release. Sci Rep 2018 Aug 20;8(1):12426. PMID: 30127367
  • Musi N, Valentine JM, Sickora KR, Baeuerle E et al. Tau protein aggregation is associated with cellular senescence in the brain. Aging Cell 2018 Dec;17(6):e12840. PMID: 30126037
  • Nicolet BP, Engels S, Aglialoro F, van den Akker E et al. Circular RNA expression in human hematopoietic cells is widespread and cell-type specific. Nucleic Acids Res 2018 Sep 19;46(16):8168-8180. PMID: 30124921
  • Liang JW, Fang ZY, Huang Y, Liuyang ZY et al. Application of Weighted Gene Co-Expression Network Analysis to Explore the Key Genes in Alzheimer's Disease. J Alzheimers Dis 2018;65(4):1353-1364. PMID: 30124448
  • Uchuya-Castillo J, Aznar N, Frau C, Martinez P et al. Increased expression of the thyroid hormone nuclear receptor TRα1 characterizes intestinal tumors with high Wnt activity. Oncotarget 2018 Jul 24;9(57):30979-30996. PMID: 30123421
  • Xiang Z, Huang X, Wang J, Zhang J et al. Cross-Database Analysis Reveals Sensitive Biomarkers for Combined Therapy for ERBB2+ Gastric Cancer. Front Pharmacol 2018;9:861. PMID: 30123134
  • Xue H, Li J, Xie H, Wang Y et al. Review of Drug Repositioning Approaches and Resources. Int J Biol Sci 2018;14(10):1232-1244. PMID: 30123072
  • Tung MC, Wen YC, Wang SS, Lin YW et al. Dopamine receptor D2 genetic variations is associated with the risk and clinicopathological variables of urothelial cell carcinoma in a Taiwanese population. Int J Med Sci 2018;15(11):1187-1193. PMID: 30123056
  • Chen YJ, Chang WA, Wu LY, Hsu YL et al. Systematic Analysis of Differential Expression Profile in Rheumatoid Arthritis Chondrocytes Using Next-Generation Sequencing and Bioinformatics Approaches. Int J Med Sci 2018;15(11):1129-1142. PMID: 30123050
  • Eilertsen IA, Sveen A, Strømme JM, Skotheim RI et al. Alternative splicing expands the prognostic impact of KRAS in microsatellite stable primary colorectal cancer. Int J Cancer 2019 Feb 15;144(4):841-847. PMID: 30121958
  • Zhang L, Li Y, Ye X, Bian L et al. Bioinformatics Analysis of Microarray Profiling Identifies That the miR-203-3p Target Ppp2ca Aggravates Seizure Activity in Mice. J Mol Neurosci 2018 Sep;66(1):146-154. PMID: 30121817
  • Miyashita N, Horie M, Suzuki HI, Yoshihara M et al. An Integrative Analysis of Transcriptome and Epigenome Features of ASCL1-Positive Lung Adenocarcinomas. J Thorac Oncol 2018 Nov;13(11):1676-1691. PMID: 30121393
  • Qiao F, Li N, Li W et al. Integrative Bioinformatics Analysis Reveals Potential Long Non-Coding RNA Biomarkers and Analysis of Function in Non-Smoking Females with Lung Cancer. Med Sci Monit 2018 Aug 18;24:5771-5778. PMID: 30120911
  • Zhang N, Zeng Z, Li S, Wang F et al. High expression of EZH2 as a marker for the differential diagnosis of malignant and benign myogenic tumors. Sci Rep 2018 Aug 17;8(1):12331. PMID: 30120321
  • Xu P, Zhang G, Hou S, Sha LG et al. MAPK8 mediates resistance to temozolomide and apoptosis of glioblastoma cells through MAPK signaling pathway. Biomed Pharmacother 2018 Oct;106:1419-1427. PMID: 30119215
  • Xiong Y, Wang K, Zhou H, Peng L et al. Profiles of immune infiltration in colorectal cancer and their clinical significant: A gene expression-based study. Cancer Med 2018 Sep;7(9):4496-4508. PMID: 30117315
  • Kenn M, Cacsire Castillo-Tong D, Singer CF, Cibena M et al. Co-expressed genes enhance precision of receptor status identification in breast cancer patients. Breast Cancer Res Treat 2018 Nov;172(2):313-326. PMID: 30117066
  • Li X, Fu Y, Wang X, DeMeo DL et al. Detecting Differentially Variable MicroRNAs via Model-Based Clustering. Int J Genomics 2018;2018:6591634. PMID: 30116730
  • Zhang J, Liu X, Yu G, Liu L et al. UBE2C Is a Potential Biomarker of Intestinal-Type Gastric Cancer With Chromosomal Instability. Front Pharmacol 2018;9:847. PMID: 30116193
  • Zhao J, Lv T, Quan J, Zhao W et al. Identification of target genes in cardiomyopathy with fibrosis and cardiac remodeling. J Biomed Sci 2018 Aug 16;25(1):63. PMID: 30115125
  • Gao LJ, Zhao X, Li JG, Xu Y et al. [Bioinformatics analysis of genes related to pathogenesis of major depression disorder]. Sheng Li Xue Bao 2018 Aug 25;70(4):361-368. PMID: 30112561
  • Chen X, Cai S, Li B, Zhang X et al. Identification of key genes and pathways for esophageal squamous cell carcinoma by bioinformatics analysis. Exp Ther Med 2018 Aug;16(2):1121-1130. PMID: 30112053
  • Gong MT, Ye SD, Lv WW, He K et al. Comprehensive integrated analysis of gene expression datasets identifies key anti-cancer targets in different stages of breast cancer. Exp Ther Med 2018 Aug;16(2):802-810. PMID: 30112036
  • Slager J, Aprianto R, Veening JW et al. Deep genome annotation of the opportunistic human pathogen Streptococcus pneumoniae D39. Nucleic Acids Res 2018 Nov 2;46(19):9971-9989. PMID: 30107613
  • Nguyen TT, Grimm SA, Bushel PR, Li J et al. Revealing a human p53 universe. Nucleic Acids Res 2018 Sep 19;46(16):8153-8167. PMID: 30107566
  • Liang S, Zhang JM, Lv ZT, Cheng P et al. Identification of Skt11-regulated genes in chondrocytes by integrated bioinformatics analysis. Gene 2018 Nov 30;677:340-348. PMID: 30107230
  • Liu J, Wang Q, Zhang R, Zhang C et al. Identification of LINC01279 as a cell cycle‑associated long non‑coding RNA in endometriosis with GBA analysis. Mol Med Rep 2018 Oct;18(4):3850-3858. PMID: 30106115
  • Zhang L, Qin H, Wu Z, Chen W et al. Pathogenic genes related to the progression of actinic keratoses to cutaneous squamous cell carcinoma. Int J Dermatol 2018 Oct;57(10):1208-1217. PMID: 30105812
  • Zhao X, Zhou LL, Li X, Ni J et al. Overexpression of KIF20A confers malignant phenotype of lung adenocarcinoma by promoting cell proliferation and inhibiting apoptosis. Cancer Med 2018 Sep;7(9):4678-4689. PMID: 30105795
  • McCorry AM, Loughrey MB, Longley DB, Lawler M et al. Epithelial-to-mesenchymal transition signature assessment in colorectal cancer quantifies tumour stromal content rather than true transition. J Pathol 2018 Dec;246(4):422-426. PMID: 30105762
  • Lombardo MV, Auyeung B, Pramparo T, Quartier A et al. Sex-specific impact of prenatal androgens on social brain default mode subsystems. Mol Psychiatry 2020 Sep;25(9):2175-2188. PMID: 30104728
  • Hong H, Chai HH, Nam K, Lim D et al. Non-Coding Transcriptome Maps across Twenty Tissues of the Korean Black Chicken, Yeonsan Ogye. Int J Mol Sci 2018 Aug 10;19(8). PMID: 30103450
  • Wu Y, Wang G et al. Machine Learning Based Toxicity Prediction: From Chemical Structural Description to Transcriptome Analysis. Int J Mol Sci 2018 Aug 10;19(8). PMID: 30103448
  • Ur Rehman Z, Khan FA, Farmanullah, Talpur HS et al. Transcriptome profiling of anti-müllerian hormone treated preantral/small antral mouse ovary follicles. Oncotarget 2018 Jul 13;9(54):30253-30267. PMID: 30100987
  • Dong Z, Wang J, Zhan T, Xu S et al. Identification of prognostic risk factors for esophageal adenocarcinoma using bioinformatics analysis. Onco Targets Ther 2018;11:4327-4337. PMID: 30100738
  • Pavithra D, Sabitha K, Rajkumar T et al. Identification of small molecule inhibitors for differentially expressed miRNAs in gastric cancer. Comput Biol Chem 2018 Dec;77:442-454. PMID: 30100328
  • Lee JS, Adler L, Karathia H, Carmel N et al. Urea Cycle Dysregulation Generates Clinically Relevant Genomic and Biochemical Signatures. Cell 2018 Sep 6;174(6):1559-1570.e22. PMID: 30100185
  • Huysmans M, Buono RA, Skorzinski N, Radio MC et al. NAC Transcription Factors ANAC087 and ANAC046 Control Distinct Aspects of Programmed Cell Death in the Arabidopsis Columella and Lateral Root Cap. Plant Cell 2018 Sep;30(9):2197-2213. PMID: 30099383
  • Diao Y, Rahman MF, Vyatkin Y, Azatyan A et al. Identification of novel GLI1 target genes and regulatory circuits in human cancer cells. Mol Oncol 2018 Oct;12(10):1718-1734. PMID: 30098229
  • Liu JY, Jiang L, Liu JJ, He T et al. AEBP1 promotes epithelial-mesenchymal transition of gastric cancer cells by activating the NF-κB pathway and predicts poor outcome of the patients. Sci Rep 2018 Aug 10;8(1):11955. PMID: 30097586
  • McDowell IC, Barrera A, D'Ippolito AM, Vockley CM et al. Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding. Genome Res 2018 Sep;28(9):1272-1284. PMID: 30097539
  • Lai CF, Chen YT, Gu J, Nerbonne JM et al. Circulating long noncoding RNA DKFZP434I0714 predicts adverse cardiovascular outcomes in patients with end-stage renal disease. Int J Cardiol 2019 Feb 15;277:212-219. PMID: 30097337
  • Fiziev P, Ernst J et al. ChromTime: modeling spatio-temporal dynamics of chromatin marks. Genome Biol 2018 Aug 10;19(1):109. PMID: 30097049
  • Xiao G, Li Y, Wang M, Li X et al. FBXW7 suppresses epithelial-mesenchymal transition and chemo-resistance of non-small-cell lung cancer cells by targeting snai1 for ubiquitin-dependent degradation. Cell Prolif 2018 Oct;51(5):e12473. PMID: 30094882
  • Suzuki M, Liao W, Wos F, Johnston AD et al. Whole-genome bisulfite sequencing with improved accuracy and cost. Genome Res 2018 Sep;28(9):1364-1371. PMID: 30093547
  • Zhou T, Xie X, Li M, Shi J et al. Rat BodyMap transcriptomes reveal unique circular RNA features across tissue types and developmental stages. RNA 2018 Nov;24(11):1443-1456. PMID: 30093490
  • Lassiter DG, Sjögren RJO, Gabriel BM, Krook A et al. AMPK activation negatively regulates GDAP1, which influences metabolic processes and circadian gene expression in skeletal muscle. Mol Metab 2018 Oct;16:12-23. PMID: 30093355
  • Xiong DD, Dang YW, Lin P, Wen DY et al. A circRNA-miRNA-mRNA network identification for exploring underlying pathogenesis and therapy strategy of hepatocellular carcinoma. J Transl Med 2018 Aug 9;16(1):220. PMID: 30092792
  • Kim YR, Kim D, Kim SY et al. Prediction of Acquired Taxane Resistance Using a Personalized Pathway-Based Machine Learning Method. Cancer Res Treat 2019 Apr;51(2):672-684. PMID: 30092623
  • Lu W, Li G et al. Identification of Key Genes and Pathways in Rheumatoid Arthritis Gene Expression Profile by Bioinformatics. Acta Reumatol Port 2018 Apr-Jun;43(2):109-131. PMID: 30091955
  • La Manno G, Soldatov R, Zeisel A, Braun E et al. RNA velocity of single cells. Nature 2018 Aug;560(7719):494-498. PMID: 30089906
  • Obeidat M, Dvorkin-Gheva A, Li X, Bossé Y et al. The Overlap of Lung Tissue Transcriptome of Smoke Exposed Mice with Human Smoking and COPD. Sci Rep 2018 Aug 8;8(1):11881. PMID: 30089872
  • Sawada Y, Honda T, Nakamizo S, Otsuka A et al. Resolvin E1 attenuates murine psoriatic dermatitis. Sci Rep 2018 Aug 8;8(1):11873. PMID: 30089836
  • Wiesel Y, Sabath N, Shalgi R et al. DoGFinder: a software for the discovery and quantification of readthrough transcripts from RNA-seq. BMC Genomics 2018 Aug 8;19(1):597. PMID: 30089468
  • Amaral ML, Erikson GA, Shokhirev MN et al. BART: bioinformatics array research tool. BMC Bioinformatics 2018 Aug 8;19(1):296. PMID: 30089462
  • Chen YT, Yao JN, Qin YT, Hu K et al. Biological role and clinical value of miR-99a-5p in head and neck squamous cell carcinoma (HNSCC): A bioinformatics-based study. FEBS Open Bio 2018 Aug;8(8):1280-1298. PMID: 30087832
  • Xu B, Liu Y, Lin C, Dong J et al. Reconstruction of the Protein-Protein Interaction Network for Protein Complexes Identification by Walking on the Protein Pair Fingerprints Similarity Network. Front Genet 2018;9:272. PMID: 30087694
  • Danielsen ET, Olsen AK, Coskun M, Nonboe AW et al. Intestinal regulation of suppression of tumorigenicity 14 (ST14) and serine peptidase inhibitor, Kunitz type -1 (SPINT1) by transcription factor CDX2. Sci Rep 2018 Aug 7;8(1):11813. PMID: 30087389
  • Yang L, Gao Q, Wu X, Feng F et al. Long noncoding RNA HEGBC promotes tumorigenesis and metastasis of gallbladder cancer via forming a positive feedback loop with IL-11/STAT3 signaling pathway. J Exp Clin Cancer Res 2018 Aug 7;37(1):186. PMID: 30086773
  • Cun J, Yang Q et al. Bioinformatics-based interaction analysis of miR-92a-3p and key genes in tamoxifen-resistant breast cancer cells. Biomed Pharmacother 2018 Nov;107:117-128. PMID: 30086458
  • Obst J, Mancuso R, Simon E, Gomez-Nicola D et al. PD-1 deficiency is not sufficient to induce myeloid mobilization to the brain or alter the inflammatory profile during chronic neurodegeneration. Brain Behav Immun 2018 Oct;73:708-716. PMID: 30086399
  • Godini R, Fallahi H, Ebrahimie E et al. Network analysis of inflammatory responses to sepsis by neutrophils and peripheral blood mononuclear cells. PLoS One 2018;13(8):e0201674. PMID: 30086151
  • Ouahed J, Gordon W, Canavan JB, Zhou H et al. Mucosal Gene Expression in Pediatric and Adult Patients With Ulcerative Colitis Permits Modeling of Ideal Biopsy Collection Strategy for Transcriptomic Analysis. Inflamm Bowel Dis 2018 Nov 29;24(12):2565-2578. PMID: 30085215
  • Zhou W, Triche TJ Jr, Laird PW, Shen H et al. SeSAMe: reducing artifactual detection of DNA methylation by Infinium BeadChips in genomic deletions. Nucleic Acids Res 2018 Nov 16;46(20):e123. PMID: 30085201
  • Castillo MC, Coego A, Costa-Broseta Á, León J et al. Nitric oxide responses in Arabidopsis hypocotyls are mediated by diverse phytohormone pathways. J Exp Bot 2018 Oct 12;69(21):5265-5278. PMID: 30085082
  • Zhang P, Hung LH, Lloyd W, Yeung KY et al. Hot-starting software containers for STAR aligner. Gigascience 2018 Aug 1;7(8). PMID: 30085034
  • Harraz OF, Longden TA, Hill-Eubanks D, Nelson MT et al. PIP(2) depletion promotes TRPV4 channel activity in mouse brain capillary endothelial cells. Elife 2018 Aug 7;7. PMID: 30084828
  • Bae SC, Lee YH et al. Meta-analysis of gene expression profiles of peripheral blood cells in systemic lupus erythematosus. Cell Mol Biol (Noisy-le-grand) 2018 Jul 30;64(10):40-49. PMID: 30084812
  • Zhang DY, Zou XJ, Cao CH, Zhang T et al. Identification and Functional Characterization of Long Non-coding RNA MIR22HG as a Tumor Suppressor for Hepatocellular Carcinoma. Theranostics 2018;8(14):3751-3765. PMID: 30083257
  • Abdeen SK, Ben-David U, Shweiki A, Maly B et al. Somatic loss of WWOX is associated with TP53 perturbation in basal-like breast cancer. Cell Death Dis 2018 Aug 6;9(8):832. PMID: 30082886
  • Ludlow AT, Wong MS, Robin JD, Batten K et al. NOVA1 regulates hTERT splicing and cell growth in non-small cell lung cancer. Nat Commun 2018 Aug 6;9(1):3112. PMID: 30082712
  • Puttipanyalears C, Arayataweegool A, Chalertpet K, Rattanachayoto P et al. TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma. BMC Cancer 2018 Aug 6;18(1):786. PMID: 30081853
  • Bick JT, Flöter VL, Robinson MD, Bauersachs S et al. Small RNA-seq analysis of single porcine blastocysts revealed that maternal estradiol-17beta exposure does not affect miRNA isoform (isomiR) expression. BMC Genomics 2018 Aug 6;19(1):590. PMID: 30081835
  • Jopek K, Tyczewska M, Ramanjaneya M, Szyszka M et al. Effect of ACTH and hCG on the Expression of Gonadotropin-Inducible Ovarian Transcription Factor 1 (Giot1) Gene in the Rat Adrenal Gland. Int J Mol Sci 2018 Aug 3;19(8). PMID: 30081524
  • Liu W, Li L, He Y, Cai S et al. Functional Annotation of Caenorhabditis elegans Genes by Analysis of Gene Co-Expression Networks. Biomolecules 2018 Aug 3;8(3). PMID: 30081521
  • Atkinson EG, Audesse AJ, Palacios JA, Bobo DM et al. No Evidence for Recent Selection at FOXP2 among Diverse Human Populations. Cell 2018 Sep 6;174(6):1424-1435.e15. PMID: 30078708
  • Cusanovich DA, Hill AJ, Aghamirzaie D, Daza RM et al. A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility. Cell 2018 Aug 23;174(5):1309-1324.e18. PMID: 30078704
  • Chang HH, Cheng YC, Tsai WC, Tsao MJ et al. Pyr3 Induces Apoptosis and Inhibits Migration in Human Glioblastoma Cells. Cell Physiol Biochem 2018;48(4):1694-1702. PMID: 30078005
  • Zheng W, Chen Y, Chen H, Xiao W et al. Identification of key target genes and biological pathways in multiple sclerosis brains using microarray data obtained from the Gene Expression Omnibus database. Neurol Res 2018 Oct;40(10):883-891. PMID: 30074468
  • Ifie E, Russell MA, Dhayal S, Leete P et al. Unexpected subcellular distribution of a specific isoform of the Coxsackie and adenovirus receptor, CAR-SIV, in human pancreatic beta cells. Diabetologia 2018 Nov;61(11):2344-2355. PMID: 30074059
  • Coté D, Eustace A, Toomey S, Cremona M et al. Germline single nucleotide polymorphisms in ERBB3 and BARD1 genes result in a worse relapse free survival response for HER2-positive breast cancer patients treated with adjuvant based docetaxel, carboplatin and trastuzumab (TCH). PLoS One 2018;13(8):e0200996. PMID: 30071039
  • Tu Y, Fan G, Xi H, Zeng T et al. Identification of candidate aberrantly methylated and differentially expressed genes in thyroid cancer. J Cell Biochem 2018 Nov;119(11):8797-8806. PMID: 30069928
  • Gupta A, Ajith A, Singh S, Panday RK et al. PAK2-c-Myc-PKM2 axis plays an essential role in head and neck oncogenesis via regulating Warburg effect. Cell Death Dis 2018 Aug 1;9(8):825. PMID: 30068946
  • Sasaki E, Frommlet F, Nordborg M et al. GWAS with Heterogeneous Data: Estimating the Fraction of Phenotypic Variation Mediated by Gene Expression Data. G3 (Bethesda) 2018 Aug 30;8(9):3059-3068. PMID: 30068524
  • Wu L, Yao Q, Lin P, Li Y et al. Comparative transcriptomics reveals specific responding genes associated with atherosclerosis in rabbit and mouse models. PLoS One 2018;13(8):e0201618. PMID: 30067832
  • Liu J, Liu Z, Liu Q, Li L et al. CLEC3B is downregulated and inhibits proliferation in clear cell renal cell carcinoma. Oncol Rep 2018 Oct;40(4):2023-2035. PMID: 30066941
  • Chen X, Li D, Wang N, Yang M et al. Bioinformatic analysis suggests that UGT2B15 activates the Hippo‑YAP signaling pathway leading to the pathogenesis of gastric cancer. Oncol Rep 2018 Oct;40(4):1855-1862. PMID: 30066917
  • Kim IW, Kim JH, Han N, Kim S et al. Gene expression profiles for predicting antibody‑mediated kidney allograft rejection: Analysis of GEO datasets. Int J Mol Med 2018 Oct;42(4):2303-2311. PMID: 30066908
  • Gan BL, He RQ, Zhang Y, Wei DM et al. Downregulation of HOXA3 in lung adenocarcinoma and its relevant molecular mechanism analysed by RT-qPCR, TCGA and in silico analysis. Int J Oncol 2018 Oct;53(4):1557-1579. PMID: 30066858
  • Qu W, Shi S, Sun L, Zhang F et al. Construction of a microRNA‑associated feed‑forward loop network that identifies regulators of cardiac hypertrophy and acute myocardial infarction. Int J Mol Med 2018 Oct;42(4):2062-2070. PMID: 30066833
  • Wang XB, Cui NH, Liu XN, Ma JF et al. Identification of DAPK1 Promoter Hypermethylation as a Biomarker for Intra-Epithelial Lesion and Cervical Cancer: A Meta-Analysis of Published Studies, TCGA, and GEO Datasets. Front Genet 2018;9:258. PMID: 30065752
  • Noble KV, Reyzer ML, Barth JL, McDonald H et al. Use of Proteomic Imaging Coupled With Transcriptomic Analysis to Identify Biomolecules Responsive to Cochlear Injury. Front Mol Neurosci 2018;11:243. PMID: 30065626
  • Raje HS, Lieux ME, DiMario PJ et al. R1 retrotransposons in the nucleolar organizers of Drosophila melanogaster are transcribed by RNA polymerase I upon heat shock. Transcription 2018;9(5):273-285. PMID: 30063880
  • Ferguson LB, Zhang L, Kircher D, Wang S et al. Dissecting Brain Networks Underlying Alcohol Binge Drinking Using a Systems Genomics Approach. Mol Neurobiol 2019 Apr;56(4):2791-2810. PMID: 30062672
  • Bradley A, Hashimoto T, Ono M et al. Elucidating T Cell Activation-Dependent Mechanisms for Bifurcation of Regulatory and Effector T Cell Differentiation by Multidimensional and Single-Cell Analysis. Front Immunol 2018;9:1444. PMID: 30061879
  • Chang P, Wang F, Li Y et al. Hsa_circ_0000673 is down-regulated in gastric cancer and inhibits the proliferation and invasion of tumor cells by targetting miR-532-5p. Biosci Rep 2018 Oct 31;38(5). PMID: 30061181
  • Tie CH, Fernandes L, Conde L, Robbez-Masson L et al. KAP1 regulates endogenous retroviruses in adult human cells and contributes to innate immune control. EMBO Rep 2018 Oct;19(10). PMID: 30061100
  • Kaiser VB, Semple CA et al. Chromatin loop anchors are associated with genome instability in cancer and recombination hotspots in the germline. Genome Biol 2018 Jul 30;19(1):101. PMID: 30060743
  • Gong Z, Ma Q, Wang X, Cai Q et al. A Herpes Simplex Virus Thymidine Kinase-Induced Mouse Model of Hepatocellular Carcinoma Associated with Up-Regulated Immune-Inflammatory-Related Signals. Genes (Basel) 2018 Jul 27;9(8). PMID: 30060537
  • Maugeri A, Mazzone MG, Giuliano F, Vinciguerra M et al. Curcumin Modulates DNA Methyltransferase Functions in a Cellular Model of Diabetic Retinopathy. Oxid Med Cell Longev 2018;2018:5407482. PMID: 30057682
  • Afshar S, Afshar S, Warden E, Manochehri H et al. Application of Artificial Neural Network in miRNA Biomarker Selection and Precise Diagnosis of Colorectal Cancer. Iran Biomed J 2019 May;23(3):175-83. PMID: 30056689
  • Brock EJ, Ji K, Shah S, Mattingly RR et al. In Vitro Models for Studying Invasive Transitions of Ductal Carcinoma In Situ. J Mammary Gland Biol Neoplasia 2019 Mar;24(1):1-15. PMID: 30056557
  • Shen J, Cao B, Wang Y, Ma C et al. Hippo component YAP promotes focal adhesion and tumour aggressiveness via transcriptionally activating THBS1/FAK signalling in breast cancer. J Exp Clin Cancer Res 2018 Jul 28;37(1):175. PMID: 30055645
  • Ubels J, Sonneveld P, van Beers EH, Broijl A et al. Predicting treatment benefit in multiple myeloma through simulation of alternative treatment effects. Nat Commun 2018 Jul 27;9(1):2943. PMID: 30054467
  • Li S, Li Y, Chen B, Zhao J et al. exoRBase: a database of circRNA, lncRNA and mRNA in human blood exosomes. Nucleic Acids Res 2018 Jan 4;46(D1):D106-D112. PMID: 30053265
  • Laperle J, Hébert-Deschamps S, Raby J, de Lima Morais DA et al. The epiGenomic Efficient Correlator (epiGeEC) tool allows fast comparison of user datasets with thousands of public epigenomic datasets. Bioinformatics 2019 Feb 15;35(4):674-676. PMID: 30052804
  • Benhadjeba S, Edjekouane L, Sauvé K, Carmona E et al. Feedback control of the CXCR7/CXCL11 chemokine axis by estrogen receptor α in ovarian cancer. Mol Oncol 2018 Oct;12(10):1689-1705. PMID: 30051594
  • Scarpa JR, Jiang P, Gao VD, Fitzpatrick K et al. Cross-species systems analysis identifies gene networks differentially altered by sleep loss and depression. Sci Adv 2018 Jul;4(7):eaat1294. PMID: 30050989
  • Bagnoli JW, Ziegenhain C, Janjic A, Wange LE et al. Sensitive and powerful single-cell RNA sequencing using mcSCRB-seq. Nat Commun 2018 Jul 26;9(1):2937. PMID: 30050112
  • Sulaiman A, McGarry S, Lam KM, El-Sahli S et al. Co-inhibition of mTORC1, HDAC and ESR1α retards the growth of triple-negative breast cancer and suppresses cancer stem cells. Cell Death Dis 2018 Jul 26;9(8):815. PMID: 30050079
  • Weber A, Schwarz SC, Tost J, Trümbach D et al. Epigenome-wide DNA methylation profiling in Progressive Supranuclear Palsy reveals major changes at DLX1. Nat Commun 2018 Jul 26;9(1):2929. PMID: 30050033
  • Sanders MA, Chew E, Flensburg C, Zeilemaker A et al. MBD4 guards against methylation damage and germ line deficiency predisposes to clonal hematopoiesis and early-onset AML. Blood 2018 Oct 4;132(14):1526-1534. PMID: 30049810
  • Lu GA, Zhao Y, Yang H, Lan A et al. Death of new microRNA genes in Drosophila via gradual loss of fitness advantages. Genome Res 2018 Sep;28(9):1309-1318. PMID: 30049791
  • Liao YX, Zhang ZP, Zhao J, Liu JP et al. Effects of Fibronectin 1 on Cell Proliferation, Senescence and Apoptosis of Human Glioma Cells Through the PI3K/AKT Signaling Pathway. Cell Physiol Biochem 2018;48(3):1382-1396. PMID: 30048971
  • Chirayil R, Kincaid RP, Dahlke C, Kuny CV et al. Identification of virus-encoded microRNAs in divergent Papillomaviruses. PLoS Pathog 2018 Jul;14(7):e1007156. PMID: 30048533
  • Wang X, Tan Y, Cao X, Kim JA et al. Epigenetic activation of HORMAD1 in basal-like breast cancer: role in Rucaparib sensitivity. Oncotarget 2018 Jul 10;9(53):30115-30127. PMID: 30046392
  • Xu H, Bai X, Yu S, Liu Q et al. MAT1 correlates with molecular subtypes and predicts poor survival in breast cancer. Chin J Cancer Res 2018 Jun;30(3):351-363. PMID: 30046229
  • Fasterius E, Al-Khalili Szigyarto C et al. Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations. Sci Rep 2018 Jul 25;8(1):11226. PMID: 30046134
  • Li B, Xu T, Liu C, Meng G et al. Liver-enriched Genes are Associated with the Prognosis of Patients with Hepatocellular Carcinoma. Sci Rep 2018 Jul 25;8(1):11197. PMID: 30046116
  • Miao L, Yin RX, Pan SL, Yang S et al. Weighted Gene Co-Expression Network Analysis Identifies Specific Modules and Hub Genes Related to Hyperlipidemia. Cell Physiol Biochem 2018;48(3):1151-1163. PMID: 30045016
  • Carlberg C, Neme A et al. Machine learning approaches infer vitamin D signaling: Critical impact of vitamin D receptor binding within topologically associated domains. J Steroid Biochem Mol Biol 2019 Jan;185:103-109. PMID: 30044963
  • Picard MAL, Cosseau C, Ferré S, Quack T et al. Evolution of gene dosage on the Z-chromosome of schistosome parasites. Elife 2018 Jul 25;7. PMID: 30044216
  • Botero D, Valdés I, Rodríguez MJ, Henao D et al. A Genome-Scale Metabolic Reconstruction of Phytophthora infestans With the Integration of Transcriptional Data Reveals the Key Metabolic Patterns Involved in the Interaction of Its Host. Front Genet 2018;9:244. PMID: 30042788
  • Ding KF, Finlay D, Yin H, Hendricks WPD et al. Network Rewiring in Cancer: Applications to Melanoma Cell Lines and the Cancer Genome Atlas Patients. Front Genet 2018;9:228. PMID: 30042785
  • Grabowski P, Kustatscher G, Rappsilber J et al. Epigenetic Variability Confounds Transcriptome but Not Proteome Profiling for Coexpression-based Gene Function Prediction. Mol Cell Proteomics 2018 Nov;17(11):2082-2090. PMID: 30042154
  • Liu M, Jiang K, Lin G, Liu P et al. Ajuba inhibits hepatocellular carcinoma cell growth via targeting of β-catenin and YAP signaling and is regulated by E3 ligase Hakai through neddylation. J Exp Clin Cancer Res 2018 Jul 24;37(1):165. PMID: 30041665
  • Assefa AT, De Paepe K, Everaert C, Mestdagh P et al. Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA-sequencing data. Genome Biol 2018 Jul 24;19(1):96. PMID: 30041657
  • Whitton L, Apostolova G, Rieder D, Dechant G et al. Genes regulated by SATB2 during neurodevelopment contribute to schizophrenia and educational attainment. PLoS Genet 2018 Jul;14(7):e1007515. PMID: 30040823
  • Lim SB, Tan SJ, Lim WT, Lim CT et al. A merged lung cancer transcriptome dataset for clinical predictive modeling. Sci Data 2018 Jul 24;5:180136. PMID: 30040079
  • Givechian KB, Garner C, Garban H, Rabizadeh S et al. CAD/POLD2 gene expression is associated with poor overall survival and chemoresistance in bladder urothelial carcinoma. Oncotarget 2018 Jul 3;9(51):29743-29752. PMID: 30038717
  • Zhang C, D'Alessandro A, Wellendorf AM, Mohmoud F et al. KLF5 controls glutathione metabolism to suppress p190-BCR-ABL+ B-cell lymphoblastic leukemia. Oncotarget 2018 Jul 3;9(51):29665-29679. PMID: 30038712
  • Rizwan A, Paidi SK, Zheng C, Cheng M et al. Mapping the genetic basis of breast microcalcifications and their role in metastasis. Sci Rep 2018 Jul 23;8(1):11067. PMID: 30038419
  • Narad P, Anand L, Gupta R, Sengupta A et al. Construction of Discrete Model of Human Pluripotency in Predicting Lineage-Specific Outcomes and Targeted Knockdowns of Essential Genes. Sci Rep 2018 Jul 23;8(1):11031. PMID: 30038409
  • Lee JJ, Wedow R, Okbay A, Kong E et al. Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals. Nat Genet 2018 Jul 23;50(8):1112-1121. PMID: 30038396
  • Cañadas I, Thummalapalli R, Kim JW, Kitajima S et al. Tumor innate immunity primed by specific interferon-stimulated endogenous retroviruses. Nat Med 2018 Aug;24(8):1143-1150. PMID: 30038220
  • Ye Z, Ayer DE et al. Ras Suppresses TXNIP Expression by Restricting Ribosome Translocation. Mol Cell Biol 2018 Oct 15;38(20). PMID: 30037981
  • Wu DM, Wen X, Han XR, Wang S et al. Role of Circular RNA DLEU2 in Human Acute Myeloid Leukemia. Mol Cell Biol 2018 Oct 15;38(20). PMID: 30037980
  • Xiong DD, Li ZY, Liang L, He RQ et al. The LncRNA NEAT1 Accelerates Lung Adenocarcinoma Deterioration and Binds to Mir-193a-3p as a Competitive Endogenous RNA. Cell Physiol Biochem 2018;48(3):905-918. PMID: 30036873
  • Tangsuwansri C, Saeliw T, Thongkorn S, Chonchaiya W et al. Investigation of epigenetic regulatory networks associated with autism spectrum disorder (ASD) by integrated global LINE-1 methylation and gene expression profiling analyses. PLoS One 2018;13(7):e0201071. PMID: 30036398
  • Ignacio RMC, Gibbs CR, Lee ES, Son DS et al. The TGFα-EGFR-Akt signaling axis plays a role in enhancing proinflammatory chemokines in triple-negative breast cancer cells. Oncotarget 2018 Jun 29;9(50):29286-29303. PMID: 30034618
  • Wang JK, Wang WJ, Cai HY, Du BB et al. MFAP2 promotes epithelial-mesenchymal transition in gastric cancer cells by activating TGF-β/SMAD2/3 signaling pathway. Onco Targets Ther 2018;11:4001-4017. PMID: 30034240
  • Ayabe H, Anada T, Kamoya T, Sato T et al. Optimal Hypoxia Regulates Human iPSC-Derived Liver Bud Differentiation through Intercellular TGFB Signaling. Stem Cell Reports 2018 Aug 14;11(2):306-316. PMID: 30033085
  • Ebeed HT, Stevenson SR, Cuming AC, Baker A et al. Conserved and differential transcriptional responses of peroxisome associated pathways to drought, dehydration and ABA. J Exp Bot 2018 Sep 14;69(20):4971-4985. PMID: 30032264
  • Klein RH, Tung PY, Somanath P, Fehling HJ et al. Genomic functions of developmental pluripotency associated factor 4 (Dppa4) in pluripotent stem cells and cancer. Stem Cell Res 2018 Aug;31:83-94. PMID: 30031967
  • van Ooijen H, Hornsveld M, Dam-de Veen C, Velter R et al. Assessment of Functional Phosphatidylinositol 3-Kinase Pathway Activity in Cancer Tissue Using Forkhead Box-O Target Gene Expression in a Knowledge-Based Computational Model. Am J Pathol 2018 Sep;188(9):1956-1972. PMID: 30030980
  • Xiao D, Liu X, Zhang M, Zou M et al. Direct reprogramming of fibroblasts into neural stem cells by single non-neural progenitor transcription factor Ptf1a. Nat Commun 2018 Jul 20;9(1):2865. PMID: 30030434
  • Fan Z, Xue W, Li L, Zhang C et al. Identification of an early diagnostic biomarker of lung adenocarcinoma based on co-expression similarity and construction of a diagnostic model. J Transl Med 2018 Jul 20;16(1):205. PMID: 30029648
  • He J, Gao Y, Wu G, Lei X et al. Molecular mechanism of estrogen-mediated neuroprotection in the relief of brain ischemic injury. BMC Genet 2018 Jul 20;19(1):46. PMID: 30029590
  • Zhang H, Dou S, He F, Luo J et al. Genome-wide maps of ribosomal occupancy provide insights into adaptive evolution and regulatory roles of uORFs during Drosophila development. PLoS Biol 2018 Jul;16(7):e2003903. PMID: 30028832
  • Li D, Hao X, Song Y et al. Identification of the Key MicroRNAs and the miRNA-mRNA Regulatory Pathways in Prostate Cancer by Bioinformatics Methods. Biomed Res Int 2018;2018:6204128. PMID: 30027097
  • Jensen TL, Frasketi M, Conway K, Villarroel L et al. RSEQREP: RNA-Seq Reports, an open-source cloud-enabled framework for reproducible RNA-Seq data processing, analysis, and result reporting. F1000Res 2017;6:2162. PMID: 30026912
  • Zhou L, Yu Y, Sun S, Zhang T et al. Cry 1 Regulates the Clock Gene Network and Promotes Proliferation and Migration Via the Akt/P53/P21 Pathway in Human Osteosarcoma Cells. J Cancer 2018;9(14):2480-2491. PMID: 30026846
  • Alessandrini F, Pezzè L, Menendez D, Resnick MA et al. ETV7-Mediated DNAJC15 Repression Leads to Doxorubicin Resistance in Breast Cancer Cells. Neoplasia 2018 Aug;20(8):857-870. PMID: 30025229
  • Zhou L, Lim MYT, Kaur P, Saj A et al. Importance of miRNA stability and alternative primary miRNA isoforms in gene regulation during Drosophila development. Elife 2018 Jul 19;7. PMID: 30024380
  • Tripathi S, Jolly MK, Woodward WA, Levine H et al. Analysis of Hierarchical Organization in Gene Expression Networks Reveals Underlying Principles of Collective Tumor Cell Dissemination and Metastatic Aggressiveness of Inflammatory Breast Cancer. Front Oncol 2018;8:244. PMID: 30023340
  • Liu M, Jiang S, Ma Y, Ma J et al. Peripheral-blood gene expression profiling studies for coronary artery disease and its severity in Xinjiang population in China. Lipids Health Dis 2018 Jul 18;17(1):154. PMID: 30021655
  • Han S, Huang T, Li W, Liu S et al. Association Between Hypoxia-Inducible Factor-2α (HIF-2α) Expression and Colorectal Cancer and Its Prognostic Role: a Systematic Analysis. Cell Physiol Biochem 2018;48(2):516-527. PMID: 30021192
  • Kori M, Yalcin Arga K et al. Potential biomarkers and therapeutic targets in cervical cancer: Insights from the meta-analysis of transcriptomics data within network biomedicine perspective. PLoS One 2018;13(7):e0200717. PMID: 30020984
  • Fan Z, Gao S, Chen Y, Xu B et al. Integrative analysis of competing endogenous RNA networks reveals the functional lncRNAs in heart failure. J Cell Mol Med 2018 Oct;22(10):4818-4829. PMID: 30019841
  • van Dam PA, Rolfo C, Ruiz R, Pauwels P et al. Potential new biomarkers for squamous carcinoma of the uterine cervix. ESMO Open 2018;3(4):e000352. PMID: 30018810
  • Mehta SY, Morten BC, Antony J, Henderson L et al. Regulation of the interferon-gamma (IFN-γ) pathway by p63 and Δ133p53 isoform in different breast cancer subtypes. Oncotarget 2018 Jun 26;9(49):29146-29161. PMID: 30018742
  • Jin Z, Xu L, Zhang L, Zhao M et al. Interleukin enhancer binding factor 2 is a prognostic biomarker for breast cancer that also predicts neoadjuvant chemotherapy responses. Am J Transl Res 2018;10(6):1677-1689. PMID: 30018709
  • Kim CY, Lee M, Lee K, Yoon SS et al. Network-based genetic investigation of virulence-associated phenotypes in methicillin-resistant Staphylococcus aureus. Sci Rep 2018 Jul 17;8(1):10796. PMID: 30018396
  • Liu Z, Qin Q, Wu C, Li H et al. Downregulated NDR1 protein kinase inhibits innate immune response by initiating an miR146a-STAT1 feedback loop. Nat Commun 2018 Jul 17;9(1):2789. PMID: 30018336
  • Xu X, Bao Z, Liu Y, Jiang K et al. PBX3/MEK/ERK1/2/LIN28/let-7b positive feedback loop enhances mesenchymal phenotype to promote glioblastoma migration and invasion. J Exp Clin Cancer Res 2018 Jul 17;37(1):158. PMID: 30016974
  • Liang L, Zeng JH, Qin XG, Chen JQ et al. Distinguishable Prognostic Signatures of Left- and Right-Sided Colon Cancer: a Study Based on Sequencing Data. Cell Physiol Biochem 2018;48(2):475-490. PMID: 30016783
  • Sun H, Zhang C, Cao S, Sheng T et al. Fenton reactions drive nucleotide and ATP syntheses in cancer. J Mol Cell Biol 2018 Oct 1;10(5):448-459. PMID: 30016460
  • Hagenauer MH, Schulmann A, Li JZ, Vawter MP et al. Inference of cell type content from human brain transcriptomic datasets illuminates the effects of age, manner of death, dissection, and psychiatric diagnosis. PLoS One 2018;13(7):e0200003. PMID: 30016334
  • Tan A, Luo R, Liang H, Li M et al. Bioinformatics approach reveals the key role of C‑X‑C motif chemokine receptor 2 in endometriosis development. Mol Med Rep 2018 Sep;18(3):2841-2849. PMID: 30015967
  • Dong X, Cong S et al. Bioinformatic analysis of microRNA expression in Huntington's disease. Mol Med Rep 2018 Sep;18(3):2857-2865. PMID: 30015953
  • Yan SIntegrative analysis of promising molecular biomarkers and pathways for coronary artery disease using WGCNA and MetaDE methods. Mol Med Rep 2018 Sep;18(3):2789-2797. PMID: 30015926
  • Wen DY, Pan DH, Lin P, Mo QY et al. Downregulation of miR‑486‑5p in papillary thyroid carcinoma tissue: A study based on microarray and miRNA sequencing. Mol Med Rep 2018 Sep;18(3):2631-2642. PMID: 30015845
  • Zhang W, Di Y et al. Searching for best lower dimensional visualization angles for high dimensional RNA-Seq data. PeerJ 2018;6:e5199. PMID: 30013849
  • Niu H, Li F, Wang Q, Ye Z et al. High expression level of MMP9 is associated with poor prognosis in patients with clear cell renal carcinoma. PeerJ 2018;6:e5050. PMID: 30013825
  • Rezaei Tavirani M, Bashash D, Tajik Rostami F, Rezaei Tavirani S et al. Celiac disease microarray analysis based on System Biology Approach. Gastroenterol Hepatol Bed Bench 2018 Summer;11(3):216-224. PMID: 30013745
  • Tang Y, Zhang Z, Tang Y, Chen X et al. Identification of potential target genes in pancreatic ductal adenocarcinoma by bioinformatics analysis. Oncol Lett 2018 Aug;16(2):2453-2461. PMID: 30013637
  • Zhang S, Zhang X, Fu X, Li W et al. Identification of common differentially-expressed miRNAs in ovarian cancer cells and their exosomes compared with normal ovarian surface epithelial cell cells. Oncol Lett 2018 Aug;16(2):2391-2401. PMID: 30013629
  • Matthews AL, Koo CZ, Szyroka J, Harrison N et al. Regulation of Leukocytes by TspanC8 Tetraspanins and the "Molecular Scissor" ADAM10. Front Immunol 2018;9:1451. PMID: 30013551
  • Huber CD, Durvasula A, Hancock AM, Lohmueller KE et al. Gene expression drives the evolution of dominance. Nat Commun 2018 Jul 16;9(1):2750. PMID: 30013096
  • Shen Y, Bassett MA, Gurumurthy A, Nar R et al. Identification of a Novel Enhancer/Chromatin Opening Element Associated with High-Level γ-Globin Gene Expression. Mol Cell Biol 2018 Oct 1;38(19). PMID: 30012865
  • Ren C, Zhang G, Han F, Fu S et al. Spatially constrained tandem bromodomain inhibition bolsters sustained repression of BRD4 transcriptional activity for TNBC cell growth. Proc Natl Acad Sci U S A 2018 Jul 31;115(31):7949-7954. PMID: 30012592
  • Zhou ZY, Hu Y, Li A, Li YJ et al. Genome wide analyses uncover allele-specific RNA editing in human and mouse. Nucleic Acids Res 2018 Sep 28;46(17):8888-8897. PMID: 30010932
  • Svendsen SG, Nilsson LL, Djurisic S, Funck T et al. Extended HLA-G haplotypes in patients with age-related macular degeneration. HLA 2018 Jul 16 PMID: 30009537
  • Bydoun M, Sterea A, Liptay H, Uzans A et al. S100A10, a novel biomarker in pancreatic ductal adenocarcinoma. Mol Oncol 2018 Nov;12(11):1895-1916. PMID: 30009399
  • Kessler NJ, Waterland RA, Prentice AM, Silver MJ et al. Establishment of environmentally sensitive DNA methylation states in the very early human embryo. Sci Adv 2018 Jul;4(7):eaat2624. PMID: 30009262
  • Wei Z, Panneerdoss S, Timilsina S, Zhu J et al. Topological Characterization of Human and Mouse m(5)C Epitranscriptome Revealed by Bisulfite Sequencing. Int J Genomics 2018;2018:1351964. PMID: 30009162
  • Wu J, Wang X, Lu W et al. Identification and validation of a Hedgehog pathway-based 3-gene prognostic signature for gastric cancers. Oncol Lett 2018 Aug;16(2):2263-2270. PMID: 30008928
  • Ortega-Bernal D, La Rosa CHG, Arechaga-Ocampo E, Alvarez-Avitia MA et al. A meta-analysis of transcriptome datasets characterizes malignant transformation from melanocytes and nevi to melanoma. Oncol Lett 2018 Aug;16(2):1899-1911. PMID: 30008882
  • Luo T, Chen X, Zeng S, Guan B et al. Bioinformatic identification of key genes and analysis of prognostic values in clear cell renal cell carcinoma. Oncol Lett 2018 Aug;16(2):1747-1757. PMID: 30008862
  • Kikkawa ARandom Matrix Analysis for Gene Interaction Networks in Cancer Cells. Sci Rep 2018 Jul 13;8(1):10607. PMID: 30006574
  • Liu JYW, Matarin M, Reeves C, McEvoy AW et al. Doublecortin-expressing cell types in temporal lobe epilepsy. Acta Neuropathol Commun 2018 Jul 13;6(1):60. PMID: 30005693
  • Moulos P, Alexandratos A, Nellas I, Dedos SG et al. Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands. BMC Genomics 2018 Jul 13;19(1):537. PMID: 30005604
  • Cao L, Chen Y, Zhang M, Xu DQ et al. Identification of hub genes and potential molecular mechanisms in gastric cancer by integrated bioinformatics analysis. PeerJ 2018;6:e5180. PMID: 30002985
  • Zhang X, Feng H, Li Z, Guo J et al. Aspirin is Involved in the Cell Cycle Arrest, Apoptosis, Cell Migration, and Invasion of Oral Squamous Cell Carcinoma. Int J Mol Sci 2018 Jul 12;19(7). PMID: 30002310
  • Blumberg A, Danko CG, Kundaje A, Mishmar D et al. A common pattern of DNase I footprinting throughout the human mtDNA unveils clues for a chromatin-like organization. Genome Res 2018 Aug;28(8):1158-1168. PMID: 30002158
  • Kosch R, Delarocque J, Claus P, Becker SC et al. Gene expression profiles in neurological tissues during West Nile virus infection: a critical meta-analysis. BMC Genomics 2018 Jul 13;19(1):530. PMID: 30001706
  • Zhang Y, Jenkins DF, Manimaran S, Johnson WE et al. Alternative empirical Bayes models for adjusting for batch effects in genomic studies. BMC Bioinformatics 2018 Jul 13;19(1):262. PMID: 30001694
  • Zhang T, Zhang SW, Zhang L, Meng J et al. trumpet: transcriptome-guided quality assessment of m(6)A-seq data. BMC Bioinformatics 2018 Jul 13;19(1):260. PMID: 30001693
  • Garrido-Oter R, Nakano RT, Dombrowski N, Ma KW et al. Modular Traits of the Rhizobiales Root Microbiota and Their Evolutionary Relationship with Symbiotic Rhizobia. Cell Host Microbe 2018 Jul 11;24(1):155-167.e5. PMID: 30001518
  • Szlachta K, Thys RG, Atkin ND, Pierce LCT et al. Alternative DNA secondary structure formation affects RNA polymerase II promoter-proximal pausing in human. Genome Biol 2018 Jul 12;19(1):89. PMID: 30001206
  • Listgarten J, Weinstein M, Kleinstiver BP, Sousa AA et al. Prediction of off-target activities for the end-to-end design of CRISPR guide RNAs. Nat Biomed Eng 2018 Jan;2(1):38-47. PMID: 29998038
  • Kunz DJ, Gomes T, James KR et al. Immune Cell Dynamics Unfolded by Single-Cell Technologies. Front Immunol 2018;9:1435. PMID: 29997618
  • Fleischer LM, Somaiya RD, Miller GM et al. Review and Meta-Analyses of TAAR1 Expression in the Immune System and Cancers. Front Pharmacol 2018;9:683. PMID: 29997511
  • Yan HB, Zhang Y, Cen JM, Wang X et al. Expression of microRNA-99a-3p in Prostate Cancer Based on Bioinformatics Data and Meta-Analysis of a Literature Review of 965 Cases. Med Sci Monit 2018 Jul 12;24:4807-4822. PMID: 29997385
  • Markowitz GJ, Havel LS, Crowley MJ, Ban Y et al. Immune reprogramming via PD-1 inhibition enhances early-stage lung cancer survival. JCI Insight 2018 Jul 12;3(13). PMID: 29997286
  • Korman B, Marangoni RG, Lord G, Olefsky J et al. Adipocyte-specific Repression of PPAR-gamma by NCoR Contributes to Scleroderma Skin Fibrosis. Arthritis Res Ther 2018 Jul 11;20(1):145. PMID: 29996896
  • Xiang X, Wang YP, Cao H, Zhang X et al. Knowledge database assisted gene marker selection for chronic lymphocytic leukemia. J Int Med Res 2018 Aug;46(8):3358-3364. PMID: 29996709
  • Zheng JJ, Li WX, Liu JQ, Guo YC et al. Low expression of aging-related NRXN3 is associated with Alzheimer disease: A systematic review and meta-analysis. Medicine (Baltimore) 2018 Jul;97(28):e11343. PMID: 29995770
  • Jiang X, Zhang H, Zhang Z, Quan X et al. Flexible Non-Negative Matrix Factorization to Unravel Disease-Related Genes. IEEE/ACM Trans Comput Biol Bioinform 2019 Nov-Dec;16(6):1948-1957. PMID: 29993985
  • Chen X, Miao Z, Divate M, Zhao Z et al. KM-express: an integrated online patient survival and gene expression analysis tool for the identification and functional characterization of prognostic markers in breast and prostate cancers. Database (Oxford) 2018 Jan 1;2018. PMID: 29992322
  • Griffiths JA, Richard AC, Bach K, Lun ATL et al. Detection and removal of barcode swapping in single-cell RNA-seq data. Nat Commun 2018 Jul 10;9(1):2667. PMID: 29991676
  • Huang Y, Chang Z, Li X, Liang S et al. Integrated multifactor analysis explores core dysfunctional modules in autism spectrum disorder. Int J Biol Sci 2018;14(8):811-818. PMID: 29989084
  • Cai H, Li X, Li J, Liang Q et al. Identifying differentially expressed genes from cross-site integrated data based on relative expression orderings. Int J Biol Sci 2018;14(8):892-900. PMID: 29989020
  • Montefiori LE, Sobreira DR, Sakabe NJ, Aneas I et al. A promoter interaction map for cardiovascular disease genetics. Elife 2018 Jul 10;7. PMID: 29988018
  • Xiao T, Li W, Wang X, Xu H et al. Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy. Proc Natl Acad Sci U S A 2018 Jul 31;115(31):7869-7878. PMID: 29987050
  • Wu H, Chen W, Zhao F, Zhou Q et al. Scleral hypoxia is a target for myopia control. Proc Natl Acad Sci U S A 2018 Jul 24;115(30):E7091-E7100. PMID: 29987045
  • Yehuda Y, Blumenfeld B, Mayorek N, Makedonski K et al. Germline DNA replication timing shapes mammalian genome composition. Nucleic Acids Res 2018 Sep 19;46(16):8299-8310. PMID: 29986092
  • Giaimo BD, Ferrante F, Vallejo DM, Hein K et al. Histone variant H2A.Z deposition and acetylation directs the canonical Notch signaling response. Nucleic Acids Res 2018 Sep 19;46(16):8197-8215. PMID: 29986055
  • Kong F, Deng X, Kong X, Du Y et al. ZFPM2-AS1, a novel lncRNA, attenuates the p53 pathway and promotes gastric carcinogenesis by stabilizing MIF. Oncogene 2018 Nov;37(45):5982-5996. PMID: 29985481
  • Dumitrascu B, Darnell G, Ayroles J, Engelhardt BE et al. Statistical tests for detecting variance effects in quantitative trait studies. Bioinformatics 2019 Jan 15;35(2):200-210. PMID: 29982387
  • Ploton M, Mazuy C, Gheeraert C, Dubois V et al. The nuclear bile acid receptor FXR is a PKA- and FOXA2-sensitive activator of fasting hepatic gluconeogenesis. J Hepatol 2018 Nov;69(5):1099-1109. PMID: 29981427
  • Ben Hamda C, Sangeda R, Mwita L, Meintjes A et al. A common molecular signature of patients with sickle cell disease revealed by microarray meta-analysis and a genome-wide association study. PLoS One 2018;13(7):e0199461. PMID: 29979707
  • Ren YM, Zhao X, Yang T, Duan YH et al. Exploring the Key Genes and Pathways of Osteoarthritis in Knee Cartilage in a Rat Model Using Gene Expression Profiling. Yonsei Med J 2018 Aug;59(6):760-768. PMID: 29978613
  • Lv ZT, Liang S, Chen K, Zhang JM et al. FNDC4 Inhibits RANKL-Induced Osteoclast Formation by Suppressing NF-κB Activation and CXCL10 Expression. Biomed Res Int 2018;2018:3936257. PMID: 29977911
  • Wilson S, Filipp FV et al. A network of epigenomic and transcriptional cooperation encompassing an epigenomic master regulator in cancer. NPJ Syst Biol Appl 2018;4:24. PMID: 29977600
  • Li N, Li L, Chen Y et al. The Identification of Core Gene Expression Signature in Hepatocellular Carcinoma. Oxid Med Cell Longev 2018;2018:3478305. PMID: 29977454
  • Uhl KL, Schultz CR, Geerts D, Bachmann AS et al. Harmine, a dual-specificity tyrosine phosphorylation-regulated kinase (DYRK) inhibitor induces caspase-mediated apoptosis in neuroblastoma. Cancer Cell Int 2018;18:82. PMID: 29977157
  • Zhang Y, Wen DY, Zhang R, Huang JC et al. A Preliminary Investigation of PVT1 on the Effect and Mechanisms of Hepatocellular Carcinoma: Evidence from Clinical Data, a Meta-Analysis of 840 Cases, and In Vivo Validation. Cell Physiol Biochem 2018;47(6):2216-2232. PMID: 29975928
  • Jaakkola MK, McGlinchey AJ, Klén R, Elo LL et al. PASI: A novel pathway method to identify delicate group effects. PLoS One 2018;13(7):e0199991. PMID: 29975740
  • Li HM, Xiao YJ, Min ZS, Tan C et al. Identification and interaction analysis of key genes and microRNAs in atopic dermatitis by bioinformatics analysis. Clin Exp Dermatol 2019 Apr;44(3):257-264. PMID: 29974487
  • Marwitz S, Heinbockel L, Scheufele S, Kugler C et al. Fountain of youth for squamous cell carcinomas? On the epigenetic age of non-small cell lung cancer and corresponding tumor-free lung tissues. Int J Cancer 2018 Dec 15;143(12):3061-3070. PMID: 29974462
  • Sun HD, Xu ZP, Sun ZQ, Zhu B et al. Down-regulation of circPVRL3 promotes the proliferation and migration of gastric cancer cells. Sci Rep 2018 Jul 4;8(1):10111. PMID: 29973643
  • Huang Z, Yang Q, Huang Z et al. Identification of Critical Genes and Five Prognostic Biomarkers Associated with Colorectal Cancer. Med Sci Monit 2018 Jul 5;24:4625-4633. PMID: 29973580
  • Bencurova E, Gupta SK, Sarukhanyan E, Dandekar T et al. Identification of Antifungal Targets Based on Computer Modeling. J Fungi (Basel) 2018 Jul 4;4(3). PMID: 29973534
  • Fabi F, Adam P, Vincent K, Demontigny F et al. Inhibition of CRM1 activity sensitizes endometrial and ovarian cell lines to TRAIL-induced cell death. Cell Commun Signal 2018 Jul 4;16(1):39. PMID: 29973205
  • Press MO, McCoy RC, Hall AN, Akey JM et al. Massive variation of short tandem repeats with functional consequences across strains of Arabidopsis thaliana. Genome Res 2018 Aug;28(8):1169-1178. PMID: 29970452
  • Jung H, Choi JK, Lee EA et al. Immune signatures correlate with L1 retrotransposition in gastrointestinal cancers. Genome Res 2018 Aug;28(8):1136-1146. PMID: 29970450
  • de Boer CG, Regev A et al. BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization. BMC Bioinformatics 2018 Jul 3;19(1):253. PMID: 29970004
  • Wu DC, Yao J, Ho KS, Lambowitz AM et al. Limitations of alignment-free tools in total RNA-seq quantification. BMC Genomics 2018 Jul 3;19(1):510. PMID: 29969991
  • Huang H, Zheng J, Shen N, Wang G et al. Identification of pathways and genes associated with synovitis in osteoarthritis using bioinformatics analyses. Sci Rep 2018 Jul 3;8(1):10050. PMID: 29968759
  • Wlaschin JJ, Gluski JM, Nguyen E, Silberberg H et al. Dual leucine zipper kinase is required for mechanical allodynia and microgliosis after nerve injury. Elife 2018 Jul 3;7. PMID: 29968565
  • Chi J, Xie Q, Jia J, Liu X et al. Integrated Analysis and Identification of Novel Biomarkers in Parkinson's Disease. Front Aging Neurosci 2018;10:178. PMID: 29967579
  • Zhou J, Zeng Y, Cui L, Chen X et al. Zyxin promotes colon cancer tumorigenesis in a mitotic phosphorylation-dependent manner and through CDK8-mediated YAP activation. Proc Natl Acad Sci U S A 2018 Jul 17;115(29):E6760-E6769. PMID: 29967145
  • Higashi Y, Okazaki Y, Takano K, Myouga F et al. HEAT INDUCIBLE LIPASE1 Remodels Chloroplastic Monogalactosyldiacylglycerol by Liberating α-Linolenic Acid in Arabidopsis Leaves under Heat Stress. Plant Cell 2018 Aug;30(8):1887-1905. PMID: 29967047
  • Zhang W, Shu P, Wang S, Song J et al. ZNF154 is a promising diagnosis biomarker and predicts biochemical recurrence in prostate cancer. Gene 2018 Oct 30;675:136-143. PMID: 29966681
  • Ma S, de la Fuente Revenga M, Sun Z, Sun C et al. Cell-type-specific brain methylomes profiled via ultralow-input microfluidics. Nat Biomed Eng 2018 Mar;2(3):183-194. PMID: 29963329
  • Uen Y, Wang JW, Wang C, Jhang Y et al. Mining of potential microRNAs with clinical correlation - regulation of syndecan-1 expression by miR-122-5p altered mobility of breast cancer cells and possible correlation with liver injury. Oncotarget 2018 Jun 15;9(46):28165-28175. PMID: 29963269
  • González-Tablas M, Crespo I, Vital AL, Otero Á et al. Prognostic stratification of adult primary glioblastoma multiforme patients based on their tumor gene amplification profiles. Oncotarget 2018 Jun 15;9(46):28083-28102. PMID: 29963263
  • Lee JY, Yun SJ, Jeong P, Piao XM et al. Identification of differentially expressed miRNAs and miRNA-targeted genes in bladder cancer. Oncotarget 2018 Jun 12;9(45):27656-27666. PMID: 29963227
  • James de Bony E, Bizet M, Van Grembergen O, Hassabi B et al. Comprehensive identification of long noncoding RNAs in colorectal cancer. Oncotarget 2018 Jun 12;9(45):27605-27629. PMID: 29963224
  • Wu K, Yi Y, Liu F, Wu W et al. Identification of key pathways and genes in the progression of cervical cancer using bioinformatics analysis. Oncol Lett 2018 Jul;16(1):1003-1009. PMID: 29963176
  • Sang L, Wang XM, Xu DY, Zhao WJ et al. Bioinformatics analysis of aberrantly methylated-differentially expressed genes and pathways in hepatocellular carcinoma. World J Gastroenterol 2018 Jun 28;24(24):2605-2616. PMID: 29962817
  • Lusito E, Felice B, D'Ario G, Ogier A et al. Unraveling the role of low-frequency mutated genes in breast cancer. Bioinformatics 2019 Jan 1;35(1):36-46. PMID: 29961866
  • Dönertaş HM, Fuentealba Valenzuela M, Partridge L, Thornton JM et al. Gene expression-based drug repurposing to target aging. Aging Cell 2018 Oct;17(5):e12819. PMID: 29959820
  • MacKay K, Kusalik A, Eskiw CH et al. GrapHi-C: graph-based visualization of Hi-C datasets. BMC Res Notes 2018 Jun 29;11(1):418. PMID: 29958536
  • Yang L, Li Y, Turki T, Tan H et al. Weighted Gene Co-Expression Network Analysis Reveals Dysregulation of Mitochondrial Oxidative Phosphorylation in Eating Disorders. Genes (Basel) 2018 Jun 28;9(7). PMID: 29958387
  • Wen JX, Li XQ, Chang Y et al. Signature Gene Identification of Cancer Occurrence and Pattern Recognition. J Comput Biol 2018 Aug;25(8):907-916. PMID: 29957033
  • Cao J, Sun L, Li J, Zhou C et al. A novel three‑miRNA signature predicts survival in cholangiocarcinoma based on RNA‑Seq data. Oncol Rep 2018 Sep;40(3):1422-1434. PMID: 29956786
  • Du B, Wang X, Wu D, Wang T et al. MicroRNA expression profiles identify biomarkers for predicting the response to chemoradiotherapy in rectal cancer. Mol Med Rep 2018 Aug;18(2):1909-1916. PMID: 29956755
  • Yamaguchi M, Osuka S, Murata T et al. Prolonged survival of patients with colorectal cancer is associated with a higher regucalcin gene expression: Overexpression of regucalcin suppresses the growth of human colorectal carcinoma cells in vitro. Int J Oncol 2018 Sep;53(3):1313-1322. PMID: 29956741
  • Wang H, Xu D, Huang H, Cui Y et al. Detection of dysregulated competing endogenous RNA modules associated with clear cell kidney carcinoma. Mol Med Rep 2018 Aug;18(2):1963-1972. PMID: 29956728
  • Winchester LM, Powell J, Lovestone S, Nevado-Holgado AJ et al. Red blood cell indices and anaemia as causative factors for cognitive function deficits and for Alzheimer's disease. Genome Med 2018 Jun 28;10(1):51. PMID: 29954452
  • Rizzolio S, Cagnoni G, Battistini C, Bonelli S et al. Neuropilin-1 upregulation elicits adaptive resistance to oncogene-targeted therapies. J Clin Invest 2018 Aug 31;128(9):3976-3990. PMID: 29953416
  • Wu D, Zhou M, Li L, Ren J et al. The Time Course Pathological Changes After Burn Injury. Inflammation 2018 Oct;41(5):1864-1872. PMID: 29951873
  • Dallinga MG, Yetkin-Arik B, Kayser RP, Vogels IMC et al. IGF2 and IGF1R identified as novel tip cell genes in primary microvascular endothelial cell monolayers. Angiogenesis 2018 Nov;21(4):823-836. PMID: 29951828
  • Seeley JJ, Baker RG, Mohamed G, Bruns T et al. Induction of innate immune memory via microRNA targeting of chromatin remodelling factors. Nature 2018 Jul;559(7712):114-119. PMID: 29950719
  • Jiao J, Zhang R, Li Z, Yin Y et al. Nuclear Smad6 promotes gliomagenesis by negatively regulating PIAS3-mediated STAT3 inhibition. Nat Commun 2018 Jun 27;9(1):2504. PMID: 29950561
  • Lee HJ, Georgiadou A, Walther M, Nwakanma D et al. Integrated pathogen load and dual transcriptome analysis of systemic host-pathogen interactions in severe malaria. Sci Transl Med 2018 Jun 27;10(447). PMID: 29950443
  • Anufrieva KS, Shender VО, Arapidi GP, Pavlyukov MS et al. Therapy-induced stress response is associated with downregulation of pre-mRNA splicing in cancer cells. Genome Med 2018 Jun 27;10(1):49. PMID: 29950180
  • McCoy MJ, Paul AJ, Victor MB, Richner M et al. LONGO: an R package for interactive gene length dependent analysis for neuronal identity. Bioinformatics 2018 Jul 1;34(13):i422-i428. PMID: 29950021
  • Xiao J, Blatti C, Sinha S et al. SigMat: a classification scheme for gene signature matching. Bioinformatics 2018 Jul 1;34(13):i547-i554. PMID: 29950002
  • Zhang R, Wang Y, Yang Y, Zhang Y et al. Predicting CTCF-mediated chromatin loops using CTCF-MP. Bioinformatics 2018 Jul 1;34(13):i133-i141. PMID: 29949986
  • Liu B, Yang H, Pilarsky C, Weber GF et al. The Effect of GPRC5a on the Proliferation, Migration Ability, Chemotherapy Resistance, and Phosphorylation of GSK-3β in Pancreatic Cancer. Int J Mol Sci 2018 Jun 26;19(7). PMID: 29949874
  • Huang J, Sun SG, Hou S et al. Aberrant NEK2 expression might be an independent predictor for poor recurrence-free survival and overall survival of skin cutaneous melanoma. Eur Rev Med Pharmacol Sci 2018 Jun;22(12):3694-3702. PMID: 29949142
  • Kollmus H, Pilzner C, Leist SR, Heise M et al. Of mice and men: the host response to influenza virus infection. Mamm Genome 2018 Aug;29(7-8):446-470. PMID: 29947965
  • Yeheskel A, Reiter A, Pasmanik-Chor M, Rubinstein A et al. Simulation and visualization of multiple KEGG pathways using BioNSi. F1000Res 2017;6:2120. PMID: 29946422
  • Anastasiadou E, Stroopinsky D, Alimperti S, Jiao AL et al. Epstein-Barr virus-encoded EBNA2 alters immune checkpoint PD-L1 expression by downregulating miR-34a in B-cell lymphomas. Leukemia 2019 Jan;33(1):132-147. PMID: 29946193
  • Morgan MD, Marioni JC et al. CpG island composition differences are a source of gene expression noise indicative of promoter responsiveness. Genome Biol 2018 Jun 26;19(1):81. PMID: 29945659
  • Molnár B, Galamb O, Péterfia B, Wichmann B et al. Gene promoter and exon DNA methylation changes in colon cancer development - mRNA expression and tumor mutation alterations. BMC Cancer 2018 Jun 27;18(1):695. PMID: 29945573
  • Kuznetsov VA, Bondarenko V, Wongsurawat T, Yenamandra SP et al. Toward predictive R-loop computational biology: genome-scale prediction of R-loops reveals their association with complex promoter structures, G-quadruplexes and transcriptionally active enhancers. Nucleic Acids Res 2018 Sep 6;46(15):7566-7585. PMID: 29945198
  • Wang L, Niu YM, Wu SS, Zhang C et al. A Study on the Association Between Polymorphisms in the Cytochrome P450 Family 17 Subfamily A Member 1 Gene Region and Type 2 Diabetes Mellitus in Han Chinese. Front Endocrinol (Lausanne) 2018;9:323. PMID: 29942286
  • Barry KC, Hsu J, Broz ML, Cueto FJ et al. A natural killer-dendritic cell axis defines checkpoint therapy-responsive tumor microenvironments. Nat Med 2018 Aug;24(8):1178-1191. PMID: 29942093
  • Wang W, Zhang Y, Liu M, Wang Y et al. TIMP2 is a Poor Prognostic Factor and Predicts Metastatic Biological Behavior in Gastric Cancer. Sci Rep 2018 Jun 25;8(1):9629. PMID: 29941993
  • Lentini A, Lagerwall C, Vikingsson S, Mjoseng HK et al. A reassessment of DNA-immunoprecipitation-based genomic profiling. Nat Methods 2018 Jul;15(7):499-504. PMID: 29941872
  • Pieraccioli M, Nicolai S, Pitolli C, Agostini M et al. ZNF281 inhibits neuronal differentiation and is a prognostic marker for neuroblastoma. Proc Natl Acad Sci U S A 2018 Jul 10;115(28):7356-7361. PMID: 29941555
  • Nagle AM, Levine KM, Tasdemir N, Scott JA et al. Loss of E-cadherin Enhances IGF1-IGF1R Pathway Activation and Sensitizes Breast Cancers to Anti-IGF1R/InsR Inhibitors. Clin Cancer Res 2018 Oct 15;24(20):5165-5177. PMID: 29941485
  • Aerts N, de Bruijn S, van Mourik H, Angenent GC et al. Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana. BMC Plant Biol 2018 Jun 25;18(1):131. PMID: 29940855
  • Jambusaria A, Klomp J, Hong Z, Rafii S et al. A computational approach to identify cellular heterogeneity and tissue-specific gene regulatory networks. BMC Bioinformatics 2018 Jun 7;19(1):217. PMID: 29940845
  • Readhead B, Haure-Mirande JV, Funk CC, Richards MA et al. Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus. Neuron 2018 Jul 11;99(1):64-82.e7. PMID: 29937276
  • Fan Y, Xiao S et al. Progression Rate Associated Peripheral Blood Biomarkers of Parkinson's Disease. J Mol Neurosci 2018 Jul;65(3):312-318. PMID: 29936662
  • Al-Ramahi I, Lu B, Di Paola S, Pang K et al. High-Throughput Functional Analysis Distinguishes Pathogenic, Nonpathogenic, and Compensatory Transcriptional Changes in Neurodegeneration. Cell Syst 2018 Jul 25;7(1):28-40.e4. PMID: 29936182
  • Vargas DM, De Bastiani MA, Zimmer ER, Klamt F et al. Alzheimer's disease master regulators analysis: search for potential molecular targets and drug repositioning candidates. Alzheimers Res Ther 2018 Jun 23;10(1):59. PMID: 29935546
  • Jing H, Qu X, Liu L, Xia H et al. A Novel Long Noncoding RNA (lncRNA), LL22NC03-N64E9.1, Promotes the Proliferation of Lung Cancer Cells and is a Potential Prognostic Molecular Biomarker for Lung Cancer. Med Sci Monit 2018 Jun 23;24:4317-4323. PMID: 29935018
  • Weinmann D, Kenn M, Schmidt S, Schmidt K et al. Galectin-8 induces functional disease markers in human osteoarthritis and cooperates with galectins-1 and -3. Cell Mol Life Sci 2018 Nov;75(22):4187-4205. PMID: 29934665
  • Li J, Deng SP, Vieira J, Thomas J et al. RBPMetaDB: a comprehensive annotation of mouse RNA-Seq datasets with perturbations of RNA-binding proteins. Database (Oxford) 2018 Jan 1;2018. PMID: 29931156
  • Chujan S, Suriyo T, Ungtrakul T, Pomyen Y et al. Potential candidate treatment agents for targeting of cholangiocarcinoma identified by gene expression profile analysis. Biomed Rep 2018 Jul;9(1):42-52. PMID: 29930804
  • Yildiz GIntegrated multi-omics data analysis identifying novel drug sensitivity-associated molecular targets of hepatocellular carcinoma cells. Oncol Lett 2018 Jul;16(1):113-122. PMID: 29930714
  • Marrero-Rodríguez D, Taniguchi-Ponciano K, Subramaniam M, Hawse JR et al. Krüppel-Like Factor 10 participates in cervical cancer immunoediting through transcriptional regulation of Pregnancy-Specific Beta-1 Glycoproteins. Sci Rep 2018 Jun 21;8(1):9445. PMID: 29930344
  • Kai K, Iwamoto T, Zhang D, Shen L et al. CSF-1/CSF-1R axis is associated with epithelial/mesenchymal hybrid phenotype in epithelial-like inflammatory breast cancer. Sci Rep 2018 Jun 21;8(1):9427. PMID: 29930294
  • Wu K, Zhao Q, Li Z, Li N et al. Bioinformatic screening for key miRNAs and genes associated with myocardial infarction. FEBS Open Bio 2018 Jun;8(6):897-913. PMID: 29928570
  • Yamada Y, Arai T, Kojima S, Sugawara S et al. Anti-tumor roles of both strands of the miR-455 duplex: their targets SKA1 and SKA3 are involved in the pathogenesis of renal cell carcinoma. Oncotarget 2018 Jun 1;9(42):26638-26658. PMID: 29928475
  • Huang H, Chen Q, Sun W, Lu M et al. Expression signature of ten genes predicts the survival of patients with estrogen receptor positive-breast cancer that were treated with tamoxifen. Oncol Lett 2018 Jul;16(1):573-579. PMID: 29928444
  • Fang L, Wang Y, Gao Y, Chen X et al. Overexpression of CXXC5 is a strong poor prognostic factor in ER+ breast cancer. Oncol Lett 2018 Jul;16(1):395-401. PMID: 29928427
  • Yu J, Zhang Y, Zhou D, Wu J et al. Higher expression of A-kinase anchoring-protein 1 predicts poor prognosis in human hepatocellular carcinoma. Oncol Lett 2018 Jul;16(1):131-136. PMID: 29928393
  • Chen B, Jiao Z, Yin X, Qian Z et al. Novel insights into biomarkers associated with renal cell carcinoma. Oncol Lett 2018 Jul;16(1):83-90. PMID: 29928389
  • Qin J, Li Q, Zeng Z, Wu P et al. Increased expression of G9A contributes to carcinogenesis and indicates poor prognosis in hepatocellular carcinoma. Oncol Lett 2018 Jun;15(6):9757-9765. PMID: 29928350
  • Zhao K, Li Z, Tian H et al. Twenty-gene-based prognostic model predicts lung adenocarcinoma survival. Onco Targets Ther 2018;11:3415-3424. PMID: 29928133
  • Panga V, Raghunathan S et al. A cytokine protein-protein interaction network for identifying key molecules in rheumatoid arthritis. PLoS One 2018;13(6):e0199530. PMID: 29928007
  • Törőcsik D, Kovács D, Póliska S, Szentkereszty-Kovács Z et al. Genome wide analysis of TLR1/2- and TLR4-activated SZ95 sebocytes reveals a complex immune-competence and identifies serum amyloid A as a marker for activated sebaceous glands. PLoS One 2018;13(6):e0198323. PMID: 29927962
  • Lubecka K, Flower K, Beetch M, Qiu J et al. Loci-specific differences in blood DNA methylation in HBV-negative populations at risk for hepatocellular carcinoma development. Epigenetics 2018;13(6):605-626. PMID: 29927686
  • Pongsuchart M, Kuchimaru T, Yonezawa S, Tran DTP et al. Novel lymphoid enhancer-binding factor 1-cytoglobin axis promotes extravasation of osteosarcoma cells into the lungs. Cancer Sci 2018 Sep;109(9):2746-2756. PMID: 29927026
  • Liu W, Zhang Y, Chen M, Shi L et al. A genome-wide analysis of long noncoding RNA profile identifies differentially expressed lncRNAs associated with Esophageal cancer. Cancer Med 2018 Aug;7(8):4181-4189. PMID: 29926523
  • Lam J, van den Bosch M, Wegrzyn J, Parker J et al. miR-143/145 differentially regulate hematopoietic stem and progenitor activity through suppression of canonical TGFβ signaling. Nat Commun 2018 Jun 20;9(1):2418. PMID: 29925839
  • Dufour A, Bellac CL, Eckhard U, Solis N et al. C-terminal truncation of IFN-γ inhibits proinflammatory macrophage responses and is deficient in autoimmune disease. Nat Commun 2018 Jun 20;9(1):2416. PMID: 29925830
  • Zhang X, Xue C, Lin J, Ferguson JF et al. Interrogation of nonconserved human adipose lincRNAs identifies a regulatory role of linc-ADAL in adipocyte metabolism. Sci Transl Med 2018 Jun 20;10(446). PMID: 29925637
  • Moll HP, Pranz K, Musteanu M, Grabner B et al. Afatinib restrains K-RAS-driven lung tumorigenesis. Sci Transl Med 2018 Jun 20;10(446). PMID: 29925635
  • Argelaguet R, Velten B, Arnol D, Dietrich S et al. Multi-Omics Factor Analysis-a framework for unsupervised integration of multi-omics data sets. Mol Syst Biol 2018 Jun 20;14(6):e8124. PMID: 29925568
  • Johnson ZI, Jones JD, Mukherjee A, Ren D et al. Novel classification for global gene signature model for predicting severity of systemic sclerosis. PLoS One 2018;13(6):e0199314. PMID: 29924864
  • Keeley T, Lin S, Lester DK, Lau EK et al. The fucose salvage pathway inhibits invadopodia formation and extracellular matrix degradation in melanoma cells. PLoS One 2018;13(6):e0199128. PMID: 29924834
  • Wu Y, Wei J, Ming Y, Chen Z et al. Orchestrating a biomarker panel with lncRNAs and mRNAs for predicting survival in pancreatic ductal adenocarcinoma. J Cell Biochem 2018 Sep;119(9):7696-7706. PMID: 29923223
  • He A, Ning Y, Wen Y, Cai Y et al. Use of integrative epigenetic and mRNA expression analyses to identify significantly changed genes and functional pathways in osteoarthritic cartilage. Bone Joint Res 2018 May;7(5):343-350. PMID: 29922454
  • Zhang X, Bu Y, Zhu B, Zhao Q et al. Global transcriptome analysis to identify critical genes involved in the pathology of osteoarthritis. Bone Joint Res 2018 Apr;7(4):298-307. PMID: 29922448
  • Nguyen TM, Muhammad SA, Ibrahim S, Ma L et al. DeCoST: A New Approach in Drug Repurposing From Control System Theory. Front Pharmacol 2018;9:583. PMID: 29922160
  • Luo CL, Xu ZG, Chen H, Ji J et al. LncRNAs and EGFRvIII sequestered in TEPs enable blood-based NSCLC diagnosis. Cancer Manag Res 2018;10:1449-1459. PMID: 29922089
  • Ahmed M, Hwang JS, Lai TH, Zada S et al. Co-Expression Network Analysis of AMPK and Autophagy Gene Products during Adipocyte Differentiation. Int J Mol Sci 2018 Jun 19;19(6). PMID: 29921805
  • Li T, Gao X, Han L, Yu J et al. Identification of hub genes with prognostic values in gastric cancer by bioinformatics analysis. World J Surg Oncol 2018 Jun 19;16(1):114. PMID: 29921304
  • Petukhov V, Guo J, Baryawno N, Severe N et al. dropEst: pipeline for accurate estimation of molecular counts in droplet-based single-cell RNA-seq experiments. Genome Biol 2018 Jun 19;19(1):78. PMID: 29921301
  • Ren YM, Duan YH, Sun YB, Yang T et al. Exploring the key genes and pathways of side population cells in human osteosarcoma using gene expression array analysis. J Orthop Surg Res 2018 Jun 19;13(1):153. PMID: 29921292
  • Gang X, Xu H, Si L, Zhu X et al. Treatment effect of CDKN1A on rheumatoid arthritis by mediating proliferation and invasion of fibroblast-like synoviocytes cells. Clin Exp Immunol 2018 Nov;194(2):220-230. PMID: 29920650
  • Schaack D, Siegler BH, Tamulyte S, Weigand MA et al. The immunosuppressive face of sepsis early on intensive care unit-A large-scale microarray meta-analysis. PLoS One 2018;13(6):e0198555. PMID: 29920518
  • Ma Z, Castillo-González C, Wang Z, Sun D et al. Arabidopsis Serrate Coordinates Histone Methyltransferases ATXR5/6 and RNA Processing Factor RDR6 to Regulate Transposon Expression. Dev Cell 2018 Jun 18;45(6):769-784.e6. PMID: 29920280
  • Li GM, Zhang CL, Rui RP, Sun B et al. Bioinformatics analysis of common differential genes of coronary artery disease and ischemic cardiomyopathy. Eur Rev Med Pharmacol Sci 2018 Jun;22(11):3553-3569. PMID: 29917210
  • Qian K, Huang H, Jiang J, Xu D et al. Identifying autophagy gene-associated module biomarkers through construction and analysis of an autophagy-mediated ceRNA‑ceRNA interaction network in colorectal cancer. Int J Oncol 2018 Sep;53(3):1083-1093. PMID: 29916526
  • Soendergaard C, Seidelin JB, Steenholdt C, Nielsen OH et al. Putative biomarkers of vedolizumab resistance and underlying inflammatory pathways involved in IBD. BMJ Open Gastroenterol 2018;5(1):e000208. PMID: 29915667
  • Atkinson SR, Marguerat S, Bitton DA, Rodríguez-López M et al. Long noncoding RNA repertoire and targeting by nuclear exosome, cytoplasmic exonuclease, and RNAi in fission yeast. RNA 2018 Sep;24(9):1195-1213. PMID: 29914874
  • Zhang J, Li Y, Liu B, Wang L et al. Characterization of the Populus Rab family genes and the function of PtRabE1b in salt tolerance. BMC Plant Biol 2018 Jun 18;18(1):124. PMID: 29914373
  • Trizzino M, Kapusta A, Brown CD et al. Transposable elements generate regulatory novelty in a tissue-specific fashion. BMC Genomics 2018 Jun 18;19(1):468. PMID: 29914366
  • Halliday BJ, Fukuzawa R, Markie DM, Grundy RG et al. Germline mutations and somatic inactivation of TRIM28 in Wilms tumour. PLoS Genet 2018 Jun;14(6):e1007399. PMID: 29912901
  • Davis M, Tripathi S, Hughley R, He Q et al. AR negative triple negative or "quadruple negative" breast cancers in African American women have an enriched basal and immune signature. PLoS One 2018;13(6):e0196909. PMID: 29912871
  • Capitanchik C, Dixon CR, Swanson SK, Florens L et al. Analysis of RNA-Seq datasets reveals enrichment of tissue-specific splice variants for nuclear envelope proteins. Nucleus 2018;9(1):410-430. PMID: 29912636
  • Wang Y, Teschendorff AE, Widschwendter M, Wang S et al. Accounting for differential variability in detecting differentially methylated regions. Brief Bioinform 2019 Jan 18;20(1):47-57. PMID: 29912290
  • Merlin J, Sato M, Chia LY, Fahey R et al. Rosiglitazone and a β(3)-Adrenoceptor Agonist Are Both Required for Functional Browning of White Adipocytes in Culture. Front Endocrinol (Lausanne) 2018;9:249. PMID: 29910772
  • Verbrugge SAJ, Schönfelder M, Becker L, Yaghoob Nezhad F et al. Genes Whose Gain or Loss-Of-Function Increases Skeletal Muscle Mass in Mice: A Systematic Literature Review. Front Physiol 2018;9:553. PMID: 29910734
  • Li Q, Li Y, Li J, Ma Y et al. FBW7 suppresses metastasis of colorectal cancer by inhibiting HIF1α/CEACAM5 functional axis. Int J Biol Sci 2018;14(7):726-735. PMID: 29910683
  • Yarboro MT, Durbin MD, Herington JL, Shelton EL et al. Transcriptional profiling of the ductus arteriosus: Comparison of rodent microarrays and human RNA sequencing. Semin Perinatol 2018 Jun;42(4):212-220. PMID: 29910032
  • Davie K, Janssens J, Koldere D, De Waegeneer M et al. A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain. Cell 2018 Aug 9;174(4):982-998.e20. PMID: 29909982
  • Xie D, Zhang Y, Qu H et al. Crucial genes of inflammatory bowel diseases explored by gene expression profiling analysis. Scand J Gastroenterol 2018 Jun;53(6):685-691. PMID: 29909694
  • Zhao JZL, Mucaki EJ, Rogan PK et al. Predicting ionizing radiation exposure using biochemically-inspired genomic machine learning. F1000Res 2018;7:233. PMID: 29904591
  • Hooper MJ, Wang J, Browning R, Ash JD et al. Damage-associated molecular pattern recognition is required for induction of retinal neuroprotective pathways in a sex-dependent manner. Sci Rep 2018 Jun 14;8(1):9115. PMID: 29904087
  • Tian H, Guan D, Li J et al. Identifying osteosarcoma metastasis associated genes by weighted gene co-expression network analysis (WGCNA). Medicine (Baltimore) 2018 Jun;97(24):e10781. PMID: 29901575
  • Hu C, Zhou Y, Liu C, Kang Y et al. A novel scoring system for gastric cancer risk assessment based on the expression of three CLIP4 DNA methylation-associated genes. Int J Oncol 2018 Aug;53(2):633-643. PMID: 29901187
  • Zhang T, Wu J, Liao C, Ni Z et al. System analysis of teratozoospermia mRNA profile based on integrated bioinformatics tools. Mol Med Rep 2018 Aug;18(2):1297-1304. PMID: 29901159
  • Guo N, Zhang N, Yan L, Lian Z et al. Weighted gene co‑expression network analysis in identification of key genes and networks for ischemic‑reperfusion remodeling myocardium. Mol Med Rep 2018 Aug;18(2):1955-1962. PMID: 29901145
  • Shao X, Bao W, Hong X, Jiang H et al. Identification and functional analysis of differentially expressed genes associated with cerebral ischemia/reperfusion injury through bioinformatics methods. Mol Med Rep 2018 Aug;18(2):1513-1523. PMID: 29901134
  • Carlisle SM, Hein DW et al. Retrospective analysis of estrogen receptor 1 and N‑acetyltransferase gene expression in normal breast tissue, primary breast tumors, and established breast cancer cell lines. Int J Oncol 2018 Aug;53(2):694-702. PMID: 29901116
  • Bruun J, Sveen A, Barros R, Eide PW et al. Prognostic, predictive, and pharmacogenomic assessments of CDX2 refine stratification of colorectal cancer. Mol Oncol 2018 Sep;12(9):1639-1655. PMID: 29900672
  • Özcan E, Sela DA et al. Inefficient Metabolism of the Human Milk Oligosaccharides Lacto-N-tetraose and Lacto-N-neotetraose Shifts Bifidobacterium longum subsp. infantis Physiology. Front Nutr 2018;5:46. PMID: 29900174
  • Kondrakhin Y, Valeev T, Sharipov R, Yevshin I et al. Prediction of protein-DNA interactions of transcription factors linking proteomics and transcriptomics data. EuPA Open Proteom 2016 Dec;13:14-23. PMID: 29900118
  • Kobori M, Takahashi Y, Takeda H, Takahashi M et al. Dietary Intake of Curcumin Improves eIF2 Signaling and Reduces Lipid Levels in the White Adipose Tissue of Obese Mice. Sci Rep 2018 Jun 13;8(1):9081. PMID: 29899429
  • Hanson C, Cairns J, Wang L, Sinha S et al. Principled multi-omic analysis reveals gene regulatory mechanisms of phenotype variation. Genome Res 2018 Aug;28(8):1207-1216. PMID: 29898900
  • Xu C, Li Q, Efimova O, He L et al. Human-specific features of spatial gene expression and regulation in eight brain regions. Genome Res 2018 Aug;28(8):1097-1110. PMID: 29898898
  • Bongen E, Vallania F, Utz PJ, Khatri P et al. KLRD1-expressing natural killer cells predict influenza susceptibility. Genome Med 2018 Jun 14;10(1):45. PMID: 29898768
  • Liao C, Beveridge R, Hudson JJR, Parker JD et al. UCHL3 Regulates Topoisomerase-Induced Chromosomal Break Repair by Controlling TDP1 Proteostasis. Cell Rep 2018 Jun 12;23(11):3352-3365. PMID: 29898404
  • Esteves GH, Reis LFL et al. A statistical method for measuring activation of gene regulatory networks. Stat Appl Genet Mol Biol 2018 Jun 13;17(3). PMID: 29897889
  • Xu S, Xu Y, Yin M, Zhang S et al. Flow-dependent epigenetic regulation of IGFBP5 expression by H3K27me3 contributes to endothelial anti-inflammatory effects. Theranostics 2018;8(11):3007-3021. PMID: 29896299
  • Shen S, Chen X, Li H, Sun L et al. MLH1 Promoter Methylation and Prediction/Prognosis of Gastric Cancer: A Systematic Review and Meta and Bioinformatic Analysis. J Cancer 2018;9(11):1932-1942. PMID: 29896277
  • Chen H, Chen Y, Liu H, Que Y et al. Integrated Expression Profiles Analysis Reveals Correlations Between the IL-33/ST2 Axis and CD8(+) T Cells, Regulatory T Cells, and Myeloid-Derived Suppressor Cells in Soft Tissue Sarcoma. Front Immunol 2018;9:1179. PMID: 29896199
  • Pianigiani G, Licastro D, Fortugno P, Castiglia D et al. Microprocessor-dependent processing of splice site overlapping microRNA exons does not result in changes in alternative splicing. RNA 2018 Sep;24(9):1158-1171. PMID: 29895677
  • Lei X, Yang X et al. A new method for predicting essential proteins based on participation degree in protein complex and subgraph density. PLoS One 2018;13(6):e0198998. PMID: 29894517
  • Link VM, Romanoski CE, Metzler D, Glass CK et al. MMARGE: Motif Mutation Analysis for Regulatory Genomic Elements. Nucleic Acids Res 2018 Aug 21;46(14):7006-7021. PMID: 29893919
  • McKenzie AT, Wang M, Hauberg ME, Fullard JF et al. Brain Cell Type Specific Gene Expression and Co-expression Network Architectures. Sci Rep 2018 Jun 11;8(1):8868. PMID: 29892006
  • Mao Y, Fu Z, Zhang Y, Dong L et al. A seven-lncRNA signature predicts overall survival in esophageal squamous cell carcinoma. Sci Rep 2018 Jun 11;8(1):8823. PMID: 29891973
  • Pandey G, Pandey OP, Rogers AJ, Ahsen ME et al. A Nasal Brush-based Classifier of Asthma Identified by Machine Learning Analysis of Nasal RNA Sequence Data. Sci Rep 2018 Jun 11;8(1):8826. PMID: 29891868
  • Tang YA, Chen YF, Bao Y, Mahara S et al. Hypoxic tumor microenvironment activates GLI2 via HIF-1α and TGF-β2 to promote chemoresistance in colorectal cancer. Proc Natl Acad Sci U S A 2018 Jun 26;115(26):E5990-E5999. PMID: 29891662
  • Fejes Z, Czimmerer Z, Szük T, Póliska S et al. Endothelial cell activation is attenuated by everolimus via transcriptional and post-transcriptional regulatory mechanisms after drug-eluting coronary stenting. PLoS One 2018;13(6):e0197890. PMID: 29889836
  • Federico L, Yang L, Brandon J, Panchatcharam M et al. Lipid phosphate phosphatase 3 regulates adipocyte sphingolipid synthesis, but not developmental adipogenesis or diet-induced obesity in mice. PLoS One 2018;13(6):e0198063. PMID: 29889835
  • He Z, Tang F, Lu Z, Huang Y et al. Analysis of differentially expressed genes, clinical value and biological pathways in prostate cancer. Am J Transl Res 2018;10(5):1444-1456. PMID: 29887958
  • Fang B, Li G, Xu C, Hui Y et al. MicroRNA miR-1249 downregulates adenomatous polyposis coli 2 expression and promotes glioma cells proliferation. Am J Transl Res 2018;10(5):1324-1336. PMID: 29887948
  • Xu C, Zhang J et al. Alternative Polyadenylation of Mammalian Transcripts Is Generally Deleterious, Not Adaptive. Cell Syst 2018 Jun 27;6(6):734-742.e4. PMID: 29886108
  • Mari L, Hoefnagel SJM, Zito D, van de Meent M et al. microRNA 125a Regulates MHC-I Expression on Esophageal Adenocarcinoma Cells, Associated With Suppression of Antitumor Immune Response and Poor Outcomes of Patients. Gastroenterology 2018 Sep;155(3):784-798. PMID: 29885883
  • Wang YC, Chang KC, Lin BW, Lee JC et al. The EGF/hnRNP Q1 axis is involved in tumorigenesis via the regulation of cell cycle-related genes. Exp Mol Med 2018 Jun 6;50(6):1-14. PMID: 29884818
  • Li Y, Liu G, Zhang J, Zhong X et al. Identification of key genes in human airway epithelial cells in response to respiratory pathogens using microarray analysis. BMC Microbiol 2018 Jun 8;18(1):58. PMID: 29884128
  • Gregson CL, Newell F, Leo PJ, Clark GR et al. Genome-wide association study of extreme high bone mass: Contribution of common genetic variation to extreme BMD phenotypes and potential novel BMD-associated genes. Bone 2018 Sep;114:62-71. PMID: 29883787
  • Xu B, Li S, Lv W, Wang Y et al. Transcriptomic analysis reveals the underlying pro-malignant functions of Gankyrin for colorectal cancer via affecting tumor necrosis factor pathway. Int J Biol Macromol 2018 Oct 1;117:1011-1016. PMID: 29883699
  • Sookoian S, Flichman D, Garaycoechea ME, San Martino J et al. Metastasis-associated lung adenocarcinoma transcript 1 as a common molecular driver in the pathogenesis of nonalcoholic steatohepatitis and chronic immune-mediated liver damage. Hepatol Commun 2018 Jun;2(6):654-665. PMID: 29881817
  • Mathur R, Rotroff D, Ma J, Shojaie A et al. Gene set analysis methods: a systematic comparison. BioData Min 2018;11:8. PMID: 29881462
  • Xing X, Chen S, Li L, Cao Y et al. The Active Components of Fuzheng Huayu Formula and Their Potential Mechanism of Action in Inhibiting the Hepatic Stellate Cells Viability - A Network Pharmacology and Transcriptomics Approach. Front Pharmacol 2018;9:525. PMID: 29881350
  • Kresinsky A, Bauer R, Schnöder TM, Berg T et al. Loss of DEP-1 (Ptprj) promotes myeloproliferative disease in FLT3-ITD acute myeloid leukemia. Haematologica 2018 Nov;103(11):e505-e509. PMID: 29880609
  • Lacombe J, Sima C, Amundson SA, Zenhausern F et al. Candidate gene biodosimetry markers of exposure to external ionizing radiation in human blood: A systematic review. PLoS One 2018;13(6):e0198851. PMID: 29879226
  • Zhang F, Xu W, Liu J, Liu X et al. Optimizing miRNA-module diagnostic biomarkers of gastric carcinoma via integrated network analysis. PLoS One 2018;13(6):e0198445. PMID: 29879180
  • Wang Z, Gao S, Li T, Ma X et al. Exploring the microRNA profiles as potential diagnostic probes for oligo- and polymetastatic prognosis of lung metastasis(es) patients. Medicine (Baltimore) 2018 Jun;97(23):e10958. PMID: 29879044
  • Shang YK, Li F, Zhang Y, Liu ZK et al. Systems analysis of key genes and pathways in the progression of hepatocellular carcinoma. Medicine (Baltimore) 2018 Jun;97(23):e10892. PMID: 29879025
  • Zhang M, Saad C, Le L, Halfter K et al. Computational modeling of methionine cycle-based metabolism and DNA methylation and the implications for anti-cancer drug response prediction. Oncotarget 2018 Apr 27;9(32):22546-22558. PMID: 29875994
  • Zhang N, Rao RSP, Salvato F, Havelund JF et al. MU-LOC: A Machine-Learning Method for Predicting Mitochondrially Localized Proteins in Plants. Front Plant Sci 2018;9:634. PMID: 29875778
  • Hao Y, Wang Y, Liu X, Yang X et al. The Kinase Complex mTOR Complex 2 Promotes the Follicular Migration and Functional Maturation of Differentiated Follicular Helper CD4(+) T Cells During Viral Infection. Front Immunol 2018;9:1127. PMID: 29875775
  • Guebel DV, Torres NV et al. Influence of Glucose Availability and CRP Acetylation on the Genome-Wide Transcriptional Response of Escherichia coli: Assessment by an Optimized Factorial Microarray Analysis. Front Microbiol 2018;9:941. PMID: 29875739
  • Lanke V, Moolamalla STR, Roy D, Vinod PK et al. Integrative Analysis of Hippocampus Gene Expression Profiles Identifies Network Alterations in Aging and Alzheimer's Disease. Front Aging Neurosci 2018;10:153. PMID: 29875655
  • Zhang X, Feng H, Li D, Liu S et al. Identification of Differentially Expressed Genes Induced by Aberrant Methylation in Oral Squamous Cell Carcinomas Using Integrated Bioinformatic Analysis. Int J Mol Sci 2018 Jun 7;19(6). PMID: 29875348
  • Kılıç A, Santolini M, Nakano T, Schiller M et al. A systems immunology approach identifies the collective impact of 5 miRs in Th2 inflammation. JCI Insight 2018 Jun 7;3(11). PMID: 29875322
  • Yella JK, Yaddanapudi S, Wang Y, Jegga AG et al. Changing Trends in Computational Drug Repositioning. Pharmaceuticals (Basel) 2018 Jun 5;11(2). PMID: 29874824
  • Ellwanger DC, Scheibinger M, Dumont RA, Barr-Gillespie PG et al. Transcriptional Dynamics of Hair-Bundle Morphogenesis Revealed with CellTrails. Cell Rep 2018 Jun 5;23(10):2901-2914.e13. PMID: 29874578
  • Zhao S, Wang Y, Luo M, Cui W et al. Long Noncoding RNA Small Nucleolar RNA Host Gene 1 (SNHG1) Promotes Renal Cell Carcinoma Progression and Metastasis by Negatively Regulating miR-137. Med Sci Monit 2018 Jun 6;24:3824-3831. PMID: 29874202
  • Tao F, Tian X, Ruan S, Shen M et al. miR-211 sponges lncRNA MALAT1 to suppress tumor growth and progression through inhibiting PHF19 in ovarian carcinoma. FASEB J 2018 Jun 6;:fj201800495RR. PMID: 29874124
  • Zhang W, Chien J, Yong J, Kuang R et al. Network-based machine learning and graph theory algorithms for precision oncology. NPJ Precis Oncol 2017;1(1):25. PMID: 29872707
  • Maury J, Kannan S, Jensen NB, Öberg FK et al. Glucose-Dependent Promoters for Dynamic Regulation of Metabolic Pathways. Front Bioeng Biotechnol 2018;6:63. PMID: 29872655
  • Varn FS, Tafe LJ, Amos CI, Cheng C et al. Computational immune profiling in lung adenocarcinoma reveals reproducible prognostic associations with implications for immunotherapy. Oncoimmunology 2018;7(6):e1431084. PMID: 29872556
  • Leal FE, Menezes SM, Costa EAS, Brailey PM et al. Comprehensive Antiretroviral Restriction Factor Profiling Reveals the Evolutionary Imprint of the ex Vivo and in Vivo IFN-β Response in HTLV-1-Associated Neuroinflammation. Front Microbiol 2018;9:985. PMID: 29872426
  • Zhao J, Cheng W, He X, Liu Y et al. Construction of a specific SVM classifier and identification of molecular markers for lung adenocarcinoma based on lncRNA-miRNA-mRNA network. Onco Targets Ther 2018;11:3129-3140. PMID: 29872324
  • Wu X, Liu W, Liu X, Ai Q et al. Overexpression of MCPH1 inhibits the migration and invasion of lung cancer cells. Onco Targets Ther 2018;11:3111-3117. PMID: 29872322
  • Li D, Hao X, Song Y et al. An integrated analysis of key microRNAs, regulatory pathways and clinical relevance in bladder cancer. Onco Targets Ther 2018;11:3075-3085. PMID: 29872319
  • Tong Y, Sun J, Wong CF, Kang Q et al. MICMIC: identification of DNA methylation of distal regulatory regions with causal effects on tumorigenesis. Genome Biol 2018 Jun 5;19(1):73. PMID: 29871649
  • Vishweswaraiah S, George L, Purushothaman N, Ganguly K et al. A candidate gene identification strategy utilizing mouse to human big-data mining: "3R-tenet" in COPD genetic research. Respir Res 2018 Jun 6;19(1):92. PMID: 29871630
  • Kendall GC, Watson S, Xu L, LaVigne CA et al. PAX3-FOXO1 transgenic zebrafish models identify HES3 as a mediator of rhabdomyosarcoma tumorigenesis. Elife 2018 Jun 5;7. PMID: 29869612
  • Baldassari F, Zerbinati C, Galasso M, Corrà F et al. Screen for MicroRNA and Drug Interactions in Breast Cancer Cell Lines Points to miR-126 as a Modulator of CDK4/6 and PIK3CA Inhibitors. Front Genet 2018;9:174. PMID: 29868122
  • Vora B, Wang A, Kosti I, Huang H et al. Meta-Analysis of Maternal and Fetal Transcriptomic Data Elucidates the Role of Adaptive and Innate Immunity in Preterm Birth. Front Immunol 2018;9:993. PMID: 29867970
  • Singh I, Contreras A, Cordero J, Rubio K et al. MiCEE is a ncRNA-protein complex that mediates epigenetic silencing and nucleolar organization. Nat Genet 2018 Jul;50(7):990-1001. PMID: 29867223
  • Jacobs J, Atkins M, Davie K, Imrichova H et al. The transcription factor Grainy head primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes. Nat Genet 2018 Jul;50(7):1011-1020. PMID: 29867222
  • Taguchi YHTensor Decomposition-Based Unsupervised Feature Extraction Can Identify the Universal Nature of Sequence-Nonspecific Off-Target Regulation of mRNA Mediated by MicroRNA Transfection. Cells 2018 Jun 4;7(6). PMID: 29867052
  • Zhong Z, Pannu V, Rosenow M, Stark A et al. KIAA0100 Modulates Cancer Cell Aggression Behavior of MDA-MB-231 through Microtubule and Heat Shock Proteins. Cancers (Basel) 2018 Jun 4;10(6). PMID: 29867023
  • Otto TD, Böhme U, Sanders M, Reid A et al. Long read assemblies of geographically dispersed Plasmodium falciparum isolates reveal highly structured subtelomeres. Wellcome Open Res 2018;3:52. PMID: 29862326
  • Ibata S, Kobune M, Kikuchi S, Yoshida M et al. High expression of nucleoporin 133 mRNA in bone marrow CD138+ cells is a poor prognostic factor in multiple myeloma. Oncotarget 2018 May 18;9(38):25127-25135. PMID: 29861858
  • Furuta M, Tanaka H, Shiraishi Y, Unida T et al. Characterization of HBV integration patterns and timing in liver cancer and HBV-infected livers. Oncotarget 2018 May 18;9(38):25075-25088. PMID: 29861854
  • Xu J, Lan Y, Yu F, Zhu S et al. Transcriptome analysis reveals a long non-coding RNA signature to improve biochemical recurrence prediction in prostate cancer. Oncotarget 2018 May 18;9(38):24936-24949. PMID: 29861844
  • Kübler E, Albrecht H et al. Large set data mining reveals overexpressed GPCRs in prostate and breast cancer: potential for active targeting with engineered anti-cancer nanomedicines. Oncotarget 2018 May 18;9(38):24882-24897. PMID: 29861840
  • Moniri M, Boroumand Moghaddam A, Azizi S, Abdul Rahim R et al. Molecular study of wound healing after using biosynthesized BNC/Fe(3)O(4) nanocomposites assisted with a bioinformatics approach. Int J Nanomedicine 2018;13:2955-2971. PMID: 29861630
  • Li C, Zou H, Wang Z, Tang X et al. REST, not REST4, is a risk factor associated with radiotherapy plus chemotherapy efficacy in glioma. Drug Des Devel Ther 2018;12:1363-1371. PMID: 29861627
  • Hubé F, Francastel C et al. "Pocket-sized RNA-Seq": A Method to Capture New Mature microRNA Produced from a Genomic Region of Interest. Noncoding RNA 2015 Jul 3;1(2):127-138. PMID: 29861419
  • Guo NL, Dowlati A, Raese RA, Dong C et al. A Predictive 7-Gene Assay and Prognostic Protein Biomarkers for Non-small Cell Lung Cancer. EBioMedicine 2018 Jun;32:102-110. PMID: 29861409
  • Gupta S, Dingerdissen H, Ross KE, Hu Y et al. DEXTER: Disease-Expression Relation Extraction from Text. Database (Oxford) 2018 Jan 1;2018. PMID: 29860481
  • Wang Z, Wei Y, Zhang R, Su L et al. Multi-Omics Analysis Reveals a HIF Network and Hub Gene EPAS1 Associated with Lung Adenocarcinoma. EBioMedicine 2018 Jun;32:93-101. PMID: 29859855
  • Schwede M, Nagpal S, Gandal MJ, Parikshak NN et al. Strong correlation of downregulated genes related to synaptic transmission and mitochondria in post-mortem autism cerebral cortex. J Neurodev Disord 2018 Jun 1;10(1):18. PMID: 29859039
  • Zhang-James Y, Fernàndez-Castillo N, Hess JL, Malki K et al. An integrated analysis of genes and functional pathways for aggression in human and rodent models. Mol Psychiatry 2019 Nov;24(11):1655-1667. PMID: 29858598
  • Hofmans M, Lammens T, Helsmoortel HH, Bresolin S et al. The long non-coding RNA landscape in juvenile myelomonocytic leukemia. Haematologica 2018 Nov;103(11):e501-e504. PMID: 29858388
  • Stamm H, Klingler F, Grossjohann EM, Muschhammer J et al. Immune checkpoints PVR and PVRL2 are prognostic markers in AML and their blockade represents a new therapeutic option. Oncogene 2018 Sep;37(39):5269-5280. PMID: 29855615
  • Hao X, Han F, Ma B, Zhang N et al. SOX30 is a key regulator of desmosomal gene suppressing tumor growth and metastasis in lung adenocarcinoma. J Exp Clin Cancer Res 2018 May 31;37(1):111. PMID: 29855376
  • Kamijo Y, Kawahara K, Yoshinaga T, Kurata H et al. A novel isolation method for cancer prognostic factors via the p53 pathway by a combination of in vitro and in silico analyses. Oncoscience 2018 Mar;5(3-4):88-98. PMID: 29854877
  • Jin Z, Yao J, Xie N, Cai L et al. Melittin Constrains the Expression of Identified Key Genes Associated with Bladder Cancer. J Immunol Res 2018;2018:5038172. PMID: 29854840
  • Suwala AK, Koch K, Rios DH, Aretz P et al. Inhibition of Wnt/beta-catenin signaling downregulates expression of aldehyde dehydrogenase isoform 3A1 (ALDH3A1) to reduce resistance against temozolomide in glioblastoma in vitro. Oncotarget 2018 Apr 27;9(32):22703-22716. PMID: 29854309
  • Martínez-Romero M, O'Connor MJ, Shankar RD, Panahiazar M et al. Fast and Accurate Metadata Authoring Using Ontology-Based Recommendations. AMIA Annu Symp Proc 2017;2017:1272-1281. PMID: 29854196
  • Zhu N, Hou J, Wu Y, Li G et al. Identification of key genes in rheumatoid arthritis and osteoarthritis based on bioinformatics analysis. Medicine (Baltimore) 2018 Jun;97(22):e10997. PMID: 29851858
  • Zhou W, Gong L, Li X, Wan Y et al. Screening key candidate genes and pathways involved in insulinoma by microarray analysis. Medicine (Baltimore) 2018 Jun;97(22):e10826. PMID: 29851790
  • Ling J, Yang S, Huang Y, Wei D et al. Identifying key genes, pathways and screening therapeutic agents for manganese-induced Alzheimer disease using bioinformatics analysis. Medicine (Baltimore) 2018 Jun;97(22):e10775. PMID: 29851783
  • Xie X, Percipalle P et al. Elevated transforming growth factor β signaling activation in β-actin-knockout mouse embryonic fibroblasts enhances myofibroblast features. J Cell Physiol 2018 Nov;233(11):8884-8895. PMID: 29851084
  • Xie B, Li Y, Zhao R, Xu Y et al. Identification of Key Genes and miRNAs in Osteosarcoma Patients with Chemoresistance by Bioinformatics Analysis. Biomed Res Int 2018;2018:4761064. PMID: 29850522
  • Zhang W, Fan J, Chen Q, Lei C et al. SPP1 and AGER as potential prognostic biomarkers for lung adenocarcinoma. Oncol Lett 2018 May;15(5):7028-7036. PMID: 29849788
  • Sun A, Zhang H, Pang F, Niu G et al. Essential genes of the macrophage response to Staphylococcus aureus exposure. Cell Mol Biol Lett 2018;23:25. PMID: 29849669
  • Chen X, Ma A, McDermaid A, Zhang H et al. RECTA: Regulon Identification Based on Comparative Genomics and Transcriptomics Analysis. Genes (Basel) 2018 May 30;9(6). PMID: 29849014
  • Wang T, Han L, Zhang X, Wu R et al. Knowledge-Based Neuroendocrine Immunomodulation (NIM) Molecular Network Construction and Its Application. Molecules 2018 May 30;23(6). PMID: 29848990
  • Grimes T, Walker AR, Datta S, Datta S et al. Predicting survival times for neuroblastoma patients using RNA-seq expression profiles. Biol Direct 2018 May 30;13(1):11. PMID: 29848365
  • Slieker RC, Relton CL, Gaunt TR, Slagboom PE et al. Age-related DNA methylation changes are tissue-specific with ELOVL2 promoter methylation as exception. Epigenetics Chromatin 2018 May 30;11(1):25. PMID: 29848354
  • Segal MR, Bengtsson HL et al. Improved accuracy assessment for 3D genome reconstructions. BMC Bioinformatics 2018 May 30;19(1):196. PMID: 29848293
  • Chopra R, Bushart DD, Shakkottai VG et al. Dendritic potassium channel dysfunction may contribute to dendrite degeneration in spinocerebellar ataxia type 1. PLoS One 2018;13(5):e0198040. PMID: 29847609
  • Kautsar SA, Suarez Duran HG, Medema MH et al. Genomic Identification and Analysis of Specialized Metabolite Biosynthetic Gene Clusters in Plants Using PlantiSMASH. Methods Mol Biol 2018;1795:173-188. PMID: 29846928
  • Kwak S, Kim TW, Kang BH, Kim JH et al. Zinc finger proteins orchestrate active gene silencing during embryonic stem cell differentiation. Nucleic Acids Res 2018 Jul 27;46(13):6592-6607. PMID: 29846698
  • Liu R, Gao J, Yang Y, Qiu R et al. PHD finger protein 1 (PHF1) is a novel reader for histone H4R3 symmetric dimethylation and coordinates with PRMT5-WDR77/CRL4B complex to promote tumorigenesis. Nucleic Acids Res 2018 Jul 27;46(13):6608-6626. PMID: 29846670
  • Carey M, Ramírez JC, Wu S, Wu H et al. A big data pipeline: Identifying dynamic gene regulatory networks from time-course Gene Expression Omnibus data with applications to influenza infection. Stat Methods Med Res 2018 Jul;27(7):1930-1955. PMID: 29846143
  • Yu J, Huang WL, Xu QG, Zhang L et al. Overactivated neddylation pathway in human hepatocellular carcinoma. Cancer Med 2018 Jul;7(7):3363-3372. PMID: 29846044
  • Zhao J, Cheng W, He X, Liu Y et al. Chronic Obstructive Pulmonary Disease Molecular Subtyping and Pathway Deviation-Based Candidate Gene Identification. Cell J 2018 Oct;20(3):326-332. PMID: 29845785
  • Guerrero-Ramirez GI, Valdez-Cordoba CM, Islas-Cisneros JF, Trevino V et al. Computational approaches for predicting key transcription factors in targeted cell reprogramming (Review). Mol Med Rep 2018 Aug;18(2):1225-1237. PMID: 29845286
  • Si X, Cao D, Chen J, Nie Y et al. miR‑23a downregulation modulates the inflammatory response by targeting ATG12‑mediated autophagy. Mol Med Rep 2018 Aug;18(2):1524-1530. PMID: 29845275
  • Wen P, Chidanguro T, Shi Z, Gu H et al. Identification of candidate biomarkers and pathways associated with SCLC by bioinformatics analysis. Mol Med Rep 2018 Aug;18(2):1538-1550. PMID: 29845250
  • Su J, Gao C, Wang R, Xiao C et al. Genes associated with inflammation and the cell cycle may serve as biomarkers for the diagnosis and prognosis of acute myocardial infarction in a Chinese population. Mol Med Rep 2018 Aug;18(2):1311-1322. PMID: 29845217
  • Parris TZ, Rönnerman EW, Engqvist H, Biermann J et al. Genome-wide multi-omics profiling of the 8p11-p12 amplicon in breast carcinoma. Oncotarget 2018 May 8;9(35):24140-24154. PMID: 29844878
  • Sayagués JM, Del Carmen S, Del Mar Abad M, Corchete LA et al. Combined assessment of the TNM stage and BRAF mutational status at diagnosis in sporadic colorectal cancer patients. Oncotarget 2018 May 8;9(35):24081-24096. PMID: 29844874
  • Zang Y, Gu L, Zhang Y, Wang Y et al. Identification of key genes and pathways in uterine leiomyosarcoma through bioinformatics analysis. Oncol Lett 2018 Jun;15(6):9361-9368. PMID: 29844831
  • Van Moerbeke M, Kasim A, Shkedy Z et al. The Usage of Exon-Exon Splice Junctions for the Detection of Alternative Splicing using the REIDS model. Sci Rep 2018 May 29;8(1):8331. PMID: 29844567
  • Chapman NM, Zeng H, Nguyen TM, Wang Y et al. mTOR coordinates transcriptional programs and mitochondrial metabolism of activated T(reg) subsets to protect tissue homeostasis. Nat Commun 2018 May 29;9(1):2095. PMID: 29844370
  • Skrzypek K, Kusienicka A, Trzyna E, Szewczyk B et al. SNAIL is a key regulator of alveolar rhabdomyosarcoma tumor growth and differentiation through repression of MYF5 and MYOD function. Cell Death Dis 2018 May 29;9(6):643. PMID: 29844345
  • Wei X, Zhang K, Qin H, Zhu J et al. GMDS knockdown impairs cell proliferation and survival in human lung adenocarcinoma. BMC Cancer 2018 May 29;18(1):600. PMID: 29843634
  • Zeng C, Fukunaga T, Hamada M et al. Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data. BMC Genomics 2018 May 29;19(1):414. PMID: 29843593
  • Liu X, Chen L, Zhang T et al. Increased GOLM1 Expression Independently Predicts Unfavorable Overall Survival and Recurrence-Free Survival in Lung Adenocarcinoma. Cancer Control 2018 Jan-Mar;25(1):1073274818778001. PMID: 29843532
  • Izadi FDifferential Connectivity in Colorectal Cancer Gene Expression Network. Iran Biomed J 2019 Jan;23(1):34-46. PMID: 29843204
  • Ramos Pittol JM, Oruba A, Mittler G, Saccani S et al. Zbtb7a is a transducer for the control of promoter accessibility by NF-kappa B and multiple other transcription factors. PLoS Biol 2018 May;16(5):e2004526. PMID: 29813070
  • Wytock TP, Fiebig A, Willett JW, Herrou J et al. Correction: Experimental evolution of diverse Escherichia coli metabolic mutants identifies genetic loci for convergent adaptation of growth rate. PLoS Genet 2018 May;14(5):e1007411. PMID: 29813063
  • Dimitrova E, Kondo T, Feldmann A, Nakayama M et al. FBXL19 recruits CDK-Mediator to CpG islands of developmental genes priming them for activation during lineage commitment. Elife 2018 May 29;7. PMID: 29809150
  • Zhang Y, Pitchiaya S, Cieślik M, Niknafs YS et al. Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression. Nat Genet 2018 Jun;50(6):814-824. PMID: 29808028
  • Heuston EF, Keller CA, Lichtenberg J, Giardine B et al. Establishment of regulatory elements during erythro-megakaryopoiesis identifies hematopoietic lineage-commitment points. Epigenetics Chromatin 2018 May 28;11(1):22. PMID: 29807547
  • Jin S, Qian Z, Liang T, Liang J et al. Identification of a DNA Repair-Related Multigene Signature as a Novel Prognostic Predictor of Glioblastoma. World Neurosurg 2018 Sep;117:e34-e41. PMID: 29807183
  • Yan S, Wang W, Gao G, Cheng M et al. Key genes and functional coexpression modules involved in the pathogenesis of systemic lupus erythematosus. J Cell Physiol 2018 Nov;233(11):8815-8825. PMID: 29806703
  • Li CW, Lai TY, Chen BS et al. Changes of signal transductivity and robustness of gene regulatory network in the carcinogenesis of leukemic subtypes via microarray sample data. Oncotarget 2018 May 4;9(34):23636-23660. PMID: 29805763
  • Volinia S, Bertagnolo V, Grassilli S, Brugnoli F et al. Levels of miR-126 and miR-218 are elevated in ductal carcinoma in situ (DCIS) and inhibit malignant potential of DCIS derived cells. Oncotarget 2018 May 4;9(34):23543-23553. PMID: 29805754
  • Li DY, Chen WJ, Shang J, Chen G et al. Regulatory interactions between long noncoding RNA LINC00968 and miR-9-3p in non-small cell lung cancer: A bioinformatic analysis based on miRNA microarray, GEO and TCGA. Oncol Lett 2018 Jun;15(6):9487-9497. PMID: 29805671
  • Qin J, Zeng Z, Luo T, Li Q et al. Clinicopathological significance of G9A expression in colorectal carcinoma. Oncol Lett 2018 Jun;15(6):8611-8619. PMID: 29805595
  • Wang Z, Zhang Z, Zhang C, Xu Y et al. Identification of potential pathogenic biomarkers in clear cell renal cell carcinoma. Oncol Lett 2018 Jun;15(6):8491-8499. PMID: 29805586
  • Yao S, Liu T et al. Analysis of differential gene expression caused by cervical intraepithelial neoplasia based on GEO database. Oncol Lett 2018 Jun;15(6):8319-8324. PMID: 29805564
  • Dai J, Ma Y, Chu S, Le N et al. Identification of key genes and pathways in meningioma by bioinformatics analysis. Oncol Lett 2018 Jun;15(6):8245-8252. PMID: 29805558
  • Yang F, Wang Y et al. Systemic bioinformatics analysis of skeletal muscle gene expression profiles of sepsis. Exp Ther Med 2018 Jun;15(6):4637-4642. PMID: 29805480
  • Miao R, Dong XB, Gong JN, Li JF et al. [Analysis of significant microRNA associated with chronic thromboembolic pulmonary hypertension]. Zhonghua Yi Xue Za Zhi 2018 May 15;98(18):1397-1402. PMID: 29804401
  • Bhattarai U, Subudhi PK et al. Genetic analysis of yield and agronomic traits under reproductive-stage drought stress in rice using a high-resolution linkage map. Gene 2018 Aug 30;669:69-76. PMID: 29802991
  • Kim YR, Kim SY et al. Machine learning identifies a core gene set predictive of acquired resistance to EGFR tyrosine kinase inhibitor. J Cancer Res Clin Oncol 2018 Aug;144(8):1435-1444. PMID: 29802456
  • Ito-Ishida A, Yamalanchili HK, Shao Y, Baker SA et al. Genome-wide distribution of linker histone H1.0 is independent of MeCP2. Nat Neurosci 2018 Jun;21(6):794-798. PMID: 29802390
  • Ji Z, He L, Rotem A, Janzer A et al. Genome-scale identification of transcription factors that mediate an inflammatory network during breast cellular transformation. Nat Commun 2018 May 25;9(1):2068. PMID: 29802342
  • Zhang S, Zhu J, Li Z et al. Adaptive Group-combined P-values Test for Two-sample Location Problem with Applications to Microarray Data. Sci Rep 2018 May 25;8(1):8117. PMID: 29802271
  • Polishchuk M, Paz I, Yakhini Z, Mandel-Gutfreund Y et al. SMARTIV: combined sequence and structure de-novo motif discovery for in-vivo RNA binding data. Nucleic Acids Res 2018 Jul 2;46(W1):W221-W228. PMID: 29800452
  • Sahlabadi A, Chandren Muniyandi R, Sahlabadi M, Golshanbafghy H et al. Framework for Parallel Preprocessing of Microarray Data Using Hadoop. Adv Bioinformatics 2018;2018:9391635. PMID: 29796018
  • Tůmová L, Tarkowská D, Řehořová K, Marková H et al. Drought-tolerant and drought-sensitive genotypes of maize (Zea mays L.) differ in contents of endogenous brassinosteroids and their drought-induced changes. PLoS One 2018;13(5):e0197870. PMID: 29795656
  • Choi ES, Lee H, Sung JY, Lee CH et al. FAM188B enhances cell survival via interaction with USP7. Cell Death Dis 2018 May 24;9(6):633. PMID: 29795372
  • Barral-Arca R, Pardo-Seco J, Martinón-Torres F, Salas A et al. A 2-transcript host cell signature distinguishes viral from bacterial diarrhea and it is influenced by the severity of symptoms. Sci Rep 2018 May 23;8(1):8043. PMID: 29795312
  • Dong Z, Zhu X, Li Y, Gan L et al. Oncogenomic analysis identifies novel biomarkers for tumor stage mycosis fungoides. Medicine (Baltimore) 2018 May;97(21):e10871. PMID: 29794791
  • Song R, Li Y, Hao W, Wang B et al. Identification and analysis of key genes associated with ulcerative colitis based on DNA microarray data. Medicine (Baltimore) 2018 May;97(21):e10658. PMID: 29794741
  • Tranfaglia MR, Thibodeaux C, Mason DJ, Brown D et al. Repurposing available drugs for neurodevelopmental disorders: The fragile X experience. Neuropharmacology 2019 Mar 15;147:74-86. PMID: 29792283
  • Lu GA, Zhao Y, Liufu Z, Wu CI et al. On the possibility of death of new genes - evidence from the deletion of de novo microRNAs. BMC Genomics 2018 May 23;19(1):388. PMID: 29792159
  • Nachun D, Gao F, Isaacs C, Strawser C et al. Peripheral blood gene expression reveals an inflammatory transcriptomic signature in Friedreich's ataxia patients. Hum Mol Genet 2018 Sep 1;27(17):2965-2977. PMID: 29790959
  • Luisier R, Tyzack GE, Hall CE, Mitchell JS et al. Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS. Nat Commun 2018 May 22;9(1):2010. PMID: 29789581
  • Qiao L, Zheng J, Tian Y, Zhang Q et al. Regulator of chromatin condensation 1 abrogates the G1 cell cycle checkpoint via Cdk1 in human papillomavirus E7-expressing epithelium and cervical cancer cells. Cell Death Dis 2018 May 22;9(6):583. PMID: 29789527
  • He Y, Yao X, Taylor N, Bai Y et al. RNA sequencing analysis reveals quiescent microglia isolation methods from postnatal mouse brains and limitations of BV2 cells. J Neuroinflammation 2018 May 22;15(1):153. PMID: 29788964
  • Cui Z, Zeng Q, Guo Y, Liu S et al. Integrated bioinformatic changes and analysis of retina with time in diabetic rats. PeerJ 2018;6:e4762. PMID: 29785346
  • Talavera D, Kershaw CJ, Costello JL, Castelli LM et al. Archetypal transcriptional blocks underpin yeast gene regulation in response to changes in growth conditions. Sci Rep 2018 May 21;8(1):7949. PMID: 29785040
  • Biddlestone J, Batie M, Bandarra D, Munoz I et al. SINHCAF/FAM60A and SIN3A specifically repress HIF-2α expression. Biochem J 2018 Jun 29;475(12):2073-2090. PMID: 29784889
  • Font-Clos F, Zapperi S, La Porta CAM et al. Topography of epithelial-mesenchymal plasticity. Proc Natl Acad Sci U S A 2018 Jun 5;115(23):5902-5907. PMID: 29784817
  • Guo JC, Wu Y, Chen Y, Pan F et al. Protein-coding genes combined with long noncoding RNA as a novel transcriptome molecular staging model to predict the survival of patients with esophageal squamous cell carcinoma. Cancer Commun (Lond) 2018 Apr 9;38(1):4. PMID: 29784063
  • Lin Y, Chen F, Shen L, Tang X et al. Biomarker microRNAs for prostate cancer metastasis: screened with a network vulnerability analysis model. J Transl Med 2018 May 21;16(1):134. PMID: 29784056
  • Wen DY, Lin P, Liang HW, Yang X et al. Up-regulation of CTD-2547G23.4 in hepatocellular carcinoma tissues and its prospective molecular regulatory mechanism: a novel qRT-PCR and bioinformatics analysis study. Cancer Cell Int 2018;18:74. PMID: 29780284
  • Falzone L, Scola L, Zanghì A, Biondi A et al. Integrated analysis of colorectal cancer microRNA datasets: identification of microRNAs associated with tumor development. Aging (Albany NY) 2018 May 18;10(5):1000-1014. PMID: 29779016
  • Mukherjee S, Zhang T, Lacko LA, Tan L et al. Derivation and characterization of a UCP1 reporter human ES cell line. Stem Cell Res 2018 Jul;30:12-21. PMID: 29777802
  • De Santo C, Cheng P, Beggs A, Egan S et al. Metabolic therapy with PEG-arginase induces a sustained complete remission in immunotherapy-resistant melanoma. J Hematol Oncol 2018 May 18;11(1):68. PMID: 29776373
  • Lovell PV, Huizinga NA, Getachew A, Mees B et al. Curation of microarray oligonucleotides and corresponding ESTs/cDNAs used for gene expression analysis in zebra finches. BMC Res Notes 2018 May 18;11(1):309. PMID: 29776372
  • Meirson T, Genna A, Lukic N, Makhnii T et al. Targeting invadopodia-mediated breast cancer metastasis by using ABL kinase inhibitors. Oncotarget 2018 Apr 24;9(31):22158-22183. PMID: 29774130
  • Zohrap N, Saatci Ö, Ozes B, Coban I et al. SIK2 attenuates proliferation and survival of breast cancer cells with simultaneous perturbation of MAPK and PI3K/Akt pathways. Oncotarget 2018 Apr 24;9(31):21876-21892. PMID: 29774109
  • Cao J, Wang X, Dai T, Wu Y et al. Twist promotes tumor metastasis in basal-like breast cancer by transcriptionally upregulating ROR1. Theranostics 2018;8(10):2739-2751. PMID: 29774072
  • Li D, Chen Y, Mei H, Jiao W et al. Ets-1 promoter-associated noncoding RNA regulates the NONO/ERG/Ets-1 axis to drive gastric cancer progression. Oncogene 2018 Aug;37(35):4871-4886. PMID: 29773901
  • Fiscon G, Conte F, Licursi V, Nasi S et al. Computational identification of specific genes for glioblastoma stem-like cells identity. Sci Rep 2018 May 17;8(1):7769. PMID: 29773872
  • Lomberk G, Blum Y, Nicolle R, Nair A et al. Distinct epigenetic landscapes underlie the pathobiology of pancreatic cancer subtypes. Nat Commun 2018 May 17;9(1):1978. PMID: 29773832
  • Joachim RB, Altschuler GM, Hutchinson JN, Wong HR et al. The relative resistance of children to sepsis mortality: from pathways to drug candidates. Mol Syst Biol 2018 May 17;14(5):e7998. PMID: 29773677
  • Zhang CL, Li LB, She C, Xie Y et al. MiR-299-5p targets cell cycle to promote cell proliferation and progression of osteosarcoma. Eur Rev Med Pharmacol Sci 2018 May;22(9):2606-2613. PMID: 29771409
  • Aponte JL, Chiano MN, Yerges-Armstrong LM, Hinds DA et al. Assessment of rosacea symptom severity by genome-wide association study and expression analysis highlights immuno-inflammatory and skin pigmentation genes. Hum Mol Genet 2018 Aug 1;27(15):2762-2772. PMID: 29771307
  • Huang S, Sun C, Hou Y, Tang Y et al. A comprehensive bioinformatics analysis on multiple Gene Expression Omnibus datasets of nonalcoholic fatty liver disease and nonalcoholic steatohepatitis. Sci Rep 2018 May 16;8(1):7630. PMID: 29769552
  • Li S, Wang C, Wang W, Liu W et al. Abnormally high expression of POLD1, MCM2, and PLK4 promotes relapse of acute lymphoblastic leukemia. Medicine (Baltimore) 2018 May;97(20):e10734. PMID: 29768346
  • Diez-Cuñado M, Wei K, Bushway PJ, Maurya MR et al. miRNAs that Induce Human Cardiomyocyte Proliferation Converge on the Hippo Pathway. Cell Rep 2018 May 15;23(7):2168-2174. PMID: 29768213
  • Chen S, Fan X, Gu H, Zhang L et al. Competing endogenous RNA regulatory network in papillary thyroid carcinoma. Mol Med Rep 2018 Jul;18(1):695-704. PMID: 29767230
  • Kim M, Yu Y, Moon JH, Koh I et al. Differential Expression Profiling of Long Noncoding RNA and mRNA during Osteoblast Differentiation in Mouse. Int J Genomics 2018;2018:7691794. PMID: 29765976
  • Yamamoto R, Kawahara M, Ito S, Satoh J et al. Selective dissociation between LSD1 and GFI1B by a LSD1 inhibitor NCD38 induces the activation of ERG super-enhancer in erythroleukemia cells. Oncotarget 2018 Apr 20;9(30):21007-21021. PMID: 29765516
  • Kang MH, Choi H, Oshima M, Cheong JH et al. Estrogen-related receptor gamma functions as a tumor suppressor in gastric cancer. Nat Commun 2018 May 15;9(1):1920. PMID: 29765046
  • Li J, Tan W, Peng L, Zhang J et al. Integrative analysis of gene expression profiles reveals specific signaling pathways associated with pancreatic duct adenocarcinoma. Cancer Commun (Lond) 2018 Apr 27;38(1):13. PMID: 29764514
  • Meng XH, Chen XD, Greenbaum J, Zeng Q et al. Integration of summary data from GWAS and eQTL studies identified novel causal BMD genes with functional predictions. Bone 2018 Aug;113:41-48. PMID: 29763751
  • Huang AY, Yang X, Wang S, Zheng X et al. Distinctive types of postzygotic single-nucleotide mosaicisms in healthy individuals revealed by genome-wide profiling of multiple organs. PLoS Genet 2018 May;14(5):e1007395. PMID: 29763432
  • Stroopinsky D, Rajabi H, Nahas M, Rosenblatt J et al. MUC1-C drives myeloid leukaemogenesis and resistance to treatment by a survivin-mediated mechanism. J Cell Mol Med 2018 Aug;22(8):3887-3898. PMID: 29761849
  • Van Slyke CE, Bradford YM, Howe DG, Fashena DS et al. Using ZFIN: Data Types, Organization, and Retrieval. Methods Mol Biol 2018;1757:307-347. PMID: 29761463
  • James-Zorn C, Ponferrada V, Fisher ME, Burns K et al. Navigating Xenbase: An Integrated Xenopus Genomics and Gene Expression Database. Methods Mol Biol 2018;1757:251-305. PMID: 29761462
  • Cooper YA, Nachun D, Dokuru D, Yang Z et al. Progranulin levels in blood in Alzheimer's disease and mild cognitive impairment. Ann Clin Transl Neurol 2018 May;5(5):616-629. PMID: 29761124
  • Clos-Garcia M, Loizaga-Iriarte A, Zuñiga-Garcia P, Sánchez-Mosquera P et al. Metabolic alterations in urine extracellular vesicles are associated to prostate cancer pathogenesis and progression. J Extracell Vesicles 2018;7(1):1470442. PMID: 29760869
  • Lee GY, Shin SH, Shin HW, Chun YS et al. NDRG3 lowers the metastatic potential in prostate cancer as a feedback controller of hypoxia-inducible factors. Exp Mol Med 2018 May 14;50(5):1-13. PMID: 29760417
  • Nguyen DD, Lee DG, Kim S, Kang K et al. Integrative Bioinformatics and Functional Analyses of GEO, ENCODE, and TCGA Reveal FADD as a Direct Target of the Tumor Suppressor BRCA1. Int J Mol Sci 2018 May 14;19(5). PMID: 29757984
  • Heger L, Balk S, Lühr JJ, Heidkamp GF et al. CLEC10A Is a Specific Marker for Human CD1c(+) Dendritic Cells and Enhances Their Toll-Like Receptor 7/8-Induced Cytokine Secretion. Front Immunol 2018;9:744. PMID: 29755453
  • Gunasekaran M, Chatterjee PK, Shih A, Imperato GH et al. Immunization Elicits Antigen-Specific Antibody Sequestration in Dorsal Root Ganglia Sensory Neurons. Front Immunol 2018;9:638. PMID: 29755449
  • Ayana R, Singh S, Pati S et al. Deconvolution of Human Brain Cell Type Transcriptomes Unraveled Microglia-Specific Potential Biomarkers. Front Neurol 2018;9:266. PMID: 29755398
  • Habib R, Noureen N, Nadeem N et al. Decoding Common Features of Neurodegenerative Disorders: From Differentially Expressed Genes to Pathways. Curr Genomics 2018 May;19(4):300-312. PMID: 29755292
  • Ferreira C, Hagen P, Stern M, Hussner J et al. The scaffold protein PDZK1 modulates expression and function of the organic anion transporting polypeptide 2B1. Eur J Pharm Sci 2018 Jul 30;120:181-190. PMID: 29752999
  • Liang X, Chen W, Shi H, Gu X et al. PTBP3 contributes to the metastasis of gastric cancer by mediating CAV1 alternative splicing. Cell Death Dis 2018 May 1;9(5):569. PMID: 29752441
  • Zhou X, Curbo S, Li F, Krishnan S et al. Inhibition of glutamate oxaloacetate transaminase 1 in cancer cell lines results in altered metabolism with increased dependency of glucose. BMC Cancer 2018 May 11;18(1):559. PMID: 29751795
  • Salas A, Pardo-Seco J, Barral-Arca R, Cebey-López M et al. Whole Exome Sequencing Identifies New Host Genomic Susceptibility Factors in Empyema Caused by Streptococcus pneumoniae in Children: A Pilot Study. Genes (Basel) 2018 May 3;9(5). PMID: 29751582
  • Gálvez JM, Castillo D, Herrera LJ, San Román B et al. Multiclass classification for skin cancer profiling based on the integration of heterogeneous gene expression series. PLoS One 2018;13(5):e0196836. PMID: 29750795
  • Ménard M, Costechareyre C, Ichim G, Blachier J et al. Hey1- and p53-dependent TrkC proapoptotic activity controls neuroblastoma growth. PLoS Biol 2018 May;16(5):e2002912. PMID: 29750782
  • Zhao B, Zhao Y, Sun Y, Niu H et al. Alterations in mRNA profiles of trastuzumab‑resistant Her‑2‑positive breast cancer. Mol Med Rep 2018 Jul;18(1):139-146. PMID: 29750305
  • He RQ, Gao L, Ma J, Li ZY et al. Oncogenic role of miR‑183‑5p in lung adenocarcinoma: A comprehensive study of qPCR, in vitro experiments and bioinformatic analysis. Oncol Rep 2018 Jul;40(1):83-100. PMID: 29749535
  • He J, Gao Y, Wu G, Lei X et al. Bioinformatics analysis of microarray data to reveal the pathogenesis of brain ischemia. Mol Med Rep 2018 Jul;18(1):333-341. PMID: 29749511
  • Gu C, Qiao W, Wang L, Li M et al. Identification of genes and pathways associated with multiple organ dysfunction syndrome by microarray analysis. Mol Med Rep 2018 Jul;18(1):31-40. PMID: 29749505
  • Wang M, Li L, Liu J, Wang J et al. A gene interaction network‑based method to measure the common and heterogeneous mechanisms of gynecological cancer. Mol Med Rep 2018 Jul;18(1):230-242. PMID: 29749503
  • Tan J, Qian X, Song B, An X et al. Integrated bioinformatics analysis reveals that the expression of cathepsin S is associated with lymph node metastasis and poor prognosis in papillary thyroid cancer. Oncol Rep 2018 Jul;40(1):111-122. PMID: 29749483
  • Tsoucas D, Yuan GC et al. GiniClust2: a cluster-aware, weighted ensemble clustering method for cell-type detection. Genome Biol 2018 May 10;19(1):58. PMID: 29747686
  • Zhang X, Li B, Han H, Song S et al. Predicting multi-level drug response with gene expression profile in multiple myeloma using hierarchical ordinal regression. BMC Cancer 2018 May 10;18(1):551. PMID: 29747599
  • Bryzgalov LO, Korbolina EE, Brusentsov II, Leberfarb EY et al. Novel functional variants at the GWAS-implicated loci might confer risk to major depressive disorder, bipolar affective disorder and schizophrenia. BMC Neurosci 2018 Apr 19;19(Suppl 1):22. PMID: 29745862
  • Khan A, Ali A, Junaid M, Liu C et al. Identification of novel drug targets for diamond-blackfan anemia based on RPS19 gene mutation using protein-protein interaction network. BMC Syst Biol 2018 Apr 24;12(Suppl 4):39. PMID: 29745857
  • Takenaka Y, Mikami K, Seno S, Matsuda H et al. Automated transition analysis of activated gene regulation during diauxic nutrient shift in Escherichia coli and adipocyte differentiation in mouse cells. BMC Bioinformatics 2018 May 8;19(Suppl 4):89. PMID: 29745848
  • Gu W, Sun Y, Zheng X, Ma J et al. Identification of Gastric Cancer-Related Circular RNA through Microarray Analysis and Bioinformatics Analysis. Biomed Res Int 2018;2018:2381680. PMID: 29744354
  • Dai Z, Tang H, Pan Y, Chen J et al. Gene expression profiles and pathway enrichment analysis of human osteosarcoma cells exposed to sorafenib. FEBS Open Bio 2018 May;8(5):860-867. PMID: 29744300
  • Fort RS, Mathó C, Oliveira-Rizzo C, Garat B et al. An integrated view of the role of miR-130b/301b miRNA cluster in prostate cancer. Exp Hematol Oncol 2018;7:10. PMID: 29744254
  • Witwer KWAlternative miRNAs? Human sequences misidentified as plant miRNAs in plant studies and in human plasma. F1000Res 2018;7:244. PMID: 29744036
  • Huiting LN, Samaha Y, Zhang GL, Roderick JE et al. UFD1 contributes to MYC-mediated leukemia aggressiveness through suppression of the proapoptotic unfolded protein response. Leukemia 2018 Nov;32(11):2339-2351. PMID: 29743725
  • Satpathy AT, Brown RA, Gomulia E, Briseño CG et al. Expression of the transcription factor ZBTB46 distinguishes human histiocytic disorders of classical dendritic cell origin. Mod Pathol 2018 Sep;31(9):1479-1486. PMID: 29743654
  • Chen X, Wang YW, Gao P et al. SPIN1, negatively regulated by miR-148/152, enhances Adriamycin resistance via upregulating drug metabolizing enzymes and transporter in breast cancer. J Exp Clin Cancer Res 2018 May 9;37(1):100. PMID: 29743122
  • Jiang SY, Sevugan M, Ramachandran S et al. Valine-glutamine (VQ) motif coding genes are ancient and non-plant-specific with comprehensive expression regulation by various biotic and abiotic stresses. BMC Genomics 2018 May 9;19(1):342. PMID: 29743038
  • Burkholder AB, Lujan SA, Lavender CA, Grimm SA et al. Muver, a computational framework for accurately calling accumulated mutations. BMC Genomics 2018 May 9;19(1):345. PMID: 29743009
  • Lettieri-Barbato D, Cannata SM, Casagrande V, Ciriolo MR et al. Time-controlled fasting prevents aging-like mitochondrial changes induced by persistent dietary fat overload in skeletal muscle. PLoS One 2018;13(5):e0195912. PMID: 29742122
  • Azim K, Akkermann R, Cantone M, Vera J et al. Transcriptional Profiling of Ligand Expression in Cell Specific Populations of the Adult Mouse Forebrain That Regulates Neurogenesis. Front Neurosci 2018;12:220. PMID: 29740265
  • Zhang Y, Fang L, Zang Y, Xu Z et al. Identification of Core Genes and Key Pathways via Integrated Analysis of Gene Expression and DNA Methylation Profiles in Bladder Cancer. Med Sci Monit 2018 May 9;24:3024-3033. PMID: 29739919
  • Feng H, Xu M, Zhang Y, Han B et al. Identification of Differentially Expressed MicroRNAs involved in the Pathogenesis of Colorectal Cancer. Clin Lab 2018 May 1;64(5):797-804. PMID: 29739047
  • Wang Y, Fang T, Huang L, Wang H et al. Neutrophils infiltrating pancreatic ductal adenocarcinoma indicate higher malignancy and worse prognosis. Biochem Biophys Res Commun 2018 Jun 18;501(1):313-319. PMID: 29738769
  • Wang YZ, Xu WW, Zhu DY, Zhang N et al. Specific expression network analysis of diabetic nephropathy kidney tissue revealed key methylated sites. J Cell Physiol 2018 Oct;233(10):7139-7147. PMID: 29737531
  • Knowles DA, Burrows CK, Blischak JD, Patterson KM et al. Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytes. Elife 2018 May 8;7. PMID: 29737278
  • Liu Q, Wang XY, Qin YY, Yan XL et al. SPOCD1 promotes the proliferation and metastasis of glioma cells by up-regulating PTX3. Am J Cancer Res 2018;8(4):624-635. PMID: 29736308
  • Gao Y, Widschwendter M, Teschendorff AE et al. DNA Methylation Patterns in Normal Tissue Correlate more Strongly with Breast Cancer Status than Copy-Number Variants. EBioMedicine 2018 May;31:243-252. PMID: 29735413
  • Vidak M, Jovcevska I, Samec N, Zottel A et al. Meta-Analysis and Experimental Validation Identified FREM2 and SPRY1 as New Glioblastoma Marker Candidates. Int J Mol Sci 2018 May 4;19(5). PMID: 29734672
  • Li Y, Zhang D, Chen M, Wang R et al. The Novel miRNA N-72 Regulates EGF-Induced Migration of Human Amnion Mesenchymal Stem Cells by Targeting MMP2. Int J Mol Sci 2018 May 4;19(5). PMID: 29734654
  • Ma Z, Peng P, Zhou J, Hui B et al. Long Non-Coding RNA SH3PXD2A-AS1 Promotes Cell Progression Partly Through Epigenetic Silencing P57 and KLF2 in Colorectal Cancer. Cell Physiol Biochem 2018;46(6):2197-2214. PMID: 29734178
  • Yue J, Sun H, Liu S, Yu F et al. Downregulation of NDR1 contributes to metastasis of prostate cancer cells via activating epithelial-mesenchymal transition. Cancer Med 2018 Jul;7(7):3200-3212. PMID: 29733518
  • Gao X, Finnell RH, Wang H, Zheng Y et al. Network correlation analysis revealed potential new mechanisms for neural tube defects beyond folic acid. Birth Defects Res 2018 Jul 17;110(12):982-993. PMID: 29732722
  • Huang R, Gao L et al. Identification of potential diagnostic and prognostic biomarkers in non-small cell lung cancer based on microarray data. Oncol Lett 2018 May;15(5):6436-6442. PMID: 29731852
  • Liu X, Xu T, Hu X, Chen X et al. Elevated circulating miR-182 acts as a diagnostic biomarker for early colorectal cancer. Cancer Manag Res 2018;10:857-865. PMID: 29731665
  • Zhou Y, Cui Q et al. Comparative Analysis of Human Genes Frequently and Occasionally Regulated by m(6)A Modification. Genomics Proteomics Bioinformatics 2018 Apr;16(2):127-135. PMID: 29730206
  • Wang K, Qu X, Liu S, Yang X et al. Identification of aberrantly expressed F-box proteins in squamous-cell lung carcinoma. J Cancer Res Clin Oncol 2018 Aug;144(8):1509-1521. PMID: 29728763
  • Wen DY, Lin P, Pang YY, Chen G et al. Expression of the Long Intergenic Non-Protein Coding RNA 665 (LINC00665) Gene and the Cell Cycle in Hepatocellular Carcinoma Using The Cancer Genome Atlas, the Gene Expression Omnibus, and Quantitative Real-Time Polymerase Chain Reaction. Med Sci Monit 2018 May 5;24:2786-2808. PMID: 29728556
  • Wang M, Zhao W, Gao L, Zhao L et al. Genome-wide profiling of long non-coding RNAs from tomato and a comparison with mRNAs associated with the regulation of fruit ripening. BMC Plant Biol 2018 May 4;18(1):75. PMID: 29728060
  • Yuan G, Bai Y, Zhang Y, Xu G et al. Data Mining Mycobacterium tuberculosis Pathogenic Gene Transcription Factors and Their Regulatory Network Nodes. Int J Genomics 2018;2018:3079730. PMID: 29725597
  • Gao H, Chen X, Cai Q, Shang Z et al. Increased KIF4A expression is a potential prognostic factor in prostate cancer. Oncol Lett 2018 May;15(5):7941-7947. PMID: 29725481
  • Bai G, Zheng W, Ma W et al. Identification and functional analysis of a core gene module associated with hepatitis C virus-induced human hepatocellular carcinoma progression. Oncol Lett 2018 May;15(5):6815-6824. PMID: 29725417
  • Agrahari R, Foroushani A, Docking TR, Chang L et al. Applications of Bayesian network models in predicting types of hematological malignancies. Sci Rep 2018 May 3;8(1):6951. PMID: 29725024
  • Oh SC, Sohn BH, Cheong JH, Kim SB et al. Clinical and genomic landscape of gastric cancer with a mesenchymal phenotype. Nat Commun 2018 May 3;9(1):1777. PMID: 29725014
  • Gong Y, Yang J, Wu W, Liu F et al. Preserved SCN4B expression is an independent indicator of favorable recurrence-free survival in classical papillary thyroid cancer. PLoS One 2018;13(5):e0197007. PMID: 29723302
  • Doñate Puertas R, Jalabert A, Meugnier E, Euthine V et al. Analysis of the microRNA signature in left atrium from patients with valvular heart disease reveals their implications in atrial fibrillation. PLoS One 2018;13(5):e0196666. PMID: 29723239
  • Zhang T, Xu J, Deng S, Zhou F et al. Core signaling pathways in ovarian cancer stem cell revealed by integrative analysis of multi-marker genomics data. PLoS One 2018;13(5):e0196351. PMID: 29723215
  • Peltier L, Bendavid C, Cavey T, Island ML et al. Iron excess upregulates SPNS2 mRNA levels but reduces sphingosine-1-phosphate export in human osteoblastic MG-63 cells. Osteoporos Int 2018 Aug;29(8):1905-1915. PMID: 29721575
  • Khouri R, Silva-Santos G, Dierckx T, Menezes SM et al. A genetic IFN/STAT1/FAS axis determines CD4 T stem cell memory levels and apoptosis in healthy controls and Adult T-cell Leukemia patients. Oncoimmunology 2018;7(5):e1426423. PMID: 29721391
  • Szablewski V, Bret C, Kassambara A, Devin J et al. An epigenetic regulator-related score (EpiScore) predicts survival in patients with diffuse large B cell lymphoma and identifies patients who may benefit from epigenetic therapy. Oncotarget 2018 Apr 10;9(27):19079-19099. PMID: 29721185
  • Stigliani S, Morandi F, Persico L, Lagazio C et al. miRNA expression profile of bone marrow resident cells from children with neuroblastoma is not significantly different from that of healthy children. Oncotarget 2018 Apr 10;9(27):19014-19025. PMID: 29721180
  • Lüke F, Blazquez R, Yamaci RF, Lu X et al. Isolated metastasis of an EGFR-L858R-mutated NSCLC of the meninges: the potential impact of CXCL12/CXCR4 axis in EGFR(mut) NSCLC in diagnosis, follow-up and treatment. Oncotarget 2018 Apr 10;9(27):18844-18857. PMID: 29721166
  • Hubé F, Francastel C et al. Coding and Non-coding RNAs, the Frontier Has Never Been So Blurred. Front Genet 2018;9:140. PMID: 29720998
  • Jakubison BL, Schweickert PG, Moser SE, Yang Y et al. Induced PTF1a expression in pancreatic ductal adenocarcinoma cells activates acinar gene networks, reduces tumorigenic properties, and sensitizes cells to gemcitabine treatment. Mol Oncol 2018 Jun;12(7):1104-1124. PMID: 29719936
  • Tamassia N, Arruda-Silva F, Calzetti F, Lonardi S et al. A Reappraisal on the Potential Ability of Human Neutrophils to Express and Produce IL-17 Family Members In Vitro: Failure to Reproducibly Detect It. Front Immunol 2018;9:795. PMID: 29719541
  • Ballouz S, Dobin A, Gingeras TR, Gillis J et al. The fractured landscape of RNA-seq alignment: the default in our STARs. Nucleic Acids Res 2018 Jun 1;46(10):5125-5138. PMID: 29718481
  • Hung KH, Woo YH, Lin IY, Liu CH et al. The KDM4A/KDM4C/NF-κB and WDR5 epigenetic cascade regulates the activation of B cells. Nucleic Acids Res 2018 Jun 20;46(11):5547-5560. PMID: 29718303
  • Zhang MJ, Hong YY, Li N et al. Overexpression of Kin of IRRE-Like Protein 1 (KIRREL) in Gastric Cancer and Its Clinical Prognostic Significance. Med Sci Monit 2018 May 2;24:2711-2719. PMID: 29717104
  • Sisti F, Wang S, Brandt SL, Glosson-Byers N et al. Nuclear PTEN enhances the maturation of a microRNA regulon to limit MyD88-dependent susceptibility to sepsis. Sci Signal 2018 May 1;11(528). PMID: 29717063
  • Hait TA, Amar D, Shamir R, Elkon R et al. FOCS: a novel method for analyzing enhancer and gene activity patterns infers an extensive enhancer-promoter map. Genome Biol 2018 May 1;19(1):56. PMID: 29716618
  • Liu X, Wang Y, Liang J, Wang L et al. In-depth comparative analysis of malaria parasite genomes reveals protein-coding genes linked to human disease in Plasmodium falciparum genome. BMC Genomics 2018 May 2;19(1):312. PMID: 29716542
  • Zhou Y, Dai W, Wang H, Pan H et al. Long non-coding RNA CASP5 promotes the malignant phenotypes of human glioblastoma multiforme. Biochem Biophys Res Commun 2018 Jun 12;500(4):966-972. PMID: 29715460
  • Liu X, Qu J, Xue W, He L et al. Bioinformatics-based identification of potential microRNA biomarkers in frequent and non-frequent exacerbators of COPD. Int J Chron Obstruct Pulmon Dis 2018;13:1217-1228. PMID: 29713155
  • Kwon E, Todorova K, Wang J, Horos R et al. The RNA-binding protein YBX1 regulates epidermal progenitors at a posttranscriptional level. Nat Commun 2018 Apr 30;9(1):1734. PMID: 29712925
  • Cortini R, Filion GJ et al. Theoretical principles of transcription factor traffic on folded chromatin. Nat Commun 2018 Apr 30;9(1):1740. PMID: 29712907
  • Monteiro RS, Gentsch GE, Smith JC et al. Transcriptomics of dorso-ventral axis determination in Xenopus tropicalis. Dev Biol 2018 Jul 15;439(2):69-79. PMID: 29709598
  • Aamir M, Singh VK, Dubey MK, Kashyap SP et al. Structural and functional dissection of differentially expressed tomato WRKY transcripts in host defense response against the vascular wilt pathogen (Fusarium oxysporum f. sp. lycopersici). PLoS One 2018;13(4):e0193922. PMID: 29709017
  • Swindell WR, List EO, Berryman DE, Kopchick JJ et al. Transcriptional profiling identifies strain-specific effects of caloric restriction and opposite responses in human and mouse white adipose tissue. Aging (Albany NY) 2018 Apr 29;10(4):701-746. PMID: 29708498
  • Li J, Wang W, Xia P, Wan L et al. Identification of a five-lncRNA signature for predicting the risk of tumor recurrence in patients with breast cancer. Int J Cancer 2018 Nov 1;143(9):2150-2160. PMID: 29707762
  • Lin P, He RQ, Dang YW, Wen DY et al. An autophagy-related gene expression signature for survival prediction in multiple cohorts of hepatocellular carcinoma patients. Oncotarget 2018 Apr 3;9(25):17368-17395. PMID: 29707114
  • Nguyen T, Mitrea C, Tagett R, Draghici S et al. DANUBE: Data-driven meta-ANalysis using UnBiased Empirical distributions-applied to biological pathway analysis. Proc IEEE Inst Electr Electron Eng 2017 Mar;105(3):496-515. PMID: 29706661
  • Li W, Cui K, Prochownik EV, Li Y et al. The deubiquitinase USP21 stabilizes MEK2 to promote tumor growth. Cell Death Dis 2018 May 1;9(5):482. PMID: 29706623
  • Lin X, Chen Y et al. Identification of Potentially Functional CircRNA-miRNA-mRNA Regulatory Network in Hepatocellular Carcinoma by Integrated Microarray Analysis. Med Sci Monit Basic Res 2018 Apr 30;24:70-78. PMID: 29706616
  • Chen XF, Zhu DL, Yang M, Hu WX et al. An Osteoporosis Risk SNP at 1p36.12 Acts as an Allele-Specific Enhancer to Modulate LINC00339 Expression via Long-Range Loop Formation. Am J Hum Genet 2018 May 3;102(5):776-793. PMID: 29706346
  • Zhong L, Mu H, Wen B, Zhang W et al. Long non-coding RNAs involved in the regulatory network during porcine pre-implantation embryonic development and iPSC induction. Sci Rep 2018 Apr 27;8(1):6649. PMID: 29703926
  • Rye MB, Bertilsson H, Andersen MK, Rise K et al. Cholesterol synthesis pathway genes in prostate cancer are transcriptionally downregulated when tissue confounding is minimized. BMC Cancer 2018 Apr 27;18(1):478. PMID: 29703166
  • Wang S, Wen X, Han XR, Wang YJ et al. Repression of microRNA-382 inhibits glomerular mesangial cell proliferation and extracellular matrix accumulation via FoxO1 in mice with diabetic nephropathy. Cell Prolif 2018 Oct;51(5):e12462. PMID: 29701296
  • Liang J, Liu Z, Zou Z, Tang Y et al. The Correlation Between the Immune and Epithelial-Mesenchymal Transition Signatures Suggests Potential Therapeutic Targets and Prognosis Prediction Approaches in Kidney Cancer. Sci Rep 2018 Apr 26;8(1):6570. PMID: 29700419
  • Huang S, Murphy L, Xu W et al. Genes and functions from breast cancer signatures. BMC Cancer 2018 Apr 27;18(1):473. PMID: 29699511
  • Cannoodt R, Ruyssinck J, Ramon J, De Preter K et al. IncGraph: Incremental graphlet counting for topology optimisation. PLoS One 2018;13(4):e0195997. PMID: 29698494
  • Relator RT, Terada A, Sese J et al. Identifying statistically significant combinatorial markers for survival analysis. BMC Med Genomics 2018 Apr 20;11(Suppl 2):31. PMID: 29697363
  • Segers VFM, Brutsaert DL, De Keulenaer GW et al. Cardiac Remodeling: Endothelial Cells Have More to Say Than Just NO. Front Physiol 2018;9:382. PMID: 29695980
  • Stanyte R, Nuebler J, Blaukopf C, Hoefler R et al. Dynamics of sister chromatid resolution during cell cycle progression. J Cell Biol 2018 Jun 4;217(6):1985-2004. PMID: 29695489
  • Bornelöv S, Seroussi E, Yosefi S, Benjamini S et al. Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction. BMC Genomics 2018 Apr 26;19(1):295. PMID: 29695257
  • Liu L, Chen F, Xiu A, Du B et al. Identification of Key Candidate Genes and Pathways in Endometrial Cancer by Integrated Bioinformatical Analysis. Asian Pac J Cancer Prev 2018 Apr 25;19(4):969-975. PMID: 29693365
  • Zhan SJ, Liu B, Linghu H et al. Identifying genes as potential prognostic indicators in patients with serous ovarian cancer resistant to carboplatin using integrated bioinformatics analysis. Oncol Rep 2018 Jun;39(6):2653-2663. PMID: 29693178
  • Jiang H, Dong L, Gong F, Gu Y et al. Inflammatory genes are novel prognostic biomarkers for colorectal cancer. Int J Mol Med 2018 Jul;42(1):368-380. PMID: 29693170
  • Wang Y, Zhang Y, Huang Q, Li C et al. Integrated bioinformatics analysis reveals key candidate genes and pathways in breast cancer. Mol Med Rep 2018 Jun;17(6):8091-8100. PMID: 29693125
  • Henríquez-Valencia C, Arenas-M A, Medina J, Canales J et al. Integrative Transcriptomic Analysis Uncovers Novel Gene Modules That Underlie the Sulfate Response in Arabidopsis thaliana. Front Plant Sci 2018;9:470. PMID: 29692794
  • Ntini E, Louloupi A, Liz J, Muino JM et al. Long ncRNA A-ROD activates its target gene DKK1 at its release from chromatin. Nat Commun 2018 Apr 24;9(1):1636. PMID: 29691407
  • Du W, Ni L, Liu B, Wei Y et al. Upregulation of SALL4 by EGFR activation regulates the stemness of CD44-positive lung cancer. Oncogenesis 2018 Apr 25;7(4):36. PMID: 29691367
  • E Hermosilla V, Salgado G, Riffo E, Escobar D et al. SALL2 represses cyclins D1 and E1 expression and restrains G1/S cell cycle transition and cancer-related phenotypes. Mol Oncol 2018 Jun;12(7):1026-1046. PMID: 29689621
  • Li Z, Li J, Yu P et al. GEOMetaCuration: a web-based application for accurate manual curation of Gene Expression Omnibus metadata. Database (Oxford) 2018 Jan 1;2018. PMID: 29688376
  • Lakiotaki K, Vorniotakis N, Tsagris M, Georgakopoulos G et al. BioDataome: a collection of uniformly preprocessed and automatically annotated datasets for data-driven biology. Database (Oxford) 2018 Jan 1;2018. PMID: 29688366
  • Gabdank I, Chan ET, Davidson JM, Hilton JA et al. Prevention of data duplication for high throughput sequencing repositories. Database (Oxford) 2018 Jan 1;2018. PMID: 29688363
  • Hu HB, Chen Q, Ding SQ et al. LncRNA LINC01116 competes with miR-145 for the regulation of ESR1 expression in breast cancer. Eur Rev Med Pharmacol Sci 2018 Apr;22(7):1987-1993. PMID: 29687853
  • Moon S, Oo MM, Kim B, Koh HJ et al. Genome-wide analyses of late pollen-preferred genes conserved in various rice cultivars and functional identification of a gene involved in the key processes of late pollen development. Rice (N Y) 2018 Apr 23;11(1):28. PMID: 29687350
  • Tan C, Liu X, Chen J et al. Microarray Analysis of the Molecular Mechanism Involved in Parkinson's Disease. Parkinsons Dis 2018;2018:1590465. PMID: 29686831
  • Saeliw T, Tangsuwansri C, Thongkorn S, Chonchaiya W et al. Integrated genome-wide Alu methylation and transcriptome profiling analyses reveal novel epigenetic regulatory networks associated with autism spectrum disorder. Mol Autism 2018;9:27. PMID: 29686828
  • Mitsuda Y, Morita K, Kashiwazaki G, Taniguchi J et al. RUNX1 positively regulates the ErbB2/HER2 signaling pathway through modulating SOS1 expression in gastric cancer cells. Sci Rep 2018 Apr 23;8(1):6423. PMID: 29686309
  • Sime W, Niu Q, Abassi Y, Masoumi KC et al. BAP1 induces cell death via interaction with 14-3-3 in neuroblastoma. Cell Death Dis 2018 May 1;9(5):458. PMID: 29686263
  • Panja S, Hayati S, Epsi NJ, Parrott JS et al. Integrative (epi) Genomic Analysis to Predict Response to Androgen-Deprivation Therapy in Prostate Cancer. EBioMedicine 2018 May;31:110-121. PMID: 29685789
  • Jiang CF, Shi ZM, Li DM, Qian YC et al. Estrogen-induced miR-196a elevation promotes tumor growth and metastasis via targeting SPRED1 in breast cancer. Mol Cancer 2018 Apr 23;17(1):83. PMID: 29685157
  • Wu J, Xie J, Zhao Y, Gong L et al. Serum Calcium is Related to the Degree of Artery Stenosis in Acute Ischemic Stroke. Cell Physiol Biochem 2018;46(3):1189-1197. PMID: 29684914
  • Mitra S, Biswas A, Narlikar L et al. DIVERSITY in binding, regulation, and evolution revealed from high-throughput ChIP. PLoS Comput Biol 2018 Apr;14(4):e1006090. PMID: 29684008
  • Richmond CS, Oldenburg D, Dancik G, Meier DR et al. Glycogen debranching enzyme (AGL) is a novel regulator of non-small cell lung cancer growth. Oncotarget 2018 Mar 30;9(24):16718-16730. PMID: 29682180
  • Croes L, Beyens M, Fransen E, Ibrahim J et al. Large-scale analysis of DFNA5 methylation reveals its potential as biomarker for breast cancer. Clin Epigenetics 2018;10:51. PMID: 29682089
  • FitzPatrick LM, Hawkins KE, Delhove JMKM, Fernandez E et al. NF-κB Activity Initiates Human ESC-Derived Neural Progenitor Cell Differentiation by Inducing a Metabolic Maturation Program. Stem Cell Reports 2018 Jun 5;10(6):1766-1781. PMID: 29681545
  • Xu Q, Zhu Q, Zhou Z, Wang Y et al. MicroRNA-876-5p inhibits epithelial-mesenchymal transition and metastasis of hepatocellular carcinoma by targeting BCL6 corepressor like 1. Biomed Pharmacother 2018 Jul;103:645-652. PMID: 29679906
  • Cueto R, Zhang L, Shan HM, Huang X et al. Identification of homocysteine-suppressive mitochondrial ETC complex genes and tissue expression profile - Novel hypothesis establishment. Redox Biol 2018 Jul;17:70-88. PMID: 29679893
  • Wang Z, Teng D, Li Y, Hu Z et al. A six-gene-based prognostic signature for hepatocellular carcinoma overall survival prediction. Life Sci 2018 Jun 15;203:83-91. PMID: 29678742
  • Talwar P, Gupta R, Kushwaha S, Agarwal R et al. Viral Induced Oxidative and Inflammatory Response in Alzheimer's Disease Pathogenesis with Identification of Potential Drug Candidates: A Systematic Review using Systems Biology Approach. Curr Neuropharmacol 2019;17(4):352-365. PMID: 29676229
  • Zhang S, Wang Y, Gu Y, Zhu J et al. Specific breast cancer prognosis-subtype distinctions based on DNA methylation patterns. Mol Oncol 2018 Jun;12(7):1047-1060. PMID: 29675884
  • Klett H, Fuellgraf H, Levit-Zerdoun E, Hussung S et al. Identification and Validation of a Diagnostic and Prognostic Multi-Gene Biomarker Panel for Pancreatic Ductal Adenocarcinoma. Front Genet 2018;9:108. PMID: 29675033
  • Jung SImplications of publicly available genomic data resources in searching for therapeutic targets of obesity and type 2 diabetes. Exp Mol Med 2018 Apr 20;50(4):1-13. PMID: 29674722
  • Jung SB, Choi MJ, Ryu D, Yi HS et al. Reduced oxidative capacity in macrophages results in systemic insulin resistance. Nat Commun 2018 Apr 19;9(1):1551. PMID: 29674655
  • Ma S, Avanesov AS, Porter E, Lee BC et al. Comparative transcriptomics across 14 Drosophila species reveals signatures of longevity. Aging Cell 2018 Aug;17(4):e12740. PMID: 29671950
  • Shen Q, Yu M, Jia JK, Li WX et al. Possible Molecular Markers for the Diagnosis of Pancreatic Ductal Adenocarcinoma. Med Sci Monit 2018 Apr 19;24:2368-2376. PMID: 29671412
  • Wang Z, Wu X, Wang Y et al. A framework for analyzing DNA methylation data from Illumina Infinium HumanMethylation450 BeadChip. BMC Bioinformatics 2018 Apr 11;19(Suppl 5):115. PMID: 29671397
  • Fabre O, Ingerslev LR, Garde C, Donkin I et al. Exercise training alters the genomic response to acute exercise in human adipose tissue. Epigenomics 2018 Aug;10(8):1033-1050. PMID: 29671347
  • Sakowicz A, Lisowska M, Biesiada L, Rybak-Krzyszkowska M et al. Association of Maternal and Fetal Single-Nucleotide Polymorphisms in Metalloproteinase (MMP1, MMP2, MMP3, and MMP9) Genes with Preeclampsia. Dis Markers 2018;2018:1371425. PMID: 29670668
  • Nunes S, Silva IB, Ampuero MR, de Noronha ALL et al. Integrated Analysis Reveals That miR-193b, miR-671, and TREM-1 Correlate With a Good Response to Treatment of Human Localized Cutaneous Leishmaniasis Caused by Leishmania braziliensis. Front Immunol 2018;9:640. PMID: 29670621
  • Habiel DM, Moreira AP, Ismailoglu UB, Dunleavy MP et al. TRAIL-Dependent Resolution of Pulmonary Fibrosis. Mediators Inflamm 2018;2018:7934362. PMID: 29670467
  • Xia L, Su X, Shen J, Meng Q et al. ANLN functions as a key candidate gene in cervical cancer as determined by integrated bioinformatic analysis. Cancer Manag Res 2018;10:663-670. PMID: 29670400
  • Zhou L, Du Y, Kong L, Zhang X et al. Identification of molecular target genes and key pathways in hepatocellular carcinoma by bioinformatics analysis. Onco Targets Ther 2018;11:1861-1869. PMID: 29670361
  • Wang GY, Li L, Liu B, Han X et al. Integrated bioinformatic analysis unveils significant genes and pathways in the pathogenesis of supratentorial primitive neuroectodermal tumor. Onco Targets Ther 2018;11:1849-1859. PMID: 29670360
  • He RQ, Cen WL, Cen JM, Cen WN et al. Clinical Significance of miR-210 and its Prospective Signaling Pathways in Non-Small Cell Lung Cancer: Evidence from Gene Expression Omnibus and the Cancer Genome Atlas Data Mining with 2763 Samples and Validation via Real-Time Quantitative PCR. Cell Physiol Biochem 2018;46(3):925-952. PMID: 29669324
  • Wang X, Srivastava Y, Jankowski A, Malik V et al. DNA-mediated dimerization on a compact sequence signature controls enhancer engagement and regulation by FOXA1. Nucleic Acids Res 2018 Jun 20;46(11):5470-5486. PMID: 29669022
  • Xue L, Xie L, Song X, Song X et al. Identification of potential tumor-educated platelets RNA biomarkers in non-small-cell lung cancer by integrated bioinformatical analysis. J Clin Lab Anal 2018 Sep;32(7):e22450. PMID: 29665143
  • Golightly NP, Bell A, Bischoff AI, Hollingsworth PD et al. Curated compendium of human transcriptional biomarker data. Sci Data 2018 Apr 17;5:180066. PMID: 29664470
  • Nsengimana J, Laye J, Filia A, O'Shea S et al. β-Catenin-mediated immune evasion pathway frequently operates in primary cutaneous melanomas. J Clin Invest 2018 May 1;128(5):2048-2063. PMID: 29664013
  • Zhu S, Gao J, Ding T, Xu J et al. Detecting Early Warning Signal of Influenza A Disease Using Sample-Specific Dynamical Network Biomarkers. Biomed Res Int 2018;2018:6807059. PMID: 29662893
  • Lin LT, Liu SY, Leu JD, Chang CY et al. Arsenic trioxide-mediated suppression of miR-182-5p is associated with potent anti-oxidant effects through up-regulation of SESN2. Oncotarget 2018 Mar 23;9(22):16028-16042. PMID: 29662624
  • Piulats JM, Kondo J, Endo H, Ono H et al. Promotion of malignant phenotype after disruption of the three-dimensional structure of cultured spheroids from colorectal cancer. Oncotarget 2018 Mar 23;9(22):15968-15983. PMID: 29662620
  • Zou C, Li L, Cheng X, Li C et al. Identification and Functional Analysis of Long Intergenic Non-coding RNAs Underlying Intramuscular Fat Content in Pigs. Front Genet 2018;9:102. PMID: 29662503
  • Lu J, Liu L, Zheng M, Li X et al. MEKK2 and MEKK3 suppress Hedgehog pathway-dependent medulloblastoma by inhibiting GLI1 function. Oncogene 2018 Jul;37(28):3864-3878. PMID: 29662197
  • Yilmaz A, Peretz M, Aharony A, Sagi I et al. Defining essential genes for human pluripotent stem cells by CRISPR-Cas9 screening in haploid cells. Nat Cell Biol 2018 May;20(5):610-619. PMID: 29662178
  • Yan W, Wu X, Zhou W, Fong MY et al. Cancer-cell-secreted exosomal miR-105 promotes tumour growth through the MYC-dependent metabolic reprogramming of stromal cells. Nat Cell Biol 2018 May;20(5):597-609. PMID: 29662176
  • Kolesnikova TD, Goncharov FP, Zhimulev IF et al. Similarity in replication timing between polytene and diploid cells is associated with the organization of the Drosophila genome. PLoS One 2018;13(4):e0195207. PMID: 29659604
  • Wu Z, Liu Z, Ge W, Shou J et al. Analysis of potential genes and pathways associated with the colorectal normal mucosa-adenoma-carcinoma sequence. Cancer Med 2018 Jun;7(6):2555-2566. PMID: 29659199
  • Wang J, Tian Y, Chen H, Li H et al. Key signaling pathways, genes and transcription factors associated with hepatocellular carcinoma. Mol Med Rep 2018 Jun;17(6):8153-8160. PMID: 29658607
  • Song D, Qi W, Lv M, Yuan C et al. Combined bioinformatics analysis reveals gene expression and DNA methylation patterns in osteoarthritis. Mol Med Rep 2018 Jun;17(6):8069-8078. PMID: 29658578
  • Gaiti F, Hatleberg WL, Tanurdžić M, Degnan BM et al. Sponge Long Non-Coding RNAs Are Expressed in Specific Cell Types and Conserved Networks. Noncoding RNA 2018 Mar 7;4(1). PMID: 29657303
  • Shukla SUnravelling the Long Non-Coding RNA Profile of Undifferentiated Large Cell Lung Carcinoma. Noncoding RNA 2018 Feb 5;4(1). PMID: 29657301
  • Dang YW, Lin P, Liu LM, He RQ et al. In silico analysis of the potential mechanism of telocinobufagin on breast cancer MCF-7 cells. Pathol Res Pract 2018 May;214(5):631-643. PMID: 29656985
  • Shen S, Zhang R, Guo Y, Loehrer E et al. A multi-omic study reveals BTG2 as a reliable prognostic marker for early-stage non-small cell lung cancer. Mol Oncol 2018 Jun;12(6):913-924. PMID: 29656435
  • You R, DeMayo FJ, Liu J, Cho SN et al. IL17A Regulates Tumor Latency and Metastasis in Lung Adeno and Squamous SQ.2b and AD.1 Cancer. Cancer Immunol Res 2018 Jun;6(6):645-657. PMID: 29653981
  • Xue Y, Yin P, Li G, Zhong D et al. Genome-wide Integration Study of Circulating miRNAs and Peripheral Whole-Blood mRNAs of Male Acute Ischemic Stroke Patients. Neuroscience 2018 Jun 1;380:27-37. PMID: 29653195
  • Li RY, Di Felice R, Rohs R, Lidar DA et al. Quantum annealing versus classical machine learning applied to a simplified computational biology problem. npj Quantum Inf 2018;4. PMID: 29652405
  • Anderson KM, Krienen FM, Choi EY, Reinen JM et al. Gene expression links functional networks across cortex and striatum. Nat Commun 2018 Apr 12;9(1):1428. PMID: 29651138
  • Scofield S, Murison A, Jones A, Fozard J et al. Coordination of meristem and boundary functions by transcription factors in the SHOOT MERISTEMLESS regulatory network. Development 2018 Apr 30;145(9). PMID: 29650590
  • Pidsley R, Lawrence MG, Zotenko E, Niranjan B et al. Enduring epigenetic landmarks define the cancer microenvironment. Genome Res 2018 May;28(5):625-638. PMID: 29650553
  • Pan X, Hu X, Zhang YH, Feng K et al. Identifying Patients with Atrioventricular Septal Defect in Down Syndrome Populations by Using Self-Normalizing Neural Networks and Feature Selection. Genes (Basel) 2018 Apr 12;9(4). PMID: 29649131
  • Mulqueen RM, Pokholok D, Norberg SJ, Torkenczy KA et al. Highly scalable generation of DNA methylation profiles in single cells. Nat Biotechnol 2018 Jun;36(5):428-431. PMID: 29644997
  • Cui C, Li L, Zhen J et al. Bioinformatic analysis reveals the key pathways and genes in early-onset breast cancer. Med Oncol 2018 Apr 11;35(5):67. PMID: 29644522
  • Tsai CK, Huang LC, Tsai WC, Huang SM et al. Overexpression of PLOD3 promotes tumor progression and poor prognosis in gliomas. Oncotarget 2018 Mar 20;9(21):15705-15720. PMID: 29644003
  • Zhang TJ, Zhou JD, Zhang W, Lin J et al. H19 overexpression promotes leukemogenesis and predicts unfavorable prognosis in acute myeloid leukemia. Clin Epigenetics 2018;10:47. PMID: 29643943
  • El-Sherbiny YM, Psarras A, Md Yusof MY, Hensor EMA et al. A novel two-score system for interferon status segregates autoimmune diseases and correlates with clinical features. Sci Rep 2018 Apr 11;8(1):5793. PMID: 29643425
  • Cronk JC, Filiano AJ, Louveau A, Marin I et al. Peripherally derived macrophages can engraft the brain independent of irradiation and maintain an identity distinct from microglia. J Exp Med 2018 Jun 4;215(6):1627-1647. PMID: 29643186
  • KalantarMotamedi Y, Eastman RT, Guha R, Bender A et al. A systematic and prospectively validated approach for identifying synergistic drug combinations against malaria. Malar J 2018 Apr 11;17(1):160. PMID: 29642892
  • Xiao B, Chen L, Ke Y, Hang J et al. Identification of methylation sites and signature genes with prognostic value for luminal breast cancer. BMC Cancer 2018 Apr 11;18(1):405. PMID: 29642861
  • Dong L, Li H, Zhang S, Su L et al. Identification of genes related to consecutive trauma-induced sepsis via gene expression profiling analysis. Medicine (Baltimore) 2018 Apr;97(15):e0362. PMID: 29642183
  • Tchourine K, Vogel C, Bonneau R et al. Condition-Specific Modeling of Biophysical Parameters Advances Inference of Regulatory Networks. Cell Rep 2018 Apr 10;23(2):376-388. PMID: 29641998
  • Schaefer KN, Bonello TT, Zhang S, Williams CE et al. Supramolecular assembly of the beta-catenin destruction complex and the effect of Wnt signaling on its localization, molecular size, and activity in vivo. PLoS Genet 2018 Apr;14(4):e1007339. PMID: 29641560
  • Aruna, Li LM et al. Overexpression of golgi membrane protein 1 promotes non-small-cell carcinoma aggressiveness by regulating the matrix metallopeptidase 13. Am J Cancer Res 2018;8(3):551-565. PMID: 29637008
  • Zhao X, Sun S, Zeng X, Cui L et al. Expression profiles analysis identifies a novel three-mRNA signature to predict overall survival in oral squamous cell carcinoma. Am J Cancer Res 2018;8(3):450-461. PMID: 29637000
  • Lachmann A, Torre D, Keenan AB, Jagodnik KM et al. Massive mining of publicly available RNA-seq data from human and mouse. Nat Commun 2018 Apr 10;9(1):1366. PMID: 29636450
  • Luo J, Shi K, Yin SY, Tang RX et al. Clinical value of miR-182-5p in lung squamous cell carcinoma: a study combining data from TCGA, GEO, and RT-qPCR validation. World J Surg Oncol 2018 Apr 10;16(1):76. PMID: 29636077
  • Huang J, Duran A, Reina-Campos M, Valencia T et al. Adipocyte p62/SQSTM1 Suppresses Tumorigenesis through Opposite Regulations of Metabolism in Adipose Tissue and Tumor. Cancer Cell 2018 Apr 9;33(4):770-784.e6. PMID: 29634950
  • Xue D, Lu H, Xu HY, Zhou CX et al. Long noncoding RNA MALAT1 enhances the docetaxel resistance of prostate cancer cells via miR-145-5p-mediated regulation of AKAP12. J Cell Mol Med 2018 Jun;22(6):3223-3237. PMID: 29633510
  • Small KS, Todorčević M, Civelek M, El-Sayed Moustafa JS et al. Regulatory variants at KLF14 influence type 2 diabetes risk via a female-specific effect on adipocyte size and body composition. Nat Genet 2018 Apr;50(4):572-580. PMID: 29632379
  • Liu J, Reggiani JDS, Laboulaye MA, Pandey S et al. Tbr1 instructs laminar patterning of retinal ganglion cell dendrites. Nat Neurosci 2018 May;21(5):659-670. PMID: 29632360
  • Liu B, Yang H, Taher L, Denz A et al. Identification of Prognostic Biomarkers by Combined mRNA and miRNA Expression Microarray Analysis in Pancreatic Cancer. Transl Oncol 2018 Jun;11(3):700-714. PMID: 29631214
  • Karch CM, Wen N, Fan CC, Yokoyama JS et al. Selective Genetic Overlap Between Amyotrophic Lateral Sclerosis and Diseases of the Frontotemporal Dementia Spectrum. JAMA Neurol 2018 Jul 1;75(7):860-875. PMID: 29630712
  • Kadur Lakshminarasimha Murthy P, Srinivasan T, Bochter MS, Xi R et al. Radical and lunatic fringes modulate notch ligands to support mammalian intestinal homeostasis. Elife 2018 Apr 9;7. PMID: 29629872
  • Lu ZW, Du MY, Qian LX, Zhang N et al. MiR-152 functioning as a tumor suppressor that interacts with DNMT1 in nasopharyngeal carcinoma. Onco Targets Ther 2018;11:1733-1741. PMID: 29628766
  • Daniel E, Azizoglu DB, Ryan AR, Walji TA et al. Spatiotemporal heterogeneity and patterning of developing renal blood vessels. Angiogenesis 2018 Aug;21(3):617-634. PMID: 29627966
  • Chen W, Zhang L, Zhou ZQ, Ren YQ et al. Effects of Long Non-Coding RNA LINC00963 on Renal Interstitial Fibrosis and Oxidative Stress of Rats with Chronic Renal Failure via the Foxo Signaling Pathway. Cell Physiol Biochem 2018;46(2):815-828. PMID: 29627834
  • Zhang X, Wang Y, Yuan J, Li N et al. Macrophage/microglial Ezh2 facilitates autoimmune inflammation through inhibition of Socs3. J Exp Med 2018 May 7;215(5):1365-1382. PMID: 29626115
  • Wang X, Prager BC, Wu Q, Kim LJY et al. Reciprocal Signaling between Glioblastoma Stem Cells and Differentiated Tumor Cells Promotes Malignant Progression. Cell Stem Cell 2018 Apr 5;22(4):514-528.e5. PMID: 29625067
  • Malta TM, Sokolov A, Gentles AJ, Burzykowski T et al. Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation. Cell 2018 Apr 5;173(2):338-354.e15. PMID: 29625051
  • Hao M, Ji XR, Chen H, Zhang W et al. Cell cycle and complement inhibitors may be specific for treatment of spinal cord injury in aged and young mice: Transcriptomic analyses. Neural Regen Res 2018 Mar;13(3):518-527. PMID: 29623939
  • Dang LT, Tondl M, Chiu MHH, Revote J et al. TrawlerWeb: an online de novo motif discovery tool for next-generation sequencing datasets. BMC Genomics 2018 Apr 5;19(1):238. PMID: 29621972
  • Wang G, Zhao W, Yang Y, Yang G et al. Identification of biomarkers of venous thromboembolism by bioinformatics analyses. Medicine (Baltimore) 2018 Apr;97(14):e0152. PMID: 29620629
  • Lin R, Wang Y, Chen Q, Liu Z et al. TRPM2 promotes the proliferation and invasion of pancreatic ductal adenocarcinoma. Mol Med Rep 2018 Jun;17(6):7537-7544. PMID: 29620272
  • Liu W, Li L, Ye H, Tao H et al. Role of COL6A3 in colorectal cancer. Oncol Rep 2018 Jun;39(6):2527-2536. PMID: 29620224
  • Shen J, Zhu B et al. Integrated analysis of the gene expression profile and DNA methylation profile of obese patients with type 2 diabetes. Mol Med Rep 2018 Jun;17(6):7636-7644. PMID: 29620215
  • Pan Z, Ding Q, Guo Q, Guo Y et al. MORC2, a novel oncogene, is upregulated in liver cancer and contributes to proliferation, metastasis and chemoresistance. Int J Oncol 2018 Jul;53(1):59-72. PMID: 29620211
  • Ma WX, Huang XG, Yang TK, Yao JY et al. Involvement of dysregulated coding and long non‑coding RNAs in the pathogenesis of strabismus. Mol Med Rep 2018 Jun;17(6):7737-7745. PMID: 29620205
  • Li L, Liu H, Hu X, Huang Y et al. Identification of key genes in non‑alcoholic fatty liver disease progression based on bioinformatics analysis. Mol Med Rep 2018 Jun;17(6):7708-7720. PMID: 29620197
  • Wang J, Liang WJ, Min GT, Wang HP et al. LTBP2 promotes the migration and invasion of gastric cancer cells and predicts poor outcome of patients with gastric cancer. Int J Oncol 2018 Jun;52(6):1886-1898. PMID: 29620158
  • Sng MK, Chan JSK, Teo Z, Phua T et al. Selective deletion of PPARβ/δ in fibroblasts causes dermal fibrosis by attenuated LRG1 expression. Cell Discov 2018;4:15. PMID: 29619245
  • Zhu K, Wang X, Liu J, Tang J et al. The grapevine kinome: annotation, classification and expression patterns in developmental processes and stress responses. Hortic Res 2018;5:19. PMID: 29619230
  • Malavolta M, Bracci M, Santarelli L, Sayeed MA et al. Inducers of Senescence, Toxic Compounds, and Senolytics: The Multiple Faces of Nrf2-Activating Phytochemicals in Cancer Adjuvant Therapy. Mediators Inflamm 2018;2018:4159013. PMID: 29618945
  • Cervantes-Gracia K, Husi H et al. Integrative analysis of Multiple Sclerosis using a systems biology approach. Sci Rep 2018 Apr 4;8(1):5633. PMID: 29618802
  • Murray PG, Stevens A, De Leonibus C, Koledova E et al. Transcriptomics and machine learning predict diagnosis and severity of growth hormone deficiency. JCI Insight 2018 Apr 5;3(7). PMID: 29618660
  • Wang M, Tai C, E W, Wei L et al. DeFine: deep convolutional neural networks accurately quantify intensities of transcription factor-DNA binding and facilitate evaluation of functional non-coding variants. Nucleic Acids Res 2018 Jun 20;46(11):e69. PMID: 29617928
  • Ricketts CJ, De Cubas AA, Fan H, Smith CC et al. The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma. Cell Rep 2018 Apr 3;23(1):313-326.e5. PMID: 29617669
  • Way GP, Sanchez-Vega F, La K, Armenia J et al. Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas. Cell Rep 2018 Apr 3;23(1):172-180.e3. PMID: 29617658
  • Liu JC, Granieri L, Shrestha M, Wang DY et al. Identification of CDC25 as a Common Therapeutic Target for Triple-Negative Breast Cancer. Cell Rep 2018 Apr 3;23(1):112-126. PMID: 29617654
  • Zandvakili A, Campbell I, Gutzwiller LM, Weirauch MT et al. Degenerate Pax2 and Senseless binding motifs improve detection of low-affinity sites required for enhancer specificity. PLoS Genet 2018 Apr;14(4):e1007289. PMID: 29617378
  • Gan XN, Gan TQ, He RQ, Luo J et al. Clinical significance of high expression of miR-452-5p in lung squamous cell carcinoma. Oncol Lett 2018 May;15(5):6418-6430. PMID: 29616113
  • Castillo-Rodríguez RA, Dávila-Borja VM, Juárez-Méndez S et al. Data mining of pediatric medulloblastoma microarray expression reveals a novel potential subdivision of the Group 4 molecular subgroup. Oncol Lett 2018 May;15(5):6241-6250. PMID: 29616106
  • Wu Y, Wang Y, Liu M, Nie M et al. Suv4-20h1 promotes G1 to S phase transition by downregulating p21(WAF1/CIP1) expression in chronic myeloid leukemia K562 cells. Oncol Lett 2018 May;15(5):6123-6130. PMID: 29616094
  • Zhao Q, Sun X, Liu C, Li T et al. Expression of the microRNA-143/145 cluster is decreased in hepatitis B virus-associated hepatocellular carcinoma and may serve as a biomarker for tumorigenesis in patients with chronic hepatitis B. Oncol Lett 2018 May;15(5):6115-6122. PMID: 29616093
  • Yuan W, Xie S, Wang M, Pan S et al. Bioinformatic analysis of prognostic value of ZW10 interacting protein in lung cancer. Onco Targets Ther 2018;11:1683-1695. PMID: 29615843
  • Woods SM, Mountjoy E, Muir D, Ross SE et al. A comparative analysis of rod bipolar cell transcriptomes identifies novel genes implicated in night vision. Sci Rep 2018 Apr 3;8(1):5506. PMID: 29615777
  • Sagers JE, Brown AS, Vasilijic S, Lewis RM et al. Computational repositioning and preclinical validation of mifepristone for human vestibular schwannoma. Sci Rep 2018 Apr 3;8(1):5437. PMID: 29615643
  • Zhao S, Shen W, Yu J, Wang L et al. TBX21 predicts prognosis of patients and drives cancer stem cell maintenance via the TBX21-IL-4 pathway in lung adenocarcinoma. Stem Cell Res Ther 2018 Apr 3;9(1):89. PMID: 29615105
  • Yang F, Wang M, Zhang B, Xiang W et al. Identification of new progestogen-associated networks in mammalian ovulation using bioinformatics. BMC Syst Biol 2018 Apr 3;12(1):36. PMID: 29615037
  • Nepomuceno JA, Troncoso A, Nepomuceno-Chamorro IA, Aguilar-Ruiz JS et al. Pairwise gene GO-based measures for biclustering of high-dimensional expression data. BioData Min 2018;11:4. PMID: 29610579
  • Zhou W, Dinh HQ, Ramjan Z, Weisenberger DJ et al. DNA methylation loss in late-replicating domains is linked to mitotic cell division. Nat Genet 2018 Apr;50(4):591-602. PMID: 29610480
  • Liu WT, Wang Y, Zhang J, Ye F et al. A novel strategy of integrated microarray analysis identifies CENPA, CDK1 and CDC20 as a cluster of diagnostic biomarkers in lung adenocarcinoma. Cancer Lett 2018 Jul 1;425:43-53. PMID: 29608985
  • Haghverdi L, Lun ATL, Morgan MD, Marioni JC et al. Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors. Nat Biotechnol 2018 Jun;36(5):421-427. PMID: 29608177
  • Chen G, Li Y, Su Y, Zhou L et al. Identification of candidate genes for necrotizing enterocolitis based on microarray data. Gene 2018 Jun 30;661:152-159. PMID: 29605607
  • McKeever PM, Schneider R, Taghdiri F, Weichert A et al. MicroRNA Expression Levels Are Altered in the Cerebrospinal Fluid of Patients with Young-Onset Alzheimer's Disease. Mol Neurobiol 2018 Dec;55(12):8826-8841. PMID: 29603092
  • Zong L, Sun Q, Zhang H, Chen Z et al. Increased expression of circRNA_102231 in lung cancer and its clinical significance. Biomed Pharmacother 2018 Jun;102:639-644. PMID: 29602132
  • Wei L, Xin C, Wang W, Hao C et al. Microarray analysis of obese women with polycystic ovary syndrome for key gene screening, key pathway identification and drug prediction. Gene 2018 Jun 30;661:85-94. PMID: 29601948
  • Zhang Y, Xu Y, Li Z, Zhu Y et al. Identification of the key transcription factors in esophageal squamous cell carcinoma. J Thorac Dis 2018 Jan;10(1):148-161. PMID: 29600044
  • Marchal C, Sasaki T, Vera D, Wilson K et al. Genome-wide analysis of replication timing by next-generation sequencing with E/L Repli-seq. Nat Protoc 2018 May;13(5):819-839. PMID: 29599440
  • Tang R, Lin YM, Liu HX, Wang ES et al. Neuroprotective effect of docosahexaenoic acid in rat traumatic brain injury model via regulation of TLR4/NF-Kappa B signaling pathway. Int J Biochem Cell Biol 2018 Jun;99:64-71. PMID: 29597004
  • Nicolau-Neto P, Palumbo A, De Martino M, Esposito F et al. UBE2C Is a Transcriptional Target of the Cell Cycle Regulator FOXM1. Genes (Basel) 2018 Mar 29;9(4). PMID: 29596365
  • Magee RG, Telonis AG, Loher P, Londin E et al. Profiles of miRNA Isoforms and tRNA Fragments in Prostate Cancer. Sci Rep 2018 Mar 28;8(1):5314. PMID: 29593348
  • Sehgal A, Donaldson DS, Pridans C, Sauter KA et al. The role of CSF1R-dependent macrophages in control of the intestinal stem-cell niche. Nat Commun 2018 Mar 28;9(1):1272. PMID: 29593242
  • Ye B, Liu B, Hao L, Zhu X et al. Klf4 glutamylation is required for cell reprogramming and early embryonic development in mice. Nat Commun 2018 Mar 28;9(1):1261. PMID: 29593216
  • Gruber AJ, Schmidt R, Ghosh S, Martin G et al. Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPAC. Genome Biol 2018 Mar 28;19(1):44. PMID: 29592812
  • Woldesemayat AA, Modise DM, Gemeildien J, Ndimba BK et al. Cross-species multiple environmental stress responses: An integrated approach to identify candidate genes for multiple stress tolerance in sorghum (Sorghum bicolor (L.) Moench) and related model species. PLoS One 2018;13(3):e0192678. PMID: 29590108
  • Foroughi Pour A, Dalton LA et al. Heuristic algorithms for feature selection under Bayesian models with block-diagonal covariance structure. BMC Bioinformatics 2018 Mar 21;19(Suppl 3):70. PMID: 29589558
  • Zhao Q, Zhu Y, Liu L, Wang H et al. STK39 blockage by RNA interference inhibits the proliferation and induces the apoptosis of renal cell carcinoma. Onco Targets Ther 2018;11:1511-1519. PMID: 29588603
  • Yang X, Zhu S, Li L, Zhang L et al. Identification of differentially expressed genes and signaling pathways in ovarian cancer by integrated bioinformatics analysis. Onco Targets Ther 2018;11:1457-1474. PMID: 29588600
  • Liu Q, Dang H, Chen Z, Wu J et al. Genome-Wide Identification, Expression, and Functional Analysis of the Sugar Transporter Gene Family in Cassava (Manihot esculenta). Int J Mol Sci 2018 Mar 26;19(4). PMID: 29587418
  • Nagel S, Pommerenke C, Meyer C, Kaufmann M et al. Aberrant expression of NKL homeobox gene HLX in Hodgkin lymphoma. Oncotarget 2018 Mar 6;9(18):14338-14353. PMID: 29581848
  • Whitehead MJ, McGonigal R, Willison HJ, Barnett SC et al. Heparanase attenuates axon degeneration following sciatic nerve transection. Sci Rep 2018 Mar 26;8(1):5219. PMID: 29581478
  • Li W, Adebali O, Yang Y, Selby CP et al. Single-nucleotide resolution dynamic repair maps of UV damage in Saccharomyces cerevisiae genome. Proc Natl Acad Sci U S A 2018 Apr 10;115(15):E3408-E3415. PMID: 29581276
  • Khristi V, Chakravarthi VP, Singh P, Ghosh S et al. ESR2 regulates granulosa cell genes essential for follicle maturation and ovulation. Mol Cell Endocrinol 2018 Oct 15;474:214-226. PMID: 29580824
  • Reid AJ, Talman AM, Bennett HM, Gomes AR et al. Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites. Elife 2018 Mar 27;7. PMID: 29580379
  • Paz H, Joo EJ, Chou CH, Fei F et al. Treatment of B-cell precursor acute lymphoblastic leukemia with the Galectin-1 inhibitor PTX008. J Exp Clin Cancer Res 2018 Mar 27;37(1):67. PMID: 29580262
  • Chauhan R, Datzkiw D, Varma Shrivastav S, Shrivastav A et al. In silico identification of microRNAs predicted to regulate N-myristoyltransferase and Methionine Aminopeptidase 2 functions in cancer and infectious diseases. PLoS One 2018;13(3):e0194612. PMID: 29579063
  • Li B, Li N, Zhang L, Li K et al. Hsa_circ_0001859 Regulates ATF2 Expression by Functioning as an MiR-204/211 Sponge in Human Rheumatoid Arthritis. J Immunol Res 2018;2018:9412387. PMID: 29577053
  • Sances S, Ho R, Vatine G, West D et al. Human iPSC-Derived Endothelial Cells and Microengineered Organ-Chip Enhance Neuronal Development. Stem Cell Reports 2018 Apr 10;10(4):1222-1236. PMID: 29576540
  • Tao F, Tian X, Lu M, Zhang Z et al. A novel lncRNA, Lnc-OC1, promotes ovarian cancer cell proliferation and migration by sponging miR-34a and miR-34c. J Genet Genomics 2018 Mar 20;45(3):137-145. PMID: 29576507
  • Yang L, Wang X, Xu J, Wen Y et al. Integrated transcriptomic and proteomic analyses reveal ɑ-lipoic acid-regulated cell proliferation via Grb2-mediated signalling in hepatic cancer cells. J Cell Mol Med 2018 Jun;22(6):2981-2992. PMID: 29575431
  • Li J, Liu Y, Wang Y, Xu W et al. Expression of tenascin-C in a rat vocal fold injury model and its regulation of fibroblasts. Laryngoscope 2018 Sep;128(9):E316-E322. PMID: 29572861
  • Bratkovič T, Modic M, Camargo Ortega G, Drukker M et al. Neuronal differentiation induces SNORD115 expression and is accompanied by post-transcriptional changes of serotonin receptor 2c mRNA. Sci Rep 2018 Mar 23;8(1):5101. PMID: 29572515
  • Tomczak A, Mortensen JM, Winnenburg R, Liu C et al. Interpretation of biological experiments changes with evolution of the Gene Ontology and its annotations. Sci Rep 2018 Mar 23;8(1):5115. PMID: 29572502
  • Tosti L, Ashmore J, Tan BSN, Carbone B et al. Mapping transcription factor occupancy using minimal numbers of cells in vitro and in vivo. Genome Res 2018 Apr;28(4):592-605. PMID: 29572359
  • Yu S, Lemos B et al. The long-range interaction map of ribosomal DNA arrays. PLoS Genet 2018 Mar;14(3):e1007258. PMID: 29570716
  • Croteau-Chonka DC, Raby BA et al. TREM-1 Response Signatures Common to Expression Profiles of Both Asthma Affection and Asthma Control. Am J Respir Crit Care Med 2018 Aug 1;198(3):401-404. PMID: 29570347
  • Wang J, Tan M, Ge J, Zhang P et al. Lysosomal acid lipase promotes cholesterol ester metabolism and drives clear cell renal cell carcinoma progression. Cell Prolif 2018 Aug;51(4):e12452. PMID: 29569766
  • Zhou M, Ding Y, Cai L, Wang Y et al. Low molecular weight fucoidan attenuates experimental abdominal aortic aneurysm through interfering the leukocyte-endothelial cells interaction. Mol Med Rep 2018 May;17(5):7089-7096. PMID: 29568947
  • Sun D, Wang X, Sui G, Chen S et al. Downregulation of miR-374b-5p promotes chemotherapeutic resistance in pancreatic cancer by upregulating multiple anti-apoptotic proteins. Int J Oncol 2018 May;52(5):1491-1503. PMID: 29568910
  • Xie Y, Liu Y, Li Q, Chen J et al. Polo-like kinase 2 promotes chemoresistance and predicts limited survival benefit from adjuvant chemotherapy in colorectal cancer. Int J Oncol 2018 May;52(5):1401-1414. PMID: 29568868
  • Asghari M, Abazari MF, Bokharaei H, Aleagha MN et al. Key genes and regulatory networks involved in the initiation, progression and invasion of colorectal cancer. Future Sci OA 2018 Mar;4(3):FSO278. PMID: 29568567
  • Dunne PD, Coleman HG, Bankhead P, Alderdice M et al. Bcl-xL as a poor prognostic biomarker and predictor of response to adjuvant chemotherapy specifically in BRAF-mutant stage II and III colon cancer. Oncotarget 2018 Mar 2;9(17):13834-13847. PMID: 29568398
  • Antonelli M, Fadda A, Loi E, Moi L et al. Integrated DNA methylation analysis identifies topographical and tumoral biomarkers in pilocytic astrocytomas. Oncotarget 2018 Mar 2;9(17):13807-13821. PMID: 29568396
  • Dewi FRP, Domoto T, Hazawa M, Kobayashi A et al. Colorectal cancer cells require glycogen synthase kinase-3β for sustaining mitosis via translocated promoter region (TPR)-dynein interaction. Oncotarget 2018 Mar 2;9(17):13337-13352. PMID: 29568361
  • Zhang C, Zhang CD, Ma MH, Dai DQ et al. Three-microRNA signature identified by bioinformatics analysis predicts prognosis of gastric cancer patients. World J Gastroenterol 2018 Mar 21;24(11):1206-1215. PMID: 29568201
  • Baharlou Houreh M, Ghorbani Kalkhajeh P, Niazi A, Ebrahimi F et al. SpliceDetector: a software for detection of alternative splicing events in human and model organisms directly from transcript IDs. Sci Rep 2018 Mar 22;8(1):5063. PMID: 29567976
  • Liu J, Jia Y, Jia L, Li T et al. MicroRNA 615-3p Inhibits the Tumor Growth and Metastasis of NSCLC via Inhibiting IGF2. Oncol Res 2019 Feb 5;27(2):269-279. PMID: 29562959
  • Hill RZ, Hoffman BU, Morita T, Campos SM et al. The signaling lipid sphingosine 1-phosphate regulates mechanical pain. Elife 2018 Mar 21;7. PMID: 29561262
  • Florio M, Heide M, Pinson A, Brandl H et al. Evolution and cell-type specificity of human-specific genes preferentially expressed in progenitors of fetal neocortex. Elife 2018 Mar 21;7. PMID: 29561261
  • Furuta S, Ren G, Mao JH, Bissell MJ et al. Laminin signals initiate the reciprocal loop that informs breast-specific gene expression and homeostasis by activating NO, p53 and microRNAs. Elife 2018 Mar 21;7. PMID: 29560860
  • Park S, Kim JM, Shin W, Han SW et al. BTNET : boosted tree based gene regulatory network inference algorithm using time-course measurement data. BMC Syst Biol 2018 Mar 19;12(Suppl 2):20. PMID: 29560827
  • Mishra P, Lee NR, Lakshmanan M, Kim M et al. Genome-scale model-driven strain design for dicarboxylic acid production in Yarrowia lipolytica. BMC Syst Biol 2018 Mar 19;12(Suppl 2):12. PMID: 29560822
  • Kameshwar AKS, Qin W et al. Molecular Networks of Postia placenta Involved in Degradation of Lignocellulosic Biomass Revealed from Metadata Analysis of Open Access Gene Expression Data. Int J Biol Sci 2018;14(3):237-252. PMID: 29559843
  • Hovingh ES, Mariman R, Solans L, Hijdra D et al. Bordetella pertussis pertactin knock-out strains reveal immunomodulatory properties of this virulence factor. Emerg Microbes Infect 2018 Mar 21;7(1):39. PMID: 29559630
  • Gao L, Zhang LJ, Li SH, Wei LL et al. Role of miR-452-5p in the tumorigenesis of prostate cancer: A study based on the Cancer Genome Atl(TCGA), Gene Expression Omnibus (GEO), and bioinformatics analysis. Pathol Res Pract 2018 May;214(5):732-749. PMID: 29559248
  • Saberi Anvar M, Minuchehr Z, Shahlaei M, Kheitan S et al. Gastric cancer biomarkers; A systems biology approach. Biochem Biophys Rep 2018 Mar;13:141-146. PMID: 29556568
  • Altara R, Zouein FA, Brandão RD, Bajestani SN et al. In Silico Analysis of Differential Gene Expression in Three Common Rat Models of Diastolic Dysfunction. Front Cardiovasc Med 2018;5:11. PMID: 29556499
  • Huang K, Fang C, Yi K, Liu X et al. The role of PTRF/Cavin1 as a biomarker in both glioma and serum exosomes. Theranostics 2018;8(6):1540-1557. PMID: 29556340
  • Kelly AD, Madzo J, Madireddi P, Kropf P et al. Demethylator phenotypes in acute myeloid leukemia. Leukemia 2018 Oct;32(10):2178-2188. PMID: 29556023
  • Moradifard S, Hoseinbeyki M, Ganji SM, Minuchehr Z et al. Analysis of microRNA and Gene Expression Profiles in Alzheimer's Disease: A Meta-Analysis Approach. Sci Rep 2018 Mar 19;8(1):4767. PMID: 29555910
  • Pita-Juárez Y, Altschuler G, Kariotis S, Wei W et al. The Pathway Coexpression Network: Revealing pathway relationships. PLoS Comput Biol 2018 Mar;14(3):e1006042. PMID: 29554099
  • Svensson V, Teichmann SA, Stegle O et al. SpatialDE: identification of spatially variable genes. Nat Methods 2018 May;15(5):343-346. PMID: 29553579
  • Jain M, Olsen HE, Turner DJ, Stoddart D et al. Linear assembly of a human centromere on the Y chromosome. Nat Biotechnol 2018 Apr;36(4):321-323. PMID: 29553574
  • Yan S, Wu G et al. Could ALDH2(*)2 be the reason for low incidence and mortality of ovarian cancer for East Asia women? Oncotarget 2018 Feb 23;9(15):12503-12512. PMID: 29552329
  • Wu CC, Lin JD, Chen JT, Chang CM et al. Integrated analysis of fine-needle-aspiration cystic fluid proteome, cancer cell secretome, and public transcriptome datasets for papillary thyroid cancer biomarker discovery. Oncotarget 2018 Feb 23;9(15):12079-12100. PMID: 29552294
  • He RQ, Yang X, Liang L, Chen G et al. MicroRNA-124-3p expression and its prospective functional pathways in hepatocellular carcinoma: A quantitative polymerase chain reaction, gene expression omnibus and bioinformatics study. Oncol Lett 2018 Apr;15(4):5517-5532. PMID: 29552191
  • Leng D, Miao R, Huang X, Wang Y et al. In silico analysis identifies CRISP3 as a potential peripheral blood biomarker for multiple myeloma: From data modeling to validation with RT-PCR. Oncol Lett 2018 Apr;15(4):5167-5174. PMID: 29552153
  • Zheng LQ, Li SY, Li CX et al. Expression profiling analysis of autophagy-related genes in perineural invasion of cutaneous squamous cell carcinoma. Oncol Lett 2018 Apr;15(4):4837-4848. PMID: 29552123
  • Ravichandran S, Michelucci A, Del Sol A et al. Integrative Computational Network Analysis Reveals Site-Specific Mediators of Inflammation in Alzheimer's Disease. Front Physiol 2018;9:154. PMID: 29551980
  • Seah CS, Kasim S, Fudzee MFM, Law Tze Ping JM et al. An enhanced topologically significant directed random walk in cancer classification using gene expression datasets. Saudi J Biol Sci 2017 Dec;24(8):1828-1841. PMID: 29551932
  • Ceronie B, Jacobs BM, Baker D, Dubuisson N et al. Cladribine treatment of multiple sclerosis is associated with depletion of memory B cells. J Neurol 2018 May;265(5):1199-1209. PMID: 29550884
  • Ashbrook DG, Hing B, Michalovicz LT, Kelly KA et al. Epigenetic impacts of stress priming of the neuroinflammatory response to sarin surrogate in mice: a model of Gulf War illness. J Neuroinflammation 2018 Mar 17;15(1):86. PMID: 29549885
  • Zhao L, Wang W, Huang S, Yang Z et al. The RNA binding protein SORBS2 suppresses metastatic colonization of ovarian cancer by stabilizing tumor-suppressive immunomodulatory transcripts. Genome Biol 2018 Mar 16;19(1):35. PMID: 29548303
  • Cole C, Byrne A, Beaudin AE, Forsberg EC et al. Tn5Prime, a Tn5 based 5' capture method for single cell RNA-seq. Nucleic Acids Res 2018 Jun 1;46(10):e62. PMID: 29548006
  • Wang Y, Ye F, Huang C, Xue F et al. Bioinformatic Analysis of Potential Biomarkers for Spinal Cord-injured Patients with Intractable Neuropathic Pain. Clin J Pain 2018 Sep;34(9):825-830. PMID: 29547407
  • Chowdhury S, Sinha N, Ganguli P, Bhowmick R et al. BIOPYDB: A Dynamic Human Cell Specific Biochemical Pathway Database with Advanced Computational Analyses Platform. J Integr Bioinform 2018 Mar 16;15(3). PMID: 29547394
  • Gao H, Yang M, Zhang X et al. Investigating a multigene prognostic assay based on significant pathways for Luminal A breast cancer through gene expression profile analysis. Oncol Lett 2018 Apr;15(4):5027-5033. PMID: 29545900
  • Chen L, Jiang Y, Du Z et al. Molecular differences between mature and immature dental pulp cells: Bioinformatics and preliminary results. Exp Ther Med 2018 Apr;15(4):3362-3368. PMID: 29545856
  • de Anda-Jáuregui G, Guo K, McGregor BA, Hur J et al. Exploration of the Anti-Inflammatory Drug Space Through Network Pharmacology: Applications for Drug Repurposing. Front Physiol 2018;9:151. PMID: 29545755
  • Miskolczi Z, Smith MP, Rowling EJ, Ferguson J et al. Collagen abundance controls melanoma phenotypes through lineage-specific microenvironment sensing. Oncogene 2018 Jun;37(23):3166-3182. PMID: 29545604
  • Zhang Z, Xue Z, Liu Y, Liu H et al. MicroRNA-181c promotes Th17 cell differentiation and mediates experimental autoimmune encephalomyelitis. Brain Behav Immun 2018 May;70:305-314. PMID: 29545117
  • Mourad R, Ginalski K, Legube G, Cuvier O et al. Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution. Genome Biol 2018 Mar 15;19(1):34. PMID: 29544533
  • Garranzo-Asensio M, San Segundo-Acosta P, Martínez-Useros J, Montero-Calle A et al. Identification of prefrontal cortex protein alterations in Alzheimer's disease. Oncotarget 2018 Feb 16;9(13):10847-10867. PMID: 29541381
  • Liu W, Ye H, Liu YF, Xu CQ et al. Transcriptome-derived stromal and immune scores infer clinical outcomes of patients with cancer. Oncol Lett 2018 Apr;15(4):4351-4357. PMID: 29541203
  • Yang H, Li Y, Zhong X, Luo P et al. Upregulation of microRNA-32 is associated with tumorigenesis and poor prognosis in patients with hepatocellular carcinoma. Oncol Lett 2018 Apr;15(4):4097-4104. PMID: 29541175
  • Werner ER, Keller MA, Sailer S, Seppi D et al. A novel assay for the introduction of the vinyl ether double bond into plasmalogens using pyrene-labeled substrates. J Lipid Res 2018 May;59(5):901-909. PMID: 29540573
  • Schwedler C, Häupl T, Kalus U, Blanchard V et al. Hypogalactosylation of immunoglobulin G in rheumatoid arthritis: relationship to HLA-DRB1 shared epitope, anticitrullinated protein antibodies, rheumatoid factor, and correlation with inflammatory activity. Arthritis Res Ther 2018 Mar 14;20(1):44. PMID: 29540200
  • Xiao Z, Huang R, Xing X, Chen Y et al. De novo annotation and characterization of the translatome with ribosome profiling data. Nucleic Acids Res 2018 Jun 1;46(10):e61. PMID: 29538776
  • Li H, Zhen Y, Geng Y, Feng J et al. Exploring the Molecular Mechanism of Thoracic Aortic Aneurysm via Bioinformatics Analysis. Med Sci Monit 2018 Mar 14;24:1533-1539. PMID: 29538353
  • Zhang RK, Li GW, Jiang D, Zhang DW et al. [Transcription factors analysis of subchondral bone in early experimental osteoarthritis based on gene expression profiles]. Zhongguo Gu Shang 2018 Feb 25;31(2):165-169. PMID: 29536689
  • Givel AM, Kieffer Y, Scholer-Dahirel A, Sirven P et al. miR200-regulated CXCL12β promotes fibroblast heterogeneity and immunosuppression in ovarian cancers. Nat Commun 2018 Mar 13;9(1):1056. PMID: 29535360
  • Wang Y, Guo W, Xu H, Zhu X et al. An extensive study of the mechanism of prostate cancer metastasis. Neoplasma 2018;65(2):253-261. PMID: 29534587
  • Sun C, Yin J, Fang Y, Chen J et al. BRD4 Inhibition Is Synthetic Lethal with PARP Inhibitors through the Induction of Homologous Recombination Deficiency. Cancer Cell 2018 Mar 12;33(3):401-416.e8. PMID: 29533782
  • Liu H, Xia T, Xu F, Ma Z et al. Identification of the key genes associated with neuropathic pain. Mol Med Rep 2018 May;17(5):6371-6378. PMID: 29532897
  • Xiao Y, Feng M, Ran H, Han X et al. Identification of key differentially expressed genes associated with non‑small cell lung cancer by bioinformatics analyses. Mol Med Rep 2018 May;17(5):6379-6386. PMID: 29532892
  • Li C, Miao R, Zhang J, Qu K et al. Long non-coding RNA KCNQ1OT1 mediates the growth of hepatocellular carcinoma by functioning as a competing endogenous RNA of miR-504. Int J Oncol 2018 May;52(5):1603-1612. PMID: 29532864
  • Yang H, Zhang X, Xin G et al. Investigation of mechanisms of mesenchymal stem cells for treatment of diabetic nephropathy via construction of a miRNA-TF-mRNA network. Ren Fail 2018 Nov;40(1):136-145. PMID: 29532746
  • Gao Q, Tang L, Wu L, Li K et al. LASP1 promotes nasopharyngeal carcinoma progression through negatively regulation of the tumor suppressor PTEN. Cell Death Dis 2018 Mar 12;9(3):393. PMID: 29531214
  • Parolo S, Marchetti L, Lauria M, Misselbeck K et al. Combined use of protein biomarkers and network analysis unveils deregulated regulatory circuits in Duchenne muscular dystrophy. PLoS One 2018;13(3):e0194225. PMID: 29529088
  • Gujar H, Liang JW, Wong NC, Mozhui K et al. Profiling DNA methylation differences between inbred mouse strains on the Illumina Human Infinium MethylationEPIC microarray. PLoS One 2018;13(3):e0193496. PMID: 29529061
  • Nazer E, Dale RK, Chinen M, Radmanesh B et al. Argonaute2 and LaminB modulate gene expression by controlling chromatin topology. PLoS Genet 2018 Mar;14(3):e1007276. PMID: 29529026
  • Roelands J, Decock J, Boughorbel S, Rinchai D et al. A collection of annotated and harmonized human breast cancer transcriptome datasets, including immunologic classification. F1000Res 2017;6:296. PMID: 29527288
  • Morrison MC, Kleemann R, van Koppen A, Hanemaaijer R et al. Key Inflammatory Processes in Human NASH Are Reflected in Ldlr(-/-).Leiden Mice: A Translational Gene Profiling Study. Front Physiol 2018;9:132. PMID: 29527177
  • Abitbol S, Dahmani R, Coulouarn C, Ragazzon B et al. AXIN deficiency in human and mouse hepatocytes induces hepatocellular carcinoma in the absence of β-catenin activation. J Hepatol 2018 Jun;68(6):1203-1213. PMID: 29525529
  • Johnson B, VanBlargan LA, Xu W, White JP et al. Human IFIT3 Modulates IFIT1 RNA Binding Specificity and Protein Stability. Immunity 2018 Mar 20;48(3):487-499.e5. PMID: 29525521
  • Borisova ME, Voigt A, Tollenaere MAX, Sahu SK et al. p38-MK2 signaling axis regulates RNA metabolism after UV-light-induced DNA damage. Nat Commun 2018 Mar 9;9(1):1017. PMID: 29523821
  • Han LO, Li XY, Cao MM, Cao Y et al. Development and validation of an individualized diagnostic signature in thyroid cancer. Cancer Med 2018 Apr;7(4):1135-1140. PMID: 29522282
  • Wei Z, Zhang W, Fang H, Li Y et al. esATAC: an easy-to-use systematic pipeline for ATAC-seq data analysis. Bioinformatics 2018 Aug 1;34(15):2664-2665. PMID: 29522192
  • Zhang X, Gao T, Peng Q, Song L et al. A strong promoter of a non-cry gene directs expression of the cry1Ac gene in Bacillus thuringiensis. Appl Microbiol Biotechnol 2018 Apr;102(8):3687-3699. PMID: 29520600
  • Li WV, Li JJ et al. An accurate and robust imputation method scImpute for single-cell RNA-seq data. Nat Commun 2018 Mar 8;9(1):997. PMID: 29520097
  • Khaibullina A, Adjei EA, Afangbedji N, Ivanov A et al. RON kinase inhibition reduces renal endothelial injury in sickle cell disease mice. Haematologica 2018 May;103(5):787-798. PMID: 29519868
  • Preziosi M, Poddar M, Singh S, Monga SP et al. Hepatocyte Wnts Are Dispensable During Diethylnitrosamine and Carbon Tetrachloride-Induced Injury and Hepatocellular Cancer. Gene Expr 2018 Aug 22;18(3):209-219. PMID: 29519268
  • Neal ML, Boyle AM, Budge KM, Safadi FF et al. The glycoprotein GPNMB attenuates astrocyte inflammatory responses through the CD44 receptor. J Neuroinflammation 2018 Mar 8;15(1):73. PMID: 29519253
  • Ma Y, Deng F, Li P, Chen G et al. The tumor suppressive miR-26a regulation of FBXO11 inhibits proliferation, migration and invasion of hepatocellular carcinoma cells. Biomed Pharmacother 2018 May;101:648-655. PMID: 29518611
  • Smeby J, Sveen A, Merok MA, Danielsen SA et al. CMS-dependent prognostic impact of KRAS and BRAFV600E mutations in primary colorectal cancer. Ann Oncol 2018 May 1;29(5):1227-1234. PMID: 29518181
  • Jiang L, Ball G, Hodgman C, Coules A et al. Analysis of Gene Regulatory Networks of Maize in Response to Nitrogen. Genes (Basel) 2018 Mar 8;9(3). PMID: 29518046
  • Liu W, Li L, Long X, You W et al. Construction and Analysis of Gene Co-Expression Networks in Escherichia coli. Cells 2018 Mar 8;7(3). PMID: 29518040
  • Neves de Oliveira BH, Dalmaz C, Zeidán-Chuliá F et al. Network-Based Identification of Altered Stem Cell Pluripotency and Calcium Signaling Pathways in Metastatic Melanoma. Med Sci (Basel) 2018 Mar 8;6(1). PMID: 29518019
  • Zahra A, Rubab I, Malik S, Khan A et al. Meta-Analysis of miRNAs and Their Involvement as Biomarkers in Oral Cancers. Biomed Res Int 2018;2018:8439820. PMID: 29516011
  • Gritti G, Gianatti A, Petronzelli F, De Santis R et al. Evaluation of tenascin-C by tenatumomab in T-cell non-Hodgkin lymphomas identifies a new target for radioimmunotherapy. Oncotarget 2018 Feb 9;9(11):9766-9775. PMID: 29515769
  • Borssén M, Nordlund J, Haider Z, Landfors M et al. DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia. Clin Epigenetics 2018;10:31. PMID: 29515676
  • Tripathi A, Goswami K, Tiwari M, Mukherjee SK et al. Identification and comparative analysis of microRNAs from tomato varieties showing contrasting response to ToLCV infections. Physiol Mol Biol Plants 2018 Mar;24(2):185-202. PMID: 29515314
  • Li J, Yu P et al. Genome-wide transcriptome analysis identifies alternative splicing regulatory network and key splicing factors in mouse and human psoriasis. Sci Rep 2018 Mar 7;8(1):4124. PMID: 29515135
  • Mehdi AM, Hamilton-Williams EE, Cristino A, Ziegler A et al. A peripheral blood transcriptomic signature predicts autoantibody development in infants at risk of type 1 diabetes. JCI Insight 2018 Mar 8;3(5). PMID: 29515040
  • Wagner FF, Benajiba L, Campbell AJ, Weïwer M et al. Exploiting an Asp-Glu "switch" in glycogen synthase kinase 3 to design paralog-selective inhibitors for use in acute myeloid leukemia. Sci Transl Med 2018 Mar 7;10(431). PMID: 29515000
  • Kandimalla R, Gao F, Matsuyama T, Ishikawa T et al. Genome-wide Discovery and Identification of a Novel miRNA Signature for Recurrence Prediction in Stage II and III Colorectal Cancer. Clin Cancer Res 2018 Aug 15;24(16):3867-3877. PMID: 29514841
  • Macdougall CE, Wood EG, Loschko J, Scagliotti V et al. Visceral Adipose Tissue Immune Homeostasis Is Regulated by the Crosstalk between Adipocytes and Dendritic Cell Subsets. Cell Metab 2018 Mar 6;27(3):588-601.e4. PMID: 29514067
  • Wang C, Zhu X, Pu C, Song X et al. Upregulated plasmacytoma variant translocation 1 promotes cell proliferation, invasion and metastasis in colorectal cancer. Mol Med Rep 2018 May;17(5):6598-6604. PMID: 29512788
  • Ding Y, Liu P, Zhang S, Tao L et al. Screening pathogenic genes in oral squamous cell carcinoma based on the mRNA expression microarray data. Int J Mol Med 2018 Jun;41(6):3597-3603. PMID: 29512771
  • Xu JH, Chang WH, Fu HW, Yuan T et al. The mRNA, miRNA and lncRNA networks in hepatocellular carcinoma: An integrative transcriptomic analysis from Gene Expression Omnibus. Mol Med Rep 2018 May;17(5):6472-6482. PMID: 29512731
  • Huang R, Gu W, Sun B, Gao L et al. Identification of COL4A1 as a potential gene conferring trastuzumab resistance in gastric cancer based on bioinformatics analysis. Mol Med Rep 2018 May;17(5):6387-6396. PMID: 29512712
  • Abdollahi H, Zamanian Azodi M, Hatami B et al. Protein interaction mapping interpretation of none alcoholic fatty liver disease model of rats after fat diet feeding. Gastroenterol Hepatol Bed Bench 2017 Winter;10(Suppl1):S146-S153. PMID: 29511485
  • Ma HB, Yao YN, Yu JJ, Chen XX et al. Extensive profiling of circular RNAs and the potential regulatory role of circRNA-000284 in cell proliferation and invasion of cervical cancer via sponging miR-506. Am J Transl Res 2018;10(2):592-604. PMID: 29511454
  • Du Z, Ma HL, Zhang ZY, Zheng JW et al. Transgenic Expression of A Venous Malformation Related Mutation, TIE2-R849W, Significantly Induces Multiple Malformations of Zebrafish. Int J Med Sci 2018;15(4):385-394. PMID: 29511374
  • Helgadottir A, Thorleifsson G, Gretarsdottir S, Stefansson OA et al. Genome-wide analysis yields new loci associating with aortic valve stenosis. Nat Commun 2018 Mar 7;9(1):987. PMID: 29511194
  • Gao L, Wang Y, Li Y, Dong Y et al. Genome-wide expression profiling analysis to identify key genes in the anti-HIV mechanism of CD4(+) and CD8(+) T cells. J Med Virol 2018 Jul;90(7):1199-1209. PMID: 29508932
  • Liu X, Tan N, Liao H, Pan G et al. High GSTP1 inhibits cell proliferation by reducing Akt phosphorylation and is associated with a better prognosis in hepatocellular carcinoma. Oncotarget 2018 Feb 6;9(10):8957-8971. PMID: 29507666
  • Lakins MA, Ghorani E, Munir H, Martins CP et al. Cancer-associated fibroblasts induce antigen-specific deletion of CD8 (+) T Cells to protect tumour cells. Nat Commun 2018 Mar 5;9(1):948. PMID: 29507342
  • Kuuluvainen E, Domènech-Moreno E, Niemelä EH, Mäkelä TP et al. Depletion of Mediator Kinase Module Subunits Represses Superenhancer-Associated Genes in Colon Cancer Cells. Mol Cell Biol 2018 Jun 1;38(11). PMID: 29507187
  • Wang M, Lindberg J, Klevebring D, Nilsson C et al. Development and Validation of a Novel RNA Sequencing-Based Prognostic Score for Acute Myeloid Leukemia. J Natl Cancer Inst 2018 Oct 1;110(10):1094-1101. PMID: 29506270
  • Baral P, Umans BD, Li L, Wallrapp A et al. Nociceptor sensory neurons suppress neutrophil and γδ T cell responses in bacterial lung infections and lethal pneumonia. Nat Med 2018 May;24(4):417-426. PMID: 29505031
  • Galatenko VV, Maltseva DV, Galatenko AV, Rodin S et al. Cumulative prognostic power of laminin genes in colorectal cancer. BMC Med Genomics 2018 Feb 13;11(Suppl 1):9. PMID: 29504916
  • Choi SW, Nam JW et al. TERIUS: accurate prediction of lncRNA via high-throughput sequencing data representing RNA-binding protein association. BMC Bioinformatics 2018 Feb 19;19(Suppl 1):41. PMID: 29504902
  • Mei H, Li L, Griswold M, Mosley T et al. Gene Expression Meta-Analysis of Seven Candidate Gene Sets for Diabetes Traits Following a GWAS Pathway Study. Front Genet 2018;9:52. PMID: 29503662
  • Katiyar A, Sharma S, Singh TP, Kaur P et al. Identification of Shared Molecular Signatures Indicate the Susceptibility of Endometriosis to Multiple Sclerosis. Front Genet 2018;9:42. PMID: 29503661
  • Shen Z, Yu X, Zheng Y, Lai X et al. CDCA5 regulates proliferation in hepatocellular carcinoma and has potential as a negative prognostic marker. Onco Targets Ther 2018;11:891-901. PMID: 29503564
  • Murugesan M, Premkumar K et al. Hypoxia stimulates microenvironment in human embryonic stem cell through inflammatory signalling: An integrative analysis. Biochem Biophys Res Commun 2018 Apr 6;498(3):437-444. PMID: 29501494
  • Bruyer A, Maes K, Herviou L, Kassambara A et al. DNMTi/HDACi combined epigenetic targeted treatment induces reprogramming of myeloma cells in the direction of normal plasma cells. Br J Cancer 2018 Apr;118(8):1062-1073. PMID: 29500406
  • Weider M, Starost LJ, Groll K, Küspert M et al. Nfat/calcineurin signaling promotes oligodendrocyte differentiation and myelination by transcription factor network tuning. Nat Commun 2018 Mar 2;9(1):899. PMID: 29500351
  • Huang X, Anderle P, Hostettler L, Baumann MU et al. Identification of placental nutrient transporters associated with intrauterine growth restriction and pre-eclampsia. BMC Genomics 2018 Mar 2;19(1):173. PMID: 29499643
  • Escudero S, Zaganjor E, Lee S, Mill CP et al. Dynamic Regulation of Long-Chain Fatty Acid Oxidation by a Noncanonical Interaction between the MCL-1 BH3 Helix and VLCAD. Mol Cell 2018 Mar 1;69(5):729-743.e7. PMID: 29499131
  • Lim YH, Kwon DH, Kim J, Park WJ et al. Identification of long noncoding RNAs involved in muscle differentiation. PLoS One 2018;13(3):e0193898. PMID: 29499054
  • Ferguson LB, Harris RA, Mayfield RD et al. From gene networks to drugs: systems pharmacology approaches for AUD. Psychopharmacology (Berl) 2018 Jun;235(6):1635-1662. PMID: 29497781
  • Dhahbi JM, Atamna H, Selth LA et al. Data Mining of Small RNA-Seq Suggests an Association Between Prostate Cancer and Altered Abundance of 5' Transfer RNA Halves in Seminal Fluid and Prostatic Tissues. Biomark Cancer 2018;10:1179299X18759545. PMID: 29497340
  • Liu XF, Li XY, Zheng PS, Yang WT et al. DAX1 promotes cervical cancer cell growth and tumorigenicity through activation of Wnt/β-catenin pathway via GSK3β. Cell Death Dis 2018 Mar 1;9(3):339. PMID: 29497051
  • Lummertz da Rocha E, Rowe RG, Lundin V, Malleshaiah M et al. Reconstruction of complex single-cell trajectories using CellRouter. Nat Commun 2018 Mar 1;9(1):892. PMID: 29497036
  • Tak H, Kang H, Ji E, Hong Y et al. Potential use of TIA-1, MFF, microRNA-200a-3p, and microRNA-27 as a novel marker for hepatocellular carcinoma. Biochem Biophys Res Commun 2018 Mar 18;497(4):1117-1122. PMID: 29496454
  • Newberg LA, Chen X, Kodira CD, Zavodszky MI et al. Computational de novo discovery of distinguishing genes for biological processes and cell types in complex tissues. PLoS One 2018;13(3):e0193067. PMID: 29494600
  • Jin K, Lan H, Zhang J, Lv J et al. UBASH3B promotes tamoxifen resistance and could be negatively regulated by ESR1. Oncotarget 2018 Feb 2;9(9):8326-8333. PMID: 29492198
  • Mammana S, Bramanti P, Mazzon E, Cavalli E et al. Preclinical evaluation of the PI3K/Akt/mTOR pathway in animal models of multiple sclerosis. Oncotarget 2018 Feb 2;9(9):8263-8277. PMID: 29492193
  • Kim JA, Bhatnagar N, Kwon SJ, Min MK et al. Transcriptome Analysis of ABA/JA-Dual Responsive Genes in Rice Shoot and Root. Curr Genomics 2018 Jan;19(1):4-11. PMID: 29491728
  • Chiner-Oms Á, González-Candelas F, Comas I et al. Gene expression models based on a reference laboratory strain are poor predictors of Mycobacterium tuberculosis complex transcriptional diversity. Sci Rep 2018 Feb 28;8(1):3813. PMID: 29491462
  • Crow M, Paul A, Ballouz S, Huang ZJ et al. Characterizing the replicability of cell types defined by single cell RNA-sequencing data using MetaNeighbor. Nat Commun 2018 Feb 28;9(1):884. PMID: 29491377
  • Zamurrad S, Hatch HAM, Drelon C, Belalcazar HM et al. A Drosophila Model of Intellectual Disability Caused by Mutations in the Histone Demethylase KDM5. Cell Rep 2018 Feb 27;22(9):2359-2369. PMID: 29490272
  • de Jong MRW, Visser L, Huls G, Diepstra A et al. Identification of relevant drugable targets in diffuse large B-cell lymphoma using a genome-wide unbiased CD20 guilt-by association approach. PLoS One 2018;13(2):e0193098. PMID: 29489886
  • Carlin D, Kosnicki K, Garamszegi S, Ideker T et al. A multi-tool recipe to identify regions of protein-DNA binding and their influence on associated gene expression. F1000Res 2017;6:784. PMID: 29487738
  • Hershkovitz-Rokah O, Geva P, Salmon-Divon M, Shpilberg O et al. Network analysis of microRNAs, genes and their regulation in diffuse and follicular B-cell lymphomas. Oncotarget 2018 Jan 30;9(8):7928-7941. PMID: 29487703
  • West MD, Labat I, Sternberg H, Larocca D et al. Use of deep neural network ensembles to identify embryonic-fetal transition markers: repression of COX7A1 in embryonic and cancer cells. Oncotarget 2018 Jan 30;9(8):7796-7811. PMID: 29487692
  • Ci X, Hao J, Dong X, Choi SY et al. Heterochromatin Protein 1α Mediates Development and Aggressiveness of Neuroendocrine Prostate Cancer. Cancer Res 2018 May 15;78(10):2691-2704. PMID: 29487201
  • Torre D, Krawczuk P, Jagodnik KM, Lachmann A et al. Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses. Sci Data 2018 Feb 27;5:180023. PMID: 29485625
  • Chambers SEJ, O'Neill CL, Guduric-Fuchs J, McLoughlin KJ et al. The Vasoreparative Function of Myeloid Angiogenic Cells Is Impaired in Diabetes Through the Induction of IL1β. Stem Cells 2018 Jun;36(6):834-843. PMID: 29484768
  • He RQ, Wu PR, Xiang XL, Yang X et al. Downregulated miR-23b-3p expression acts as a predictor of hepatocellular carcinoma progression: A study based on public data and RT-qPCR verification. Int J Mol Med 2018 May;41(5):2813-2831. PMID: 29484429
  • Binato R, Santos EC, Boroni M, Demachki S et al. A common molecular signature of intestinal-type gastric carcinoma indicates processes related to gastric carcinogenesis. Oncotarget 2018 Jan 26;9(7):7359-7371. PMID: 29484116
  • Wang X, Li G, Luo Q, Xie J et al. Integrated TCGA analysis implicates lncRNA CTB-193M12.5 as a prognostic factor in lung adenocarcinoma. Cancer Cell Int 2018;18:27. PMID: 29483846
  • Lin D, Chen J, Perrone-Bizzozero N, Bustillo JR et al. Characterization of cross-tissue genetic-epigenetic effects and their patterns in schizophrenia. Genome Med 2018 Feb 26;10(1):13. PMID: 29482655
  • Zhang K, Kong X, Feng G, Xiang W et al. Investigation of hypoxia networks in ovarian cancer via bioinformatics analysis. J Ovarian Res 2018 Feb 26;11(1):16. PMID: 29482638
  • Yip SH, Sham PC, Wang J et al. Evaluation of tools for highly variable gene discovery from single-cell RNA-seq data. Brief Bioinform 2019 Jul 19;20(4):1583-1589. PMID: 29481632
  • Van den Berge K, Perraudeau F, Soneson C, Love MI et al. Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications. Genome Biol 2018 Feb 26;19(1):24. PMID: 29478411
  • Chen X, Yan B, Lou H, Shen Z et al. Immunological network analysis in HPV associated head and neck squamous cancer and implications for disease prognosis. Mol Immunol 2018 Apr;96:28-36. PMID: 29477933
  • Guo W, Zhang B, Mu K, Feng SQ et al. Circular RNA GRB10 as a competitive endogenous RNA regulating nucleus pulposus cells death in degenerative intervertebral disk. Cell Death Dis 2018 Feb 23;9(3):319. PMID: 29476072
  • Giovannone AJ, Winterstein C, Bhattaram P, Reales E et al. Soluble syntaxin 3 functions as a transcriptional regulator. J Biol Chem 2018 Apr 13;293(15):5478-5491. PMID: 29475951
  • Oluwadare O, Zhang Y, Cheng J et al. A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact data. BMC Genomics 2018 Feb 23;19(1):161. PMID: 29471801
  • Bakhtiarizadeh MR, Salehi A, Rivera RM et al. Genome-wide identification and analysis of A-to-I RNA editing events in bovine by transcriptome sequencing. PLoS One 2018;13(2):e0193316. PMID: 29470549
  • Sharifi S, Pakdel A, Ebrahimi M, Reecy JM et al. Integration of machine learning and meta-analysis identifies the transcriptomic bio-signature of mastitis disease in cattle. PLoS One 2018;13(2):e0191227. PMID: 29470489
  • Kidd M, Modlin IM, Drozdov I, Aslanian H et al. A liquid biopsy for bronchopulmonary/lung carcinoid diagnosis. Oncotarget 2018 Jan 23;9(6):7182-7196. PMID: 29467960
  • Chen EG, Wang P, Lou H, Wang Y et al. A robust gene expression-based prognostic risk score predicts overall survival of lung adenocarcinoma patients. Oncotarget 2018 Jan 23;9(6):6862-6871. PMID: 29467935
  • Li C, Luo L, Wei S, Wang X et al. Identification of the potential crucial genes in invasive ductal carcinoma using bioinformatics analysis. Oncotarget 2018 Jan 23;9(6):6800-6813. PMID: 29467930
  • Xu Y, Gu S, Bi Y, Qi X et al. Transcription factor PU.1 is involved in the progression of glioma. Oncol Lett 2018 Mar;15(3):3753-3759. PMID: 29467892
  • Han L, Xu G, Xu C, Liu B et al. Potential prognostic biomarkers identified by DNA methylation profiling analysis for patients with lung adenocarcinoma. Oncol Lett 2018 Mar;15(3):3552-3557. PMID: 29467875
  • Qin W, Lu H et al. A novel joint analysis framework improves identification of differentially expressed genes in cross disease transcriptomic analysis. BioData Min 2018;11:3. PMID: 29467826
  • Jain S, Glubrecht DD, Germain DR, Moser M et al. AP-2ε Expression in Developing Retina: Contributing to the Molecular Diversity of Amacrine Cells. Sci Rep 2018 Feb 21;8(1):3386. PMID: 29467543
  • Ravi R, Noonan KA, Pham V, Bedi R et al. Bifunctional immune checkpoint-targeted antibody-ligand traps that simultaneously disable TGFβ enhance the efficacy of cancer immunotherapy. Nat Commun 2018 Feb 21;9(1):741. PMID: 29467463
  • Yao H, Hill SF, Skidmore JM, Sperry ED et al. CHD7 represses the retinoic acid synthesis enzyme ALDH1A3 during inner ear development. JCI Insight 2018 Feb 22;3(4). PMID: 29467333
  • Karthik IP, Desai P, Sukumar S, Dimitrijevic A et al. E4BP4/NFIL3 modulates the epigenetically repressed RAS effector RASSF8 function through histone methyltransferases. J Biol Chem 2018 Apr 13;293(15):5624-5635. PMID: 29467226
  • Leśniewska A, Zyprych-Walczak J, Szabelska-Beręsewicz A, Okoniewski MJ et al. Genes sharing the protein family domain decrease the performance of classification with RNA-seq genomic signatures. Biol Direct 2018 Feb 21;13(1):3. PMID: 29467011
  • Chopra H, Khan Z, Contreras J, Wang H et al. Activation of p53 and destabilization of androgen receptor by combinatorial inhibition of MDM2 and MDMX in prostate cancer cells. Oncotarget 2018 Jan 19;9(5):6270-6281. PMID: 29464071
  • Qi L, Ding Y et al. Construction of key signal regulatory network in metastatic colorectal cancer. Oncotarget 2018 Jan 19;9(5):6086-6094. PMID: 29464057
  • Fernández LP, Ramos-Ruiz R, Herranz J, Martín-Hernández R et al. The transcriptional and mutational landscapes of lipid metabolism-related genes in colon cancer. Oncotarget 2018 Jan 19;9(5):5919-5930. PMID: 29464044
  • Panelo LC, Machado MS, Rubio MF, Jaworski F et al. High RAC3 expression levels are required for induction and maintaining of cancer cell stemness. Oncotarget 2018 Jan 19;9(5):5848-5860. PMID: 29464039
  • Liu Z, Li J, Chen J, Shan Q et al. MCM family in HCC: MCM6 indicates adverse tumor features and poor outcomes and promotes S/G2 cell cycle progression. BMC Cancer 2018 Feb 20;18(1):200. PMID: 29463213
  • Staley JR, Suderman M, Simpkin AJ, Gaunt TR et al. Longitudinal analysis strategies for modelling epigenetic trajectories. Int J Epidemiol 2018 Apr 1;47(2):516-525. PMID: 29462323
  • Mav D, Shah RR, Howard BE, Auerbach SS et al. A hybrid gene selection approach to create the S1500+ targeted gene sets for use in high-throughput transcriptomics. PLoS One 2018;13(2):e0191105. PMID: 29462216
  • Remšík J, Fedr R, Navrátil J, Binó L et al. Plasticity and intratumoural heterogeneity of cell surface antigen expression in breast cancer. Br J Cancer 2018 Mar 20;118(6):813-819. PMID: 29462126
  • da Silva-Junior IA, Dalmaso B, Herbster S, Lepique AP et al. Platelet-Activating Factor Receptor Ligands Protect Tumor Cells from Radiation-Induced Cell Death. Front Oncol 2018;8:10. PMID: 29459885
  • Rošić S, Amouroux R, Requena CE, Gomes A et al. Evolutionary analysis indicates that DNA alkylation damage is a byproduct of cytosine DNA methyltransferase activity. Nat Genet 2018 Mar;50(3):452-459. PMID: 29459678
  • Chung J, Zhang X, Allen M, Wang X et al. Genome-wide pleiotropy analysis of neuropathological traits related to Alzheimer's disease. Alzheimers Res Ther 2018 Feb 20;10(1):22. PMID: 29458411
  • Russo PST, Ferreira GR, Cardozo LE, Bürger MC et al. CEMiTool: a Bioconductor package for performing comprehensive modular co-expression analyses. BMC Bioinformatics 2018 Feb 20;19(1):56. PMID: 29458351
  • Mantsoki A, Devailly G, Joshi A et al. Dynamics of promoter bivalency and RNAP II pausing in mouse stem and differentiated cells. BMC Dev Biol 2018 Feb 20;18(1):2. PMID: 29458328
  • Das S, Rai A, Mishra DC, Rai SN et al. Statistical approach for selection of biologically informative genes. Gene 2018 May 20;655:71-83. PMID: 29458166
  • Shu B, Fang Y, He W, Yang J et al. Identification of macrophage-related candidate genes in lupus nephritis using bioinformatics analysis. Cell Signal 2018 Jun;46:43-51. PMID: 29458096
  • Schenkel LC, Aref-Eshghi E, Skinner C, Ainsworth P et al. Peripheral blood epi-signature of Claes-Jensen syndrome enables sensitive and specific identification of patients and healthy carriers with pathogenic mutations in KDM5C. Clin Epigenetics 2018;10:21. PMID: 29456765
  • Yang S, Fang Z et al. Beta approximation of ratio distribution and its application to next generation sequencing read counts. J Appl Stat 2017;44(1):57-70. PMID: 29456282
  • Kooreman NG, Kim Y, de Almeida PE, Termglinchan V et al. Autologous iPSC-Based Vaccines Elicit Anti-tumor Responses In Vivo. Cell Stem Cell 2018 Apr 5;22(4):501-513.e7. PMID: 29456158
  • Zhao L, Fong AHW, Liu N, Cho WCS et al. Molecular subtyping of nasopharyngeal carcinoma (NPC) and a microRNA-based prognostic model for distant metastasis. J Biomed Sci 2018 Feb 19;25(1):16. PMID: 29455649
  • Wang K, Li J, Xiong YF, Zeng Z et al. A Potential Prognostic Long Noncoding RNA Signature to Predict Recurrence among ER-positive Breast Cancer Patients Treated with Tamoxifen. Sci Rep 2018 Feb 16;8(1):3179. PMID: 29453409
  • Janga H, Aznaourova M, Boldt F, Damm K et al. Cas9-mediated excision of proximal DNaseI/H3K4me3 signatures confers robust silencing of microRNA and long non-coding RNA genes. PLoS One 2018;13(2):e0193066. PMID: 29451908
  • Liew PL, Huang RL, Weng YC, Fang CL et al. Distinct methylation profile of mucinous ovarian carcinoma reveals susceptibility to proteasome inhibitors. Int J Cancer 2018 Jul 15;143(2):355-367. PMID: 29451304
  • Xu X, Pan M, Gasiewicz AE, Li R et al. Human and mouse microarrays-guided expression analysis of membrane protein trafficking-related genes in MDCK cells, a canine epithelial model for apical and basolateral differential protein targeting. Biochim Open 2017 Jun;4:119-126. PMID: 29450149
  • Sirkisoon SR, Carpenter RL, Rimkus T, Anderson A et al. Interaction between STAT3 and GLI1/tGLI1 oncogenic transcription factors promotes the aggressiveness of triple-negative breast cancers and HER2-enriched breast cancer. Oncogene 2018 May;37(19):2502-2514. PMID: 29449694
  • Lin C, Zhang J, Lu Y, Li X et al. NIT1 suppresses tumour proliferation by activating the TGFβ1-Smad2/3 signalling pathway in colorectal cancer. Cell Death Dis 2018 Feb 15;9(3):263. PMID: 29449642
  • Misulovin Z, Pherson M, Gause M, Dorsett D et al. Brca2, Pds5 and Wapl differentially control cohesin chromosome association and function. PLoS Genet 2018 Feb;14(2):e1007225. PMID: 29447171
  • Gilder AS, Natali L, Van Dyk DM, Zalfa C et al. The Urokinase Receptor Induces a Mesenchymal Gene Expression Signature in Glioblastoma Cells and Promotes Tumor Cell Survival in Neurospheres. Sci Rep 2018 Feb 14;8(1):2982. PMID: 29445239
  • Wang T, Liu L, Chen X, Shen Y et al. MYCN drives glutaminolysis in neuroblastoma and confers sensitivity to an ROS augmenting agent. Cell Death Dis 2018 Feb 14;9(2):220. PMID: 29445162
  • Zhang J, Cao H, Xie J, Fan C et al. The oncogene Etv5 promotes MET in somatic reprogramming and orchestrates epiblast/primitive endoderm specification during mESCs differentiation. Cell Death Dis 2018 Feb 14;9(2):224. PMID: 29445086
  • Kerstholt M, Vrijmoeth H, Lachmandas E, Oosting M et al. Role of glutathione metabolism in host defense against Borrelia burgdorferi infection. Proc Natl Acad Sci U S A 2018 Mar 6;115(10):E2320-E2328. PMID: 29444855
  • Gao T, Shu J, Cui J et al. A systematic approach to RNA-associated motif discovery. BMC Genomics 2018 Feb 14;19(1):146. PMID: 29444662
  • Zhou Q, Su X, Jing G, Chen S et al. RNA-QC-chain: comprehensive and fast quality control for RNA-Seq data. BMC Genomics 2018 Feb 14;19(1):144. PMID: 29444661
  • Yin L, Cai Z, Zhu B, Xu C et al. Identification of Key Pathways and Genes in the Dynamic Progression of HCC Based on WGCNA. Genes (Basel) 2018 Feb 14;9(2). PMID: 29443924
  • Tian W, Li YS, Zhang JH, Li JJ et al. Comprehensive Analysis of DNA Methylation and Gene Expression Datasets Identified MMP9 and TWIST1 as Important Pathogenic Genes of Lung Adenocarcinoma. DNA Cell Biol 2018 Apr;37(4):336-346. PMID: 29443542
  • Deng X, Xiao Q, Liu F, Zheng C et al. A gene expression-based risk model reveals prognosis of gastric cancer. PeerJ 2018;6:e4204. PMID: 29441228
  • Seifert F, Thiemann A, Grant-Downton R, Edelmann S et al. Parental Expression Variation of Small RNAs Is Negatively Correlated with Grain Yield Heterosis in a Maize Breeding Population. Front Plant Sci 2018;9:13. PMID: 29441076
  • Canovas Nunes S, Manzoni M, Pizzi M, Mandato E et al. The small GTPase RhoU lays downstream of JAK/STAT signaling and mediates cell migration in multiple myeloma. Blood Cancer J 2018 Feb 13;8(2):20. PMID: 29440639
  • Djekidel MN, Chen Y, Zhang MQ et al. FIND: difFerential chromatin INteractions Detection using a spatial Poisson process. Genome Res 2018 Feb 12;28(3):412-22. PMID: 29440282
  • Wan L, Huang J, Ni H, Yu G et al. Screening key genes for abdominal aortic aneurysm based on gene expression omnibus dataset. BMC Cardiovasc Disord 2018 Feb 13;18(1):34. PMID: 29439675
  • Gandal MJ, Haney JR, Parikshak NN, Leppa V et al. Shared molecular neuropathology across major psychiatric disorders parallels polygenic overlap. Science 2018 Feb 9;359(6376):693-697. PMID: 29439242
  • Di Modugno F, Caprara V, Chellini L, Tocci P et al. hMENA is a key regulator in endothelin-1/β-arrestin1-induced invadopodial function and metastatic process. Proc Natl Acad Sci U S A 2018 Mar 20;115(12):3132-3137. PMID: 29439204
  • Yu Y, Schleich K, Yue B, Ji S et al. Targeting the Senescence-Overriding Cooperative Activity of Structurally Unrelated H3K9 Demethylases in Melanoma. Cancer Cell 2018 Feb 12;33(2):322-336.e8. PMID: 29438700
  • Pellicano F, Park L, Hopcroft LEM, Shah MM et al. hsa-mir183/EGR1-mediated regulation of E2F1 is required for CML stem/progenitor cell survival. Blood 2018 Apr 5;131(14):1532-1544. PMID: 29437554
  • Qi ZH, Xu HX, Zhang SR, Xu JZ et al. RIPK4/PEBP1 axis promotes pancreatic cancer cell migration and invasion by activating RAF1/MEK/ERK signaling. Int J Oncol 2018 Apr;52(4):1105-1116. PMID: 29436617
  • Tian R, Li X, Gao Y, Li Y et al. Identification and validation of the role of matrix metalloproteinase-1 in cervical cancer. Int J Oncol 2018 Apr;52(4):1198-1208. PMID: 29436615
  • Montecino-Rodriguez E, Casero D, Fice M, Le J et al. Differential Expression of PU.1 and Key T Lineage Transcription Factors Distinguishes Fetal and Adult T Cell Development. J Immunol 2018 Mar 15;200(6):2046-2056. PMID: 29436414
  • Perry CJ, Muñoz-Rojas AR, Meeth KM, Kellman LN et al. Myeloid-targeted immunotherapies act in synergy to induce inflammation and antitumor immunity. J Exp Med 2018 Mar 5;215(3):877-893. PMID: 29436395
  • Shee K, Yang W, Hinds JW, Hampsch RA et al. Therapeutically targeting tumor microenvironment-mediated drug resistance in estrogen receptor-positive breast cancer. J Exp Med 2018 Mar 5;215(3):895-910. PMID: 29436393
  • Liu J, Liu F, Shi Y, Tan H et al. Identification of key miRNAs and genes associated with stomach adenocarcinoma from The Cancer Genome Atlas database. FEBS Open Bio 2018 Feb;8(2):279-294. PMID: 29435418
  • Chen J, Dong X, Lei X, Xia Y et al. Non-small-cell lung cancer pathological subtype-related gene selection and bioinformatics analysis based on gene expression profiles. Mol Clin Oncol 2018 Feb;8(2):356-361. PMID: 29435303
  • Fang L, Wang Y, Chen X et al. Gene expression profiling and bioinformatics analysis of hereditary gingival fibromatosis. Biomed Rep 2018 Feb;8(2):133-137. PMID: 29435271
  • Hu H, Li B, Zhou C, Ying X et al. Diagnostic value of WIF1 methylation for colorectal cancer: a meta-analysis. Oncotarget 2018 Jan 12;9(4):5378-5386. PMID: 29435185
  • Shaik S, Kennis B, Maegawa S, Schadler K et al. REST upregulates gremlin to modulate diffuse intrinsic pontine glioma vasculature. Oncotarget 2018 Jan 12;9(4):5233-5250. PMID: 29435175
  • Zeng M, Li F, Wang L, Chen C et al. Downregulated cytoplasmic polyadenylation element-binding protein-4 is associated with the carcinogenesis of head and neck squamous cell carcinoma. Oncol Lett 2018 Mar;15(3):3226-3232. PMID: 29435062
  • Diao C, Xi Y, Xiao T et al. Identification and analysis of key genes in osteosarcoma using bioinformatics. Oncol Lett 2018 Mar;15(3):2789-2794. PMID: 29435005
  • Makhijani RK, Raut SA, Purohit HJ et al. Identification of common key genes in breast, lung and prostate cancer and exploration of their heterogeneous expression. Oncol Lett 2018 Feb;15(2):1680-1690. PMID: 29434863
  • Zhang Z, Xu L, Sun C et al. Comprehensive characterization of cancer genes in hepatocellular carcinoma genomes. Oncol Lett 2018 Feb;15(2):1503-1510. PMID: 29434842
  • Han F, Zhang J, Ma S, Chen X et al. Altered capicua transcriptional repressor gene expression exhibits distinct prognostic value for isocitrate dehydrogenase-mutant oligodendroglial tumors. Oncol Lett 2018 Feb;15(2):1459-1468. PMID: 29434837
  • Wang F, Dohogne Z, Yang J, Liu Y et al. Predictors of breast cancer cell types and their prognostic power in breast cancer patients. BMC Genomics 2018 Feb 13;19(1):137. PMID: 29433432
  • Peng Q, Lin K, Chang T, Zou L et al. Identification of genomic expression differences between right-sided and left-sided colon cancer based on bioinformatics analysis. Onco Targets Ther 2018;11:609-618. PMID: 29430186
  • Miyauchi M, Koya J, Arai S, Yamazaki S et al. ADAM8 Is an Antigen of Tyrosine Kinase Inhibitor-Resistant Chronic Myeloid Leukemia Cells Identified by Patient-Derived Induced Pluripotent Stem Cells. Stem Cell Reports 2018 Mar 13;10(3):1115-1130. PMID: 29429960
  • Zhang RR, Koido M, Tadokoro T, Ouchi R et al. Human iPSC-Derived Posterior Gut Progenitors Are Expandable and Capable of Forming Gut and Liver Organoids. Stem Cell Reports 2018 Mar 13;10(3):780-793. PMID: 29429958
  • Böttcher JP, Bonavita E, Chakravarty P, Blees H et al. NK Cells Stimulate Recruitment of cDC1 into the Tumor Microenvironment Promoting Cancer Immune Control. Cell 2018 Feb 22;172(5):1022-1037.e14. PMID: 29429633
  • Pettersson-Klein AT, Izadi M, Ferreira DMS, Cervenka I et al. Small molecule PGC-1α1 protein stabilizers induce adipocyte Ucp1 expression and uncoupled mitochondrial respiration. Mol Metab 2018 Mar;9:28-42. PMID: 29428596
  • Li H, Lan J, Han C, Guo K et al. Brg1 promotes liver fibrosis via activation of hepatic stellate cells. Exp Cell Res 2018 Mar 15;364(2):191-197. PMID: 29427621
  • Liu H, Luo K, Luo D et al. Guanosine monophosphate reductase 1 is a potential therapeutic target for Alzheimer's disease. Sci Rep 2018 Feb 9;8(1):2759. PMID: 29426890
  • Galonska C, Charlton J, Mattei AL, Donaghey J et al. Genome-wide tracking of dCas9-methyltransferase footprints. Nat Commun 2018 Feb 9;9(1):597. PMID: 29426832
  • Mrdjen D, Pavlovic A, Hartmann FJ, Schreiner B et al. High-Dimensional Single-Cell Mapping of Central Nervous System Immune Cells Reveals Distinct Myeloid Subsets in Health, Aging, and Disease. Immunity 2018 Feb 20;48(2):380-395.e6. PMID: 29426702
  • Yu Y, Shang R, Chen Y, Li J et al. Tumor suppressive ZBTB4 inhibits cell growth by regulating cell cycle progression and apoptosis in Ewing sarcoma. Biomed Pharmacother 2018 Apr;100:108-115. PMID: 29425745
  • Zhang Q, Wang WW, Xu TH, Xu ZF et al. Highly expressed long non-coding RNA DUXAP10 promotes proliferation of ovarian cancer. Eur Rev Med Pharmacol Sci 2018 Jan;22(2):314-321. PMID: 29424918
  • Zinser ME, Highton AJ, Kurioka A, Kronsteiner B et al. Human MAIT cells show metabolic quiescence with rapid glucose-dependent upregulation of granzyme B upon stimulation. Immunol Cell Biol 2018 Jul;96(6):666-674. PMID: 29423939
  • Zhang P, Chen Z, Li R, Guo Y et al. Loss of ASXL1 in the bone marrow niche dysregulates hematopoietic stem and progenitor cell fates. Cell Discov 2018;4:4. PMID: 29423272
  • Gu JJ, Singh A, Xue K, Mavis C et al. Up-regulation of hexokinase II contributes to rituximab-chemotherapy resistance and is a clinically relevant target for therapeutic development. Oncotarget 2018 Jan 9;9(3):4020-4033. PMID: 29423101
  • Chang CM, Wang ML, Lu KH, Yang YP et al. Integrating the dysregulated inflammasome-based molecular functionome in the malignant transformation of endometriosis-associated ovarian carcinoma. Oncotarget 2018 Jan 9;9(3):3704-3726. PMID: 29423077
  • Dietrich P, Freese K, Mahli A, Thasler WE et al. Combined effects of PLK1 and RAS in hepatocellular carcinoma reveal rigosertib as promising novel therapeutic "dual-hit" option. Oncotarget 2018 Jan 9;9(3):3605-3618. PMID: 29423069
  • Zhang XF, Ye Y, Zhao SJ et al. LncRNA Gas5 acts as a ceRNA to regulate PTEN expression by sponging miR-222-3p in papillary thyroid carcinoma. Oncotarget 2018 Jan 9;9(3):3519-3530. PMID: 29423063
  • Fang G, Zhang QH, Tang Q, Jiang Z et al. Comprehensive analysis of gene expression and DNA methylation datasets identify valuable biomarkers for rheumatoid arthritis progression. Oncotarget 2018 Jan 9;9(3):2977-2983. PMID: 29423022
  • Kim T, Seo HD, Hennighausen L, Lee D et al. Octopus-toolkit: a workflow to automate mining of public epigenomic and transcriptomic next-generation sequencing data. Nucleic Acids Res 2018 May 18;46(9):e53. PMID: 29420797
  • Bhadra S, Blomberg P, Castillo S, Rousu J et al. Principal metabolic flux mode analysis. Bioinformatics 2018 Jul 15;34(14):2409-2417. PMID: 29420676
  • Zhao L, Wu S, Huang E, Gnatenko D et al. Integrated micro/messenger RNA regulatory networks in essential thrombocytosis. PLoS One 2018;13(2):e0191932. PMID: 29420626
  • Zhang R, Ma H, Gao Y, Wu Y et al. Th-POK regulates mammary gland lactation through mTOR-SREBP pathway. PLoS Genet 2018 Feb;14(2):e1007211. PMID: 29420538
  • Giuliano CJ, Lin A, Smith JC, Palladino AC et al. MELK expression correlates with tumor mitotic activity but is not required for cancer growth. Elife 2018 Feb 8;7. PMID: 29417930
  • Yamada Y, Arai T, Sugawara S, Okato A et al. Impact of novel oncogenic pathways regulated by antitumor miR-451a in renal cell carcinoma. Cancer Sci 2018 Apr;109(4):1239-1253. PMID: 29417701
  • Hill DG, Yu L, Gao H, Balic JJ et al. Hyperactive gp130/STAT3-driven gastric tumourigenesis promotes submucosal tertiary lymphoid structure development. Int J Cancer 2018 Jul 1;143(1):167-178. PMID: 29417587
  • Guo Y, Xiong J, Wang J, Wen J et al. Inhibition of Rac family protein impairs colitis and colitis-associated cancer in mice. Am J Cancer Res 2018;8(1):70-80. PMID: 29416921
  • Chiu HW, Lin HY, Tseng IJ, Lin YF et al. OTUD7B upregulation predicts a poor response to paclitaxel in patients with triple-negative breast cancer. Oncotarget 2018 Jan 2;9(1):553-565. PMID: 29416635
  • Olah M, Patrick E, Villani AC, Xu J et al. A transcriptomic atlas of aged human microglia. Nat Commun 2018 Feb 7;9(1):539. PMID: 29416036
  • Wang YQ, Wang HL, Xu J, Tan J et al. Sirtuin5 contributes to colorectal carcinogenesis by enhancing glutaminolysis in a deglutarylation-dependent manner. Nat Commun 2018 Feb 7;9(1):545. PMID: 29416026
  • Ping W, Hu J, Hu G, Song Y et al. Genome-wide DNA methylation analysis reveals that mouse chemical iPSCs have closer epigenetic features to mESCs than OSKM-integrated iPSCs. Cell Death Dis 2018 Feb 7;9(2):187. PMID: 29416007
  • Subramanian I, Singh VK, Jere A et al. Elucidating mechanistic insights into drug action for atopic dermatitis: a systems biology approach. BMC Dermatol 2018 Feb 7;18(1):3. PMID: 29415693
  • Bertoni A, Alabiso O, Galetto AS, Baldanzi G et al. Integrins in T Cell Physiology. Int J Mol Sci 2018 Feb 6;19(2). PMID: 29415483
  • Kim RN, Moon HG, Han W, Noh DY et al. Perspective Insight into Future Potential Fusion Gene Transcript Biomarker Candidates in Breast Cancer. Int J Mol Sci 2018 Feb 7;19(2). PMID: 29414922
  • Cheng YC, Tsai WC, Sung YC, Chang HH et al. Interference with PSMB4 Expression Exerts an Anti-Tumor Effect by Decreasing the Invasion and Proliferation of Human Glioblastoma Cells. Cell Physiol Biochem 2018;45(2):819-831. PMID: 29414809
  • Alderdice M, Richman SD, Gollins S, Stewart JP et al. Prospective patient stratification into robust cancer-cell intrinsic subtypes from colorectal cancer biopsies. J Pathol 2018 May;245(1):19-28. PMID: 29412457
  • Martin EC, Qureshi AT, Llamas CB, Burow ME et al. Mirna biogenesis pathway is differentially regulated during adipose derived stromal/stem cell differentiation. Adipocyte 2018;7(2):96-105. PMID: 29411671
  • Diep DTV, Hong K, Khun T, Zheng M et al. Anti-adipogenic effects of KD025 (SLx-2119), a ROCK2-specific inhibitor, in 3T3-L1 cells. Sci Rep 2018 Feb 6;8(1):2477. PMID: 29410516
  • Zheng B, Ren T, Huang Y, Sun K et al. PD-1 axis expression in musculoskeletal tumors and antitumor effect of nivolumab in osteosarcoma model of humanized mouse. J Hematol Oncol 2018 Feb 6;11(1):16. PMID: 29409495
  • Tian W, Li Y, Zhang J, Li J et al. Combined analysis of DNA methylation and gene expression profiles of osteosarcoma identified several prognosis signatures. Gene 2018 Apr 15;650:7-14. PMID: 29407229
  • Cecotka A, Polanska J et al. Region-Specific Methylation Profiling in Acute Myeloid Leukemia. Interdiscip Sci 2018 Mar;10(1):33-42. PMID: 29405013
  • Adam M, Heikelä H, Sobolewski C, Portius D et al. Hydroxysteroid (17β) dehydrogenase 13 deficiency triggers hepatic steatosis and inflammation in mice. FASEB J 2018 Jun;32(6):3434-3447. PMID: 29401633
  • Shi Y, Lin S, Staats KA, Li Y et al. Haploinsufficiency leads to neurodegeneration in C9ORF72 ALS/FTD human induced motor neurons. Nat Med 2018 Mar;24(3):313-325. PMID: 29400714
  • Whitson RJ, Lee A, Urman NM, Mirza A et al. Noncanonical hedgehog pathway activation through SRF-MKL1 promotes drug resistance in basal cell carcinomas. Nat Med 2018 Mar;24(3):271-281. PMID: 29400712
  • Zhao Q, Wu K, Li N, Li Z et al. Identification of potentially relevant genes for myocardial infarction using RNA sequencing data analysis. Exp Ther Med 2018 Feb;15(2):1456-1464. PMID: 29399125
  • Yajun C, Yuan T, Zhong W, Bin X et al. Investigation of the molecular mechanisms underlying postoperative recurrence in prostate cancer by gene expression profiling. Exp Ther Med 2018 Jan;15(1):761-768. PMID: 29399083
  • Zhao X, Li D, Huang D, Song H et al. Risk-Associated Long Noncoding RNA FOXD3-AS1 Inhibits Neuroblastoma Progression by Repressing PARP1-Mediated Activation of CTCF. Mol Ther 2018 Mar 7;26(3):755-773. PMID: 29398485
  • Puri S, Roy N, Russ HA, Leonhardt L et al. Replication confers β cell immaturity. Nat Commun 2018 Feb 2;9(1):485. PMID: 29396395
  • Liang YY, Huang JC, Tang RX, Chen WJ et al. Clinical value of miR-198-5p in lung squamous cell carcinoma assessed using microarray and RT-qPCR. World J Surg Oncol 2018 Feb 2;16(1):22. PMID: 29394946
  • Cai C, He H, Duan X, Wu W et al. miR-195 inhibits cell proliferation and angiogenesis in human prostate cancer by downregulating PRR11 expression. Oncol Rep 2018 Apr;39(4):1658-1670. PMID: 29393495
  • Wang JY, Huang JC, Chen G, Wei DM et al. Expression level and potential target pathways of miR-1-3p in colorectal carcinoma based on 645 cases from 9 microarray datasets. Mol Med Rep 2018 Apr;17(4):5013-5020. PMID: 29393467
  • Zhang Y, Xu J, Zhu X et al. A 63 signature genes prediction system is effective for glioblastoma prognosis. Int J Mol Med 2018 Apr;41(4):2070-2078. PMID: 29393370
  • Yang J, Zou Y, Jiang D et al. Honokiol suppresses proliferation and induces apoptosis via regulation of the miR‑21/PTEN/PI3K/AKT signaling pathway in human osteosarcoma cells. Int J Mol Med 2018 Apr;41(4):1845-1854. PMID: 29393336
  • Lin YF, Tseng IJ, Kuo CJ, Lin HY et al. High-level expression of ARID1A predicts a favourable outcome in triple-negative breast cancer patients receiving paclitaxel-based chemotherapy. J Cell Mol Med 2018 Apr;22(4):2458-2468. PMID: 29392887
  • Suman S, Mishra A et al. Network analysis revealed aurora kinase dysregulation in five gynecological types of cancer. Oncol Lett 2018 Jan;15(1):1125-1132. PMID: 29391900
  • Larasati YA, Yoneda-Kato N, Nakamae I, Yokoyama T et al. Curcumin targets multiple enzymes involved in the ROS metabolic pathway to suppress tumor cell growth. Sci Rep 2018 Feb 1;8(1):2039. PMID: 29391517
  • Fok JHL, Hedayat S, Zhang L, Aronson LI et al. HSF1 Is Essential for Myeloma Cell Survival and A Promising Therapeutic Target. Clin Cancer Res 2018 May 15;24(10):2395-2407. PMID: 29391353
  • Tang SW, Thomas A, Murai J, Trepel JB et al. Overcoming Resistance to DNA-Targeted Agents by Epigenetic Activation of Schlafen 11 (SLFN11) Expression with Class I Histone Deacetylase Inhibitors. Clin Cancer Res 2018 Apr 15;24(8):1944-1953. PMID: 29391350
  • Carazo F, Romero JP, Rubio A et al. Upstream analysis of alternative splicing: a review of computational approaches to predict context-dependent splicing factors. Brief Bioinform 2019 Jul 19;20(4):1358-1375. PMID: 29390045
  • Yu Y, Wang X, Li Q, Zhang M et al. Bioinformatics analysis of gene expression alterations conferring drug resistance in tumor samples from melanoma patients with EGFR-activating BRAF mutations. Oncol Lett 2018 Jan;15(1):635-641. PMID: 29387237
  • Sezin T, Vorobyev A, Sadik CD, Zillikens D et al. Gene Expression Analysis Reveals Novel Shared Gene Signatures and Candidate Molecular Mechanisms between Pemphigus and Systemic Lupus Erythematosus in CD4(+) T Cells. Front Immunol 2017;8:1992. PMID: 29387060
  • Johnson BP, Vitek RA, Geiger PG, Huang W et al. Vital ex vivo tissue labeling and pathology-guided micropunching to characterize cellular heterogeneity in the tissue microenvironment. Biotechniques 2018 Jan 1;64(1):13-19. PMID: 29384072
  • Papaspyropoulos A, Bradley L, Thapa A, Leung CY et al. RASSF1A uncouples Wnt from Hippo signalling and promotes YAP mediated differentiation via p73. Nat Commun 2018 Jan 30;9(1):424. PMID: 29382819
  • Annis MG, Ouellet V, Rennhack JP, L'Esperance S et al. Integrin-uPAR signaling leads to FRA-1 phosphorylation and enhanced breast cancer invasion. Breast Cancer Res 2018 Jan 30;20(1):9. PMID: 29382358
  • Stielow B, Finkernagel F, Stiewe T, Nist A et al. MGA, L3MBTL2 and E2F6 determine genomic binding of the non-canonical Polycomb repressive complex PRC1.6. PLoS Genet 2018 Jan;14(1):e1007193. PMID: 29381691
  • Mancinelli R, Carpino G, Petrungaro S, Mammola CL et al. Multifaceted Roles of GSK-3 in Cancer and Autophagy-Related Diseases. Oxid Med Cell Longev 2017;2017:4629495. PMID: 29379583
  • Lövkvist C, Sneppen K, Haerter JO et al. Exploring the Link between Nucleosome Occupancy and DNA Methylation. Front Genet 2017;8:232. PMID: 29379519
  • Olley G, Ansari M, Bengani H, Grimes GR et al. BRD4 interacts with NIPBL and BRD4 is mutated in a Cornelia de Lange-like syndrome. Nat Genet 2018 Mar;50(3):329-332. PMID: 29379197
  • Chiang KM, Yang HC, Pan WH et al. A Two-Stage Whole-Genome Gene Expression Association Study of Young-Onset Hypertension in Han Chinese Population of Taiwan. Sci Rep 2018 Jan 29;8(1):1800. PMID: 29379041
  • Wu B, Su S, Patil DP, Liu H et al. Molecular basis for the specific and multivariant recognitions of RNA substrates by human hnRNP A2/B1. Nat Commun 2018 Jan 29;9(1):420. PMID: 29379020
  • Thu KL, Silvester J, Elliott MJ, Ba-Alawi W et al. Disruption of the anaphase-promoting complex confers resistance to TTK inhibitors in triple-negative breast cancer. Proc Natl Acad Sci U S A 2018 Feb 13;115(7):E1570-E1577. PMID: 29378962
  • Guan Q, Yan H, Chen Y, Zheng B et al. Quantitative or qualitative transcriptional diagnostic signatures? A case study for colorectal cancer. BMC Genomics 2018 Jan 29;19(1):99. PMID: 29378509
  • Zhang S, Wang J, Wang H, Fan L et al. Hippo Cascade Controls Lineage Commitment of Liver Tumors in Mice and Humans. Am J Pathol 2018 Apr;188(4):995-1006. PMID: 29378174
  • Mondal M, Klimov P, Flynt AS et al. Rewired RNAi-mediated genome surveillance in house dust mites. PLoS Genet 2018 Jan;14(1):e1007183. PMID: 29377900
  • Dai W, Li Y, Mo S, Feng Y et al. A robust gene signature for the prediction of early relapse in stage I-III colon cancer. Mol Oncol 2018 Apr;12(4):463-475. PMID: 29377588
  • Stromecki M, Tatari N, Morrison LC, Kaur R et al. Characterization of a novel OTX2-driven stem cell program in Group 3 and Group 4 medulloblastoma. Mol Oncol 2018 Apr;12(4):495-513. PMID: 29377567
  • Fu Y, Yang Y, Zhang H, Farley G et al. The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology. Elife 2018 Jan 29;7. PMID: 29376823
  • Gong S, Johnson MD, Dopierala J, Gaccioli F et al. Genome-wide oxidative bisulfite sequencing identifies sex-specific methylation differences in the human placenta. Epigenetics 2018;13(3):228-239. PMID: 29376485
  • Li Q, Ahsan MA, Chen H, Xue J et al. Discovering Putative Peptides Encoded from Noncoding RNAs in Ribosome Profiling Data of Arabidopsis thaliana. ACS Synth Biol 2018 Feb 16;7(2):655-663. PMID: 29376339
  • Fukutani KF, Kasprzykowski JI, Paschoal AR, Gomes MS et al. Meta-Analysis of Aedes aegypti Expression Datasets: Comparing Virus Infection and Blood-Fed Transcriptomes to Identify Markers of Virus Presence. Front Bioeng Biotechnol 2017;5:84. PMID: 29376049
  • Canfield K, Wells W, Geradts J, Kinlaw WB et al. Inverse association between MDM2 and HUWE1 protein expression levels in human breast cancer and liposarcoma. Int J Clin Exp Pathol 2016;9(6):6342-6349. PMID: 29375730
  • Gao Z, Fu HJ, Zhao LB, Sun ZY et al. Aberrant DNA methylation associated with Alzheimer's disease in the superior temporal gyrus. Exp Ther Med 2018 Jan;15(1):103-108. PMID: 29375678
  • Wang Y, Huang A, Gan L, Bao Y et al. Screening of Potential Genes and Transcription Factors of Postoperative Cognitive Dysfunction via Bioinformatics Methods. Med Sci Monit 2018 Jan 25;24:503-510. PMID: 29374768
  • Cai MH, Xu XG, Yan SL, Sun Z et al. Depletion of HDAC1, 7 and 8 by Histone Deacetylase Inhibition Confers Elimination of Pancreatic Cancer Stem Cells in Combination with Gemcitabine. Sci Rep 2018 Jan 26;8(1):1621. PMID: 29374219
  • Hsu TS, Mo ST, Hsu PN, Lai MZ et al. c-FLIP is a target of the E3 ligase deltex1 in gastric cancer. Cell Death Dis 2018 Jan 26;9(2):135. PMID: 29374180
  • Chen YJ, Chang WA, Huang MS, Chen CH et al. Identification of novel genes in aging osteoblasts using next-generation sequencing and bioinformatics. Oncotarget 2017 Dec 26;8(69):113598-113613. PMID: 29371932
  • Cohen AS, Khalil FK, Welsh EA, Schabath MB et al. Cell-surface marker discovery for lung cancer. Oncotarget 2017 Dec 26;8(69):113373-113402. PMID: 29371917
  • Zhu QN, Renaud H, Guo Y et al. Bioinformatics-based identification of miR-542-5p as a predictive biomarker in breast cancer therapy. Hereditas 2018;155:17. PMID: 29371858
  • Shao Y, Shaw M, Todd K, Khrestian M et al. DNA methylation of TOMM40-APOE-APOC2 in Alzheimer's disease. J Hum Genet 2018 Apr;63(4):459-471. PMID: 29371683
  • Rhee S, Chung JI, King DA, D'amato G et al. Endothelial deletion of Ino80 disrupts coronary angiogenesis and causes congenital heart disease. Nat Commun 2018 Jan 25;9(1):368. PMID: 29371594
  • Johnson JM, Thürich J, Petutschnig EK, Altschmied L et al. A Poly(A) Ribonuclease Controls the Cellotriose-Based Interaction between Piriformospora indica and Its Host Arabidopsis. Plant Physiol 2018 Mar;176(3):2496-2514. PMID: 29371249
  • Agosto MA, Anastassov IA, Wensel TG et al. Differential epitope masking reveals synapse-specific complexes of TRPM1. Vis Neurosci 2018 Jan;35:E001. PMID: 29370879
  • West SM, Mecenas D, Gutwein M, Aristizábal-Corrales D et al. Developmental dynamics of gene expression and alternative polyadenylation in the Caenorhabditis elegans germline. Genome Biol 2018 Jan 24;19(1):8. PMID: 29368663
  • He S, Yang S, Niu M, Zhong Y et al. HMG-box transcription factor 1: a positive regulator of the G1/S transition through the Cyclin-CDK-CDKI molecular network in nasopharyngeal carcinoma. Cell Death Dis 2018 Jan 24;9(2):100. PMID: 29367693
  • Li M, Han Y, Zhou H, Li X et al. Transmembrane protein 170B is a novel breast tumorigenesis suppressor gene that inhibits the Wnt/β-catenin pathway. Cell Death Dis 2018 Jan 24;9(2):91. PMID: 29367600
  • Jones AC, Troy NM, White E, Hollams EM et al. Persistent activation of interlinked type 2 airway epithelial gene networks in sputum-derived cells from aeroallergen-sensitized symptomatic asthmatics. Sci Rep 2018 Jan 24;8(1):1511. PMID: 29367592
  • Ho WC, Zhang J et al. Evolutionary adaptations to new environments generally reverse plastic phenotypic changes. Nat Commun 2018 Jan 24;9(1):350. PMID: 29367589
  • Kong F, Sun T, Kong X, Xie D et al. Krüppel-like Factor 4 Suppresses Serine/Threonine Kinase 33 Activation and Metastasis of Gastric Cancer through Reversing Epithelial-Mesenchymal Transition. Clin Cancer Res 2018 May 15;24(10):2440-2451. PMID: 29367428
  • Huang Y, Cao Y, Li J, Liu Y et al. A survey on cellular RNA editing activity in response to Candida albicans infections. BMC Genomics 2018 Jan 19;19(Suppl 1):43. PMID: 29363428
  • Koter MD, Święcicka M, Matuszkiewicz M, Pacak A et al. The miRNAome dynamics during developmental and metabolic reprogramming of tomato root infected with potato cyst nematode. Plant Sci 2018 Mar;268:18-29. PMID: 29362080
  • Li Y, Jiang Q, Ding Z, Liu G et al. Identification of a Common Different Gene Expression Signature in Ischemic Cardiomyopathy. Genes (Basel) 2018 Jan 22;9(1). PMID: 29361784
  • Chella Krishnan K, Kurt Z, Barrere-Cain R, Sabir S et al. Integration of Multi-omics Data from Mouse Diversity Panel Highlights Mitochondrial Dysfunction in Non-alcoholic Fatty Liver Disease. Cell Syst 2018 Jan 24;6(1):103-115.e7. PMID: 29361464
  • Yuzhalin AE, Urbonas T, Silva MA, Muschel RJ et al. A core matrisome gene signature predicts cancer outcome. Br J Cancer 2018 Feb 6;118(3):435-440. PMID: 29360819
  • Van Laar R, Lincoln M, Van Laar B et al. Development and validation of a plasma-based melanoma biomarker suitable for clinical use. Br J Cancer 2018 Mar 20;118(6):857-866. PMID: 29360813
  • Hua S, Liu C, Liu L, Wu D et al. miR-142-3p inhibits aerobic glycolysis and cell proliferation in hepatocellular carcinoma via targeting LDHA. Biochem Biophys Res Commun 2018 Feb 12;496(3):947-954. PMID: 29360449
  • Jain D, Puno MR, Meydan C, Lailler N et al. ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2. Elife 2018 Jan 23;7. PMID: 29360036
  • Pang X, Zhao Y, Wang J, Zhou Q et al. The Bioinformatic Analysis of the Dysregulated Genes and MicroRNAs in Entorhinal Cortex, Hippocampus, and Blood for Alzheimer's Disease. Biomed Res Int 2017;2017:9084507. PMID: 29359159
  • Haynes WA, Tomczak A, Khatri P et al. Gene annotation bias impedes biomedical research. Sci Rep 2018 Jan 22;8(1):1362. PMID: 29358745
  • Tsagris M, Lagani V, Tsamardinos I et al. Feature selection for high-dimensional temporal data. BMC Bioinformatics 2018 Jan 23;19(1):17. PMID: 29357817
  • Redenšek S, Dolžan V, Kunej T et al. From Genomics to Omics Landscapes of Parkinson's Disease: Revealing the Molecular Mechanisms. OMICS 2018 Jan;22(1):1-16. PMID: 29356624
  • Fumagalli MR, Zapperi S, La Porta CAM et al. Regeneration in distantly related species: common strategies and pathways. NPJ Syst Biol Appl 2018;4:5. PMID: 29354283
  • Castrogiovanni P, Li Volti G, Sanfilippo C, Tibullo D et al. Fasting and Fast Food Diet Play an Opposite Role in Mice Brain Aging. Mol Neurobiol 2018 Aug;55(8):6881-6893. PMID: 29353457
  • Zhang Y, Manjunath M, Zhang S, Chasman D et al. Integrative Genomic Analysis Predicts Causative Cis-Regulatory Mechanisms of the Breast Cancer-Associated Genetic Variant rs4415084. Cancer Res 2018 Apr 1;78(7):1579-1591. PMID: 29351903
  • Yin AA, Lu N, Etcheverry A, Aubry M et al. A novel prognostic six-CpG signature in glioblastomas. CNS Neurosci Ther 2018 Mar;24(3):167-177. PMID: 29350455
  • Ogunbolude Y, Dai C, Bagu ET, Goel RK et al. FRK inhibits breast cancer cell migration and invasion by suppressing epithelial-mesenchymal transition. Oncotarget 2017 Dec 22;8(68):113034-113065. PMID: 29348886
  • Yu W, Zhao S, Wang Y, Zhao BN et al. Identification of cancer prognosis-associated functional modules using differential co-expression networks. Oncotarget 2017 Dec 22;8(68):112928-112941. PMID: 29348878
  • Risso D, Perraudeau F, Gribkova S, Dudoit S et al. A general and flexible method for signal extraction from single-cell RNA-seq data. Nat Commun 2018 Jan 18;9(1):284. PMID: 29348443
  • Hollern DP, Swiatnicki MR, Andrechek ER et al. Histological subtypes of mouse mammary tumors reveal conserved relationships to human cancers. PLoS Genet 2018 Jan;14(1):e1007135. PMID: 29346386
  • Hong Y, He H, Sui W, Zhang J et al. Long non-coding RNA H1 promotes cell proliferation and invasion by acting as a ceRNA of miR‑138 and releasing EZH2 in oral squamous cell carcinoma. Int J Oncol 2018 Mar;52(3):901-912. PMID: 29344674
  • Penrose HM, Heller S, Cable C, Nakhoul H et al. In colonic ρ(0) (rho0) cells reduced mitochondrial function mediates transcriptomic alterations associated with cancer. Oncoscience 2017 Nov;4(11-12):189-198. PMID: 29344557
  • Wei W, Chen Y, Xu J, Zhou Y et al. Identification of Biomarker for Cutaneous Squamous Cell Carcinoma Using Microarray Data Analysis. J Cancer 2018;9(2):400-406. PMID: 29344286
  • Lu G, Fu D, Jia C, Chai L et al. Reduced miR-105-1 levels are associated with poor survival of patients with non-small cell lung cancer. Oncol Lett 2017 Dec;14(6):7842-7848. PMID: 29344230
  • Hui L, Zhang J, Ding X, Guo X et al. Identification of potentially critical differentially methylated genes in nasopharyngeal carcinoma: A comprehensive analysis of methylation profiling and gene expression profiling. Oncol Lett 2017 Dec;14(6):7171-7178. PMID: 29344148
  • Pan Y, Zhang H, Zhang M, Zhu J et al. A five-gene based risk score with high prognostic value in colorectal cancer. Oncol Lett 2017 Dec;14(6):6724-6734. PMID: 29344121
  • Wu PL, He YF, Yao HH, Hu B et al. Martrilin-3 (MATN3) Overexpression in Gastric Adenocarcinoma and its Prognostic Significance. Med Sci Monit 2018 Jan 18;24:348-355. PMID: 29343680
  • Schwab A, Siddiqui A, Vazakidou ME, Napoli F et al. Polyol Pathway Links Glucose Metabolism to the Aggressiveness of Cancer Cells. Cancer Res 2018 Apr 1;78(7):1604-1618. PMID: 29343522
  • Heinze K, Kritsch D, Mosig AS, Dürst M et al. Functional Analyses of RUNX3 and CaMKIINα in Ovarian Cancer Cell Lines Reveal Tumor-Suppressive Functions for CaMKIINα and Dichotomous Roles for RUNX3 Transcript Variants. Int J Mol Sci 2018 Jan 15;19(1). PMID: 29342962
  • Makondi PT, Lee CH, Huang CY, Chu CM et al. Prediction of novel target genes and pathways involved in bevacizumab-resistant colorectal cancer. PLoS One 2018;13(1):e0189582. PMID: 29342159
  • Zhan X, Yu W, Franqui-Machin R, Bates ML et al. Alteration of mitochondrial biogenesis promotes disease progression in multiple myeloma. Oncotarget 2017 Dec 19;8(67):111213-111224. PMID: 29340048
  • Triki M, Ben Ayed-Guerfali D, Saguem I, Charfi S et al. RIP140 and LCoR expression in gastrointestinal cancers. Oncotarget 2017 Dec 19;8(67):111161-111175. PMID: 29340045
  • Wu J, Chen ZP, Shang AQ, Wang WW et al. Systemic bioinformatics analysis of recurrent aphthous stomatitis gene expression profiles. Oncotarget 2017 Dec 19;8(67):111064-111072. PMID: 29340037
  • Shi G, Zhang J, Lu Z, Liu D et al. A novel messenger RNA signature as a prognostic biomarker for predicting relapse in pancreatic ductal adenocarcinoma. Oncotarget 2017 Dec 19;8(67):110849-110860. PMID: 29340021
  • Velazquez-Villegas LA, Perino A, Lemos V, Zietak M et al. TGR5 signalling promotes mitochondrial fission and beige remodelling of white adipose tissue. Nat Commun 2018 Jan 16;9(1):245. PMID: 29339725
  • Muliaditan T, Opzoomer JW, Caron J, Okesola M et al. Repurposing Tin Mesoporphyrin as an Immune Checkpoint Inhibitor Shows Therapeutic Efficacy in Preclinical Models of Cancer. Clin Cancer Res 2018 Apr 1;24(7):1617-1628. PMID: 29339440
  • Hansson B, Wasserstrom S, Morén B, Periwal V et al. Intact glucose uptake despite deteriorating signaling in adipocytes with high-fat feeding. J Mol Endocrinol 2018 Apr;60(3):199-211. PMID: 29339400
  • Wang L, Zhang X, Zhang J, Fan W et al. Proteomic Analysis and Identification of Possible Allergenic Proteins in Mature Pollen of Populus tomentosa. Int J Mol Sci 2018 Jan 16;19(1). PMID: 29337913
  • Sweeney TE, Thomas NJ, Howrylak JA, Wong HR et al. Multicohort Analysis of Whole-Blood Gene Expression Data Does Not Form a Robust Diagnostic for Acute Respiratory Distress Syndrome. Crit Care Med 2018 Feb;46(2):244-251. PMID: 29337789
  • Creighton CJMaking Use of Cancer Genomic Databases. Curr Protoc Mol Biol 2018 Jan 16;121:19.14.1-19.14.13. PMID: 29337373
  • Hua S, Lei L, Deng L, Weng X et al. miR-139-5p inhibits aerobic glycolysis, cell proliferation, migration, and invasion in hepatocellular carcinoma via a reciprocal regulatory interaction with ETS1. Oncogene 2018 Mar;37(12):1624-1636. PMID: 29335523
  • Wang Q, Sun Q, Czajkowsky DM, Shao Z et al. Sub-kb Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells. Nat Commun 2018 Jan 15;9(1):188. PMID: 29335463
  • Cairns J, Fridley BL, Jenkins GD, Zhuang Y et al. Differential roles of ERRFI1 in EGFR and AKT pathway regulation affect cancer proliferation. EMBO Rep 2018 Mar;19(3). PMID: 29335246
  • Boutens L, Hooiveld GJ, Dhingra S, Cramer RA et al. Unique metabolic activation of adipose tissue macrophages in obesity promotes inflammatory responses. Diabetologia 2018 Apr;61(4):942-953. PMID: 29333574
  • Alhamdoosh M, Law CW, Tian L, Sheridan JM et al. Easy and efficient ensemble gene set testing with EGSEA. F1000Res 2017;6:2010. PMID: 29333246
  • He Y, Bai J, Liu P, Dong J et al. miR-494 protects pancreatic β-cell function by targeting PTEN in gestational diabetes mellitus. EXCLI J 2017;16:1297-1307. PMID: 29333131
  • Rozanov DV, Rozanov ND, Chiotti KE, Reddy A et al. MHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection. J Proteomics 2018 Mar 30;176:13-23. PMID: 29331515
  • Nuncia-Cantarero M, Martinez-Canales S, Andrés-Pretel F, Santpere G et al. Functional transcriptomic annotation and protein-protein interaction network analysis identify NEK2, BIRC5, and TOP2A as potential targets in obese patients with luminal A breast cancer. Breast Cancer Res Treat 2018 Apr;168(3):613-623. PMID: 29330624
  • Li J, Zhou D, Qiu W, Shi Y et al. Application of Weighted Gene Co-expression Network Analysis for Data from Paired Design. Sci Rep 2018 Jan 12;8(1):622. PMID: 29330528
  • Otsuka Y, Oikawa T, Yoshino H, Hashimoto S et al. Frequent overexpression of AMAP1, an Arf6 effector in cell invasion, is characteristic of the MMTV-PyMT rather than the MMTV-Neu human breast cancer model. Cell Commun Signal 2018 Jan 5;16(1):1. PMID: 29329590
  • Vanderplanck C, Tassin A, Ansseau E, Charron S et al. Overexpression of the double homeodomain protein DUX4c interferes with myofibrillogenesis and induces clustering of myonuclei. Skelet Muscle 2018 Jan 12;8(1):2. PMID: 29329560
  • Chen JF, Wu P, Xia R, Yang J et al. STAT3-induced lncRNA HAGLROS overexpression contributes to the malignant progression of gastric cancer cells via mTOR signal-mediated inhibition of autophagy. Mol Cancer 2018 Jan 12;17(1):6. PMID: 29329543
  • Christ A, Günther P, Lauterbach MAR, Duewell P et al. Western Diet Triggers NLRP3-Dependent Innate Immune Reprogramming. Cell 2018 Jan 11;172(1-2):162-175.e14. PMID: 29328911
  • He X, Zhang C, Shi C, Lu Q et al. Meta-analysis of mRNA expression profiles to identify differentially expressed genes in lung adenocarcinoma tissue from smokers and non-smokers. Oncol Rep 2018 Mar;39(3):929-938. PMID: 29328493
  • Dong X, Cong S et al. Identification of differentially expressed genes and regulatory relationships in Huntington's disease by bioinformatics analysis. Mol Med Rep 2018 Mar;17(3):4317-4326. PMID: 29328442
  • Wang YW, Zhang W, Ma R et al. Bioinformatic identification of chemoresistance-associated microRNAs in breast cancer based on microarray data. Oncol Rep 2018 Mar;39(3):1003-1010. PMID: 29328395
  • Fei HJ, Chen SC, Zhang JY, Li SY et al. Identification of significant biomarkers and pathways associated with gastric carcinogenesis by whole genome-wide expression profiling analysis. Int J Oncol 2018 Mar;52(3):955-966. PMID: 29328368
  • Zhi J, Sun J, Wang Z, Ding W et al. Support vector machine classifier for prediction of the metastasis of colorectal cancer. Int J Mol Med 2018 Mar;41(3):1419-1426. PMID: 29328363
  • Chen YL, Ge GJ, Qi C, Wang H et al. A five-gene signature may predict sunitinib sensitivity and serve as prognostic biomarkers for renal cell carcinoma. J Cell Physiol 2018 Oct;233(10):6649-6660. PMID: 29327492
  • He JY, Han P, Zhang Y, Liu YD et al. Overexpression of Nogo receptor 3 (NgR3) correlates with poor prognosis and contributes to the migration of epithelial cells of nasopharyngeal carcinoma patients. J Mol Med (Berl) 2018 Apr;96(3-4):265-279. PMID: 29327067
  • Leong WZ, Tan SH, Ngoc PCT, Amanda S et al. ARID5B as a critical downstream target of the TAL1 complex that activates the oncogenic transcriptional program and promotes T-cell leukemogenesis. Genes Dev 2017 Dec 1;31(23-24):2343-2360. PMID: 29326336
  • Duncan CG, Kondilis-Mangum HD, Grimm SA, Bushel PR et al. Base-Resolution Analysis of DNA Methylation Patterns Downstream of Dnmt3a in Mouse Naïve B Cells. G3 (Bethesda) 2018 Mar 2;8(3):805-813. PMID: 29326230
  • Noh H, Shoemaker JE, Gunawan R et al. Network perturbation analysis of gene transcriptional profiles reveals protein targets and mechanism of action of drugs and influenza A viral infection. Nucleic Acids Res 2018 Apr 6;46(6):e34. PMID: 29325153
  • Yan G, Xiao X, Wang N, Zhang F et al. Genome-wide analysis and expression profiles of glyoxalase gene families in Chinese cabbage (Brassica rapa L). PLoS One 2018;13(1):e0191159. PMID: 29324881
  • Wang Y, Qin T, Hu W, Chen B et al. Genome-Wide Methylation Patterns in Androgen-Independent Prostate Cancer Cells: A Comprehensive Analysis Combining MeDIP-Bisulfite, RNA, and microRNA Sequencing Data. Genes (Basel) 2018 Jan 11;9(1). PMID: 29324665
  • Yin X, Yu J, Zhou Y, Wang C et al. Identification of CDK2 as a novel target in treatment of prostate cancer. Future Oncol 2018 Apr;14(8):709-718. PMID: 29323532
  • Hasna J, Hague F, Rodat-Despoix L, Geerts D et al. Orai3 calcium channel and resistance to chemotherapy in breast cancer cells: the p53 connection. Cell Death Differ 2018 Mar;25(4):693-707. PMID: 29323264
  • Vlaic S, Conrad T, Tokarski-Schnelle C, Gustafsson M et al. ModuleDiscoverer: Identification of regulatory modules in protein-protein interaction networks. Sci Rep 2018 Jan 11;8(1):433. PMID: 29323246
  • Jiang H, Ching WK, Cheung WS, Hou W et al. Hadamard Kernel SVM with applications for breast cancer outcome predictions. BMC Syst Biol 2017 Dec 21;11(Suppl 7):138. PMID: 29322919
  • Gao X, Tang RX, Xie QN, Lin JY et al. The clinical value of miR-193a-3p in non-small cell lung cancer and its potential molecular mechanism explored in silico using RNA-sequencing and microarray data. FEBS Open Bio 2018 Jan;8(1):94-109. PMID: 29321960
  • Yeganeh PN, Richardson C, Bahrani-Mostafavi Z, Tait DL et al. Dysregulation of AKT3 along with a small panel of mRNAs stratifies high-grade serous ovarian cancer from both normal epithelia and benign tumor tissues. Genes Cancer 2017 Nov;8(11-12):784-798. PMID: 29321820
  • Lopez-Delisle L, Pierre-Eugène C, Louis-Brennetot C, Surdez D et al. Activated ALK signals through the ERK-ETV5-RET pathway to drive neuroblastoma oncogenesis. Oncogene 2018 Mar;37(11):1417-1429. PMID: 29321660
  • Elias S, Robertson EJ, Bikoff EK, Mould AW et al. Blimp-1/PRDM1 is a critical regulator of Type III Interferon responses in mammary epithelial cells. Sci Rep 2018 Jan 10;8(1):237. PMID: 29321612
  • Wang B, Wan F, Sheng H, Zhu Y et al. Identification and validation of an 18-gene signature highly-predictive of bladder cancer metastasis. Sci Rep 2018 Jan 10;8(1):374. PMID: 29321541
  • Wei K, Chen H et al. Global identification, structural analysis and expression characterization of cytochrome P450 monooxygenase superfamily in rice. BMC Genomics 2018 Jan 10;19(1):35. PMID: 29320982
  • Nagendran M, Riordan DP, Harbury PB, Desai TJ et al. Automated cell-type classification in intact tissues by single-cell molecular profiling. Elife 2018 Jan 10;7. PMID: 29319504
  • Arenas AF, Salcedo GE, Gomez-Marin JE et al. R Script Approach to Infer Toxoplasma Infection Mechanisms From Microarrays and Domain-Domain Protein Interactions. Bioinform Biol Insights 2017;11:1177932217747256. PMID: 29317802
  • Lau E, Cao Q, Lam MPY, Wang J et al. Integrated omics dissection of proteome dynamics during cardiac remodeling. Nat Commun 2018 Jan 9;9(1):120. PMID: 29317621
  • Blum CF, Heramvand N, Khonsari AS, Kollmann M et al. Experimental noise cutoff boosts inferability of transcriptional networks in large-scale gene-deletion studies. Nat Commun 2018 Jan 9;9(1):133. PMID: 29317620
  • Wu YH, Lee YH, Shih HY, Chen SH et al. Glucose-6-phosphate dehydrogenase is indispensable in embryonic development by modulation of epithelial-mesenchymal transition via the NOX/Smad3/miR-200b axis. Cell Death Dis 2018 Jan 9;9(1):10. PMID: 29317613
  • Tansey KE, Hill MJ et al. Enrichment of schizophrenia heritability in both neuronal and glia cell regulatory elements. Transl Psychiatry 2018 Jan 10;8(1):7. PMID: 29317610
  • Wang P, Zhao D, Lachman HM, Zheng D et al. Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons. Transl Psychiatry 2018 Jan 10;8(1):13. PMID: 29317598
  • Naik RR, Sotnikov SV, Diepold RP, Iurato S et al. Polymorphism in Tmem132d regulates expression and anxiety-related behavior through binding of RNA polymerase II complex. Transl Psychiatry 2018 Jan 10;8(1):1. PMID: 29317594
  • Drummond CJ, Hanna JA, Garcia MR, Devine DJ et al. Hedgehog Pathway Drives Fusion-Negative Rhabdomyosarcoma Initiated From Non-myogenic Endothelial Progenitors. Cancer Cell 2018 Jan 8;33(1):108-124.e5. PMID: 29316425
  • Sulaiman A, McGarry S, Li L, Jia D et al. Dual inhibition of Wnt and Yes-associated protein signaling retards the growth of triple-negative breast cancer in both mesenchymal and epithelial states. Mol Oncol 2018 Apr;12(4):423-440. PMID: 29316250
  • Minotti L, Baldassari F, Galasso M, Volinia S et al. A long non-coding RNA inside the type 2 transglutaminase gene tightly correlates with the expression of its transcriptional variants. Amino Acids 2018 Apr;50(3-4):421-438. PMID: 29313085
  • Mittal S, Mallikarjuna MG, Rao AR, Jain PA et al. Comparative Analysis of CDPK Family in Maize, Arabidopsis, Rice, and Sorghum Revealed Potential Targets for Drought Tolerance Improvement. Front Chem 2017;5:115. PMID: 29312925
  • Long NP, Jung KH, Yoon SJ, Anh NH et al. Systematic assessment of cervical cancer initiation and progression uncovers genetic panels for deep learning-based early diagnosis and proposes novel diagnostic and prognostic biomarkers. Oncotarget 2017 Dec 12;8(65):109436-109456. PMID: 29312619
  • Luan M, Shang Z, Teng Y, Chen X et al. The shared and specific mechanism of four autoimmune diseases. Oncotarget 2017 Dec 12;8(65):108355-108374. PMID: 29312536
  • Zhang R, Lin P, Yang H, He Y et al. Clinical role and biological function of CDK5 in hepatocellular carcinoma: A study based on immunohistochemistry, RNA-seq and in vitro investigation. Oncotarget 2017 Dec 12;8(65):108333-108354. PMID: 29312535
  • Bélanger C, Bérubé-Simard FA, Leduc E, Bernas G et al. Dysregulation of cotranscriptional alternative splicing underlies CHARGE syndrome. Proc Natl Acad Sci U S A 2018 Jan 23;115(4):E620-E629. PMID: 29311329
  • Fromme T, Kleigrewe K, Dunkel A, Retzler A et al. Degradation of brown adipocyte purine nucleotides regulates uncoupling protein 1 activity. Mol Metab 2018 Feb;8:77-85. PMID: 29310935
  • Dyjack N, Goleva E, Rios C, Kim BE et al. Minimally invasive skin tape strip RNA sequencing identifies novel characteristics of the type 2-high atopic dermatitis disease endotype. J Allergy Clin Immunol 2018 Apr;141(4):1298-1309. PMID: 29309794
  • Pande A, Brosius J, Makalowska I, Makalowski W et al. Transcriptional interference by small transcripts in proximal promoter regions. Nucleic Acids Res 2018 Feb 16;46(3):1069-1088. PMID: 29309647
  • Layer RM, Pedersen BS, DiSera T, Marth GT et al. GIGGLE: a search engine for large-scale integrated genome analysis. Nat Methods 2018 Feb;15(2):123-126. PMID: 29309061
  • Cari L, Nocentini G, Migliorati G, Riccardi C et al. Potential effect of tumor-specific Treg-targeted antibodies in the treatment of human cancers: A bioinformatics analysis. Oncoimmunology 2018;7(2):e1387705. PMID: 29308313
  • Dou YD, Huang T, Wang Q, Shu X et al. Integrated microRNA and mRNA signatures in peripheral blood lymphocytes of familial epithelial ovarian cancer. Biochem Biophys Res Commun 2018 Jan 29;496(1):191-198. PMID: 29307835
  • de la Torre-Ubieta L, Stein JL, Won H, Opland CK et al. The Dynamic Landscape of Open Chromatin during Human Cortical Neurogenesis. Cell 2018 Jan 11;172(1-2):289-304.e18. PMID: 29307494
  • Piao J, Sun J, Yang Y, Jin T et al. Target gene screening and evaluation of prognostic values in non-small cell lung cancers by bioinformatics analysis. Gene 2018 Mar 20;647:306-311. PMID: 29305979
  • Cava C, Bertoli G, Colaprico A, Olsen C et al. Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis. BMC Genomics 2018 Jan 6;19(1):25. PMID: 29304754
  • Ullah F, Hamilton M, Reddy ASN, Ben-Hur A et al. Exploring the relationship between intron retention and chromatin accessibility in plants. BMC Genomics 2018 Jan 5;19(1):21. PMID: 29304739
  • Raškevičius V, Mikalayeva V, Antanavičiūtė I, Ceslevičienė I et al. Genome scale metabolic models as tools for drug design and personalized medicine. PLoS One 2018;13(1):e0190636. PMID: 29304175
  • Yang HD, Eun JW, Lee KB, Shen Q et al. T-cell immune regulator 1 enhances metastasis in hepatocellular carcinoma. Exp Mol Med 2018 Jan 5;50(1):e420. PMID: 29303507
  • Kanteti R, Mirzapoiazova T, Riehm JJ, Dhanasingh I et al. Focal adhesion kinase a potential therapeutic target for pancreatic cancer and malignant pleural mesothelioma. Cancer Biol Ther 2018 Apr 3;19(4):316-327. PMID: 29303405
  • Guéant JL, Chéry C, Oussalah A, Nadaf J et al. APRDX1 mutant allele causes a MMACHC secondary epimutation in cblC patients. Nat Commun 2018 Jan 4;9(1):67. PMID: 29302025
  • Beiki H, Pakdel A, Javaremi AN, Masoudi-Nejad A et al. Cattle infection response network and its functional modules. BMC Immunol 2018 Jan 5;19(1):2. PMID: 29301495
  • Jiang S, Zhang Q, Su Y, Pan L et al. Network-Based Differential Analysis to Identify Molecular Features of Tumorigenesis for Esophageal Squamous Carcinoma. Molecules 2018 Jan 1;23(1). PMID: 29301256
  • Trott AJ, Menet JS et al. Regulation of circadian clock transcriptional output by CLOCK:BMAL1. PLoS Genet 2018 Jan;14(1):e1007156. PMID: 29300726
  • Yan Y, Xu Z, Hu X, Qian L et al. SNCA Is a Functionally Low-Expressed Gene in Lung Adenocarcinoma. Genes (Basel) 2018 Jan 4;9(1). PMID: 29300342
  • Ren FH, Yang H, He RQ, Lu JN et al. Analysis of microarrays of miR-34a and its identification of prospective target gene signature in hepatocellular carcinoma. BMC Cancer 2018 Jan 3;18(1):12. PMID: 29298665
  • Giles CB, Brown CA, Ripperger M, Dennis Z et al. ALE: automated label extraction from GEO metadata. BMC Bioinformatics 2017 Dec 28;18(Suppl 14):509. PMID: 29297276
  • Nakamae I, Kato JY, Yokoyama T, Ito H et al. Myeloid leukemia factor 1 stabilizes tumor suppressor C/EBPα to prevent Trib1-driven acute myeloid leukemia. Blood Adv 2017 Sep 12;1(20):1682-1693. PMID: 29296815
  • Schürch CM, Forster S, Brühl F, Yang SH et al. The "don't eat me" signal CD47 is a novel diagnostic biomarker and potential therapeutic target for diffuse malignant mesothelioma. Oncoimmunology 2017;7(1):e1373235. PMID: 29296529
  • Nambara S, Masuda T, Nishio M, Kuramitsu S et al. Antitumor effects of the antiparasitic agent ivermectin via inhibition of Yes-associated protein 1 expression in gastric cancer. Oncotarget 2017 Dec 8;8(64):107666-107677. PMID: 29296196
  • Liang C, Xu Y, Ge H, Xing B et al. miR-564 inhibits hepatocellular carcinoma cell proliferation and invasion by targeting the GRB2-ERK1/2-AKT axis. Oncotarget 2017 Dec 8;8(64):107543-107557. PMID: 29296185
  • Schultz CR, Geerts D, Mooney M, El-Khawaja R et al. Synergistic drug combination GC7/DFMO suppresses hypusine/spermidine-dependent eIF5A activation and induces apoptotic cell death in neuroblastoma. Biochem J 2018 Jan 31;475(2):531-545. PMID: 29295892
  • Zhang X, Gao L, Jia S et al. Extracting Fitness Relationships and Oncogenic Patterns among Driver Genes in Cancer. Molecules 2017 Dec 25;23(1). PMID: 29295608
  • Pan YB, Zhang CH, Wang SQ, Ai PH et al. Transforming growth factor beta induced (TGFBI) is a potential signature gene for mesenchymal subtype high-grade glioma. J Neurooncol 2018 Apr;137(2):395-407. PMID: 29294230
  • Manukyan A, Kowalczyk I, Melhuish TA, Lemiesz A et al. Analysis of transcriptional activity by the Myt1 and Myt1l transcription factors. J Cell Biochem 2018 Jun;119(6):4644-4655. PMID: 29291346
  • Srivastava PK, Roncon P, Lukasiuk K, Gorter JA et al. Meta-Analysis of MicroRNAs Dysregulated in the Hippocampal Dentate Gyrus of Animal Models of Epilepsy. eNeuro 2017 Nov-Dec;4(6). PMID: 29291240
  • Hartono SR, Malapert A, Legros P, Bernard P et al. The Affinity of the S9.6 Antibody for Double-Stranded RNAs Impacts the Accurate Mapping of R-Loops in Fission Yeast. J Mol Biol 2018 Feb 2;430(3):272-284. PMID: 29289567
  • Wang R, Yu Z, Chen F, Liao C et al. Overexpression of ARID4B predicts poor survival in patients with hepatocellular carcinoma. Hum Pathol 2018 Mar;73:114-121. PMID: 29288040
  • Schulten HJ, Bangash M, Karim S, Dallol A et al. Comprehensive molecular biomarker identification in breast cancer brain metastases. J Transl Med 2017 Dec 29;15(1):269. PMID: 29287594
  • Huang Y, Zhu J, Li W, Zhang Z et al. Serum microRNA panel excavated by machine learning as a potential biomarker for the detection of gastric cancer. Oncol Rep 2018 Mar;39(3):1338-1346. PMID: 29286167
  • Bai X, Shi H, Yang M, Wang Y et al. Identification of key genes implicated in the suppressive function of human FOXP3+CD25+CD4+ regulatory T cells through the analysis of time‑series data. Mol Med Rep 2018 Mar;17(3):3647-3657. PMID: 29286140
  • Handschuh L, Kaźmierczak M, Milewski MC, Góralski M et al. Gene expression profiling of acute myeloid leukemia samples from adult patients with AML-M1 and -M2 through boutique microarrays, real-time PCR and droplet digital PCR. Int J Oncol 2018 Mar;52(3):656-678. PMID: 29286103
  • Suetsugu T, Koshizuka K, Seki N, Mizuno K et al. Downregulation of matrix metalloproteinase 14 by the antitumor miRNA, miR-150-5p, inhibits the aggressiveness of lung squamous cell carcinoma cells. Int J Oncol 2018 Mar;52(3):913-924. PMID: 29286099
  • Li Y, Bai W, Zhang X et al. Identifying heterogeneous subtypes of gastric cancer and subtype‑specific subpaths of microRNA‑target pathways. Mol Med Rep 2018 Mar;17(3):3583-3590. PMID: 29286091
  • Wu XGenome expression profiling predicts the molecular mechanism of peripheral myelination. Int J Mol Med 2018 Mar;41(3):1500-1508. PMID: 29286075
  • Ouzounoglou E, Kolokotroni E, Stanulla M, Stamatakos GS et al. A study on the predictability of acute lymphoblastic leukaemia response to treatment using a hybrid oncosimulator. Interface Focus 2018 Feb 6;8(1):20160163. PMID: 29285342
  • Tang W, Zhang D, Ma X et al. RNA-sequencing reveals genome-wide long non-coding RNAs profiling associated with early development of diabetic nephropathy. Oncotarget 2017 Dec 1;8(62):105832-105847. PMID: 29285296
  • Karpinski P, Rossowska J, Sasiadek MM et al. Immunological landscape of consensus clusters in colorectal cancer. Oncotarget 2017 Dec 1;8(62):105299-105311. PMID: 29285252
  • Yue Y, Song M, Qiao Y, Li P et al. Gene function analysis and underlying mechanism of esophagus cancer based on microarray gene expression profiling. Oncotarget 2017 Dec 1;8(62):105222-105237. PMID: 29285246
  • Mazzoccoli G, Castellana S, Carella M, Palumbo O et al. A primary tumor gene expression signature identifies a crucial role played by tumor stroma myofibroblasts in lymph node involvement in oral squamous cell carcinoma. Oncotarget 2017 Dec 1;8(62):104913-104927. PMID: 29285222
  • Hsu YL, Hung JY, Lee YL, Chen FW et al. Identification of novel gene expression signature in lung adenocarcinoma by using next-generation sequencing data and bioinformatics analysis. Oncotarget 2017 Dec 1;8(62):104831-104854. PMID: 29285217
  • Shan M, Xia Q, Yan D, Zhu Y et al. Molecular analyses of prostate tumors for diagnosis of malignancy on fine-needle aspiration biopsies. Oncotarget 2017 Dec 1;8(62):104761-104771. PMID: 29285211
  • Li J, Qin Y, Zhang H et al. Identification of key miRNA-gene pairs in chronic lymphocytic leukemia through integrated analysis of mRNA and miRNA microarray. Oncol Lett 2018 Jan;15(1):361-367. PMID: 29285196
  • Young RS, Kumar Y, Bickmore WA, Taylor MS et al. Bidirectional transcription initiation marks accessible chromatin and is not specific to enhancers. Genome Biol 2017 Dec 28;18(1):242. PMID: 29284524
  • Rahmatallah Y, Khaidakov M, Lai KK, Goyne HE et al. Platform-independent gene expression signature differentiates sessile serrated adenomas/polyps and hyperplastic polyps of the colon. BMC Med Genomics 2017 Dec 28;10(1):81. PMID: 29284484
  • Magnani E, Jiménez-Gómez JM, Soubigou-Taconnat L, Lepiniec L et al. Profiling the onset of somatic embryogenesis in Arabidopsis. BMC Genomics 2017 Dec 29;18(1):998. PMID: 29284399
  • Shrestha S, Yang CD, Hong HC, Chou CH et al. Integrated MicroRNA-mRNA Analysis Reveals miR-204 Inhibits Cell Proliferation in Gastric Cancer by Targeting CKS1B, CXCL1 and GPRC5A. Int J Mol Sci 2017 Dec 28;19(1). PMID: 29283424
  • Kristensen LS, Okholm TLH, Venø MT, Kjems J et al. Circular RNAs are abundantly expressed and upregulated during human epidermal stem cell differentiation. RNA Biol 2018 Feb 1;15(2):280-291. PMID: 29283313
  • Oh S, Ko JY, Oh C, Yoo KH et al. Targeting the Epigenome as a Novel Therapeutic Approach for Breast Cancer. Adv Exp Med Biol 2017;1026:287-313. PMID: 29282690
  • Zhou R, Zhu Y, Zhao J, Fang Z et al. Transcriptome-Wide Identification and Characterization of Potato Circular RNAs in Response to Pectobacterium carotovorum Subspecies brasiliense Infection. Int J Mol Sci 2017 Dec 27;19(1). PMID: 29280973
  • Yang XH, Nadadur RD, Hilvering CR, Bianchi V et al. Transcription-factor-dependent enhancer transcription defines a gene regulatory network for cardiac rhythm. Elife 2017 Dec 27;6. PMID: 29280435
  • Shelke GV, Jagtap JC, Kim DK, Shah RD et al. TNF-α and IFN-γ Together Up-Regulates Par-4 Expression and Induce Apoptosis in Human Neuroblastomas. Biomedicines 2017 Dec 26;6(1). PMID: 29278364
  • Pietrosemoli N, Mella S, Yennek S, Baghdadi MB et al. Comparison of multiple transcriptomes exposes unified and divergent features of quiescent and activated skeletal muscle stem cells. Skelet Muscle 2017 Dec 22;7(1):28. PMID: 29273087
  • Woldesemayat AA, Van Heusden P, Ndimba BK, Christoffels A et al. An integrated and comparative approach towards identification, characterization and functional annotation of candidate genes for drought tolerance in sorghum (Sorghum bicolor (L.) Moench). BMC Genet 2017 Dec 22;18(1):119. PMID: 29273003
  • Alexandre CM, Urton JR, Jean-Baptiste K, Huddleston J et al. Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana. Mol Biol Evol 2018 Apr 1;35(4):837-854. PMID: 29272536
  • Mourad R, Cuvier O et al. TAD-free analysis of architectural proteins and insulators. Nucleic Acids Res 2018 Mar 16;46(5):e27. PMID: 29272504
  • Yao XM, Tang JH, Zhu H, Jing Y et al. High expression of LncRNA CASC15 is a risk factor for gastric cancer prognosis and promote the proliferation of gastric cancer. Eur Rev Med Pharmacol Sci 2017 Dec;21(24):5661-5667. PMID: 29272000
  • Rajarammohan S, Pradhan AK, Pental D, Kaur J et al. Genome-wide association mapping in Arabidopsis identifies novel genes underlying quantitative disease resistance to Alternaria brassicae. Mol Plant Pathol 2018 Jul;19(7):1719-1732. PMID: 29271603
  • Blankenburg H, Pramstaller PP, Domingues FS et al. A network-based meta-analysis for characterizing the genetic landscape of human aging. Biogerontology 2018 Feb;19(1):81-94. PMID: 29270911
  • Pu W, Wang C, Chen S, Zhao D et al. Targeted bisulfite sequencing identified a panel of DNA methylation-based biomarkers for esophageal squamous cell carcinoma (ESCC). Clin Epigenetics 2017;9:129. PMID: 29270239
  • Sepiol CJ, Yu J, Dhaubhadel S et al. Genome-Wide Identification of Chalcone Reductase Gene Family in Soybean: Insight into Root-Specific GmCHRs and Phytophthora sojae Resistance. Front Plant Sci 2017;8:2073. PMID: 29270182
  • Kim SY, Jeong JM, Kim SJ, Seo W et al. Pro-inflammatory hepatic macrophages generate ROS through NADPH oxidase 2 via endocytosis of monomeric TLR4-MD2 complex. Nat Commun 2017 Dec 21;8(1):2247. PMID: 29269727
  • Liu Y, Zhang J, Qiu X et al. Super-delta: a new differential gene expression analysis procedure with robust data normalization. BMC Bioinformatics 2017 Dec 21;18(1):582. PMID: 29268715
  • Wang Y, Pang C, Li X, Hu Z et al. Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis. BMC Plant Biol 2017 Dec 21;17(1):261. PMID: 29268705
  • Andl T, Zhang Y et al. Reaping Wnt after calming Hippo: Wnt and Hippo signaling cross paths in lung cancer. J Thorac Dis 2017 Nov;9(11):4174-4179. PMID: 29268463
  • Zhou LN, Li SC, Li XY, Ge H et al. Identification of differential protein-coding gene expressions in early phase lung adenocarcinoma. Thorac Cancer 2018 Feb;9(2):234-240. PMID: 29266838
  • Noor DAM, Jeyapalan JN, Alhazmi S, Carr M et al. Genome-wide methylation analysis identifies genes silenced in non-seminoma cell lines. NPJ Genom Med 2016;1:15009. PMID: 29263807
  • Chen Y, Widschwendter M, Teschendorff AE et al. Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development. Genome Biol 2017 Dec 20;18(1):236. PMID: 29262847
  • Damodaran S, Damaschke N, Gawdzik J, Yang B et al. Dysregulation of Sirtuin 2 (SIRT2) and histone H3K18 acetylation pathways associates with adverse prostate cancer outcomes. BMC Cancer 2017 Dec 20;17(1):874. PMID: 29262808
  • Ray S, Hossain SMM, Khatun L, Mukhopadhyay A et al. A comprehensive analysis on preservation patterns of gene co-expression networks during Alzheimer's disease progression. BMC Bioinformatics 2017 Dec 20;18(1):579. PMID: 29262769
  • Zhang S, Jin J, Tian X, Wu L et al. hsa-miR-29c-3p regulates biological function of colorectal cancer by targeting SPARC. Oncotarget 2017 Nov 28;8(61):104508-104524. PMID: 29262657
  • He B, Lu P, Guan L, Li T et al. Identifying key regulating miRNAs in hepatocellular carcinomas by an omics' method. Oncotarget 2017 Nov 28;8(61):103919-103930. PMID: 29262610
  • Zhang Y, Li W, Feng Y, Guo S et al. Prioritizing chronic obstructive pulmonary disease (COPD) candidate genes in COPD-related networks. Oncotarget 2017 Nov 28;8(61):103375-103384. PMID: 29262568
  • Perez-Riverol Y, Kuhn M, Vizcaíno JA, Hitz MP et al. Accurate and fast feature selection workflow for high-dimensional omics data. PLoS One 2017;12(12):e0189875. PMID: 29261781
  • Tseng CY, Hsu HJ et al. Decreased expression of lethal giant larvae causes ovarian follicle cell outgrowth in the Drosophila Scutoid mutant. PLoS One 2017;12(12):e0188917. PMID: 29261681
  • Astrologo L, Zoni E, Karkampouna S, Gray PC et al. ALK1Fc Suppresses the Human Prostate Cancer Growth in in Vitro and in Vivo Preclinical Models. Front Cell Dev Biol 2017;5:104. PMID: 29259971
  • Qi B, Wang Y, Chen ZJ, Li XN et al. Down-regulation of miR-30a-3p/5p promotes esophageal squamous cell carcinoma cell proliferation by activating the Wnt signaling pathway. World J Gastroenterol 2017 Dec 7;23(45):7965-7977. PMID: 29259372
  • Jeong H, Koh A, Lee J, Park D et al. Inhibition of C1-Ten PTPase activity reduces insulin resistance through IRS-1 and AMPK pathways. Sci Rep 2017 Dec 19;7(1):17777. PMID: 29259227
  • Eden K, Rothschild DE, McDaniel DK, Heid B et al. Noncanonical NF-κB signaling and the essential kinase NIK modulate crucial features associated with eosinophilic esophagitis pathogenesis. Dis Model Mech 2017 Dec 19;10(12):1517-1527. PMID: 29259025
  • Sun Z, Schwenzer A, Rupp T, Murdamoothoo D et al. Tenascin-C Promotes Tumor Cell Migration and Metastasis through Integrin α9β1-Mediated YAP Inhibition. Cancer Res 2018 Feb 15;78(4):950-961. PMID: 29259017
  • Yan HB, Huang JC, Chen YR, Yao JN et al. Role of miR-1 expression in clear cell renal cell carcinoma (ccRCC): A bioinformatics study based on GEO, ArrayExpress microarrays and TCGA database. Pathol Res Pract 2018 Feb;214(2):195-206. PMID: 29258768
  • Kang T, Ding W, Zhang L, Ziemek D et al. A biological network-based regularized artificial neural network model for robust phenotype prediction from gene expression data. BMC Bioinformatics 2017 Dec 19;18(1):565. PMID: 29258445
  • Qi W, Shao F, Huang Q et al. Expression of Coiled-Coil Domain Containing 34 (CCDC34) and its Prognostic Significance in Pancreatic Adenocarcinoma. Med Sci Monit 2017 Dec 19;23:6012-6018. PMID: 29257799
  • Wu C, Zhao Y, Lin Y, Yang X et al. Bioinformatics analysis of differentially expressed gene profiles associated with systemic lupus erythematosus. Mol Med Rep 2018 Mar;17(3):3591-3598. PMID: 29257335
  • Zhang C, Shen Y, Wang J, Zhou M et al. Identification of key pathways and genes in Barrett's esophagus using integrated bioinformatics methods. Mol Med Rep 2018 Feb;17(2):3069-3077. PMID: 29257318
  • Lu X, Xue L, Sun W, Ye J et al. Identification of key pathogenic genes of sepsis based on the Gene Expression Omnibus database. Mol Med Rep 2018 Feb;17(2):3042-3054. PMID: 29257295
  • Yang L, Sun L, Wang W, Xu H et al. Construction of a 26‑feature gene support vector machine classifier for smoking and non‑smoking lung adenocarcinoma sample classification. Mol Med Rep 2018 Feb;17(2):3005-3013. PMID: 29257283
  • Cheng J, Qu L, Wang J, Cheng L et al. High expression of FLT3 is a risk factor in leukemia. Mol Med Rep 2018 Feb;17(2):2885-2892. PMID: 29257272
  • Wei DA multigene support vector machine predictor for metastasis of cutaneous melanoma. Mol Med Rep 2018 Feb;17(2):2907-2914. PMID: 29257259
  • Li KP, Fang YP, Liao JQ, Duan JD et al. Upregulation of miR‑598 promotes cell proliferation and cell cycle progression in human colorectal carcinoma by suppressing INPP5E expression. Mol Med Rep 2018 Feb;17(2):2991-2997. PMID: 29257251
  • Ren X, Xin B, Qian W, Zhang R et al. [Effects of low salt diet on gene expression in dog's heart]. Zhejiang Da Xue Xue Bao Yi Xue Ban 2017 Jul 25;46(4):433-438. PMID: 29256234
  • Wang T, He X, Liu X, Liu Y et al. Weighted Gene Co-expression Network Analysis Identifies FKBP11 as a Key Regulator in Acute Aortic Dissection through a NF-kB Dependent Pathway. Front Physiol 2017;8:1010. PMID: 29255427
  • Rodriguez-Terrones D, Gaume X, Ishiuchi T, Weiss A et al. A molecular roadmap for the emergence of early-embryonic-like cells in culture. Nat Genet 2018 Jan;50(1):106-119. PMID: 29255263
  • Tang Q, Wang Q, Zhang Q, Lin SY et al. Gene expression, regulation of DEN and HBx induced HCC mice models and comparisons of tumor, para-tumor and normal tissues. BMC Cancer 2017 Dec 18;17(1):862. PMID: 29254483
  • Liu SY, Zhang L, Zhang Y, Zhen Y et al. Bioinformatic analysis of pivotal genes associated with septic shock. J Biol Regul Homeost Agents 2017 Oct-Dec;31(4):935-941. PMID: 29254296
  • Li J, Liu D, Wang J, Deng H et al. Meta-analysis identifies candidate key genes in endometrium as predictive biomarkers for clinical pregnancy in IVF. Oncotarget 2017 Nov 24;8(60):102428-102436. PMID: 29254258
  • Hartung F, Wang Y, Aronow B, Weber GF et al. A core program of gene expression characterizes cancer metastases. Oncotarget 2017 Nov 24;8(60):102161-102175. PMID: 29254233
  • Chen X, Zheng Z, Chen L, Zheng H et al. MAPK, NFκB, and VEGF signaling pathways regulate breast cancer liver metastasis. Oncotarget 2017 Nov 24;8(60):101452-101460. PMID: 29254177
  • Patharkar OR, Gassmann W, Walker JC et al. Leaf shedding as an anti-bacterial defense in Arabidopsis cauline leaves. PLoS Genet 2017 Dec;13(12):e1007132. PMID: 29253890
  • Bohman A, Juodakis J, Oscarsson M, Bacelis J et al. A family-based genome-wide association study of chronic rhinosinusitis with nasal polyps implicates several genes in the disease pathogenesis. PLoS One 2017;12(12):e0185244. PMID: 29253858
  • Wong HR, Cvijanovich NZ, Anas N, Allen GL et al. Endotype Transitions During the Acute Phase of Pediatric Septic Shock Reflect Changing Risk and Treatment Response. Crit Care Med 2018 Mar;46(3):e242-e249. PMID: 29252929
  • Wang Y, Yin X, Yang F et al. Comprehensive Analysis of Gene Expression Profiles of Sepsis-Induced Multiorgan Failure Identified Its Valuable Biomarkers. DNA Cell Biol 2018 Feb;37(2):90-98. PMID: 29251990
  • Borisov N, Tkachev V, Suntsova M, Kovalchuk O et al. A method of gene expression data transfer from cell lines to cancer patients for machine-learning prediction of drug efficiency. Cell Cycle 2018;17(4):486-491. PMID: 29251172
  • Mukund K, Subramaniam S et al. Co-expression Network Approach Reveals Functional Similarities among Diseases Affecting Human Skeletal Muscle. Front Physiol 2017;8:980. PMID: 29249983
  • Zheng LQ, Wang R, Chi SM, Li CX et al. Matrix metalloproteinase 1: a better biomarker for squamous cell carcinoma by multiple microarray analyses. G Ital Dermatol Venereol 2019 Jun;154(3):327-337. PMID: 29249121
  • Aghdam R, Baghfalaki T, Khosravi P, Saberi Ansari E et al. The Ability of Different Imputation Methods to Preserve the Significant Genes and Pathways in Cancer. Genomics Proteomics Bioinformatics 2017 Dec;15(6):396-404. PMID: 29247873
  • Wei Y, Silke JR, Xia X et al. Elucidating the 16S rRNA 3' boundaries and defining optimal SD/aSD pairing in Escherichia coli and Bacillus subtilis using RNA-Seq data. Sci Rep 2017 Dec 15;7(1):17639. PMID: 29247194
  • Song Q, Grene R, Heath LS, Li S et al. Identification of regulatory modules in genome scale transcription regulatory networks. BMC Syst Biol 2017 Dec 15;11(1):140. PMID: 29246163
  • Young J, Kawaguchi T, Yan L, Qi Q et al. Tamoxifen sensitivity-related microRNA-342 is a useful biomarker for breast cancer survival. Oncotarget 2017 Nov 21;8(59):99978-99989. PMID: 29245954
  • Nanan KK, Ocheltree C, Sturgill D, Mandler MD et al. Independence between pre-mRNA splicing and DNA methylation in an isogenic minigene resource. Nucleic Acids Res 2017 Dec 15;45(22):12780-12797. PMID: 29244186
  • Saka E, Harrison BJ, West K, Petruska JC et al. Framework for reanalysis of publicly available Affymetrix® GeneChip® data sets based on functional regions of interest. BMC Genomics 2017 Dec 6;18(Suppl 10):875. PMID: 29244006
  • Zhao LP, Li RH, Han DM, Zhang XQ et al. Independent prognostic Factor of low-expressed LncRNA ZNF667-AS1 for cervical cancer and inhibitory function on the proliferation of cervical cancer. Eur Rev Med Pharmacol Sci 2017 Dec;21(23):5353-5360. PMID: 29243775
  • Guo P, Wang Y, Dai C, Tao C et al. Ribosomal protein S15a promotes tumor angiogenesis via enhancing Wnt/β-catenin-induced FGF18 expression in hepatocellular carcinoma. Oncogene 2018 Mar;37(9):1220-1236. PMID: 29242604
  • Mote RD, Mahajan G, Padmanabhan A, Ambati R et al. Dual repression of endocytic players by ESCC microRNAs and the Polycomb complex regulates mouse embryonic stem cell pluripotency. Sci Rep 2017 Dec 14;7(1):17572. PMID: 29242593
  • Lee H, Cho DY, Wojtowicz D, Harbison ST et al. Dosage-Dependent Expression Variation Suppressed on the Drosophila Male X Chromosome. G3 (Bethesda) 2018 Feb 2;8(2):587-598. PMID: 29242386
  • Sanchez GJ, Richmond PA, Bunker EN, Karman SS et al. Genome-wide dose-dependent inhibition of histone deacetylases studies reveal their roles in enhancer remodeling and suppression of oncogenic super-enhancers. Nucleic Acids Res 2018 Feb 28;46(4):1756-1776. PMID: 29240919
  • Zhang H, Liu J, Fu X, Yang A et al. Identification of Key Genes and Pathways in Tongue Squamous Cell Carcinoma Using Bioinformatics Analysis. Med Sci Monit 2017 Dec 14;23:5924-5932. PMID: 29240723
  • Melero JL, Andrades S, Arola L, Romeu A et al. Deciphering psoriasis. A bioinformatic approach. J Dermatol Sci 2018 Feb;89(2):120-126. PMID: 29239787
  • Kaewsapsak P, Shechner DM, Mallard W, Rinn JL et al. Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking. Elife 2017 Dec 14;6. PMID: 29239719
  • Corradetti C, Jog NR, Cesaroni M, Madaio M et al. Estrogen Receptor α Signaling Exacerbates Immune-Mediated Nephropathies through Alteration of Metabolic Activity. J Immunol 2018 Jan 15;200(2):512-522. PMID: 29237779
  • Rabhi N, Hannou SA, Gromada X, Salas E et al. Cdkn2a deficiency promotes adipose tissue browning. Mol Metab 2018 Feb;8:65-76. PMID: 29237539
  • Cai C, Qiu J, Qiu G, Chen Y et al. Long non-coding RNA MALAT1 protects preterm infants with bronchopulmonary dysplasia by inhibiting cell apoptosis. BMC Pulm Med 2017 Dec 13;17(1):199. PMID: 29237426
  • McCormick H, Young PE, Hur SSJ, Booher K et al. Isogenic mice exhibit sexually-dimorphic DNA methylation patterns across multiple tissues. BMC Genomics 2017 Dec 13;18(1):966. PMID: 29237414
  • Perez-Peña J, Corrales-Sánchez V, Amir E, Pandiella A et al. Ubiquitin-conjugating enzyme E2T (UBE2T) and denticleless protein homolog (DTL) are linked to poor outcome in breast and lung cancers. Sci Rep 2017 Dec 13;7(1):17530. PMID: 29235520
  • Xu J, Li D, Cai Z, Zhang Y et al. An integrative analysis of DNA methylation in osteosarcoma. J Bone Oncol 2017 Nov;9:34-40. PMID: 29234590
  • Wenric S, ElGuendi S, Caberg JH, Bezzaou W et al. Transcriptome-wide analysis of natural antisense transcripts shows their potential role in breast cancer. Sci Rep 2017 Dec 12;7(1):17452. PMID: 29234122
  • Veltsos P, Fang Y, Cossins AR, Snook RR et al. Mating system manipulation and the evolution of sex-biased gene expression in Drosophila. Nat Commun 2017 Dec 12;8(1):2072. PMID: 29233985
  • Muñoz Garcia A, Kutmon M, Eijssen L, Hewison M et al. Pathway analysis of transcriptomic data shows immunometabolic effects of vitamin D. J Mol Endocrinol 2018 Feb;60(2):95-108. PMID: 29233860
  • Koshizuka K, Hanazawa T, Kikkawa N, Katada K et al. Antitumor miR-150-5p and miR-150-3p inhibit cancer cell aggressiveness by targeting SPOCK1 in head and neck squamous cell carcinoma. Auris Nasus Larynx 2018 Aug;45(4):854-865. PMID: 29233721
  • Sharifi-Zarchi A, Gerovska D, Adachi K, Totonchi M et al. DNA methylation regulates discrimination of enhancers from promoters through a H3K4me1-H3K4me3 seesaw mechanism. BMC Genomics 2017 Dec 12;18(1):964. PMID: 29233090
  • Huang T, Kim CK, Alvarez AA, Pangeni RP et al. MST4 Phosphorylation of ATG4B Regulates Autophagic Activity, Tumorigenicity, and Radioresistance in Glioblastoma. Cancer Cell 2017 Dec 11;32(6):840-855.e8. PMID: 29232556
  • Söllner JF, Leparc G, Hildebrandt T, Klein H et al. An RNA-Seq atlas of gene expression in mouse and rat normal tissues. Sci Data 2017 Dec 12;4:170185. PMID: 29231921
  • Salker MS, Singh Y, Durairaj RRP, Yan J et al. LEFTY2 inhibits endometrial receptivity by downregulating Orai1 expression and store-operated Ca(2+) entry. J Mol Med (Berl) 2018 Feb;96(2):173-182. PMID: 29230527
  • Bu Y, Yoshida A, Chitnis N, Altman BJ et al. A PERK-miR-211 axis suppresses circadian regulators and protein synthesis to promote cancer cell survival. Nat Cell Biol 2018 Jan;20(1):104-115. PMID: 29230015
  • Schelker M, Feau S, Du J, Ranu N et al. Estimation of immune cell content in tumour tissue using single-cell RNA-seq data. Nat Commun 2017 Dec 11;8(1):2032. PMID: 29230012
  • Li YI, Knowles DA, Humphrey J, Barbeira AN et al. Annotation-free quantification of RNA splicing using LeafCutter. Nat Genet 2018 Jan;50(1):151-158. PMID: 29229983
  • Capobianco E, Valdes C, Sarti S, Jiang Z et al. Ensemble Modeling Approach Targeting Heterogeneous RNA-Seq data: Application to Melanoma Pseudogenes. Sci Rep 2017 Dec 11;7(1):17344. PMID: 29229974
  • Alaterre E, Raimbault S, Goldschmidt H, Bouhya S et al. CD24, CD27, CD36 and CD302 gene expression for outcome prediction in patients with multiple myeloma. Oncotarget 2017 Nov 17;8(58):98931-98944. PMID: 29228738
  • Kang MH, Jeong GS, Smoot DT, Ashktorab H et al. Verteporfin inhibits gastric cancer cell growth by suppressing adhesion molecule FAT1. Oncotarget 2017 Nov 17;8(58):98887-98897. PMID: 29228735
  • Avril S, Dincer Y, Malinowsky K, Wolff C et al. Increased PDGFR-beta and VEGFR-2 protein levels are associated with resistance to platinum-based chemotherapy and adverse outcome of ovarian cancer patients. Oncotarget 2017 Nov 17;8(58):97851-97861. PMID: 29228656
  • Liu S, Xie F, Xiang X, Liu S et al. Identification of differentially expressed genes, lncRNAs and miRNAs which are associated with tumor malignant phenotypes in hepatoblastoma patients. Oncotarget 2017 Nov 14;8(57):97554-97564. PMID: 29228631
  • Song YC, Lu GX, Zhang HW, Zhong XM et al. Proteogenomic characterization and integrative analysis of glioblastoma multiforme. Oncotarget 2017 Nov 14;8(57):97304-97312. PMID: 29228611
  • Rong L, Bian Y, Liu S, Liu X et al. Identifying tumor promoting genomic alterations in tumor-associated fibroblasts via retrovirus-insertional mutagenesis. Oncotarget 2017 Nov 14;8(57):97231-97245. PMID: 29228606
  • Chen R, Wang L, Liu S, Chen X et al. Bcl-3 is a novel biomarker of renal fibrosis in chronic kidney disease. Oncotarget 2017 Nov 14;8(57):97206-97216. PMID: 29228604
  • Liu Z, Zhang J et al. Most m6A RNA Modifications in Protein-Coding Regions Are Evolutionarily Unconserved and Likely Nonfunctional. Mol Biol Evol 2018 Mar 1;35(3):666-675. PMID: 29228327
  • Song E, Song W, Ren M, Xing L et al. Identification of potential crucial genes associated with carcinogenesis of clear cell renal cell carcinoma. J Cell Biochem 2018 Jul;119(7):5163-5174. PMID: 29227586
  • Tan X, Zhang X, Pan L, Tian X et al. Identification of Key Pathways and Genes in Advanced Coronary Atherosclerosis Using Bioinformatics Analysis. Biomed Res Int 2017;2017:4323496. PMID: 29226137
  • Jia X, Liu Y, Han Q, Lu Z et al. Multiple-cumulative probabilities used to cluster and visualize transcriptomes. FEBS Open Bio 2017 Dec;7(12):2008-2020. PMID: 29226087
  • Hu W, Lin X, Zhang H, Zhao N et al. ATP Binding Cassette Subfamily A Member 2 (ABCA2) Expression and Methylation are Associated with Alzheimer's Disease. Med Sci Monit 2017 Dec 10;23:5851-5861. PMID: 29224028
  • Schulze M, Violonchi C, Swoboda S, Welz T et al. RELN signaling modulates glioblastoma growth and substrate-dependent migration. Brain Pathol 2018 Sep;28(5):695-709. PMID: 29222813
  • Jain A, Ezashi T, Roberts RM, Tuteja G et al. Deciphering transcriptional regulation in human embryonic stem cells specified towards a trophoblast fate. Sci Rep 2017 Dec 8;7(1):17257. PMID: 29222466
  • Qiu YS, Liao GJ, Jiang NN et al. DNA Methylation-Mediated Silencing of Regenerating Protein 1 Alpha (REG1A) Affects Gastric Cancer Prognosis. Med Sci Monit 2017 Dec 9;23:5834-5843. PMID: 29222406
  • Wu XUp-regulation of YPEL1 and YPEL5 and down-regulation of ITGA2 in erlotinib-treated EGFR-mutant non-small cell lung cancer: A bioinformatic analysis. Gene 2018 Feb 15;643:74-82. PMID: 29221754
  • Ma S, Menon R, Poulos RC, Wong JWH et al. Proteogenomic analysis prioritises functional single nucleotide variants in cancer samples. Oncotarget 2017 Nov 10;8(56):95841-95852. PMID: 29221171
  • Zhou K, Diebel KW, Holy J, Skildum A et al. A tRNA fragment, tRF5-Glu, regulates BCAR3 expression and proliferation in ovarian cancer cells. Oncotarget 2017 Nov 10;8(56):95377-95391. PMID: 29221134
  • Sharma A, Deshpande V, Ghatge M, Vangala RK et al. In-Cardiome: integrated knowledgebase for coronary artery disease enabling translational research. Database (Oxford) 2017 Jan 1;2017. PMID: 29220465
  • Lefever S, Anckaert J, Volders PJ, Luypaert M et al. decodeRNA- predicting non-coding RNA functions using guilt-by-association. Database (Oxford) 2017 Jan 1;2017. PMID: 29220434
  • Manduchi E, Chesi A, Hall MA, Grant SFA et al. Leveraging putative enhancer-promoter interactions to investigate two-way epistasis in Type 2 Diabetes GWAS. Pac Symp Biocomput 2018;23:548-558. PMID: 29218913
  • Séguin BCanine Soft Tissue Sarcomas: Can Being a Dog's Best Friend Help a Child? Front Oncol 2017;7:285. PMID: 29218302
  • Rao S, Kirschen GW, Szczurkowska J, Di Antonio A et al. Repositioning of Somatic Golgi Apparatus Is Essential for the Dendritic Establishment of Adult-Born Hippocampal Neurons. J Neurosci 2018 Jan 17;38(3):631-647. PMID: 29217690
  • Gassler J, Brandão HB, Imakaev M, Flyamer IM et al. A mechanism of cohesin-dependent loop extrusion organizes zygotic genome architecture. EMBO J 2017 Dec 15;36(24):3600-3618. PMID: 29217590
  • Baciu C, Pasini E, Angeli M, Schwenger K et al. Systematic integrative analysis of gene expression identifies HNF4A as the central gene in pathogenesis of non-alcoholic steatohepatitis. PLoS One 2017;12(12):e0189223. PMID: 29216278
  • Peng Z, Zhang C, Zhou W, Wu C et al. The STAT3/NFIL3 signaling axis-mediated chemotherapy resistance is reversed by Raddeanin A via inducing apoptosis in choriocarcinoma cells. J Cell Physiol 2018 Jul;233(7):5370-5382. PMID: 29215740
  • Vrba L, Futscher BW et al. A suite of DNA methylation markers that can detect most common human cancers. Epigenetics 2018;13(1):61-72. PMID: 29212414
  • Wang GX, Tu HC, Dong Y, Skanderup AJ et al. ΔNp63 Inhibits Oxidative Stress-Induced Cell Death, Including Ferroptosis, and Cooperates with the BCL-2 Family to Promote Clonogenic Survival. Cell Rep 2017 Dec 5;21(10):2926-2939. PMID: 29212036
  • Sun Y, Ji F, Kumar MR, Zheng X et al. Transcriptome integration analysis in hepatocellular carcinoma reveals discordant intronic miRNA-host gene pairs in expression. Int J Biol Sci 2017;13(11):1438-1449. PMID: 29209147
  • Broséus J, Mourah S, Ramstein G, Bernard S et al. VEGF(121), is predictor for survival in activated B-cell-like diffuse large B-cell lymphoma and is related to an immune response gene signature conserved in cancers. Oncotarget 2017 Oct 31;8(53):90808-90824. PMID: 29207605
  • Zou H, Wen C, Peng Z, Shao YΥ et al. P4HB and PDIA3 are associated with tumor progression and therapeutic outcome of diffuse gliomas. Oncol Rep 2018 Feb;39(2):501-510. PMID: 29207176
  • Zhang R, Zhang LJ, Yang ML, Huang LS et al. Potential role of microRNA‑223‑3p in the tumorigenesis of hepatocellular carcinoma: A comprehensive study based on data mining and bioinformatics. Mol Med Rep 2018 Feb;17(2):2211-2228. PMID: 29207133
  • Huang J, Liu Z, Sun Y, Zhong Q et al. Use of methylation profiling to identify significant differentially methylated genes in bone marrow mesenchymal stromal cells from acute myeloid leukemia. Int J Mol Med 2018 Feb;41(2):679-686. PMID: 29207054
  • Liang L, Gao L, Zou XP, Huang ML et al. Diagnostic significance and potential function of miR-338-5p in hepatocellular carcinoma: A bioinformatics study with microarray and RNA sequencing data. Mol Med Rep 2018 Feb;17(2):2297-2312. PMID: 29207053
  • Cao Y, Zhu J, Jia P, Zhao Z et al. scRNASeqDB: A Database for RNA-Seq Based Gene Expression Profiles in Human Single Cells. Genes (Basel) 2017 Dec 5;8(12). PMID: 29206167
  • Hu H, Chen X, Zhou C, Li B et al. Aberrant methylation of mutL homolog 1 is associated with increased risk of non-small cell lung cancer. J Clin Lab Anal 2018 Jun;32(5):e22370. PMID: 29205508
  • Mancarci BO, Toker L, Tripathy SJ, Li B et al. Cross-Laboratory Analysis of Brain Cell Type Transcriptomes with Applications to Interpretation of Bulk Tissue Data. eNeuro 2017 Nov-Dec;4(6). PMID: 29204516
  • Alcalá-Corona SA, de Anda-Jáuregui G, Espinal-Enríquez J, Hernández-Lemus E et al. Network Modularity in Breast Cancer Molecular Subtypes. Front Physiol 2017;8:915. PMID: 29204123
  • Wu P, Li T, Li R, Jia L et al. 3D genome of multiple myeloma reveals spatial genome disorganization associated with copy number variations. Nat Commun 2017 Dec 5;8(1):1937. PMID: 29203764
  • A P S, Laishram RS et al. Nuclear Phosphatidylinositol-Phosphate Type I Kinase α-Coupled Star-PAP Polyadenylation Regulates Cell Invasion. Mol Cell Biol 2018 Mar 1;38(5). PMID: 29203642
  • Nakagawa T, Hosogane M, Nakagawa M, Morohoshi A et al. Transforming Growth Factor β-Induced Proliferative Arrest Mediated by TRIM26-Dependent TAF7 Degradation and Its Antagonism by MYC. Mol Cell Biol 2018 Mar 1;38(5). PMID: 29203640
  • Zhu X, Wolfgruber TK, Tasato A, Arisdakessian C et al. Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists. Genome Med 2017 Dec 5;9(1):108. PMID: 29202807
  • Chen L, Alexe G, Dharia NV, Ross L et al. CRISPR-Cas9 screen reveals a MYCN-amplified neuroblastoma dependency on EZH2. J Clin Invest 2018 Jan 2;128(1):446-462. PMID: 29202477
  • Williams EA, Verasztó C, Jasek S, Conzelmann M et al. Synaptic and peptidergic connectome of a neurosecretory center in the annelid brain. Elife 2017 Dec 4;6. PMID: 29199953
  • Yue Z, Huang JY, Hyun P, Ji F et al. [Expression of human β-defensin and its relationship with inflammatory factor in human dental pulp tissue]. Shanghai Kou Qiang Yi Xue 2017 Aug;26(4):368-373. PMID: 29199328
  • Pisani DF, Barquissau V, Chambard JC, Beuzelin D et al. Mitochondrial fission is associated with UCP1 activity in human brite/beige adipocytes. Mol Metab 2018 Jan;7:35-44. PMID: 29198749
  • Wang T, Xu H, Liu X, Chen S et al. Identification of Key Genes in Colorectal Cancer Regulated by miR-34a. Med Sci Monit 2017 Dec 3;23:5735-5743. PMID: 29197895
  • Gregory DJ, Kramnik I, Kobzik L et al. Protection of macrophages from intracellular pathogens by miR-182-5p mimic-a gene expression meta-analysis approach. FEBS J 2018 Jan;285(2):244-260. PMID: 29197182
  • Zhang L, Martini GD, Rube HT, Kribelbauer JF et al. SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site. Genome Res 2018 Jan;28(1):111-121. PMID: 29196557
  • Rivera-Mulia JC, Desprat R, Trevilla-Garcia C, Cornacchia D et al. DNA replication timing alterations identify common markers between distinct progeroid diseases. Proc Natl Acad Sci U S A 2017 Dec 19;114(51):E10972-E10980. PMID: 29196523
  • Martin LA, Ribas R, Simigdala N, Schuster E et al. Discovery of naturally occurring ESR1 mutations in breast cancer cell lines modelling endocrine resistance. Nat Commun 2017 Nov 30;8(1):1865. PMID: 29192207
  • Eide PW, Bruun J, Lothe RA, Sveen A et al. CMScaller: an R package for consensus molecular subtyping of colorectal cancer pre-clinical models. Sci Rep 2017 Nov 30;7(1):16618. PMID: 29192179
  • da Silva VL, Fonseca AF, Fonseca M, da Silva TE et al. Genome-wide identification of cancer/testis genes and their association with prognosis in a pan-cancer analysis. Oncotarget 2017 Nov 3;8(54):92966-92977. PMID: 29190970
  • Cui XB, Peng H, Li RR, Mu JQ et al. MicroRNA-34a functions as a tumor suppressor by directly targeting oncogenic PLCE1 in Kazakh esophageal squamous cell carcinoma. Oncotarget 2017 Nov 3;8(54):92454-92469. PMID: 29190930
  • Wang LY, Cui JJ, Zhu T, Shao WH et al. Biomarkers identified for prostate cancer patients through genome-scale screening. Oncotarget 2017 Nov 3;8(54):92055-92063. PMID: 29190897
  • Zhu QN, Wang G, Guo Y, Peng Y et al. LncRNA H19 is a major mediator of doxorubicin chemoresistance in breast cancer cells through a cullin4A-MDR1 pathway. Oncotarget 2017 Nov 3;8(54):91990-92003. PMID: 29190892
  • Cheng Z, Li Z, Ma K, Li X et al. Long Non-coding RNA XIST Promotes Glioma Tumorigenicity and Angiogenesis by Acting as a Molecular Sponge of miR-429. J Cancer 2017;8(19):4106-4116. PMID: 29187887
  • Sen A, Gurdziel K, Liu J, Qu W et al. Smooth, an hnRNP-L Homolog, Might Decrease Mitochondrial Metabolism by Post-Transcriptional Regulation of Isocitrate Dehydrogenase (Idh) and Other Metabolic Genes in the Sub-Acute Phase of Traumatic Brain Injury. Front Genet 2017;8:175. PMID: 29187863
  • Bocci F, Jolly MK, Tripathi SC, Aguilar M et al. Numb prevents a complete epithelial-mesenchymal transition by modulating Notch signalling. J R Soc Interface 2017 Nov;14(136). PMID: 29187638
  • Yeles C, Vlachavas EI, Papadodima O, Pilalis E et al. Integrative Bioinformatic Analysis of Transcriptomic Data Identifies Conserved Molecular Pathways Underlying Ionizing Radiation-Induced Bystander Effects (RIBE). Cancers (Basel) 2017 Nov 25;9(12). PMID: 29186820
  • Ahmad S, Prathipati P, Tripathi LP, Chen YA et al. Integrating sequence and gene expression information predicts genome-wide DNA-binding proteins and suggests a cooperative mechanism. Nucleic Acids Res 2018 Jan 9;46(1):54-70. PMID: 29186632
  • Tenenbaum JD, Bhuvaneshwar K, Gagliardi JP, Fultz Hollis K et al. Translational bioinformatics in mental health: open access data sources and computational biomarker discovery. Brief Bioinform 2019 May 21;20(3):842-856. PMID: 29186302
  • Specht CA, Lee CK, Huang H, Hester MM et al. Vaccination with Recombinant Cryptococcus Proteins in Glucan Particles Protects Mice against Cryptococcosis in a Manner Dependent upon Mouse Strain and Cryptococcal Species. mBio 2017 Nov 28;8(6). PMID: 29184017
  • Hu T, Xi J et al. Identification of COX5B as a novel biomarker in high-grade glioma patients. Onco Targets Ther 2017;10:5463-5470. PMID: 29180880
  • Liu Y, Qin Z, Cai L, Zou L et al. Selection of internal references for qRT-PCR assays of human hepatocellular carcinoma cell lines. Biosci Rep 2017 Dec 22;37(6). PMID: 29180379
  • Abbruzzese C, Matteoni S, Signore M, Cardone L et al. Drug repurposing for the treatment of glioblastoma multiforme. J Exp Clin Cancer Res 2017 Nov 28;36(1):169. PMID: 29179732
  • Liu H, Li Y, He J, Guan Q et al. Robust transcriptional signatures for low-input RNA samples based on relative expression orderings. BMC Genomics 2017 Nov 28;18(1):913. PMID: 29179677
  • Bdeir R, Muchero W, Yordanov Y, Tuskan GA et al. Quantitative trait locus mapping of Populus bark features and stem diameter. BMC Plant Biol 2017 Nov 28;17(1):224. PMID: 29179673
  • Li L, Cong Y, Gao X, Wang Y et al. Differential expression profiles of long non-coding RNAs as potential biomarkers for the early diagnosis of acute myocardial infarction. Oncotarget 2017 Oct 24;8(51):88613-88621. PMID: 29179461
  • Trümbach D, Pfeiffer S, Poppe M, Scherb H et al. ENCoRE: an efficient software for CRISPR screens identifies new players in extrinsic apoptosis. BMC Genomics 2017 Nov 25;18(1):905. PMID: 29178829
  • Hwang I, Oh H, Santo E, Kim DY et al. FOXO protects against age-progressive axonal degeneration. Aging Cell 2018 Feb;17(1). PMID: 29178390
  • Matsuzaki J, Suzuki H et al. Circulating microRNAs as potential biomarkers to detect transformation of Barrett's oesophagus to oesophageal adenocarcinoma. BMJ Open Gastroenterol 2017;4(1):e000160. PMID: 29177063
  • Harrell JC, Shroka TM, Jacobsen BM et al. Estrogen induces c-Kit and an aggressive phenotype in a model of invasive lobular breast cancer. Oncogenesis 2017 Nov 27;6(11):396. PMID: 29176653
  • Ghisays V, Nguyen ET, Streicher J, Pease NA et al. Neuroanatomical Distribution of DEK Protein in Corticolimbic Circuits Associated with Learning and Memory in Adult Male and Female Mice. Neuroscience 2018 Feb 10;371:254-267. PMID: 29175155
  • Ruetz T, Pfisterer U, Di Stefano B, Ashmore J et al. Constitutively Active SMAD2/3 Are Broad-Scope Potentiators of Transcription-Factor-Mediated Cellular Reprogramming. Cell Stem Cell 2017 Dec 7;21(6):791-805.e9. PMID: 29174331
  • Schwach V, Verkerk AO, Mol M, Monshouwer-Kloots JJ et al. A COUP-TFII Human Embryonic Stem Cell Reporter Line to Identify and Select Atrial Cardiomyocytes. Stem Cell Reports 2017 Dec 12;9(6):1765-1779. PMID: 29173897
  • Chow L, Johnson V, Regan D, Wheat W et al. Safety and immune regulatory properties of canine induced pluripotent stem cell-derived mesenchymal stem cells. Stem Cell Res 2017 Dec;25:221-232. PMID: 29172152
  • Lim SB, Tan SJ, Lim WT, Lim CT et al. An extracellular matrix-related prognostic and predictive indicator for early-stage non-small cell lung cancer. Nat Commun 2017 Nov 23;8(1):1734. PMID: 29170406
  • Zhang L, Huang LS, Chen G, Feng ZB et al. Potential Targets and Clinical Value of MiR-224-5p in Cancers of the Digestive Tract. Cell Physiol Biochem 2017;44(2):682-700. PMID: 29169158
  • Li P, Zhang L, Yu X, Tong R et al. Proliferation genes in lung development associated with the prognosis of lung adenocarcinoma but not squamous cell carcinoma. Cancer Sci 2018 Feb;109(2):308-316. PMID: 29168602
  • Wang J, Qiu Y, Wang X, Yue Z et al. Insights into the species-specific metabolic engineering of glucosinolates in radish (Raphanus sativus L.) based on comparative genomic analysis. Sci Rep 2017 Nov 22;7(1):16040. PMID: 29167500
  • Papatheodorou I, Fonseca NA, Keays M, Tang YA et al. Expression Atlas: gene and protein expression across multiple studies and organisms. Nucleic Acids Res 2018 Jan 4;46(D1):D246-D251. PMID: 29165655
  • Li J, Sagendorf JM, Chiu TP, Pasi M et al. Expanding the repertoire of DNA shape features for genome-scale studies of transcription factor binding. Nucleic Acids Res 2017 Dec 15;45(22):12877-12887. PMID: 29165643
  • Ogris C, Guala D, Sonnhammer ELL et al. FunCoup 4: new species, data, and visualization. Nucleic Acids Res 2018 Jan 4;46(D1):D601-D607. PMID: 29165593
  • Cohen E, Zafrir Z, Tuller T et al. A code for transcription elongation speed. RNA Biol 2018 Jan 2;15(1):81-94. PMID: 29165040
  • Zhang G, Yang P et al. Bioinformatics Genes and Pathway Analysis for Chronic Neuropathic Pain after Spinal Cord Injury. Biomed Res Int 2017;2017:6423021. PMID: 29164149
  • Alharbi RA, Pandha HS, Simpson GR, Pettengell R et al. Inhibition of HOX/PBX dimer formation leads to necroptosis in acute myeloid leukemia cells. Oncotarget 2017 Oct 27;8(52):89566-89579. PMID: 29163771
  • Li R, Liang F, Li M, Zou D et al. MethBank 3.0: a database of DNA methylomes across a variety of species. Nucleic Acids Res 2018 Jan 4;46(D1):D288-D295. PMID: 29161430
  • Freire PP, Cury SS, de Oliveira G, Fernandez GJ et al. Osteoglycin inhibition by microRNA miR-155 impairs myogenesis. PLoS One 2017;12(11):e0188464. PMID: 29161332
  • Yang G, Chen S, Ma A, Lu J et al. Identification of the difference in the pathogenesis in heart failure arising from different etiologies using a microarray dataset. Clinics (Sao Paulo) 2017 Oct;72(10):600-608. PMID: 29160422
  • Slieker RC, van der Heijden AAWA, van Leeuwen N, Mei H et al. HbA(1c) is associated with altered expression in blood of cell cycle- and immune response-related genes. Diabetologia 2018 Jan;61(1):138-146. PMID: 29159468
  • Wang L, Peng Z, Wang K, Qi Y et al. NDUFA4L2 is associated with clear cell renal cell carcinoma malignancy and is regulated by ELK1. PeerJ 2017;5:e4065. PMID: 29158991
  • Qiu Z, Sun W, Gao S, Zhou H et al. A 16-gene signature predicting prognosis of patients with oral tongue squamous cell carcinoma. PeerJ 2017;5:e4062. PMID: 29158988
  • Kadalayil L, Khan S, Nevanlinna H, Fasching PA et al. Germline variation in ADAMTSL1 is associated with prognosis following breast cancer treatment in young women. Nat Commun 2017 Nov 21;8(1):1632. PMID: 29158497
  • Maschalidi S, Nunes-Hasler P, Nascimento CR, Sallent I et al. UNC93B1 interacts with the calcium sensor STIM1 for efficient antigen cross-presentation in dendritic cells. Nat Commun 2017 Nov 21;8(1):1640. PMID: 29158474
  • Butler AM, Owens DA, Wang L, King ML et al. A novel role for sox7 in Xenopus early primordial germ cell development: mining the PGC transcriptome. Development 2018 Jan 8;145(1). PMID: 29158442
  • Mars JC, Sabourin-Felix M, Tremblay MG, Moss T et al. A Deconvolution Protocol for ChIP-Seq Reveals Analogous Enhancer Structures on the Mouse and Human Ribosomal RNA Genes. G3 (Bethesda) 2018 Jan 4;8(1):303-314. PMID: 29158335
  • Xu Q, Chen S, Yunjuan R, Chen S et al. Regulation of Sucrose Transporters and Phloem Loading in Response to Environmental Cues. Plant Physiol 2018 Jan;176(1):930-945. PMID: 29158330
  • Castillo D, Gálvez JM, Herrera LJ, Román BS et al. Integration of RNA-Seq data with heterogeneous microarray data for breast cancer profiling. BMC Bioinformatics 2017 Nov 21;18(1):506. PMID: 29157215
  • Wang Y, Liu Y, Liu H, Zhang Q et al. FcGBP was upregulated by HPV infection and correlated to longer survival time of HNSCC patients. Oncotarget 2017 Oct 17;8(49):86503-86514. PMID: 29156811
  • Mohammed A, Biegert G, Adamec J, Helikar T et al. Identification of potential tissue-specific cancer biomarkers and development of cancer versus normal genomic classifiers. Oncotarget 2017 Oct 17;8(49):85692-85715. PMID: 29156751
  • Karagkouni D, Paraskevopoulou MD, Chatzopoulos S, Vlachos IS et al. DIANA-TarBase v8: a decade-long collection of experimentally supported miRNA-gene interactions. Nucleic Acids Res 2018 Jan 4;46(D1):D239-D245. PMID: 29156006
  • Shalaby KH, Lyons-Cohen MR, Whitehead GS, Thomas SY et al. Pathogenic T(H)17 inflammation is sustained in the lungs by conventional dendritic cells and Toll-like receptor 4 signaling. J Allergy Clin Immunol 2018 Oct;142(4):1229-1242.e6. PMID: 29154958
  • Zhang J, Feng C, Song C, Ai B et al. Identification and analysis of a key long non-coding RNAs (lncRNAs)-associated module reveal functional lncRNAs in cardiac hypertrophy. J Cell Mol Med 2018 Feb;22(2):892-903. PMID: 29154475
  • Shukla S, Cyrta J, Murphy DA, Walczak EG et al. Aberrant Activation of a Gastrointestinal Transcriptional Circuit in Prostate Cancer Mediates Castration Resistance. Cancer Cell 2017 Dec 11;32(6):792-806.e7. PMID: 29153843
  • Bo L, Wei B, Wang Z, Kong D et al. Identification of key genes in glioma CpG island methylator phenotype via network analysis of gene expression data. Mol Med Rep 2017 Dec;16(6):9503-9511. PMID: 29152649
  • Xu X, Xu Y, Shi C, Wang B et al. A genome-wide comprehensively analyses of long noncoding RNA profiling and metastasis associated lncRNAs in renal cell carcinoma. Oncotarget 2017 Oct 20;8(50):87773-87781. PMID: 29152119
  • Zhang YH, Huang T, Chen L, Xu Y et al. Identifying and analyzing different cancer subtypes using RNA-seq data of blood platelets. Oncotarget 2017 Oct 20;8(50):87494-87511. PMID: 29152097
  • Nilsson HJ, Montano G, Ullmark T, Lennartsson A et al. The transcriptional coregulator NAB2 is a target gene for the Wilms' tumor gene 1 protein (WT1) in leukemic cells. Oncotarget 2017 Oct 20;8(50):87136-87150. PMID: 29152069
  • Li R, Zhuang C, Jiang S, Du N et al. ITGBL1 Predicts a Poor Prognosis and Correlates EMT Phenotype in Gastric Cancer. J Cancer 2017;8(18):3764-3773. PMID: 29151964
  • Chen H, Li H, Zhao J, Peng P et al. High Intratumoral Expression of Tetranectin Associates with Poor Prognosis of Patients with Gastric Cancer after Gastrectomy. J Cancer 2017;8(17):3623-3630. PMID: 29151948
  • Liang J, Zhang J, Ruan J, Mi Y et al. CPNE1 Is a Useful Prognostic Marker and Is Associated with TNF Receptor-Associated Factor 2 (TRAF2) Expression in Prostate Cancer. Med Sci Monit 2017 Nov 19;23:5504-5514. PMID: 29151113
  • Mitra R, Chen X, Greenawalt EJ, Maulik U et al. Decoding critical long non-coding RNA in ovarian cancer epithelial-to-mesenchymal transition. Nat Commun 2017 Nov 17;8(1):1604. PMID: 29150601
  • Bansal R, Nakagawa S, Yazdani S, van Baarlen J et al. Integrin alpha 11 in the regulation of the myofibroblast phenotype: implications for fibrotic diseases. Exp Mol Med 2017 Nov 17;49(11):e396. PMID: 29147013
  • Wang Y, Ung MH, Cantor S, Cheng C et al. Computational Investigation of Homologous Recombination DNA Repair Deficiency in Sporadic Breast Cancer. Sci Rep 2017 Nov 16;7(1):15742. PMID: 29146938
  • Barazandeh M, Lambert SA, Albu M, Hughes TR et al. Comparison of ChIP-Seq Data and a Reference Motif Set for Human KRAB C2H2 Zinc Finger Proteins. G3 (Bethesda) 2018 Jan 4;8(1):219-229. PMID: 29146583
  • Zhang S, Deng L, Jia Q, Huang S et al. dbMDEGA: a database for meta-analysis of differentially expressed genes in autism spectrum disorder. BMC Bioinformatics 2017 Nov 16;18(1):494. PMID: 29145823
  • Hecker N, Sharma V, Hiller M et al. Transition to an Aquatic Habitat Permitted the Repeated Loss of the Pleiotropic KLK8 Gene in Mammals. Genome Biol Evol 2017 Nov 1;9(11):3179-3188. PMID: 29145610
  • Wang G, Luo X, Wang J, Wan J et al. MeDReaders: a database for transcription factors that bind to methylated DNA. Nucleic Acids Res 2018 Jan 4;46(D1):D146-D151. PMID: 29145608
  • Ho JC, Abdullah LN, Pang QY, Jha S et al. Inhibition of the H3K9 methyltransferase G9A attenuates oncogenicity and activates the hypoxia signaling pathway. PLoS One 2017;12(11):e0188051. PMID: 29145444
  • Niu H, Yang J, Yang K, Huang Y et al. The relationship between RASSF1A promoter methylation and thyroid carcinoma: A meta-analysis of 14 articles and a bioinformatics of 2 databases (PRISMA). Medicine (Baltimore) 2017 Nov;96(46):e8630. PMID: 29145283
  • Hirsch T, Rothoeft T, Teig N, Bauer JW et al. Regeneration of the entire human epidermis using transgenic stem cells. Nature 2017 Nov 16;551(7680):327-332. PMID: 29144448
  • Wartewig T, Kurgyis Z, Keppler S, Pechloff K et al. PD-1 is a haploinsufficient suppressor of T cell lymphomagenesis. Nature 2017 Dec 7;552(7683):121-125. PMID: 29143824
  • Liu Y, Xu X, Xu X, Li S et al. MicroRNA-193a-3p inhibits cell proliferation in prostate cancer by targeting cyclin D1. Oncol Lett 2017 Nov;14(5):5121-5128. PMID: 29142597
  • Sahu SK, Tiwari N, Pataskar A, Zhuang Y et al. FBXO32 promotes microenvironment underlying epithelial-mesenchymal transition via CtBP1 during tumour metastasis and brain development. Nat Commun 2017 Nov 15;8(1):1523. PMID: 29142217
  • Zhao Y, Varn FS, Cai G, Xiao F et al. A P53-Deficiency Gene Signature Predicts Recurrence Risk of Patients with Early-Stage Lung Adenocarcinoma. Cancer Epidemiol Biomarkers Prev 2018 Jan;27(1):86-95. PMID: 29141854
  • Ling Z, Wang X, Tao T, Zhang L et al. Involvement of aberrantly activated HOTAIR/EZH2/miR-193a feedback loop in progression of prostate cancer. J Exp Clin Cancer Res 2017 Nov 15;36(1):159. PMID: 29141691
  • Aran D, Hu Z, Butte AJ et al. xCell: digitally portraying the tissue cellular heterogeneity landscape. Genome Biol 2017 Nov 15;18(1):220. PMID: 29141660
  • Fang S, Zhang L, Guo J, Niu Y et al. NONCODEV5: a comprehensive annotation database for long non-coding RNAs. Nucleic Acids Res 2018 Jan 4;46(D1):D308-D314. PMID: 29140524
  • Li YH, Yu CY, Li XX, Zhang P et al. Therapeutic target database update 2018: enriched resource for facilitating bench-to-clinic research of targeted therapeutics. Nucleic Acids Res 2018 Jan 4;46(D1):D1121-D1127. PMID: 29140520
  • Kulakovskiy IV, Vorontsov IE, Yevshin IS, Sharipov RN et al. HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis. Nucleic Acids Res 2018 Jan 4;46(D1):D252-D259. PMID: 29140464
  • Barron M, Zhang S, Li J et al. A sparse differential clustering algorithm for tracing cell type changes via single-cell RNA-sequencing data. Nucleic Acids Res 2018 Feb 16;46(3):e14. PMID: 29140455
  • Zhu X, Wang Z, Zhao Y, Jiang C et al. Investigation of candidate genes and mechanisms underlying postmenopausal osteoporosis using bioinformatics analysis. Mol Med Rep 2018 Jan;17(1):1561-1572. PMID: 29138843
  • Liang HW, Yang X, Wen DY, Gao L et al. Utility of miR‑133a‑3p as a diagnostic indicator for hepatocellular carcinoma: An investigation combined with GEO, TCGA, meta‑analysis and bioinformatics. Mol Med Rep 2018 Jan;17(1):1469-1484. PMID: 29138825
  • Wei Y, Wang Y, Gong J, Rao L et al. High expression of MAGE-A9 contributes to stemness and malignancy of human hepatocellular carcinoma. Int J Oncol 2018 Jan;52(1):219-230. PMID: 29138811
  • Huang R, Liao X, Li Q et al. Identification and validation of potential prognostic gene biomarkers for predicting survival in patients with acute myeloid leukemia. Onco Targets Ther 2017;10:5243-5254. PMID: 29138577
  • Oluwadare O, Cheng J et al. ClusterTAD: an unsupervised machine learning approach to detecting topologically associated domains of chromosomes from Hi-C data. BMC Bioinformatics 2017 Nov 14;18(1):480. PMID: 29137603
  • Hu H, Chen X, Wang C, Jiang Y et al. The role of TFPI2 hypermethylation in the detection of gastric and colorectal cancer. Oncotarget 2017 Oct 13;8(48):84054-84065. PMID: 29137404
  • Ru GQ, Han Y, Wang W, Chen Y et al. CEACAM6 is a prognostic biomarker and potential therapeutic target for gastric carcinoma. Oncotarget 2017 Oct 13;8(48):83673-83683. PMID: 29137373
  • Lettieri-Barbato D, D'Angelo F, Sciarretta F, Tatulli G et al. Maternal high calorie diet induces mitochondrial dysfunction and senescence phenotype in subcutaneous fat of newborn mice. Oncotarget 2017 Oct 13;8(48):83407-83418. PMID: 29137352
  • Sheu CC, Tsai MJ, Chen FW, Chang KF et al. Identification of novel genetic regulations associated with airway epithelial homeostasis using next-generation sequencing data and bioinformatics approaches. Oncotarget 2017 Oct 10;8(47):82674-82688. PMID: 29137293
  • Phan ANH, Vo VTA, Hua TNM, Kim MK et al. PPARγ sumoylation-mediated lipid accumulation in lung cancer. Oncotarget 2017 Oct 10;8(47):82491-82505. PMID: 29137280
  • Zhou S, Sternglanz R, Neiman AM et al. Developmentally regulated internal transcription initiation during meiosis in budding yeast. PLoS One 2017;12(11):e0188001. PMID: 29136644
  • Gadaleta E, Pirrò S, Dayem Ullah AZ, Marzec J et al. BCNTB bioinformatics: the next evolutionary step in the bioinformatics of breast cancer tissue banking. Nucleic Acids Res 2018 Jan 4;46(D1):D1055-D1061. PMID: 29136180
  • Wang Z, Wang J, Li N, Li J et al. Light sensing by opsins and fungal ecology: NOP-1 modulates entry into sexual reproduction in response to environmental cues. Mol Ecol 2018 Jan;27(1):216-232. PMID: 29134709
  • Díaz-Castillo CTranscriptome dynamics along axolotl regenerative development are consistent with an extensive reduction in gene expression heterogeneity in dedifferentiated cells. PeerJ 2017;5:e4004. PMID: 29134148
  • Penke TJR, McKay DJ, Strahl BD, Matera AG et al. Functional Redundancy of Variant and Canonical Histone H3 Lysine 9 Modification in Drosophila. Genetics 2018 Jan;208(1):229-244. PMID: 29133298
  • Kakar KU, Nawaz Z, Kakar K, Ali E et al. Comprehensive genomic analysis of the CNGC gene family in Brassica oleracea: novel insights into synteny, structures, and transcript profiles. BMC Genomics 2017 Nov 13;18(1):869. PMID: 29132315
  • Chen L, Yao Y, Sun L, Zhou J et al. Snail Driving Alternative Splicing of CD44 by ESRP1 Enhances Invasion and Migration in Epithelial Ovarian Cancer. Cell Physiol Biochem 2017;43(6):2489-2504. PMID: 29131012
  • Shen S, Bai J, Wei Y, Wang G et al. A seven-gene prognostic signature for rapid determination of head and neck squamous cell carcinoma survival. Oncol Rep 2017 Dec;38(6):3403-3411. PMID: 29130107
  • Malty RH, Aoki H, Kumar A, Phanse S et al. A Map of Human Mitochondrial Protein Interactions Linked to Neurodegeneration Reveals New Mechanisms of Redox Homeostasis and NF-κB Signaling. Cell Syst 2017 Dec 27;5(6):564-577.e12. PMID: 29128334
  • Zhang CL, Xu YJ, Yang HX, Xu YQ et al. sPAGM: inferring subpathway activity by integrating gene and miRNA expression-robust functional signature identification for melanoma prognoses. Sci Rep 2017 Nov 10;7(1):15322. PMID: 29127397
  • Liu H, Wang H, Wei Z, Zhang S et al. MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome. Nucleic Acids Res 2018 Jan 4;46(D1):D281-D287. PMID: 29126312
  • Chèneby J, Gheorghe M, Artufel M, Mathelier A et al. ReMap 2018: an updated atlas of regulatory regions from an integrative analysis of DNA-binding ChIP-seq experiments. Nucleic Acids Res 2018 Jan 4;46(D1):D267-D275. PMID: 29126285
  • Chou CH, Shrestha S, Yang CD, Chang NW et al. miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions. Nucleic Acids Res 2018 Jan 4;46(D1):D296-D302. PMID: 29126174
  • Chudasama D, Bo V, Hall M, Anikin V et al. Identification of cancer biomarkers of prognostic value using specific gene regulatory networks (GRN): a novel role of RAD51AP1 for ovarian and lung cancers. Carcinogenesis 2018 Mar 8;39(3):407-417. PMID: 29126163
  • Lepe-Soltero D, Armenta-Medina A, Xiang D, Datla R et al. Annotating and quantifying pri-miRNA transcripts using RNA-Seq data of wild type and serrate-1 globular stage embryos of Arabidopsis thaliana. Data Brief 2017 Dec;15:642-647. PMID: 29124087
  • Suwanwela J, Osathanon T et al. Inflammation related genes are upregulated in surgical margins of advanced stage oral squamous cell carcinoma. J Oral Biol Craniofac Res 2017 Sep-Dec;7(3):193-197. PMID: 29123999
  • Gyetvai G, Hughes T, Wedmore F, Roe C et al. Erythropoietin Increases Myelination in Oligodendrocytes: Gene Expression Profiling Reveals Early Induction of Genes Involved in Lipid Transport and Metabolism. Front Immunol 2017;8:1394. PMID: 29123527
  • Zhou X, Xiong ZJ, Xiao SM, Zhou J et al. Overexpression of MPC1 inhibits the proliferation, migration, invasion, and stem cell-like properties of gastric cancer cells. Onco Targets Ther 2017;10:5151-5163. PMID: 29123413
  • Mistry D, Wise RP, Dickerson JA et al. DiffSLC: A graph centrality method to detect essential proteins of a protein-protein interaction network. PLoS One 2017;12(11):e0187091. PMID: 29121073
  • Zhao F, Pu Y, Cui M, Wang H et al. MiR-20a-5p represses the multi-drug resistance of osteosarcoma by targeting the SDC2 gene. Cancer Cell Int 2017;17:100. PMID: 29118673
  • Lin CY, Cho CF, Bai ST, Liu JP et al. ADAM9 promotes lung cancer progression through vascular remodeling by VEGFA, ANGPT2, and PLAT. Sci Rep 2017 Nov 8;7(1):15108. PMID: 29118335
  • Lochmann TL, Floros KV, Naseri M, Powell KM et al. Venetoclax Is Effective in Small-Cell Lung Cancers with High BCL-2 Expression. Clin Cancer Res 2018 Jan 15;24(2):360-369. PMID: 29118061
  • Ding Z, Roos A, Kloss J, Dhruv H et al. A Novel Signaling Complex between TROY and EGFR Mediates Glioblastoma Cell Invasion. Mol Cancer Res 2018 Feb;16(2):322-332. PMID: 29117939
  • Pei C, Wang SL, Fang J, Zhang W et al. GSMC: Combining Parallel Gibbs Sampling with Maximal Cliques for Hunting DNA Motif. J Comput Biol 2017 Dec;24(12):1243-1253. PMID: 29116820
  • Hu B, Huo Y, Yang L, Chen G et al. ZIKV infection effects changes in gene splicing, isoform composition and lncRNA expression in human neural progenitor cells. Virol J 2017 Nov 7;14(1):217. PMID: 29116029
  • Quintero M, Adamoski D, Reis LMD, Ascenção CFR et al. Guanylate-binding protein-1 is a potential new therapeutic target for triple-negative breast cancer. BMC Cancer 2017 Nov 7;17(1):727. PMID: 29115931
  • Sass PA, Dąbrowski M, Charzyńska A, Sachadyn P et al. Transcriptomic responses to wounding: meta-analysis of gene expression microarray data. BMC Genomics 2017 Nov 7;18(1):850. PMID: 29115927
  • Yamada Y, Koshizuka K, Hanazawa T, Kikkawa N et al. Passenger strand of miR-145-3p acts as a tumor-suppressor by targeting MYO1B in head and neck squamous cell carcinoma. Int J Oncol 2018 Jan;52(1):166-178. PMID: 29115582
  • Chen XG, Ma L, Xu JX et al. Abnormal DNA methylation may contribute to the progression of osteosarcoma. Mol Med Rep 2018 Jan;17(1):193-199. PMID: 29115427
  • Waasdorp M, Duitman J, Spek CA et al. Plasmin reduces fibronectin deposition by mesangial cells in a protease-activated receptor-1 independent manner. Biochem Biophys Rep 2017 Jul;10:152-156. PMID: 29114573
  • Wan L, Yu W, Shen E, Sun W et al. SRSF6-regulated alternative splicing that promotes tumour progression offers a therapy target for colorectal cancer. Gut 2019 Jan;68(1):118-129. PMID: 29114070
  • Tsai F, Homan PJ, Agrawal H, Misharin AV et al. Bim suppresses the development of SLE by limiting myeloid inflammatory responses. J Exp Med 2017 Dec 4;214(12):3753-3773. PMID: 29114065
  • Gant TW, Sauer UG, Zhang SD, Chorley BN et al. A generic Transcriptomics Reporting Framework (TRF) for 'omics data processing and analysis. Regul Toxicol Pharmacol 2017 Dec;91 Suppl 1(Suppl 1):S36-S45. PMID: 29113939
  • Yoshihara M, Hara S, Tsujikawa M, Kawasaki S et al. Restricted Presence of POU6F2 in Human Corneal Endothelial Cells Uncovered by Extension of the Promoter-level Expression Atlas. EBioMedicine 2017 Nov;25:175-186. PMID: 29113774
  • Liang L, Zeng JH, Wang JY, He RQ et al. Down-regulation of miR-26a-5p in hepatocellular carcinoma: A qRT-PCR and bioinformatics study. Pathol Res Pract 2017 Dec;213(12):1494-1509. PMID: 29113686
  • He RQ, Wei QJ, Tang RX, Chen WJ et al. Prediction of clinical outcome and survival in soft-tissue sarcoma using a ten-lncRNA signature. Oncotarget 2017 Oct 6;8(46):80336-80347. PMID: 29113307
  • Wang A, Zhang G et al. Differential gene expression analysis in glioblastoma cells and normal human brain cells based on GEO database. Oncol Lett 2017 Nov;14(5):6040-6044. PMID: 29113243
  • Ma K, Cheng Z, Sun L, Li H et al. Identification of potential therapeutic targets for gliomas by bioinformatics analysis. Oncol Lett 2017 Nov;14(5):5203-5210. PMID: 29113156
  • Chang CM, Yang YP, Chuang JH, Chuang CM et al. Discovering the Deregulated Molecular Functions Involved in Malignant Transformation of Endometriosis to Endometriosis-Associated Ovarian Carcinoma Using a Data-Driven, Function-Based Analysis. Int J Mol Sci 2017 Nov 6;18(11). PMID: 29113136
  • Jabs V, Edlund K, König H, Grinberg M et al. Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer. PLoS One 2017;12(11):e0187246. PMID: 29112949
  • Alakwaa FM, Chaudhary K, Garmire LX et al. Deep Learning Accurately Predicts Estrogen Receptor Status in Breast Cancer Metabolomics Data. J Proteome Res 2018 Jan 5;17(1):337-347. PMID: 29110491
  • Park MH, Yun HM, Hwang CJ, Park SI et al. Presenilin Mutation Suppresses Lung Tumorigenesis via Inhibition of Peroxiredoxin 6 Activity and Expression. Theranostics 2017;7(15):3624-3637. PMID: 29109765
  • Wang N, Zheng Y, Gu J, Cai Y et al. Network-pharmacology-based validation of TAMS/CXCL-1 as key mediator of XIAOPI formula preventing breast cancer development and metastasis. Sci Rep 2017 Nov 6;7(1):14513. PMID: 29109519
  • Lee SG, Mikhalchenko AE, Yim SH, Lobanov AV et al. Naked Mole Rat Induced Pluripotent Stem Cells and Their Contribution to Interspecific Chimera. Stem Cell Reports 2017 Nov 14;9(5):1706-1720. PMID: 29107591
  • Schmidt T, Samaras P, Frejno M, Gessulat S et al. ProteomicsDB. Nucleic Acids Res 2018 Jan 4;46(D1):D1271-D1281. PMID: 29106664
  • Liu W, Xiang L, Zheng T, Jin J et al. TranslatomeDB: a comprehensive database and cloud-based analysis platform for translatome sequencing data. Nucleic Acids Res 2018 Jan 4;46(D1):D206-D212. PMID: 29106630
  • Huang R, He Y, Sun B, Liu B et al. Bioinformatic Analysis Identifies Three Potentially Key Differentially Expressed Genes in Peripheral Blood Mononuclear Cells of Patients with Takayasu's Arteritis. Cell J 2018 Jan;19(4):647-653. PMID: 29105401
  • Zhang Y, Kang R, Liu W, Yang Y et al. Identification and Analysis of P53-Mediated Competing Endogenous RNA Network in Human Hepatocellular Carcinoma. Int J Biol Sci 2017;13(9):1213-1221. PMID: 29104512
  • Wu DM, Shi J, Liu T, Deng SH et al. Integrated analysis reveals down-regulation of SPARCL1 is correlated with cervical cancer development and progression. Cancer Biomark 2018 Feb 6;21(2):355-365. PMID: 29103025
  • Kanaan GN, Ichim B, Gharibeh L, Maharsy W et al. Glutaredoxin-2 controls cardiac mitochondrial dynamics and energetics in mice, and protects against human cardiac pathologies. Redox Biol 2018 Apr;14:509-521. PMID: 29101900
  • Steube A, Schenk T, Tretyakov A, Saluz HP et al. High-intensity UV laser ChIP-seq for the study of protein-DNA interactions in living cells. Nat Commun 2017 Nov 3;8(1):1303. PMID: 29101361
  • Kim YH, Jeong DC, Pak K, Goh TS et al. Gene network inherent in genomic big data improves the accuracy of prognostic prediction for cancer patients. Oncotarget 2017 Sep 29;8(44):77515-77526. PMID: 29100405
  • Kenn M, Schlangen K, Castillo-Tong DC, Singer CF et al. Gene expression information improves reliability of receptor status in breast cancer patients. Oncotarget 2017 Sep 29;8(44):77341-77359. PMID: 29100391
  • Zhuang T, Yu S, Zhang L, Yang H et al. SHARPIN stabilizes estrogen receptor α and promotes breast cancer cell proliferation. Oncotarget 2017 Sep 29;8(44):77137-77151. PMID: 29100376
  • Klonowska K, Kluzniak W, Rusak B, Jakubowska A et al. The 30 kb deletion in the APOBEC3 cluster decreases APOBEC3A and APOBEC3B expression and creates a transcriptionally active hybrid gene but does not associate with breast cancer in the European population. Oncotarget 2017 Sep 29;8(44):76357-76374. PMID: 29100317
  • Vavougios GD, Zarogiannis SG, Krogfelt KA, Gourgoulianis K et al. Novel candidate genes of the PARK7 interactome as mediators of apoptosis and acetylation in multiple sclerosis: An in silico analysis. Mult Scler Relat Disord 2018 Jan;19:8-14. PMID: 29100048
  • Arakelyan A, Nersisyan L, Poghosyan D, Khondkaryan L et al. Autoimmunity and autoinflammation: A systems view on signaling pathway dysregulation profiles. PLoS One 2017;12(11):e0187572. PMID: 29099860
  • Huang CS, Zhai JM, Zhu XX, Cai JP et al. BTG2 Is Down-Regulated and Inhibits Cancer Stem Cell-Like Features of Side Population Cells in Hepatocellular Carcinoma. Dig Dis Sci 2017 Dec;62(12):3501-3510. PMID: 29098552
  • Tian SClassification and survival prediction for early-stage lung adenocarcinoma and squamous cell carcinoma patients. Oncol Lett 2017 Nov;14(5):5464-5470. PMID: 29098036
  • Chu AY, Tin A, Schlosser P, Ko YA et al. Epigenome-wide association studies identify DNA methylation associated with kidney function. Nat Commun 2017 Nov 3;8(1):1286. PMID: 29097680
  • Barroso GV, Puzovic N, Dutheil JY et al. The Evolution of Gene-Specific Transcriptional Noise Is Driven by Selection at the Pathway Level. Genetics 2018 Jan;208(1):173-189. PMID: 29097405
  • Wang G, Chen X, Liang Y, Wang W et al. A Long Noncoding RNA Signature That Predicts Pathological Complete Remission Rate Sensitively in Neoadjuvant Treatment of Breast Cancer. Transl Oncol 2017 Dec;10(6):988-997. PMID: 29096247
  • Gupta A, Singh J, Dufort I, Robert C et al. Transcriptomic difference in bovine blastocysts following vitrification and slow freezing at morula stage. PLoS One 2017;12(11):e0187268. PMID: 29095916
  • Song CJ, Chen H, Chen LZ, Ru GM et al. The potential of microRNAs as human prostate cancer biomarkers: A meta-analysis of related studies. J Cell Biochem 2018 Mar;119(3):2763-2786. PMID: 29095529
  • Ling Z, Liu D, Zhang G, Liang Q et al. miR-361-5p modulates metabolism and autophagy via the Sp1-mediated regulation of PKM2 in prostate cancer. Oncol Rep 2017 Sep;38(3):1621-1628. PMID: 29094170
  • Morita Y, Ohno M, Nishi K, Hiraoka Y et al. Genome-wide profiling of nardilysin target genes reveals its role in epigenetic regulation and cell cycle progression. Sci Rep 2017 Nov 1;7(1):14801. PMID: 29093577
  • Brandt MM, Meddens CA, Louzao-Martinez L, van den Dungen NAM et al. Chromatin Conformation Links Distal Target Genes to CKD Loci. J Am Soc Nephrol 2018 Feb;29(2):462-476. PMID: 29093029
  • Almugbel R, Hung LH, Hu J, Almutairy A et al. Reproducible Bioconductor workflows using browser-based interactive notebooks and containers. J Am Med Inform Assoc 2018 Jan 1;25(1):4-12. PMID: 29092073
  • Thakur S, Brenner C et al. KRAS-driven miR-29b expression is required for tumor suppressor gene silencing. Oncotarget 2017 Sep 26;8(43):74755-74766. PMID: 29088821
  • Hu Y, Wang L, Gu J, Qu K et al. Identification of microRNA differentially expressed in three subtypes of non-small cell lung cancer and in silico functional analysis. Oncotarget 2017 Sep 26;8(43):74554-74566. PMID: 29088807
  • Shen X, Li P, Xu Y, Chen X et al. Association of sirtuins with clinicopathological parameters and overall survival in gastric cancer. Oncotarget 2017 Sep 26;8(43):74359-74370. PMID: 29088792
  • Luo YH, Liang L, He RQ, Wen DY et al. RNA-sequencing investigation identifies an effective risk score generated by three novel lncRNAs for the survival of papillary thyroid cancer patients. Oncotarget 2017 Sep 26;8(43):74139-74158. PMID: 29088774
  • Zheng G, Ma Y, Zou Y, Yin A et al. HCMDB: the human cancer metastasis database. Nucleic Acids Res 2018 Jan 4;46(D1):D950-D955. PMID: 29088455
  • Di Pierro M, Cheng RR, Lieberman Aiden E, Wolynes PG et al. De novo prediction of human chromosome structures: Epigenetic marking patterns encode genome architecture. Proc Natl Acad Sci U S A 2017 Nov 14;114(46):12126-12131. PMID: 29087948
  • Han H, Cho JW, Lee S, Yun A et al. TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions. Nucleic Acids Res 2018 Jan 4;46(D1):D380-D386. PMID: 29087512
  • Liguori M, Nuzziello N, Licciulli F, Consiglio A et al. Combined microRNA and mRNA expression analysis in pediatric multiple sclerosis: an integrated approach to uncover novel pathogenic mechanisms of the disease. Hum Mol Genet 2018 Jan 1;27(1):66-79. PMID: 29087462
  • Cho SGAPC downregulated 1 inhibits breast cancer cell invasion by inhibiting the canonical WNT signaling pathway. Oncol Lett 2017 Oct;14(4):4845-4852. PMID: 29085490
  • Cheng Q, Han LH, Zhao HJ, Li H et al. Abnormal alterations of miR-1 and miR-214 are associated with clinicopathological features and prognosis of patients with PDAC. Oncol Lett 2017 Oct;14(4):4605-4612. PMID: 29085459
  • Al-Akhrass H, Naves T, Vincent F, Magnaudeix A et al. Sortilin limits EGFR signaling by promoting its internalization in lung cancer. Nat Commun 2017 Oct 30;8(1):1182. PMID: 29084952
  • Langer EM, Kendsersky ND, Daniel CJ, Kuziel GM et al. ZEB1-repressed microRNAs inhibit autocrine signaling that promotes vascular mimicry of breast cancer cells. Oncogene 2018 Feb 22;37(8):1005-1019. PMID: 29084210
  • Maj T, Wang W, Crespo J, Zhang H et al. Oxidative stress controls regulatory T cell apoptosis and suppressor activity and PD-L1-blockade resistance in tumor. Nat Immunol 2017 Dec;18(12):1332-1341. PMID: 29083399
  • Fang E, Zhang X et al. Identification of breast cancer hub genes and analysis of prognostic values using integrated bioinformatics analysis. Cancer Biomark 2017 Dec 12;21(1):373-381. PMID: 29081411
  • Tyzack GE, Hall CE, Sibley CR, Cymes T et al. A neuroprotective astrocyte state is induced by neuronal signal EphB1 but fails in ALS models. Nat Commun 2017 Oct 27;8(1):1164. PMID: 29079839
  • Warnefors M, Mössinger K, Halbert J, Studer T et al. Sex-biased microRNA expression in mammals and birds reveals underlying regulatory mechanisms and a role in dosage compensation. Genome Res 2017 Dec;27(12):1961-1973. PMID: 29079676
  • Rücker FG, Dolnik A, Blätte TJ, Teleanu V et al. Chromothripsis is linked to TP53 alteration, cell cycle impairment, and dismal outcome in acute myeloid leukemia with complex karyotype. Haematologica 2018 Jan;103(1):e17-e20. PMID: 29079594
  • Lin JY, Le BH, Chen M, Henry KF et al. Similarity between soybean and Arabidopsis seed methylomes and loss of non-CG methylation does not affect seed development. Proc Natl Acad Sci U S A 2017 Nov 7;114(45):E9730-E9739. PMID: 29078418
  • Eckl J, Sima S, Marcus K, Lindemann C et al. Hsp90-downregulation influences the heat-shock response, innate immune response and onset of oocyte development in nematodes. PLoS One 2017;12(10):e0186386. PMID: 29078207
  • Firmin FF, Oger F, Gheeraert C, Dubois-Chevalier J et al. The RBM14/CoAA-interacting, long intergenic non-coding RNA Paral1 regulates adipogenesis and coactivates the nuclear receptor PPARγ. Sci Rep 2017 Oct 26;7(1):14087. PMID: 29075020
  • Wang C, Cai L, Liu J, Wang G et al. MicroRNA-30a-5p Inhibits the Growth of Renal Cell Carcinoma by Modulating GRP78 Expression. Cell Physiol Biochem 2017;43(6):2405-2419. PMID: 29073630
  • Huang C, Mezencev R, McDonald JF, Vannberg F et al. Open source machine-learning algorithms for the prediction of optimal cancer drug therapies. PLoS One 2017;12(10):e0186906. PMID: 29073279
  • Li H, Hong G, Lin M, Shi Y et al. Identification of molecular alterations in leukocytes from gene expression profiles of peripheral whole blood of Alzheimer's disease. Sci Rep 2017 Oct 25;7(1):14027. PMID: 29070791
  • Lopez D, Montoya D, Ambrose M, Lam L et al. SaVanT: a web-based tool for the sample-level visualization of molecular signatures in gene expression profiles. BMC Genomics 2017 Oct 25;18(1):824. PMID: 29070035
  • Lee SH, Chiu YC, Li YH, Lin CC et al. High expression of dedicator of cytokinesis 1 (DOCK1) confers poor prognosis in acute myeloid leukemia. Oncotarget 2017 Sep 22;8(42):72250-72259. PMID: 29069784
  • Sun S, Kiang KMY, Ho ASW, Lee D et al. Endoplasmic reticulum chaperone prolyl 4-hydroxylase, beta polypeptide (P4HB) promotes malignant phenotypes in glioma via MAPK signaling. Oncotarget 2017 Sep 22;8(42):71911-71923. PMID: 29069756
  • Xiao J, Lu X, Chen X, Zou Y et al. Eight potential biomarkers for distinguishing between lung adenocarcinoma and squamous cell carcinoma. Oncotarget 2017 Sep 22;8(42):71759-71771. PMID: 29069744
  • Zhi H, Li X, Wang P, Gao Y et al. Lnc2Meth: a manually curated database of regulatory relationships between long non-coding RNAs and DNA methylation associated with human disease. Nucleic Acids Res 2018 Jan 4;46(D1):D133-D138. PMID: 29069510
  • Wu X, Kim TK, Baxter D, Scherler K et al. sRNAnalyzer-a flexible and customizable small RNA sequencing data analysis pipeline. Nucleic Acids Res 2017 Dec 1;45(21):12140-12151. PMID: 29069500
  • O'Connell GC, Treadway MB, Petrone AB, Tennant CS et al. Leukocyte Dynamics Influence Reference Gene Stability in Whole Blood: Data-Driven qRT-PCR Normalization Is a Robust Alternative for Measurement of Transcriptional Biomarkers. Lab Med 2017 Nov 8;48(4):346-356. PMID: 29069468
  • Dréos R, Ambrosini G, Groux R, Périer RC et al. MGA repository: a curated data resource for ChIP-seq and other genome annotated data. Nucleic Acids Res 2018 Jan 4;46(D1):D175-D180. PMID: 29069466
  • Tripathy SJ, Toker L, Li B, Crichlow CL et al. Transcriptomic correlates of neuron electrophysiological diversity. PLoS Comput Biol 2017 Oct;13(10):e1005814. PMID: 29069078
  • Safikhani Z, Smirnov P, Thu KL, Silvester J et al. Gene isoforms as expression-based biomarkers predictive of drug response in vitro. Nat Commun 2017 Oct 24;8(1):1126. PMID: 29066719
  • Li Y, Zhong C, Liu D, Yu W et al. Evidence for Kaposi Sarcoma Originating from Mesenchymal Stem Cell through KSHV-induced Mesenchymal-to-Endothelial Transition. Cancer Res 2018 Jan 1;78(1):230-245. PMID: 29066510
  • Wang L, Nanayakkara G, Yang Q, Tan H et al. A comprehensive data mining study shows that most nuclear receptors act as newly proposed homeostasis-associated molecular pattern receptors. J Hematol Oncol 2017 Oct 24;10(1):168. PMID: 29065888
  • D'Arpa P, Leung KP et al. Toll-Like Receptor Signaling in Burn Wound Healing and Scarring. Adv Wound Care (New Rochelle) 2017 Oct 1;6(10):330-343. PMID: 29062590
  • Jia Q, Xue T, Zhang Q, Cheng W et al. CCN3 is a therapeutic target relating enhanced stemness and coagulation in hepatocellular carcinoma. Sci Rep 2017 Oct 23;7(1):13846. PMID: 29061995
  • Muzumdar MD, Chen PY, Dorans KJ, Chung KM et al. Survival of pancreatic cancer cells lacking KRAS function. Nat Commun 2017 Oct 23;8(1):1090. PMID: 29061961
  • Li L, Yang H, He Y, Li T et al. Ubiquitin-Specific Protease USP6 Regulates the Stability of the c-Jun Protein. Mol Cell Biol 2018 Jan 15;38(2). PMID: 29061731
  • He LP, Chen YF, Yang J et al. [Investigation on the role and mechanism of prostagland in D2 synthase in non-small cell lung cancer]. Zhonghua Yi Xue Za Zhi 2017 Oct 17;97(38):3022-3027. PMID: 29061012
  • Michailidou K, Lindström S, Dennis J, Beesley J et al. Association analysis identifies 65 new breast cancer risk loci. Nature 2017 Nov 2;551(7678):92-94. PMID: 29059683
  • Zheng LL, Zhou KR, Liu S, Zhang DY et al. dreamBase: DNA modification, RNA regulation and protein binding of expressed pseudogenes in human health and disease. Nucleic Acids Res 2018 Jan 4;46(D1):D85-D91. PMID: 29059382
  • Li X, Shi L, Zhang K, Wei W et al. CirGRDB: a database for the genome-wide deciphering circadian genes and regulators. Nucleic Acids Res 2018 Jan 4;46(D1):D64-D70. PMID: 29059379
  • Marzec J, Dayem Ullah AZ, Pirrò S, Gadaleta E et al. The Pancreatic Expression Database: 2018 update. Nucleic Acids Res 2018 Jan 4;46(D1):D1107-D1110. PMID: 29059374
  • Karimi K, Fortriede JD, Lotay VS, Burns KA et al. Xenbase: a genomic, epigenomic and transcriptomic model organism database. Nucleic Acids Res 2018 Jan 4;46(D1):D861-D868. PMID: 29059324
  • Lagares D, Ghassemi-Kakroodi P, Tremblay C, Santos A et al. ADAM10-mediated ephrin-B2 shedding promotes myofibroblast activation and organ fibrosis. Nat Med 2017 Dec;23(12):1405-1415. PMID: 29058717
  • Milne RL, Kuchenbaecker KB, Michailidou K, Beesley J et al. Identification of ten variants associated with risk of estrogen-receptor-negative breast cancer. Nat Genet 2017 Dec;49(12):1767-1778. PMID: 29058716
  • Aran D, Camarda R, Odegaard J, Paik H et al. Comprehensive analysis of normal adjacent to tumor transcriptomes. Nat Commun 2017 Oct 20;8(1):1077. PMID: 29057876
  • Izzo A, Manco R, de Cristofaro T, Bonfiglio F et al. Overexpression of Chromosome 21 miRNAs May Affect Mitochondrial Function in the Hearts of Down Syndrome Fetuses. Int J Genomics 2017;2017:8737649. PMID: 29057256
  • Jennings RE, Berry AA, Gerrard DT, Wearne SJ et al. Laser Capture and Deep Sequencing Reveals the Transcriptomic Programmes Regulating the Onset of Pancreas and Liver Differentiation in Human Embryos. Stem Cell Reports 2017 Nov 14;9(5):1387-1394. PMID: 29056335
  • Chen KG, Johnson KR, Robey PG et al. Mouse Genetic Analysis of Bone Marrow Stem Cell Niches: Technological Pitfalls, Challenges, and Translational Considerations. Stem Cell Reports 2017 Nov 14;9(5):1343-1358. PMID: 29056332
  • Pinto BS, Saxena T, Oliveira R, Méndez-Gómez HR et al. Impeding Transcription of Expanded Microsatellite Repeats by Deactivated Cas9. Mol Cell 2017 Nov 2;68(3):479-490.e5. PMID: 29056323
  • Yan B, Guan D, Wang C, Wang J et al. An integrative method to decode regulatory logics in gene transcription. Nat Commun 2017 Oct 19;8(1):1044. PMID: 29051499
  • Ock CY, Hwang JE, Keam B, Kim SB et al. Genomic landscape associated with potential response to anti-CTLA-4 treatment in cancers. Nat Commun 2017 Oct 19;8(1):1050. PMID: 29051489
  • Zhou W, Sherwood B, Ji Z, Xue Y et al. Genome-wide prediction of DNase I hypersensitivity using gene expression. Nat Commun 2017 Oct 19;8(1):1038. PMID: 29051481
  • Hu C, Malik V, Chang YK, Veerapandian V et al. Coop-Seq Analysis Demonstrates that Sox2 Evokes Latent Specificities in the DNA Recognition by Pax6. J Mol Biol 2017 Nov 24;429(23):3626-3634. PMID: 29050852
  • Chen F, Peng P, Zhou Y, Yang ZY et al. A GLO10 score for the prediction of prognosis in high grade gliomas. Oncotarget 2017 Sep 19;8(41):70899-70906. PMID: 29050331
  • Sun C, Yuan Q, Wu D, Meng X et al. Identification of core genes and outcome in gastric cancer using bioinformatics analysis. Oncotarget 2017 Sep 19;8(41):70271-70280. PMID: 29050278
  • Wang Y, Wang C, Chen C, Wu F et al. Long non-coding RNA NEAT1 regulates epithelial membrane protein 2 expression to repress nasopharyngeal carcinoma migration and irradiation-resistance through miR-101-3p as a competing endogenous RNA mechanism. Oncotarget 2017 Sep 19;8(41):70156-70171. PMID: 29050268
  • Yonemori K, Seki N, Idichi T, Kurahara H et al. The microRNA expression signature of pancreatic ductal adenocarcinoma by RNA sequencing: anti-tumour functions of the microRNA-216 cluster. Oncotarget 2017 Sep 19;8(41):70097-70115. PMID: 29050264
  • Kwon MS, Nam S, Lee S, Ahn YZ et al. CANcer-specific Evaluation System (CANES): a high-accuracy platform, for preclinical single/multi-biomarker discovery. Oncotarget 2017 Sep 19;8(41):69808-69822. PMID: 29050243
  • Bai Z, Shi E, Wang Q, Dong Z et al. A potential panel of two-long non-coding RNA signature to predict recurrence of patients with laryngeal cancer. Oncotarget 2017 Sep 19;8(41):69641-69650. PMID: 29050230
  • Sun M, Sun T, He Z, Xiong B et al. Identification of two novel biomarkers of rectal carcinoma progression and prognosis via co-expression network analysis. Oncotarget 2017 Sep 19;8(41):69594-69609. PMID: 29050227
  • Xu H, Han Y, Lou J, Zhang H et al. PDGFRA, HSD17B4 and HMGB2 are potential therapeutic targets in polycystic ovarian syndrome and breast cancer. Oncotarget 2017 Sep 19;8(41):69520-69526. PMID: 29050221
  • Ogundijo OE, Wang X et al. A sequential Monte Carlo approach to gene expression deconvolution. PLoS One 2017;12(10):e0186167. PMID: 29049343
  • Hu B, Shi C, Jiang HX, Qin SY et al. Identification of novel therapeutic target genes and pathway in pancreatic cancer by integrative analysis. Medicine (Baltimore) 2017 Oct;96(42):e8261. PMID: 29049217
  • Zhang S, Xie Y, Cao H, Wang H et al. Common microRNA-mRNA interactions exist among distinct porcine iPSC lines independent of their metastable pluripotent states. Cell Death Dis 2017 Aug 31;8(8):e3027. PMID: 29048434
  • Yang RM, Zhan M, Xu SW, Long MM et al. miR-3656 expression enhances the chemosensitivity of pancreatic cancer to gemcitabine through modulation of the RHOF/EMT axis. Cell Death Dis 2017 Oct 19;8(10):e3129. PMID: 29048402
  • Acharya CR, Owzar K, Allen AS et al. Mapping eQTL by leveraging multiple tissues and DNA methylation. BMC Bioinformatics 2017 Oct 18;18(1):455. PMID: 29047346
  • Luebeck EG, Curtius K, Hazelton WD, Maden S et al. Identification of a key role of widespread epigenetic drift in Barrett's esophagus and esophageal adenocarcinoma. Clin Epigenetics 2017;9:113. PMID: 29046735
  • Ahn HW, Tucker JM, Arribere JA, Garfinkel DJ et al. Ribosome Biogenesis Modulates Ty1 Copy Number Control in Saccharomyces cerevisiae. Genetics 2017 Dec;207(4):1441-1456. PMID: 29046400
  • Alhaj Hussen K, Vu Manh TP, Guimiot F, Nelson E et al. Molecular and Functional Characterization of Lymphoid Progenitor Subsets Reveals a Bipartite Architecture of Human Lymphopoiesis. Immunity 2017 Oct 17;47(4):680-696.e8. PMID: 29045900
  • Pinto JP, Machado RSR, Magno R, Oliveira DV et al. StemMapper: a curated gene expression database for stem cell lineage analysis. Nucleic Acids Res 2018 Jan 4;46(D1):D788-D793. PMID: 29045725
  • Degenhardt F, Seifert S, Szymczak S et al. Evaluation of variable selection methods for random forests and omics data sets. Brief Bioinform 2019 Mar 22;20(2):492-503. PMID: 29045534
  • Shen X, Yi L, Jiang X, He T et al. Identifying protein complex by integrating characteristic of core-attachment into dynamic PPI network. PLoS One 2017;12(10):e0186134. PMID: 29045465
  • Xie D, Huang L, Zhao G, Yu Y et al. Dissecting the Underlying Pharmaceutical Mechanism of Chinese Traditional Medicine Yun-Pi-Yi-Shen-Tong-Du-Tang Acting on Ankylosing Spondylitis through Systems Biology Approaches. Sci Rep 2017 Oct 18;7(1):13436. PMID: 29044146
  • Mishra A, Oulès B, Pisco AO, Ly T et al. A protein phosphatase network controls the temporal and spatial dynamics of differentiation commitment in human epidermis. Elife 2017 Oct 18;6. PMID: 29043977
  • Golkaram M, Jang J, Hellander S, Kosik KS et al. The Role of Chromatin Density in Cell Population Heterogeneity during Stem Cell Differentiation. Sci Rep 2017 Oct 17;7(1):13307. PMID: 29042584
  • Yang Z, Yang X, Xu S, Jin P et al. Reprogramming of stromal fibroblasts by SNAI2 contributes to tumor desmoplasia and ovarian cancer progression. Mol Cancer 2017 Oct 17;16(1):163. PMID: 29041931
  • Liu Y, Tian T, Zhang K, You Q et al. PCSD: a plant chromatin state database. Nucleic Acids Res 2018 Jan 4;46(D1):D1157-D1167. PMID: 29040761
  • Mao F, Liu Q, Zhao X, Yang H et al. EpiDenovo: a platform for linking regulatory de novo mutations to developmental epigenetics and diseases. Nucleic Acids Res 2018 Jan 4;46(D1):D92-D99. PMID: 29040751
  • Xuan JJ, Sun WJ, Lin PH, Zhou KR et al. RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data. Nucleic Acids Res 2018 Jan 4;46(D1):D327-D334. PMID: 29040692
  • Li X, Cai H, Wang X, Ao L et al. A rank-based algorithm of differential expression analysis for small cell line data with statistical control. Brief Bioinform 2019 Mar 22;20(2):482-491. PMID: 29040359
  • Burchill MA, Roby JA, Crochet N, Wind-Rotolo M et al. Rapid reversal of innate immune dysregulation in blood of patients and livers of humanized mice with HCV following DAA therapy. PLoS One 2017;12(10):e0186213. PMID: 29040318
  • Zhang Y, Huang JC, Cai KT, Yu XB et al. Long non‑coding RNA HOTTIP promotes hepatocellular carcinoma tumorigenesis and development: A comprehensive investigation based on bioinformatics, qRT‑PCR and meta‑analysis of 393 cases. Int J Oncol 2017 Dec;51(6):1705-1721. PMID: 29039502
  • Cortés M, Sanchez-Moral L, de Barrios O, Fernández-Aceñero MJ et al. Tumor-associated macrophages (TAMs) depend on ZEB1 for their cancer-promoting roles. EMBO J 2017 Nov 15;36(22):3336-3355. PMID: 29038174
  • Li Y, Zhang J, Huo C, Ding N et al. Dynamic Organization of lncRNA and Circular RNA Regulators Collectively Controlled Cardiac Differentiation in Humans. EBioMedicine 2017 Oct;24:137-146. PMID: 29037607
  • Kakrana A, Yang A, Anand D, Djordjevic D et al. iSyTE 2.0: a database for expression-based gene discovery in the eye. Nucleic Acids Res 2018 Jan 4;46(D1):D875-D885. PMID: 29036527
  • Koeppen K, Stanton BA, Hampton TH et al. ScanGEO: parallel mining of high-throughput gene expression data. Bioinformatics 2017 Nov 1;33(21):3500-3501. PMID: 29036513
  • Hicks SC, Okrah K, Paulson JN, Quackenbush J et al. Smooth quantile normalization. Biostatistics 2018 Apr 1;19(2):185-198. PMID: 29036413
  • Zheng Y, Nie P, Peng D, He Z et al. m6AVar: a database of functional variants involved in m6A modification. Nucleic Acids Res 2018 Jan 4;46(D1):D139-D145. PMID: 29036329
  • Saffari A, Silver MJ, Zavattari P, Moi L et al. Estimation of a significance threshold for epigenome-wide association studies. Genet Epidemiol 2018 Feb;42(1):20-33. PMID: 29034560
  • Beck TN, Golemis EA et al. Genomic insights into head and neck cancer. Cancers Head Neck 2016;1. PMID: 29034103
  • Rodrigues NF, Christoff AP, da Fonseca GC, Kulcheski FR et al. Unveiling Chloroplast RNA Editing Events Using Next Generation Small RNA Sequencing Data. Front Plant Sci 2017;8:1686. PMID: 29033962
  • Shi L, Zhao SM, Luo Y, Zhang AW et al. MiR-375: A prospective regulator in medullary thyroid cancer based on microarray data and bioinformatics analyses. Pathol Res Pract 2017 Nov;213(11):1344-1354. PMID: 29033189
  • Wang W, Li H, Zhao Z, Wang H et al. The pathogenesis shared between abdominal aortic aneurysms and intracranial aneurysms: a microarray analysis. Neurosurg Rev 2018 Apr;41(2):667-674. PMID: 29032423
  • Vaeth M, Maus M, Klein-Hessling S, Freinkman E et al. Store-Operated Ca(2+) Entry Controls Clonal Expansion of T Cells through Metabolic Reprogramming. Immunity 2017 Oct 17;47(4):664-679.e6. PMID: 29030115
  • Yu C, Woo HJ, Yu X, Oyama T et al. A strategy for evaluating pathway analysis methods. BMC Bioinformatics 2017 Oct 13;18(1):453. PMID: 29029625
  • Chen T, Li M, He Q, Zou L et al. LiverWiki: a wiki-based database for human liver. BMC Bioinformatics 2017 Oct 13;18(1):452. PMID: 29029599
  • Gaine ME, Sharpe DJ, Smith JS, Colyer HAA et al. GATA2 regulates the erythropoietin receptor in t(12;21) ALL. Oncotarget 2017 Sep 12;8(39):66061-66074. PMID: 29029492
  • Huang F, Cai P, Wang Y, Zhou X et al. Up-regulation of brain-expressed X-linked 2 is critical for hepatitis B virus X protein-induced hepatocellular carcinoma development. Oncotarget 2017 Sep 12;8(39):65789-65799. PMID: 29029472
  • Kim SY, Jeong HC, Hong SK, Lee MO et al. Quercetin induced ROS production triggers mitochondrial cell death of human embryonic stem cells. Oncotarget 2017 Sep 12;8(39):64964-64973. PMID: 29029404
  • Spies D, Renz PF, Beyer TA, Ciaudo C et al. Comparative analysis of differential gene expression tools for RNA sequencing time course data. Brief Bioinform 2019 Jan 18;20(1):288-298. PMID: 29028903
  • Stavrovskaya ED, Niranjan T, Fertig EJ, Wheelan SJ et al. StereoGene: rapid estimation of genome-wide correlation of continuous or interval feature data. Bioinformatics 2017 Oct 15;33(20):3158-3165. PMID: 29028265
  • Lu L, Jiang Z, Dai Y, Chen L et al. Low-Grade Dysplastic Nodules Revealed as the Tipping Point during Multistep Hepatocarcinogenesis by Dynamic Network Biomarkers. Genes (Basel) 2017 Oct 13;8(10). PMID: 29027943
  • Chen G, Zhou G, Aras S, He Z et al. Loss of ABHD5 promotes the aggressiveness of prostate cancer cells. Sci Rep 2017 Oct 12;7(1):13021. PMID: 29026202
  • Ye Y, Zhang R, Zheng W, Liu S et al. RIFS: a randomly restarted incremental feature selection algorithm. Sci Rep 2017 Oct 12;7(1):13013. PMID: 29026108
  • Chai H, Li ZN, Meng DY, Xia LY et al. A new semi-supervised learning model combined with Cox and SP-AFT models in cancer survival analysis. Sci Rep 2017 Oct 12;7(1):13053. PMID: 29026100
  • Aghajanova L, Houshdaran S, Irwin JC, Giudice LC et al. Effects of noncavity-distorting fibroids on endometrial gene expression and function. Biol Reprod 2017 Oct 1;97(4):564-576. PMID: 29025102
  • Letellier E, Schmitz M, Ginolhac A, Rodriguez F et al. Loss of Myosin Vb in colorectal cancer is a strong prognostic factor for disease recurrence. Br J Cancer 2017 Nov 21;117(11):1689-1701. PMID: 29024942
  • Rodriguez-Esteban R, Jiang X et al. Differential gene expression in disease: a comparison between high-throughput studies and the literature. BMC Med Genomics 2017 Oct 11;10(1):59. PMID: 29020950
  • Charles KN, Li MD, Engin F, Arruda AP et al. Uncoupling of Metabolic Health from Longevity through Genetic Alteration of Adipose Tissue Lipid-Binding Proteins. Cell Rep 2017 Oct 10;21(2):393-402. PMID: 29020626
  • Yang J, Ryan DJ, Wang W, Tsang JC et al. Establishment of mouse expanded potential stem cells. Nature 2017 Oct 19;550(7676):393-397. PMID: 29019987
  • Reinhold D, Morrow JD, Jacobson S, Hu J et al. Meta-analysis of peripheral blood gene expression modules for COPD phenotypes. PLoS One 2017;12(10):e0185682. PMID: 29016655
  • Zhao S, Hong W, Wu J, Wang Y et al. A viral protein promotes host SAMS1 activity and ethylene production for the benefit of virus infection. Elife 2017 Oct 10;6. PMID: 28994391
  • Dantoft W, Martínez-Vicente P, Jafali J, Pérez-Martínez L et al. Genomic Programming of Human Neonatal Dendritic Cells in Congenital Systemic and In Vitro Cytomegalovirus Infection Reveal Plastic and Robust Immune Pathway Biology Responses. Front Immunol 2017;8:1146. PMID: 28993767
  • Liu J, Xu C, Yang W, Shu Y et al. Multiple similarly effective solutions exist for biomedical feature selection and classification problems. Sci Rep 2017 Oct 9;7(1):12830. PMID: 28993656
  • Malik S, Sadhu S, Elesela S, Pandey RP et al. Transcription factor Foxo1 is essential for IL-9 induction in T helper cells. Nat Commun 2017 Oct 9;8(1):815. PMID: 28993609
  • Pinzón-Cortés JA, Perna-Chaux A, Rojas-Villamizar NS, Díaz-Basabe A et al. Effect of diabetes status and hyperglycemia on global DNA methylation and hydroxymethylation. Endocr Connect 2017 Nov;6(8):708-725. PMID: 28993426
  • Eun JW, Kim HS, Shen Q, Yang HD et al. MicroRNA-495-3p functions as a tumor suppressor by regulating multiple epigenetic modifiers in gastric carcinogenesis. J Pathol 2018 Jan;244(1):107-119. PMID: 28991363
  • Jin SC, Homsy J, Zaidi S, Lu Q et al. Contribution of rare inherited and de novo variants in 2,871 congenital heart disease probands. Nat Genet 2017 Nov;49(11):1593-1601. PMID: 28991257
  • Ben-David U, Ha G, Tseng YY, Greenwald NF et al. Patient-derived xenografts undergo mouse-specific tumor evolution. Nat Genet 2017 Nov;49(11):1567-1575. PMID: 28991255
  • Chen L, Yuan L, Wang G, Cao R et al. Identification and bioinformatics analysis of miRNAs associated with human muscle invasive bladder cancer. Mol Med Rep 2017 Dec;16(6):8709-8720. PMID: 28990088
  • Wang J, Qu D, An J, Yuan G et al. Integrated microarray analysis provided novel insights to the pathogenesis of glaucoma. Mol Med Rep 2017 Dec;16(6):8735-8746. PMID: 28990066
  • Zhong S, Wu B, Dong X, Han Y et al. Identification of Driver Genes and Key Pathways of Glioblastoma Shows JNJ-7706621 as a Novel Antiglioblastoma Drug. World Neurosurg 2018 Jan;109:e329-e342. PMID: 28989042
  • Sanfilippo C, Longo A, Lazzara F, Cambria D et al. CHI3L1 and CHI3L2 overexpression in motor cortex and spinal cord of sALS patients. Mol Cell Neurosci 2017 Dec;85:162-169. PMID: 28989002
  • Jia Y, Zhou J, Luo X, Chen M et al. KLF4 overcomes tamoxifen resistance by suppressing MAPK signaling pathway and predicts good prognosis in breast cancer. Cell Signal 2018 Jan;42:165-175. PMID: 28988130
  • Rizzetto S, Eltahla AA, Lin P, Bull R et al. Impact of sequencing depth and read length on single cell RNA sequencing data of T cells. Sci Rep 2017 Oct 6;7(1):12781. PMID: 28986563
  • Mümmler C, Burgy O, Hermann S, Mutze K et al. Cell-specific expression of runt-related transcription factor 2 contributes to pulmonary fibrosis. FASEB J 2018 Feb;32(2):703-716. PMID: 28986417
  • Parker MM, Chase RP, Lamb A, Reyes A et al. RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking. BMC Med Genomics 2017 Oct 6;10(1):58. PMID: 28985737
  • Rao SSP, Huang SC, Glenn St Hilaire B, Engreitz JM et al. Cohesin Loss Eliminates All Loop Domains. Cell 2017 Oct 5;171(2):305-320.e24. PMID: 28985562
  • Qi L, Song Y, Chan THM, Yang H et al. An RNA editing/dsRNA binding-independent gene regulatory mechanism of ADARs and its clinical implication in cancer. Nucleic Acids Res 2017 Oct 13;45(18):10436-10451. PMID: 28985428
  • Chiu YC, Wang LJ, Hsiao TH, Chuang EY et al. Genome-wide identification of key modulators of gene-gene interaction networks in breast cancer. BMC Genomics 2017 Oct 3;18(Suppl 6):679. PMID: 28984209
  • Yang XH, Tang F, Shin J, Cunningham JM et al. Incorporating genomic, transcriptomic and clinical data: a prognostic and stem cell-like MYC and PRC imbalance in high-risk neuroblastoma. BMC Syst Biol 2017 Oct 3;11(Suppl 5):92. PMID: 28984200
  • Turki T, Wei Z et al. A link prediction approach to cancer drug sensitivity prediction. BMC Syst Biol 2017 Oct 3;11(Suppl 5):94. PMID: 28984192
  • Sangaralingam A, Dayem Ullah AZ, Marzec J, Gadaleta E et al. 'Multi-omic' data analysis using O-miner. Brief Bioinform 2019 Jan 18;20(1):130-143. PMID: 28981577
  • Wang W, Zhang M, Peng Y, He J et al. Ubiquitin Associated Protein 2-Like (UBAP2L) Overexpression in Patients with Hepatocellular Carcinoma and its Clinical Significance. Med Sci Monit 2017 Oct 5;23:4779-4788. PMID: 28981479
  • Weitz EM, Pantano L, Zhu J, Upton B et al. Viewing RNA-seq data on the entire human genome. F1000Res 2017;6:596. PMID: 28979763
  • He S, Niu G, Shang J, Deng Y et al. The oncogenic Golgi phosphoprotein 3 like overexpression is associated with cisplatin resistance in ovarian carcinoma and activating the NF-κB signaling pathway. J Exp Clin Cancer Res 2017 Oct 4;36(1):137. PMID: 28978336
  • He J, Zhou J, Yang W, Zhou Q et al. Dexamethasone affects cell growth/apoptosis/chemosensitivity of colon cancer via glucocorticoid receptor α/NF-κB. Oncotarget 2017 Sep 15;8(40):67670-67683. PMID: 28978062
  • Nagel S, Pommerenke C, Meyer C, Kaufmann M et al. NKL homeobox gene MSX1 acts like a tumor suppressor in NK-cell leukemia. Oncotarget 2017 Sep 15;8(40):66815-66832. PMID: 28977998
  • Zhao L, Yang Y, Yin S, Yang T et al. CTCF promotes epithelial ovarian cancer metastasis by broadly controlling the expression of metastasis-associated genes. Oncotarget 2017 Sep 22;8(37):62217-62230. PMID: 28977939
  • Ding ZH, Qi J, Shang AQ, Zhang YJ et al. Docking of CDK1 with antibiotic drugs revealed novel therapeutic value in breast ductal cancer in situ. Oncotarget 2017 Sep 22;8(37):61998-62010. PMID: 28977921
  • Enokida T, Fujii S, Takahashi M, Higuchi Y et al. Gene expression profiling to predict recurrence of advanced squamous cell carcinoma of the tongue: discovery and external validation. Oncotarget 2017 Sep 22;8(37):61786-61799. PMID: 28977904
  • Wang J, Zhou Y, Fei X, Chen X et al. Integrative bioinformatics analysis identifies ROBO1 as a potential therapeutic target modified by miR-218 in hepatocellular carcinoma. Oncotarget 2017 Sep 22;8(37):61327-61337. PMID: 28977866
  • Guo H, Zeng W, Feng L, Yu X et al. Integrated transcriptomic analysis of distance-related field cancerization in rectal cancer patients. Oncotarget 2017 Sep 22;8(37):61107-61117. PMID: 28977850
  • Zhang H, Lu X, Wang N, Wang J et al. Autophagy-related gene expression is an independent prognostic indicator of glioma. Oncotarget 2017 Sep 22;8(37):60987-61000. PMID: 28977840
  • Pan J, Liu S, Zhu H, Qian J et al. AAgMarker 1.0: a resource of serological autoantigen biomarkers for clinical diagnosis and prognosis of various human diseases. Nucleic Acids Res 2018 Jan 4;46(D1):D886-D893. PMID: 28977551
  • Manandhar D, Song L, Kabadi A, Kwon JB et al. Incomplete MyoD-induced transdifferentiation is associated with chromatin remodeling deficiencies. Nucleic Acids Res 2017 Nov 16;45(20):11684-11699. PMID: 28977539
  • Huang M, Chen Y, Yang M, Guo A et al. dbCoRC: a database of core transcriptional regulatory circuitries modeled by H3K27ac ChIP-seq signals. Nucleic Acids Res 2018 Jan 4;46(D1):D71-D77. PMID: 28977473
  • Kinslechner K, Schörghofer D, Schütz B, Vallianou M et al. Malignant Phenotypes in Metastatic Melanoma are Governed by SR-BI and its Association with Glycosylation and STAT5 Activation. Mol Cancer Res 2018 Jan;16(1):135-146. PMID: 28974560
  • Nepal MP, Andersen EJ, Neupane S, Benson BV et al. Comparative Genomics of Non-TNL Disease Resistance Genes from Six Plant Species. Genes (Basel) 2017 Sep 30;8(10). PMID: 28973974
  • Delpoux A, Lai CY, Hedrick SM, Doedens AL et al. FOXO1 opposition of CD8(+) T cell effector programming confers early memory properties and phenotypic diversity. Proc Natl Acad Sci U S A 2017 Oct 17;114(42):E8865-E8874. PMID: 28973925
  • Lin C, Jain S, Kim H, Bar-Joseph Z et al. Using neural networks for reducing the dimensions of single-cell RNA-Seq data. Nucleic Acids Res 2017 Sep 29;45(17):e156. PMID: 28973464
  • Peng S, Yang S, Bo X, Li F et al. paraGSEA: a scalable approach for large-scale gene expression profiling. Nucleic Acids Res 2017 Sep 29;45(17):e155. PMID: 28973463
  • Xu STranscriptome Profiling in Systems Vascular Medicine. Front Pharmacol 2017;8:563. PMID: 28970795
  • Duex JE, Swain KE, Dancik GM, Paucek RD et al. Functional Impact of Chromatin Remodeling Gene Mutations and Predictive Signature for Therapeutic Response in Bladder Cancer. Mol Cancer Res 2018 Jan;16(1):69-77. PMID: 28970362
  • Mayes K, Elsayed Z, Alhazmi A, Waters M et al. BPTF inhibits NK cell activity and the abundance of natural cytotoxicity receptor co-ligands. Oncotarget 2017 Sep 8;8(38):64344-64357. PMID: 28969075
  • Chen F, Shen C, Wang X, Wang H et al. Identification of genes and pathways in nasopharyngeal carcinoma by bioinformatics analysis. Oncotarget 2017 Sep 8;8(38):63738-63749. PMID: 28969025
  • Nieto-Jiménez C, Alcaraz-Sanabria A, Páez R, Pérez-Peña J et al. DNA-damage related genes and clinical outcome in hormone receptor positive breast cancer. Oncotarget 2017 Sep 8;8(38):62834-62841. PMID: 28968952
  • Kagohara LT, Stein-O'Brien GL, Kelley D, Flam E et al. Epigenetic regulation of gene expression in cancer: techniques, resources and analysis. Brief Funct Genomics 2018 Jan 1;17(1):49-63. PMID: 28968850
  • Xie K, Ye Y, Zeng Y, Gu J et al. Polymorphisms in genes related to epithelial-mesenchymal transition and risk of non-small cell lung cancer. Carcinogenesis 2017 Oct 1;38(10):1029-1035. PMID: 28968839
  • Zhang D, Li Z, Xu X, Zhou D et al. Deletions at SLC18A1 increased the risk of CRC and lower SLC18A1 expression associated with poor CRC outcome. Carcinogenesis 2017 Oct 26;38(11):1057-1062. PMID: 28968818
  • Chaterji S, Koo J, Li N, Meyer F et al. Federation in genomics pipelines: techniques and challenges. Brief Bioinform 2019 Jan 18;20(1):235-244. PMID: 28968781
  • Nueda MJ, Martorell-Marugan J, Martí C, Tarazona S et al. Identification and visualization of differential isoform expression in RNA-seq time series. Bioinformatics 2018 Feb 1;34(3):524-526. PMID: 28968682
  • Shi X, Wang X, Wang TL, Hilakivi-Clarke L et al. SparseIso: a novel Bayesian approach to identify alternatively spliced isoforms from RNA-seq data. Bioinformatics 2018 Jan 1;34(1):56-63. PMID: 28968634
  • Farahmand S, Foroughmand-Araabi MH, Goliaei S, Razaghi-Moghadam Z et al. CytoGTA: A cytoscape plugin for identifying discriminative subnetwork markers using a game theoretic approach. PLoS One 2017;12(10):e0185016. PMID: 28968407
  • Chhabra Y, Wong HY, Nikolajsen LF, Steinocher H et al. A growth hormone receptor SNP promotes lung cancer by impairment of SOCS2-mediated degradation. Oncogene 2018 Jan 25;37(4):489-501. PMID: 28967904
  • Kelso TWR, Porter DK, Amaral ML, Shokhirev MN et al. Chromatin accessibility underlies synthetic lethality of SWI/SNF subunits in ARID1A-mutant cancers. Elife 2017 Oct 2;6. PMID: 28967863
  • Player A, Abraham N, Burrell K, Bengone IO et al. Identification of candidate genes associated with triple negative breast cancer. Genes Cancer 2017 Jul;8(7-8):659-672. PMID: 28966727
  • Braun CJ, Stanciu M, Boutz PL, Patterson JC et al. Coordinated Splicing of Regulatory Detained Introns within Oncogenic Transcripts Creates an Exploitable Vulnerability in Malignant Glioma. Cancer Cell 2017 Oct 9;32(4):411-426.e11. PMID: 28966034
  • Mackay A, Burford A, Carvalho D, Izquierdo E et al. Integrated Molecular Meta-Analysis of 1,000 Pediatric High-Grade and Diffuse Intrinsic Pontine Glioma. Cancer Cell 2017 Oct 9;32(4):520-537.e5. PMID: 28966033
  • He J, Yan H, Cai H, Li X et al. Statistically controlled identification of differentially expressed genes in one-to-one cell line comparisons of the CMAP database for drug repositioning. J Transl Med 2017 Sep 29;15(1):198. PMID: 28962576
  • Collí-Dulá RC, Friedman MA, Hansen B, Denslow ND et al. Transcriptomics analysis and hormonal changes of male and female neonatal rats treated chronically with a low dose of acrylamide in their drinking water. Toxicol Rep 2016;3:414-426. PMID: 28959563
  • Hua L, Xia H, Zheng WY, An L et al. Gene Regulation Network Based Analysis Associated with TGF-βeta Stimulation in Lung Adenocarcinoma Cells. Iran J Biotechnol 2017 Mar;15(1):1-9. PMID: 28959347
  • Jain P, Sharma V, Dubey H, Singh PK et al. Identification of long non-coding RNA in rice lines resistant to Rice blast pathogen Maganaporthe oryzae. Bioinformation 2017;13(8):249-255. PMID: 28959093
  • Stumpf PS, Smith RCG, Lenz M, Schuppert A et al. Stem Cell Differentiation as a Non-Markov Stochastic Process. Cell Syst 2017 Sep 27;5(3):268-282.e7. PMID: 28957659
  • Ribone PA, Capella M, Arce AL, Chan RL et al. A uORF Represses the Transcription Factor AtHB1 in Aerial Tissues to Avoid a Deleterious Phenotype. Plant Physiol 2017 Nov;175(3):1238-1253. PMID: 28956754
  • Yashvardhini N, Bhattacharya S, Chaudhuri S, Sengupta DN et al. Molecular characterization of the 14-3-3 gene family in rice and its expression studies under abiotic stress. Planta 2018 Jan;247(1):229-253. PMID: 28956163
  • Erickson JR, Gearhart MD, Honson DD, Reid TA et al. A novel role for SALL4 during scar-free wound healing in axolotl. NPJ Regen Med 2016;1:16016-. PMID: 28955504
  • Ryaboshapkina M, Hammar M et al. Human hepatic gene expression signature of non-alcoholic fatty liver disease progression, a meta-analysis. Sci Rep 2017 Sep 27;7(1):12361. PMID: 28955037
  • Camell CD, Sander J, Spadaro O, Lee A et al. Inflammasome-driven catecholamine catabolism in macrophages blunts lipolysis during ageing. Nature 2017 Oct 5;550(7674):119-123. PMID: 28953873
  • Losa M, Latorre V, Andrabi M, Ladam F et al. A tissue-specific, Gata6-driven transcriptional program instructs remodeling of the mature arterial tree. Elife 2017 Sep 27;6. PMID: 28952437
  • van Beijnum JR, Nowak-Sliwinska P, van Berkel M, Wong TJ et al. A genomic screen for angiosuppressor genes in the tumor endothelium identifies a multifaceted angiostatic role for bromodomain containing 7 (BRD7). Angiogenesis 2017 Nov;20(4):641-654. PMID: 28951988
  • Shen H, Liang Z, Zheng S, Li X et al. Pathway and network-based analysis of genome-wide association studies and RT-PCR validation in polycystic ovary syndrome. Int J Mol Med 2017 Nov;40(5):1385-1396. PMID: 28949383
  • Li S, Sun X, Miao S, Liu J et al. Differential protein-coding gene and long noncoding RNA expression in smoking-related lung squamous cell carcinoma. Thorac Cancer 2017 Nov;8(6):672-681. PMID: 28949095
  • Wang Y, Li J, Guo S, Ouyang Y et al. Lin28B facilitates the progression and metastasis of pancreatic ductal adenocarcinoma. Oncotarget 2017 Sep 1;8(36):60414-60428. PMID: 28947981
  • Zheng Y, Long J, Wu L, Zhang H et al. Identification of hub genes involved in the development of hepatocellular carcinoma by transcriptome sequencing. Oncotarget 2017 Sep 1;8(36):60358-60367. PMID: 28947976
  • Whiston R, Finlay EK, McCabe MS, Cormican P et al. A dual targeted β-defensin and exome sequencing approach to identify, validate and functionally characterise genes associated with bull fertility. Sci Rep 2017 Sep 25;7(1):12287. PMID: 28947819
  • Schneider R, Tang L, Lampugnani ER, Barkwill S et al. Two Complementary Mechanisms Underpin Cell Wall Patterning during Xylem Vessel Development. Plant Cell 2017 Oct;29(10):2433-2449. PMID: 28947492
  • Yue C, Niu M, Shan QQ, Zhou T et al. High expression of Bruton's tyrosine kinase (BTK) is required for EGFR-induced NF-κB activation and predicts poor prognosis in human glioma. J Exp Clin Cancer Res 2017 Sep 25;36(1):132. PMID: 28946903
  • Buckley RM, Kortschak RD, Raison JM, Adelson DL et al. Similar Evolutionary Trajectories for Retrotransposon Accumulation in Mammals. Genome Biol Evol 2017 Sep 1;9(9):2336-2353. PMID: 28945883
  • Herzog VA, Reichholf B, Neumann T, Rescheneder P et al. Thiol-linked alkylation of RNA to assess expression dynamics. Nat Methods 2017 Dec;14(12):1198-1204. PMID: 28945705
  • Olp MD, Zhu N, Smith BC et al. Metabolically Derived Lysine Acylations and Neighboring Modifications Tune the Binding of the BET Bromodomains to Histone H4. Biochemistry 2017 Oct 17;56(41):5485-5495. PMID: 28945351
  • Lou S, Ji J, Cheng X, Ruan J et al. Oncogenic miR‑132 sustains proliferation and self‑renewal potential by inhibition of polypyrimidine tract‑binding protein 2 in glioblastoma cells. Mol Med Rep 2017 Nov;16(5):7221-7228. PMID: 28944929
  • Guo L, Zhang K, Bing Z et al. Application of a co‑expression network for the analysis of aggressive and non‑aggressive breast cancer cell lines to predict the clinical outcome of patients. Mol Med Rep 2017 Dec;16(6):7967-7978. PMID: 28944917
  • Koduru SV, Leberfinger AN, Ravnic DJ et al. Small Non-coding RNA Abundance in Adrenocortical Carcinoma: A Footprint of a Rare Cancer. J Genomics 2017;5:99-118. PMID: 28943972
  • Ni G, Liu G, Yu K et al. Identification of key genes associated with the effect of osmotic stimuli on intervertebral discs using microarray analysis. Oncol Lett 2017 Oct;14(4):4249-4255. PMID: 28943935
  • Liu Z, Huang J, Zhong Q, She Y et al. Network-based analysis of the molecular mechanisms of multiple myeloma and monoclonal gammopathy of undetermined significance. Oncol Lett 2017 Oct;14(4):4167-4175. PMID: 28943924
  • Liu D, Liu P, Cao L, Zhang Q et al. Screening the key genes of hepatocellular adenoma via microarray analysis of DNA expression and methylation profiles. Oncol Lett 2017 Oct;14(4):3975-3980. PMID: 28943905
  • Li Q, Yu M, Wang S et al. A Statistical Framework for Pathway and Gene Identification from Integrative Analysis. J Multivar Anal 2017 Apr;156:1-17. PMID: 28943673
  • Herazo-Maya JD, Sun J, Molyneaux PL, Li Q et al. Validation of a 52-gene risk profile for outcome prediction in patients with idiopathic pulmonary fibrosis: an international, multicentre, cohort study. Lancet Respir Med 2017 Nov;5(11):857-868. PMID: 28942086
  • Silagi ES, Schoepflin ZR, Seifert EL, Merceron C et al. Bicarbonate Recycling by HIF-1-Dependent Carbonic Anhydrase Isoforms 9 and 12 Is Critical in Maintaining Intracellular pH and Viability of Nucleus Pulposus Cells. J Bone Miner Res 2018 Feb;33(2):338-355. PMID: 28940640
  • Li W, Huang Q, Sun D, Zhang G et al. RDM1 gene overexpression represents a therapeutic target in papillary thyroid carcinoma. Endocr Connect 2017 Nov;6(8):700-707. PMID: 28939762
  • Himmelstein DS, Lizee A, Hessler C, Brueggeman L et al. Systematic integration of biomedical knowledge prioritizes drugs for repurposing. Elife 2017 Sep 22;6. PMID: 28936969
  • Domaszewska T, Scheuermann L, Hahnke K, Mollenkopf H et al. Concordant and discordant gene expression patterns in mouse strains identify best-fit animal model for human tuberculosis. Sci Rep 2017 Sep 21;7(1):12094. PMID: 28935874
  • Zhang Z, Xing Y et al. CLIP-seq analysis of multi-mapped reads discovers novel functional RNA regulatory sites in the human transcriptome. Nucleic Acids Res 2017 Sep 19;45(16):9260-9271. PMID: 28934506
  • Aref-Eshghi E, Schenkel LC, Lin H, Skinner C et al. The defining DNA methylation signature of Kabuki syndrome enables functional assessment of genetic variants of unknown clinical significance. Epigenetics 2017;12(11):923-933. PMID: 28933623
  • Ma Z, Gu S, Song M, Yan C et al. Long non-coding RNA SNHG17 is an unfavourable prognostic factor and promotes cell proliferation by epigenetically silencing P57 in colorectal cancer. Mol Biosyst 2017 Oct 24;13(11):2350-2361. PMID: 28933484
  • O'Connell GC, Chantler PD, Barr TL et al. Stroke-associated pattern of gene expression previously identified by machine-learning is diagnostically robust in an independent patient population. Genom Data 2017 Dec;14:47-52. PMID: 28932682
  • Luo W, Qin L, Li B, Liao Z et al. Inactivation of HMGCL promotes proliferation and metastasis of nasopharyngeal carcinoma by suppressing oxidative stress. Sci Rep 2017 Sep 20;7(1):11954. PMID: 28931870
  • Pirhaji L, Milani P, Dalin S, Wassie BT et al. Identifying therapeutic targets by combining transcriptional data with ordinal clinical measurements. Nat Commun 2017 Sep 20;8(1):623. PMID: 28931805
  • Bo L, Wei B, Wang Z, Kong D et al. Screening of Critical Genes and MicroRNAs in Blood Samples of Patients with Ruptured Intracranial Aneurysms by Bioinformatic Analysis of Gene Expression Data. Med Sci Monit 2017 Sep 20;23:4518-4525. PMID: 28930970
  • Krasemann S, Madore C, Cialic R, Baufeld C et al. The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Microglia in Neurodegenerative Diseases. Immunity 2017 Sep 19;47(3):566-581.e9. PMID: 28930663
  • Mowel WK, McCright SJ, Kotzin JJ, Collet MA et al. Group 1 Innate Lymphoid Cell Lineage Identity Is Determined by a cis-Regulatory Element Marked by a Long Non-coding RNA. Immunity 2017 Sep 19;47(3):435-449.e8. PMID: 28930659
  • Safikhani Z, Smirnov P, Freeman M, El-Hachem N et al. Revisiting inconsistency in large pharmacogenomic studies. F1000Res 2016;5:2333. PMID: 28928933
  • Zhang K, Gao J, Ni Y et al. Screening of candidate key genes associated with human osteosarcoma using bioinformatics analysis. Oncol Lett 2017 Sep;14(3):2887-2893. PMID: 28928828
  • Li D, Guo J, Wang S, Zhu L et al. Identification of novel methylated targets in colorectal cancer by microarray analysis and construction of co-expression network. Oncol Lett 2017 Sep;14(3):2643-2648. PMID: 28928808
  • Li SM, Chen CH, Chen YW, Yen YC et al. Upregulation of CISD2 augments ROS homeostasis and contributes to tumorigenesis and poor prognosis of lung adenocarcinoma. Sci Rep 2017 Sep 19;7(1):11893. PMID: 28928421
  • Zong S, Li W, Li H, Han S et al. Identification of hypoxia-regulated angiogenic genes in colorectal cancer. Biochem Biophys Res Commun 2017 Nov 4;493(1):461-467. PMID: 28928094
  • Zafeiris D, Vadakekolathu J, Wagner S, Pockley AG et al. Discovery and application of immune biomarkers for hematological malignancies. Expert Rev Mol Diagn 2017 Nov;17(11):983-1000. PMID: 28927305
  • Hung JY, Chiang SR, Liu KT, Tsai MJ et al. Overexpression and proliferation dependence of acyl-CoA thioesterase 11 and 13 in lung adenocarcinoma. Oncol Lett 2017 Sep;14(3):3647-3656. PMID: 28927126
  • Batmanov K, Wang J et al. Predicting Variation of DNA Shape Preferences in Protein-DNA Interaction in Cancer Cells with a New Biophysical Model. Genes (Basel) 2017 Sep 18;8(9). PMID: 28927002
  • Hadley D, Pan J, El-Sayed O, Aljabban J et al. Precision annotation of digital samples in NCBI's gene expression omnibus. Sci Data 2017 Sep 19;4:170125. PMID: 28925997
  • Wang S, Jin F, Fan W, Liu F et al. Gene expression meta-analysis in diffuse low-grade glioma and the corresponding histological subtypes. Sci Rep 2017 Sep 18;7(1):11741. PMID: 28924174
  • Berdasco M, Gómez A, Rubio MJ, Català-Mora J et al. DNA Methylomes Reveal Biological Networks Involved in Human Eye Development, Functions and Associated Disorders. Sci Rep 2017 Sep 18;7(1):11762. PMID: 28924151
  • Xu M, Zhang DF, Luo R, Wu Y et al. A systematic integrated analysis of brain expression profiles reveals YAP1 and other prioritized hub genes as important upstream regulators in Alzheimer's disease. Alzheimers Dement 2018 Feb;14(2):215-229. PMID: 28923553
  • Hardcastle TJMethods for discovering genomic loci exhibiting complex patterns of differential methylation. BMC Bioinformatics 2017 Sep 18;18(1):416. PMID: 28923005
  • Hu W, Zaveri A, Qiu H, Dumontier M et al. Cleaning by clustering: methodology for addressing data quality issues in biomedical metadata. BMC Bioinformatics 2017 Sep 18;18(1):415. PMID: 28923003
  • Vitale L, Piovesan A, Antonaros F, Strippoli P et al. A molecular view of the normal human thyroid structure and function reconstructed from its reference transcriptome map. BMC Genomics 2017 Sep 18;18(1):739. PMID: 28923001
  • Hu Y, Depaepe T, Smet D, Hoyerova K et al. ACCERBATIN, a small molecule at the intersection of auxin and reactive oxygen species homeostasis with herbicidal properties. J Exp Bot 2017 Jul 10;68(15):4185-4203. PMID: 28922768
  • Schmid A, Sailland J, Novak L, Baumlin N et al. Modulation of Wnt signaling is essential for the differentiation of ciliated epithelial cells in human airways. FEBS Lett 2017 Nov;591(21):3493-3506. PMID: 28921507
  • Koo JH, Kim TH, Park SY, Joo MS et al. Gα13 ablation reprograms myofibers to oxidative phenotype and enhances whole-body metabolism. J Clin Invest 2017 Oct 2;127(10):3845-3860. PMID: 28920922
  • Li B, Li Y, Qin ZS et al. Improving Hierarchical Models Using Historical Data with Applications in High-Throughput Genomics Data Analysis. Stat Biosci 2017 Jun;9(1):73-90. PMID: 28919931
  • Zhang M, Yan Z, Wang J, Yao X et al. Toll-like receptors 7 and 8 expression correlates with the expression of immune biomarkers and positively predicts the clinical outcome of patients with melanoma. Onco Targets Ther 2017;10:4339-4346. PMID: 28919783
  • Chen W, Zhao W, Yang A, Xu A et al. Integrated analysis of microRNA and gene expression profiles reveals a functional regulatory module associated with liver fibrosis. Gene 2017 Dec 15;636:87-95. PMID: 28919164
  • Chen J, Zaidi S, Rao S, Chen JS et al. Analysis of Genomes and Transcriptomes of Hepatocellular Carcinomas Identifies Mutations and Gene Expression Changes in the Transforming Growth Factor-β Pathway. Gastroenterology 2018 Jan;154(1):195-210. PMID: 28918914
  • Barrera-Ramirez J, Lavoie JR, Maganti HB, Stanford WL et al. Micro-RNA Profiling of Exosomes from Marrow-Derived Mesenchymal Stromal Cells in Patients with Acute Myeloid Leukemia: Implications in Leukemogenesis. Stem Cell Rev Rep 2017 Dec;13(6):817-825. PMID: 28918518
  • Liu F, Cheng Z, Li X, Li Y et al. A Novel Pak1/ATF2/miR-132 Signaling Axis Is Involved in the Hematogenous Metastasis of Gastric Cancer Cells. Mol Ther Nucleic Acids 2017 Sep 15;8:370-382. PMID: 28918037
  • Jiao G, Huang Q, Hu M, Liang X et al. Therapeutic Suppression of miR-4261 Attenuates Colorectal Cancer by Targeting MCC. Mol Ther Nucleic Acids 2017 Sep 15;8:36-45. PMID: 28918036
  • Wang FQ, Han Y, Yao W, Yu J et al. Prognostic relevance of tripartite motif containing 24 expression in colorectal cancer. Pathol Res Pract 2017 Oct;213(10):1271-1275. PMID: 28916426
  • Zytnicki Mmmquant: how to count multi-mapping reads? BMC Bioinformatics 2017 Sep 15;18(1):411. PMID: 28915787
  • Zhuang Y, Gong YJ, Zhong BF, Zhou Y et al. Bioinformatics method identifies potential biomarkers of dilated cardiomyopathy in a human induced pluripotent stem cell-derived cardiomyocyte model. Exp Ther Med 2017 Oct;14(4):2771-2778. PMID: 28912841
  • Srivastava R, Budak G, Dash S, Lachke SA et al. Transcriptome analysis of developing lens reveals abundance of novel transcripts and extensive splicing alterations. Sci Rep 2017 Sep 14;7(1):11572. PMID: 28912564
  • Guo P, Yu Y, Li H, Zhang D et al. TGF-â1-induced miR-503 controls cell growth and apoptosis by targeting PDCD4 in glioblastoma cells. Sci Rep 2017 Sep 14;7(1):11569. PMID: 28912531
  • Yu W, He B, Tan K et al. Identifying topologically associating domains and subdomains by Gaussian Mixture model And Proportion test. Nat Commun 2017 Sep 14;8(1):535. PMID: 28912419
  • Deng Y, Bao F, Yang Y, Ji X et al. Information transduction capacity reduces the uncertainties in annotation-free isoform discovery and quantification. Nucleic Acids Res 2017 Sep 6;45(15):e143. PMID: 28911101
  • Qin J, Song Q, Shi A, Li S et al. Genome-wide association mapping of resistance to Phytophthora sojae in a soybean [Glycine max (L.) Merr.] germplasm panel from maturity groups IV and V. PLoS One 2017;12(9):e0184613. PMID: 28910339
  • Chen J, Tresenrider A, Chia M, McSwiggen DT et al. Kinetochore inactivation by expression of a repressive mRNA. Elife 2017 Sep 14;6. PMID: 28906249
  • Song L, Lin HS, Gong JN, Han H et al. microRNA-451-modulated hnRNP A1 takes a part in granulocytic differentiation regulation and acute myeloid leukemia. Oncotarget 2017 Aug 15;8(33):55453-55466. PMID: 28903433
  • Bao Z, Lu L, Liu X, Guo B et al. Association between the functional polymorphism Ile31Phe in the AURKA gene and susceptibility of hepatocellular carcinoma in chronic hepatitis B virus carriers. Oncotarget 2017 Aug 15;8(33):54904-54912. PMID: 28903390
  • Shi Y, Yang S, Luo M, Zhang WD et al. Systematic analysis of coronary artery disease datasets revealed the potential biomarker and treatment target. Oncotarget 2017 Aug 15;8(33):54583-54591. PMID: 28903366
  • Lee M, Um H, Van Dyke MW et al. Identification and characterization of preferred DNA-binding sites for the Thermus thermophilus transcriptional regulator FadR. PLoS One 2017;12(9):e0184796. PMID: 28902898
  • Soler-Oliva ME, Guerrero-Martínez JA, Bachetti V, Reyes JC et al. Analysis of the relationship between coexpression domains and chromatin 3D organization. PLoS Comput Biol 2017 Sep;13(9):e1005708. PMID: 28902867
  • Okato A, Arai T, Yamada Y, Sugawara S et al. Dual Strands of Pre-miR-149 Inhibit Cancer Cell Migration and Invasion through Targeting FOXM1 in Renal Cell Carcinoma. Int J Mol Sci 2017 Sep 13;18(9). PMID: 28902136
  • Yin J, Weng C, Ma J, Chen F et al. MicroRNA‑1288 promotes cell proliferation of human glioblastoma cells by repressing ubiquitin carboxyl‑terminal hydrolase CYLD expression. Mol Med Rep 2017 Nov;16(5):6764-6770. PMID: 28901464
  • Li L, Lei Q, Zhang S, Kong L et al. Screening and identification of key biomarkers in hepatocellular carcinoma: Evidence from bioinformatic analysis. Oncol Rep 2017 Nov;38(5):2607-2618. PMID: 28901457
  • He Y, Ma J, Ye X et al. A support vector machine classifier for the prediction of osteosarcoma metastasis with high accuracy. Int J Mol Med 2017 Nov;40(5):1357-1364. PMID: 28901446
  • Roux BT, Heward JA, Donnelly LE, Jones SW et al. Catalog of Differentially Expressed Long Non-Coding RNA following Activation of Human and Mouse Innate Immune Response. Front Immunol 2017;8:1038. PMID: 28900427
  • Ohbayashi I, Lin CY, Shinohara N, Matsumura Y et al. Evidence for a Role of ANAC082 as a Ribosomal Stress Response Mediator Leading to Growth Defects and Developmental Alterations in Arabidopsis. Plant Cell 2017 Oct;29(10):2644-2660. PMID: 28899981
  • Labbé DP, Sweeney CJ, Brown M, Galbo P et al. TOP2A and EZH2 Provide Early Detection of an Aggressive Prostate Cancer Subgroup. Clin Cancer Res 2017 Nov 15;23(22):7072-7083. PMID: 28899973
  • Lan J, Li H, Luo X, Hu J et al. BRG1 promotes VEGF-A expression and angiogenesis in human colorectal cancer cells. Exp Cell Res 2017 Nov 15;360(2):236-242. PMID: 28899659
  • Zappia L, Phipson B, Oshlack A et al. Splatter: simulation of single-cell RNA sequencing data. Genome Biol 2017 Sep 12;18(1):174. PMID: 28899397
  • Zhang LL, Zhang ZN, Wu X, Jiang YJ et al. Transcriptomic meta-analysis identifies gene expression characteristics in various samples of HIV-infected patients with nonprogressive disease. J Transl Med 2017 Sep 12;15(1):191. PMID: 28899396
  • Chatterjee P, Roy D, Bhattacharyya M, Bandyopadhyay S et al. Biological networks in Parkinson's disease: an insight into the epigenetic mechanisms associated with this disease. BMC Genomics 2017 Sep 12;18(1):721. PMID: 28899360
  • Zhou J, Sears RL, Xing X, Zhang B et al. Tissue-specific DNA methylation is conserved across human, mouse, and rat, and driven by primary sequence conservation. BMC Genomics 2017 Sep 12;18(1):724. PMID: 28899353
  • Oliveira AC, Gomes-Neto JF, Barbosa CD, Granato A et al. Crucial role for T cell-intrinsic IL-18R-MyD88 signaling in cognate immune response to intracellular parasite infection. Elife 2017 Sep 12;6. PMID: 28895840
  • Zhang CJ, Du HJ et al. Screening key miRNAs for human hepatocellular carcinoma based on miRNA-mRNA functional synergistic network. Neoplasma 2017;64(6):816-823. PMID: 28895405
  • Roy S, Yun D, Madahian B, Berry MW et al. Navigating the Functional Landscape of Transcription Factors via Non-Negative Tensor Factorization Analysis of MEDLINE Abstracts. Front Bioeng Biotechnol 2017;5:48. PMID: 28894735
  • Wang J, Liu X, Yan C, Liu J et al. LEF1-AS1, a long-noncoding RNA, promotes malignancy in glioblastoma. Onco Targets Ther 2017;10:4251-4260. PMID: 28894380
  • An N, Yang X et al. Identification of prognostic genes through expression differentiation during metastatic process in lung adenocarcinoma. Sci Rep 2017 Sep 11;7(1):11119. PMID: 28894185
  • Nätt D, Barchiesi R, Murad J, Feng J et al. Perinatal Malnutrition Leads to Sexually Dimorphic Behavioral Responses with Associated Epigenetic Changes in the Mouse Brain. Sci Rep 2017 Sep 11;7(1):11082. PMID: 28894112
  • Zheng L, Kelly CJ, Battista KD, Schaefer R et al. Microbial-Derived Butyrate Promotes Epithelial Barrier Function through IL-10 Receptor-Dependent Repression of Claudin-2. J Immunol 2017 Oct 15;199(8):2976-2984. PMID: 28893958
  • Lawson R, Maret W, Hogstrand C et al. Expression of the ZIP/SLC39A transporters in β-cells: a systematic review and integration of multiple datasets. BMC Genomics 2017 Sep 11;18(1):719. PMID: 28893192
  • Zhang Q, Sun W, Sun BY, Xiao Y et al. The dynamic landscape of gene regulation during Bombyx mori oogenesis. BMC Genomics 2017 Sep 11;18(1):714. PMID: 28893182
  • Sanfilippo C, Cambria D, Longo A, Palumbo M et al. SERPING1 mRNA overexpression in monocytes from HIV+ patients. Inflamm Res 2017 Dec;66(12):1107-1116. PMID: 28889214
  • Tsujioka H, Kunieda T, Katou Y, Shirahige K et al. interleukin-11 induces and maintains progenitors of different cell lineages during Xenopus tadpole tail regeneration. Nat Commun 2017 Sep 8;8(1):495. PMID: 28887447
  • Sun XJ, Xu GL et al. Overexpression of Acyl-CoA Ligase 4 (ACSL4) in Patients with Hepatocellular Carcinoma and its Prognosis. Med Sci Monit 2017 Sep 9;23:4343-4350. PMID: 28887439
  • Jeong Y, Jun Y, Kim J, Park H et al. Integrative analysis of DNA methylation and mRNA expression during differentiation of umbilical cord blood derived mononuclear cells to endothelial cells. Gene 2017 Nov 30;635:48-60. PMID: 28887159
  • Rafehi H, Kaspi A, Ziemann M, Okabe J et al. Systems approach to the pharmacological actions of HDAC inhibitors reveals EP300 activities and convergent mechanisms of regulation in diabetes. Epigenetics 2017;12(11):991-1003. PMID: 28886276
  • Mootha VV, Hansen B, Rong Z, Mammen PP et al. Fuchs' Endothelial Corneal Dystrophy and RNA Foci in Patients With Myotonic Dystrophy. Invest Ophthalmol Vis Sci 2017 Sep 1;58(11):4579-4585. PMID: 28886202
  • Gui B, Hsieh CL, Kantoff PW, Kibel AS et al. Androgen receptor-mediated downregulation of microRNA-221 and -222 in castration-resistant prostate cancer. PLoS One 2017;12(9):e0184166. PMID: 28886115
  • Labhsetwar P, Melo MCR, Cole JA, Luthey-Schulten Z et al. Population FBA predicts metabolic phenotypes in yeast. PLoS Comput Biol 2017 Sep;13(9):e1005728. PMID: 28886026
  • Martin-Trujillo A, Vidal E, Monteagudo-Sánchez A, Sanchez-Delgado M et al. Copy number rather than epigenetic alterations are the major dictator of imprinted methylation in tumors. Nat Commun 2017 Sep 7;8(1):467. PMID: 28883545
  • Moreira de Mello JC, Fernandes GR, Vibranovski MD, Pereira LV et al. Early X chromosome inactivation during human preimplantation development revealed by single-cell RNA-sequencing. Sci Rep 2017 Sep 7;7(1):10794. PMID: 28883481
  • Yan R, Shuai H, Luo X, Wang X et al. The clinical and prognostic value of CXCL8 in cervical carcinoma patients: immunohistochemical analysis. Biosci Rep 2017 Oct 31;37(5). PMID: 28883082
  • Lapetina DL, Ptak C, Roesner UK, Wozniak RW et al. Yeast silencing factor Sir4 and a subset of nucleoporins form a complex distinct from nuclear pore complexes. J Cell Biol 2017 Oct 2;216(10):3145-3159. PMID: 28883038
  • Zhang Y, Wu K, Su W, Zhang DF et al. Increased GSNOR Expression during Aging Impairs Cognitive Function and Decreases S-Nitrosation of CaMKIIα. J Neurosci 2017 Oct 4;37(40):9741-9758. PMID: 28883020
  • Oliveira ÉA, Lima DS, Cardozo LE, Souza GF et al. Toxicogenomic and bioinformatics platforms to identify key molecular mechanisms of a curcumin-analogue DM-1 toxicity in melanoma cells. Pharmacol Res 2017 Nov;125(Pt B):178-187. PMID: 28882690
  • Zhang L, Ma S, Wang H, Su H et al. Identification of pathogenic genes related to rheumatoid arthritis through integrated analysis of DNA methylation and gene expression profiling. Gene 2017 Nov 15;634:62-67. PMID: 28882568
  • Rieber L, Mahony S et al. miniMDS: 3D structural inference from high-resolution Hi-C data. Bioinformatics 2017 Jul 15;33(14):i261-i266. PMID: 28882003
  • Zakeri M, Srivastava A, Almodaresi F, Patro R et al. Improved data-driven likelihood factorizations for transcript abundance estimation. Bioinformatics 2017 Jul 15;33(14):i142-i151. PMID: 28881996
  • Boissard F, Tosolini M, Ligat L, Quillet-Mary A et al. Nurse-like cells promote CLL survival through LFA-3/CD2 interactions. Oncotarget 2017 Aug 8;8(32):52225-52236. PMID: 28881725
  • Zhang C, Wang X, Li X, Zhao N et al. The landscape of DNA methylation-mediated regulation of long non-coding RNAs in breast cancer. Oncotarget 2017 Aug 1;8(31):51134-51150. PMID: 28881636
  • Zuidscherwoude M, Worah K, van der Schaaf A, Buschow SI et al. Differential expression of tetraspanin superfamily members in dendritic cell subsets. PLoS One 2017;12(9):e0184317. PMID: 28880937
  • Bolte C, Flood HM, Ren X, Jagannathan S et al. FOXF1 transcription factor promotes lung regeneration after partial pneumonectomy. Sci Rep 2017 Sep 6;7(1):10690. PMID: 28878348
  • Khanal T, Choi K, Leung YK, Wang J et al. Loss of NR2E3 represses AHR by LSD1 reprogramming, is associated with poor prognosis in liver cancer. Sci Rep 2017 Sep 6;7(1):10662. PMID: 28878246
  • Liu R, Lee J, Kim BS, Wang Q et al. Tead1 is required for maintaining adult cardiomyocyte function, and its loss results in lethal dilated cardiomyopathy. JCI Insight 2017 Sep 7;2(17). PMID: 28878117
  • Bandyopadhyay B, Chanda V, Wang Y et al. xSyn: A Software Tool for Identifying Sophisticated 3-Way Interactions From Cancer Expression Data. Cancer Inform 2017;16:1176935117728516. PMID: 28874883
  • Ahsan KB, Masuda A, Rahman MA, Takeda JI et al. SRSF1 suppresses selection of intron-distal 5' splice site of DOK7 intron 4 to generate functional full-length Dok-7 protein. Sci Rep 2017 Sep 5;7(1):10446. PMID: 28874828
  • Gao N, Lu G, Lercher MJ, Chen WH et al. Selection for energy efficiency drives strand-biased gene distribution in prokaryotes. Sci Rep 2017 Sep 5;7(1):10572. PMID: 28874819
  • Chen TW, Gan RC, Fang YK, Chien KY et al. FunctionAnnotator, a versatile and efficient web tool for non-model organism annotation. Sci Rep 2017 Sep 5;7(1):10430. PMID: 28874813
  • Woods L, Perez-Garcia V, Kieckbusch J, Wang X et al. Decidualisation and placentation defects are a major cause of age-related reproductive decline. Nat Commun 2017 Sep 5;8(1):352. PMID: 28874785
  • Wang M, Zhang P, Zhu Y, Kong X et al. Assessing the activity of nonsense-mediated mRNA decay in lung cancer. BMC Med Genomics 2017 Sep 6;10(1):55. PMID: 28874147
  • Wang X, Li W, Zhang Y, Feng Y et al. Chronic obstructive pulmonary disease candidate gene prioritization based on metabolic networks and functional information. PLoS One 2017;12(9):e0184299. PMID: 28873096
  • Yoshizawa A, Bi K, Keskin DB, Zhang G et al. TCR-pMHC encounter differentially regulates transcriptomes of tissue-resident CD8 T cells. Eur J Immunol 2018 Jan;48(1):128-150. PMID: 28872670
  • Seuter S, Neme A, Carlberg C et al. ETS transcription factor family member GABPA contributes to vitamin D receptor target gene regulation. J Steroid Biochem Mol Biol 2018 Mar;177:46-52. PMID: 28870774
  • Cardoso V, Chesné J, Ribeiro H, García-Cassani B et al. Neuronal regulation of type 2 innate lymphoid cells via neuromedin U. Nature 2017 Sep 14;549(7671):277-281. PMID: 28869974
  • Zhong Y, Yang J, Xu WW, Wang Y et al. KCTD12 promotes tumorigenesis by facilitating CDC25B/CDK1/Aurora A-dependent G2/M transition. Oncogene 2017 Nov 2;36(44):6177-6189. PMID: 28869606
  • Perraudeau F, Risso D, Street K, Purdom E et al. Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference. F1000Res 2017;6:1158. PMID: 28868140
  • Huang LY, Lin CW, Lee RH, Chiang CY et al. Integrating Early Transcriptomic Responses to Rhizotoxins in Rice (Oryza sativa. L.) Reveals Key Regulators and a Potential Early Biomarker of Cadmium Toxicity. Front Plant Sci 2017;8:1432. PMID: 28868059
  • Wang X, Freire Valls A, Schermann G, Shen Y et al. YAP/TAZ Orchestrate VEGF Signaling during Developmental Angiogenesis. Dev Cell 2017 Sep 11;42(5):462-478.e7. PMID: 28867486
  • Zhu S, Zhang X, Weichert-Leahey N, Dong Z et al. LMO1 Synergizes with MYCN to Promote Neuroblastoma Initiation and Metastasis. Cancer Cell 2017 Sep 11;32(3):310-323.e5. PMID: 28867147
  • Ezer D, Shepherd SJK, Brestovitsky A, Dickinson P et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol 2017 Oct;175(2):628-640. PMID: 28864470
  • Zelinger L, Karakülah G, Chaitankar V, Kim JW et al. Regulation of Noncoding Transcriptome in Developing Photoreceptors by Rod Differentiation Factor NRL. Invest Ophthalmol Vis Sci 2017 Sep 1;58(11):4422-4435. PMID: 28863214
  • Matsushita M, Ozawa K, Suzuki T, Nakamura M et al. CXorf48 is a potential therapeutic target for achieving treatment-free remission in CML patients. Blood Cancer J 2017 Sep 1;7(9):e601. PMID: 28862699
  • Cabezas-Cruz A, Espinosa PJ, Obregón DA, Alberdi P et al. Ixodes scapularis Tick Cells Control Anaplasma phagocytophilum Infection by Increasing the Synthesis of Phosphoenolpyruvate from Tyrosine. Front Cell Infect Microbiol 2017;7:375. PMID: 28861402
  • Xu X, Cai N, Zhi T, Bao Z et al. MicroRNA-1179 inhibits glioblastoma cell proliferation and cell cycle progression via directly targeting E2F transcription factor 5. Am J Cancer Res 2017;7(8):1680-1692. PMID: 28861324
  • Liu F, Wu L, Wang A, Xu Y et al. MicroRNA-138 attenuates epithelial-to-mesenchymal transition by targeting SOX4 in clear cell renal cell carcinoma. Am J Transl Res 2017;9(8):3611-3622. PMID: 28861152
  • Choi H, Ignacio RMC, Lee ES, Roby KF et al. Localization of Serum Amyloid A3 in the Mouse Ovary. Immune Netw 2017 Aug;17(4):261-268. PMID: 28860955
  • Choi JW, Kim YH, Oh JW et al. Comparative Analyses of Signature Genes in Acute Rejection and Operational Tolerance. Immune Netw 2017 Aug;17(4):237-249. PMID: 28860953
  • Xie ZC, Dang YW, Wei DM, Chen P et al. Clinical significance and prospective molecular mechanism of MALAT1 in pancreatic cancer exploration: a comprehensive study based on the GeneChip, GEO, Oncomine, and TCGA databases. Onco Targets Ther 2017;10:3991-4005. PMID: 28860807
  • Lee SH, Kwon JY, Kim SY, Jung K et al. Interferon-gamma regulates inflammatory cell death by targeting necroptosis in experimental autoimmune arthritis. Sci Rep 2017 Aug 31;7(1):10133. PMID: 28860618
  • Kim K, Ryu D, Dongiovanni P, Ozcan L et al. Degradation of PHLPP2 by KCTD17, via a Glucagon-Dependent Pathway, Promotes Hepatic Steatosis. Gastroenterology 2017 Dec;153(6):1568-1580.e10. PMID: 28859855
  • Lin X, Su J, Chen K, Rodriguez B et al. Sparse conserved under-methylated CpGs are associated with high-order chromatin structure. Genome Biol 2017 Aug 31;18(1):163. PMID: 28859663
  • Chen Y, Yu X, Xu Y, Shen H et al. Identification of dysregulated lncRNAs profiling and metastasis-associated lncRNAs in colorectal cancer by genome-wide analysis. Cancer Med 2017 Oct;6(10):2321-2330. PMID: 28857495
  • Liu C, Gu X, Jiang Z et al. Identification of novel targets for multiple myeloma through integrative approach with Monte Carlo cross-validation analysis. J Bone Oncol 2017 Sep;8:8-12. PMID: 28856086
  • Altmäe S, Koel M, Võsa U, Adler P et al. Meta-signature of human endometrial receptivity: a meta-analysis and validation study of transcriptomic biomarkers. Sci Rep 2017 Aug 30;7(1):10077. PMID: 28855728
  • Wei B, Liang J, Hu J, Mi Y et al. TRAF2 is a Valuable Prognostic Biomarker in Patients with Prostate Cancer. Med Sci Monit 2017 Aug 31;23:4192-4204. PMID: 28855498
  • Adams CM, Mitra R, Gong JZ, Eischen CM et al. Non-Hodgkin and Hodgkin Lymphomas Select for Overexpression of BCLW. Clin Cancer Res 2017 Nov 15;23(22):7119-7129. PMID: 28855351
  • Zhang Z, Jones AE, Wu W, Kim J et al. Role of remodeling and spacing factor 1 in histone H2A ubiquitination-mediated gene silencing. Proc Natl Acad Sci U S A 2017 Sep 19;114(38):E7949-E7958. PMID: 28855339
  • Yang T, Zhang F, Yardımcı GG, Song F et al. HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient. Genome Res 2017 Nov;27(11):1939-1949. PMID: 28855260
  • Kalender Atak Z, Imrichova H, Svetlichnyy D, Hulselmans G et al. Identification of cis-regulatory mutations generating de novo edges in personalized cancer gene regulatory networks. Genome Med 2017 Aug 30;9(1):80. PMID: 28854983
  • Giess A, Jonckheere V, Ndah E, Chyżyńska K et al. Ribosome signatures aid bacterial translation initiation site identification. BMC Biol 2017 Aug 30;15(1):76. PMID: 28854918
  • Young SL, Savaris RF, Lessey BA, Sharkey AM et al. Effect of randomized serum progesterone concentration on secretory endometrial histologic development and gene expression. Hum Reprod 2017 Sep 1;32(9):1903-1914. PMID: 28854727
  • Luis Villanueva-Cañas J, Ruiz-Orera J, Agea MI, Gallo M et al. New Genes and Functional Innovation in Mammals. Genome Biol Evol 2017 Jul 1;9(7):1886-1900. PMID: 28854603
  • Jain D, Meydan C, Lange J, Claeys Bouuaert C et al. rahu is a mutant allele of Dnmt3c, encoding a DNA methyltransferase homolog required for meiosis and transposon repression in the mouse male germline. PLoS Genet 2017 Aug;13(8):e1006964. PMID: 28854222
  • Shen S, Wang G, Shi Q, Zhang R et al. Seven-CpG-based prognostic signature coupled with gene expression predicts survival of oral squamous cell carcinoma. Clin Epigenetics 2017;9:88. PMID: 28852427
  • Sato N, Sudo K, Mori M, Imai C et al. Early gestational maternal low-protein diet diminishes hepatic response to fasting in young adult male mice. Sci Rep 2017 Aug 29;7(1):9812. PMID: 28852200
  • Chiou J, Su CY, Jan YH, Yang CJ et al. Decrease of FSTL1-BMP4-Smad signaling predicts poor prognosis in lung adenocarcinoma but not in squamous cell carcinoma. Sci Rep 2017 Aug 29;7(1):9830. PMID: 28852126
  • Riddell N, Crewther SG et al. Novel evidence for complement system activation in chick myopia and hyperopia models: a meta-analysis of transcriptome datasets. Sci Rep 2017 Aug 29;7(1):9719. PMID: 28852117
  • Zhang Y, Zhan Y, Han N, Kou Y et al. Analysis of temporal expression profiles after sciatic nerve injury by bioinformatic method. Sci Rep 2017 Aug 29;7(1):9818. PMID: 28852045
  • Matondo A, Jo YH, Shahid M, Choi TG et al. The Prognostic 97 Chemoresponse Gene Signature in Ovarian Cancer. Sci Rep 2017 Aug 29;7(1):9689. PMID: 28851888
  • Donoghue LJ, Livraghi-Butrico A, McFadden KM, Thomas JM et al. Identification of trans Protein QTL for Secreted Airway Mucins in Mice and a Causal Role for Bpifb1. Genetics 2017 Oct;207(2):801-812. PMID: 28851744
  • Ono H, Ogasawara O, Okubo K, Bono H et al. RefEx, a reference gene expression dataset as a web tool for the functional analysis of genes. Sci Data 2017 Aug 29;4:170105. PMID: 28850115
  • Lin GN, Corominas R, Nam HJ, Urresti J et al. Comprehensive Analyses of Tissue-Specific Networks with Implications to Psychiatric Diseases. Methods Mol Biol 2017;1613:371-402. PMID: 28849569
  • Kuznetsov VAMathematical Modeling of Avidity Distribution and Estimating General Binding Properties of Transcription Factors from Genome-Wide Binding Profiles. Methods Mol Biol 2017;1613:193-276. PMID: 28849563
  • Li Y, Du W, Han J, Ge J et al. LAMP3 promotes the invasion of osteosarcoma cells via SPP1 signaling. Mol Med Rep 2017 Nov;16(5):5947-5953. PMID: 28849219
  • Tian K, Qi W, Yan Q, Zhang F et al. Combined analysis of ChIP-seq and gene microarray datasets identify the E2-mediated genes in ERα-dependent manner in osteosarcoma. Oncol Rep 2017 Oct;38(4):2335-2342. PMID: 28849169
  • Zhou D, Xie M, He B, Gao Y et al. Microarray data re-annotation reveals specific lncRNAs and their potential functions in non-small cell lung cancer subtypes. Mol Med Rep 2017 Oct;16(4):5129-5136. PMID: 28849055
  • Bai JF, Wang YK, Wang P, Duan WJ et al. Uncovering Male Fertility Transition Responsive miRNA in a Wheat Photo-Thermosensitive Genic Male Sterile Line by Deep Sequencing and Degradome Analysis. Front Plant Sci 2017;8:1370. PMID: 28848574
  • Cirnigliaro M, Barbagallo C, Gulisano M, Domini CN et al. Expression and Regulatory Network Analysis of miR-140-3p, a New Potential Serum Biomarker for Autism Spectrum Disorder. Front Mol Neurosci 2017;10:250. PMID: 28848387
  • Cho J, Paszkowski J et al. Regulation of rice root development by a retrotransposon acting as a microRNA sponge. Elife 2017 Aug 26;6. PMID: 28847366
  • Höwing T, Dann M, Hoefle C, Hückelhoven R et al. Involvement of Arabidopsis thaliana endoplasmic reticulum KDEL-tailed cysteine endopeptidase 1 (AtCEP1) in powdery mildew-induced and AtCPR5-controlled cell death. PLoS One 2017;12(8):e0183870. PMID: 28846731
  • Habib N, Avraham-Davidi I, Basu A, Burks T et al. Massively parallel single-nucleus RNA-seq with DroNc-seq. Nat Methods 2017 Oct;14(10):955-958. PMID: 28846088
  • Wang S, Xia P, Chen Y, Qu Y et al. Regulatory Innate Lymphoid Cells Control Innate Intestinal Inflammation. Cell 2017 Sep 21;171(1):201-216.e18. PMID: 28844693
  • Zhao B, Erwin A, Xue B et al. How many differentially expressed genes: A perspective from the comparison of genotypic and phenotypic distances. Genomics 2018 Jan;110(1):67-73. PMID: 28843784
  • Zhu H, Chen A, Li S, Tao X et al. Predictive role of galectin-1 and integrin α5β1 in cisplatin-based neoadjuvant chemotherapy of bulky squamous cervical cancer. Biosci Rep 2017 Oct 31;37(5). PMID: 28842515
  • Sbarrato T, Spriggs RV, Wilson L, Jones C et al. An improved analysis methodology for translational profiling by microarray. RNA 2017 Nov;23(11):1601-1613. PMID: 28842509
  • Korecka JA, Moloney EB, Eggers R, Hobo B et al. Repulsive Guidance Molecule a (RGMa) Induces Neuropathological and Behavioral Changes That Closely Resemble Parkinson's Disease. J Neurosci 2017 Sep 27;37(39):9361-9379. PMID: 28842419
  • Lee DJ, Lee HM, Kim JH, Park IS et al. Heavy alcohol drinking downregulates ALDH2 gene expression but heavy smoking up-regulates SOD2 gene expression in head and neck squamous cell carcinoma. World J Surg Oncol 2017 Aug 25;15(1):163. PMID: 28841898
  • Taguchi YHTensor decomposition-based unsupervised feature extraction applied to matrix products for multi-view data processing. PLoS One 2017;12(8):e0183933. PMID: 28841719
  • Nwosu ZC, Megger DA, Hammad S, Sitek B et al. Identification of the Consistently Altered Metabolic Targets in Human Hepatocellular Carcinoma. Cell Mol Gastroenterol Hepatol 2017 Sep;4(2):303-323.e1. PMID: 28840186
  • Soibam BSuper-lncRNAs: identification of lncRNAs that target super-enhancers via RNA:DNA:DNA triplex formation. RNA 2017 Nov;23(11):1729-1742. PMID: 28839111
  • Eppig JTMouse Genome Informatics (MGI) Resource: Genetic, Genomic, and Biological Knowledgebase for the Laboratory Mouse. ILAR J 2017 Jul 1;58(1):17-41. PMID: 28838066
  • Shin J, Song SY, Ahn HS, An BC et al. Integrative analysis for the discovery of lung cancer serological markers and validation by MRM-MS. PLoS One 2017;12(8):e0183896. PMID: 28837649
  • Makhanova N, Morgan AP, Kayashima Y, Makhanov A et al. Genetic architecture of atherosclerosis dissected by QTL analyses in three F2 intercrosses of apolipoprotein E-null mice on C57BL6/J, DBA/2J and 129S6/SvEvTac backgrounds. PLoS One 2017;12(8):e0182882. PMID: 28837567
  • Ubhe S, Rawat M, Verma S, Anamika K et al. Genome-wide identification of novel intergenic enhancer-like elements: implications in the regulation of transcription in Plasmodium falciparum. BMC Genomics 2017 Aug 23;18(1):656. PMID: 28836940
  • Guo Y, Townsend R, Tsoi LC et al. Simple Analysis of Deposited Gene Expression Datasets for the Non-Bioinformatician: How to Use GEO for Fibrosis Research. Methods Mol Biol 2017;1627:511-525. PMID: 28836221
  • Mei LL, Wang WJ, Qiu YT, Xie XF et al. miR-145-5p Suppresses Tumor Cell Migration, Invasion and Epithelial to Mesenchymal Transition by Regulating the Sp1/NF-κB Signaling Pathway in Esophageal Squamous Cell Carcinoma. Int J Mol Sci 2017 Aug 23;18(9). PMID: 28832500
  • Kwon SJ, Kwon OS, Kim KT, Go YH et al. Role of MEK partner-1 in cancer stemness through MEK/ERK pathway in cancerous neural stem cells, expressing EGFRviii. Mol Cancer 2017 Aug 22;16(1):140. PMID: 28830458
  • Xie XP, Xie YF, Wang HQ et al. A regulation probability model-based meta-analysis of multiple transcriptomics data sets for cancer biomarker identification. BMC Bioinformatics 2017 Aug 23;18(1):375. PMID: 28830341
  • Willis SD, Hossian AKMN, Evans N, Hickman MJ et al. Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response. J Vis Exp 2017 Aug 10;(126). PMID: 28829420
  • Monti R, Barozzi I, Osterwalder M, Lee E et al. Limb-Enhancer Genie: An accessible resource of accurate enhancer predictions in the developing limb. PLoS Comput Biol 2017 Aug;13(8):e1005720. PMID: 28827824
  • Srinivasan S, Severa M, Rizzo F, Menon R et al. Transcriptional dysregulation of Interferome in experimental and human Multiple Sclerosis. Sci Rep 2017 Aug 21;7(1):8981. PMID: 28827704
  • Taskesen E, Mishra A, van der Sluis S, Ferrari R et al. Susceptible genes and disease mechanisms identified in frontotemporal dementia and frontotemporal dementia with Amyotrophic Lateral Sclerosis by DNA-methylation and GWAS. Sci Rep 2017 Aug 21;7(1):8899. PMID: 28827549
  • Liu S, Kumari S, Hu Q, Senapati D et al. A comprehensive analysis of coregulator recruitment, androgen receptor function and gene expression in prostate cancer. Elife 2017 Aug 18;6. PMID: 28826481
  • Pouyet F, Mouchiroud D, Duret L, Sémon M et al. Recombination, meiotic expression and human codon usage. Elife 2017 Aug 15;6. PMID: 28826480
  • Borisov N, Suntsova M, Sorokin M, Garazha A et al. Data aggregation at the level of molecular pathways improves stability of experimental transcriptomic and proteomic data. Cell Cycle 2017 Oct 2;16(19):1810-1823. PMID: 28825872
  • Razooky BS, Obermayer B, O'May JB, Tarakhovsky A et al. Viral Infection Identifies Micropeptides Differentially Regulated in smORF-Containing lncRNAs. Genes (Basel) 2017 Aug 21;8(8). PMID: 28825667
  • Li CW, Su MH, Chen BS et al. Investigation of the Cross-talk Mechanism in Caco-2 Cells during Clostridium difficile Infection through Genetic-and-Epigenetic Interspecies Networks: Big Data Mining and Genome-Wide Identification. Front Immunol 2017;8:901. PMID: 28824629
  • Tang XL, Ding BX, Hua Y, Chen H et al. HOXC10 Promotes the Metastasis of Human Lung Adenocarcinoma and Indicates Poor Survival Outcome. Front Physiol 2017;8:557. PMID: 28824453
  • Vitte J, Gao F, Coppola G, Judkins AR et al. Timing of Smarcb1 and Nf2 inactivation determines schwannoma versus rhabdoid tumor development. Nat Commun 2017 Aug 21;8(1):300. PMID: 28824165
  • Amar D, Shamir R, Yekutieli D et al. Extracting replicable associations across multiple studies: Empirical Bayes algorithms for controlling the false discovery rate. PLoS Comput Biol 2017 Aug;13(8):e1005700. PMID: 28821015
  • Zou C, Li S, Deng L, Guan Y et al. Transcriptome Analysis Reveals Long Intergenic Noncoding RNAs Contributed to Growth and Meat Quality Differences between Yorkshire and Wannanhua Pig. Genes (Basel) 2017 Aug 18;8(8). PMID: 28820450
  • Yamada S, Kim S, Tischfield SE, Jasin M et al. Genomic and chromatin features shaping meiotic double-strand break formation and repair in mice. Cell Cycle 2017 Oct 18;16(20):1870-1884. PMID: 28820351
  • Shahjaman M, Kumar N, Mollah MMH, Ahmed MS et al. Robust Significance Analysis of Microarrays by Minimum β-Divergence Method. Biomed Res Int 2017;2017:5310198. PMID: 28819626
  • Lei Q, Liu T, Gao F, Xie H et al. Microvesicles as Potential Biomarkers for the Identification of Senescence in Human Mesenchymal Stem Cells. Theranostics 2017;7(10):2673-2689. PMID: 28819455
  • Shved N, Warsow G, Eichinger F, Hoogewijs D et al. Transcriptome-based network analysis reveals renal cell type-specific dysregulation of hypoxia-associated transcripts. Sci Rep 2017 Aug 17;7(1):8576. PMID: 28819298
  • Ferrero G, Miano V, Beccuti M, Balbo G et al. Dissecting the genomic activity of a transcriptional regulator by the integrative analysis of omics data. Sci Rep 2017 Aug 17;7(1):8564. PMID: 28819152
  • Shah NR, Noll BD, Stevens CB, Brennan MT et al. Biosemantics guided gene expression profiling of Sjögren's syndrome: a comparative analysis with systemic lupus erythematosus and rheumatoid arthritis. Arthritis Res Ther 2017 Aug 17;19(1):192. PMID: 28818099
  • Robaina-Estévez S, Daloso DM, Zhang Y, Fernie AR et al. Resolving the central metabolism of Arabidopsis guard cells. Sci Rep 2017 Aug 16;7(1):8307. PMID: 28814793
  • Galivo F, Benedetti E, Wang Y, Pelz C et al. Reprogramming human gallbladder cells into insulin-producing β-like cells. PLoS One 2017;12(8):e0181812. PMID: 28813430
  • Kodama M, Kodama T, Newberg JY, Katayama H et al. In vivo loss-of-function screens identify KPNB1 as a new druggable oncogene in epithelial ovarian cancer. Proc Natl Acad Sci U S A 2017 Aug 29;114(35):E7301-E7310. PMID: 28811376
  • Kurthkoti K, Amin H, Marakalala MJ, Ghanny S et al. The Capacity of Mycobacterium tuberculosis To Survive Iron Starvation Might Enable It To Persist in Iron-Deprived Microenvironments of Human Granulomas. mBio 2017 Aug 15;8(4). PMID: 28811344
  • Robertson AG, Shih J, Yau C, Gibb EA et al. Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma. Cancer Cell 2017 Aug 14;32(2):204-220.e15. PMID: 28810145
  • Martina F, Beccuti M, Balbo G, Cordero F et al. Peculiar Genes Selection: A new features selection method to improve classification performances in imbalanced data sets. PLoS One 2017;12(8):e0177475. PMID: 28806759
  • MacLennan M, García-Cañadas M, Reichmann J, Khazina E et al. Mobilization of LINE-1 retrotransposons is restricted by Tex19.1 in mouse embryonic stem cells. Elife 2017 Aug 14;6. PMID: 28806172
  • Li W, Zhang Z, Liu X, Cheng X et al. The FOXN3-NEAT1-SIN3A repressor complex promotes progression of hormonally responsive breast cancer. J Clin Invest 2017 Sep 1;127(9):3421-3440. PMID: 28805661
  • Liu W, Li L, Ye H, Chen H et al. From Saccharomyces cerevisiae to human: The important gene co-expression modules. Biomed Rep 2017 Aug;7(2):153-158. PMID: 28804628
  • Postler TS, Pantry SN, Desrosiers RC, Ghosh S et al. Identification and characterization of a long non-coding RNA up-regulated during HIV-1 infection. Virology 2017 Nov;511:30-39. PMID: 28803142
  • Saki M, Makino H, Javvadi P, Tomimatsu N et al. EGFR Mutations Compromise Hypoxia-Associated Radiation Resistance through Impaired Replication Fork-Associated DNA Damage Repair. Mol Cancer Res 2017 Nov;15(11):1503-1516. PMID: 28801308
  • Zhang W, Liu Y, Zhang M, Zhu C et al. Quantitative reproducibility analysis for identifying reproducible targets from high-throughput experiments. BMC Syst Biol 2017 Aug 11;11(1):73. PMID: 28800759
  • Michael IP, Orebrand M, Lima M, Pereira B et al. Angiopoietin-1 deficiency increases tumor metastasis in mice. BMC Cancer 2017 Aug 11;17(1):539. PMID: 28800750
  • Mei LL, Qiu YT, Huang MB, Wang WJ et al. MiR-99a suppresses proliferation, migration and invasion of esophageal squamous cell carcinoma cells through inhibiting the IGF1R signaling pathway. Cancer Biomark 2017 Dec 6;20(4):527-537. PMID: 28800315
  • Han Z, Johnson T, Zhang J, Zhang X et al. Functional Virtual Flow Cytometry: A Visual Analytic Approach for Characterizing Single-Cell Gene Expression Patterns. Biomed Res Int 2017;2017:3035481. PMID: 28798928
  • Antanavičiūtė I, Mikalayeva V, Ceslevičienė I, Milašiūtė G et al. Transcriptional hallmarks of cancer cell lines reveal an emerging role of branched chain amino acid catabolism. Sci Rep 2017 Aug 10;7(1):7820. PMID: 28798381
  • Mishra B, Sun Y, Ahmed H, Liu X et al. Global temporal dynamic landscape of pathogen-mediated subversion of Arabidopsis innate immunity. Sci Rep 2017 Aug 10;7(1):7849. PMID: 28798368
  • Zhu H, Yu J, Zhu H, Guo Y et al. Identification of key lncRNAs in colorectal cancer progression based on associated protein-protein interaction analysis. World J Surg Oncol 2017 Aug 10;15(1):153. PMID: 28797257
  • Tian X, Zhu X, Yan T, Yu C et al. Recurrence-associated gene signature optimizes recurrence-free survival prediction of colorectal cancer. Mol Oncol 2017 Nov;11(11):1544-1560. PMID: 28796930
  • Sisino G, Zhou AX, Dahr N, Sabirsh A et al. Long noncoding RNAs are dynamically regulated during β-cell mass expansion in mouse pregnancy and control β-cell proliferation in vitro. PLoS One 2017;12(8):e0182371. PMID: 28796801
  • Figueiredo AS, Killian D, Schulte J, Sticht C et al. Whole transcriptome data of primary human NK cells under hypoxia and interleukin 15 priming: A 2×2 factorial design experiment. Data Brief 2017 Oct;14:77-83. PMID: 28795085
  • Khadzhieva MB, Kolobkov DS, Kamoeva SV, Salnikova LE et al. Expression changes in pelvic organ prolapse: a systematic review and in silico study. Sci Rep 2017 Aug 9;7(1):7668. PMID: 28794464
  • Kim SY, Senatorov VV Jr, Morrissey CS, Lippmann K et al. TGFβ signaling is associated with changes in inflammatory gene expression and perineuronal net degradation around inhibitory neurons following various neurological insults. Sci Rep 2017 Aug 9;7(1):7711. PMID: 28794441
  • Schwarzer A, Emmrich S, Schmidt F, Beck D et al. The non-coding RNA landscape of human hematopoiesis and leukemia. Nat Commun 2017 Aug 9;8(1):218. PMID: 28794406
  • Yang CK, Wang XK, Liao XW, Han CY et al. Aldehyde dehydrogenase 1 (ALDH1) isoform expression and potential clinical implications in hepatocellular carcinoma. PLoS One 2017;12(8):e0182208. PMID: 28792511
  • Zhang L, Huang Y, Zhu Y, Yu Z et al. Identification and Characterization of Cadmium-Related Genes in Liver Carcinoma. Biol Trace Elem Res 2018 Apr;182(2):238-247. PMID: 28791617
  • Wise R, Zolkiewska A et al. Metalloprotease-dependent activation of EGFR modulates CD44(+)/CD24(-) populations in triple negative breast cancer cells through the MEK/ERK pathway. Breast Cancer Res Treat 2017 Nov;166(2):421-433. PMID: 28791489
  • Duan LJ, Cao QF, Xu D, Liu HL et al. Bioinformatic analysis of microRNA-mRNA expression profiles of bladder tissue induced by bladder outlet obstruction in a rat model. Mol Med Rep 2017 Oct;16(4):4803-4810. PMID: 28791388
  • Goldstein B, Trivedi M, Speth RC et al. Alterations in Gene Expression of Components of the Renin-Angiotensin System and Its Related Enzymes in Lung Cancer. Lung Cancer Int 2017;2017:6914976. PMID: 28791183
  • Gao L, Li SH, Tian YX, Zhu QQ et al. Role of downregulated miR-133a-3p expression in bladder cancer: a bioinformatics study. Onco Targets Ther 2017;10:3667-3683. PMID: 28790856
  • Li Z, Yao Q, Zhao S, Wang Y et al. Comprehensive analysis of differential co-expression patterns reveal transcriptional dysregulation mechanism and identify novel prognostic lncRNAs in esophageal squamous cell carcinoma. Onco Targets Ther 2017;10:3095-3105. PMID: 28790843
  • Hao L, Du B, Xi X et al. TRIM59 is a novel potential prognostic biomarker in patients with non-small cell lung cancer: A research based on bioinformatics analysis. Oncol Lett 2017 Aug;14(2):2153-2164. PMID: 28789440
  • Bo L, Wei B, Li C, Wang Z et al. Identification of potential key genes associated with glioblastoma based on the gene expression profile. Oncol Lett 2017 Aug;14(2):2045-2052. PMID: 28789435
  • Nambara S, Masuda T, Tobo T, Kidogami S et al. Clinical significance of ZNF750 gene expression, a novel tumor suppressor gene, in esophageal squamous cell carcinoma. Oncol Lett 2017 Aug;14(2):1795-1801. PMID: 28789412
  • Kong L, Zhang X, Li C, Zhou L et al. Potential therapeutic targets and small molecular drugs for pediatric B-precursor acute lymphoblastic leukemia treatment based on microarray data. Oncol Lett 2017 Aug;14(2):1543-1549. PMID: 28789378
  • Shen L, Liu W, Cui J, Li J et al. Analysis of long non-coding RNA expression profiles in ovarian cancer. Oncol Lett 2017 Aug;14(2):1526-1530. PMID: 28789375
  • Li Z, Zhao K, Tian H et al. Integrated analysis of differential expression and alternative splicing of non-small cell lung cancer based on RNA sequencing. Oncol Lett 2017 Aug;14(2):1519-1525. PMID: 28789374
  • Liu T, Zhang L, Chen G, Shi T et al. Identifying and Characterizing the Circular RNAs during the Lifespan of Arabidopsis Leaves. Front Plant Sci 2017;8:1278. PMID: 28785273
  • Jensen H, Potempa M, Gotthardt D, Lanier LL et al. Cutting Edge: IL-2-Induced Expression of the Amino Acid Transporters SLC1A5 and CD98 Is a Prerequisite for NKG2D-Mediated Activation of Human NK Cells. J Immunol 2017 Sep 15;199(6):1967-1972. PMID: 28784848
  • Chang YS, Jalgaonkar SP, Middleton JD, Hai T et al. Stress-inducible gene Atf3 in the noncancer host cells contributes to chemotherapy-exacerbated breast cancer metastasis. Proc Natl Acad Sci U S A 2017 Aug 22;114(34):E7159-E7168. PMID: 28784776
  • Seo HD, Choi Y, Kim M, Kang K et al. The 19S proteasome is directly involved in the regulation of heterochromatin spreading in fission yeast. J Biol Chem 2017 Oct 13;292(41):17144-17155. PMID: 28784663
  • Patel SJ, Sanjana NE, Kishton RJ, Eidizadeh A et al. Identification of essential genes for cancer immunotherapy. Nature 2017 Aug 31;548(7669):537-542. PMID: 28783722
  • Mehta S, Cronkite DA, Basavappa M, Saunders TL et al. Maintenance of macrophage transcriptional programs and intestinal homeostasis by epigenetic reader SP140. Sci Immunol 2017 Mar 3;2(9). PMID: 28783698
  • Govaere O, Petz M, Wouters J, Vandewynckel YP et al. The PDGFRα-laminin B1-keratin 19 cascade drives tumor progression at the invasive front of human hepatocellular carcinoma. Oncogene 2017 Nov 23;36(47):6605-6616. PMID: 28783171
  • Patterson M, Barske L, Van Handel B, Rau CD et al. Frequency of mononuclear diploid cardiomyocytes underlies natural variation in heart regeneration. Nat Genet 2017 Sep;49(9):1346-1353. PMID: 28783163
  • Lutz G, Jurak I, Kim ET, Kim JY et al. Viral Ubiquitin Ligase Stimulates Selective Host MicroRNA Expression by Targeting ZEB Transcriptional Repressors. Viruses 2017 Aug 7;9(8). PMID: 28783105
  • Zhang Z, Liu T, Wang K, Qu X et al. Down-regulation of long non-coding RNA MEG3 indicates an unfavorable prognosis in non-small cell lung cancer: Evidence from the GEO database. Gene 2017 Sep 30;630:49-58. PMID: 28782577
  • Hegazy AN, West NR, Stubbington MJT, Wendt E et al. Circulating and Tissue-Resident CD4(+) T Cells With Reactivity to Intestinal Microbiota Are Abundant in Healthy Individuals and Function Is Altered During Inflammation. Gastroenterology 2017 Nov;153(5):1320-1337.e16. PMID: 28782508
  • Mobuchon L, Battistella A, Bardel C, Scelo G et al. A GWAS in uveal melanoma identifies risk polymorphisms in the CLPTM1L locus. NPJ Genom Med 2017;2. PMID: 28781888
  • Sun Y, Wang F, Wang L, Jiao Z et al. MicroRNA-433 regulates apoptosis by targeting PDCD4 in human osteosarcoma cells. Oncol Lett 2017 Aug;14(2):2353-2358. PMID: 28781674
  • Breindel JL, Skibinski A, Sedic M, Wronski-Campos A et al. Epigenetic Reprogramming of Lineage-Committed Human Mammary Epithelial Cells Requires DNMT3A and Loss of DOT1L. Stem Cell Reports 2017 Sep 12;9(3):943-955. PMID: 28781076
  • Tsai YL, Chien HF, Huang KT, Lin WY et al. cAMP receptor protein regulates mouse colonization, motility, fimbria-mediated adhesion, and stress tolerance in uropathogenic Proteus mirabilis. Sci Rep 2017 Aug 4;7(1):7282. PMID: 28779108
  • Brustel J, Kirstein N, Izard F, Grimaud C et al. Histone H4K20 tri-methylation at late-firing origins ensures timely heterochromatin replication. EMBO J 2017 Sep 15;36(18):2726-2741. PMID: 28778956
  • Davidson NM, Hawkins ADK, Oshlack A et al. SuperTranscripts: a data driven reference for analysis and visualisation of transcriptomes. Genome Biol 2017 Aug 4;18(1):148. PMID: 28778180
  • Ptitsyna N, Boughorbel S, El Anbari M, Ptitsyn A et al. The role of alternative Polyadenylation in regulation of rhythmic gene expression. BMC Genomics 2017 Aug 4;18(1):576. PMID: 28778154
  • Barad S, Sela N, Dubey AK, Kumar D et al. Differential gene expression in tomato fruit and Colletotrichum gloeosporioides during colonization of the RNAi-SlPH tomato line with reduced fruit acidity and higher pH. BMC Genomics 2017 Aug 4;18(1):579. PMID: 28778147
  • Matone A, Derlindati E, Marchetti L, Spigoni V et al. Identification of an early transcriptomic signature of insulin resistance and related diseases in lymphomonocytes of healthy subjects. PLoS One 2017;12(8):e0182559. PMID: 28777829
  • Chen F, Zhang Y, Bossé D, Lalani AA et al. Pan-urologic cancer genomic subtypes that transcend tissue of origin. Nat Commun 2017 Aug 4;8(1):199. PMID: 28775315
  • Breunig C, Pahl J, Küblbeck M, Miller M et al. MicroRNA-519a-3p mediates apoptosis resistance in breast cancer cells and their escape from recognition by natural killer cells. Cell Death Dis 2017 Aug 3;8(8):e2973. PMID: 28771222
  • Morin AM, Gatev E, McEwen LM, MacIsaac JL et al. Maternal blood contamination of collected cord blood can be identified using DNA methylation at three CpGs. Clin Epigenetics 2017;9:75. PMID: 28770015
  • Wang S, Liu JC, Ju Y, Pellecchia G et al. microRNA-143/145 loss induces Ras signaling to promote aggressive Pten-deficient basal-like breast cancer. JCI Insight 2017 Aug 3;2(15). PMID: 28768903
  • Wallace NA, Khanal S, Robinson KL, Wendel SO et al. High-Risk Alphapapillomavirus Oncogenes Impair the Homologous Recombination Pathway. J Virol 2017 Oct 15;91(20). PMID: 28768872
  • Gang X, Sun Y, Li F, Yu T et al. Identification of key genes associated with rheumatoid arthritis with bioinformatics approach. Medicine (Baltimore) 2017 Aug;96(31):e7673. PMID: 28767591
  • Wang J, Liu Y, Chen T et al. Identification of key genes and pathways in Parkinson's disease through integrated analysis. Mol Med Rep 2017 Oct;16(4):3769-3776. PMID: 28765971
  • Batmanov K, Wang W, Bjørås M, Delabie J et al. Integrative whole-genome sequence analysis reveals roles of regulatory mutations in BCL6 and BCL2 in follicular lymphoma. Sci Rep 2017 Aug 1;7(1):7040. PMID: 28765546
  • Bai WX, Gao J, Qian C, Zhang XQ et al. [A bioinformatics analysis of differentially expressed genes associated with liver cancer]. Zhonghua Gan Zang Bing Za Zhi 2017 Jun 20;25(6):435-439. PMID: 28763861
  • Martinez-Useros J, Georgiev-Hristov T, Fernández-Aceñero MJ, Borrero-Palacios A et al. UNR/CDSE1 expression as prognosis biomarker in resectable pancreatic ductal adenocarcinoma patients: A proof-of-concept. PLoS One 2017;12(8):e0182044. PMID: 28763470
  • Vono R, Jover Garcia E, Spinetti G, Madeddu P et al. Oxidative Stress in Mesenchymal Stem Cell Senescence: Regulation by Coding and Noncoding RNAs. Antioxid Redox Signal 2018 Sep 20;29(9):864-879. PMID: 28762752
  • Pashaei-Asl R, Pashaei-Asl F, Mostafa Gharabaghi P, Khodadadi K et al. The Inhibitory Effect of Ginger Extract on Ovarian Cancer Cell Line; Application of Systems Biology. Adv Pharm Bull 2017 Jun;7(2):241-249. PMID: 28761826
  • Rani J, Mittal I, Pramanik A, Singh N et al. T2DiACoD: A Gene Atlas of Type 2 Diabetes Mellitus Associated Complex Disorders. Sci Rep 2017 Jul 31;7(1):6892. PMID: 28761062
  • Li Q, Tjong H, Li X, Gong K et al. The three-dimensional genome organization of Drosophila melanogaster through data integration. Genome Biol 2017 Jul 31;18(1):145. PMID: 28760140
  • Gallagher EJ, Zelenko Z, Neel BA, Antoniou IM et al. Elevated tumor LDLR expression accelerates LDL cholesterol-mediated breast cancer growth in mouse models of hyperlipidemia. Oncogene 2017 Nov 16;36(46):6462-6471. PMID: 28759039
  • Wang Y, Zhang G, Jin J, Degan S et al. MALT1 promotes melanoma progression through JNK/c-Jun signaling. Oncogenesis 2017 Jul 31;6(7):e365. PMID: 28759024
  • Abdullah M, Kornegay JN, Honcoop A, Parry TL et al. Non-Targeted Metabolomics Analysis of Golden Retriever Muscular Dystrophy-Affected Muscles Reveals Alterations in Arginine and Proline Metabolism, and Elevations in Glutamic and Oleic Acid In Vivo. Metabolites 2017 Jul 29;7(3). PMID: 28758940
  • Nelson AC, Mould AW, Bikoff EK, Robertson EJ et al. Mapping the chromatin landscape and Blimp1 transcriptional targets that regulate trophoblast differentiation. Sci Rep 2017 Jul 28;7(1):6793. PMID: 28754907
  • Lowery MA, Jordan EJ, Basturk O, Ptashkin RN et al. Real-Time Genomic Profiling of Pancreatic Ductal Adenocarcinoma: Potential Actionability and Correlation with Clinical Phenotype. Clin Cancer Res 2017 Oct 15;23(20):6094-6100. PMID: 28754816
  • Gupta RM, Hadaya J, Trehan A, Zekavat SM et al. A Genetic Variant Associated with Five Vascular Diseases Is a Distal Regulator of Endothelin-1 Gene Expression. Cell 2017 Jul 27;170(3):522-533.e15. PMID: 28753427
  • Clayton K, Polak ME, Woelk CH, Elkington P et al. Gene Expression Signatures in Tuberculosis Have Greater Overlap with Autoimmune Diseases Than with Infectious Diseases. Am J Respir Crit Care Med 2017 Sep 1;196(5):655-656. PMID: 28753379
  • de Los Reyes P, Romero-Campero FJ, Ruiz MT, Romero JM et al. Evolution of Daily Gene Co-expression Patterns from Algae to Plants. Front Plant Sci 2017;8:1217. PMID: 28751903
  • Li Z, Li J, Yu P et al. l1kdeconv: an R package for peak calling analysis with LINCS L1000 data. BMC Bioinformatics 2017 Jul 27;18(1):356. PMID: 28750623
  • Makondi PT, Chu CM, Wei PL, Chang YJ et al. Prediction of novel target genes and pathways involved in irinotecan-resistant colorectal cancer. PLoS One 2017;12(7):e0180616. PMID: 28749961
  • Wu H, Zhao J, Fu B, Yin S et al. Retinoic acid-induced upregulation of miR-219 promotes the differentiation of embryonic stem cells into neural cells. Cell Death Dis 2017 Jul 27;8(7):e2953. PMID: 28749472
  • Janczar S, Nautiyal J, Xiao Y, Curry E et al. WWOX sensitises ovarian cancer cells to paclitaxel via modulation of the ER stress response. Cell Death Dis 2017 Jul 27;8(7):e2955. PMID: 28749468
  • Fu RJ, He W, Wang XB, Li L et al. DNMT1-maintained hypermethylation of Krüppel-like factor 5 involves in the progression of clear cell renal cell carcinoma. Cell Death Dis 2017 Jul 27;8(7):e2952. PMID: 28749461
  • Liu DJ, Xie YX, Liu XX, Huo YM et al. The role of Dickkopf-1 as a potential prognostic marker in pancreatic ductal adenocarcinoma. Cell Cycle 2017;16(17):1622-1629. PMID: 28749252
  • McDaid AF, Joshi PK, Porcu E, Komljenovic A et al. Bayesian association scan reveals loci associated with human lifespan and linked biomarkers. Nat Commun 2017 Jul 27;8:15842. PMID: 28748955
  • Gupta MK, Behera SK, Dehury B, Mahapatra N et al. Identification and characterization of differentially expressed genes from human microglial cell samples infected with Japanese encephalitis virus. J Vector Borne Dis 2017 Apr-Jun;54(2):131-138. PMID: 28748833
  • Yamaguchi YL, Suzuki R, Cabrera J, Nakagami S et al. Root-Knot and Cyst Nematodes Activate Procambium-Associated Genes in Arabidopsis Roots. Front Plant Sci 2017;8:1195. PMID: 28747918
  • Miao Z, Han Z, Zhang T, Chen S et al. A systems approach to a spatio-temporal understanding of the drought stress response in maize. Sci Rep 2017 Jul 26;7(1):6590. PMID: 28747711
  • Suwanpradid J, Shih M, Pontius L, Yang B et al. Arginase1 Deficiency in Monocytes/Macrophages Upregulates Inducible Nitric Oxide Synthase To Promote Cutaneous Contact Hypersensitivity. J Immunol 2017 Sep 1;199(5):1827-1834. PMID: 28747341
  • Schröder C, Leitão E, Wallner S, Schmitz G et al. Regions of common inter-individual DNA methylation differences in human monocytes: genetic basis and potential function. Epigenetics Chromatin 2017 Jul 26;10(1):37. PMID: 28747224
  • Choi J, Huebner AJ, Clement K, Walsh RM et al. Prolonged Mek1/2 suppression impairs the developmental potential of embryonic stem cells. Nature 2017 Aug 10;548(7666):219-223. PMID: 28746311
  • Srivastava A, Sircaik S, Husain F, Thomas E et al. Distinct roles of the 7-transmembrane receptor protein Rta3 in regulating the asymmetric distribution of phosphatidylcholine across the plasma membrane and biofilm formation in Candida albicans. Cell Microbiol 2017 Dec;19(12). PMID: 28745020
  • Liang HW, Ye ZH, Yin SY, Mo WJ et al. A comprehensive insight into the clinicopathologic significance of miR-144-3p in hepatocellular carcinoma. Onco Targets Ther 2017;10:3405-3419. PMID: 28744145
  • Pardo L, Valor LM, Eraso-Pichot A, Barco A et al. CREB Regulates Distinct Adaptive Transcriptional Programs in Astrocytes and Neurons. Sci Rep 2017 Jul 25;7(1):6390. PMID: 28743894
  • Xu X, Li G, Li L, Su Z et al. Genome-wide comparative analysis of putative Pth11-related G protein-coupled receptors in fungi belonging to Pezizomycotina. BMC Microbiol 2017 Jul 25;17(1):166. PMID: 28743231
  • Kheitan S, Minuchehr Z, Soheili ZS et al. Exploring the cross talk between ER stress and inflammation in age-related macular degeneration. PLoS One 2017;12(7):e0181667. PMID: 28742151
  • Lu Q, Powles RL, Abdallah S, Ou D et al. Systematic tissue-specific functional annotation of the human genome highlights immune-related DNA elements for late-onset Alzheimer's disease. PLoS Genet 2017 Jul;13(7):e1006933. PMID: 28742084
  • Korpal M, Puyang X, Jeremy Wu Z, Seiler R et al. Evasion of immunosurveillance by genomic alterations of PPARγ/RXRα in bladder cancer. Nat Commun 2017 Jul 24;8(1):103. PMID: 28740126
  • Pelletier JM, Kwong RW, Park S, Le BH et al. LEC1 sequentially regulates the transcription of genes involved in diverse developmental processes during seed development. Proc Natl Acad Sci U S A 2017 Aug 8;114(32):E6710-E6719. PMID: 28739919
  • Heidmann O, Béguin A, Paternina J, Berthier R et al. HEMO, an ancestral endogenous retroviral envelope protein shed in the blood of pregnant women and expressed in pluripotent stem cells and tumors. Proc Natl Acad Sci U S A 2017 Aug 8;114(32):E6642-E6651. PMID: 28739914
  • Huang MN, Yu W, Teoh WW, Ardin M et al. Genome-scale mutational signatures of aflatoxin in cells, mice, and human tumors. Genome Res 2017 Sep;27(9):1475-1486. PMID: 28739859
  • Li Z, Peng Z, Gu S, Zheng J et al. Global Analysis of miRNA-mRNA Interaction Network in Breast Cancer with Brain Metastasis. Anticancer Res 2017 Aug;37(8):4455-4468. PMID: 28739740
  • Yang F, Gu Y, Zhao Z, Huang J et al. NHERF1 Suppresses Lung Cancer Cell Migration by Regulation of Epithelial-Mesenchymal Transition. Anticancer Res 2017 Aug;37(8):4405-4414. PMID: 28739734
  • Liu Z, Liang G, Tan L, Su AN et al. High-efficient Screening Method for Identification of Key Genes in Breast Cancer Through Microarray and Bioinformatics. Anticancer Res 2017 Aug;37(8):4329-4335. PMID: 28739725
  • Xu S, Kong D, Chen Q, Ping Y et al. Oncogenic long noncoding RNA landscape in breast cancer. Mol Cancer 2017 Jul 24;16(1):129. PMID: 28738804
  • Zhang T, Huang Y, Liu W, Meng W et al. Overexpression of zinc finger protein 687 enhances tumorigenic capability and promotes recurrence of hepatocellular carcinoma. Oncogenesis 2017 Jul 24;6(7):e363. PMID: 28737756
  • Chen C, Qi H, Shen Y, Pickrell J et al. Contrasting Determinants of Mutation Rates in Germline and Soma. Genetics 2017 Sep;207(1):255-267. PMID: 28733365
  • Manchia M, Piras IS, Huentelman MJ, Pinna F et al. Pattern of gene expression in different stages of schizophrenia: Down-regulation of NPTX2 gene revealed by a meta-analysis of microarray datasets. Eur Neuropsychopharmacol 2017 Oct;27(10):1054-1063. PMID: 28732597
  • Gillinder KR, Tuckey H, Bell CC, Magor GW et al. Direct targets of pSTAT5 signalling in erythropoiesis. PLoS One 2017;12(7):e0180922. PMID: 28732065
  • Su XW, Lu G, Leung CK, Liu Q et al. miR-181d regulates human dendritic cell maturation through NF-κB pathway. Cell Prolif 2017 Oct;50(5). PMID: 28731516
  • Kodamullil AT, Iyappan A, Karki R, Madan S et al. Of Mice and Men: Comparative Analysis of Neuro-Inflammatory Mechanisms in Human and Mouse Using Cause-and-Effect Models. J Alzheimers Dis 2017;59(3):1045-1055. PMID: 28731442
  • Liu H, Ye H et al. Screening of the prognostic targets for breast cancer based co-expression modules analysis. Mol Med Rep 2017 Oct;16(4):4038-4044. PMID: 28731166
  • Huang W, Tian Y, Dong S, Cha Y et al. The long non-coding RNA SNHG3 functions as a competing endogenous RNA to promote malignant development of colorectal cancer. Oncol Rep 2017 Sep;38(3):1402-1410. PMID: 28731158
  • Wang Z, Wu Q, Feng S, Zhao Y et al. Identification of four prognostic LncRNAs for survival prediction of patients with hepatocellular carcinoma. PeerJ 2017;5:e3575. PMID: 28729955
  • Lee J, Park C, Kim HJ, Lee YD et al. Stimulation of osteoclast migration and bone resorption by C-C chemokine ligands 19 and 21. Exp Mol Med 2017 Jul 21;49(7):e358. PMID: 28729639
  • Kawakami E, Singh VK, Matsubara K, Ishii T et al. Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways. NPJ Syst Biol Appl 2016;2:15018. PMID: 28725465
  • Dönertaş HM, İzgi H, Kamacıoğlu A, He Z et al. Gene expression reversal toward pre-adult levels in the aging human brain and age-related loss of cellular identity. Sci Rep 2017 Jul 19;7(1):5894. PMID: 28724976
  • Tatman PD, Woulfe KC, Karimpour-Fard A, Jeffrey DA et al. Pediatric dilated cardiomyopathy hearts display a unique gene expression profile. JCI Insight 2017 Jul 20;2(14). PMID: 28724804
  • Li H, Wang H, Sun Z, Guo Q et al. The clinical and prognostic value of polo-like kinase 1 in lung squamous cell carcinoma patients: immunohistochemical analysis. Biosci Rep 2017 Aug 31;37(4). PMID: 28724602
  • Fernando TR, Contreras JR, Zampini M, Rodriguez-Malave NI et al. The lncRNA CASC15 regulates SOX4 expression in RUNX1-rearranged acute leukemia. Mol Cancer 2017 Jul 19;16(1):126. PMID: 28724437
  • Carey MA, Papin JA, Guler JL et al. Novel Plasmodium falciparum metabolic network reconstruction identifies shifts associated with clinical antimalarial resistance. BMC Genomics 2017 Jul 19;18(1):543. PMID: 28724354
  • Serra F, Baù D, Goodstadt M, Castillo D et al. Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors. PLoS Comput Biol 2017 Jul;13(7):e1005665. PMID: 28723903
  • Rizwan A, Cheng M, Bhujwalla ZM, Krishnamachary B et al. Breast cancer cell adhesome and degradome interact to drive metastasis. NPJ Breast Cancer 2015;1:15017. PMID: 28721370
  • Zhang X, Sun Y, Wang P, Yang C et al. Exploration of the molecular mechanism of prostate cancer based on mRNA and miRNA expression profiles. Onco Targets Ther 2017;10:3225-3232. PMID: 28721073
  • García R, Bravo E, Diez-Muñiz S, Nombela C et al. A novel connection between the Cell Wall Integrity and the PKA pathways regulates cell wall stress response in yeast. Sci Rep 2017 Jul 18;7(1):5703. PMID: 28720901
  • Toloczko A, Guo F, Yuen HF, Wen Q et al. Deubiquitinating Enzyme USP9X Suppresses Tumor Growth via LATS Kinase and Core Components of the Hippo Pathway. Cancer Res 2017 Sep 15;77(18):4921-4933. PMID: 28720576
  • Allevato M, Bolotin E, Grossman M, Mane-Padros D et al. Sequence-specific DNA binding by MYC/MAX to low-affinity non-E-box motifs. PLoS One 2017;12(7):e0180147. PMID: 28719624
  • Li B, Feng W, Luo O, Xu T et al. Development and Validation of a Three-gene Prognostic Signature for Patients with Hepatocellular Carcinoma. Sci Rep 2017 Jul 17;7(1):5517. PMID: 28717245
  • Cooper JM, Ou YH, McMillan EA, Vaden RM et al. TBK1 Provides Context-Selective Support of the Activated AKT/mTOR Pathway in Lung Cancer. Cancer Res 2017 Sep 15;77(18):5077-5094. PMID: 28716898
  • Wang L, Zhang F, Rode S, Chin KK et al. Ethylene induces combinatorial effects of histone H3 acetylation in gene expression in Arabidopsis. BMC Genomics 2017 Jul 17;18(1):538. PMID: 28716006
  • Grampp S, Schmid V, Salama R, Lauer V et al. Multiple renal cancer susceptibility polymorphisms modulate the HIF pathway. PLoS Genet 2017 Jul;13(7):e1006872. PMID: 28715484
  • Itoh Y, Voskuhl RR et al. Cell specificity dictates similarities in gene expression in multiple sclerosis, Parkinson's disease, and Alzheimer's disease. PLoS One 2017;12(7):e0181349. PMID: 28715462
  • Hu Y, Shin DJ, Pan H, Lin Z et al. YAP suppresses gluconeogenic gene expression through PGC1α. Hepatology 2017 Dec;66(6):2029-2041. PMID: 28714135
  • Zheng X, Zhou H, Qiu Z, Gao S et al. Gene microarray analysis of expression profiles in liver ischemia and reperfusion. Mol Med Rep 2017 Sep;16(3):3299-3307. PMID: 28713993
  • Tan W, Song Y, Mo C, Jiang S et al. Analysis of gene expression profile microarray data in complex regional pain syndrome. Mol Med Rep 2017 Sep;16(3):3371-3378. PMID: 28713977
  • He YE, Qiu HX, Jiang JB, Wu RZ et al. Microarray analysis reveals key genes and pathways in Tetralogy of Fallot. Mol Med Rep 2017 Sep;16(3):2707-2713. PMID: 28713939
  • Zhai X, Xue Q, Liu Q, Guo Y et al. Classifier of cross talk genes predicts the prognosis of hepatocellular carcinoma. Mol Med Rep 2017 Sep;16(3):3253-3261. PMID: 28713927
  • Caracausi M, Piovesan A, Antonaros F, Strippoli P et al. Systematic identification of human housekeeping genes possibly useful as references in gene expression studies. Mol Med Rep 2017 Sep;16(3):2397-2410. PMID: 28713914
  • Gong AX, Zhang JH, Li J, Wu J et al. Comparison of gene expression profiles between dental pulp and periodontal ligament tissues in humans. Int J Mol Med 2017 Sep;40(3):647-660. PMID: 28713908
  • Cui Y, Liu S, Cui W, Gao D et al. Identification of potential biomarkers and therapeutic targets for human IgA nephropathy and hypertensive nephropathy by bioinformatics analysis. Mol Med Rep 2017 Sep;16(3):3087-3094. PMID: 28713898
  • Bi WL, Greenwald NF, Abedalthagafi M, Wala J et al. Genomic landscape of high-grade meningiomas. NPJ Genom Med 2017;2. PMID: 28713588
  • Kumar M, Gho YS, Jung KH, Kim SR et al. Genome-Wide Identification and Analysis of Genes, Conserved between japonica and indica Rice Cultivars, that Respond to Low-Temperature Stress at the Vegetative Growth Stage. Front Plant Sci 2017;8:1120. PMID: 28713404
  • Tan J, Doing G, Lewis KA, Price CE et al. Unsupervised Extraction of Stable Expression Signatures from Public Compendia with an Ensemble of Neural Networks. Cell Syst 2017 Jul 26;5(1):63-71.e6. PMID: 28711280
  • Lesluyes T, Delespaul L, Coindre JM, Chibon F et al. The CINSARC signature as a prognostic marker for clinical outcome in multiple neoplasms. Sci Rep 2017 Jul 14;7(1):5480. PMID: 28710396
  • Zhang R, Liu L, Yao Y, Fei F et al. High Resolution Imaging of DNA Methylation Dynamics using a Zebrafish Reporter. Sci Rep 2017 Jul 14;7(1):5430. PMID: 28710355
  • Nabet BY, Qiu Y, Shabason JE, Wu TJ et al. Exosome RNA Unshielding Couples Stromal Activation to Pattern Recognition Receptor Signaling in Cancer. Cell 2017 Jul 13;170(2):352-366.e13. PMID: 28709002
  • Ying Y, Wang XJ, Vuong CK, Lin CH et al. Splicing Activation by Rbfox Requires Self-Aggregation through Its Tyrosine-Rich Domain. Cell 2017 Jul 13;170(2):312-323.e10. PMID: 28708999
  • Wu J, Li B, Sun X, Cao G et al. Heterogeneous Enhancement Patterns of Tumor-adjacent Parenchyma at MR Imaging Are Associated with Dysregulated Signaling Pathways and Poor Survival in Breast Cancer. Radiology 2017 Nov;285(2):401-413. PMID: 28708462
  • Oliemuller E, Kogata N, Bland P, Kriplani D et al. SOX11 promotes invasive growth and ductal carcinoma in situ progression. J Pathol 2017 Oct;243(2):193-207. PMID: 28707729
  • Matysik-Woźniak A, Jünemann A, Turski WA, Wnorowski A et al. The presence of kynurenine aminotransferases in the human cornea: Evidence from bioinformatics analysis of gene expression and immunohistochemical staining. Mol Vis 2017;23:364-371. PMID: 28706436
  • Zhao X, Wang L, Chen G et al. Joint Covariate Detection on Expression Profiles for Identifying MicroRNAs Related to Venous Metastasis in Hepatocellular Carcinoma. Sci Rep 2017 Jul 13;7(1):5349. PMID: 28706271
  • Wilkinson B, Li J, Coba MP et al. Synaptic GAP and GEF Complexes Cluster Proteins Essential for GTP Signaling. Sci Rep 2017 Jul 13;7(1):5272. PMID: 28706196
  • Spaeth JM, Gupte M, Perelis M, Yang YP et al. Defining a Novel Role for the Pdx1 Transcription Factor in Islet β-Cell Maturation and Proliferation During Weaning. Diabetes 2017 Nov;66(11):2830-2839. PMID: 28705881
  • Tsuji M, Kawasaki T, Matsuda T, Arai T et al. Sexual dimorphisms of mRNA and miRNA in human/murine heart disease. PLoS One 2017;12(7):e0177988. PMID: 28704447
  • Petersen R, Lambourne JJ, Javierre BM, Grassi L et al. Platelet function is modified by common sequence variation in megakaryocyte super enhancers. Nat Commun 2017 Jul 13;8:16058. PMID: 28703137
  • Santander N, Lizama C, Parga MJ, Quiroz A et al. Deficient Vitamin E Uptake During Development Impairs Neural Tube Closure in Mice Lacking Lipoprotein Receptor SR-BI. Sci Rep 2017 Jul 12;7(1):5182. PMID: 28701710
  • Roberts NA, Adams BD, McCarthy NI, Tooze RM et al. Prdm1 Regulates Thymic Epithelial Function To Prevent Autoimmunity. J Immunol 2017 Aug 15;199(4):1250-1260. PMID: 28701508
  • Ito J, Sugimoto R, Nakaoka H, Yamada S et al. Systematic identification and characterization of regulatory elements derived from human endogenous retroviruses. PLoS Genet 2017 Jul;13(7):e1006883. PMID: 28700586
  • Shao Y, Liang B, Long F, Jiang SJ et al. Diagnostic MicroRNA Biomarker Discovery for Non-Small-Cell Lung Cancer Adenocarcinoma by Integrative Bioinformatics Analysis. Biomed Res Int 2017;2017:2563085. PMID: 28698868
  • Mathai BJ, Meijer AH, Simonsen A et al. Studying Autophagy in Zebrafish. Cells 2017 Jul 9;6(3). PMID: 28698482
  • Wing JB, Kitagawa Y, Locci M, Hume H et al. A distinct subpopulation of CD25(-) T-follicular regulatory cells localizes in the germinal centers. Proc Natl Acad Sci U S A 2017 Aug 1;114(31):E6400-E6409. PMID: 28698369
  • Wang Q, Hu B, Hu X, Kim H et al. Tumor Evolution of Glioma-Intrinsic Gene Expression Subtypes Associates with Immunological Changes in the Microenvironment. Cancer Cell 2017 Jul 10;32(1):42-56.e6. PMID: 28697342
  • Lu Y, Huang H, Yang H, Chen D et al. Small molecule inhibitor TW-37 is tolerable and synergistic with chemotherapy in nasopharyngeal carcinoma. Cell Cycle 2017 Jul 18;16(14):1376-1383. PMID: 28696828
  • Gov E, Arga KY et al. Differential co-expression analysis reveals a novel prognostic gene module in ovarian cancer. Sci Rep 2017 Jul 10;7(1):4996. PMID: 28694494
  • Dong Y, Isono KI, Ohbo K, Endo TA et al. EPC1/TIP60-Mediated Histone Acetylation Facilitates Spermiogenesis in Mice. Mol Cell Biol 2017 Oct 1;37(19). PMID: 28694333
  • Conrad KP, Rabaglino MB, Post Uiterweer ED et al. Emerging role for dysregulated decidualization in the genesis of preeclampsia. Placenta 2017 Dec;60:119-129. PMID: 28693893
  • Gupta S, Yadav BS, Raj U, Freilich S et al. Transcriptomic Analysis of Soil Grown T. aestivum cv. Root to Reveal the Changes in Expression of Genes in Response to Multiple Nutrients Deficiency. Front Plant Sci 2017;8:1025. PMID: 28690617
  • Shi M, Xu G et al. Spectral clustering using Nyström approximation for the accurate identification of cancer molecular subtypes. Sci Rep 2017 Jul 7;7(1):4896. PMID: 28687729
  • Dong B, Wang G, Yao J, Yuan P et al. Predicting novel genes and pathways associated with osteosarcoma by using bioinformatics analysis. Gene 2017 Sep 10;628:32-37. PMID: 28687333
  • Leypunskiy E, Lin J, Yoo H, Lee U et al. The cyanobacterial circadian clock follows midday in vivo and in vitro. Elife 2017 Jul 7;6. PMID: 28686160
  • Yan S, Wu G et al. Reorganization of gene network for degradation of polycyclic aromatic hydrocarbons (PAHs) in Pseudomonas aeruginosa PAO1 under several conditions. J Appl Genet 2017 Nov;58(4):545-563. PMID: 28685384
  • Font-Clos F, Zapperi S, La Porta CAM et al. Integrative analysis of pathway deregulation in obesity. NPJ Syst Biol Appl 2017;3:18. PMID: 28685099
  • Yan Y, Gao R, Trinh TLP, Grant MB et al. Immunodeficiency in Pancreatic Adenocarcinoma with Diabetes Revealed by Comparative Genomics. Clin Cancer Res 2017 Oct 15;23(20):6363-6373. PMID: 28684632
  • Yang J, Milasta S, Hu D, AlTahan AM et al. Targeting Histone Demethylases in MYC-Driven Neuroblastomas with Ciclopirox. Cancer Res 2017 Sep 1;77(17):4626-4638. PMID: 28684529
  • Ba M, Long H, Yan Z, Wang S et al. BRD4 promotes gastric cancer progression through the transcriptional and epigenetic regulation of c-MYC. J Cell Biochem 2018 Jan;119(1):973-982. PMID: 28681984
  • Saito A, Horie M, Ejiri K, Aoki A et al. MicroRNA profiling in gingival crevicular fluid of periodontitis-a pilot study. FEBS Open Bio 2017 Jul;7(7):981-994. PMID: 28680811
  • Jox T, Buxa MK, Bohla D, Ullah I et al. Drosophila CP190- and dCTCF-mediated enhancer blocking is augmented by SUMOylation. Epigenetics Chromatin 2017;10:32. PMID: 28680483
  • Sahraeian SME, Mohiyuddin M, Sebra R, Tilgner H et al. Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis. Nat Commun 2017 Jul 5;8(1):59. PMID: 28680106
  • Lefebvre P, Lalloyer F, Baugé E, Pawlak M et al. Interspecies NASH disease activity whole-genome profiling identifies a fibrogenic role of PPARα-regulated dermatopontin. JCI Insight 2017 Jul 6;2(13). PMID: 28679947
  • Nishimura I, Kurokawa M, Liu L, Ying BW et al. Coordinated Changes in Mutation and Growth Rates Induced by Genome Reduction. mBio 2017 Jul 5;8(4). PMID: 28679744
  • Stefansson OA, Hermanowicz S, van der Horst J, Hilmarsdottir H et al. CpG promoter methylation of the ALKBH3 alkylation repair gene in breast cancer. BMC Cancer 2017 Jul 5;17(1):469. PMID: 28679371
  • Tian FM, Zhong CY, Wang XN, Meng Y et al. PDE3A is hypermethylated in cisplatin resistant non-small cell lung cancer cells and is a modulator of chemotherapy response. Eur Rev Med Pharmacol Sci 2017 Jun;21(11):2635-2641. PMID: 28678321
  • Deter HS, Jensen RV, Mather WH, Butzin NC et al. Mechanisms for Differential Protein Production in Toxin-Antitoxin Systems. Toxins (Basel) 2017 Jul 4;9(7). PMID: 28677629
  • Gentilella A, Morón-Duran FD, Fuentes P, Zweig-Rocha G et al. Autogenous Control of 5′TOP mRNA Stability by 40S Ribosomes. Mol Cell 2017 Jul 6;67(1):55-70.e4. PMID: 28673543
  • Brouwers B, Fumagalli D, Brohee S, Hatse S et al. The footprint of the ageing stroma in older patients with breast cancer. Breast Cancer Res 2017 Jul 3;19(1):78. PMID: 28673354
  • Chen W, Liu Q, Lv Y, Xu D et al. Special role of JUN in papillary thyroid carcinoma based on bioinformatics analysis. World J Surg Oncol 2017 Jul 3;15(1):119. PMID: 28673327
  • Xu Y, Zhang Z, Li J, Tong J et al. The ubiquitin-conjugating enzyme UBE2O modulates c-Maf stability and induces myeloma cell apoptosis. J Hematol Oncol 2017 Jul 3;10(1):132. PMID: 28673317
  • Lupu-Plesu M, Claren A, Martial S, N'Diaye PD et al. Effects of proton versus photon irradiation on (lymph)angiogenic, inflammatory, proliferative and anti-tumor immune responses in head and neck squamous cell carcinoma. Oncogenesis 2017 Jul 3;6(7):e354. PMID: 28671677
  • Katschnig AM, Kauer MO, Schwentner R, Tomazou EM et al. EWS-FLI1 perturbs MRTFB/YAP-1/TEAD target gene regulation inhibiting cytoskeletal autoregulatory feedback in Ewing sarcoma. Oncogene 2017 Oct 26;36(43):5995-6005. PMID: 28671673
  • Yu H, Pei D, Chen L, Zhou X et al. Identification of key genes and molecular mechanisms associated with dedifferentiated liposarcoma based on bioinformatic methods. Onco Targets Ther 2017;10:3017-3027. PMID: 28670134
  • Ning T, Cui H, Sun F, Zou J et al. Systemic analysis of genome-wide expression profiles identified potential therapeutic targets of demethylation drugs for glioblastoma. Gene 2017 Sep 5;627:387-392. PMID: 28669930
  • Bates LE, Silva JC et al. Reprogramming human cells to naïve pluripotency: how close are we? Curr Opin Genet Dev 2017 Oct;46:58-65. PMID: 28668635
  • Wei B, Ruan J, Mi Y, Hu J et al. Knockdown of TNF receptor-associated factor 2 (TRAF2) modulates in vitro growth of TRAIL-treated prostate cancer cells. Biomed Pharmacother 2017 Sep;93:462-469. PMID: 28667915
  • Sánchez-Valle J, Tejero H, Ibáñez K, Portero JL et al. A molecular hypothesis to explain direct and inverse co-morbidities between Alzheimer's Disease, Glioblastoma and Lung cancer. Sci Rep 2017 Jun 30;7(1):4474. PMID: 28667284
  • Wu S, Li K, Li Y, Zhao T et al. Independent regulation of gene expression level and noise by histone modifications. PLoS Comput Biol 2017 Jun;13(6):e1005585. PMID: 28665997
  • Karan D, Tawfik O, Dubey S et al. Expression analysis of inflammasome sensors and implication of NLRP12 inflammasome in prostate cancer. Sci Rep 2017 Jun 29;7(1):4378. PMID: 28663562
  • Cao L, Liu J, Pu J, Collinson JM et al. Endogenous bioelectric currents promote differentiation of the mammalian lens. J Cell Physiol 2018 Mar;233(3):2202-2212. PMID: 28661005
  • Xu H, Yu S, Yuan X, Xiong J et al. DACH1 suppresses breast cancer as a negative regulator of CD44. Sci Rep 2017 Jun 28;7(1):4361. PMID: 28659634
  • Aki A, Nagasaki M, Malynn BA, Ma A et al. Hypomorphic A20 expression confers susceptibility to psoriasis. PLoS One 2017;12(6):e0180481. PMID: 28658319
  • Zhang X, Lin D, Lin Y, Chen H et al. Proteasome beta-4 subunit contributes to the development of melanoma and is regulated by miR-148b. Tumour Biol 2017 Jun;39(6):1010428317705767. PMID: 28656878
  • Lai TC, Li HF, Li YS, Hung PY et al. Proximal GATA-binding sites are essential for human HSD3B1 gene transcription in the placenta. Sci Rep 2017 Jun 27;7(1):4271. PMID: 28655875
  • Sakowicz A, Pietrucha T, Rybak-Krzyszkowska M, Huras H et al. Double hit of NEMO gene in preeclampsia. PLoS One 2017;12(6):e0180065. PMID: 28654673
  • Xiang H, Zhong ZX, Peng YD, Jiang SW et al. The Emerging Role of Zfp217 in Adipogenesis. Int J Mol Sci 2017 Jun 27;18(7). PMID: 28653987
  • Zhang L, Hao C, Li J, Qu Y et al. Bioinformatics methods for identifying differentially expressed genes and signaling pathways in nano-silica stimulated macrophages. Tumour Biol 2017 Jun;39(6):1010428317709284. PMID: 28653889
  • Zhou T, Casanova N, Pouladi N, Wang T et al. Identification of Jak-STAT signaling involvement in sarcoidosis severity via a novel microRNA-regulated peripheral blood mononuclear cell gene signature. Sci Rep 2017 Jun 26;7(1):4237. PMID: 28652588
  • Kundra R, Ciryam P, Morimoto RI, Dobson CM et al. Protein homeostasis of a metastable subproteome associated with Alzheimer's disease. Proc Natl Acad Sci U S A 2017 Jul 11;114(28):E5703-E5711. PMID: 28652376
  • Xu JH, Chang WH, Fu HW, Shu WQ et al. Upregulated long non-coding RNA LOC90784 promotes cell proliferation and invasion and is associated with poor clinical features in HCC. Biochem Biophys Res Commun 2017 Aug 26;490(3):920-926. PMID: 28651931
  • Zhao B, Wang M, Xu J, Li M et al. Identification of pathogenic genes and upstream regulators in age-related macular degeneration. BMC Ophthalmol 2017 Jun 26;17(1):102. PMID: 28651595
  • Klein MI, Stern DF, Zhao H et al. GRAPE: a pathway template method to characterize tissue-specific functionality from gene expression profiles. BMC Bioinformatics 2017 Jun 26;18(1):317. PMID: 28651562
  • Parsana P, Amend SR, Hernandez J, Pienta KJ et al. Identifying global expression patterns and key regulators in epithelial to mesenchymal transition through multi-study integration. BMC Cancer 2017 Jun 26;17(1):447. PMID: 28651527
  • Korman BD, Marangoni RG, Hinchcliff M, Shah SJ et al. Brief Report: Association of Elevated Adipsin Levels With Pulmonary Arterial Hypertension in Systemic Sclerosis. Arthritis Rheumatol 2017 Oct;69(10):2062-2068. PMID: 28651038
  • Pashaei E, Pashaei E, Ahmady M, Ozen M et al. Meta-analysis of miRNA expression profiles for prostate cancer recurrence following radical prostatectomy. PLoS One 2017;12(6):e0179543. PMID: 28651018
  • Mueller AJ, Canty-Laird EG, Clegg PD, Tew SR et al. Cross-species gene modules emerge from a systems biology approach to osteoarthritis. NPJ Syst Biol Appl 2017;3:13. PMID: 28649440
  • Iborra-Egea O, Gálvez-Montón C, Roura S, Perea-Gil I et al. Mechanisms of action of sacubitril/valsartan on cardiac remodeling: a systems biology approach. NPJ Syst Biol Appl 2017;3:12. PMID: 28649439
  • Batra R, Alcaraz N, Gitzhofer K, Pauling J et al. On the performance of de novo pathway enrichment. NPJ Syst Biol Appl 2017;3:6. PMID: 28649433
  • Xi Y, Liu J, Dong C, Cheng ZM et al. The CBL and CIPK Gene Family in Grapevine (Vitis vinifera): Genome-Wide Analysis and Expression Profiles in Response to Various Abiotic Stresses. Front Plant Sci 2017;8:978. PMID: 28649259
  • Múnera JO, Sundaram N, Rankin SA, Hill D et al. Differentiation of Human Pluripotent Stem Cells into Colonic Organoids via Transient Activation of BMP Signaling. Cell Stem Cell 2017 Jul 6;21(1):51-64.e6. PMID: 28648364
  • Gho YS, Park SA, Kim SR, Chandran AKN et al. Comparative Expression Analysis of Rice and Arabidopsis Peroxiredoxin Genes Suggests Conserved or Diversified Roles Between the Two Species and Leads to the Identification of Tandemly Duplicated Rice Peroxiredoxin Genes Differentially Expressed in Seeds. Rice (N Y) 2017 Dec;10(1):30. PMID: 28647924
  • Schäuble S, Stavrum AK, Bockwoldt M, Puntervoll P et al. SBMLmod: a Python-based web application and web service for efficient data integration and model simulation. BMC Bioinformatics 2017 Jun 24;18(1):314. PMID: 28646877
  • Yu Q, He Z et al. Comprehensive investigation of temporal and autism-associated cell type composition-dependent and independent gene expression changes in human brains. Sci Rep 2017 Jun 23;7(1):4121. PMID: 28646201
  • Zhang DY, Kumar M, Xu L, Wan Q et al. Genome-wide identification of Major Intrinsic Proteins in Glycine soja and characterization of GmTIP2;1 function under salt and water stress. Sci Rep 2017 Jun 23;7(1):4106. PMID: 28646139
  • Yin L, Tagde A, Gali R, Tai YT et al. MUC1-C is a target in lenalidomide resistant multiple myeloma. Br J Haematol 2017 Sep;178(6):914-926. PMID: 28643330
  • Taylor J, Reynolds L, Hou L, Lohman K et al. Transcriptomic profiles of aging in naïve and memory CD4(+) cells from mice. Immun Ageing 2017;14:15. PMID: 28642803
  • Banerjee S, Tian T, Wei Z, Peck KN et al. Microbial Signatures Associated with Oropharyngeal and Oral Squamous Cell Carcinomas. Sci Rep 2017 Jun 22;7(1):4036. PMID: 28642609
  • Aschenbrenner AC, Bassler K, Brondolin M, Bonaguro L et al. A cross-species approach to identify transcriptional regulators exemplified for Dnajc22 and Hnf4a. Sci Rep 2017 Jun 22;7(1):4056. PMID: 28642491
  • Tomar T, Alkema NG, Schreuder L, Meersma GJ et al. Methylome analysis of extreme chemoresponsive patients identifies novel markers of platinum sensitivity in high-grade serous ovarian cancer. BMC Med 2017 Jun 23;15(1):116. PMID: 28641578
  • Goto Y, Kurozumi A, Arai T, Nohata N et al. Impact of novel miR-145-3p regulatory networks on survival in patients with castration-resistant prostate cancer. Br J Cancer 2017 Jul 25;117(3):409-420. PMID: 28641312
  • Brazier-Hicks M, Gershater M, Dixon D, Edwards R et al. Substrate specificity and safener inducibility of the plant UDP-glucose-dependent family 1 glycosyltransferase super-family. Plant Biotechnol J 2018 Jan;16(1):337-348. PMID: 28640934
  • Charoy C, Dinvaut S, Chaix Y, Morlé L et al. Genetic specification of left-right asymmetry in the diaphragm muscles and their motor innervation. Elife 2017 Jun 22;6. PMID: 28639940
  • Shih JW, Chiang WF, Wu ATH, Wu MH et al. Long noncoding RNA LncHIFCAR/MIR31HG is a HIF-1α co-activator driving oral cancer progression. Nat Commun 2017 Jun 22;8:15874. PMID: 28639619
  • Cook Sangar ML, Genovesi LA, Nakamoto MW, Davis MJ et al. Inhibition of CDK4/6 by Palbociclib Significantly Extends Survival in Medulloblastoma Patient-Derived Xenograft Mouse Models. Clin Cancer Res 2017 Oct 1;23(19):5802-5813. PMID: 28637687
  • Yan X, Liang A, Gomez J, Cohn L et al. A novel pathway-based distance score enhances assessment of disease heterogeneity in gene expression. BMC Bioinformatics 2017 Jun 20;18(1):309. PMID: 28637421
  • Erkes A, Reschke M, Boch J, Grau J et al. Evolution of Transcription Activator-Like Effectors in Xanthomonas oryzae. Genome Biol Evol 2017 Jun 1;9(6):1599-1615. PMID: 28637323
  • Li L, Zheng H, Huang Y, Huang C et al. DNA methylation signatures and coagulation factors in the peripheral blood leucocytes of epithelial ovarian cancer. Carcinogenesis 2017 Aug 1;38(8):797-805. PMID: 28637314
  • Ge WH, Lin Y, Li S, Zong X et al. Identification of Biomarkers for Early Diagnosis of Acute Myocardial Infarction. J Cell Biochem 2018 Jan;119(1):650-658. PMID: 28636181
  • Liu JC, Zacksenhouse M, Eisen A, Nofech-Mozes S et al. Identification of cell proliferation, immune response and cell migration as critical pathways in a prognostic signature for HER2+:ERα- breast cancer. PLoS One 2017;12(6):e0179223. PMID: 28632792
  • Nuckolls NL, Bravo Núñez MA, Eickbush MT, Young JM et al. wtf genes are prolific dual poison-antidote meiotic drivers. Elife 2017 Jun 20;6. PMID: 28631612
  • Sun X, Bizhanova A, Matheson TD, Yu J et al. Ki-67 Contributes to Normal Cell Cycle Progression and Inactive X Heterochromatin in p21 Checkpoint-Proficient Human Cells. Mol Cell Biol 2017 Sep 1;37(17). PMID: 28630280
  • Erkizan HV, Johnson K, Ghimbovschi S, Karkera D et al. African-American esophageal squamous cell carcinoma expression profile reveals dysregulation of stress response and detox networks. BMC Cancer 2017 Jun 19;17(1):426. PMID: 28629367
  • Omae K, Komori O, Eguchi S et al. Quasi-linear score for capturing heterogeneous structure in biomarkers. BMC Bioinformatics 2017 Jun 19;18(1):308. PMID: 28629325
  • Huo M, Wang Z, Wu D, Zhang Y et al. Using Coexpression Protein Interaction Network Analysis to Identify Mechanisms of Danshensu Affecting Patients with Coronary Heart Disease. Int J Mol Sci 2017 Jun 19;18(6). PMID: 28629174
  • Zhu H, Dai M, Chen X, Chen X et al. Integrated analysis of the potential roles of miRNA‑mRNA networks in triple negative breast cancer. Mol Med Rep 2017 Aug;16(2):1139-1146. PMID: 28627677
  • Zhang Y, Han X, Wu H, Zhou Y et al. Bioinformatics analysis of transcription profiling of solid pseudopapillary neoplasm of the pancreas. Mol Med Rep 2017 Aug;16(2):1635-1642. PMID: 28627654
  • Aravind J, Rinku S, Pooja B, Shikha M et al. Identification, Characterization, and Functional Validation of Drought-responsive MicroRNAs in Subtropical Maize Inbreds. Front Plant Sci 2017;8:941. PMID: 28626466
  • Zhao T, Li D, Liu X, Liu Z et al. [Effect of SLC7A5 on the proliferation of tumor cells and its relationship with transforming growth factor-β1 
signal pathway]. Zhong Nan Da Xue Xue Bao Yi Xue Ban 2017 May 28;42(5):485-492. PMID: 28626091
  • Panahiazar M, Dumontier M, Gevaert O et al. Predicting biomedical metadata in CEDAR: A study of Gene Expression Omnibus (GEO). J Biomed Inform 2017 Aug;72:132-139. PMID: 28625880
  • Liang X, Yuan X, Yu J, Wu Y et al. Histone Chaperone ASF1A Predicts Poor Outcomes for Patients With Gastrointestinal Cancer and Drives Cancer Progression by Stimulating Transcription of β-Catenin Target Genes. EBioMedicine 2017 Jul;21:104-116. PMID: 28625518
  • Cheng H, Xue J, Yang S, Chen Y et al. Co-targeting of IGF1R/mTOR pathway by miR-497 and miR-99a impairs hepatocellular carcinoma development. Oncotarget 2017 Jul 18;8(29):47984-47997. PMID: 28624790
  • Yang L, Lin XL, Liang W, Fu SW et al. High expression of GPR116 indicates poor survival outcome and promotes tumor progression in colorectal carcinoma. Oncotarget 2017 Jul 18;8(29):47943-47956. PMID: 28624786
  • Xiang W, Zhang B, Lv F, Feng G et al. The potential regulatory mechanisms of the gonadotropin-releasing hormone in gonadotropin transcriptions identified with bioinformatics analyses. Reprod Biol Endocrinol 2017 Jun 17;15(1):46. PMID: 28623929
  • Xiao Y, Zhang J, Deng L et al. Prediction of lncRNA-protein interactions using HeteSim scores based on heterogeneous networks. Sci Rep 2017 Jun 16;7(1):3664. PMID: 28623317
  • Allot A, Chennen K, Nevers Y, Poidevin L et al. MyGeneFriends: A Social Network Linking Genes, Genetic Diseases, and Researchers. J Med Internet Res 2017 Jun 16;19(6):e212. PMID: 28623182
  • Akematsu T, Fukuda Y, Garg J, Fillingham JS et al. Post-meiotic DNA double-strand breaks occur in Tetrahymena, and require Topoisomerase II and Spo11. Elife 2017 Jun 16;6. PMID: 28621664
  • Guo F, Li L, Li J, Wu X et al. Single-cell multi-omics sequencing of mouse early embryos and embryonic stem cells. Cell Res 2017 Aug;27(8):967-988. PMID: 28621329
  • Ghosh AGenome-Wide Identification of Glyoxalase Genes in Medicago truncatula and Their Expression Profiling in Response to Various Developmental and Environmental Stimuli. Front Plant Sci 2017;8:836. PMID: 28620395
  • Mata-Greenwood E, Goyal D, Goyal R et al. Comparative and Experimental Studies on the Genes Altered by Chronic Hypoxia in Human Brain Microendothelial Cells. Front Physiol 2017;8:365. PMID: 28620317
  • Tang BM, Shojaei M, Parnell GP, Huang S et al. A novel immune biomarker IFI27 discriminates between influenza and bacteria in patients with suspected respiratory infection. Eur Respir J 2017 Jun;49(6). PMID: 28619954
  • Warburton AJ, Boone DN et al. Insights from Global Analyses of Long Noncoding RNAs in Breast Cancer. Curr Pathobiol Rep 2017 Mar;5(1):23-34. PMID: 28616363
  • Osada N, Miyagi R, Takahashi A et al. Cis- and Trans-regulatory Effects on Gene Expression in a Natural Population of Drosophila melanogaster. Genetics 2017 Aug;206(4):2139-2148. PMID: 28615283
  • Marques FZ, Prestes PR, Byars SG, Ritchie SC et al. Experimental and Human Evidence for Lipocalin-2 (Neutrophil Gelatinase-Associated Lipocalin [NGAL]) in the Development of Cardiac Hypertrophy and heart failure. J Am Heart Assoc 2017 Jun 14;6(6). PMID: 28615213
  • Reeve J, Böhmig GA, Eskandary F, Einecke G et al. Assessing rejection-related disease in kidney transplant biopsies based on archetypal analysis of molecular phenotypes. JCI Insight 2017 Jun 15;2(12). PMID: 28614805
  • Camp JG, Sekine K, Gerber T, Loeffler-Wirth H et al. Multilineage communication regulates human liver bud development from pluripotency. Nature 2017 Jun 22;546(7659):533-538. PMID: 28614297
  • Krug SM, Bojarski C, Fromm A, Lee IM et al. Tricellulin is regulated via interleukin-13-receptor α2, affects macromolecule uptake, and is decreased in ulcerative colitis. Mucosal Immunol 2018 Mar;11(2):345-356. PMID: 28612843
  • Koshizuka K, Hanazawa T, Kikkawa N, Arai T et al. Regulation of ITGA3 by the anti-tumor miR-199 family inhibits cancer cell migration and invasion in head and neck cancer. Cancer Sci 2017 Aug;108(8):1681-1692. PMID: 28612520
  • Li H, Zhou Y, Zhang Z et al. Network Analysis Reveals a Common Host-Pathogen Interaction Pattern in Arabidopsis Immune Responses. Front Plant Sci 2017;8:893. PMID: 28611808
  • Shay G, Tauro M, Loiodice F, Tortorella P et al. Selective inhibition of matrix metalloproteinase-2 in the multiple myeloma-bone microenvironment. Oncotarget 2017 Jun 27;8(26):41827-41840. PMID: 28611279
  • Rajeshkumar NV, Yabuuchi S, Pai SG, De Oliveira E et al. Treatment of Pancreatic Cancer Patient-Derived Xenograft Panel with Metabolic Inhibitors Reveals Efficacy of Phenformin. Clin Cancer Res 2017 Sep 15;23(18):5639-5647. PMID: 28611197
  • Bush SJ, McCulloch MEB, Summers KM, Hume DA et al. Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries. BMC Bioinformatics 2017 Jun 13;18(1):301. PMID: 28610557
  • Rhee H, Ko JE, Chung T, Jee BA et al. Transcriptomic and histopathological analysis of cholangiolocellular differentiation trait in intrahepatic cholangiocarcinoma. Liver Int 2018 Jan;38(1):113-124. PMID: 28608943
  • Lin SC, Lee HC, Hou PC, Fu JL et al. Targeting hypoxia-mediated YAP1 nuclear translocation ameliorates pathogenesis of endometriosis without compromising maternal fertility. J Pathol 2017 Aug;242(4):476-487. PMID: 28608501
  • Nie J, DuBois DC, Xue B, Jusko WJ et al. Effects of High-Fat Feeding on Skeletal Muscle Gene Expression in Diabetic Goto-Kakizaki Rats. Gene Regul Syst Bio 2017;11:1177625017710009. PMID: 28607540
  • Soto-Feliciano YM, Bartlebaugh JME, Liu Y, Sánchez-Rivera FJ et al. PHF6 regulates phenotypic plasticity through chromatin organization within lineage-specific genes. Genes Dev 2017 May 15;31(10):973-989. PMID: 28607179
  • Chen H, Xiao Q, Hu Y, Chen L et al. ANGPTL1 attenuates colorectal cancer metastasis by up-regulating microRNA-138. J Exp Clin Cancer Res 2017 Jun 12;36(1):78. PMID: 28606130
  • Bottini S, Pratella D, Grandjean V, Repetto E et al. Recent computational developments on CLIP-seq data analysis and microRNA targeting implications. Brief Bioinform 2018 Nov 27;19(6):1290-1301. PMID: 28605404
  • Tsai YF, Tseng LM, Hsu CY, Yang MH et al. Brain-derived neurotrophic factor (BDNF) -TrKB signaling modulates cancer-endothelial cells interaction and affects the outcomes of triple negative breast cancer. PLoS One 2017;12(6):e0178173. PMID: 28604807
  • Yin F, Sharen G, Yuan F, Peng Y et al. TIP30 regulates lipid metabolism in hepatocellular carcinoma by regulating SREBP1 through the Akt/mTOR signaling pathway. Oncogenesis 2017 Jun 12;6(6):e347. PMID: 28604762
  • Sharp GC, Ho K, Davies A, Stergiakouli E et al. Distinct DNA methylation profiles in subtypes of orofacial cleft. Clin Epigenetics 2017;9:63. PMID: 28603561
  • Mathur S, Umakanth AV, Tonapi VA, Sharma R et al. Sweet sorghum as biofuel feedstock: recent advances and available resources. Biotechnol Biofuels 2017;10:146. PMID: 28603553
  • Zeng S, Yu X, Ma C, Song R et al. Transcriptome sequencing identifies ANLN as a promising prognostic biomarker in bladder urothelial carcinoma. Sci Rep 2017 Jun 9;7(1):3151. PMID: 28600503
  • Barry C, Schmitz MT, Propson NE, Hou Z et al. Uniform neural tissue models produced on synthetic hydrogels using standard culture techniques. Exp Biol Med (Maywood) 2017 Nov;242(17):1679-1689. PMID: 28599598
  • Yang H, Huo P, Hu G, Wei B et al. Identification of gene markers associated with metastasis in clear cell renal cell carcinoma. Oncol Lett 2017 Jun;13(6):4755-4761. PMID: 28599476
  • Loffredo LF, Abdala-Valencia H, Anekalla KR, Cuervo-Pardo L et al. Beyond epithelial-to-mesenchymal transition: Common suppression of differentiation programs underlies epithelial barrier dysfunction in mild, moderate, and severe asthma. Allergy 2017 Dec;72(12):1988-2004. PMID: 28599074
  • Shi J, Tang J, Mu DZ et al. [Bioinformatic Analysis of Differentially Expressed Genes Involved in the Post-hypoxic Ischemic Brain Damage of Newborn Rats]. Sichuan Da Xue Xue Bao Yi Xue Ban 2016 Sep;47(5):722-726. PMID: 28598087
  • Yen CH, Lai CC, Liao CC, Wang SF et al. Characterization of a new murine cell line of sarcomatoid hepatocellular carcinoma and its application for biomarker/therapy development. Sci Rep 2017 Jun 8;7(1):3052. PMID: 28596515
  • Wu F, Chen Y, Tian X, Zhu X et al. Genome-wide identification and characterization of phased small interfering RNA genes in response to Botrytis cinerea infection in Solanum lycopersicum. Sci Rep 2017 Jun 8;7(1):3019. PMID: 28596514
  • Freytag S, Burgess R, Oliver KL, Bahlo M et al. brain-coX: investigating and visualising gene co-expression in seven human brain transcriptomic datasets. Genome Med 2017 Jun 8;9(1):55. PMID: 28595657
  • Lipinska AP, Toda NRT, Heesch S, Peters AF et al. Multiple gene movements into and out of haploid sex chromosomes. Genome Biol 2017 Jun 8;18(1):104. PMID: 28595587
  • Stopsack KH, Gerke TA, Andrén O, Andersson SO et al. Cholesterol uptake and regulation in high-grade and lethal prostate cancers. Carcinogenesis 2017 Aug 1;38(8):806-811. PMID: 28595267
  • Yan Q, Ahn SH, Medie FM, Sharma-Kuinkel BK et al. Candidate genes on murine chromosome 8 are associated with susceptibility to Staphylococcus aureus infection in mice and are involved with Staphylococcus aureus septicemia in humans. PLoS One 2017;12(6):e0179033. PMID: 28594911
  • Grechkin M, Poon H, Howe B et al. Wide-Open: Accelerating public data release by automating detection of overdue datasets. PLoS Biol 2017 Jun;15(6):e2002477. PMID: 28594819
  • Riquelme P, Amodio G, Macedo C, Moreau A et al. DHRS9 Is a Stable Marker of Human Regulatory Macrophages. Transplantation 2017 Nov;101(11):2731-2738. PMID: 28594751
  • Sun S, Liu J, Zhao M, Han Y et al. Loss of the novel mitochondrial protein FAM210B promotes metastasis via PDK4-dependent metabolic reprogramming. Cell Death Dis 2017 Jun 8;8(6):e2870. PMID: 28594398
  • Fianco G, Mongiardi MP, Levi A, De Luca T et al. Caspase-8 contributes to angiogenesis and chemotherapy resistance in glioblastoma. Elife 2017 Jun 8;6. PMID: 28594322
  • El-Aarag SA, Mahmoud A, Hashem MH, Abd Elkader H et al. In silico identification of potential key regulatory factors in smoking-induced lung cancer. BMC Med Genomics 2017 Jun 7;10(1):40. PMID: 28592245
  • Jogalekar MP, Cooper LG, Serrano EE et al. Hydrogel Environment Supports Cell Culture Expansion of a Grade IV Astrocytoma. Neurochem Res 2017 Sep;42(9):2610-2624. PMID: 28589519
  • Dal Molin A, Baruzzo G, Di Camillo B et al. Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods. Front Genet 2017;8:62. PMID: 28588607
  • Fan L, Yu X, Huang Z, Zheng S et al. Analysis of Microarray-Identified Genes and MicroRNAs Associated with Idiopathic Pulmonary Fibrosis. Mediators Inflamm 2017;2017:1804240. PMID: 28588348
  • Yoshihara M, Sasamoto Y, Hayashi R, Ishikawa Y et al. High-resolution promoter map of human limbal epithelial cells cultured with keratinocyte growth factor and rho kinase inhibitor. Sci Rep 2017 Jun 6;7(1):2845. PMID: 28588247
  • Aikawa S, Kano K, Inoue A, Wang J et al. Autotaxin-lysophosphatidic acid-LPA(3) signaling at the embryo-epithelial boundary controls decidualization pathways. EMBO J 2017 Jul 14;36(14):2146-2160. PMID: 28588064
  • Ascensión AM, Arrospide-Elgarresta M, Izeta A, Araúzo-Bravo MJ et al. NaviSE: superenhancer navigator integrating epigenomics signal algebra. BMC Bioinformatics 2017 Jun 6;18(1):296. PMID: 28587674
  • Wang K, Wang X, Lv H, Cui C et al. Identification of the miRNA-target gene regulatory network in intracranial aneurysm based on microarray expression data. Exp Ther Med 2017 Jun;13(6):3239-3248. PMID: 28587396
  • Zheng Y, Zhou Y, Zhang X, Chen Y et al. Effects of hypoxia on differentiation of menstrual blood stromal stem cells towards tenogenic cells in a co-culture system with Achilles tendon cells. Exp Ther Med 2017 Jun;13(6):3195-3202. PMID: 28587393
  • Huang K, Doyle F, Wurz ZE, Tenenbaum SA et al. FASTmiR: an RNA-based sensor for in vitro quantification and live-cell localization of small RNAs. Nucleic Acids Res 2017 Aug 21;45(14):e130. PMID: 28586459
  • Li G, Hu F, Luo X, Hu J et al. SIX4 promotes metastasis via activation of the PI3K-AKT pathway in colorectal cancer. PeerJ 2017;5:e3394. PMID: 28584719
  • Sonah H, Deshmukh RK, Labbé C, Bélanger RR et al. Analysis of aquaporins in Brassicaceae species reveals high-level of conservation and dynamic role against biotic and abiotic stress in canola. Sci Rep 2017 Jun 5;7(1):2771. PMID: 28584277
  • Sherstyuk VV, Medvedev SP, Elisaphenko EA, Vaskova EA et al. Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells. Sci Rep 2017 Jun 5;7(1):2787. PMID: 28584262
  • Yoon JH, Kim O, Nam SW, Lee JY et al. NKX6.3 Regulates Reactive Oxygen Species Production by Suppressing NF-kB and DNMT1 Activities in Gastric Epithelial Cells. Sci Rep 2017 Jun 5;7(1):2807. PMID: 28584243
  • Turriani E, Lázaro DF, Ryazanov S, Leonov A et al. Treatment with diphenyl-pyrazole compound anle138b/c reveals that α-synuclein protects melanoma cells from autophagic cell death. Proc Natl Acad Sci U S A 2017 Jun 20;114(25):E4971-E4977. PMID: 28584093
  • Chang WS, Wang YH, Zhu XT, Wu CJ et al. Genome-Wide Profiling of miRNA and mRNA Expression in Alzheimer's Disease. Med Sci Monit 2017 Jun 4;23:2721-2731. PMID: 28578378
  • Fang C, Huang Y, Pei Y, Zhang HH et al. Genome-wide gene expression profiling reveals that CD274 is up-regulated new-onset type 1 diabetes mellitus. Acta Diabetol 2017 Aug;54(8):757-767. PMID: 28577136
  • Ko YA, Yi H, Qiu C, Huang S et al. Genetic-Variation-Driven Gene-Expression Changes Highlight Genes with Important Functions for Kidney Disease. Am J Hum Genet 2017 Jun 1;100(6):940-953. PMID: 28575649
  • Zhang H, Zhang X, Huang J, Fan X et al. Identification of key genes and pathways for peri-implantitis through the analysis of gene expression data. Exp Ther Med 2017 May;13(5):1832-1840. PMID: 28565775
  • Yang YX, Li L et al. Identification of potential biomarkers of sepsis using bioinformatics analysis. Exp Ther Med 2017 May;13(5):1689-1696. PMID: 28565754
  • Gudenas BL, Srivastava AK, Wang L et al. Integrative genomic analyses for identification and prioritization of long non-coding RNAs associated with autism. PLoS One 2017;12(5):e0178532. PMID: 28562671
  • Mews P, Donahue G, Drake AM, Luczak V et al. Acetyl-CoA synthetase regulates histone acetylation and hippocampal memory. Nature 2017 Jun 15;546(7658):381-386. PMID: 28562591
  • Zhang S, Kou Y, Hu C, Han Y et al. MicroRNA profiling in the dentate gyrus in epileptic rats: The role of miR-187-3p. Medicine (Baltimore) 2017 Jun;96(22):e6744. PMID: 28562528
  • Gao S, Wang Y, Wang M, Li Z et al. MicroRNA-155, induced by FOXP3 through transcriptional repression of BRCA1, is associated with tumor initiation in human breast cancer. Oncotarget 2017 Jun 20;8(25):41451-41464. PMID: 28562349
  • Sucker A, Zhao F, Pieper N, Heeke C et al. Acquired IFNγ resistance impairs anti-tumor immunity and gives rise to T-cell-resistant melanoma lesions. Nat Commun 2017 May 31;8:15440. PMID: 28561041
  • Zhou X, Deng L, Han X, Chen Y et al. Differences in molecular regulation between osteochondroma and bizarre parosteal osteochondromatous proliferation. Mol Med Rep 2017 Jul;16(1):801-805. PMID: 28560436
  • Vitale AM, Matigian NA, Cristino AS, Nones K et al. DNA methylation in schizophrenia in different patient-derived cell types. NPJ Schizophr 2017;3:6. PMID: 28560252
  • Huang TH, Wu SY, Huang YJ, Wei PL et al. The identification and validation of Trichosstatin A as a potential inhibitor of colon tumorigenesis and colon cancer stem-like cells. Am J Cancer Res 2017;7(5):1227-1237. PMID: 28560069
  • Robaina-Estévez S, Nikoloski Z et al. On the effects of alternative optima in context-specific metabolic model predictions. PLoS Comput Biol 2017 May;13(5):e1005568. PMID: 28557990
  • Zeng X, Tao L, Zhang P, Qin C et al. HEROD: a human ethnic and regional specific omics database. Bioinformatics 2017 Oct 15;33(20):3276-3282. PMID: 28549078
  • Lummus SC, Donson AM, Gowan K, Jones KL et al. p16 Loss and E2F/cell cycle deregulation in infant posterior fossa ependymoma. Pediatr Blood Cancer 2017 Dec;64(12). PMID: 28548702
  • Coker EA, Mitsopoulos C, Workman P, Al-Lazikani B et al. SiGNet: A signaling network data simulator to enable signaling network inference. PLoS One 2017;12(5):e0177701. PMID: 28545060
  • Shigemizu D, Iwase T, Yoshimoto M, Suzuki Y et al. The prediction models for postoperative overall survival and disease-free survival in patients with breast cancer. Cancer Med 2017 Jul;6(7):1627-1638. PMID: 28544536
  • Promworn Y, Kaewprommal P, Shaw PJ, Intarapanich A et al. ToNER: A tool for identifying nucleotide enrichment signals in feature-enriched RNA-seq data. PLoS One 2017;12(5):e0178483. PMID: 28542466
  • Martínez M, Sorzano COS, Pascual-Montano A, Carazo JM et al. Gene signature associated with benign neurofibroma transformation to malignant peripheral nerve sheath tumors. PLoS One 2017;12(5):e0178316. PMID: 28542306
  • Suomi T, Seyednasrollah F, Jaakkola MK, Faux T et al. ROTS: An R package for reproducibility-optimized statistical testing. PLoS Comput Biol 2017 May;13(5):e1005562. PMID: 28542205
  • Mourad R, Li L, Cuvier O et al. Uncovering direct and indirect molecular determinants of chromatin loops using a computational integrative approach. PLoS Comput Biol 2017 May;13(5):e1005538. PMID: 28542178
  • Ma W, Yang L, Rohs R, Noble WS et al. DNA sequence+shape kernel enables alignment-free modeling of transcription factor binding. Bioinformatics 2017 Oct 1;33(19):3003-3010. PMID: 28541376
  • Marklevitz J, Harris LK et al. Improved Annotations of 23 Differentially Expressed Hypothetical Proteins in Methicillin Resistant S.aureus. Bioinformation 2017;13(4):104-110. PMID: 28539731
  • Carter TC, Sicko RJ, Kay DM, Browne ML et al. Copy-number variants and candidate gene mutations in isolated split hand/foot malformation. J Hum Genet 2017 Oct;62(10):877-884. PMID: 28539665
  • Bellesi M, de Vivo L, Chini M, Gilli F et al. Sleep Loss Promotes Astrocytic Phagocytosis and Microglial Activation in Mouse Cerebral Cortex. J Neurosci 2017 May 24;37(21):5263-5273. PMID: 28539349
  • Dalvi MP, Wang L, Zhong R, Kollipara RK et al. Taxane-Platin-Resistant Lung Cancers Co-develop Hypersensitivity to JumonjiC Demethylase Inhibitors. Cell Rep 2017 May 23;19(8):1669-1684. PMID: 28538184
  • Yan H, He J, Guan Q, Cai H et al. Identifying CpG sites with different differential methylation frequencies in colorectal cancer tissues based on individualized differential methylation analysis. Oncotarget 2017 Jul 18;8(29):47356-47364. PMID: 28537885
  • Xie L, Li T, Yang LH et al. E2F2 induces MCM4, CCNE2 and WHSC1 upregulation in ovarian cancer and predicts poor overall survival. Eur Rev Med Pharmacol Sci 2017 May;21(9):2150-2156. PMID: 28537669
  • Bernstein MN, Doan A, Dewey CN et al. MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive. Bioinformatics 2017 Sep 15;33(18):2914-2923. PMID: 28535296
  • Luo P, Yang Q, Cong LL, Wang XF et al. Identification of miR‑124a as a novel diagnostic and prognostic biomarker in non‑small cell lung cancer for chemotherapy. Mol Med Rep 2017 Jul;16(1):238-246. PMID: 28534972
  • Lu C, Shan Z, Hong J, Yang L et al. MicroRNA-92a promotes epithelial-mesenchymal transition through activation of PTEN/PI3K/AKT signaling pathway in non-small cell lung cancer metastasis. Int J Oncol 2017 Jul;51(1):235-244. PMID: 28534966
  • Gan TQ, Chen WJ, Qin H, Huang SN et al. Clinical Value and Prospective Pathway Signaling of MicroRNA-375 in Lung Adenocarcinoma: A Study Based on the Cancer Genome Atlas (TCGA), Gene Expression Omnibus (GEO) and Bioinformatics Analysis. Med Sci Monit 2017 May 23;23:2453-2464. PMID: 28533502
  • Discher DE, Smith L, Cho S, Colasurdo M et al. Matrix Mechanosensing: From Scaling Concepts in 'Omics Data to Mechanisms in the Nucleus, Regeneration, and Cancer. Annu Rev Biophys 2017 May 22;46:295-315. PMID: 28532215
  • Xu C, Sun L, Jiang C, Zhou H et al. SPP1, analyzed by bioinformatics methods, promotes the metastasis in colorectal cancer by activating EMT pathway. Biomed Pharmacother 2017 Jul;91:1167-1177. PMID: 28531945
  • Lu XM, Batugedara G, Lee M, Prudhomme J et al. Nascent RNA sequencing reveals mechanisms of gene regulation in the human malaria parasite Plasmodium falciparum. Nucleic Acids Res 2017 Jul 27;45(13):7825-7840. PMID: 28531310
  • Knowles DA, Davis JR, Edgington H, Raj A et al. Allele-specific expression reveals interactions between genetic variation and environment. Nat Methods 2017 Jul;14(7):699-702. PMID: 28530654
  • Liu BH, Cai JP et al. Identification of Transcriptional Modules and Key Genes in Chickens Infected with Salmonella enterica Serovar Pullorum Using Integrated Coexpression Analyses. Biomed Res Int 2017;2017:8347085. PMID: 28529955
  • Aghamirzaie D, Raja Velmurugan K, Wu S, Altarawy D et al. Expresso: A database and web server for exploring the interaction of transcription factors and their target genes in Arabidopsis thaliana using ChIP-Seq peak data. F1000Res 2017;6:372. PMID: 28529706
  • Bogdanov A, Moiseenko F, Dubina M et al. Abnormal expression of ATP1A1 and ATP1A2 in breast cancer. F1000Res 2017;6:10. PMID: 28529692
  • Lin CY, Lee YE, Tian YF, Sun DP et al. High Expression of EphA4 Predicted Lesser Degree of Tumor Regression after Neoadjuvant Chemoradiotherapy in Rectal Cancer. J Cancer 2017;8(6):1089-1096. PMID: 28529623
  • Wang J, Liu H, Shen X, Wang Y et al. Long non-coding RNA expression profiles in gallbladder carcinoma identified using microarray analysis. Oncol Lett 2017 May;13(5):3508-3516. PMID: 28529578
  • Qian Y, Li J, Xia S et al. ZNF281 Promotes Growth and Invasion of Pancreatic Cancer Cells by Activating Wnt/β-Catenin Signaling. Dig Dis Sci 2017 Aug;62(8):2011-2020. PMID: 28523575
  • Guo QS, Song Y, Hua KQ, Gao SJ et al. Involvement of FAK-ERK2 signaling pathway in CKAP2-induced proliferation and motility in cervical carcinoma cell lines. Sci Rep 2017 May 18;7(1):2117. PMID: 28522860
  • De Marchi T, Timmermans MA, Sieuwerts AM, Smid M et al. Phosphoserine aminotransferase 1 is associated to poor outcome on tamoxifen therapy in recurrent breast cancer. Sci Rep 2017 May 18;7(1):2099. PMID: 28522855
  • Ding W, Yang H, Gong S, Shi W et al. Candidate miRNAs and pathogenesis investigation for hepatocellular carcinoma based on bioinformatics analysis. Oncol Lett 2017 May;13(5):3409-3414. PMID: 28521446
  • Wang T, Zhang L, Tian P, Tian S et al. Identification of differentially-expressed genes between early-stage adenocarcinoma and squamous cell carcinoma lung cancer using meta-analysis methods. Oncol Lett 2017 May;13(5):3314-3322. PMID: 28521438
  • Chen J, Zhang N, Wen J, Zhang Z et al. Silencing TAK1 alters gene expression signatures in bladder cancer cells. Oncol Lett 2017 May;13(5):2975-2981. PMID: 28521404
  • Hu YH, Chen Q, Lu YX, Zhang JM et al. Hypermethylation of NDN promotes cell proliferation by activating the Wnt signaling pathway in colorectal cancer. Oncotarget 2017 Jul 11;8(28):46191-46203. PMID: 28521288
  • Lu AT, Hannon E, Levine ME, Crimmins EM et al. Genetic architecture of epigenetic and neuronal ageing rates in human brain regions. Nat Commun 2017 May 18;8:15353. PMID: 28516910
  • Gandolfi F, Tramontano A et al. A computational approach for the functional classification of the epigenome. Epigenetics Chromatin 2017;10:26. PMID: 28515787
  • Xiao J, Liu A, Lu X, Chen X et al. Prognostic significance of TCF21 mRNA expression in patients with lung adenocarcinoma. Sci Rep 2017 May 17;7(1):2027. PMID: 28515486
  • Takada Y, Miyagi R, Takahashi A, Endo T et al. A Generalized Linear Model for Decomposing Cis-regulatory, Parent-of-Origin, and Maternal Effects on Allele-Specific Gene Expression. G3 (Bethesda) 2017 Jul 5;7(7):2227-2234. PMID: 28515049
  • Hu B, Xu C, Tian Y, Shi C et al. Inflammatory microRNA-194 and -515 attenuate the biosynthesis of chondroitin sulfate during human intervertebral disc degeneration. Oncotarget 2017 Jul 25;8(30):49303-49317. PMID: 28514734
  • Chen ZZ, Zhang XD, Chen Y, Wu YB et al. The role of circulating miR-146a in patients with rheumatoid arthritis treated by Tripterygium wilfordii Hook F. Medicine (Baltimore) 2017 May;96(20):e6775. PMID: 28514293
  • Carty M, Zamparo L, Sahin M, González A et al. An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data. Nat Commun 2017 May 17;8:15454. PMID: 28513628
  • Peng C, Yang Q, Wei B, Liu Y et al. Identification of potential target genes and related regulatory transcription factors in spontaneous hairline fracture induced by hypervitaminosis A. Injury 2017 Jul;48(7):1475-1479. PMID: 28511966
  • Song W, Wang X et al. The role of TGFβ1 and LRG1 in cardiac remodelling and heart failure. Biophys Rev 2015 Mar;7(1):91-104. PMID: 28509980
  • Djordjevic D, Deshpande V, Szczesnik T, Yang A et al. Decoding the complex genetic causes of heart diseases using systems biology. Biophys Rev 2015 Mar;7(1):141-159. PMID: 28509974
  • Tavares S, Vieira AF, Taubenberger AV, Araújo M et al. Actin stress fiber organization promotes cell stiffening and proliferation of pre-invasive breast cancer cells. Nat Commun 2017 May 16;8:15237. PMID: 28508872
  • Gahurova L, Tomizawa SI, Smallwood SA, Stewart-Morgan KR et al. Transcription and chromatin determinants of de novo DNA methylation timing in oocytes. Epigenetics Chromatin 2017;10:25. PMID: 28507606
  • Xu L, Guo Y, Yan W, Cen J et al. High level of miR-196b at newly diagnosed pediatric acute myeloid leukemia predicts a poor outcome. EXCLI J 2017;16:197-209. PMID: 28507466
  • Liu Y, Conboy I et al. Unexpected evolutionarily conserved rapid effects of viral infection on oxytocin receptor and TGF-β/pSmad3. Skelet Muscle 2017 May 15;7(1):7. PMID: 28506310
  • Hill KE, Kelly AD, Kuijjer ML, Barry W et al. An imprinted non-coding genomic cluster at 14q32 defines clinically relevant molecular subtypes in osteosarcoma across multiple independent datasets. J Hematol Oncol 2017 May 15;10(1):107. PMID: 28506242
  • Tuerk A, Wiktorin G, Güler S et al. Mixture models reveal multiple positional bias types in RNA-Seq data and lead to accurate transcript concentration estimates. PLoS Comput Biol 2017 May;13(5):e1005515. PMID: 28505151
  • Kawauchi D, Ogg RJ, Liu L, Shih DJH et al. Novel MYC-driven medulloblastoma models from multiple embryonic cerebellar cells. Oncogene 2017 Sep 14;36(37):5231-5242. PMID: 28504719
  • Shin YH, Ren Y, Suzuki H, Golnoski KJ et al. Transcription factors SOHLH1 and SOHLH2 coordinate oocyte differentiation without affecting meiosis I. J Clin Invest 2017 Jun 1;127(6):2106-2117. PMID: 28504655
  • Sahoo A, Lee B, Boniface K, Seneschal J et al. MicroRNA-211 Regulates Oxidative Phosphorylation and Energy Metabolism in Human Vitiligo. J Invest Dermatol 2017 Sep;137(9):1965-1974. PMID: 28502800
  • Ziyab AH, Ewart S, Lockett GA, Zhang H et al. Expression of the filaggrin gene in umbilical cord blood predicts eczema risk in infancy: A birth cohort study. Clin Exp Allergy 2017 Sep;47(9):1185-1192. PMID: 28502108
  • Jagodnik KM, Koplev S, Jenkins SL, Ohno-Machado L et al. Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop. J Biomed Inform 2017 Jul;71:49-57. PMID: 28501646
  • Lin Z, Lin Y et al. Identification of potential crucial genes associated with steroid-induced necrosis of femoral head based on gene expression profile. Gene 2017 Sep 5;627:322-326. PMID: 28501630
  • Han L, Xu J, Grigg E, Slack M et al. Osr1 functions downstream of Hedgehog pathway to regulate foregut development. Dev Biol 2017 Jul 1;427(1):72-83. PMID: 28501478
  • Wang Y, Skibbe JR, Hu C, Dong L et al. ALOX5 exhibits anti-tumor and drug-sensitizing effects in MLL-rearranged leukemia. Sci Rep 2017 May 12;7(1):1853. PMID: 28500307
  • Yoshimaru T, Aihara K, Komatsu M, Matsushita Y et al. Stapled BIG3 helical peptide ERAP potentiates anti-tumour activity for breast cancer therapeutics. Sci Rep 2017 May 12;7(1):1821. PMID: 28500289
  • Zyla J, Marczyk M, Weiner J, Polanska J et al. Ranking metrics in gene set enrichment analysis: do they matter? BMC Bioinformatics 2017 May 12;18(1):256. PMID: 28499413
  • Jiang ZH, Peng J, Yang HL, Fu XL et al. Upregulation and biological function of transmembrane protein 119 in osteosarcoma. Exp Mol Med 2017 May 12;49(5):e329. PMID: 28496199
  • Espinal-Enríquez J, Fresno C, Anda-Jáuregui G, Hernández-Lemus E et al. RNA-Seq based genome-wide analysis reveals loss of inter-chromosomal regulation in breast cancer. Sci Rep 2017 May 11;7(1):1760. PMID: 28496157
  • He H, Sun D, Zeng Y, Wang R et al. A Systems Genetics Approach Identified GPD1L and its Molecular Mechanism for Obesity in Human Adipose Tissue. Sci Rep 2017 May 11;7(1):1799. PMID: 28496128
  • Inoue M, Horimoto K et al. Relationship between regulatory pattern of gene expression level and gene function. PLoS One 2017;12(5):e0177430. PMID: 28494005
  • Ranzani M, Iyer V, Ibarra-Soria X, Del Castillo Velasco-Herrera M et al. Revisiting olfactory receptors as putative drivers of cancer. Wellcome Open Res 2017 Feb 10;2:9. PMID: 28492065
  • Manier S, Huynh D, Shen YJ, Zhou J et al. Inhibiting the oncogenic translation program is an effective therapeutic strategy in multiple myeloma. Sci Transl Med 2017 May 10;9(389). PMID: 28490664
  • Gao F, Xu F, Wu D, Cheng J et al. Identification of novel genes associated with fracture healing in osteoporosis induced by Krm2 overexpression or Lrp5 deficiency. Mol Med Rep 2017 Jun;15(6):3969-3976. PMID: 28487939
  • Briones-Moreno A, Hernández-García J, Vargas-Chávez C, Romero-Campero FJ et al. Evolutionary Analysis of DELLA-Associated Transcriptional Networks. Front Plant Sci 2017;8:626. PMID: 28487716
  • Liu R, Zhang W, Liu ZQ, Zhou HH et al. Associating transcriptional modules with colon cancer survival through weighted gene co-expression network analysis. BMC Genomics 2017 May 9;18(1):361. PMID: 28486948
  • Thiesen HJ, Steinbeck F, Maruschke M, Koczan D et al. Stratification of clear cell renal cell carcinoma (ccRCC) genomes by gene-directed copy number alteration (CNA) analysis. PLoS One 2017;12(5):e0176659. PMID: 28486536
  • Dingledine R, Coulter DA, Fritsch B, Gorter JA et al. Transcriptional profile of hippocampal dentate granule cells in four rat epilepsy models. Sci Data 2017 May 9;4:170061. PMID: 28485718
  • Gangwar I, Kumar Sharma N, Panzade G, Awasthi S et al. Detecting the Molecular System Signatures of Idiopathic Pulmonary Fibrosis through Integrated Genomic Analysis. Sci Rep 2017 May 8;7(1):1554. PMID: 28484236
  • Li YL, Li X, Jiang TT, Fan JM et al. An Additive Effect of Promoting Thermogenic Gene Expression in Mice Adipose-Derived Stromal Vascular Cells by Combination of Rosiglitazone and CL316,243. Int J Mol Sci 2017 May 8;18(5). PMID: 28481288
  • Penga J, Wang T, Huc J, Wang Y et al. Constructing Networks of Organelle Functional Modules in Arabidopsis. Curr Genomics 2016 Oct;17(5):427-438. PMID: 28479871
  • Liu Q, Chen Z, Jiang G, Zhou Y et al. Epigenetic down regulation of G protein-coupled estrogen receptor (GPER) functions as a tumor suppressor in colorectal cancer. Mol Cancer 2017 May 5;16(1):87. PMID: 28476123
  • Shen H, Xing C, Cui K, Li Y et al. MicroRNA-30a attenuates mutant KRAS-driven colorectal tumorigenesis via direct suppression of ME1. Cell Death Differ 2017 Jul;24(7):1253-1262. PMID: 28475173
  • Lee S, Day NS, Miles RR, Perkins SL et al. Comparative genomic expression signatures of signal transduction pathways and targets in paediatric Burkitt lymphoma: a Children's Oncology Group report. Br J Haematol 2017 May;177(4):601-611. PMID: 28474336
  • Qi L, Ding Y et al. Screening of Tumor Suppressor Genes in Metastatic Colorectal Cancer. Biomed Res Int 2017;2017:2769140. PMID: 28473981
  • Macartney-Coxson D, Benton MC, Blick R, Stubbs RS et al. Genome-wide DNA methylation analysis reveals loci that distinguish different types of adipose tissue in obese individuals. Clin Epigenetics 2017;9:48. PMID: 28473875
  • Lund RJ, Huhtinen K, Salmi J, Rantala J et al. DNA methylation and Transcriptome Changes Associated with Cisplatin Resistance in Ovarian Cancer. Sci Rep 2017 May 4;7(1):1469. PMID: 28473707
  • See P, Dutertre CA, Chen J, Günther P et al. Mapping the human DC lineage through the integration of high-dimensional techniques. Science 2017 Jun 9;356(6342). PMID: 28473638
  • Chen Q, Suresh Kumar V, Finn J, Jiang D et al. CD44(high) alveolar type II cells show stem cell properties during steady-state alveolar homeostasis. Am J Physiol Lung Cell Mol Physiol 2017 Jul 1;313(1):L41-L51. PMID: 28473330
  • Kehl T, Schneider L, Schmidt F, Stöckel D et al. RegulatorTrail: a web service for the identification of key transcriptional regulators. Nucleic Acids Res 2017 Jul 3;45(W1):W146-W153. PMID: 28472408
  • Frost HR, Amos CI et al. Gene set selection via LASSO penalized regression (SLPR). Nucleic Acids Res 2017 Jul 7;45(12):e114. PMID: 28472344
  • Liu K, Beck D, Thoms JAI, Liu L et al. Annotating function to differentially expressed LincRNAs in myelodysplastic syndrome using a network-based method. Bioinformatics 2017 Sep 1;33(17):2622-2630. PMID: 28472271
  • Tongyoo P, Avihingsanon Y, Prom-On S, Mutirangura A et al. EnHERV: Enrichment analysis of specific human endogenous retrovirus patterns and their neighboring genes. PLoS One 2017;12(5):e0177119. PMID: 28472109
  • Martínez-Canales S, Cifuentes F, López De Rodas Gregorio M, Serrano-Oviedo L et al. Transcriptomic immunologic signature associated with favorable clinical outcome in basal-like breast tumors. PLoS One 2017;12(5):e0175128. PMID: 28472085
  • Xu M, Wang X et al. Critical roles of mucin-1 in sensitivity of lung cancer cells to tumor necrosis factor-alpha and dexamethasone. Cell Biol Toxicol 2017 Aug;33(4):361-371. PMID: 28470556
  • Lin Y, Duan Z, Xu F, Zhang J et al. Construction and analysis of the transcription factor-microRNA co-regulatory network response to Mycobacterium tuberculosis: a view from the blood. Am J Transl Res 2017;9(4):1962-1976. PMID: 28469803
  • Ramani R, Megason G, Schallheim J, Karlson C et al. Integrative Analysis of MicroRNA-Mediated Gene Signatures and Pathways Modulating White Blood Cell Count in Childhood Acute Lymphoblastic Leukemia. Biomark Insights 2017;12:1177271917702895. PMID: 28469402
  • Hicks C, Ramani R, Sartor O, Bhalla R et al. An Integrative Genomics Approach for Associating Genome-Wide Association Studies Information With Localized and Metastatic Prostate Cancer Phenotypes. Biomark Insights 2017;12:1177271917695810. PMID: 28469398
  • Nyström-Persson J, Natsume-Kitatani Y, Igarashi Y, Satoh D et al. Interactive Toxicogenomics: Gene set discovery, clustering and analysis in Toxygates. Sci Rep 2017 May 3;7(1):1390. PMID: 28469246
  • Olson MR, Ulrich BJ, Hummel SA, Khan I et al. Paracrine IL-2 Is Required for Optimal Type 2 Effector Cytokine Production. J Immunol 2017 Jun 1;198(11):4352-4359. PMID: 28468971
  • Picao-Osorio J, Lago-Baldaia I, Patraquim P, Alonso CR et al. Pervasive Behavioral Effects of MicroRNA Regulation in Drosophila. Genetics 2017 Jul;206(3):1535-1548. PMID: 28468905
  • Chen Q, Qiu XQ et al. [Bioinformatics on vascular invasion markers in hepatocellular carcinoma via Big-Data analysis]. Zhonghua Liu Xing Bing Xue Za Zhi 2017 Apr 10;38(4):522-527. PMID: 28468075
  • Yang Y, Lin J, Ma Z, Li J et al. Potential roles of microRNAs and their target genes in human multiple myeloma. Eur J Haematol 2017 Aug;99(2):178-185. PMID: 28467652
  • Lee CC, Kuo WH, Lin CK, Gao HW et al. Discrimination of CD44 and Oct3/4 Expression in Pancreatic Adenocarcinoma from Benign Pancreatic Ducts in Small Biopsy Specimens. Chin J Physiol 2017 Apr 30;60(2):81-88. PMID: 28464601
  • Nicholas DA, Zhang K, Hung C, Glasgow S et al. Palmitic acid is a toll-like receptor 4 ligand that induces human dendritic cell secretion of IL-1β. PLoS One 2017;12(5):e0176793. PMID: 28463985
  • Schoenhals M, Jourdan M, Bruyer A, Kassambara A et al. Hypoxia favors the generation of human plasma cells. Cell Cycle 2017 Jun 3;16(11):1104-1117. PMID: 28463531
  • Sharma RD, Bogaerts B, Goyal N et al. Data on RDM16 and STA1 regulate differential usage of exon/intron in RNA directed DNA Methylation pathway. Data Brief 2017 Jun;12:261-268. PMID: 28462364
  • Filiz E, Vatansever R, Ozyigit II et al. Insights into a key sulfite scavenger enzyme sulfite oxidase (SOX) gene in plants. Physiol Mol Biol Plants 2017 Apr;23(2):385-395. PMID: 28461726
  • Bhinge K, Yang L, Terra S, Nasir A et al. EGFR mediates activation of RET in lung adenocarcinoma with neuroendocrine differentiation characterized by ASCL1 expression. Oncotarget 2017 Apr 18;8(16):27155-27165. PMID: 28460442
  • Forero DA, Guio-Vega GP, González-Giraldo Y et al. A comprehensive regional analysis of genome-wide expression profiles for major depressive disorder. J Affect Disord 2017 Aug 15;218:86-92. PMID: 28460316
  • Wang T, Tang H et al. The physical characteristics of human proteins in different biological functions. PLoS One 2017;12(5):e0176234. PMID: 28459865
  • Olsen RR, Otero JH, García-López J, Wallace K et al. MYCN induces neuroblastoma in primary neural crest cells. Oncogene 2017 Aug 31;36(35):5075-5082. PMID: 28459463
  • Tsai SQ, Nguyen NT, Malagon-Lopez J, Topkar VV et al. CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets. Nat Methods 2017 Jun;14(6):607-614. PMID: 28459458
  • Hendrickson PG, Doráis JA, Grow EJ, Whiddon JL et al. Conserved roles of mouse DUX and human DUX4 in activating cleavage-stage genes and MERVL/HERVL retrotransposons. Nat Genet 2017 Jun;49(6):925-934. PMID: 28459457
  • Rizvi AH, Camara PG, Kandror EK, Roberts TJ et al. Single-cell topological RNA-seq analysis reveals insights into cellular differentiation and development. Nat Biotechnol 2017 Jun;35(6):551-560. PMID: 28459448
  • Choi H, Ignacio RMC, Lee ES, Wilson AJ et al. Augmented Serum Amyloid A1/2 Mediated by TNF-induced NF-κB in Human Serous Ovarian Epithelial Tumors. Immune Netw 2017 Apr;17(2):121-127. PMID: 28458624
  • Torre C, Abnave P, Tsoumtsa LL, Mottola G et al. Staphylococcus aureus Promotes Smed-PGRP-2/Smed-setd8-1 Methyltransferase Signalling in Planarian Neoblasts to Sensitize Anti-bacterial Gene Responses During Re-infection. EBioMedicine 2017 Jun;20:150-160. PMID: 28456423
  • Eskiocak B, McMillan EA, Mendiratta S, Kollipara RK et al. Biomarker Accessible and Chemically Addressable Mechanistic Subtypes of BRAF Melanoma. Cancer Discov 2017 Aug;7(8):832-851. PMID: 28455392
  • Marranci A, Jiang Z, Vitiello M, Guzzolino E et al. The landscape of BRAF transcript and protein variants in human cancer. Mol Cancer 2017 Apr 28;16(1):85. PMID: 28454577
  • Chakravorty D, Jana T, Das Mandal S, Seth A et al. MYCbase: a database of functional sites and biochemical properties of Myc in both normal and cancer cells. BMC Bioinformatics 2017 Apr 28;18(1):224. PMID: 28454513
  • Choo DW, Goh SH, Cho YW, Baek HJ et al. CHK2 is involved in the p53-independent radiosensitizing effects of valproic acid. Oncol Lett 2017 Apr;13(4):2591-2598. PMID: 28454438
  • Ding X, Wang X, Gong Y, Ruan H et al. KLF7 overexpression in human oral squamous cell carcinoma promotes migration and epithelial-mesenchymal transition. Oncol Lett 2017 Apr;13(4):2281-2289. PMID: 28454392
  • Xiang Y, Li F, Wang L, Zheng A et al. Decreased calpain 6 expression is associated with tumorigenesis and poor prognosis in HNSCC. Oncol Lett 2017 Apr;13(4):2237-2243. PMID: 28454386
  • Zhu C, Mustafa D, Zheng PP, van der Weiden M et al. Activation of CECR1 in M2-like TAMs promotes paracrine stimulation-mediated glial tumor progression. Neuro Oncol 2017 May 1;19(5):648-659. PMID: 28453746
  • Shi Y, Yang F, Wei S, Xu G et al. Identification of Key Genes Affecting Results of Hyperthermia in Osteosarcoma Based on Integrative ChIP-Seq/TargetScan Analysis. Med Sci Monit 2017 Apr 28;23:2042-2048. PMID: 28453502
  • Kim E, Lee I et al. Network-Based Gene Function Prediction in Mouse and Other Model Vertebrates Using MouseNet Server. Methods Mol Biol 2017;1611:183-198. PMID: 28451980
  • Bell JSK, Vertino PM et al. Orphan CpG islands define a novel class of highly active enhancers. Epigenetics 2017 Jun 3;12(6):449-464. PMID: 28448736
  • Radley AH, Schwab RM, Tan Y, Kim J et al. Assessment of engineered cells using CellNet and RNA-seq. Nat Protoc 2017 May;12(5):1089-1102. PMID: 28448485
  • Li C, Yin Y, Liu X, Xi X et al. Non-small cell lung cancer associated microRNA expression signature: integrated bioinformatics analysis, validation and clinical significance. Oncotarget 2017 Apr 11;8(15):24564-24578. PMID: 28445945
  • Merkle FT, Ghosh S, Kamitaki N, Mitchell J et al. Human pluripotent stem cells recurrently acquire and expand dominant negative P53 mutations. Nature 2017 May 11;545(7653):229-233. PMID: 28445466
  • Song P, Jiang B, Liu Z, Ding J et al. A three-lncRNA expression signature associated with the prognosis of gastric cancer patients. Cancer Med 2017 Jun;6(6):1154-1164. PMID: 28444881
  • da Silva Junior ED, Sato M, Merlin J, Broxton N et al. Factors influencing biased agonism in recombinant cells expressing the human α(1A) -adrenoceptor. Br J Pharmacol 2017 Jul;174(14):2318-2333. PMID: 28444738
  • Zhang J, Cheng Y, Duan M, Qi N et al. Unveiling differentially expressed genes upon regulation of transcription factors in sepsis. 3 Biotech 2017 May;7(1):46. PMID: 28444588
  • Feng G, Burleigh JG, Braun EL, Mei W et al. Evolution of the 3R-MYB Gene Family in Plants. Genome Biol Evol 2017 Apr 1;9(4):1013-1029. PMID: 28444194
  • Miao R, Leng D, Wang Y, Li JF et al. [Differentially expressed genes analysis in expression profile data of pulmonary fibrosis with pulmonary hypertension]. Zhonghua Yi Xue Za Zhi 2017 Apr 25;97(16):1240-1243. PMID: 28441853
  • Navarro G, Martínez-Pinilla E, Sánchez-Melgar A, Ortiz R et al. A genomics approach identifies selective effects of trans-resveratrol in cerebral cortex neuron and glia gene expression. PLoS One 2017;12(4):e0176067. PMID: 28441400
  • Wang B, He L, Miao W, Wu G et al. Identification of key genes associated with Schmid-type metaphyseal chondrodysplasia based on microarray data. Int J Mol Med 2017 Jun;39(6):1428-1436. PMID: 28440393
  • Pan F, Wingo TS, Zhao Z, Gao R et al. Tet2 loss leads to hypermutagenicity in haematopoietic stem/progenitor cells. Nat Commun 2017 Apr 25;8:15102. PMID: 28440315
  • Suh HC, Benoukraf T, Shyamsunder P, Yin T et al. LPS independent activation of the pro-inflammatory receptor Trem1 by C/EBPε in granulocytes. Sci Rep 2017 Apr 25;7:46440. PMID: 28440307
  • Gandy LM, Gumm J, Fertig B, Thessen A et al. Synthesizer: Expediting synthesis studies from context-free data with information retrieval techniques. PLoS One 2017;12(4):e0175860. PMID: 28437440
  • Day FR, Thompson DJ, Helgason H, Chasman DI et al. Genomic analyses identify hundreds of variants associated with age at menarche and support a role for puberty timing in cancer risk. Nat Genet 2017 Jun;49(6):834-841. PMID: 28436984
  • Cha Y, Han MJ, Cha HJ, Zoldan J et al. Metabolic control of primed human pluripotent stem cell fate and function by the miR-200c-SIRT2 axis. Nat Cell Biol 2017 May;19(5):445-456. PMID: 28436968
  • Ni Y, Song C, Jin S, Chen Z et al. Gene set enrichment analysis: A genome-wide expression profile-based strategy for discovering functional microRNA-disease relationships. J Int Med Res 2018 Feb;46(2):596-611. PMID: 28436302
  • Zhou TJ, Zhang SL, He CY, Zhuang QY et al. Downregulation of mitochondrial cyclooxygenase-2 inhibits the stemness of nasopharyngeal carcinoma by decreasing the activity of dynamin-related protein 1. Theranostics 2017;7(5):1389-1406. PMID: 28435473
  • Severson KS, Xu D, Van de Loo M, Bai L et al. Active Touch and Self-Motion Encoding by Merkel Cell-Associated Afferents. Neuron 2017 May 3;94(3):666-676.e9. PMID: 28434802
  • Zhou Q, Liu M, Xia X, Gong T et al. A mouse tissue transcription factor atlas. Nat Commun 2017 Apr 21;8:15089. PMID: 28429721
  • Jagannath V, Marinova Z, Monoranu CM, Walitza S et al. Expression of D-Amino Acid Oxidase (DAO/DAAO) and D-Amino Acid Oxidase Activator (DAOA/G72) during Development and Aging in the Human Post-mortem Brain. Front Neuroanat 2017;11:31. PMID: 28428746
  • Diaz-Beltran L, Esteban FJ, Varma M, Ortuzk A et al. Cross-disorder comparative analysis of comorbid conditions reveals novel autism candidate genes. BMC Genomics 2017 Apr 20;18(1):315. PMID: 28427329
  • Yang W, Li Y, Song X, Xu J et al. Genome-wide analysis of long noncoding RNA and mRNA co-expression profile in intrahepatic cholangiocarcinoma tissue by RNA sequencing. Oncotarget 2017 Apr 18;8(16):26591-26599. PMID: 28427159
  • Kuramoto J, Arai E, Tian Y, Funahashi N et al. Genome-wide DNA methylation analysis during non-alcoholic steatohepatitis-related multistage hepatocarcinogenesis: comparison with hepatitis virus-related carcinogenesis. Carcinogenesis 2017 Mar 1;38(3):261-270. PMID: 28426876
  • Penrose HM, Heller S, Cable C, Nakhoul H et al. High-fat diet induced leptin and Wnt expression: RNA-sequencing and pathway analysis of mouse colonic tissue and tumors. Carcinogenesis 2017 Mar 1;38(3):302-311. PMID: 28426873
  • Cai G, Xiao F, Cheng C, Li Y et al. Population effect model identifies gene expression predictors of survival outcomes in lung adenocarcinoma for both Caucasian and Asian patients. PLoS One 2017;12(4):e0175850. PMID: 28426704
  • Han T, Dong H, Cui J, Li M et al. Genomic, Molecular Evolution, and Expression Analysis of Genes Encoding Putative Classical AGPs, Lysine-Rich AGPs, and AG Peptides in Brassica rapa. Front Plant Sci 2017;8:397. PMID: 28424711
  • Santiago JA, Potashkin JA et al. Blood Transcriptomic Meta-analysis Identifies Dysregulation of Hemoglobin and Iron Metabolism in Parkinson' Disease. Front Aging Neurosci 2017;9:73. PMID: 28424608
  • Purhonen J, Rajendran J, Mörgelin M, Uusi-Rauva K et al. Ketogenic diet attenuates hepatopathy in mouse model of respiratory chain complex III deficiency caused by a Bcs1l mutation. Sci Rep 2017 Apr 19;7(1):957. PMID: 28424480
  • Qian Z, Zhang G, Song G, Shi J et al. Integrated analysis of genes associated with poor prognosis of patients with colorectal cancer liver metastasis. Oncotarget 2017 Apr 11;8(15):25500-25512. PMID: 28424419
  • Zhao S, Fang S, Liu Y, Li X et al. The long non-coding RNA NONHSAG026900 predicts prognosis as a favorable biomarker in patients with diffuse large B-cell lymphoma. Oncotarget 2017 May 23;8(21):34374-34386. PMID: 28423735
  • Gao W, Li ZH, Chen S, Chan JY et al. Epstein-Barr virus encoded microRNA BART7 regulates radiation sensitivity of nasopharyngeal carcinoma. Oncotarget 2017 Mar 21;8(12):20297-20308. PMID: 28423621
  • Pei YF, Zhang YJ, Lei Y, Wu WD et al. Hypermethylation of the CHRDL1 promoter induces proliferation and metastasis by activating Akt and Erk in gastric cancer. Oncotarget 2017 Apr 4;8(14):23155-23166. PMID: 28423564
  • Pérez-Peña J, Alcaraz-Sanabria A, Nieto-Jiménez C, Páez R et al. Mitotic read-out genes confer poor outcome in luminal A breast cancer tumors. Oncotarget 2017 Mar 28;8(13):21733-21740. PMID: 28423514
  • Li L, Lu J, Xue W, Wang L et al. Target of obstructive sleep apnea syndrome merge lung cancer: based on big data platform. Oncotarget 2017 Mar 28;8(13):21567-21578. PMID: 28423489
  • Tummala KS, Brandt M, Teijeiro A, Graña O et al. Hepatocellular Carcinomas Originate Predominantly from Hepatocytes and Benign Lesions from Hepatic Progenitor Cells. Cell Rep 2017 Apr 18;19(3):584-600. PMID: 28423321
  • Rauschert I, Aldunate F, Preussner J, Arocena-Sutz M et al. Promoter hypermethylation as a mechanism for Lamin A/C silencing in a subset of neuroblastoma cells. PLoS One 2017;12(4):e0175953. PMID: 28422997
  • Matthijs M, Fabris M, Obata T, Foubert I et al. The transcription factor bZIP14 regulates the TCA cycle in the diatom Phaeodactylum tricornutum. EMBO J 2017 Jun 1;36(11):1559-1576. PMID: 28420744
  • Nikumbh S, Pfeifer N et al. Genetic sequence-based prediction of long-range chromatin interactions suggests a potential role of short tandem repeat sequences in genome organization. BMC Bioinformatics 2017 Apr 18;18(1):218. PMID: 28420341
  • Carrà G, Panuzzo C, Torti D, Parvis G et al. Therapeutic inhibition of USP7-PTEN network in chronic lymphocytic leukemia: a strategy to overcome TP53 mutated/deleted clones. Oncotarget 2017 May 30;8(22):35508-35522. PMID: 28418900
  • Bacher R, Chu LF, Leng N, Gasch AP et al. SCnorm: robust normalization of single-cell RNA-seq data. Nat Methods 2017 Jun;14(6):584-586. PMID: 28418000
  • Jia Q, Xiao ZX, Wong FL, Sun S et al. Genome-Wide Analyses of the Soybean F-Box Gene Family in Response to Salt Stress. Int J Mol Sci 2017 Apr 12;18(4). PMID: 28417911
  • Kathiriya JJ, Nakra N, Nixon J, Patel PS et al. Galectin-1 inhibition attenuates profibrotic signaling in hypoxia-induced pulmonary fibrosis. Cell Death Discov 2017;3:17010. PMID: 28417017
  • Li CY, Xiong DD, Huang CQ, He RQ et al. Clinical Value of miR-101-3p and Biological Analysis of its Prospective Targets in Breast Cancer: A Study Based on The Cancer Genome Atlas (TCGA) and Bioinformatics. Med Sci Monit 2017 Apr 18;23:1857-1871. PMID: 28416776
  • Mayerle M, Raghavan M, Ledoux S, Price A et al. Structural toggle in the RNaseH domain of Prp8 helps balance splicing fidelity and catalytic efficiency. Proc Natl Acad Sci U S A 2017 May 2;114(18):4739-4744. PMID: 28416677
  • Foskolou IP, Jorgensen C, Leszczynska KB, Olcina MM et al. Ribonucleotide Reductase Requires Subunit Switching in Hypoxia to Maintain DNA Replication. Mol Cell 2017 Apr 20;66(2):206-220.e9. PMID: 28416140
  • Koshizuka K, Nohata N, Hanazawa T, Kikkawa N et al. Deep sequencing-based microRNA expression signatures in head and neck squamous cell carcinoma: dual strands of pre-miR-150 as antitumor miRNAs. Oncotarget 2017 May 2;8(18):30288-30304. PMID: 28415821
  • Zeng JH, Xiong DD, Pang YY, Zhang Y et al. Identification of molecular targets for esophageal carcinoma diagnosis using miRNA-seq and RNA-seq data from The Cancer Genome Atlas: a study of 187 cases. Oncotarget 2017 May 30;8(22):35681-35699. PMID: 28415685
  • Hou Q, Liao F, Zhang S, Zhang D et al. Regulatory network of GATA3 in pediatric acute lymphoblastic leukemia. Oncotarget 2017 May 30;8(22):36040-36053. PMID: 28415601
  • Feng L, Houck JR, Lohavanichbutr P, Chen C et al. Transcriptome analysis reveals differentially expressed lncRNAs between oral squamous cell carcinoma and healthy oral mucosa. Oncotarget 2017 May 9;8(19):31521-31531. PMID: 28415559
  • Ahn J, Park YJ, Chen P, Lee TJ et al. Comparative expression profiling of testis-enriched genes regulated during the development of spermatogonial cells. PLoS One 2017;12(4):e0175787. PMID: 28414809
  • Alkhateeb A, Rueda L et al. Zseq: An Approach for Preprocessing Next-Generation Sequencing Data. J Comput Biol 2017 Aug;24(8):746-755. PMID: 28414515
  • Ho ES, Newsom-Stewart CM, Diarra L, McCauley CS et al. gb4gv: a genome browser for geminivirus. PeerJ 2017;5:e3165. PMID: 28413726
  • Mackeh R, Boughorbel S, Chaussabel D, Kino T et al. -A curated transcriptomic dataset collection relevant to embryonic development associated with in vitro fertilization in healthy individuals and patients with polycystic ovary syndrome. F1000Res 2017;6:181. PMID: 28413616
  • Bennett BD, Bushel PR et al. goSTAG: gene ontology subtrees to tag and annotate genes within a set. Source Code Biol Med 2017;12:6. PMID: 28413437
  • Huang QL, Zhou FJ, Wu CB, Xu C et al. Circulating Biomarkers for Predicting Infliximab Response in Rheumatoid Arthritis: A Systematic Bioinformatics Analysis. Med Sci Monit 2017 Apr 17;23:1849-1855. PMID: 28413214
  • Yang H, Adam RC, Ge Y, Hua ZL et al. Epithelial-Mesenchymal Micro-niches Govern Stem Cell Lineage Choices. Cell 2017 Apr 20;169(3):483-496.e13. PMID: 28413068
  • Lim VY, Zehentmeier S, Fistonich C, Pereira JP et al. A Chemoattractant-Guided Walk Through Lymphopoiesis: From Hematopoietic Stem Cells to Mature B Lymphocytes. Adv Immunol 2017;134:47-88. PMID: 28413023
  • Tham A, Lullo D, Dalton S, Zeng S et al. Modeling vascular inflammation and atherogenicity after inhalation of ambient levels of ozone: exploratory lessons from transcriptomics. Inhal Toxicol 2017 Feb;29(3):96-105. PMID: 28412860
  • Izzi V, Lakkala J, Devarajan R, Ruotsalainen H et al. An extracellular matrix signature in leukemia precursor cells and acute myeloid leukemia. Haematologica 2017 Jul;102(7):e245-e248. PMID: 28411251
  • Gray SM, Amezquita RA, Guan T, Kleinstein SH et al. Polycomb Repressive Complex 2-Mediated Chromatin Repression Guides Effector CD8(+) T Cell Terminal Differentiation and Loss of Multipotency. Immunity 2017 Apr 18;46(4):596-608. PMID: 28410989
  • Panopoulos AD, D'Antonio M, Benaglio P, Williams R et al. iPSCORE: A Resource of 222 iPSC Lines Enabling Functional Characterization of Genetic Variation across a Variety of Cell Types. Stem Cell Reports 2017 Apr 11;8(4):1086-1100. PMID: 28410642
  • Tonry C, Armstrong J, Pennington S et al. Probing the prostate tumour microenvironment II: Impact of hypoxia on a cell model of prostate cancer progression. Oncotarget 2017 Feb 28;8(9):15307-15337. PMID: 28410543
  • Plass M, Rasmussen SH, Krogh A et al. Highly accessible AU-rich regions in 3' untranslated regions are hotspots for binding of regulatory factors. PLoS Comput Biol 2017 Apr;13(4):e1005460. PMID: 28410363
  • Shi Z, Zhou H, Pan B, Lu L et al. Exploring the key genes and pathways in enchondromas using a gene expression microarray. Oncotarget 2017 Jul 4;8(27):43967-43977. PMID: 28410203
  • Cho SY, Park C, Na D, Han JY et al. High prevalence of TP53 mutations is associated with poor survival and an EMT signature in gliosarcoma patients. Exp Mol Med 2017 Apr 14;49(4):e317. PMID: 28408749
  • Song HB, Jun HO, Kim JH, Lee YH et al. Disruption of outer blood-retinal barrier by Toxoplasma gondii-infected monocytes is mediated by paracrinely activated FAK signaling. PLoS One 2017;12(4):e0175159. PMID: 28406972
  • Lee K, Lee S, Bang H, Choi JK et al. Predictive long-range allele-specific mapping of regulatory variants and target transcripts. PLoS One 2017;12(4):e0175768. PMID: 28406955
  • Cole SL, Dunning J, Kok WL, Benam KH et al. M1-like monocytes are a major immunological determinant of severity in previously healthy adults with life-threatening influenza. JCI Insight 2017 Apr 6;2(7):e91868. PMID: 28405622
  • Katewa A, Wang Y, Hackney JA, Huang T et al. Btk-specific inhibition blocks pathogenic plasma cell signatures and myeloid cell-associated damage in IFNα-driven lupus nephritis. JCI Insight 2017 Apr 6;2(7):e90111. PMID: 28405610
  • Tosolini M, Pont F, Poupot M, Vergez F et al. Assessment of tumor-infiltrating TCRVγ9Vδ2 γδ lymphocyte abundance by deconvolution of human cancers microarrays. Oncoimmunology 2017;6(3):e1284723. PMID: 28405516
  • Scales M, Chubb D, Dobbins SE, Johnson DC et al. Search for rare protein altering variants influencing susceptibility to multiple myeloma. Oncotarget 2017 May 30;8(22):36203-36210. PMID: 28404951
  • Ge J, Yu Y, Xin F, Yang ZJ et al. Downregulation of delta-aminolevulinate dehydratase is associated with poor prognosis in patients with breast cancer. Cancer Sci 2017 Apr;108(4):604-611. PMID: 28403546
  • Stegmann C, Hochdorfer D, Lieber D, Subramanian N et al. A derivative of platelet-derived growth factor receptor alpha binds to the trimer of human cytomegalovirus and inhibits entry into fibroblasts and endothelial cells. PLoS Pathog 2017 Apr;13(4):e1006273. PMID: 28403220
  • Li Y, Wang J, Yin J, Liu X et al. Chromatin state dynamics during NK cell activation. Oncotarget 2017 Jun 27;8(26):41854-41865. PMID: 28402957
  • Sun X, Pittard WS, Xu T, Chen L et al. Omicseq: a web-based search engine for exploring omics datasets. Nucleic Acids Res 2017 Jul 3;45(W1):W445-W452. PMID: 28402462
  • Shields BD, Mahmoud F, Taylor EM, Byrum SD et al. Indicators of responsiveness to immune checkpoint inhibitors. Sci Rep 2017 Apr 11;7(1):807. PMID: 28400597
  • Boulos RE, Tremblay N, Arneodo A, Borgnat P et al. Multi-scale structural community organisation of the human genome. BMC Bioinformatics 2017 Apr 11;18(1):209. PMID: 28399820
  • Jia X, Zhu G, Han Q, Lu Z et al. The biological knowledge discovery by PCCF measure and PCA-F projection. PLoS One 2017;12(4):e0175104. PMID: 28399180
  • Hopkins BL, Nadler M, Skoko JJ, Bertomeu T et al. A Peroxidase Peroxiredoxin 1-Specific Redox Regulation of the Novel FOXO3 microRNA Target let-7. Antioxid Redox Signal 2018 Jan 1;28(1):62-77. PMID: 28398822
  • Zhou X, Meng G, Nardini C, Mei H et al. Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc. Bioinformatics 2017 Aug 15;33(16):2532-2538. PMID: 28398503
  • Collado-Torres L, Nellore A, Kammers K, Ellis SE et al. Reproducible RNA-seq analysis using recount2. Nat Biotechnol 2017 Apr 11;35(4):319-321. PMID: 28398307
  • Zhang X, Ye ZH, Liang HW, Ren FH et al. Down-regulation of miR-146a-5p and its potential targets in hepatocellular carcinoma validated by a TCGA- and GEO-based study. FEBS Open Bio 2017 Apr;7(4):504-521. PMID: 28396836
  • Ciryam P, Lambert-Smith IA, Bean DM, Freer R et al. Spinal motor neuron protein supersaturation patterns are associated with inclusion body formation in ALS. Proc Natl Acad Sci U S A 2017 May 16;114(20):E3935-E3943. PMID: 28396410
  • Angermueller C, Lee HJ, Reik W, Stegle O et al. DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning. Genome Biol 2017 Apr 11;18(1):67. PMID: 28395661
  • Snyder EM, Licht K, Braun RE et al. Testicular adenosine to inosine RNA editing in the mouse is mediated by ADARB1. Biol Reprod 2017 Jan 1;96(1):244-253. PMID: 28395340
  • Yu T, Ma Y, Wang H et al. EpCAM Intracellular Domain Promotes Porcine Cell Reprogramming by Upregulation of Pluripotent Gene Expression via Beta-catenin Signaling. Sci Rep 2017 Apr 10;7:46315. PMID: 28393933
  • He B, He Y, Shi W, Gong S et al. Bioinformatics analysis of gene expression alterations in microRNA‑122 knockout mice with hepatocellular carcinoma. Mol Med Rep 2017 Jun;15(6):3681-3689. PMID: 28393247
  • Bhowmick R, Subramanian A, Sarkar RR et al. Exploring the differences in metabolic behavior of astrocyte and glioblastoma: a flux balance analysis approach. Syst Synth Biol 2015 Dec;9(4):159-177. PMID: 28392849
  • Yang C, Zhao X, Cui N, Liang Y et al. Cadherins Associate with Distinct Stem Cell-Related Transcription Factors to Coordinate the Maintenance of Stemness in Triple-Negative Breast Cancer. Stem Cells Int 2017;2017:5091541. PMID: 28392805
  • Zhu Z, Zhang M, Shao W, Wang P et al. Immunoglobulin M, a novel molecule of myocardial cells of mice. Int J Biochem Cell Biol 2017 Jul;88:172-180. PMID: 28392377
  • Seiler R, Ashab HAD, Erho N, van Rhijn BWG et al. Impact of Molecular Subtypes in Muscle-invasive Bladder Cancer on Predicting Response and Survival after Neoadjuvant Chemotherapy. Eur Urol 2017 Oct;72(4):544-554. PMID: 28390739
  • Xue C, Zhang X, Zhang H, Ferguson JF et al. De novo RNA sequence assembly during in vivo inflammatory stress reveals hundreds of unannotated lincRNAs in human blood CD14(+) monocytes and in adipose tissue. Physiol Genomics 2017 Jun 1;49(6):287-305. PMID: 28389524
  • Pashos EE, Park Y, Wang X, Raghavan A et al. Large, Diverse Population Cohorts of hiPSCs and Derived Hepatocyte-like Cells Reveal Functional Genetic Variation at Blood Lipid-Associated Loci. Cell Stem Cell 2017 Apr 6;20(4):558-570.e10. PMID: 28388432
  • Johnson ND, Wiener HW, Smith AK, Nishitani S et al. Non-linear patterns in age-related DNA methylation may reflect CD4(+) T cell differentiation. Epigenetics 2017 Jun 3;12(6):492-503. PMID: 28387568
  • Hada M, Masuda K, Yamaguchi K, Shirahige K et al. Identification of a variant-specific phosphorylation of TH2A during spermiogenesis. Sci Rep 2017 Apr 7;7:46228. PMID: 28387373
  • Li S, Yu X, Lei N, Cheng Z et al. Genome-wide identification and functional prediction of cold and/or drought-responsive lncRNAs in cassava. Sci Rep 2017 Apr 7;7:45981. PMID: 28387315
  • Marco E, Meuleman W, Huang J, Glass K et al. Multi-scale chromatin state annotation using a hierarchical hidden Markov model. Nat Commun 2017 Apr 7;8:15011. PMID: 28387224
  • Qixing M, Juqing X, Yajing W, Gaochao D et al. The expression levels of CYP3A4 and CYP3A5 serve as potential prognostic biomarkers in lung adenocarcinoma. Tumour Biol 2017 Apr;39(4):1010428317698340. PMID: 28381170
  • Tang Y, He Y, Shi L, Yang L et al. Co-expression of AFAP1-AS1 and PD-1 predicts poor prognosis in nasopharyngeal carcinoma. Oncotarget 2017 Jun 13;8(24):39001-39011. PMID: 28380458
  • Krishnaiah SY, Wu G, Altman BJ, Growe J et al. Clock Regulation of Metabolites Reveals Coupling between Transcription and Metabolism. Cell Metab 2017 Apr 4;25(4):961-974.e4. PMID: 28380384
  • Wang Q, Shi CJ, Lv SH et al. Benchmarking pathway interaction network for colorectal cancer to identify dysregulated pathways. Braz J Med Biol Res 2017 Mar 30;50(5):e5981. PMID: 28380197
  • Zhou J, Zhang S, Wang H, Sun H et al. LncFunNet: an integrated computational framework for identification of functional long noncoding RNAs in mouse skeletal muscle cells. Nucleic Acids Res 2017 Jul 7;45(12):e108. PMID: 28379566
  • Talkhabi M, Razavi SM, Salari A et al. Global transcriptomic analysis of induced cardiomyocytes predicts novel regulators for direct cardiac reprogramming. J Cell Commun Signal 2017 Jun;11(2):193-204. PMID: 28378126
  • McBee ME, Chionh YH, Sharaf ML, Ho P et al. Production of Superoxide in Bacteria Is Stress- and Cell State-Dependent: A Gating-Optimized Flow Cytometry Method that Minimizes ROS Measurement Artifacts with Fluorescent Dyes. Front Microbiol 2017;8:459. PMID: 28377755
  • Rouka E, Vavougios GD, Solenov EI, Gourgoulianis KI et al. Transcriptomic Analysis of the Claudin Interactome in Malignant Pleural Mesothelioma: Evaluation of the Effect of Disease Phenotype, Asbestos Exposure, and CDKN2A Deletion Status. Front Physiol 2017;8:156. PMID: 28377727
  • Duguet F, Locard-Paulet M, Marcellin M, Chaoui K et al. Proteomic Analysis of Regulatory T Cells Reveals the Importance of Themis1 in the Control of Their Suppressive Function. Mol Cell Proteomics 2017 Aug;16(8):1416-1432. PMID: 28373295
  • Batiuk MY, de Vin F, Duqué SI, Li C et al. An immunoaffinity-based method for isolating ultrapure adult astrocytes based on ATP1B2 targeting by the ACSA-2 antibody. J Biol Chem 2017 May 26;292(21):8874-8891. PMID: 28373281
  • Chae DK, Ban E, Yoo YS, Kim EE et al. MIR-27a regulates the TGF-β signaling pathway by targeting SMAD2 and SMAD4 in lung cancer. Mol Carcinog 2017 Aug;56(8):1992-1998. PMID: 28370334
  • Davis B, Schwartz M, Duchemin D, Carl Barrett J et al. Validation of a Multiplexed Gene Signature Assay for Diagnosis of Canine Cancers from Formalin-Fixed Paraffin-Embedded Tissues. J Vet Intern Med 2017 May;31(3):854-863. PMID: 28370296
  • Xie XJ, Liu P, Cai CD, Zhuang YR et al. The Generation and Validation of a 20-Genes Model Influencing the Prognosis of Colorectal Cancer. J Cell Biochem 2017 Nov;118(11):3675-3685. PMID: 28370286
  • Cha Y, Erez T, Reynolds IJ, Kumar D et al. Drug repurposing from the perspective of pharmaceutical companies. Br J Pharmacol 2018 Jan;175(2):168-180. PMID: 28369768
  • Liu K, Tan LJ, Wang P, Chen XD et al. Functional relevance for associations between osteoporosis and genetic variants. PLoS One 2017;12(4):e0174808. PMID: 28369098
  • Hsu MK, Lin HY, Chen FC et al. NMD Classifier: A reliable and systematic classification tool for nonsense-mediated decay events. PLoS One 2017;12(4):e0174798. PMID: 28369084
  • Gu S, Xie R, Liu X, Shou J et al. Long Coding RNA XIST Contributes to Neuronal Apoptosis through the Downregulation of AKT Phosphorylation and Is Negatively Regulated by miR-494 in Rat Spinal Cord Injury. Int J Mol Sci 2017 Apr 1;18(4). PMID: 28368292
  • Ashikawa Y, Nishimura Y, Okabe S, Sato Y et al. Potential protective function of the sterol regulatory element binding factor 1-fatty acid desaturase 1/2 axis in early-stage age-related macular degeneration. Heliyon 2017 Mar;3(3):e00266. PMID: 28367511
  • Koduru SV, Tiwari AK, Leberfinger A, Hazard SW et al. A Comprehensive NGS Data Analysis of Differentially Regulated miRNAs, piRNAs, lncRNAs and sn/snoRNAs in Triple Negative Breast Cancer. J Cancer 2017;8(4):578-596. PMID: 28367238
  • Jin H, Wan YW, Liu Z et al. Comprehensive evaluation of RNA-seq quantification methods for linearity. BMC Bioinformatics 2017 Mar 22;18(Suppl 4):117. PMID: 28361706
  • Chen W, Liu J, He S et al. Prior knowledge guided active modules identification: an integrated multi-objective approach. BMC Syst Biol 2017 Mar 14;11(Suppl 2):8. PMID: 28361699
  • Yang Y, Huang N, Hao L, Kong W et al. A clustering-based approach for efficient identification of microRNA combinatorial biomarkers. BMC Genomics 2017 Mar 14;18(Suppl 2):210. PMID: 28361698
  • Moon JH, Lim S, Jo K, Lee S et al. PINTnet: construction of condition-specific pathway interaction network by computing shortest paths on weighted PPI. BMC Syst Biol 2017 Mar 14;11(Suppl 2):15. PMID: 28361687
  • Mulas F, Li A, Sherr DH, Monti S et al. Network-based analysis of transcriptional profiles from chemical perturbations experiments. BMC Bioinformatics 2017 Mar 23;18(Suppl 5):130. PMID: 28361664
  • Buckley DA, Jennings EM, Burke NN, Roche M et al. The Development of Translational Biomarkers as a Tool for Improving the Understanding, Diagnosis and Treatment of Chronic Neuropathic Pain. Mol Neurobiol 2018 Mar;55(3):2420-2430. PMID: 28361271
  • Nim HT, Furtado MB, Ramialison M, Boyd SE et al. Combinatorial Ranking of Gene Sets to Predict Disease Relapse: The Retinoic Acid Pathway in Early Prostate Cancer. Front Oncol 2017;7:30. PMID: 28361034
  • Sim CK, Kim SY, Brunmeir R, Zhang Q et al. Regulation of white and brown adipocyte differentiation by RhoGAP DLC1. PLoS One 2017;12(3):e0174761. PMID: 28358928
  • Thuy TD, Phan NN, Wang CY, Yu HG et al. Novel therapeutic effects of sesamin on diabetes-induced cardiac dysfunction. Mol Med Rep 2017 May;15(5):2949-2956. PMID: 28358428
  • Cerutti C, Edwards LJ, de Vries HE, Sharrack B et al. MiR-126 and miR-126* regulate shear-resistant firm leukocyte adhesion to human brain endothelium. Sci Rep 2017 Mar 30;7:45284. PMID: 28358058
  • Xu L, Chen Y, Dutra-Clarke M, Mayakonda A et al. BCL6 promotes glioma and serves as a therapeutic target. Proc Natl Acad Sci U S A 2017 Apr 11;114(15):3981-3986. PMID: 28356518
  • Sun M, Song H, Wang S, Zhang C et al. Integrated analysis identifies microRNA-195 as a suppressor of Hippo-YAP pathway in colorectal cancer. J Hematol Oncol 2017 Mar 29;10(1):79. PMID: 28356122
  • Ayuso T, Aznar P, Soriano L, Olaskoaga A et al. Vitamin D receptor gene is epigenetically altered and transcriptionally up-regulated in multiple sclerosis. PLoS One 2017;12(3):e0174726. PMID: 28355272
  • Gao B, Zhang X, Huang Y, Yang Z et al. Coding and non-coding gene regulatory networks underlie the immune response in liver cirrhosis. PLoS One 2017;12(3):e0174142. PMID: 28355233
  • Wang T, Tsui B, Kreisberg JF, Robertson NA et al. Epigenetic aging signatures in mice livers are slowed by dwarfism, calorie restriction and rapamycin treatment. Genome Biol 2017 Mar 28;18(1):57. PMID: 28351423
  • Milioli HH, Tishchenko I, Riveros C, Berretta R et al. Basal-like breast cancer: molecular profiles, clinical features and survival outcomes. BMC Med Genomics 2017 Mar 28;10(1):19. PMID: 28351365
  • Li HM, Yang H, Wen DY, Luo YH et al. Overexpression of LncRNA HOTAIR is Associated with Poor Prognosis in Thyroid Carcinoma: A Study Based on TCGA and GEO Data. Horm Metab Res 2017 May;49(5):388-399. PMID: 28351094
  • Azim K, Angonin D, Marcy G, Pieropan F et al. Pharmacogenomic identification of small molecules for lineage specific manipulation of subventricular zone germinal activity. PLoS Biol 2017 Mar;15(3):e2000698. PMID: 28350803
  • Zhu X, Wang M, Li X, Jiu S et al. Genome-Wide Analysis of the Sucrose Synthase Gene Family in Grape (Vitis vinifera): Structure, Evolution, and Expression Profiles. Genes (Basel) 2017 Mar 28;8(4). PMID: 28350372
  • Guo Y, Bao Y, Ma M, Yang W et al. Identification of Key Candidate Genes and Pathways in Colorectal Cancer by Integrated Bioinformatical Analysis. Int J Mol Sci 2017 Mar 28;18(4). PMID: 28350360
  • Anelli V, Villefranc JA, Chhangawala S, Martinez-McFaline R et al. Oncogenic BRAF disrupts thyroid morphogenesis and function via twist expression. Elife 2017 Mar 28;6. PMID: 28350298
  • Gao Y, Liu X, Li T, Wei L et al. Cross-validation of genes potentially associated with overall survival and drug resistance in ovarian cancer. Oncol Rep 2017 May;37(5):3084-3092. PMID: 28350120
  • Sundaram V, Choudhary MN, Pehrsson E, Xing X et al. Functional cis-regulatory modules encoded by mouse-specific endogenous retrovirus. Nat Commun 2017 Mar 28;8:14550. PMID: 28348391
  • Trescher S, Münchmeyer J, Leser U et al. Estimating genome-wide regulatory activity from multi-omics data sets using mathematical optimization. BMC Syst Biol 2017 Mar 27;11(1):41. PMID: 28347313
  • Gan TQ, Xie ZC, Tang RX, Zhang TT et al. Clinical value of miR-145-5p in NSCLC and potential molecular mechanism exploration: A retrospective study based on GEO, qRT-PCR, and TCGA data. Tumour Biol 2017 Mar;39(3):1010428317691683. PMID: 28347234
  • Kohan-Baghkheirati E, Geisler-Lee J et al. Gene Expression, Protein Function and Pathways of Arabidopsis thaliana Responding to Silver Nanoparticles in Comparison to Silver Ions, Cold, Salt, Drought, and Heat. Nanomaterials (Basel) 2015 Mar 27;5(2):436-467. PMID: 28347022
  • Lajoie M, Drouin S, Caron M, St-Onge P et al. Specific expression of novel long non-coding RNAs in high-hyperdiploid childhood acute lymphoblastic leukemia. PLoS One 2017;12(3):e0174124. PMID: 28346506
  • Zhou S, Liu Y, Ma Y, Zhang X et al. C9ORF135 encodes a membrane protein whose expression is related to pluripotency in human embryonic stem cells. Sci Rep 2017 Mar 27;7:45311. PMID: 28345668
  • Qin X, Lin L, Cao L, Zhang X et al. Extracellular matrix protein Reelin promotes myeloma progression by facilitating tumor cell proliferation and glycolysis. Sci Rep 2017 Mar 27;7:45305. PMID: 28345605
  • Hendrickx W, Simeone I, Anjum S, Mokrab Y et al. Identification of genetic determinants of breast cancer immune phenotypes by integrative genome-scale analysis. Oncoimmunology 2017;6(2):e1253654. PMID: 28344865
  • Quesada-Calvo F, Massot C, Bertrand V, Longuespée R et al. OLFM4, KNG1 and Sec24C identified by proteomics and immunohistochemistry as potential markers of early colorectal cancer stages. Clin Proteomics 2017;14:9. PMID: 28344541
  • Collier AJ, Panula SP, Schell JP, Chovanec P et al. Comprehensive Cell Surface Protein Profiling Identifies Specific Markers of Human Naive and Primed Pluripotent States. Cell Stem Cell 2017 Jun 1;20(6):874-890.e7. PMID: 28343983
  • Yu S, Kim T, Yoo KH, Kang K et al. The T47D cell line is an ideal experimental model to elucidate the progesterone-specific effects of a luminal A subtype of breast cancer. Biochem Biophys Res Commun 2017 May 6;486(3):752-758. PMID: 28342866
  • Lutsik P, Slawski M, Gasparoni G, Vedeneev N et al. MeDeCom: discovery and quantification of latent components of heterogeneous methylomes. Genome Biol 2017 Mar 24;18(1):55. PMID: 28340624
  • Abramowitz J, Neuman T, Perlman R, Ben-Yehuda D et al. Gene and protein analysis reveals that p53 pathway is functionally inactivated in cytogenetically normal Acute Myeloid Leukemia and Acute Promyelocytic Leukemia. BMC Med Genomics 2017 Mar 24;10(1):18. PMID: 28340577
  • Zhu HX, Shi L, Zhang Y, Zhu YC et al. Myocyte enhancer factor 2D provides a cross-talk between chronic inflammation and lung cancer. J Transl Med 2017 Mar 24;15(1):65. PMID: 28340574
  • Peng H, Lan C, Zheng Y, Hutvagner G et al. Cross disease analysis of co-functional microRNA pairs on a reconstructed network of disease-gene-microRNA tripartite. BMC Bioinformatics 2017 Mar 24;18(1):193. PMID: 28340554
  • Trouvé P, Génin E, Férec C et al. In silico search for modifier genes associated with pancreatic and liver disease in Cystic Fibrosis. PLoS One 2017;12(3):e0173822. PMID: 28339466
  • Huang CJ, Lee CL, Liu CY, Huang SH et al. Detection of lower levels of SNAP25 using multiple microarray systems and its functional significance in medulloblastoma. Int J Mol Med 2017 May;39(5):1195-1205. PMID: 28339008
  • Zhu Q, Lv T, Wu Y, Shi X et al. Long non-coding RNA 00312 regulated by HOXA5 inhibits tumour proliferation and promotes apoptosis in Non-small cell lung cancer. J Cell Mol Med 2017 Sep;21(9):2184-2198. PMID: 28338293
  • Kang H, Rho JG, Kim C, Tak H et al. The miR-24-3p/p130Cas: a novel axis regulating the migration and invasion of cancer cells. Sci Rep 2017 Mar 24;7:44847. PMID: 28337997
  • Shen ZG, Liu XZ, Chen CX, Lu JM et al. Knockdown of E2F3 Inhibits Proliferation, Migration, and Invasion and Increases Apoptosis in Glioma Cells. Oncol Res 2017 Nov 2;25(9):1555-1566. PMID: 28337965
  • Yan H, Bi L, Wang Y, Zhang X et al. Integrative analysis of multi-omics data reveals distinct impacts of DDB1-CUL4 associated factors in human lung adenocarcinomas. Sci Rep 2017 Mar 23;7(1):333. PMID: 28336923
  • Oerton E, Bender A et al. Concordance analysis of microarray studies identifies representative gene expression changes in Parkinson's disease: a comparison of 33 human and animal studies. BMC Neurol 2017 Mar 23;17(1):58. PMID: 28335819
  • Fu H, Vadalia N, Xue ER, Johnson C et al. Thrombus leukocytes exhibit more endothelial cell-specific angiogenic markers than peripheral blood leukocytes do in acute coronary syndrome patients, suggesting a possibility of trans-differentiation: a comprehensive database mining study. J Hematol Oncol 2017 Mar 23;10(1):74. PMID: 28335793
  • Qi F, Frishman D et al. Melting temperature highlights functionally important RNA structure and sequence elements in yeast mRNA coding regions. Nucleic Acids Res 2017 Jun 2;45(10):6109-6118. PMID: 28335026
  • Dali R, Blanchette M et al. A critical assessment of topologically associating domain prediction tools. Nucleic Acids Res 2017 Apr 7;45(6):2994-3005. PMID: 28334773
  • Zhang Y, Topham DJ, Thakar J, Qiu X et al. FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis. Bioinformatics 2017 Jul 1;33(13):1944-1952. PMID: 28334094
  • Shen CJ, Kuo YL, Chen CC, Chen MJ et al. MMP1 expression is activated by Slug and enhances multi-drug resistance (MDR) in breast cancer. PLoS One 2017;12(3):e0174487. PMID: 28334049
  • Bhandare S, Goldberg DS, Dowell R et al. Discriminating between HuR and TTP binding sites using the k-spectrum kernel method. PLoS One 2017;12(3):e0174052. PMID: 28333956
  • Altman BJ, Hsieh AL, Gouw AM, Dang CV et al. Correspondence: Oncogenic MYC persistently upregulates the molecular clock component REV-ERBα. Nat Commun 2017 Mar 23;8:14862. PMID: 28332504
  • Taroni JN, Greene CS, Martyanov V, Wood TA et al. A novel multi-network approach reveals tissue-specific cellular modulators of fibrosis in systemic sclerosis. Genome Med 2017 Mar 23;9(1):27. PMID: 28330499
  • Wei L, Yin F, Zhang W, Li L et al. STROBE-compliant integrin through focal adhesion involve in cancer stem cell and multidrug resistance of ovarian cancer. Medicine (Baltimore) 2017 Mar;96(12):e6345. PMID: 28328815
  • Klassen MP, Peters CJ, Zhou S, Williams HH et al. Age-dependent diastolic heart failure in an in vivo Drosophila model. Elife 2017 Mar 22;6. PMID: 28328397
  • Thirunavukkarasu N, Sharma R, Singh N, Shiriga K et al. Genomewide Expression and Functional Interactions of Genes under Drought Stress in Maize. Int J Genomics 2017;2017:2568706. PMID: 28326315
  • Tosar JP, Cayota A, Eitan E, Halushka MK et al. Ribonucleic artefacts: are some extracellular RNA discoveries driven by cell culture medium components? J Extracell Vesicles 2017;6(1):1272832. PMID: 28326168
  • Chao N, Li S, Li N, Qi Q et al. Two distinct cinnamoyl-CoA reductases in Selaginella moellendorffii offer insight into the divergence of CCRs in plants. Planta 2017 Jul;246(1):33-43. PMID: 28321576
  • Buccitelli C, Salgueiro L, Rowald K, Sotillo R et al. Pan-cancer analysis distinguishes transcriptional changes of aneuploidy from proliferation. Genome Res 2017 Apr;27(4):501-511. PMID: 28320919
  • Ku CJ, Sekiguchi JM, Panwar B, Guan Y et al. GATA3 Abundance Is a Critical Determinant of T Cell Receptor β Allelic Exclusion. Mol Cell Biol 2017 Jun 15;37(12). PMID: 28320875
  • Roberts CA, Al-Tameemi HM, Mashruwala AA, Rosario-Cruz Z et al. The Suf Iron-Sulfur Cluster Biosynthetic System Is Essential in Staphylococcus aureus, and Decreased Suf Function Results in Global Metabolic Defects and Reduced Survival in Human Neutrophils. Infect Immun 2017 Jun;85(6). PMID: 28320837
  • Mosaddek Hossain SM, Ray S, Mukhopadhyay A et al. Preservation affinity in consensus modules among stages of HIV-1 progression. BMC Bioinformatics 2017 Mar 20;18(1):181. PMID: 28320358
  • Vlaanderen J, Leenders M, Chadeau-Hyam M, Portengen L et al. Exploring the nature of prediagnostic blood transcriptome markers of chronic lymphocytic leukemia by assessing their overlap with the transcriptome at the clinical stage. BMC Genomics 2017 Mar 20;18(1):239. PMID: 28320322
  • Lurier EB, Dalton D, Dampier W, Raman P et al. Transcriptome analysis of IL-10-stimulated (M2c) macrophages by next-generation sequencing. Immunobiology 2017 Jul;222(7):847-856. PMID: 28318799
  • Zhang B, Chen L, Feng G, Xiang W et al. MicroRNA Mediating Networks in Granulosa Cells Associated with Ovarian Follicular Development. Biomed Res Int 2017;2017:4585213. PMID: 28316977
  • Zhang XL, Han WX, Ma YM, Baohan HW et al. [Expression of tyrosine and threonine protein kinase in carcinogenic process of colorectal cancer and its relationship with prognosis]. Zhonghua Zhong Liu Za Zhi 2017 Mar 23;39(3):172-177. PMID: 28316214
  • Gao H, Wang H, Yang W et al. Identification of key genes and construction of microRNA-mRNA regulatory networks in multiple myeloma by integrated multiple GEO datasets using bioinformatics analysis. Int J Hematol 2017 Jul;106(1):99-107. PMID: 28316065
  • Schon MA, Nodine MD et al. Widespread Contamination of Arabidopsis Embryo and Endosperm Transcriptome Data Sets. Plant Cell 2017 Apr;29(4):608-617. PMID: 28314828
  • Wang X, Goodrich KJ, Gooding AR, Naeem H et al. Targeting of Polycomb Repressive Complex 2 to RNA by Short Repeats of Consecutive Guanines. Mol Cell 2017 Mar 16;65(6):1056-1067.e5. PMID: 28306504
  • Fagone P, Caltabiano R, Russo A, Lupo G et al. Identification of novel chemotherapeutic strategies for metastatic uveal melanoma. Sci Rep 2017 Mar 17;7:44564. PMID: 28303962
  • Mou T, Zhu D, Wei X, Li T et al. Identification and interaction analysis of key genes and microRNAs in hepatocellular carcinoma by bioinformatics analysis. World J Surg Oncol 2017 Mar 16;15(1):63. PMID: 28302149
  • Tchagang AB, Fauteux F, Tulpan D, Pan Y et al. Bioinformatics identification of new targets for improving low temperature stress tolerance in spring and winter wheat. BMC Bioinformatics 2017 Mar 16;18(1):174. PMID: 28302069
  • Huang D, Ovcharenko I et al. Epigenetic and genetic alterations and their influence on gene regulation in chronic lymphocytic leukemia. BMC Genomics 2017 Mar 16;18(1):236. PMID: 28302063
  • Eicher JD, Chen MH, Pitsillides AN, Lin H et al. Whole exome sequencing in the Framingham Heart Study identifies rare variation in HYAL2 that influences platelet aggregation. Thromb Haemost 2017 Jun 2;117(6):1083-1092. PMID: 28300864
  • Tseng LM, Chiu JH, Liu CY, Tsai YF et al. A comparison of the molecular subtypes of triple-negative breast cancer among non-Asian and Taiwanese women. Breast Cancer Res Treat 2017 Jun;163(2):241-254. PMID: 28299476
  • Park C, Yun SJ, Ryu SJ, Lee S et al. Systematic identification of an integrative network module during senescence from time-series gene expression. BMC Syst Biol 2017 Mar 15;11(1):36. PMID: 28298218
  • Foroushani A, Agrahari R, Docking R, Chang L et al. Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications. BMC Med Genomics 2017 Mar 16;10(1):16. PMID: 28298217
  • Lund AM, Kaas CS, Brandl J, Pedersen LE et al. Network reconstruction of the mouse secretory pathway applied on CHO cell transcriptome data. BMC Syst Biol 2017 Mar 15;11(1):37. PMID: 28298216
  • Furchtgott LA, Melton S, Menon V, Ramanathan S et al. Discovering sparse transcription factor codes for cell states and state transitions during development. Elife 2017 Mar 15;6. PMID: 28296636
  • Yuan F, Zhang YH, Kong XY, Cai YD et al. Identification of Candidate Genes Related to Inflammatory Bowel Disease Using Minimum Redundancy Maximum Relevance, Incremental Feature Selection, and the Shortest-Path Approach. Biomed Res Int 2017;2017:5741948. PMID: 28293637
  • Foote JR, Behe P, Frampton M, Levine AP et al. An Exploration of Charge Compensating Ion Channels across the Phagocytic Vacuole of Neutrophils. Front Pharmacol 2017;8:94. PMID: 28293191
  • Izadi F, Zarrini HN, Kiani G, Jelodar NB et al. A comparative analytical assay of gene regulatory networks inferred using microarray and RNA-seq datasets. Bioinformation 2016;12(6):340-346. PMID: 28293077
  • Chien MH, Chang WM, Lee WJ, Chang YC et al. A Fas Ligand (FasL)-Fused Humanized Antibody Against Tumor-Associated Glycoprotein 72 Selectively Exhibits the Cytotoxic Effect Against Oral Cancer Cells with a Low FasL/Fas Ratio. Mol Cancer Ther 2017 Jun;16(6):1102-1113. PMID: 28292939
  • Kamisoglu K, Acevedo A, Almon RR, Coyle S et al. Understanding Physiology in the Continuum: Integration of Information from Multiple -Omics Levels. Front Pharmacol 2017;8:91. PMID: 28289389
  • Beckers M, Mohorianu I, Stocks M, Applegate C et al. Comprehensive processing of high-throughput small RNA sequencing data including quality checking, normalization, and differential expression analysis using the UEA sRNA Workbench. RNA 2017 Jun;23(6):823-835. PMID: 28289155
  • Kerins MJ, Vashisht AA, Liang BX, Duckworth SJ et al. Fumarate Mediates a Chronic Proliferative Signal in Fumarate Hydratase-Inactivated Cancer Cells by Increasing Transcription and Translation of Ferritin Genes. Mol Cell Biol 2017 Jun 1;37(11). PMID: 28289076
  • Barik A, Banerjee S, Dhara S, Chakravorty N et al. A reductionist approach to extract robust molecular markers from microarray data series - Isolating markers to track osseointegration. J Biomed Inform 2017 Apr;68:104-111. PMID: 28288857
  • Lewis A, Felice C, Kumagai T, Lai C et al. The miR-200 family is increased in dysplastic lesions in ulcerative colitis patients. PLoS One 2017;12(3):e0173664. PMID: 28288169
  • Beaulieu-Jones BK, Greene CS et al. Reproducibility of computational workflows is automated using continuous analysis. Nat Biotechnol 2017 Apr;35(4):342-346. PMID: 28288103
  • Yen TY, Bowen S, Yen R, Piryatinska A et al. Glycoproteins in Claudin-Low Breast Cancer Cell Lines Have a Unique Expression Profile. J Proteome Res 2017 Apr 7;16(4):1391-1400. PMID: 28287265
  • Phua T, Sng MK, Tan EH, Chee DS et al. Angiopoietin-like 4 Mediates Colonic Inflammation by Regulating Chemokine Transcript Stability via Tristetraprolin. Sci Rep 2017 Mar 13;7:44351. PMID: 28287161
  • Zhang H, Xie Z, Yang Y, Zhao Y et al. The Correlation-Base-Selection Algorithm for Diagnostic Schizophrenia Based on Blood-Based Gene Expression Signatures. Biomed Res Int 2017;2017:7860506. PMID: 28280741
  • Zheng Z, Liu T, Zheng J, Hu J et al. Clarifying the molecular mechanism associated with carfilzomib resistance in human multiple myeloma using microarray gene expression profile and genetic interaction network. Onco Targets Ther 2017;10:1327-1334. PMID: 28280367
  • Yang SJ, Park YS, Cho JH, Moon B et al. Regulation of hypoxia responses by flavin adenine dinucleotide-dependent modulation of HIF-1α protein stability. EMBO J 2017 Apr 13;36(8):1011-1028. PMID: 28279976
  • Hu B, Li Y, Gao L, Guo Y et al. Hepatic Induction of Fatty Acid Binding Protein 4 Plays a Pathogenic Role in Sepsis in Mice. Am J Pathol 2017 May;187(5):1059-1067. PMID: 28279656
  • Celiku O, Tandle A, Chung JY, Hewitt SM et al. Computational analysis of the mesenchymal signature landscape in gliomas. BMC Med Genomics 2017 Mar 9;10(1):13. PMID: 28279210
  • Dougherty ML, Nuttle X, Penn O, Nelson BJ et al. The birth of a human-specific neural gene by incomplete duplication and gene fusion. Genome Biol 2017 Mar 9;18(1):49. PMID: 28279197
  • Kameshwar AKS, Qin W et al. Gene expression metadata analysis reveals molecular mechanisms employed by Phanerochaete chrysosporium during lignin degradation and detoxification of plant extractives. Curr Genet 2017 Oct;63(5):877-894. PMID: 28275822
  • Kumar A, Jeya Sundara Sharmila D, Singh S et al. SVMRFE based approach for prediction of most discriminatory gene target for type II diabetes. Genom Data 2017 Jun;12:28-37. PMID: 28275550
  • Sun Y, Tian Y, Wang GZ, Zhao SH et al. Overexpression of Transforming Acidic Coiled Coil‑Containing Protein 3 Reflects Malignant Characteristics and Poor Prognosis of Glioma. Int J Mol Sci 2017 Mar 4;18(3). PMID: 28273854
  • Xia N, Fang F, Zhang P, Cui J et al. A Knockin Reporter Allows Purification and Characterization of mDA Neurons from Heterogeneous Populations. Cell Rep 2017 Mar 7;18(10):2533-2546. PMID: 28273465
  • Miao R, Leng D, Liu M, Huang XX et al. Alteration of endothelial nitric oxide synthase expression in acute pulmonary embolism: a study from bench to bioinformatics. Eur Rev Med Pharmacol Sci 2017 Feb;21(4):827-836. PMID: 28272699
  • Zamir L, Singh R, Nathan E, Patrick R et al. Nkx2.5 marks angioblasts that contribute to hemogenic endothelium of the endocardium and dorsal aorta. Elife 2017 Mar 8;6. PMID: 28271994
  • Blevins T, Wang J, Pflieger D, Pontvianne F et al. Hybrid incompatibility caused by an epiallele. Proc Natl Acad Sci U S A 2017 Apr 4;114(14):3702-3707. PMID: 28270603
  • Melaiu O, Mina M, Chierici M, Boldrini R et al. PD-L1 Is a Therapeutic Target of the Bromodomain Inhibitor JQ1 and, Combined with HLA Class I, a Promising Prognostic Biomarker in Neuroblastoma. Clin Cancer Res 2017 Aug 1;23(15):4462-4472. PMID: 28270499
  • Kunz M, Dandekar T, Naseem M et al. A Systems Biology Methodology Combining Transcriptome and Interactome Datasets to Assess the Implications of Cytokinin Signaling for Plant Immune Networks. Methods Mol Biol 2017;1569:165-173. PMID: 28265997
  • Cheung K, Lu G, Sharma R, Vincek A et al. BET N-terminal bromodomain inhibition selectively blocks Th17 cell differentiation and ameliorates colitis in mice. Proc Natl Acad Sci U S A 2017 Mar 14;114(11):2952-2957. PMID: 28265070
  • Ajore R, Raiser D, McConkey M, Jöud M et al. Deletion of ribosomal protein genes is a common vulnerability in human cancer, especially in concert with TP53 mutations. EMBO Mol Med 2017 Apr;9(4):498-507. PMID: 28264936
  • Stricker TP, Brown CD, Bandlamudi C, McNerney M et al. Robust stratification of breast cancer subtypes using differential patterns of transcript isoform expression. PLoS Genet 2017 Mar;13(3):e1006589. PMID: 28263985
  • Zhai Z, Liu W, Kaur M, Luo Y et al. NLRP1 promotes tumor growth by enhancing inflammasome activation and suppressing apoptosis in metastatic melanoma. Oncogene 2017 Jul 6;36(27):3820-3830. PMID: 28263976
  • Yadavalli S, Jayaram S, Manda SS, Madugundu AK et al. Data-Driven Discovery of Extravasation Pathway in Circulating Tumor Cells. Sci Rep 2017 Mar 6;7:43710. PMID: 28262832
  • Zhao YT, Fasolino M, Zhou Z et al. Locus- and cell type-specific epigenetic switching during cellular differentiation in mammals. Front Biol (Beijing) 2016 Aug;11(4):311-322. PMID: 28261266
  • He X, Fan L, Wu Z, He J et al. Gene expression profiles reveal key pathways and genes associated with neuropathic pain in patients with spinal cord injury. Mol Med Rep 2017 Apr;15(4):2120-2128. PMID: 28260076
  • Zhang YH, Song J, Wang LG, Shao J et al. Identification of key genes and pathways associated with spinal cord injury. Mol Med Rep 2017 Apr;15(4):1577-1584. PMID: 28259986
  • Hussain SA, Palmer DH, Syn WK, Sacco JJ et al. Gene expression profiling in bladder cancer identifies potential therapeutic targets. Int J Oncol 2017 Apr;50(4):1147-1159. PMID: 28259975
  • Yu K, Sang QA, Lung PY, Tan W et al. Personalized chemotherapy selection for breast cancer using gene expression profiles. Sci Rep 2017 Mar 3;7:43294. PMID: 28256629
  • Hicks DF, Goossens N, Blas-García A, Tsuchida T et al. Transcriptome-based repurposing of apigenin as a potential anti-fibrotic agent targeting hepatic stellate cells. Sci Rep 2017 Mar 3;7:42563. PMID: 28256512
  • Bhat S, Kabekkodu SP, Jayaprakash C, Radhakrishnan R et al. Gene promoter-associated CpG island hypermethylation in squamous cell carcinoma of the tongue. Virchows Arch 2017 Apr;470(4):445-454. PMID: 28255813
  • He H, Lin D, Zhang J, Wang YP et al. Comparison of statistical methods for subnetwork detection in the integration of gene expression and protein interaction network. BMC Bioinformatics 2017 Mar 3;18(1):149. PMID: 28253853
  • Yoshida J, Akagi K, Misawa R, Kokubu C et al. Chromatin states shape insertion profiles of the piggyBac, Tol2 and Sleeping Beauty transposons and murine leukemia virus. Sci Rep 2017 Mar 2;7:43613. PMID: 28252665
  • Mantelmacher FD, Fishman S, Cohen K, Pasmanik Chor M et al. Glucose-Dependent Insulinotropic Polypeptide Receptor Deficiency Leads to Impaired Bone Marrow Hematopoiesis. J Immunol 2017 Apr 15;198(8):3089-3098. PMID: 28250160
  • Edwards LA, Li A, Berel D, Madany M et al. ZEB1 regulates glioma stemness through LIF repression. Sci Rep 2017 Feb 28;7(1):69. PMID: 28246407
  • Bridgett S, Dellett M, Simpson DA et al. RNA-Sequencing data supports the existence of novel VEGFA splicing events but not of VEGFA(xxx)b isoforms. Sci Rep 2017 Mar 3;7(1):58. PMID: 28246395
  • Ehrlich M, Mozafari S, Glatza M, Starost L et al. Rapid and efficient generation of oligodendrocytes from human induced pluripotent stem cells using transcription factors. Proc Natl Acad Sci U S A 2017 Mar 14;114(11):E2243-E2252. PMID: 28246330
  • Li C, Luo C, Zhou Z, Wang R et al. Gene expression and plant hormone levels in two contrasting rice genotypes responding to brown planthopper infestation. BMC Plant Biol 2017 Feb 28;17(1):57. PMID: 28245796
  • Wang F, Song W, Zhao H, Ma Y et al. The RNA-binding protein QKI5 regulates primary miR-124-1 processing via a distal RNA motif during erythropoiesis. Cell Res 2017 Mar;27(3):416-439. PMID: 28244490
  • Shen J, Siegel AB, Remotti H, Wang Q et al. Identifying microRNA panels specifically associated with hepatocellular carcinoma and its different etiologies. Hepatoma Res 2016 Jun;2:151-162. PMID: 28243631
  • Baranek T, Morello E, Valayer A, Aimar RF et al. FHL2 Regulates Natural Killer Cell Development and Activation during Streptococcus pneumoniae Infection. Front Immunol 2017;8:123. PMID: 28243234
  • Lal S, Cheung EC, Zarei M, Preet R et al. CRISPR Knockout of the HuR Gene Causes a Xenograft Lethal Phenotype. Mol Cancer Res 2017 Jun;15(6):696-707. PMID: 28242812
  • Qiao W, Guo B, Zhou H, Xu W et al. miR-124 suppresses glioblastoma growth and potentiates chemosensitivity by inhibiting AURKA. Biochem Biophys Res Commun 2017 Apr 22;486(1):43-48. PMID: 28242198
  • Hughey JJMachine learning identifies a compact gene set for monitoring the circadian clock in human blood. Genome Med 2017 Feb 28;9(1):19. PMID: 28241858
  • Chiu YC, Wang LJ, Lu TP, Hsiao TH et al. Differential correlation analysis of glioblastoma reveals immune ceRNA interactions predictive of patient survival. BMC Bioinformatics 2017 Feb 28;18(1):132. PMID: 28241741
  • Lee HM, Lo KW, Wei W, Tsao SW et al. Oncogenic S1P signalling in EBV-associated nasopharyngeal carcinoma activates AKT and promotes cell migration through S1P receptor 3. J Pathol 2017 May;242(1):62-72. PMID: 28240350
  • Sontake V, Wang Y, Kasam RK, Sinner D et al. Hsp90 regulation of fibroblast activation in pulmonary fibrosis. JCI Insight 2017 Feb 23;2(4):e91454. PMID: 28239659
  • Petersen A, Witten D, Simon N et al. Fused Lasso Additive Model. J Comput Graph Stat 2016;25(4):1005-1025. PMID: 28239246
  • Huang WC, Ferris E, Cheng T, Hörndli CS et al. Diverse Non-genetic, Allele-Specific Expression Effects Shape Genetic Architecture at the Cellular Level in the Mammalian Brain. Neuron 2017 Mar 8;93(5):1094-1109.e7. PMID: 28238550
  • Yan H, Li Z, Shen Q, Wang Q et al. Aberrant expression of cell cycle and material metabolism related genes contributes to hepatocellular carcinoma occurrence. Pathol Res Pract 2017 Apr;213(4):316-321. PMID: 28238542
  • Gong C, Sun S, Liu B, Wang J et al. Identification of potential therapeutic target genes, key miRNAs and mechanisms in oral lichen planus by bioinformatics analysis. Arch Oral Biol 2017 Jun;78:122-128. PMID: 28237528
  • Sanfilippo C, Pinzone MR, Cambria D, Longo A et al. OAS Gene Family Expression Is Associated with HIV-Related Neurocognitive Disorders. Mol Neurobiol 2018 Mar;55(3):1905-1914. PMID: 28236279
  • Theofel I, Bartkuhn M, Boettger T, Gärtner SMK et al. tBRD-1 and tBRD-2 regulate expression of genes necessary for spermatid differentiation. Biol Open 2017 Apr 15;6(4):439-448. PMID: 28235844
  • Yu VWC, Yusuf RZ, Oki T, Wu J et al. Epigenetic Memory Underlies Cell-Autonomous Heterogeneous Behavior of Hematopoietic Stem Cells. Cell 2017 Feb 23;168(5):944-945. PMID: 28235203
  • Jiang B, Li S, Jiang Z, Shao P et al. Gastric Cancer Associated Genes Identified by an Integrative Analysis of Gene Expression Data. Biomed Res Int 2017;2017:7259097. PMID: 28232943
  • Artimo P, Duvaud S, Pachkov M, Ioannidis V et al. The ISMARA client. F1000Res 2016;5. PMID: 28232860
  • Li W, Li H, Zhang L, Hu M et al. Long non-coding RNA LINC00672 contributes to p53 protein-mediated gene suppression and promotes endometrial cancer chemosensitivity. J Biol Chem 2017 Apr 7;292(14):5801-5813. PMID: 28232485
  • Valls E, Lobry C, Geng H, Wang L et al. BCL6 Antagonizes NOTCH2 to Maintain Survival of Human Follicular Lymphoma Cells. Cancer Discov 2017 May;7(5):506-521. PMID: 28232365
  • Shangkuan WC, Lin HC, Chang YT, Jian CE et al. Risk analysis of colorectal cancer incidence by gene expression analysis. PeerJ 2017;5:e3003. PMID: 28229027
  • Wang S, Fan W, Wan B, Tu M et al. Characterization of long noncoding RNA and messenger RNA signatures in melanoma tumorigenesis and metastasis. PLoS One 2017;12(2):e0172498. PMID: 28225791
  • Yang K, Xia B, Wang W, Cheng J et al. A Comprehensive Analysis of Metabolomics and Transcriptomics in Cervical Cancer. Sci Rep 2017 Feb 22;7:43353. PMID: 28225065
  • Wahlestedt M, Erlandsson E, Kristiansen T, Lu R et al. Clonal reversal of ageing-associated stem cell lineage bias via a pluripotent intermediate. Nat Commun 2017 Feb 22;8:14533. PMID: 28224997
  • Pei YF, Ren HG, Liu L, Li X et al. Genomic variants at 20p11 associated with body fat mass in the European population. Obesity (Silver Spring) 2017 Apr;25(4):757-764. PMID: 28224759
  • Oliver D, Ji H, Liu P, Gasparian A et al. Identification of novel cancer therapeutic targets using a designed and pooled shRNA library screen. Sci Rep 2017 Feb 22;7:43023. PMID: 28223711
  • Lee SM, Lee J, Noh KM, Choi WY et al. Intragenic CpG islands play important roles in bivalent chromatin assembly of developmental genes. Proc Natl Acad Sci U S A 2017 Mar 7;114(10):E1885-E1894. PMID: 28223506
  • Thomas C, Henry W, Cuiffo BG, Collmann AY et al. Pentraxin-3 is a PI3K signaling target that promotes stem cell-like traits in basal-like breast cancers. Sci Signal 2017 Feb 21;10(467). PMID: 28223411
  • Bernhardt ML, Padilla-Banks E, Stein P, Zhang Y et al. Store-operated Ca(2+) entry is not required for fertilization-induced Ca(2+) signaling in mouse eggs. Cell Calcium 2017 Jul;65:63-72. PMID: 28222911
  • Liao Q, Wang J, Pei Z, Xu J et al. Identification of miRNA-mRNA crosstalk in CD4(+) T cells during HIV-1 infection by integrating transcriptome analyses. J Transl Med 2017 Feb 21;15(1):41. PMID: 28222782
  • Gozes I, Van Dijck A, Hacohen-Kleiman G, Grigg I et al. Premature primary tooth eruption in cognitive/motor-delayed ADNP-mutated children. Transl Psychiatry 2017 Feb 21;7(2):e1043. PMID: 28221363
  • Loher P, Telonis AG, Rigoutsos I et al. MINTmap: fast and exhaustive profiling of nuclear and mitochondrial tRNA fragments from short RNA-seq data. Sci Rep 2017 Feb 21;7:41184. PMID: 28220888
  • Vallejo A, Perurena N, Guruceaga E, Mazur PK et al. An integrative approach unveils FOSL1 as an oncogene vulnerability in KRAS-driven lung and pancreatic cancer. Nat Commun 2017 Feb 21;8:14294. PMID: 28220783
  • Yu X, Lin Y, Sui W, Zou Y et al. Analysis of distinct long noncoding RNA transcriptional fingerprints in pancreatic ductal adenocarcinoma. Cancer Med 2017 Mar;6(3):673-680. PMID: 28220683
  • Anderton B, Camarda R, Balakrishnan S, Balakrishnan A et al. MYC-driven inhibition of the glutamate-cysteine ligase promotes glutathione depletion in liver cancer. EMBO Rep 2017 Apr;18(4):569-585. PMID: 28219903
  • Shao MR, Kumar Kenchanmane Raju S, Laurie JD, Sanchez R et al. Stress-responsive pathways and small RNA changes distinguish variable developmental phenotypes caused by MSH1 loss. BMC Plant Biol 2017 Feb 20;17(1):47. PMID: 28219335
  • Chun S, Casparino A, Patsopoulos NA, Croteau-Chonka DC et al. Limited statistical evidence for shared genetic effects of eQTLs and autoimmune-disease-associated loci in three major immune-cell types. Nat Genet 2017 Apr;49(4):600-605. PMID: 28218759
  • Bate-Eya LT, Gierman HJ, Ebus ME, Koster J et al. Enhancer of zeste homologue 2 plays an important role in neuroblastoma cell survival independent of its histone methyltransferase activity. Eur J Cancer 2017 Apr;75:63-72. PMID: 28214660
  • Huang M, Hou J, Wang Y, Xie M et al. Long Noncoding RNA LINC00673 Is Activated by SP1 and Exerts Oncogenic Properties by Interacting with LSD1 and EZH2 in Gastric Cancer. Mol Ther 2017 Apr 5;25(4):1014-1026. PMID: 28214253
  • Chen WJ, Gan TQ, Qin H, Huang SN et al. Implication of downregulation and prospective pathway signaling of microRNA-375 in lung squamous cell carcinoma. Pathol Res Pract 2017 Apr;213(4):364-372. PMID: 28214218
  • Xie JJ, Zhuo YJ, Zheng Y, Mo RJ et al. High expression of ASPM correlates with tumor progression and predicts poor outcome in patients with prostate cancer. Int Urol Nephrol 2017 May;49(5):817-823. PMID: 28213802
  • Sitaula S, Zhang J, Ruiz F, Burris TP et al. Rev-erb regulation of cholesterologenesis. Biochem Pharmacol 2017 May 1;131:68-77. PMID: 28213272
  • Ransohoff KJ, Wu W, Cho HG, Chahal HC et al. Two-stage genome-wide association study identifies a novel susceptibility locus associated with melanoma. Oncotarget 2017 Mar 14;8(11):17586-17592. PMID: 28212542
  • Zhou B, Zuo XX, Li YS, Gao SM et al. Integration of microRNA and mRNA expression profiles in the skin of systemic sclerosis patients. Sci Rep 2017 Feb 17;7:42899. PMID: 28211533
  • Afroz S, Giddaluru J, Vishwakarma S, Naz S et al. A Comprehensive Gene Expression Meta-analysis Identifies Novel Immune Signatures in Rheumatoid Arthritis Patients. Front Immunol 2017;8:74. PMID: 28210261
  • Qi F, Liu X, Wu H, Yu X et al. Long noncoding AGAP2-AS1 is activated by SP1 and promotes cell proliferation and invasion in gastric cancer. J Hematol Oncol 2017 Feb 16;10(1):48. PMID: 28209205
  • Kashaf SS, Angione C, Lió P et al. Making life difficult for Clostridium difficile: augmenting the pathogen's metabolic model with transcriptomic and codon usage data for better therapeutic target characterization. BMC Syst Biol 2017 Feb 16;11(1):25. PMID: 28209199
  • Nemet J, Vidan N, Sopta M et al. A meta-analysis reveals complex regulatory properties at Taf14-repressed genes. BMC Genomics 2017 Feb 16;18(1):175. PMID: 28209126
  • Yang JM, Lee HS, Seo JH, Park JH et al. Structural environment built by AKAP12+ colon mesenchymal cells drives M2 macrophages during inflammation recovery. Sci Rep 2017 Feb 16;7:42723. PMID: 28205544
  • Maricque BB, Dougherty JD, Cohen BA et al. A genome-integrated massively parallel reporter assay reveals DNA sequence determinants of cis-regulatory activity in neural cells. Nucleic Acids Res 2017 Feb 28;45(4):e16. PMID: 28204611
  • Heit JA, Armasu SM, McCauley BM, Kullo IJ et al. Identification of unique venous thromboembolism-susceptibility variants in African-Americans. Thromb Haemost 2017 Apr 3;117(4):758-768. PMID: 28203683
  • Kumari N, Ammosova T, Diaz S, Lin X et al. Increased iron export by ferroportin induces restriction of HIV-1 infection in sickle cell disease. Blood Adv 2016 Dec 27;1(3):170-183. PMID: 28203649
  • Mathis RA, Sokol ES, Gupta PB et al. Cancer cells exhibit clonal diversity in phenotypic plasticity. Open Biol 2017 Feb;7(2). PMID: 28202626
  • Wang H, Jiang Y, Lu M, Sun B et al. STX12 lncRNA/miR-148a/SMAD5 participate in the regulation of pancreatic stellate cell activation through a mechanism involving competing endogenous RNA. Pancreatology 2017 Mar-Apr;17(2):237-246. PMID: 28202235
  • Ma C, Xu S, Liu G, Liu X et al. Improvement of peptide identification with considering the abundance of mRNA and peptide. BMC Bioinformatics 2017 Feb 16;18(1):109. PMID: 28201984
  • Lai Y, Zhang F, Nayak TK, Modarres R et al. Detecting discordance enrichment among a series of two-sample genome-wide expression data sets. BMC Genomics 2017 Jan 25;18(Suppl 1):1050. PMID: 28198679
  • Zhang YZ, Yamaguchi R, Imoto S, Miyano S et al. Sequence-specific bias correction for RNA-seq data using recurrent neural networks. BMC Genomics 2017 Jan 25;18(Suppl 1):1044. PMID: 28198674
  • Lee BK, Tiong KH, Chang JK, Liew CS et al. DeSigN: connecting gene expression with therapeutics for drug repurposing and development. BMC Genomics 2017 Jan 25;18(Suppl 1):934. PMID: 28198666
  • Huang FT, Peng JF, Cheng WJ, Zhuang YY et al. MiR-143 Targeting TAK1 Attenuates Pancreatic Ductal Adenocarcinoma Progression via MAPK and NF-κB Pathway In Vitro. Dig Dis Sci 2017 Apr;62(4):944-957. PMID: 28194669
  • Khunlertgit N, Yoon BJ et al. Simultaneous identification of robust synergistic subnetwork markers for effective cancer prognosis. EURASIP J Bioinform Syst Biol 2014 Dec;2014:19. PMID: 28194169
  • He Y, Gorkin DU, Dickel DE, Nery JR et al. Improved regulatory element prediction based on tissue-specific local epigenomic signatures. Proc Natl Acad Sci U S A 2017 Feb 28;114(9):E1633-E1640. PMID: 28193886
  • Sheridan MA, Yunusov D, Balaraman V, Alexenko AP et al. Vulnerability of primitive human placental trophoblast to Zika virus. Proc Natl Acad Sci U S A 2017 Feb 28;114(9):E1587-E1596. PMID: 28193876
  • Klutstein M, Moss J, Kaplan T, Cedar H et al. Contribution of epigenetic mechanisms to variation in cancer risk among tissues. Proc Natl Acad Sci U S A 2017 Feb 28;114(9):2230-2234. PMID: 28193856
  • Cao Q, Liu F, Ji K, Liu N et al. MicroRNA-381 inhibits the metastasis of gastric cancer by targeting TMEM16A expression. J Exp Clin Cancer Res 2017 Feb 13;36(1):29. PMID: 28193228
  • Chan LN, Chen Z, Braas D, Lee JW et al. Metabolic gatekeeper function of B-lymphoid transcription factors. Nature 2017 Feb 23;542(7642):479-483. PMID: 28192788
  • Zhang B, Shi X, Xu G, Kang W et al. Elevated PRC1 in gastric carcinoma exerts oncogenic function and is targeted by piperlongumine in a p53-dependent manner. J Cell Mol Med 2017 Jul;21(7):1329-1341. PMID: 28190297
  • Carpanini SM, Wishart TM, Gillingwater TH, Manson JC et al. Analysis of gene expression in the nervous system identifies key genes and novel candidates for health and disease. Neurogenetics 2017 Apr;18(2):81-95. PMID: 28190221
  • Schjerven H, Ayongaba EF, Aghajanirefah A, McLaughlin J et al. Genetic analysis of Ikaros target genes and tumor suppressor function in BCR-ABL1(+) pre-B ALL. J Exp Med 2017 Mar 6;214(3):793-814. PMID: 28190001
  • Kilanczyk E, Andres KR, Hallgren J, Ohri SS et al. Pharmacological inhibition of spinal cord injury-stimulated ribosomal biogenesis does not affect locomotor outcome. Neurosci Lett 2017 Mar 6;642:153-157. PMID: 28188847
  • Hu Y, Comjean A, Perrimon N, Mohr SE et al. The Drosophila Gene Expression Tool (DGET) for expression analyses. BMC Bioinformatics 2017 Feb 10;18(1):98. PMID: 28187709
  • Wong N, Gu Y, Kapoor A, Lin X et al. Upregulation of FAM84B during prostate cancer progression. Oncotarget 2017 Mar 21;8(12):19218-19235. PMID: 28186973
  • Xu WW, Li B, Guan XY, Chung SK et al. Cancer cell-secreted IGF2 instigates fibroblasts and bone marrow-derived vascular progenitor cells to promote cancer progression. Nat Commun 2017 Feb 10;8:14399. PMID: 28186102
  • Aibar S, Abaigar M, Campos-Laborie FJ, Sánchez-Santos JM et al. Identification of expression patterns in the progression of disease stages by integration of transcriptomic data. BMC Bioinformatics 2016 Nov 22;17(Suppl 15):432. PMID: 28185568
  • Du W, Cao Z, Song T, Li Y et al. A feature selection method based on multiple kernel learning with expression profiles of different types. BioData Min 2017;10:4. PMID: 28184251
  • Li H, Zhang J, Lee MJ, Yu GR et al. OIP5, a target of miR-15b-5p, regulates hepatocellular carcinoma growth and metastasis through the AKT/mTORC1 and β-catenin signaling pathways. Oncotarget 2017 Mar 14;8(11):18129-18144. PMID: 28184024
  • Lee M, Chen GT, Puttock E, Wang K et al. Mathematical modeling links Wnt signaling to emergent patterns of metabolism in colon cancer. Mol Syst Biol 2017 Feb 9;13(2):912. PMID: 28183841
  • Heller S, Penrose HM, Cable C, Biswas D et al. Reduced mitochondrial activity in colonocytes facilitates AMPKα2-dependent inflammation. FASEB J 2017 May;31(5):2013-2025. PMID: 28183804
  • Chow YP, Alias H, Jamal R et al. Meta-analysis of gene expression in relapsed childhood B-acute lymphoblastic leukemia. BMC Cancer 2017 Feb 10;17(1):120. PMID: 28183295
  • Filzen TM, Kutchukian PS, Hermes JD, Li J et al. Representing high throughput expression profiles via perturbation barcodes reveals compound targets. PLoS Comput Biol 2017 Feb;13(2):e1005335. PMID: 28182661
  • Chen R, Li WX, Sun Y, Duan Y et al. Comprehensive Analysis of lncRNA and mRNA Expression Profiles in Lung Cancer. Clin Lab 2017 Feb 1;63(2):313-320. PMID: 28182363
  • Matern M, Vijayakumar S, Margulies Z, Milon B et al. Gfi1(Cre) mice have early onset progressive hearing loss and induce recombination in numerous inner ear non-hair cells. Sci Rep 2017 Feb 9;7:42079. PMID: 28181545
  • Pradhan RN, Bues JJ, Gardeux V, Schwalie PC et al. Dissecting the brown adipogenic regulatory network using integrative genomics. Sci Rep 2017 Feb 9;7:42130. PMID: 28181539
  • Nazim M, Masuda A, Rahman MA, Nasrin F et al. Competitive regulation of alternative splicing and alternative polyadenylation by hnRNP H and CstF64 determines acetylcholinesterase isoforms. Nucleic Acids Res 2017 Feb 17;45(3):1455-1468. PMID: 28180311
  • Wang Y, Fan C, Zheng Y, Li C et al. Dynamic chromatin accessibility modeled by Markov process of randomly-moving molecules in the 3D genome. Nucleic Acids Res 2017 Jun 2;45(10):e85. PMID: 28180283
  • Vitsios DM, Davis MP, van Dongen S, Enright AJ et al. Large-scale analysis of microRNA expression, epi-transcriptomic features and biogenesis. Nucleic Acids Res 2017 Feb 17;45(3):1079-1090. PMID: 28180281
  • Tan J, Tedrow JR, Nouraie M, Dutta JA et al. Loss of Twist1 in the Mesenchymal Compartment Promotes Increased Fibrosis in Experimental Lung Injury by Enhanced Expression of CXCL12. J Immunol 2017 Mar 15;198(6):2269-2285. PMID: 28179498
  • Yan H, Guan Q, He J, Lin Y et al. Individualized analysis reveals CpG sites with methylation aberrations in almost all lung adenocarcinoma tissues. J Transl Med 2017 Feb 8;15(1):26. PMID: 28178989
  • Chuang HY, Jiang JK, Yang MH, Wang HW et al. Aminopeptidase A initiates tumorigenesis and enhances tumor cell stemness via TWIST1 upregulation in colorectal cancer. Oncotarget 2017 Mar 28;8(13):21266-21280. PMID: 28177885
  • Li G, Li X, Yang M, Xu L et al. Prediction of biomarkers of oral squamous cell carcinoma using microarray technology. Sci Rep 2017 Feb 8;7:42105. PMID: 28176846
  • Reimegård J, Kundu S, Pendle A, Irish VF et al. Genome-wide identification of physically clustered genes suggests chromatin-level co-regulation in male reproductive development in Arabidopsis thaliana. Nucleic Acids Res 2017 Apr 7;45(6):3253-3265. PMID: 28175342
  • Capilla L, Sánchez-Guillén RA, Farré M, Paytuví-Gallart A et al. Mammalian Comparative Genomics Reveals Genetic and Epigenetic Features Associated with Genome Reshuffling in Rodentia. Genome Biol Evol 2016 Dec 1;8(12):3703-3717. PMID: 28175287
  • Lo YH, Chung E, Li Z, Wan YW et al. Transcriptional Regulation by ATOH1 and its Target SPDEF in the Intestine. Cell Mol Gastroenterol Hepatol 2017 Jan;3(1):51-71. PMID: 28174757
  • Jovancevic N, Wunderlich KA, Haering C, Flegel C et al. Deep Sequencing of the Human Retinae Reveals the Expression of Odorant Receptors. Front Cell Neurosci 2017;11:03. PMID: 28174521
  • Lin C, Majoor CJ, Roelofs JJ, de Kruif MD et al. Potential importance of protease activated receptor (PAR)-1 expression in the tumor stroma of non-small-cell lung cancer. BMC Cancer 2017 Feb 7;17(1):113. PMID: 28173772
  • Dona MSI, Prendergast LA, Mathivanan S, Keerthikumar S et al. Powerful differential expression analysis incorporating network topology for next-generation sequencing data. Bioinformatics 2017 May 15;33(10):1505-1513. PMID: 28172447
  • Lee H, Shin M et al. Mining pathway associations for disease-related pathway activity analysis based on gene expression and methylation data. BioData Min 2017;10:3. PMID: 28168005
  • Droog M, Nevedomskaya E, Dackus GM, Fles R et al. Estrogen receptor α wields treatment-specific enhancers between morphologically similar endometrial tumors. Proc Natl Acad Sci U S A 2017 Feb 21;114(8):E1316-E1325. PMID: 28167798
  • Yang L, Orenstein Y, Jolma A, Yin Y et al. Transcription factor family-specific DNA shape readout revealed by quantitative specificity models. Mol Syst Biol 2017 Feb 6;13(2):910. PMID: 28167566
  • Deng W, Zhang K, Busov V, Wei H et al. Recursive random forest algorithm for constructing multilayered hierarchical gene regulatory networks that govern biological pathways. PLoS One 2017;12(2):e0171532. PMID: 28158291
  • Tao Y, Yang G, Yang H, Song D et al. TRIP13 impairs mitotic checkpoint surveillance and is associated with poor prognosis in multiple myeloma. Oncotarget 2017 Apr 18;8(16):26718-26731. PMID: 28157697
  • Fraile JM, Manchado E, Lujambio A, Quesada V et al. USP39 Deubiquitinase Is Essential for KRAS Oncogene-driven Cancer. J Biol Chem 2017 Mar 10;292(10):4164-4175. PMID: 28154181
  • Klein AP, Sattely ES et al. Biosynthesis of cabbage phytoalexins from indole glucosinolate. Proc Natl Acad Sci U S A 2017 Feb 21;114(8):1910-1915. PMID: 28154137
  • Park J, Kwon YW, Ham S, Hong CP et al. Identification of the early and late responder genes during the generation of induced pluripotent stem cells from mouse fibroblasts. PLoS One 2017;12(2):e0171300. PMID: 28152015
  • Chen C, Huang H, Wu CH et al. Protein Bioinformatics Databases and Resources. Methods Mol Biol 2017;1558:3-39. PMID: 28150231
  • Kim S, Jhong JH, Lee J, Koo JY et al. Meta-analytic support vector machine for integrating multiple omics data. BioData Min 2017;10:2. PMID: 28149325
  • Gardiner JD, Abegglen LM, Huang X, Carter BE et al. C/EBPβ-1 promotes transformation and chemoresistance in Ewing sarcoma cells. Oncotarget 2017 Apr 18;8(16):26013-26026. PMID: 28148901
  • Duhachek-Muggy S, Qi Y, Wise R, Alyahya L et al. Metalloprotease-disintegrin ADAM12 actively promotes the stem cell-like phenotype in claudin-low breast cancer. Mol Cancer 2017 Feb 1;16(1):32. PMID: 28148288
  • Fancello L, Kampen KR, Hofman IJ, Verbeeck J et al. The ribosomal protein gene RPL5 is a haploinsufficient tumor suppressor in multiple cancer types. Oncotarget 2017 Feb 28;8(9):14462-14478. PMID: 28147343
  • Liao M, Li B, Zhang S, Liu Q et al. Relationship between LINC00341 expression and cancer prognosis. Oncotarget 2017 Feb 28;8(9):15283-15293. PMID: 28146429
  • Nouri M, Caradec J, Lubik AA, Li N et al. Therapy-induced developmental reprogramming of prostate cancer cells and acquired therapy resistance. Oncotarget 2017 Mar 21;8(12):18949-18967. PMID: 28145883
  • Planutis A, Xue L, Trainor CD, Dangeti M et al. Neomorphic effects of the neonatal anemia (Nan-Eklf) mutation contribute to deficits throughout development. Development 2017 Feb 1;144(3):430-440. PMID: 28143845
  • Gui S, Rice AP, Chen R, Wu L et al. A scalable algorithm for structure identification of complex gene regulatory network from temporal expression data. BMC Bioinformatics 2017 Jan 31;18(1):74. PMID: 28143596
  • Zafrir Z, Tuller T et al. Unsupervised detection of regulatory gene expression information in different genomic regions enables gene expression ranking. BMC Bioinformatics 2017 Feb 1;18(1):77. PMID: 28143396
  • Hou LK, Ma YS, Han Y, Lu GX et al. Association of microRNA-33a Molecular Signature with Non-Small Cell Lung Cancer Diagnosis and Prognosis after Chemotherapy. PLoS One 2017;12(1):e0170431. PMID: 28141816
  • Yin Z, Hu JJ, Yang L, Zheng ZF et al. Single-cell analysis reveals a nestin(+) tendon stem/progenitor cell population with strong tenogenic potentiality. Sci Adv 2016 Nov;2(11):e1600874. PMID: 28138519
  • Oh DH, Kim IB, Kim SH, Ahn DH et al. Predicting Autism Spectrum Disorder Using Blood-based Gene Expression Signatures and Machine Learning. Clin Psychopharmacol Neurosci 2017 Feb 28;15(1):47-52. PMID: 28138110
  • Hao Y, Zhang L, Niu Y, Cai T et al. SmProt: a database of small proteins encoded by annotated coding and non-coding RNA loci. Brief Bioinform 2018 Jul 20;19(4):636-643. PMID: 28137767
  • Hernandez W, Gamazon ER, Aquino-Michaels K, Smithberger E et al. Integrated analysis of genetic variation and gene expression reveals novel variant for increased warfarin dose requirement in African Americans. J Thromb Haemost 2017 Apr;15(4):735-743. PMID: 28135054
  • Zhu X, Ching T, Pan X, Weissman SM et al. Detecting heterogeneity in single-cell RNA-Seq data by non-negative matrix factorization. PeerJ 2017;5:e2888. PMID: 28133571
  • Kramer MH, Farré JC, Mitra K, Yu MK et al. Active Interaction Mapping Reveals the Hierarchical Organization of Autophagy. Mol Cell 2017 Feb 16;65(4):761-774.e5. PMID: 28132844
  • Katsumata Y, Nelson PT, Ellingson SR, Fardo DW et al. Gene-based association study of genes linked to hippocampal sclerosis of aging neuropathology: GRN, TMEM106B, ABCC9, and KCNMB2. Neurobiol Aging 2017 May;53:193.e17-193.e25. PMID: 28131462
  • Haddad N, Vaillant C, Jost D et al. IC-Finder: inferring robustly the hierarchical organization of chromatin folding. Nucleic Acids Res 2017 Jun 2;45(10):e81. PMID: 28130423
  • Jadamba E, Shin M et al. A Systematic Framework for Drug Repositioning from Integrated Omics and Drug Phenotype Profiles Using Pathway-Drug Network. Biomed Res Int 2016;2016:7147039. PMID: 28127549
  • Castellano L, Dabrowska A, Pellegrino L, Ottaviani S et al. Sustained expression of miR-26a promotes chromosomal instability and tumorigenesis through regulation of CHFR. Nucleic Acids Res 2017 May 5;45(8):4401-4412. PMID: 28126920
  • Varn FS, Wang Y, Mullins DW, Fiering S et al. Systematic Pan-Cancer Analysis Reveals Immune Cell Interactions in the Tumor Microenvironment. Cancer Res 2017 Mar 15;77(6):1271-1282. PMID: 28126714
  • Yi JW, Kim SJ, Kim JK, Seong CY et al. Upregulation of the ESR1 Gene and ESR Ratio (ESR1/ESR2) is Associated with a Worse Prognosis in Papillary Thyroid Carcinoma: The Impact of the Estrogen Receptor α/β Expression on Clinical Outcomes in Papillary Thyroid Carcinoma Patients. Ann Surg Oncol 2017 Nov;24(12):3754-3762. PMID: 28124274
  • Liu H, Zhou P, Lan H, Chen J et al. Comparative analysis of Notch1 and Notch2 binding sites in the genome of BxPC3 pancreatic cancer cells. J Cancer 2017;8(1):65-73. PMID: 28123599
  • Zhang H, Yu Z, He J, Hua B et al. Identification of the molecular mechanisms underlying dilated cardiomyopathy via bioinformatic analysis of gene expression profiles. Exp Ther Med 2017 Jan;13(1):273-279. PMID: 28123501
  • Kameshwar AK, Qin W et al. Metadata Analysis of Phanerochaete chrysosporium Gene Expression Data Identified Common CAZymes Encoding Gene Expression Profiles Involved in Cellulose and Hemicellulose Degradation. Int J Biol Sci 2017;13(1):85-99. PMID: 28123349
  • Dean JL, Zhao QJ, Lambert JC, Hawkins BS et al. Editor's Highlight: Application of Gene Set Enrichment Analysis for Identification of Chemically Induced, Biologically Relevant Transcriptomic Networks and Potential Utilization in Human Health Risk Assessment. Toxicol Sci 2017 May 1;157(1):85-99. PMID: 28123101
  • Chen PC, Tang CH, Lin LW, Tsai CH et al. Thrombospondin-2 promotes prostate cancer bone metastasis by the up-regulation of matrix metalloproteinase-2 through down-regulating miR-376c expression. J Hematol Oncol 2017 Jan 25;10(1):33. PMID: 28122633
  • Eisinga R, Heskes T, Pelzer B, Te Grotenhuis M et al. Exact p-values for pairwise comparison of Friedman rank sums, with application to comparing classifiers. BMC Bioinformatics 2017 Jan 25;18(1):68. PMID: 28122501
  • Chen M, Liu B, Xiao J, Yang Y et al. A novel seven-long non-coding RNA signature predicts survival in early stage lung adenocarcinoma. Oncotarget 2017 Feb 28;8(9):14876-14886. PMID: 28122330
  • Mao XY, Lee MJ, Zhu J, Zhu C et al. Genome-wide screen identifies a novel prognostic signature for breast cancer survival. Oncotarget 2017 Feb 21;8(8):14003-14016. PMID: 28122328
  • Chang WM, Lin YF, Su CY, Peng HY et al. Parathyroid Hormone-Like Hormone is a Poor Prognosis Marker of Head and Neck Cancer and Promotes Cell Growth via RUNX2 Regulation. Sci Rep 2017 Jan 25;7:41131. PMID: 28120940
  • Jacobsen JC, Erdin S, Chiang C, Hanscom C et al. Potential molecular consequences of transgene integration: The R6/2 mouse example. Sci Rep 2017 Jan 25;7:41120. PMID: 28120936
  • Lyu P, Zhang SD, Yuen HF, McCrudden CM et al. Identification of TWIST-interacting genes in prostate cancer. Sci China Life Sci 2017 Apr;60(4):386-396. PMID: 28120266
  • Rahmatallah Y, Zybailov B, Emmert-Streib F, Glazko G et al. GSAR: Bioconductor package for Gene Set analysis in R. BMC Bioinformatics 2017 Jan 24;18(1):61. PMID: 28118818
  • Mei H, Li L, Liu S, Jiang F et al. Tissue Non-Specific Genes and Pathways Associated with Diabetes: An Expression Meta-Analysis. Genes (Basel) 2017 Jan 21;8(1). PMID: 28117714
  • Doungpan N, Engchuan W, Chan JH, Meechai A et al. GSNFS: Gene subnetwork biomarker identification of lung cancer expression data. BMC Med Genomics 2016 Dec 5;9(Suppl 3):70. PMID: 28117655
  • Sagie S, Toubiana S, Hartono SR, Katzir H et al. Telomeres in ICF syndrome cells are vulnerable to DNA damage due to elevated DNA:RNA hybrids. Nat Commun 2017 Jan 24;8:14015. PMID: 28117327
  • Wang C, Goff SP et al. Differential control of retrovirus silencing in embryonic cells by proteasomal regulation of the ZFP809 retroviral repressor. Proc Natl Acad Sci U S A 2017 Feb 7;114(6):E922-E930. PMID: 28115710
  • Williams JB, Horton BL, Zheng Y, Duan Y et al. The EGR2 targets LAG-3 and 4-1BB describe and regulate dysfunctional antigen-specific CD8+ T cells in the tumor microenvironment. J Exp Med 2017 Feb;214(2):381-400. PMID: 28115575
  • Sreedharan S, Maturi NP, Xie Y, Sundström A et al. Mouse Models of Pediatric Supratentorial High-grade Glioma Reveal How Cell-of-Origin Influences Tumor Development and Phenotype. Cancer Res 2017 Feb 1;77(3):802-812. PMID: 28115362
  • Padilha VA, Campello RJ et al. A systematic comparative evaluation of biclustering techniques. BMC Bioinformatics 2017 Jan 23;18(1):55. PMID: 28114903
  • Wu C, Chen Z, Dardalhon V, Xiao S et al. The transcription factor musculin promotes the unidirectional development of peripheral T(reg) cells by suppressing the T(H)2 transcriptional program. Nat Immunol 2017 Mar;18(3):344-353. PMID: 28114290
  • Liu-Chittenden Y, Jain M, Gaskins K, Wang S et al. RARRES2 functions as a tumor suppressor by promoting β-catenin phosphorylation/degradation and inhibiting p38 phosphorylation in adrenocortical carcinoma. Oncogene 2017 Jun 22;36(25):3541-3552. PMID: 28114280
  • Redmer T, Walz I, Klinger B, Khouja S et al. The role of the cancer stem cell marker CD271 in DNA damage response and drug resistance of melanoma cells. Oncogenesis 2017 Jan 23;6(1):e291. PMID: 28112719
  • Dai M, Zhu XL, Liu F, Xu QY et al. Cholesterol Synthetase DHCR24 Induced by Insulin Aggravates Cancer Invasion and Progesterone Resistance in Endometrial Carcinoma. Sci Rep 2017 Jan 23;7:41404. PMID: 28112250
  • Reali F, Morine MJ, Kahramanoğulları O, Raichur S et al. Mechanistic interplay between ceramide and insulin resistance. Sci Rep 2017 Jan 23;7:41231. PMID: 28112248
  • Staševskij Z, Gibas P, Gordevičius J, Kriukienė E et al. Tethered Oligonucleotide-Primed Sequencing, TOP-Seq: A High-Resolution Economical Approach for DNA Epigenome Profiling. Mol Cell 2017 Feb 2;65(3):554-564.e6. PMID: 28111014
  • Tseng JH, Chen CY, Chen PC, Hsiao SH et al. Valproic acid inhibits glioblastoma multiforme cell growth via paraoxonase 2 expression. Oncotarget 2017 Feb 28;8(9):14666-14679. PMID: 28108734
  • Bottini S, Hamouda-Tekaya N, Tanasa B, Zaragosi LE et al. From benchmarking HITS-CLIP peak detection programs to a new method for identification of miRNA-binding sites from Ago2-CLIP data. Nucleic Acids Res 2017 May 19;45(9):e71. PMID: 28108660
  • Alkan F, Wenzel A, Palasca O, Kerpedjiev P et al. RIsearch2: suffix array-based large-scale prediction of RNA-RNA interactions and siRNA off-targets. Nucleic Acids Res 2017 May 5;45(8):e60. PMID: 28108657
  • Hattori A, McSkimming D, Kannan N, Ito T et al. RNA binding protein MSI2 positively regulates FLT3 expression in myeloid leukemia. Leuk Res 2017 Mar;54:47-54. PMID: 28107692
  • Woodfint RM, Chen PR, Ahn J, Suh Y et al. Identification of the MUC2 Promoter as a Strong Promoter for Intestinal Gene Expression through Generation of Transgenic Quail Expressing GFP in Gut Epithelial Cells. Int J Mol Sci 2017 Jan 19;18(1). PMID: 28106824
  • Haddick PC, Larson JL, Rathore N, Bhangale TR et al. A Common Variant of IL-6R is Associated with Elevated IL-6 Pathway Activity in Alzheimer's Disease Brains. J Alzheimers Dis 2017;56(3):1037-1054. PMID: 28106546
  • Ghazanfar S, Bisogni AJ, Ormerod JT, Lin DM et al. Integrated single cell data analysis reveals cell specific networks and novel coactivation markers. BMC Syst Biol 2016 Dec 5;10(Suppl 5):127. PMID: 28105940
  • Karaiskos S, Grigoriev A et al. Dynamics of tRNA fragments and their targets in aging mammalian brain. F1000Res 2016;5. PMID: 28105302
  • Zhou M, Zhao H, Xu W, Bao S et al. Discovery and validation of immune-associated long non-coding RNA biomarkers associated with clinically molecular subtype and prognosis in diffuse large B cell lymphoma. Mol Cancer 2017 Jan 19;16(1):16. PMID: 28103885
  • Chorzalska A, Kim JF, Roder K, Tepper A et al. Long-Term Exposure to Imatinib Mesylate Downregulates Hippo Pathway and Activates YAP in a Model of Chronic Myelogenous Leukemia. Stem Cells Dev 2017 May 1;26(9):656-677. PMID: 28103766
  • Kar SP, Adler E, Tyrer J, Hazelett D et al. Enrichment of putative PAX8 target genes at serous epithelial ovarian cancer susceptibility loci. Br J Cancer 2017 Feb 14;116(4):524-535. PMID: 28103614
  • Yang M, Chen BL, Huang JB, Meng YN et al. Angiogenesis-related genes may be a more important factor than matrix metalloproteinases in bronchopulmonary dysplasia development. Oncotarget 2017 Mar 21;8(12):18670-18679. PMID: 28103583
  • Huang Y, Tao T, Liu C, Guan H et al. Upregulation of miR-146a by YY1 depletion correlates with delayed progression of prostate cancer. Int J Oncol 2017 Feb;50(2):421-431. PMID: 28101571
  • Smith MR, Burman P, Sadahiro M, Kidd BA et al. Integrative Analysis of Disease Signatures Shows Inflammation Disrupts Juvenile Experience-Dependent Cortical Plasticity. eNeuro 2016 Nov-Dec;3(6). PMID: 28101530
  • Dalet A, Argüello RJ, Combes A, Spinelli L et al. Protein synthesis inhibition and GADD34 control IFN-β heterogeneous expression in response to dsRNA. EMBO J 2017 Mar 15;36(6):761-782. PMID: 28100675
  • Picco G, Petti C, Centonze A, Torchiaro E et al. Loss of AXIN1 drives acquired resistance to WNT pathway blockade in colorectal cancer cells carrying RSPO3 fusions. EMBO Mol Med 2017 Mar;9(3):293-303. PMID: 28100566
  • Wang Y, Chen C, Hua Q, Wang L et al. Downregulation of leucine‑rich‑α‑2‑glycoprotein 1 expression is associated with the tumorigenesis of head and neck squamous cell carcinoma. Oncol Rep 2017 Mar;37(3):1503-1510. PMID: 28098902
  • Bianchi E, Ruberti S, Rontauroli S, Guglielmelli P et al. Role of miR-34a-5p in Hematopoietic Progenitor Cells Proliferation and Fate Decision: Novel Insights into the Pathogenesis of Primary Myelofibrosis. Int J Mol Sci 2017 Jan 13;18(1). PMID: 28098757
  • Rindler TN, Hinton RB, Salomonis N, Ware SM et al. Molecular Characterization of Pediatric Restrictive Cardiomyopathy from Integrative Genomics. Sci Rep 2017 Jan 18;7:39276. PMID: 28098235
  • Yılmaz Isıkhan S, Karabulut E, Alpar CR et al. Determining Cutoff Point of Ensemble Trees Based on Sample Size in Predicting Clinical Dose with DNA Microarray Data. Comput Math Methods Med 2016;2016:6794916. PMID: 28096893
  • Xavier LA, Bezerra JF, de Rezende AA, Oliveira RA et al. Analysis of genome instability biomarkers in children with non-syndromic orofacial clefts. Mutagenesis 2017 Mar 1;32(2):313-321. PMID: 28096450
  • Coccia M, Rossi A, Riccio A, Trotta E et al. Human NF-κB repressing factor acts as a stress-regulated switch for ribosomal RNA processing and nucleolar homeostasis surveillance. Proc Natl Acad Sci U S A 2017 Jan 31;114(5):1045-1050. PMID: 28096332
  • Mescher M, Jeong P, Knapp SK, Rübsam M et al. The epidermal polarity protein Par3 is a non-cell autonomous suppressor of malignant melanoma. J Exp Med 2017 Feb;214(2):339-358. PMID: 28096290
  • Falletta P, Sanchez-Del-Campo L, Chauhan J, Effern M et al. Translation reprogramming is an evolutionarily conserved driver of phenotypic plasticity and therapeutic resistance in melanoma. Genes Dev 2017 Jan 1;31(1):18-33. PMID: 28096186
  • Sandor C, Robertson P, Lang C, Heger A et al. Transcriptomic profiling of purified patient-derived dopamine neurons identifies convergent perturbations and therapeutics for Parkinson's disease. Hum Mol Genet 2017 Feb 1;26(3):552-566. PMID: 28096185
  • Hernandez-Ferrer C, Ruiz-Arenas C, Beltran-Gomila A, González JR et al. MultiDataSet: an R package for encapsulating multiple data sets with application to omic data integration. BMC Bioinformatics 2017 Jan 17;18(1):36. PMID: 28095799
  • Williams CR, Baccarella A, Parrish JZ, Kim CC et al. Empirical assessment of analysis workflows for differential expression analysis of human samples using RNA-Seq. BMC Bioinformatics 2017 Jan 17;18(1):38. PMID: 28095772
  • Wang H, Zhao S, Gao Y, Yang J et al. Characterization of Dof Transcription Factors and Their Responses to Osmotic Stress in Poplar (Populus trichocarpa). PLoS One 2017;12(1):e0170210. PMID: 28095469
  • Alam I, Yang YQ, Wang Y, Zhu ML et al. Genome-wide identification, evolution and expression analysis of RING finger protein genes in Brassica rapa. Sci Rep 2017 Jan 17;7:40690. PMID: 28094809
  • Adams CM, Kim AS, Mitra R, Choi JK et al. BCL-W has a fundamental role in B cell survival and lymphomagenesis. J Clin Invest 2017 Feb 1;127(2):635-650. PMID: 28094768
  • Wang P, Yang C, Chen H, Song C et al. Transcriptomic basis for drought-resistance in Brassica napus L. Sci Rep 2017 Jan 16;7:40532. PMID: 28091614
  • Roy SWTranscriptomic analysis of diplomonad parasites reveals a trans-spliced intron in a helicase gene in Giardia. PeerJ 2017;5:e2861. PMID: 28090405
  • Hu Y, Sun X, Mao C, Guo G et al. Upregulation of long noncoding RNA TUG1 promotes cervical cancer cell proliferation and migration. Cancer Med 2017 Feb;6(2):471-482. PMID: 28088836
  • Li J, Xing X, Li D, Zhang B et al. Whole-Genome DNA Methylation Profiling Identifies Epigenetic Signatures of Uterine Carcinosarcoma. Neoplasia 2017 Feb;19(2):100-111. PMID: 28088687
  • Lai YP, Wang LB, Wang WA, Lai LC et al. iGC-an integrated analysis package of gene expression and copy number alteration. BMC Bioinformatics 2017 Jan 14;18(1):35. PMID: 28088185
  • Davoli T, Mengwasser KE, Duan J, Chen T et al. Functional genomics reveals that tumors with activating phosphoinositide 3-kinase mutations are dependent on accelerated protein turnover. Genes Dev 2016 Dec 15;30(24):2684-2695. PMID: 28087713
  • Narendra V, Bulajić M, Dekker J, Mazzoni EO et al. CTCF-mediated topological boundaries during development foster appropriate gene regulation. Genes Dev 2016 Dec 15;30(24):2657-2662. PMID: 28087711
  • Yin X, Yu H, Jin X, Li J et al. Human Blood CD1c+ Dendritic Cells Encompass CD5high and CD5low Subsets That Differ Significantly in Phenotype, Gene Expression, and Functions. J Immunol 2017 Feb 15;198(4):1553-1564. PMID: 28087664
  • Tomaz RA, Harman JL, Karimlou D, Weavers L et al. Jmjd2c facilitates the assembly of essential enhancer-protein complexes at the onset of embryonic stem cell differentiation. Development 2017 Feb 15;144(4):567-579. PMID: 28087629
  • Gu Z, Xia J, Xu H, Frech I et al. NEK2 Promotes Aerobic Glycolysis in Multiple Myeloma Through Regulating Splicing of Pyruvate Kinase. J Hematol Oncol 2017 Jan 13;10(1):17. PMID: 28086949
  • Brockmöller T, Ling Z, Li D, Gaquerel E et al. Nicotiana attenuata Data Hub (NaDH): an integrative platform for exploring genomic, transcriptomic and metabolomic data in wild tobacco. BMC Genomics 2017 Jan 13;18(1):79. PMID: 28086860
  • Prokopec SD, Houlahan KE, Sun RX, Watson JD et al. Compendium of TCDD-mediated transcriptomic response datasets in mammalian model systems. BMC Genomics 2017 Jan 13;18(1):78. PMID: 28086803
  • Cheerla N, Gevaert O et al. MicroRNA based Pan-Cancer Diagnosis and Treatment Recommendation. BMC Bioinformatics 2017 Jan 13;18(1):32. PMID: 28086747
  • Adamo A, Fiore D, De Martino F, Roscigno G et al. RYK promotes the stemness of glioblastoma cells via the WNT/ β-catenin pathway. Oncotarget 2017 Feb 21;8(8):13476-13487. PMID: 28086236
  • Bose DA, Donahue G, Reinberg D, Shiekhattar R et al. RNA Binding to CBP Stimulates Histone Acetylation and Transcription. Cell 2017 Jan 12;168(1-2):135-149.e22. PMID: 28086087
  • Hogle SL, Brahamsha B, Barbeau KA et al. Direct Heme Uptake by Phytoplankton-Associated Roseobacter Bacteria. mSystems 2017 Jan-Feb;2(1). PMID: 28083564
  • Cui Y, Wang M, Zhou H, Li M et al. OsSGL, a Novel DUF1645 Domain-Containing Protein, Confers Enhanced Drought Tolerance in Transgenic Rice and Arabidopsis. Front Plant Sci 2016;7:2001. PMID: 28083013
  • Diener C, Resendis-Antonio O et al. Personalized Prediction of Proliferation Rates and Metabolic Liabilities in Cancer Biopsies. Front Physiol 2016;7:644. PMID: 28082911
  • Yamane D, Selitsky SR, Shimakami T, Li Y et al. Differential hepatitis C virus RNA target site selection and host factor activities of naturally occurring miR-122 3΄ variants. Nucleic Acids Res 2017 May 5;45(8):4743-4755. PMID: 28082397
  • Mundbjerg K, Chopra S, Alemozaffar M, Duymich C et al. Identifying aggressive prostate cancer foci using a DNA methylation classifier. Genome Biol 2017 Jan 12;18(1):3. PMID: 28081708
  • Liu SL, Lin HX, Qiu F, Zhang WJ et al. Overexpression of Kinesin Family Member 20A Correlates with Disease Progression and Poor Prognosis in Human Nasopharyngeal Cancer: A Retrospective Analysis of 105 Patients. PLoS One 2017;12(1):e0169280. PMID: 28081138
  • Zhang F, Chen X, Wei K, Liu D et al. Identification of Key Transcription Factors Associated with Lung Squamous Cell Carcinoma. Med Sci Monit 2017 Jan 12;23:172-206. PMID: 28081052
  • Tsai YH, Hill DR, Kumar N, Huang S et al. LGR4 and LGR5 Function Redundantly During Human Endoderm Differentiation. Cell Mol Gastroenterol Hepatol 2016 Sep;2(5):648-662.e8. PMID: 28078320
  • Zhou W, Sherwood B, Ji H et al. Computational Prediction of the Global Functional Genomic Landscape: Applications, Methods, and Challenges. Hum Hered 2016;81(2):88-105. PMID: 28076869
  • Kerry J, Godfrey L, Repapi E, Tapia M et al. MLL-AF4 Spreading Identifies Binding Sites that Are Distinct from Super-Enhancers and that Govern Sensitivity to DOT1L Inhibition in Leukemia. Cell Rep 2017 Jan 10;18(2):482-495. PMID: 28076791
  • Lee YC, Su CY, Lin YF, Lin CM et al. Lysosomal acid phosphatase 2 is an unfavorable prognostic factor but is associated with better survival in stage II colorectal cancer patients receiving chemotherapy. Oncotarget 2017 Feb 14;8(7):12120-12132. PMID: 28076332
  • Xin L, Gao J, Wang D, Lin JH et al. Novel blood-based microRNA biomarker panel for early diagnosis of chronic pancreatitis. Sci Rep 2017 Jan 11;7:40019. PMID: 28074846
  • Rawlik K, Rowlatt A, Sanabria-Salas MC, Hernández-Suárez G et al. Evidence of epigenetic admixture in the Colombian population. Hum Mol Genet 2017 Feb 1;26(3):501-508. PMID: 28073928
  • Wu J, Cui Y, Sun X, Cao G et al. Unsupervised Clustering of Quantitative Image Phenotypes Reveals Breast Cancer Subtypes with Distinct Prognoses and Molecular Pathways. Clin Cancer Res 2017 Jul 1;23(13):3334-3342. PMID: 28073839
  • Zhang H, Vieira Resende E Silva B, Cui J et al. miRDis: a Web tool for endogenous and exogenous microRNA discovery based on deep-sequencing data analysis. Brief Bioinform 2018 May 1;19(3):415-424. PMID: 28073746
  • Zhu C, Kros JM, van der Weiden M, Zheng P et al. Expression site of P2RY12 in residential microglial cells in astrocytomas correlates with M1 and M2 marker expression and tumor grade. Acta Neuropathol Commun 2017 Jan 10;5(1):4. PMID: 28073370
  • Singh A, Sharma RK, Chagtoo M, Agarwal G et al. 1H NMR Metabolomics Reveals Association of High Expression of Inositol 1, 4, 5 Trisphosphate Receptor and Metabolites in Breast Cancer Patients. PLoS One 2017;12(1):e0169330. PMID: 28072864
  • Yao L, Liu Y, Qiu Z, Kumar S et al. Molecular Profiling of Human Induced Pluripotent Stem Cell-Derived Hypothalamic Neurones Provides Developmental Insights into Genetic Loci for Body Weight Regulation. J Neuroendocrinol 2017 Feb;29(2). PMID: 28071834
  • Christoforou N, Chakraborty S, Kirkton RD, Adler AF et al. Core Transcription Factors, MicroRNAs, and Small Molecules Drive Transdifferentiation of Human Fibroblasts Towards The Cardiac Cell Lineage. Sci Rep 2017 Jan 10;7:40285. PMID: 28071742
  • Iwata M, Sawada R, Iwata H, Kotera M et al. Elucidating the modes of action for bioactive compounds in a cell-specific manner by large-scale chemically-induced transcriptomics. Sci Rep 2017 Jan 10;7:40164. PMID: 28071740
  • Churchill AJ, Gutiérrez GD, Singer RA, Lorberbaum DS et al. Genetic evidence that Nkx2.2 acts primarily downstream of Neurog3 in pancreatic endocrine lineage development. Elife 2017 Jan 10;6. PMID: 28071588
  • Paidi SK, Rizwan A, Zheng C, Cheng M et al. Label-Free Raman Spectroscopy Detects Stromal Adaptations in Premetastatic Lungs Primed by Breast Cancer. Cancer Res 2017 Jan 15;77(2):247-256. PMID: 28069800
  • Musa A, Ghoraie LS, Zhang SD, Glazko G et al. A review of connectivity map and computational approaches in pharmacogenomics. Brief Bioinform 2018 May 1;19(3):506-523. PMID: 28069634
  • Zamani-Ahmadmahmudi M, Aghasharif S, Ilbeigi K et al. Prognostic efficacy of the human B-cell lymphoma prognostic genes in predicting disease-free survival (DFS) in the canine counterpart. BMC Vet Res 2017 Jan 9;13(1):17. PMID: 28069005
  • Agarwal E, Robb CM, Smith LM, Brattain MG et al. Role of Akt2 in regulation of metastasis suppressor 1 expression and colorectal cancer metastasis. Oncogene 2017 Jun 1;36(22):3104-3118. PMID: 28068324
  • Ramanathan R, Olex AL, Dozmorov M, Bear HD et al. Angiopoietin pathway gene expression associated with poor breast cancer survival. Breast Cancer Res Treat 2017 Feb;162(1):191-198. PMID: 28062977
  • Liu X, Gao Y, Ye H, Gerrin S et al. Positive feedback loop mediated by protein phosphatase 1α mobilization of P-TEFb and basal CDK1 drives androgen receptor in prostate cancer. Nucleic Acids Res 2017 Apr 20;45(7):3738-3751. PMID: 28062857
  • Kang W, Bang-Berthelsen CH, Holm A, Houben AJ et al. Survey of 800+ data sets from human tissue and body fluid reveals xenomiRs are likely artifacts. RNA 2017 Apr;23(4):433-445. PMID: 28062594
  • Fresno C, González GA, Merino GA, Flesia AG et al. A novel non-parametric method for uncertainty evaluation of correlation-based molecular signatures: its application on PAM50 algorithm. Bioinformatics 2017 Mar 1;33(5):693-700. PMID: 28062443
  • Shannon CP, Balshaw R, Chen V, Hollander Z et al. Enumerateblood - an R package to estimate the cellular composition of whole blood from Affymetrix Gene ST gene expression profiles. BMC Genomics 2017 Jan 6;18(1):43. PMID: 28061752
  • Zhang S, Huang S, Deng C, Cao Y et al. Co-ordinated overexpression of SIRT1 and STAT3 is associated with poor survival outcome in gastric cancer patients. Oncotarget 2017 Mar 21;8(12):18848-18860. PMID: 28061480
  • Nieto-Jiménez C, Alcaraz-Sanabria A, Pérez-Peña J, Corrales-Sánchez V et al. Targeting basal-like breast tumors with bromodomain and extraterminal domain (BET) and polo-like kinase inhibitors. Oncotarget 2017 Mar 21;8(12):19478-19490. PMID: 28061448
  • Ye X, Wei W, Zhang Z, He C et al. Identification of microRNAs associated with glioma diagnosis and prognosis. Oncotarget 2017 Apr 18;8(16):26394-26403. PMID: 28060761
  • Barisione G, Fabbi M, Cutrona G, De Cecco L et al. Heterogeneous expression of the collagen receptor DDR1 in chronic lymphocytic leukaemia and correlation with progression. Blood Cancer J 2017 Jan 6;6(1):e513. PMID: 28060374
  • Galamb O, Kalmár A, Barták BK, Patai ÁV et al. Aging related methylation influences the gene expression of key control genes in colorectal cancer and adenoma. World J Gastroenterol 2016 Dec 21;22(47):10325-10340. PMID: 28058013
  • Hashimoto K, Yamada Y, Semi K, Yagi M et al. Cellular context-dependent consequences of Apc mutations on gene regulation and cellular behavior. Proc Natl Acad Sci U S A 2017 Jan 24;114(4):758-763. PMID: 28057861
  • Li Z, Tan H, Shi Y, Huang G et al. Global Gene Expression Patterns and Somatic Mutations in Sporadic Intracranial Aneurysms. World Neurosurg 2017 Apr;100:15-21. PMID: 28057588
  • Wu J, Zhou L, Huang L, Gu J et al. Nomogram integrating gene expression signatures with clinicopathological features to predict survival in operable NSCLC: a pooled analysis of 2164 patients. J Exp Clin Cancer Res 2017 Jan 5;36(1):4. PMID: 28057025
  • Lee JU, Cheong HS, Shim EY, Bae DJ et al. Gene profile of fibroblasts identify relation of CCL8 with idiopathic pulmonary fibrosis. Respir Res 2017 Jan 5;18(1):3. PMID: 28057004
  • Lazaris C, Kelly S, Ntziachristos P, Aifantis I et al. HiC-bench: comprehensive and reproducible Hi-C data analysis designed for parameter exploration and benchmarking. BMC Genomics 2017 Jan 5;18(1):22. PMID: 28056762
  • Li B, McCrudden CM, Yuen HF, Xi X et al. CD133 in brain tumor: the prognostic factor. Oncotarget 2017 Feb 14;8(7):11144-11159. PMID: 28055976
  • Kel AData on master regulators and transcription factor binding sites found by upstream analysis of multi-omics data on methotrexate resistance of colon cancer. Data Brief 2017 Feb;10:499-504. PMID: 28054015
  • Lee E, Moon A et al. Identification of Biomarkers for Breast Cancer Using Databases. J Cancer Prev 2016 Dec;21(4):235-242. PMID: 28053957
  • Stone RC, Stojadinovic O, Rosa AM, Ramirez HA et al. A bioengineered living cell construct activates an acute wound healing response in venous leg ulcers. Sci Transl Med 2017 Jan 4;9(371). PMID: 28053158
  • Hubé F, Ulveling D, Sureau A, Forveille S et al. Short intron-derived ncRNAs. Nucleic Acids Res 2017 May 5;45(8):4768-4781. PMID: 28053119
  • Gaeta X, Le L, Lin Y, Xie Y et al. Defining Transcriptional Regulatory Mechanisms for Primary let-7 miRNAs. PLoS One 2017;12(1):e0169237. PMID: 28052101
  • Hamed M, Trumm J, Spaniol C, Sethi R et al. Linking Hematopoietic Differentiation to Co-Expressed Sets of Pluripotency-Associated and Imprinted Genes and to Regulatory microRNA-Transcription Factor Motifs. PLoS One 2017;12(1):e0166852. PMID: 28052084
  • Li L, Greene I, Readhead B, Menon MC et al. Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach. Sci Rep 2017 Jan 4;7:39487. PMID: 28051114
  • Jiao S, Li C, Hao Q, Miao H et al. VGLL4 targets a TCF4-TEAD4 complex to coregulate Wnt and Hippo signalling in colorectal cancer. Nat Commun 2017 Jan 4;8:14058. PMID: 28051067
  • Kooy-Winkelaar YM, Bouwer D, Janssen GM, Thompson A et al. CD4 T-cell cytokines synergize to induce proliferation of malignant and nonmalignant innate intraepithelial lymphocytes. Proc Natl Acad Sci U S A 2017 Feb 7;114(6):E980-E989. PMID: 28049849
  • Fahrmann JF, Grapov DD, Wanichthanarak K, DeFelice BC et al. Integrated Metabolomics and Proteomics Highlight Altered Nicotinamide- and Polyamine Pathways in Lung Adenocarcinoma. Carcinogenesis 2017 Mar;38(3):271-280. PMID: 28049629
  • Xu Z, Langie SA, De Boever P, Taylor JA et al. RELIC: a novel dye-bias correction method for Illumina Methylation BeadChip. BMC Genomics 2017 Jan 3;18(1):4. PMID: 28049437
  • Radovic M, Ghalwash M, Filipovic N, Obradovic Z et al. Minimum redundancy maximum relevance feature selection approach for temporal gene expression data. BMC Bioinformatics 2017 Jan 3;18(1):9. PMID: 28049413
  • Das KP, Wood CR, Lin MT, Starkov AA et al. Perfluoroalkyl acids-induced liver steatosis: Effects on genes controlling lipid homeostasis. Toxicology 2017 Mar 1;378:37-52. PMID: 28049043
  • Ma X, Han N, Shao C, Meng Y et al. Transcriptome-Wide Discovery of PASRs (Promoter-Associated Small RNAs) and TASRs (Terminus-Associated Small RNAs) in Arabidopsis thaliana. PLoS One 2017;12(1):e0169212. PMID: 28046132
  • Dias K, Dvorkin-Gheva A, Hallett RM, Wu Y et al. Claudin-Low Breast Cancer; Clinical & Pathological Characteristics. PLoS One 2017;12(1):e0168669. PMID: 28045912
  • Ren W, Wang C, Wang Q, Zhao D et al. Bromodomain protein Brd3 promotes Ifnb1 transcription via enhancing IRF3/p300 complex formation and recruitment to Ifnb1 promoter in macrophages. Sci Rep 2017 Jan 3;7:39986. PMID: 28045112
  • Zhu Y, Lin Y, Yan W, Sun Z et al. Novel Biomarker MicroRNAs for Subtyping of Acute Coronary Syndrome: A Bioinformatics Approach. Biomed Res Int 2016;2016:4618323. PMID: 28044128
  • Chen X, Yang Y, Liu J, Li B et al. NDRG4 hypermethylation is a potential biomarker for diagnosis and prognosis of gastric cancer in Chinese population. Oncotarget 2017 Jan 31;8(5):8105-8119. PMID: 28042954
  • Jiang X, Zhang H, Quan X et al. Differentially Coexpressed Disease Gene Identification Based on Gene Coexpression Network. Biomed Res Int 2016;2016:3962761. PMID: 28042568
  • Rabieian R, Abedi M, Gheisari Y et al. Central Nodes in Protein Interaction Networks Drive Critical Functions in Transforming Growth Factor Beta-1 Stimulated Kidney Cells. Cell J 2017 Winter;18(4):514-531. PMID: 28042536
  • Zhang Y, Baheti S, Sun Z et al. Statistical method evaluation for differentially methylated CpGs in base resolution next-generation DNA sequencing data. Brief Bioinform 2018 May 1;19(3):374-386. PMID: 28040747
  • Ma P, Zhang M, Nie F, Huang Z et al. Transcriptome analysis of EGFR tyrosine kinase inhibitors resistance associated long noncoding RNA in non-small cell lung cancer. Biomed Pharmacother 2017 Mar;87:20-26. PMID: 28040594
  • Young NA, Valiente GR, Hampton JM, Wu LC et al. Estrogen-regulated STAT1 activation promotes TLR8 expression to facilitate signaling via microRNA-21 in systemic lupus erythematosus. Clin Immunol 2017 Mar;176:12-22. PMID: 28039018
  • Lee BJ, Marchionni L, Andrews CE, Norris AL et al. Analysis of differential gene expression mediated by clozapine in human postmortem brains. Schizophr Res 2017 Jul;185:58-66. PMID: 28038920
  • Tam KJ, Dalal K, Hsing M, Cheng CW et al. Androgen receptor transcriptionally regulates semaphorin 3C in a GATA2-dependent manner. Oncotarget 2017 Feb 7;8(6):9617-9633. PMID: 28038451
  • Li WX, He K, Tang L, Dai SX et al. Comprehensive tissue-specific gene set enrichment analysis and transcription factor analysis of breast cancer by integrating 14 gene expression datasets. Oncotarget 2017 Jan 24;8(4):6775-6786. PMID: 28036274
  • Chen R, Guan Q, Cheng J, He J et al. Robust transcriptional tumor signatures applicable to both formalin-fixed paraffin-embedded and fresh-frozen samples. Oncotarget 2017 Jan 24;8(4):6652-6662. PMID: 28036264
  • Salazar BM, Balczewski EA, Ung CY, Zhu S et al. Neuroblastoma, a Paradigm for Big Data Science in Pediatric Oncology. Int J Mol Sci 2016 Dec 27;18(1). PMID: 28035989
  • Hou JY, Wang YG, Ma SJ, Yang BY et al. Identification of a prognostic 5-Gene expression signature for gastric cancer. J Cancer Res Clin Oncol 2017 Apr;143(4):619-629. PMID: 28035468
  • Liu L, Chang Y, Yang T, Noren DP et al. Evolution-informed modeling improves outcome prediction for cancers. Evol Appl 2017 Jan;10(1):68-76. PMID: 28035236
  • Kim Y, Zhang Y, Pang K, Kang H et al. Bipolar Disorder Associated microRNA, miR-1908-5p, Regulates the Expression of Genes Functioning in Neuronal Glutamatergic Synapses. Exp Neurobiol 2016 Dec;25(6):296-306. PMID: 28035180
  • Huang GL, Liao D, Chen H, Lu Y et al. The protein level and transcription activity of activating transcription factor 1 is regulated by prolyl isomerase Pin1 in nasopharyngeal carcinoma progression. Cell Death Dis 2016 Dec 29;7(12):e2571. PMID: 28032861
  • Riether C, Schürch CM, Bührer ED, Hinterbrandner M et al. CD70/CD27 signaling promotes blast stemness and is a viable therapeutic target in acute myeloid leukemia. J Exp Med 2017 Feb;214(2):359-380. PMID: 28031480
  • Xu K, Chen X, Yang H, Xu Y et al. Maternal Sall4 Is Indispensable for Epigenetic Maturation of Mouse Oocytes. J Biol Chem 2017 Feb 3;292(5):1798-1807. PMID: 28031467
  • Gumienny R, Jedlinski DJ, Schmidt A, Gypas F et al. High-throughput identification of C/D box snoRNA targets with CLIP and RiboMeth-seq. Nucleic Acids Res 2017 Mar 17;45(5):2341-2353. PMID: 28031372
  • Altieri B, Sbiera S, Della Casa S, Weigand I et al. Livin/BIRC7 expression as malignancy marker in adrenocortical tumors. Oncotarget 2017 Feb 7;8(6):9323-9338. PMID: 28030838
  • Wang J, Yunyun Z, Wang L, Chen X et al. ABCG2 confers promotion in gastric cancer through modulating downstream CRKL in vitro combining with biostatistics mining. Oncotarget 2017 Jan 17;8(3):5256-5267. PMID: 28029654
  • Wei CC, Nie FQ, Jiang LL, Chen QN et al. The pseudogene DUXAP10 promotes an aggressive phenotype through binding with LSD1 and repressing LATS2 and RRAD in non small cell lung cancer. Oncotarget 2017 Jan 17;8(3):5233-5246. PMID: 28029651
  • Tsvetkov P, Sokol E, Jin D, Brune Z et al. Suppression of 19S proteasome subunits marks emergence of an altered cell state in diverse cancers. Proc Natl Acad Sci U S A 2017 Jan 10;114(2):382-387. PMID: 28028240
  • Guo S, Zhou Y, Zeng P, Xu G et al. Identification and analysis of the human sex-biased genes. Brief Bioinform 2018 Mar 1;19(2):188-198. PMID: 28028006
  • Wei J, Zhu H, Lord G, Bhattachayya M et al. Nrf2 exerts cell-autonomous antifibrotic effects: compromised function in systemic sclerosis and therapeutic rescue with a novel heterocyclic chalcone derivative. Transl Res 2017 May;183:71-86.e1. PMID: 28027929
  • Duan Y, Zhou M, Xiao J, Wu C et al. Prediction of key genes and miRNAs responsible for loss of muscle force in patients during an acute exacerbation of chronic obstructive pulmonary disease. Int J Mol Med 2016 Nov;38(5):1450-1462. PMID: 28025995
  • Qi Y, Wang D, Wang D, Jin T et al. HEDD: the human epigenetic drug database. Database (Oxford) 2016;2016. PMID: 28025347
  • Fang J, Bolanos LC, Choi K, Liu X et al. Ubiquitination of hnRNPA1 by TRAF6 links chronic innate immune signaling with myelodysplasia. Nat Immunol 2017 Feb;18(2):236-245. PMID: 28024152
  • Chen J, Yu L, Zhang S, Chen X et al. Network Analysis-Based Approach for Exploring the Potential Diagnostic Biomarkers of Acute Myocardial Infarction. Front Physiol 2016;7:615. PMID: 28018242
  • Schlackow M, Nojima T, Gomes T, Dhir A et al. Distinctive Patterns of Transcription and RNA Processing for Human lincRNAs. Mol Cell 2017 Jan 5;65(1):25-38. PMID: 28017589
  • Jin F, Jiang K, Ji S, Wang L et al. Deficient TSC1/TSC2-complex suppression of SOX9-osteopontin-AKT signalling cascade constrains tumour growth in tuberous sclerosis complex. Hum Mol Genet 2017 Jan 15;26(2):407-419. PMID: 28013293
  • Das R, Gregory PA, Fernandes RC, Denis I et al. MicroRNA-194 Promotes Prostate Cancer Metastasis by Inhibiting SOCS2. Cancer Res 2017 Feb 15;77(4):1021-1034. PMID: 28011622
  • Taroni JN, Martyanov V, Mahoney JM, Whitfield ML et al. A Functional Genomic Meta-Analysis of Clinical Trials in Systemic Sclerosis: Toward Precision Medicine and Combination Therapy. J Invest Dermatol 2017 May;137(5):1033-1041. PMID: 28011145
  • Druzhinina IS, Kubicek EM, Kubicek CP et al. Several steps of lateral gene transfer followed by events of 'birth-and-death' evolution shaped a fungal sorbicillinoid biosynthetic gene cluster. BMC Evol Biol 2016 Dec 7;16(1):269. PMID: 28010735
  • Ohtsuka T, Sakaguchi M, Yamamoto H, Tomida S et al. Interaction of cytokeratin 19 head domain and HER2 in the cytoplasm leads to activation of HER2-Erk pathway. Sci Rep 2016 Dec 23;6:39557. PMID: 28008968
  • Wang J, Jiang W, Yan Y, Chen C et al. Knockdown of EWSR1/FLI1 expression alters the transcriptome of Ewing sarcoma cells in vitro. J Bone Oncol 2016 Nov;5(4):153-158. PMID: 28008375
  • Racimo F, Gokhman D, Fumagalli M, Ko A et al. Archaic Adaptive Introgression in TBX15/WARS2. Mol Biol Evol 2017 Mar 1;34(3):509-524. PMID: 28007980
  • Sun T, Yang L, Kaur H, Pestel J et al. A reverse signaling pathway downstream of Sema4A controls cell migration via Scrib. J Cell Biol 2017 Jan 2;216(1):199-215. PMID: 28007914
  • Jerabek S, Ng CK, Wu G, Arauzo-Bravo MJ et al. Changing POU dimerization preferences converts Oct6 into a pluripotency inducer. EMBO Rep 2017 Feb;18(2):319-333. PMID: 28007765
  • Li Q, Schissler AG, Gardeux V, Berghout J et al. kMEn: Analyzing noisy and bidirectional transcriptional pathway responses in single subjects. J Biomed Inform 2017 Feb;66:32-41. PMID: 28007582
  • Rao SR, Snaith AE, Marino D, Cheng X et al. Tumour-derived alkaline phosphatase regulates tumour growth, epithelial plasticity and disease-free survival in metastatic prostate cancer. Br J Cancer 2017 Jan 17;116(2):227-236. PMID: 28006818
  • Lin CW, Wang LK, Wang SP, Chang YL et al. Daxx inhibits hypoxia-induced lung cancer cell metastasis by suppressing the HIF-1α/HDAC1/Slug axis. Nat Commun 2016 Dec 22;7:13867. PMID: 28004751
  • Han CY, Koo JH, Kim SH, Gardenghi S et al. Hepcidin inhibits Smad3 phosphorylation in hepatic stellate cells by impeding ferroportin-mediated regulation of Akt. Nat Commun 2016 Dec 22;7:13817. PMID: 28004654
  • Myant KB, Cammareri P, Hodder MC, Wills J et al. HUWE1 is a critical colonic tumour suppressor gene that prevents MYC signalling, DNA damage accumulation and tumour initiation. EMBO Mol Med 2017 Feb;9(2):181-197. PMID: 28003334
  • Liu J, Shi H, Li X, Chen G et al. miR‑223‑3p regulates cell growth and apoptosis via FBXW7 suggesting an oncogenic role in human testicular germ cell tumors. Int J Oncol 2017 Feb;50(2):356-364. PMID: 28000896
  • Zhang W, Han S, Sun K et al. Combined analysis of gene expression, miRNA expression and DNA methylation profiles of osteosarcoma. Oncol Rep 2017 Feb;37(2):1175-1181. PMID: 28000890
  • Shen L, Lin Y, Sun Z, Yuan X et al. Knowledge-Guided Bioinformatics Model for Identifying Autism Spectrum Disorder Diagnostic MicroRNA Biomarkers. Sci Rep 2016 Dec 21;6:39663. PMID: 28000768
  • Bertoli G, Cava C, Diceglie C, Martelli C et al. MicroRNA-567 dysregulation contributes to carcinogenesis of breast cancer, targeting tumor cell proliferation, and migration. Breast Cancer Res Treat 2017 Feb;161(3):605-616. PMID: 28000015
  • Chen J, Cai T, Zheng C, Lin X et al. MicroRNA-202 maintains spermatogonial stem cells by inhibiting cell cycle regulators and RNA binding proteins. Nucleic Acids Res 2017 Apr 20;45(7):4142-4157. PMID: 27998933
  • Chitrala KN, Nagarkatti P, Nagarkatti M et al. Prediction of Possible Biomarkers and Novel Pathways Conferring Risk to Post-Traumatic Stress Disorder. PLoS One 2016;11(12):e0168404. PMID: 27997584
  • Aydos A, Gurel A, Oztemur Islakoglu Y, Noyan S et al. Identification of Polycystic Ovary Syndrome (PCOS) Specific Genes in Cumulus and Mural Granulosa Cells. PLoS One 2016;11(12):e0168875. PMID: 27997581
  • Lebensohn AM, Dubey R, Neitzel LR, Tacchelly-Benites O et al. Comparative genetic screens in human cells reveal new regulatory mechanisms in WNT signaling. Elife 2016 Dec 20;5. PMID: 27996937
  • Yang C, Peng P, Li L, Shao M et al. High expression of GFAT1 predicts poor prognosis in patients with pancreatic cancer. Sci Rep 2016 Dec 20;6:39044. PMID: 27996048
  • Kim RS, Hasegawa D, Goossens N, Tsuchida T et al. The XBP1 Arm of the Unfolded Protein Response Induces Fibrogenic Activity in Hepatic Stellate Cells Through Autophagy. Sci Rep 2016 Dec 20;6:39342. PMID: 27996033
  • Dvorkin-Gheva A, Vanderstocken G, Yildirim AÖ, Brandsma CA et al. Total particulate matter concentration skews cigarette smoke's gene expression profile. ERJ Open Res 2016 Oct;2(4). PMID: 27995131
  • Pu W, Geng X, Chen S, Tan L et al. Aberrant methylation of CDH13 can be a diagnostic biomarker for lung adenocarcinoma. J Cancer 2016;7(15):2280-2289. PMID: 27994665
  • Li Y, Wu Y, Zheng X, Cong J et al. Cytoplasm-Translocated Ku70/80 Complex Sensing of HBV DNA Induces Hepatitis-Associated Chemokine Secretion. Front Immunol 2016;7:569. PMID: 27994596
  • Liu Y, Ni R, Zhang H, Miao L et al. Identification of feature genes for smoking-related lung adenocarcinoma based on gene expression profile data. Onco Targets Ther 2016;9:7397-7407. PMID: 27994470
  • Bojcsuk D, Nagy G, Balint BL et al. Inducible super-enhancers are organized based on canonical signal-specific transcription factor binding elements. Nucleic Acids Res 2017 Apr 20;45(7):3693-3706. PMID: 27994038
  • Sharma V, Malgulwar PB, Purkait S, Patil V et al. Genome-wide ChIP-seq analysis of EZH2-mediated H3K27me3 target gene profile highlights differences between low- and high-grade astrocytic tumors. Carcinogenesis 2017 Feb 1;38(2):152-161. PMID: 27993893
  • Quach B, Furey TS et al. DeFCoM: analysis and modeling of transcription factor binding sites using a motif-centric genomic footprinter. Bioinformatics 2017 Apr 1;33(7):956-963. PMID: 27993786
  • Uehiro N, Sato F, Pu F, Tanaka S et al. Circulating cell-free DNA-based epigenetic assay can detect early breast cancer. Breast Cancer Res 2016 Dec 19;18(1):129. PMID: 27993161
  • Łabaj PP, Kreil DP et al. Sensitivity, specificity, and reproducibility of RNA-Seq differential expression calls. Biol Direct 2016 Dec 20;11(1):66. PMID: 27993156
  • Bei Y, Hong P et al. Robust differential expression analysis by learning discriminant boundary in multi-dimensional space of statistical attributes. BMC Bioinformatics 2016 Dec 19;17(1):541. PMID: 27993137
  • Kitagawa Y, Ohkura N, Kidani Y, Vandenbon A et al. Guidance of regulatory T cell development by Satb1-dependent super-enhancer establishment. Nat Immunol 2017 Feb;18(2):173-183. PMID: 27992401
  • Modi DA, Tagare RD, Karthikeyan S, Russo A et al. PAX2 function, regulation and targeting in fallopian tube-derived high-grade serous ovarian cancer. Oncogene 2017 May 25;36(21):3015-3024. PMID: 27991925
  • Hu W, Li S, Park JY, Boppana S et al. Dynamic landscape of alternative polyadenylation during retinal development. Cell Mol Life Sci 2017 May;74(9):1721-1739. PMID: 27990575
  • Rinchai D, Kewcharoenwong C, Kessler B, Lertmemongkolchai G et al. Increased abundance of ADAM9 transcripts in the blood is associated with tissue damage. F1000Res 2015;4:89. PMID: 27990250
  • McNairn AJ, Rinaldi VD, Schimenti JC et al. Repair of Meiotic DNA Breaks and Homolog Pairing in Mouse Meiosis Requires a Minichromosome Maintenance (MCM) Paralog. Genetics 2017 Feb;205(2):529-537. PMID: 27986806
  • Sloothaak J, Odoni DI, Martins Dos Santos VA, Schaap PJ et al. Identification of a Novel L-rhamnose Uptake Transporter in the Filamentous Fungus Aspergillus niger. PLoS Genet 2016 Dec;12(12):e1006468. PMID: 27984587
  • Mira JC, Moldawer LL et al. Sepsis Diagnostics: From Discovery to Application. Crit Care Med 2017 Jan;45(1):129-130. PMID: 27984279
  • Plantier L, Renaud H, Respaud R, Marchand-Adam S et al. Transcriptome of Cultured Lung Fibroblasts in Idiopathic Pulmonary Fibrosis: Meta-Analysis of Publically Available Microarray Datasets Reveals Repression of Inflammation and Immunity Pathways. Int J Mol Sci 2016 Dec 13;17(12). PMID: 27983601
  • Thorne TNetDiff - Bayesian model selection for differential gene regulatory network inference. Sci Rep 2016 Dec 16;6:39224. PMID: 27982083
  • He F, Maslov S et al. Pan- and core- network analysis of co-expression genes in a model plant. Sci Rep 2016 Dec 16;6:38956. PMID: 27982071
  • Song KH, Park MS, Nandu TS, Gadad S et al. GALNT14 promotes lung-specific breast cancer metastasis by modulating self-renewal and interaction with the lung microenvironment. Nat Commun 2016 Dec 16;7:13796. PMID: 27982029
  • Fan W, Yang H, Liu T, Wang J et al. Prohibitin 1 suppresses liver cancer tumorigenesis in mice and human hepatocellular and cholangiocarcinoma cells. Hepatology 2017 Apr;65(4):1249-1266. PMID: 27981602
  • Babaian A, Mager DL et al. Endogenous retroviral promoter exaptation in human cancer. Mob DNA 2016;7:24. PMID: 27980689
  • Andrews SV, Ladd-Acosta C, Feinberg AP, Hansen KD et al. "Gap hunting" to characterize clustered probe signals in Illumina methylation array data. Epigenetics Chromatin 2016;9:56. PMID: 27980682
  • Sun S, Cai J, Yang Q, Zhao S et al. The association between copper transporters and the prognosis of cancer patients undergoing chemotherapy: a meta-analysis of literatures and datasets. Oncotarget 2017 Feb 28;8(9):16036-16051. PMID: 27980217
  • Teng KY, Han J, Zhang X, Hsu SH et al. Blocking the CCL2-CCR2 Axis Using CCL2-Neutralizing Antibody Is an Effective Therapy for Hepatocellular Cancer in a Mouse Model. Mol Cancer Ther 2017 Feb;16(2):312-322. PMID: 27980102
  • Koenecke N, Johnston J, He Q, Meier S et al. Drosophila poised enhancers are generated during tissue patterning with the help of repression. Genome Res 2017 Jan;27(1):64-74. PMID: 27979994
  • Baarsma HA, Skronska-Wasek W, Mutze K, Ciolek F et al. Noncanonical WNT-5A signaling impairs endogenous lung repair in COPD. J Exp Med 2017 Jan;214(1):143-163. PMID: 27979969
  • Ma S, Ming Z, Gong AY, Wang Y et al. A long noncoding RNA, lincRNA-Tnfaip3, acts as a coregulator of NF-κB to modulate inflammatory gene transcription in mouse macrophages. FASEB J 2017 Mar;31(3):1215-1225. PMID: 27979905
  • Lee N, Park SJ, Haddad G, Kim DK et al. Interactomic analysis of REST/NRSF and implications of its functional links with the transcription suppressor TRIM28 during neuronal differentiation. Sci Rep 2016 Dec 15;6:39049. PMID: 27976729
  • van Kempen LC, Redpath M, Elchebly M, Klein KO et al. The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene. Sci Transl Med 2016 Dec 14;8(369):369ra177. PMID: 27974665
  • Mehrmohamadi M, Mentch LK, Clark AG, Locasale JW et al. Integrative modelling of tumour DNA methylation quantifies the contribution of metabolism. Nat Commun 2016 Dec 14;7:13666. PMID: 27966532
  • Sun Y, Cheng H, Wang G, Yu G et al. Deregulation of miR-183 promotes melanoma development via lncRNA MALAT1 regulation and ITGB1 signal activation. Oncotarget 2017 Jan 10;8(2):3509-3518. PMID: 27966454
  • Yang S, Ning Q, Zhang G, Sun H et al. Construction of differential mRNA-lncRNA crosstalk networks based on ceRNA hypothesis uncover key roles of lncRNAs implicated in esophageal squamous cell carcinoma. Oncotarget 2016 Dec 27;7(52):85728-85740. PMID: 27966444
  • Lu C, Liu X, Wang L, Jiang N et al. Integrated analyses for genetic markers of polycystic ovary syndrome with 9 case-control studies of gene expression profiles. Oncotarget 2017 Jan 10;8(2):3170-3180. PMID: 27965459
  • Wang L, Xu X, Cao Y, Li Z et al. Activin/Smad2-induced Histone H3 Lys-27 Trimethylation (H3K27me3) Reduction Is Crucial to Initiate Mesendoderm Differentiation of Human Embryonic Stem Cells. J Biol Chem 2017 Jan 27;292(4):1339-1350. PMID: 27965357
  • Koestler DC, Usset J, Christensen BC, Marsit CJ et al. DNA Methylation-Derived Neutrophil-to-Lymphocyte Ratio: An Epigenetic Tool to Explore Cancer Inflammation and Outcomes. Cancer Epidemiol Biomarkers Prev 2017 Mar;26(3):328-338. PMID: 27965295
  • Raghu H, Lepus CM, Wang Q, Wong HH et al. CCL2/CCR2, but not CCL5/CCR5, mediates monocyte recruitment, inflammation and cartilage destruction in osteoarthritis. Ann Rheum Dis 2017 May;76(5):914-922. PMID: 27965260
  • Bahreini A, Levine K, Santana-Santos L, Benos PV et al. Non-coding single nucleotide variants affecting estrogen receptor binding and activity. Genome Med 2016 Dec 13;8(1):128. PMID: 27964748
  • Wang Y, Richard R, Pan Y et al. Prior knowledge guided eQTL mapping for identifying candidate genes. BMC Bioinformatics 2016 Dec 13;17(1):531. PMID: 27964730
  • Sun J, Bi F, Yang Y, Zhang Y et al. DEK protein overexpression predicts poor prognosis in pancreatic ductal adenocarcinoma. Oncol Rep 2017 Feb;37(2):857-864. PMID: 27959420
  • Mannarino L, Paracchini L, Craparotta I, Romano M et al. A systems biology approach to investigate the mechanism of action of trabectedin in a model of myelomonocytic leukemia. Pharmacogenomics J 2018 Jan;18(1):56-63. PMID: 27958379
  • Liu L, Guan H, Li Y, Ying Z et al. Astrocyte Elevated Gene 1 Interacts with Acetyltransferase p300 and c-Jun To Promote Tumor Aggressiveness. Mol Cell Biol 2017 Mar 1;37(5). PMID: 27956703
  • Delahaye-Duriez A, Srivastava P, Shkura K, Langley SR et al. Rare and common epilepsies converge on a shared gene regulatory network providing opportunities for novel antiepileptic drug discovery. Genome Biol 2016 Dec 13;17(1):245. PMID: 27955713
  • Yan H, Zhang DY, Li X, Yuan XQ et al. Long non-coding RNA GAS5 polymorphism predicts a poor prognosis of acute myeloid leukemia in Chinese patients via affecting hematopoietic reconstitution. Leuk Lymphoma 2017 Aug;58(8):1948-1957. PMID: 27951730
  • Pope BJ, Mahmood K, Jung CH, Georgeson P et al. Single nucleotide-level mapping of DNA double-strand breaks in human HEK293T cells. Genom Data 2017 Mar;11:43-45. PMID: 27942458
  • Low YS, Daugherty AC, Schroeder EA, Chen W et al. Synergistic drug combinations from electronic health records and gene expression. J Am Med Inform Assoc 2017 May 1;24(3):565-576. PMID: 27940607
  • Arguel MJ, LeBrigand K, Paquet A, Ruiz García S et al. A cost effective 5΄ selective single cell transcriptome profiling approach with improved UMI design. Nucleic Acids Res 2017 Apr 20;45(7):e48. PMID: 27940562
  • Wu HT, Kuo YC, Hung JJ, Huang CH et al. K63-polyubiquitinated HAUSP deubiquitinates HIF-1α and dictates H3K56 acetylation promoting hypoxia-induced tumour progression. Nat Commun 2016 Dec 9;7:13644. PMID: 27934968
  • Duan CG, Wang X, Xie S, Pan L et al. A pair of transposon-derived proteins function in a histone acetyltransferase complex for active DNA demethylation. Cell Res 2017 Feb;27(2):226-240. PMID: 27934869
  • Tan S, Cardoso-Moreira M, Shi W, Zhang D et al. LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans. Genome Res 2016 Dec;26(12):1663-1675. PMID: 27934698
  • Faria JP, Davis JJ, Edirisinghe JN, Taylor RC et al. Computing and Applying Atomic Regulons to Understand Gene Expression and Regulation. Front Microbiol 2016;7:1819. PMID: 27933038
  • Radhakrishnan VM, Gilpatrick MM, Parsa NA, Kiela PR et al. Expression of Cav1.3 calcium channel in the human and mouse colon: posttranscriptional inhibition by IFNγ. Am J Physiol Gastrointest Liver Physiol 2017 Jan 1;312(1):G77-G84. PMID: 27932504
  • Tung SY, Wang SH, Lee SP, Tsai SP et al. Modulations of SIR-nucleosome interactions of reconstructed yeast silent pre-heterochromatin by O-acetyl-ADP-ribose and magnesium. Mol Biol Cell 2017 Feb 1;28(3):381-386. PMID: 27932495
  • Antsiferova M, Piwko-Czuchra A, Cangkrama M, Wietecha M et al. Activin promotes skin carcinogenesis by attraction and reprogramming of macrophages. EMBO Mol Med 2017 Jan;9(1):27-45. PMID: 27932444
  • Gan J, Ke X, Jiang J, Dong H et al. Growth hormone-releasing hormone receptor antagonists inhibit human gastric cancer through downregulation of PAK1-STAT3/NF-κB signaling. Proc Natl Acad Sci U S A 2016 Dec 20;113(51):14745-14750. PMID: 27930339
  • Lin Z, Yang C, Zhu Y, Duchi J et al. Simultaneous dimension reduction and adjustment for confounding variation. Proc Natl Acad Sci U S A 2016 Dec 20;113(51):14662-14667. PMID: 27930330
  • Farmahin R, Williams A, Kuo B, Chepelev NL et al. Recommended approaches in the application of toxicogenomics to derive points of departure for chemical risk assessment. Arch Toxicol 2017 May;91(5):2045-2065. PMID: 27928627
  • Melé M, Mattioli K, Mallard W, Shechner DM et al. Chromatin environment, transcriptional regulation, and splicing distinguish lincRNAs and mRNAs. Genome Res 2017 Jan;27(1):27-37. PMID: 27927715
  • Cheng LH, Hung KF, Lee TC, Huang CY et al. Mitochondrial co-chaperone protein Tid1 is required for energy homeostasis during skeletal myogenesis. Stem Cell Res Ther 2016 Dec 7;7(1):185. PMID: 27927223
  • Ng SW, Mitchell A, Kennedy JA, Chen WC et al. A 17-gene stemness score for rapid determination of risk in acute leukaemia. Nature 2016 Dec 15;540(7633):433-437. PMID: 27926740
  • Court F, Arnaud P et al. An annotated list of bivalent chromatin regions in human ES cells: a new tool for cancer epigenetic research. Oncotarget 2017 Jan 17;8(3):4110-4124. PMID: 27926531
  • Yevshin I, Sharipov R, Valeev T, Kel A et al. GTRD: a database of transcription factor binding sites identified by ChIP-seq experiments. Nucleic Acids Res 2017 Jan 4;45(D1):D61-D67. PMID: 27924024
  • Jung M, Russell AJ, Liu B, George J et al. A Myc Activity Signature Predicts Poor Clinical Outcomes in Myc-Associated Cancers. Cancer Res 2017 Feb 15;77(4):971-981. PMID: 27923830
  • Xu D, Liu S, Zhang L, Song L et al. MiR-211 inhibits invasion and epithelial-to-mesenchymal transition (EMT) of cervical cancer cells via targeting MUC4. Biochem Biophys Res Commun 2017 Apr 1;485(2):556-562. PMID: 27923652
  • Tong H, Wang J, Chen H, Wang Z et al. Transcriptomic analysis of gene expression profiles of stomach carcinoma reveal abnormal expression of mitotic components. Life Sci 2017 Feb 1;170:41-49. PMID: 27923621
  • Re A, Waldron L, Quattrone A et al. Control of Gene Expression by RNA Binding Protein Action on Alternative Translation Initiation Sites. PLoS Comput Biol 2016 Dec;12(12):e1005198. PMID: 27923063
  • Lam KY, Westrick ZM, Müller CL, Christiaen L et al. Fused Regression for Multi-source Gene Regulatory Network Inference. PLoS Comput Biol 2016 Dec;12(12):e1005157. PMID: 27923054
  • Zhu Y, Wang N, Miller DJ, Wang Y et al. Convex Analysis of Mixtures for Separating Non-negative Well-grounded Sources. Sci Rep 2016 Dec 6;6:38350. PMID: 27922124
  • Keel BN, Lindholm-Perry AK, Snelling WM et al. Evolutionary and Functional Features of Copy Number Variation in the Cattle Genome. Front Genet 2016;7:207. PMID: 27920798
  • Schwarz EM, Roeder AH et al. Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals. Front Plant Sci 2016;7:1744. PMID: 27920789
  • de Anda-Jáuregui G, Velázquez-Caldelas TE, Espinal-Enríquez J, Hernández-Lemus E et al. Transcriptional Network Architecture of Breast Cancer Molecular Subtypes. Front Physiol 2016;7:568. PMID: 27920729
  • Rezaeian AH, Li CF, Wu CY, Zhang X et al. A hypoxia-responsive TRAF6-ATM-H2AX signalling axis promotes HIF1α activation, tumorigenesis and metastasis. Nat Cell Biol 2017 Jan;19(1):38-51. PMID: 27918549
  • Francis A, Dhaka N, Bakshi M, Jung KH et al. Comparative phylogenomic analysis provides insights into TCP gene functions in Sorghum. Sci Rep 2016 Dec 5;6:38488. PMID: 27917941
  • Wang M, Lu X, Xu G, Yin X et al. OsSGL, a novel pleiotropic stress-related gene enhances grain length and yield in rice. Sci Rep 2016 Dec 5;6:38157. PMID: 27917884
  • Shi J, Fu H, Jia Z, He K et al. High Expression of CPT1A Predicts Adverse Outcomes: A Potential Therapeutic Target for Acute Myeloid Leukemia. EBioMedicine 2016 Dec;14:55-64. PMID: 27916548
  • Lienhard M, Grasse S, Rolff J, Frese S et al. QSEA-modelling of genome-wide DNA methylation from sequencing enrichment experiments. Nucleic Acids Res 2017 Apr 7;45(6):e44. PMID: 27913729
  • Somasundaram R, Åhsberg J, Okuyama K, Ungerbäck J et al. Clonal conversion of B lymphoid leukemia reveals cross-lineage transfer of malignant states. Genes Dev 2016 Nov 15;30(22):2486-2499. PMID: 27913602
  • Fleischer T, Klajic J, Aure MR, Louhimo R et al. DNA methylation signature (SAM40) identifies subgroups of the Luminal A breast cancer samples with distinct survival. Oncotarget 2017 Jan 3;8(1):1074-1082. PMID: 27911866
  • Van Gorp H, Saavedra PH, de Vasconcelos NM, Van Opdenbosch N et al. Familial Mediterranean fever mutations lift the obligatory requirement for microtubules in Pyrin inflammasome activation. Proc Natl Acad Sci U S A 2016 Dec 13;113(50):14384-14389. PMID: 27911804
  • Lun AT, McCarthy DJ, Marioni JC et al. A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor. F1000Res 2016;5:2122. PMID: 27909575
  • Bhagat TD, Zou Y, Huang S, Park J et al. Notch Pathway Is Activated via Genetic and Epigenetic Alterations and Is a Therapeutic Target in Clear Cell Renal Cancer. J Biol Chem 2017 Jan 20;292(3):837-846. PMID: 27909050
  • Wang AB, Zhang YV, Tumbar T et al. Gata6 promotes hair follicle progenitor cell renewal by genome maintenance during proliferation. EMBO J 2017 Jan 4;36(1):61-78. PMID: 27908934
  • Li JJ, Wang BQ, Fei Q, Yang Y et al. Identification of candidate genes in osteoporosis by integrated microarray analysis. Bone Joint Res 2016 Dec;5(12):594-601. PMID: 27908864
  • Grandellis C, Fantino E, Muñiz García MN, Bialer MG et al. StCDPK3 Phosphorylates In Vitro Two Transcription Factors Involved in GA and ABA Signaling in Potato: StRSG1 and StABF1. PLoS One 2016;11(12):e0167389. PMID: 27907086
  • Ramakodi MP, Devarajan K, Blackman E, Gibbs D et al. Integrative genomic analysis identifies ancestry-related expression quantitative trait loci on DNA polymerase β and supports the association of genetic ancestry with survival disparities in head and neck squamous cell carcinoma. Cancer 2017 Mar 1;123(5):849-860. PMID: 27906459
  • Daniel PM, Filiz G, Mantamadiotis T et al. Sensitivity of GBM cells to cAMP agonist-mediated apoptosis correlates with CD44 expression and agonist resistance with MAPK signaling. Cell Death Dis 2016 Dec 1;7(12):e2494. PMID: 27906173
  • Hui-Yuen JS, Zhu L, Wong LP, Jiang K et al. Chromatin landscapes and genetic risk in systemic lupus. Arthritis Res Ther 2016 Dec 1;18(1):281. PMID: 27906046
  • Zhang W, Chen L, Xiang H, Hu C et al. Knockdown of GGCT inhibits cell proliferation and induces late apoptosis in human gastric cancer. BMC Biochem 2016 Dec 1;17(1):19. PMID: 27905872
  • Willing EM, Piofczyk T, Albert A, Winkler JB et al. UVR2 ensures transgenerational genome stability under simulated natural UV-B in Arabidopsis thaliana. Nat Commun 2016 Dec 1;7:13522. PMID: 27905394
  • Yan H, Wen L, Tan D, Xie P et al. Association of a cytarabine chemosensitivity related gene expression signature with survival in cytogenetically normal acute myeloid leukemia. Oncotarget 2017 Jan 3;8(1):1529-1540. PMID: 27903973
  • Lv H, Zhang M, Shang Z, Li J et al. Genome-wide haplotype association study identify the FGFR2 gene as a risk gene for acute myeloid leukemia. Oncotarget 2017 Jan 31;8(5):7891-7899. PMID: 27903959
  • Love MI, Huska MR, Jurk M, Schöpflin R et al. Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation. Nucleic Acids Res 2017 Feb 28;45(4):1805-1819. PMID: 27903902
  • Chen Y, Ma J, Miller AJ, Luo B et al. OsCHX14 is Involved in the K+ Homeostasis in Rice (Oryza sativa) Flowers. Plant Cell Physiol 2016 Jul;57(7):1530-1543. PMID: 27903806
  • Dugo M, Cotroneo CE, Lavoie-Charland E, Incarbone M et al. Human Lung Tissue Transcriptome: Influence of Sex and Age. PLoS One 2016;11(11):e0167460. PMID: 27902768
  • Rastegar-Pouyani S, Khazaei N, Wee P, Mohammadnia A et al. Role of Hepatic-Specific Transcription Factors and Polycomb Repressive Complex 2 during Induction of Fibroblasts to Hepatic Fate. PLoS One 2016;11(11):e0167081. PMID: 27902735
  • He Q, Tian L, Jiang H, Zhang J et al. Identification of laryngeal cancer prognostic biomarkers using an inflammatory gene-related, competitive endogenous RNA network. Oncotarget 2017 Feb 7;8(6):9525-9534. PMID: 27902487
  • Xiong Y, Wei Y, Gu Y, Zhang S et al. DiseaseMeth version 2.0: a major expansion and update of the human disease methylation database. Nucleic Acids Res 2017 Jan 4;45(D1):D888-D895. PMID: 27899673
  • Deonovic B, Wang Y, Weirather J, Wang XJ et al. IDP-ASE: haplotyping and quantifying allele-specific expression at the gene and gene isoform level by hybrid sequencing. Nucleic Acids Res 2017 Mar 17;45(5):e32. PMID: 27899656
  • Wong KM, Langlais K, Tobias GS, Fletcher-Hoppe C et al. The dbGaP data browser: a new tool for browsing dbGaP controlled-access genomic data. Nucleic Acids Res 2017 Jan 4;45(D1):D819-D826. PMID: 27899644
  • Tyner C, Barber GP, Casper J, Clawson H et al. The UCSC Genome Browser database: 2017 update. Nucleic Acids Res 2017 Jan 4;45(D1):D626-D634. PMID: 27899642
  • Patra B, Kon Y, Yadav G, Sevold AW et al. A genome wide dosage suppressor network reveals genomic robustness. Nucleic Acids Res 2017 Jan 9;45(1):255-270. PMID: 27899637
  • Rappaport N, Twik M, Plaschkes I, Nudel R et al. MalaCards: an amalgamated human disease compendium with diverse clinical and genetic annotation and structured search. Nucleic Acids Res 2017 Jan 4;45(D1):D877-D887. PMID: 27899610
  • Brier AB, Loft A, Madsen JGS, Rosengren T et al. The KDM5 family is required for activation of pro-proliferative cell cycle genes during adipocyte differentiation. Nucleic Acids Res 2017 Feb 28;45(4):1743-1759. PMID: 27899593
  • Cubeñas-Potts C, Rowley MJ, Lyu X, Li G et al. Different enhancer classes in Drosophila bind distinct architectural proteins and mediate unique chromatin interactions and 3D architecture. Nucleic Acids Res 2017 Feb 28;45(4):1714-1730. PMID: 27899590
  • Raine A, Manlig E, Wahlberg P, Syvänen AC et al. SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing. Nucleic Acids Res 2017 Apr 7;45(6):e36. PMID: 27899585
  • Zhu H, Xia W, Mo XB, Lin X et al. Gene-Based Genome-Wide Association Analysis in European and Asian Populations Identified Novel Genes for Rheumatoid Arthritis. PLoS One 2016;11(11):e0167212. PMID: 27898717
  • Vella S, Tavanti E, Hattinger CM, Fanelli M et al. Targeting CDKs with Roscovitine Increases Sensitivity to DNA Damaging Drugs of Human Osteosarcoma Cells. PLoS One 2016;11(11):e0166233. PMID: 27898692
  • Sacilotto N, Chouliaras KM, Nikitenko LL, Lu YW et al. MEF2 transcription factors are key regulators of sprouting angiogenesis. Genes Dev 2016 Oct 15;30(20):2297-2309. PMID: 27898394
  • Zhao H, Rieger S, Abe K, Hewison M et al. DNA Damage-Inducible Transcript 4 Is an Innate Surveillant of Hair Follicular Stress in Vitamin D Receptor Knockout Mice and a Regulator of Wound Re-Epithelialization. Int J Mol Sci 2016 Nov 26;17(12). PMID: 27898044
  • Diaz D, Donato M, Nguyen T, Draghici S et al. MICRORNA-AUGMENTED PATHWAYS (mirAP) AND THEIR APPLICATIONS TO PATHWAY ANALYSIS AND DISEASE SUBTYPING. Pac Symp Biocomput 2017;22:390-401. PMID: 27896992
  • Haynes WA, Vallania F, Liu C, Bongen E et al. EMPOWERING MULTI-COHORT GENE EXPRESSION ANALYSIS TO INCREASE REPRODUCIBILITY. Pac Symp Biocomput 2017;22:144-153. PMID: 27896970
  • Eken SM, Jin H, Chernogubova E, Li Y et al. MicroRNA-210 Enhances Fibrous Cap Stability in Advanced Atherosclerotic Lesions. Circ Res 2017 Feb 17;120(4):633-644. PMID: 27895035
  • Lu J, Wang W, Xu M, Li Y et al. A global view of regulatory networks in lung cancer: An approach to understand homogeneity and heterogeneity. Semin Cancer Biol 2017 Feb;42:31-38. PMID: 27894849
  • Mayne BT, Leemaqz SY, Smith AK, Breen J et al. Accelerated placental aging in early onset preeclampsia pregnancies identified by DNA methylation. Epigenomics 2017 Mar;9(3):279-289. PMID: 27894195
  • Hurwitz SN, Rider MA, Bundy JL, Liu X et al. Proteomic profiling of NCI-60 extracellular vesicles uncovers common protein cargo and cancer type-specific biomarkers. Oncotarget 2016 Dec 27;7(52):86999-87015. PMID: 27894104
  • Li Y, Ma W, Xie C, Zhang M et al. Identification of genes and signaling pathways associated with diabetic neuropathy using a weighted correlation network analysis: A consort study. Medicine (Baltimore) 2016 Nov;95(47):e5443. PMID: 27893688
  • Jha PK, Vijay A, Sahu A, Ashraf MZ et al. Comprehensive Gene expression meta-analysis and integrated bioinformatic approaches reveal shared signatures between thrombosis and myeloproliferative disorders. Sci Rep 2016 Nov 28;6:37099. PMID: 27892526
  • Venkatesh S, Li H, Gogol MM, Workman JL et al. Selective suppression of antisense transcription by Set2-mediated H3K36 methylation. Nat Commun 2016 Nov 28;7:13610. PMID: 27892455
  • Gosink MToxReporter: viewing the genome through the eyes of a toxicologist. Database (Oxford) 2016;2016. PMID: 27888230
  • Anand R, Ravichandran S, Chatterjee S et al. A new method of finding groups of coexpressed genes and conditions of coexpression. BMC Bioinformatics 2016 Nov 25;17(1):486. PMID: 27887568
  • Park Y, Lim S, Nam JW, Kim S et al. Measuring intratumor heterogeneity by network entropy using RNA-seq data. Sci Rep 2016 Nov 24;6:37767. PMID: 27883053
  • Kuchmiy AA, D'Hont J, Hochepied T, Lamkanfi M et al. NLRP2 controls age-associated maternal fertility. J Exp Med 2016 Dec 12;213(13):2851-2860. PMID: 27881734
  • Li HY, Jin N, Han YP, Jin XF et al. Pathway crosstalk analysis in prostate cancer based on protein-protein network data. Neoplasma 2017;64(1):22-31. PMID: 27881001
  • Chang YC, Chiu CC, Yuo CY, Chan WL et al. An XIST-related small RNA regulates KRAS G-quadruplex formation beyond X-inactivation. Oncotarget 2016 Dec 27;7(52):86713-86729. PMID: 27880931
  • Kim BR, Van de Laar E, Cabanero M, Tarumi S et al. SOX2 and PI3K Cooperate to Induce and Stabilize a Squamous-Committed Stem Cell Injury State during Lung Squamous Cell Carcinoma Pathogenesis. PLoS Biol 2016 Nov;14(11):e1002581. PMID: 27880766
  • Bulut-Karslioglu A, Biechele S, Jin H, Macrae TA et al. Inhibition of mTOR induces a paused pluripotent state. Nature 2016 Dec 1;540(7631):119-123. PMID: 27880763
  • Silva CT, Zorkoltseva IV, Amin N, Demirkan A et al. A Combined Linkage and Exome Sequencing Analysis for Electrocardiogram Parameters in the Erasmus Rucphen Family Study. Front Genet 2016;7:190. PMID: 27877193
  • Bernhart SH, Kretzmer H, Holdt LM, Jühling F et al. Changes of bivalent chromatin coincide with increased expression of developmental genes in cancer. Sci Rep 2016 Nov 23;6:37393. PMID: 27876760
  • Kaveh F, Baumbusch LO, Nebdal D, Børresen-Dale AL et al. A systematic comparison of copy number alterations in four types of female cancer. BMC Cancer 2016 Nov 22;16(1):913. PMID: 27876019
  • Varma VR, Varma S, An Y, Hohman TJ et al. Alpha-2 macroglobulin in Alzheimer's disease: a marker of neuronal injury through the RCAN1 pathway. Mol Psychiatry 2017 Jan;22(1):13-23. PMID: 27872486
  • Yoo SA, Leng L, Kim BJ, Du X et al. MIF allele-dependent regulation of the MIF coreceptor CD44 and role in rheumatoid arthritis. Proc Natl Acad Sci U S A 2016 Dec 6;113(49):E7917-E7926. PMID: 27872288
  • Prabahar A, Natarajan J et al. Prediction of microRNAs involved in immune system diseases through network based features. J Biomed Inform 2017 Jan;65:34-45. PMID: 27871823
  • Chifman J, Pullikuth A, Chou JW, Bedognetti D et al. Conservation of immune gene signatures in solid tumors and prognostic implications. BMC Cancer 2016 Nov 22;16(1):911. PMID: 27871313
  • Roson-Burgo B, Sanchez-Guijo F, Del Cañizo C, De Las Rivas J et al. Insights into the human mesenchymal stromal/stem cell identity through integrative transcriptomic profiling. BMC Genomics 2016 Nov 21;17(1):944. PMID: 27871224
  • van der Veen DR, Gerkema MP et al. Unmasking ultradian rhythms in gene expression. FASEB J 2017 Feb;31(2):743-750. PMID: 27871062
  • Chen HC, Martinez JP, Zorita E, Meyerhans A et al. Position effects influence HIV latency reversal. Nat Struct Mol Biol 2017 Jan;24(1):47-54. PMID: 27870832
  • Lio CW, Zhang J, González-Avalos E, Hogan PG et al. Tet2 and Tet3 cooperate with B-lineage transcription factors to regulate DNA modification and chromatin accessibility. Elife 2016 Nov 21;5. PMID: 27869616
  • Mishra N, Timilsina U, Ghimire D, Dubey RC et al. Downregulation of cytochrome c oxidase subunit 7A1 expression is important in enhancing cell proliferation in adenocarcinoma cells. Biochem Biophys Res Commun 2017 Jan 22;482(4):713-719. PMID: 27866983
  • Lacey A, Rodrigues-Hoffman A, Safe S et al. PAX3-FOXO1A Expression in Rhabdomyosarcoma Is Driven by the Targetable Nuclear Receptor NR4A1. Cancer Res 2017 Feb 1;77(3):732-741. PMID: 27864345
  • Millán-Uclés Á, Zuluaga S, Marqués M, Vallejo-Díaz J et al. E-cadherin downregulation sensitizes PTEN-mutant tumors to PI3Kβ silencing. Oncotarget 2016 Dec 20;7(51):84054-84071. PMID: 27863432
  • Cui H, Gobbato E, Kracher B, Qiu J et al. A core function of EDS1 with PAD4 is to protect the salicylic acid defense sector in Arabidopsis immunity. New Phytol 2017 Mar;213(4):1802-1817. PMID: 27861989
  • Zhou D, Hlady RA, Schafer MJ, White TA et al. High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver. Epigenetics 2017 Jan 2;12(1):55-69. PMID: 27858497
  • Makoukji J, Makhoul NJ, Khalil M, El-Sitt S et al. Gene expression profiling of breast cancer in Lebanese women. Sci Rep 2016 Nov 18;6:36639. PMID: 27857161
  • Reaves DK, Hoadley KA, Fagan-Solis KD, Jima DD et al. Nuclear Localized LSR: A Novel Regulator of Breast Cancer Behavior and Tumorigenesis. Mol Cancer Res 2017 Feb;15(2):165-178. PMID: 27856957
  • Lin YL, Tsai NM, Hsieh CH, Ho SY et al. In vivo amelioration of endogenous antitumor autoantibodies via low-dose P4N through the LTA4H/activin A/BAFF pathway. Proc Natl Acad Sci U S A 2016 Nov 29;113(48):E7798-E7807. PMID: 27856749
  • Schep R, Necsulea A, Rodríguez-Carballo E, Guerreiro I et al. Control of Hoxd gene transcription in the mammary bud by hijacking a preexisting regulatory landscape. Proc Natl Acad Sci U S A 2016 Nov 29;113(48):E7720-E7729. PMID: 27856734
  • Virtue A, Johnson C, Lopez-Pastraña J, Shao Y et al. MicroRNA-155 Deficiency Leads to Decreased Atherosclerosis, Increased White Adipose Tissue Obesity, and Non-alcoholic Fatty Liver Disease: A NOVEL MOUSE MODEL OF OBESITY PARADOX. J Biol Chem 2017 Jan 27;292(4):1267-1287. PMID: 27856635
  • Kayama K, Watanabe S, Takafuji T, Tsuji T et al. GRWD1 negatively regulates p53 via the RPL11-MDM2 pathway and promotes tumorigenesis. EMBO Rep 2017 Jan;18(1):123-137. PMID: 27856536
  • Crisman TJ, Zelaya I, Laks DR, Zhao Y et al. Identification of an Efficient Gene Expression Panel for Glioblastoma Classification. PLoS One 2016;11(11):e0164649. PMID: 27855170
  • De Simone M, Arrigoni A, Rossetti G, Gruarin P et al. Transcriptional Landscape of Human Tissue Lymphocytes Unveils Uniqueness of Tumor-Infiltrating T Regulatory Cells. Immunity 2016 Nov 15;45(5):1135-1147. PMID: 27851914
  • Haider S, Meinhardt G, Saleh L, Fiala C et al. Notch1 controls development of the extravillous trophoblast lineage in the human placenta. Proc Natl Acad Sci U S A 2016 Nov 29;113(48):E7710-E7719. PMID: 27849611
  • Sztupinszki Z, Győrffy B et al. Colon cancer subtypes: concordance, effect on survival and selection of the most representative preclinical models. Sci Rep 2016 Nov 16;6:37169. PMID: 27849044
  • Ozerov IV, Lezhnina KV, Izumchenko E, Artemov AV et al. In silico Pathway Activation Network Decomposition Analysis (iPANDA) as a method for biomarker development. Nat Commun 2016 Nov 16;7:13427. PMID: 27848968
  • Gundersen GW, Jagodnik KM, Woodland H, Fernandez NF et al. GEN3VA: aggregation and analysis of gene expression signatures from related studies. BMC Bioinformatics 2016 Nov 15;17(1):461. PMID: 27846806
  • Zhang L, Wang L, Tian P, Tian S et al. Identification of Genes Discriminating Multiple Sclerosis Patients from Controls by Adapting a Pathway Analysis Method. PLoS One 2016;11(11):e0165543. PMID: 27846233
  • Guo Y, Cheng J, Ao L, Li X et al. Discriminating cancer-related and cancer-unrelated chemoradiation-response genes for locally advanced rectal cancers. Sci Rep 2016 Nov 15;6:36935. PMID: 27845363
  • Nazeen S, Palmer NP, Berger B, Kohane IS et al. Integrative analysis of genetic data sets reveals a shared innate immune component in autism spectrum disorder and its co-morbidities. Genome Biol 2016 Nov 14;17(1):228. PMID: 27842596
  • Wang L, Fu H, Nanayakkara G, Li Y et al. Novel extracellular and nuclear caspase-1 and inflammasomes propagate inflammation and regulate gene expression: a comprehensive database mining study. J Hematol Oncol 2016 Nov 14;9(1):122. PMID: 27842563
  • Szostak J, Martin F, Talikka M, Peitsch MC et al. Semi-Automated Curation Allows Causal Network Model Building for the Quantification of Age-Dependent Plaque Progression in ApoE(-/-) Mouse. Gene Regul Syst Bio 2016;10:95-103. PMID: 27840576
  • DeLaughter DM, Bick AG, Wakimoto H, McKean D et al. Single-Cell Resolution of Temporal Gene Expression during Heart Development. Dev Cell 2016 Nov 21;39(4):480-490. PMID: 27840107
  • Auray G, Keller I, Python S, Gerber M et al. Characterization and Transcriptomic Analysis of Porcine Blood Conventional and Plasmacytoid Dendritic Cells Reveals Striking Species-Specific Differences. J Immunol 2016 Dec 15;197(12):4791-4806. PMID: 27837108
  • Haak AJ, Appleton KM, Lisabeth EM, Misek SA et al. Pharmacological Inhibition of Myocardin-related Transcription Factor Pathway Blocks Lung Metastases of RhoC-Overexpressing Melanoma. Mol Cancer Ther 2017 Jan;16(1):193-204. PMID: 27837031
  • Shi YX, Zhu T, Zou T, Zhuo W et al. Prognostic and predictive values of CDK1 and MAD2L1 in lung adenocarcinoma. Oncotarget 2016 Dec 20;7(51):85235-85243. PMID: 27835911
  • Shi Y, Tao T, Liu N, Luan W et al. PPARα, a predictor of patient survival in glioma, inhibits cell growth through the E2F1/miR-19a feedback loop. Oncotarget 2016 Dec 20;7(51):84623-84633. PMID: 27835866
  • Habiel DM, Krepostman N, Lilly M, Cavassani K et al. Senescent stromal cell-induced divergence and therapeutic resistance in T cell acute lymphoblastic leukemia/lymphoma. Oncotarget 2016 Dec 13;7(50):83514-83529. PMID: 27835864
  • Paege N, Jung S, Schäpe P, Müller-Hagen D et al. A Transcriptome Meta-Analysis Proposes Novel Biological Roles for the Antifungal Protein AnAFP in Aspergillus niger. PLoS One 2016;11(11):e0165755. PMID: 27835655
  • Phippen NT, Bateman NW, Wang G, Conrads KA et al. NUAK1 (ARK5) Is Associated with Poor Prognosis in Ovarian Cancer. Front Oncol 2016;6:213. PMID: 27833898
  • Ma B, Liao T, Wen D, Dong C et al. Long intergenic non-coding RNA 271 is predictive of a poorer prognosis of papillary thyroid cancer. Sci Rep 2016 Nov 11;6:36973. PMID: 27833134
  • Taslim C, Weng DY, Brasky TM, Dumitrescu RG et al. Discovery and replication of microRNAs for breast cancer risk using genome-wide profiling. Oncotarget 2016 Dec 27;7(52):86457-86468. PMID: 27833082
  • Patrick E, Schramm SJ, Ormerod JT, Scolyer RA et al. A multi-step classifier addressing cohort heterogeneity improves performance of prognostic biomarkers in three cancer types. Oncotarget 2017 Jan 10;8(2):2807-2815. PMID: 27833072
  • Gupta R, Wajapeyee N et al. Transcriptional Analysis-Based Integrative Genomics Approach to Identify Tumor-Promoting Metabolic Genes. Methods Mol Biol 2017;1507:269-276. PMID: 27832547
  • Koumakis L, Kanterakis A, Kartsaki E, Chatzimina M et al. MinePath: Mining for Phenotype Differential Sub-paths in Molecular Pathways. PLoS Comput Biol 2016 Nov;12(11):e1005187. PMID: 27832067
  • Yang MR, Zhang Y, Wu XX, Chen W et al. Critical genes of hepatocellular carcinoma revealed by network and module analysis of RNA-seq data. Eur Rev Med Pharmacol Sci 2016 Oct;20(20):4248-4256. PMID: 27831650
  • O'Mara TA, Zhao M, Spurdle AB et al. Meta-analysis of gene expression studies in endometrial cancer identifies gene expression profiles associated with aggressive disease and patient outcome. Sci Rep 2016 Nov 10;6:36677. PMID: 27830726
  • Erwin GS, Grieshop MP, Bhimsaria D, Do TJ et al. Synthetic genome readers target clustered binding sites across diverse chromatin states. Proc Natl Acad Sci U S A 2016 Nov 22;113(47):E7418-E7427. PMID: 27830652
  • Chai CY, Zhang Y, Song J, Lin SC et al. VNN1 overexpression is associated with poor response to preoperative chemoradiotherapy and adverse prognosis in patients with rectal cancers. Am J Transl Res 2016;8(10):4455-4463. PMID: 27830030
  • Chen W, Zhang J et al. Potential molecular characteristics in situ in response to repetitive UVB irradiation. Diagn Pathol 2016 Nov 10;11(1):129. PMID: 27829444
  • Sulzmaier FJ, Young-Robbins S, Jiang P, Geerts D et al. RSK2 activity mediates glioblastoma invasiveness and is a potential target for new therapeutics. Oncotarget 2016 Nov 29;7(48):79869-79884. PMID: 27829215
  • Yang L, Achreja A, Yeung TL, Mangala LS et al. Targeting Stromal Glutamine Synthetase in Tumors Disrupts Tumor Microenvironment-Regulated Cancer Cell Growth. Cell Metab 2016 Nov 8;24(5):685-700. PMID: 27829138
  • de Araujo LS, Vaas LA, Ribeiro-Alves M, Geffers R et al. Transcriptomic Biomarkers for Tuberculosis: Evaluation of DOCK9. EPHA4, and NPC2 mRNA Expression in Peripheral Blood. Front Microbiol 2016;7:1586. PMID: 27826286
  • Capone M, Maggi L, Santarlasci V, Rossi MC et al. Chitinase 3-like-1 is produced by human Th17 cells and correlates with the level of inflammation in juvenile idiopathic arthritis patients. Clin Mol Allergy 2016;14:16. PMID: 27826220
  • Hu J, Khodadadi-Jamayran A, Mao M, Shah K et al. AKAP95 regulates splicing through scaffolding RNAs and RNA processing factors. Nat Commun 2016 Nov 8;7:13347. PMID: 27824034
  • Bassett EA, Tokarew N, Allemano EA, Mazerolle C et al. Norrin/Frizzled4 signalling in the preneoplastic niche blocks medulloblastoma initiation. Elife 2016 Nov 8;5. PMID: 27823583
  • Beaumeunier S, Audoux J, Boureux A, Ruffle F et al. On the evaluation of the fidelity of supervised classifiers in the prediction of chimeric RNAs. BioData Min 2016;9:34. PMID: 27822312
  • Lee S, Norheim F, Langleite TM, Noreng HJ et al. Effect of energy restriction and physical exercise intervention on phenotypic flexibility as examined by transcriptomics analyses of mRNA from adipose tissue and whole body magnetic resonance imaging. Physiol Rep 2016 Nov;4(21). PMID: 27821717
  • Getun IV, Wu Z, Fallahi M, Ouizem S et al. Functional Roles of Acetylated Histone Marks at Mouse Meiotic Recombination Hot Spots. Mol Cell Biol 2017 Feb 1;37(3). PMID: 27821479
  • Meng Z, Ma X, Du J, Wang X et al. CAMK2γ antagonizes mTORC1 activation during hepatocarcinogenesis. Oncogene 2017 Apr 27;36(17):2446-2456. PMID: 27819676
  • Martin EE, Huang W, Anwar T, Arellano-Garcia C et al. MMTV-cre;Ccn6 knockout mice develop tumors recapitulating human metaplastic breast carcinomas. Oncogene 2017 Apr 20;36(16):2275-2285. PMID: 27819674
  • Cui B, Ghia EM, Chen L, Rassenti LZ et al. High-level ROR1 associates with accelerated disease progression in chronic lymphocytic leukemia. Blood 2016 Dec 22;128(25):2931-2940. PMID: 27815263
  • Kotni MK, Zhao M, Wei DQ et al. Gene expression profiles and protein-protein interaction networks in amyotrophic lateral sclerosis patients with C9orf72 mutation. Orphanet J Rare Dis 2016 Nov 5;11(1):148. PMID: 27814735
  • Yan C, Hu Y, Zhang B, Mu L et al. The CEA-/lo colorectal cancer cell population harbors cancer stem cells and metastatic cells. Oncotarget 2016 Dec 6;7(49):80700-80715. PMID: 27813496
  • Xia W, Wu J, Deng FY, Wu LF et al. Integrative analysis for identification of shared markers from various functional cells/tissues for rheumatoid arthritis. Immunogenetics 2017 Feb;69(2):77-86. PMID: 27812736
  • Cohen T, Levin L, Mishmar D et al. Ancient Out-of-Africa Mitochondrial DNA Variants Associate with Distinct Mitochondrial Gene Expression Patterns. PLoS Genet 2016 Nov;12(11):e1006407. PMID: 27812116
  • Muench M, Hsin CH, Ferber E, Berger S et al. Reactive electrophilic oxylipins trigger a heat stress-like response through HSFA1 transcription factors. J Exp Bot 2016 Nov;67(21):6139-6148. PMID: 27811081
  • Delaunay S, Rapino F, Tharun L, Zhou Z et al. Elp3 links tRNA modification to IRES-dependent translation of LEF1 to sustain metastasis in breast cancer. J Exp Med 2016 Oct 17;213(11):2503-2523. PMID: 27811057
  • Liu J, Hao Y, Wang Y, Hu S et al. Candidate methylated genes in osteoarthritis explored by bioinformatics analysis. Knee 2016 Dec;23(6):1035-1043. PMID: 27810435
  • Winslow S, Lindquist KE, Edsjö A, Larsson C et al. The expression pattern of matrix-producing tumor stroma is of prognostic importance in breast cancer. BMC Cancer 2016 Nov 4;16(1):841. PMID: 27809802
  • Yang Q, Pan W, Qian L et al. Identification of the miRNA-mRNA regulatory network in multiple sclerosis. Neurol Res 2017 Feb;39(2):142-151. PMID: 27809691
  • Chen JL, David J, Cook-Spaeth D, Casey S et al. Autophagy Induction Results in Enhanced Anoikis Resistance in Models of Peritoneal Disease. Mol Cancer Res 2017 Jan;15(1):26-34. PMID: 27807188
  • Yang Y, Li X, Zhao H, Zhan J et al. Genome-scale characterization of RNA tertiary structures and their functional impact by RNA solvent accessibility prediction. RNA 2017 Jan;23(1):14-22. PMID: 27807179
  • Mei H, Li L, Jiang F, Simino J et al. snpGeneSets: An R Package for Genome-Wide Study Annotation. G3 (Bethesda) 2016 Dec 7;6(12):4087-4095. PMID: 27807048
  • Beiki H, Nejati-Javaremi A, Pakdel A, Masoudi-Nejad A et al. Large-scale gene co-expression network as a source of functional annotation for cattle genes. BMC Genomics 2016 Nov 2;17(1):846. PMID: 27806696
  • Tan CC, Li GX, Tan LD, Du X et al. Breast cancer cells obtain an osteomimetic feature via epithelial-mesenchymal transition that have undergone BMP2/RUNX2 signaling pathway induction. Oncotarget 2016 Nov 29;7(48):79688-79705. PMID: 27806311
  • Lin CG, Lin IT, Yao MC et al. Programmed Minichromosome Elimination as a Mechanism for Somatic Genome Reduction in Tetrahymena thermophila. PLoS Genet 2016 Nov;12(11):e1006403. PMID: 27806059
  • Cruz-Becerra G, Juárez M, Valadez-Graham V, Zurita M et al. Analysis of Drosophila p8 and p52 mutants reveals distinct roles for the maintenance of TFIIH stability and male germ cell differentiation. Open Biol 2016 Oct;6(10). PMID: 27805905
  • Killian JK, Dorssers LC, Trabert B, Gillis AJ et al. Imprints and DPPA3 are bypassed during pluripotency- and differentiation-coupled methylation reprogramming in testicular germ cell tumors. Genome Res 2016 Nov;26(11):1490-1504. PMID: 27803193
  • van Esse GW, Ten Hove CA, Guzzonato F, van Esse HP et al. Transcriptional Analysis of serk1 and serk3 Coreceptor Mutants. Plant Physiol 2016 Dec;172(4):2516-2529. PMID: 27803191
  • Kumar A, Bansal M et al. Unveiling DNA structural features of promoters associated with various types of TSSs in prokaryotic transcriptomes and their role in gene expression. DNA Res 2017 Feb 1;24(1):25-35. PMID: 27803028
  • Vaiman D, Miralles F et al. An Integrative Analysis of Preeclampsia Based on the Construction of an Extended Composite Network Featuring Protein-Protein Physical Interactions and Transcriptional Relationships. PLoS One 2016;11(11):e0165849. PMID: 27802351
  • Kumar N, Srivillibhuthur M, Joshi S, Walton KD et al. A YY1-dependent increase in aerobic metabolism is indispensable for intestinal organogenesis. Development 2016 Oct 15;143(20):3711-3722. PMID: 27802136
  • Aird KM, Iwasaki O, Kossenkov AV, Tanizawa H et al. HMGB2 orchestrates the chromatin landscape of senescence-associated secretory phenotype gene loci. J Cell Biol 2016 Nov 7;215(3):325-334. PMID: 27799366
  • Zhang S, Huang L, Yan A, Liu Y et al. Multiple phytohormones promote root hair elongation by regulating a similar set of genes in the root epidermis in Arabidopsis. J Exp Bot 2016 Dec;67(22):6363-6372. PMID: 27799284
  • Kassam I, Qi T, Lloyd-Jones L, Holloway A et al. Evidence for mitochondrial genetic control of autosomal gene expression. Hum Mol Genet 2016 Dec 15;25(24):5332-5338. PMID: 27798101
  • Oubaha M, Miloudi K, Dejda A, Guber V et al. Senescence-associated secretory phenotype contributes to pathological angiogenesis in retinopathy. Sci Transl Med 2016 Oct 26;8(362):362ra144. PMID: 27797960
  • Yu S, Lemos B et al. A Portrait of Ribosomal DNA Contacts with Hi-C Reveals 5S and 45S rDNA Anchoring Points in the Folded Human Genome. Genome Biol Evol 2016 Dec 31;8(11):3545-3558. PMID: 27797956
  • Grünberg S, Henikoff S, Hahn S, Zentner GE et al. Mediator binding to UASs is broadly uncoupled from transcription and cooperative with TFIID recruitment to promoters. EMBO J 2016 Nov 15;35(22):2435-2446. PMID: 27797823
  • Zhou W, Han L, Altman RB et al. Imputing gene expression to maximize platform compatibility. Bioinformatics 2017 Feb 15;33(4):522-528. PMID: 27797771
  • Wei Y, Zhang X et al. Transcriptome analysis of distinct long non-coding RNA transcriptional fingerprints in lung adenocarcinoma and squamous cell carcinoma. Tumour Biol 2016 Oct 29 PMID: 27797003
  • Hamdi Y, Soucy P, Kuchenbaeker KB, Pastinen T et al. Association of breast cancer risk in BRCA1 and BRCA2 mutation carriers with genetic variants showing differential allelic expression: identification of a modifier of breast cancer risk at locus 11q22.3. Breast Cancer Res Treat 2017 Jan;161(1):117-134. PMID: 27796716
  • Huang H, Li X, Guo Y, Zhang Y et al. Identifying reproducible cancer-associated highly expressed genes with important functional significances using multiple datasets. Sci Rep 2016 Oct 31;6:36227. PMID: 27796338
  • Mayrhofer M, Viklund B, Isaksson A et al. Rawcopy: Improved copy number analysis with Affymetrix arrays. Sci Rep 2016 Oct 31;6:36158. PMID: 27796336
  • Siahpirani AF, Roy S et al. A prior-based integrative framework for functional transcriptional regulatory network inference. Nucleic Acids Res 2017 Feb 28;45(4):e21. PMID: 27794550
  • Lebrón R, Gómez-Martín C, Carpena P, Bernaola-Galván P et al. NGSmethDB 2017: enhanced methylomes and differential methylation. Nucleic Acids Res 2017 Jan 4;45(D1):D97-D103. PMID: 27794041
  • Deyter GM, Hildebrand EM, Barber AD, Biggins S et al. Histone H4 Facilitates the Proteolysis of the Budding Yeast CENP-ACse4 Centromeric Histone Variant. Genetics 2017 Jan;205(1):113-124. PMID: 27794026
  • Verma N, Müller AK, Kothari C, Panayotopoulou E et al. Targeting of PYK2 Synergizes with EGFR Antagonists in Basal-like TNBC and Circumvents HER3-Associated Resistance via the NEDD4-NDRG1 Axis. Cancer Res 2017 Jan 1;77(1):86-99. PMID: 27793840
  • Riecken LB, Zoch A, Wiehl U, Reichert S et al. CPI-17 drives oncogenic Ras signaling in human melanomas via Ezrin-Radixin-Moesin family proteins. Oncotarget 2016 Nov 29;7(48):78242-78254. PMID: 27793041
  • Tang CM, Lee TE, Syed SA, Burgoyne AM et al. Hedgehog pathway dysregulation contributes to the pathogenesis of human gastrointestinal stromal tumors via GLI-mediated activation of KIT expression. Oncotarget 2016 Nov 29;7(48):78226-78241. PMID: 27793025
  • Hsu PY, Calviello L, Wu HL, Li FW et al. Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis. Proc Natl Acad Sci U S A 2016 Nov 8;113(45):E7126-E7135. PMID: 27791167
  • Scheibye-Knudsen M, Tseng A, Borch Jensen M, Scheibye-Alsing K et al. Cockayne syndrome group A and B proteins converge on transcription-linked resolution of non-B DNA. Proc Natl Acad Sci U S A 2016 Nov 1;113(44):12502-12507. PMID: 27791127
  • Evans KJ, Huang N, Stempor P, Chesney MA et al. Stable Caenorhabditis elegans chromatin domains separate broadly expressed and developmentally regulated genes. Proc Natl Acad Sci U S A 2016 Nov 8;113(45):E7020-E7029. PMID: 27791097
  • Fu X, Jeselsohn R, Pereira R, Hollingsworth EF et al. FOXA1 overexpression mediates endocrine resistance by altering the ER transcriptome and IL-8 expression in ER-positive breast cancer. Proc Natl Acad Sci U S A 2016 Oct 25;113(43):E6600-E6609. PMID: 27791031
  • Mayne BT, Bianco-Miotto T, Buckberry S, Breen J et al. Large Scale Gene Expression Meta-Analysis Reveals Tissue-Specific, Sex-Biased Gene Expression in Humans. Front Genet 2016;7:183. PMID: 27790248
  • Li P, Tompkins RG, Xiao W, the Inflammation and Host Response to Injury Large-Scale Collaborative Research Program et al. KERIS: kaleidoscope of gene responses to inflammation between species. Nucleic Acids Res 2017 Jan 4;45(D1):D908-D914. PMID: 27789704
  • Mei S, Qin Q, Wu Q, Sun H et al. Cistrome Data Browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse. Nucleic Acids Res 2017 Jan 4;45(D1):D658-D662. PMID: 27789702
  • Jacob A, Linklater E, Bayless BA, Lyons T et al. The role and regulation of Rab40b-Tks5 complex during invadopodia formation and cancer cell invasion. J Cell Sci 2016 Dec 1;129(23):4341-4353. PMID: 27789576
  • Wang Y, Mark KM, Ung MH, Kettenbach A et al. Application of RNAi-induced gene expression profiles for prognostic prediction in breast cancer. Genome Med 2016 Oct 27;8(1):114. PMID: 27788678
  • Koire A, Gilbert BE, Sucgang R, Zechiedrich L et al. Repurposed Transcriptomic Data Reveal Small Viral RNA Produced by Influenza Virus during Infection in Mice. PLoS One 2016;11(10):e0165729. PMID: 27788253
  • Sun X, Hu Y, Zhang L, Hu C et al. Mining, Validation, and Clinical Significance of Colorectal Cancer (CRC)-Associated lncRNAs. PLoS One 2016;11(10):e0164590. PMID: 27788162
  • Ghouzzi VE, Bianchi FT, Molineris I, Mounce BC et al. ZIKA virus elicits P53 activation and genotoxic stress in human neural progenitors similar to mutations involved in severe forms of genetic microcephaly. Cell Death Dis 2016 Oct 27;7(10):e2440. PMID: 27787521
  • Guo ML, Periyasamy P, Liao K, Kook YH et al. Cocaine-mediated downregulation of microglial miR-124 expression involves promoter DNA methylation. Epigenetics 2016 Nov;11(11):819-830. PMID: 27786595
  • Bergmann AK, Castellano G, Alten J, Ammerpohl O et al. DNA methylation profiling of pediatric B-cell lymphoblastic leukemia with KMT2A rearrangement identifies hypomethylation at enhancer sites. Pediatr Blood Cancer 2017 Mar;64(3). PMID: 27786413
  • McManus M, Kleinerman E, Yang Y, Livingston JA et al. Hes4: A potential prognostic biomarker for newly diagnosed patients with high-grade osteosarcoma. Pediatr Blood Cancer 2017 May;64(5). PMID: 27786411
  • Di Stefano M, Paulsen J, Lien TG, Hovig E et al. Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization. Sci Rep 2016 Oct 27;6:35985. PMID: 27786255
  • Li Y, Tang XQ, Bai Z, Dai X et al. Exploring the intrinsic differences among breast tumor subtypes defined using immunohistochemistry markers based on the decision tree. Sci Rep 2016 Oct 27;6:35773. PMID: 27786176
  • Meng L, Xu Y, Xu C, Zhang W et al. Biomarker discovery to improve prediction of breast cancer survival: using gene expression profiling, meta-analysis, and tissue validation. Onco Targets Ther 2016;9:6177-6185. PMID: 27785066
  • Korthauer KD, Chu LF, Newton MA, Li Y et al. A statistical approach for identifying differential distributions in single-cell RNA-seq experiments. Genome Biol 2016 Oct 25;17(1):222. PMID: 27782827
  • Wang Z, Liu Q, Wang H, Zhang H et al. Comprehensive analysis of trihelix genes and their expression under biotic and abiotic stresses in Populus trichocarpa. Sci Rep 2016 Oct 26;6:36274. PMID: 27782188
  • Ebrahim A, Brunk E, Tan J, O'Brien EJ et al. Multi-omic data integration enables discovery of hidden biological regularities. Nat Commun 2016 Oct 26;7:13091. PMID: 27782110
  • Wu Y, Gu C, Huang X et al. Sevoflurane protects against hepatic ischemia/reperfusion injury by modulating microRNA-200c regulation in mice. Biomed Pharmacother 2016 Dec;84:1126-1136. PMID: 27780142
  • Qu T, Li YP, Li XH, Chen Y et al. Identification of potential biomarkers and drugs for papillary thyroid cancer based on gene expression profile analysis. Mol Med Rep 2016 Dec;14(6):5041-5048. PMID: 27779685
  • Osako Y, Seki N, Kita Y, Yonemori K et al. Regulation of MMP13 by antitumor microRNA-375 markedly inhibits cancer cell migration and invasion in esophageal squamous cell carcinoma. Int J Oncol 2016 Dec;49(6):2255-2264. PMID: 27779648
  • Hambright WS, Deng J, Tiedje JM, Brettar I et al. Shewanella baltica Ecotypes Have Wide Transcriptional Variation under the Same Growth Conditions. mSphere 2016 Sep-Oct;1(5). PMID: 27777983
  • Yin C, Mohanta SK, Srikakulapu P, Weber C et al. Artery Tertiary Lymphoid Organs: Powerhouses of Atherosclerosis Immunity. Front Immunol 2016;7:387. PMID: 27777573
  • Gupta MK, Behara SK, Vadde R et al. In silico analysis of differential gene expressions in biliary stricture and hepatic carcinoma. Gene 2017 Jan 15;597:49-58. PMID: 27777109
  • Hur B, Lim S, Chae H, Seo S et al. CLIP-GENE: a web service of the condition specific context-laid integrative analysis for gene prioritization in mouse TF knockout experiments. Biol Direct 2016 Oct 24;11(1):57. PMID: 27776539
  • Fradet A, Bouchet M, Delliaux C, Gervais M et al. Estrogen related receptor alpha in castration-resistant prostate cancer cells promotes tumor progression in bone. Oncotarget 2016 Nov 22;7(47):77071-77086. PMID: 27776343
  • Chariker JH, Miller DM, Rouchka EC et al. Computational Analysis of G-Quadruplex Forming Sequences across Chromosomes Reveals High Density Patterns Near the Terminal Ends. PLoS One 2016;11(10):e0165101. PMID: 27776185
  • Horiuchi D, Camarda R, Zhou AY, Yau C et al. PIM1 kinase inhibition as a targeted therapy against triple-negative breast tumors with elevated MYC expression. Nat Med 2016 Nov;22(11):1321-1329. PMID: 27775705
  • Garg N, Bakhshinyan D, Venugopal C, Mahendram S et al. CD133(+) brain tumor-initiating cells are dependent on STAT3 signaling to drive medulloblastoma recurrence. Oncogene 2017 Feb 2;36(5):606-617. PMID: 27775079
  • Wooden B, Goossens N, Hoshida Y, Friedman SL et al. Using Big Data to Discover Diagnostics and Therapeutics for Gastrointestinal and Liver Diseases. Gastroenterology 2017 Jan;152(1):53-67.e3. PMID: 27773806
  • Picco G, Petti C, Sassi F, Grillone K et al. Efficacy of NEDD8 Pathway Inhibition in Preclinical Models of Poorly Differentiated, Clinically Aggressive Colorectal Cancer. J Natl Cancer Inst 2017 Feb;109(2). PMID: 27771609
  • Joo JW, Kang EY, Org E, Furlotte N et al. Efficient and Accurate Multiple-Phenotype Regression Method for High Dimensional Data Considering Population Structure. Genetics 2016 Dec;204(4):1379-1390. PMID: 27770036
  • Xu M, Chen L et al. An empirical likelihood ratio test robust to individual heterogeneity for differential expression analysis of RNA-seq. Brief Bioinform 2018 Jan 1;19(1):109-117. PMID: 27769992
  • Shi L, Zhang W, Zou F, Mei L et al. KLHL21, a novel gene that contributes to the progression of hepatocellular carcinoma. BMC Cancer 2016 Oct 21;16(1):815. PMID: 27769251
  • Fraile JM, Campos-Iglesias D, Rodríguez F, Español Y et al. The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis. Oncotarget 2016 Nov 15;7(46):74427-74434. PMID: 27769071
  • Karim S, Al-Maghrabi JA, Farsi HM, Al-Sayyad AJ et al. Cyclin D1 as a therapeutic target of renal cell carcinoma- a combined transcriptomics, tissue microarray and molecular docking study from the Kingdom of Saudi Arabia. BMC Cancer 2016 Sep 30;16(Suppl 2):741. PMID: 27766950
  • Nakachi I, Helfrich BA, Spillman MA, Mickler EA et al. PTTG1 Levels Are Predictive of Saracatinib Sensitivity in Ovarian Cancer Cell Lines. Clin Transl Sci 2016 Dec;9(6):293-301. PMID: 27766744
  • Mataki H, Seki N, Mizuno K, Nohata N et al. Dual-strand tumor-suppressor microRNA-145 (miR-145-5p and miR-145-3p) coordinately targeted MTDH in lung squamous cell carcinoma. Oncotarget 2016 Nov 1;7(44):72084-72098. PMID: 27765924
  • Applebaum MA, Jha AR, Kao C, Hernandez KM et al. Integrative genomics reveals hypoxia inducible genes that are associated with a poor prognosis in neuroblastoma patients. Oncotarget 2016 Nov 22;7(47):76816-76826. PMID: 27765905
  • Langen B, Rudqvist N, Helou K, Forssell-Aronsson E et al. Microarray Studies on 211At Administration in BALB/c Nude Mice Indicate Systemic Effects on Transcriptional Regulation in Nonthyroid Tissues. J Nucl Med 2017 Feb;58(2):346-353. PMID: 27765860
  • Jiang X, Feng L, Dai B, Li L et al. Identification of key genes involved in nasopharyngeal carcinoma. Braz J Otorhinolaryngol 2017 Nov-Dec;83(6):670-676. PMID: 27765529
  • Tomar T, de Jong S, Alkema NG, Hoekman RL et al. Genome-wide methylation profiling of ovarian cancer patient-derived xenografts treated with the demethylating agent decitabine identifies novel epigenetically regulated genes and pathways. Genome Med 2016 Oct 20;8(1):107. PMID: 27765068
  • D'Arcangelo D, Facchiano F, Nassa G, Stancato A et al. PDGFR-alpha inhibits melanoma growth via CXCL10/IP-10: a multi-omics approach. Oncotarget 2016 Nov 22;7(47):77257-77275. PMID: 27764787
  • Wang W, Yang F, Zhang L, Chen J et al. LncRNA profile study reveals four-lncRNA signature associated with the prognosis of patients with anaplastic gliomas. Oncotarget 2016 Nov 22;7(47):77225-77236. PMID: 27764782
  • Kim JK, Lee HM, Park KS, Shin DM et al. MIR144* inhibits antimicrobial responses against Mycobacterium tuberculosis in human monocytes and macrophages by targeting the autophagy protein DRAM2. Autophagy 2017 Feb;13(2):423-441. PMID: 27764573
  • Walker JAMonte Carlo simulation of OLS and linear mixed model inference of phenotypic effects on gene expression. PeerJ 2016;4:e2575. PMID: 27761350
  • Guebel DV, Torres NV et al. Sexual Dimorphism and Aging in the Human Hyppocampus: Identification, Validation, and Impact of Differentially Expressed Genes by Factorial Microarray and Network Analysis. Front Aging Neurosci 2016;8:229. PMID: 27761111
  • Tanaka M, Sotta N, Yamazumi Y, Yamashita Y et al. The Minimum Open Reading Frame, AUG-Stop, Induces Boron-Dependent Ribosome Stalling and mRNA Degradation. Plant Cell 2016 Nov;28(11):2830-2849. PMID: 27760805
  • Zhao L, Liu D, Xu J, Wang Z et al. The framework for population epigenetic study. Brief Bioinform 2018 Jan 1;19(1):89-100. PMID: 27760738
  • He T, Surdez D, Rantala JK, Haapa-Paananen S et al. High-throughput RNAi screen in Ewing sarcoma cells identifies leucine rich repeats and WD repeat domain containing 1 (LRWD1) as a regulator of EWS-FLI1 driven cell viability. Gene 2017 Jan 5;596:137-146. PMID: 27760381
  • Gardet A, Chou WC, Reynolds TL, Velez DB et al. Pristane-Accelerated Autoimmune Disease in (SWR X NZB) F1 Mice Leads to Prominent Tubulointerstitial Inflammation and Human Lupus Nephritis-Like Fibrosis. PLoS One 2016;11(10):e0164423. PMID: 27760209
  • Du H, Ran F, Dong HL, Wen J et al. Genome-Wide Analysis, Classification, Evolution, and Expression Analysis of the Cytochrome P450 93 Family in Land Plants. PLoS One 2016;11(10):e0165020. PMID: 27760179
  • Nokin MJ, Durieux F, Peixoto P, Chiavarina B et al. Methylglyoxal, a glycolysis side-product, induces Hsp90 glycation and YAP-mediated tumor growth and metastasis. Elife 2016 Oct 19;5. PMID: 27759563
  • Yu X, Willmann MR, Anderson SJ, Gregory BD et al. Genome-Wide Mapping of Uncapped and Cleaved Transcripts Reveals a Role for the Nuclear mRNA Cap-Binding Complex in Cotranslational RNA Decay in Arabidopsis. Plant Cell 2016 Oct;28(10):2385-2397. PMID: 27758893
  • Miles WO, Lembo A, Volorio A, Brachtel E et al. Alternative Polyadenylation in Triple-Negative Breast Tumors Allows NRAS and c-JUN to Bypass PUMILIO Posttranscriptional Regulation. Cancer Res 2016 Dec 15;76(24):7231-7241. PMID: 27758885
  • Essien BE, Sundaresan S, Ocadiz-Ruiz R, Chavis A et al. Transcription Factor ZBP-89 Drives a Feedforward Loop of β-Catenin Expression in Colorectal Cancer. Cancer Res 2016 Dec 1;76(23):6877-6887. PMID: 27758879
  • Papazian S, Khaling E, Bonnet C, Lassueur S et al. Central Metabolic Responses to Ozone and Herbivory Affect Photosynthesis and Stomatal Closure. Plant Physiol 2016 Nov;172(3):2057-2078. PMID: 27758847
  • Picaud S, Leonards K, Lambert JP, Dovey O et al. Promiscuous targeting of bromodomains by bromosporine identifies BET proteins as master regulators of primary transcription response in leukemia. Sci Adv 2016 Oct;2(10):e1600760. PMID: 27757418
  • Chen L, Kurtyka CA, Welsh EA, Rivera JI et al. Early2 factor (E2F) deregulation is a prognostic and predictive biomarker in lung adenocarcinoma. Oncotarget 2016 Dec 13;7(50):82254-82265. PMID: 27756884
  • Tran HC, Wan Z, Sheard MA, Sun J et al. TGFβR1 Blockade with Galunisertib (LY2157299) Enhances Anti-Neuroblastoma Activity of the Anti-GD2 Antibody Dinutuximab (ch14.18) with Natural Killer Cells. Clin Cancer Res 2017 Feb 1;23(3):804-813. PMID: 27756784
  • Gonzalez Bosquet J, Newtson AM, Chung RK, Thiel KW et al. Prediction of chemo-response in serous ovarian cancer. Mol Cancer 2016 Oct 19;15(1):66. PMID: 27756408
  • Chen Z, Wu H, Wang G, Feng Y et al. Identification of potential candidate genes for hypertensive nephropathy based on gene expression profile. BMC Nephrol 2016 Oct 18;17(1):149. PMID: 27756246
  • Grassi E, Mariella E, Lembo A, Molineris I et al. Roar: detecting alternative polyadenylation with standard mRNA sequencing libraries. BMC Bioinformatics 2016 Oct 18;17(1):423. PMID: 27756200
  • Jimenez-Lopez JC, Lopez-Valverde FJ, Robles-Bolivar P, Lima-Cabello E et al. Genome-Wide Identification and Functional Classification of Tomato (Solanum lycopersicum) Aldehyde Dehydrogenase (ALDH) Gene Superfamily. PLoS One 2016;11(10):e0164798. PMID: 27755582
  • Nehme A, Cerutti C, Zibara K et al. Transcriptomic Analysis Reveals Novel Transcription Factors Associated With Renin-Angiotensin-Aldosterone System in Human Atheroma. Hypertension 2016 Dec;68(6):1375-1384. PMID: 27754866
  • Gu M, Liu Z, Lai R, Liu S et al. RKIP and TBK1 form a positive feedback loop to promote type I interferon production in innate immunity. EMBO J 2016 Dec 1;35(23):2553-2565. PMID: 27753621
  • van de Moosdijk AA, van Amerongen R et al. Identification of reliable reference genes for qRT-PCR studies of the developing mouse mammary gland. Sci Rep 2016 Oct 18;6:35595. PMID: 27752147
  • Burdin DV, Kolobov AA, Brocker C, Soshnev AA et al. Diabetes-linked transcription factor HNF4α regulates metabolism of endogenous methylarginines and β-aminoisobutyric acid by controlling expression of alanine-glyoxylate aminotransferase 2. Sci Rep 2016 Oct 18;6:35503. PMID: 27752141
  • Wang D, Pham NA, Tong J, Sakashita S et al. Molecular heterogeneity of non-small cell lung carcinoma patient-derived xenografts closely reflect their primary tumors. Int J Cancer 2017 Feb 1;140(3):662-673. PMID: 27750381
  • Ni T, Li XY, Lu N, An T et al. Snail1-dependent p53 repression regulates expansion and activity of tumour-initiating cells in breast cancer. Nat Cell Biol 2016 Nov;18(11):1221-1232. PMID: 27749822
  • Jung LA, Gebhardt A, Koelmel W, Ade CP et al. OmoMYC blunts promoter invasion by oncogenic MYC to inhibit gene expression characteristic of MYC-dependent tumors. Oncogene 2017 Apr 6;36(14):1911-1924. PMID: 27748763
  • Coothankandaswamy V, Cao S, Xu Y, Prasad PD et al. Amino acid transporter SLC6A14 is a novel and effective drug target for pancreatic cancer. Br J Pharmacol 2016 Dec;173(23):3292-3306. PMID: 27747870
  • Toker L, Feng M, Pavlidis P et al. Whose sample is it anyway? Widespread misannotation of samples in transcriptomics studies. F1000Res 2016;5:2103. PMID: 27746907
  • Wang J, Singh SK, Du C, Li C et al. Comparative Transcriptomic Analysis of Two Brassica napus Near-Isogenic Lines Reveals a Network of Genes That Influences Seed Oil Accumulation. Front Plant Sci 2016;7:1498. PMID: 27746810
  • Mika KM, Lynch VJ et al. An Ancient Fecundability-Associated Polymorphism Switches a Repressor into an Enhancer of Endometrial TAP2 Expression. Am J Hum Genet 2016 Nov 3;99(5):1059-1071. PMID: 27745831
  • Knopp P, Krom YD, Banerji CR, Panamarova M et al. DUX4 induces a transcriptome more characteristic of a less-differentiated cell state and inhibits myogenesis. J Cell Sci 2016 Oct 15;129(20):3816-3831. PMID: 27744317
  • Chrobok D, Law SR, Brouwer B, Lindén P et al. Dissecting the Metabolic Role of Mitochondria during Developmental Leaf Senescence. Plant Physiol 2016 Dec;172(4):2132-2153. PMID: 27744300
  • Hayashi S, Manabe I, Suzuki Y, Relaix F et al. Klf5 regulates muscle differentiation by directly targeting muscle-specific genes in cooperation with MyoD in mice. Elife 2016 Oct 15;5. PMID: 27743478
  • Vernet N, Mahadevaiah SK, de Rooij DG, Burgoyne PS et al. Zfy genes are required for efficient meiotic sex chromosome inactivation (MSCI) in spermatocytes. Hum Mol Genet 2016 Dec 15;25(24):5300-5310. PMID: 27742779
  • Reynaud C, Ferreras L, Di Mauro P, Kan C et al. Lysyl Oxidase Is a Strong Determinant of Tumor Cell Colonization in Bone. Cancer Res 2017 Jan 15;77(2):268-278. PMID: 27742687
  • Chang CY, Lai MT, Chen Y, Yang CW et al. Up-regulation of ribosome biogenesis by MIR196A2 genetic variation promotes endometriosis development and progression. Oncotarget 2016 Nov 22;7(47):76713-76725. PMID: 27741504
  • Yang F, Gong J, Wang G, Chen P et al. Waltonitone inhibits proliferation of hepatoma cells and tumorigenesis via FXR-miR-22-CCNA2 signaling pathway. Oncotarget 2016 Nov 15;7(46):75165-75175. PMID: 27738335
  • Zhang C, Li J, Wang H, Song SW et al. Identification of a five B cell-associated gene prognostic and predictive signature for advanced glioma patients harboring immunosuppressive subtype preference. Oncotarget 2016 Nov 8;7(45):73971-73983. PMID: 27738332
  • Bense RD, Sotiriou C, Piccart-Gebhart MJ, Haanen JBAG et al. Relevance of Tumor-Infiltrating Immune Cell Composition and Functionality for Disease Outcome in Breast Cancer. J Natl Cancer Inst 2017 Jan;109(1). PMID: 27737921
  • Fan J, Zhou Q, Qin Z, Tao T et al. Effect of propofol on microRNA expression in rat primary embryonic neural stem cells. BMC Anesthesiol 2016 Oct 13;16(1):95. PMID: 27737635
  • Wang L, Zhu L, Luan R, Wang L et al. Analyzing gene expression profiles in dilated cardiomyopathy via bioinformatics methods. Braz J Med Biol Res 2016 Oct 10;49(10):e4897. PMID: 27737314
  • Page MT, McCormac AC, Smith AG, Terry MJ et al. Singlet oxygen initiates a plastid signal controlling photosynthetic gene expression. New Phytol 2017 Feb;213(3):1168-1180. PMID: 27735068
  • Li R, Liu Y, Li T, Li C et al. 3Disease Browser: A Web server for integrating 3D genome and disease-associated chromosome rearrangement data. Sci Rep 2016 Oct 13;6:34651. PMID: 27734896
  • Ai N, Cai H, Solovan C, Baudis M et al. CNARA: reliability assessment for genomic copy number profiles. BMC Genomics 2016 Oct 12;17(1):799. PMID: 27733115
  • Ross-Adams H, Ball S, Lawrenson K, Halim S et al. HNF1B variants associate with promoter methylation and regulate gene networks activated in prostate and ovarian cancer. Oncotarget 2016 Nov 15;7(46):74734-74746. PMID: 27732966
  • Lu P, Chen X, Feng Y, Zeng Q et al. Integrated transcriptome analysis of human iPS cells derived from a fragile X syndrome patient during neuronal differentiation. Sci China Life Sci 2016 Nov;59(11):1093-1105. PMID: 27730449
  • Parsa A, Kanetsky PA, Xiao R, Gupta J et al. Genome-Wide Association of CKD Progression: The Chronic Renal Insufficiency Cohort Study. J Am Soc Nephrol 2017 Mar;28(3):923-934. PMID: 27729571
  • Hetzel J, Duttke SH, Benner C, Chory J et al. Nascent RNA sequencing reveals distinct features in plant transcription. Proc Natl Acad Sci U S A 2016 Oct 25;113(43):12316-12321. PMID: 27729530
  • Way GP, Rudd J, Wang C, Hamidi H et al. Comprehensive Cross-Population Analysis of High-Grade Serous Ovarian Cancer Supports No More Than Three Subtypes. G3 (Bethesda) 2016 Dec 7;6(12):4097-4103. PMID: 27729437
  • Heinz RE, Rudolph MC, Ramanathan P, Spoelstra NS et al. Constitutive expression of microRNA-150 in mammary epithelium suppresses secretory activation and impairs de novo lipogenesis. Development 2016 Nov 15;143(22):4236-4248. PMID: 27729410
  • Eggert T, Wolter K, Ji J, Ma C et al. Distinct Functions of Senescence-Associated Immune Responses in Liver Tumor Surveillance and Tumor Progression. Cancer Cell 2016 Oct 10;30(4):533-547. PMID: 27728804
  • Horiuchi Y, Kondo MA, Okada K, Takayanagi Y et al. Molecular signatures associated with cognitive deficits in schizophrenia: a study of biopsied olfactory neural epithelium. Transl Psychiatry 2016 Oct 11;6(10):e915. PMID: 27727244
  • Liao Y, Deng Y, Liu J, Ye Z et al. MiR-760 overexpression promotes proliferation in ovarian cancer by downregulation of PHLPP2 expression. Gynecol Oncol 2016 Dec;143(3):655-663. PMID: 27726922
  • Grolmusz VK, Karászi K, Micsik T, Tóth EA et al. Cell cycle dependent RRM2 may serve as proliferation marker and pharmaceutical target in adrenocortical cancer. Am J Cancer Res 2016;6(9):2041-2053. PMID: 27725909
  • Wu XY, Liu WT, Wu ZF, Chen C et al. Identification of HRAS as cancer-promoting gene in gastric carcinoma cell aggressiveness. Am J Cancer Res 2016;6(9):1935-1948. PMID: 27725900
  • Kurdi AT, Bassil R, Olah M, Wu C et al. Tiam1/Rac1 complex controls Il17a transcription and autoimmunity. Nat Commun 2016 Oct 11;7:13048. PMID: 27725632
  • Ignacio RM, Kabir SM, Lee ES, Adunyah SE et al. NF-κB-Mediated CCL20 Reigns Dominantly in CXCR2-Driven Ovarian Cancer Progression. PLoS One 2016;11(10):e0164189. PMID: 27723802
  • Gong J, Hutter CM, Newcomb PA, Ulrich CM et al. Genome-Wide Interaction Analyses between Genetic Variants and Alcohol Consumption and Smoking for Risk of Colorectal Cancer. PLoS Genet 2016 Oct;12(10):e1006296. PMID: 27723779
  • Bronson PG, Chang D, Bhangale T, Seldin MF et al. Common variants at PVT1, ATG13-AMBRA1, AHI1 and CLEC16A are associated with selective IgA deficiency. Nat Genet 2016 Nov;48(11):1425-1429. PMID: 27723758
  • Jiang Z, Dong X, Li ZG, He F et al. Differential Coexpression Analysis Reveals Extensive Rewiring of Arabidopsis Gene Coexpression in Response to Pseudomonas syringae Infection. Sci Rep 2016 Oct 10;6:35064. PMID: 27721457
  • Gaude E, Frezza C et al. Tissue-specific and convergent metabolic transformation of cancer correlates with metastatic potential and patient survival. Nat Commun 2016 Oct 10;7:13041. PMID: 27721378
  • Knight AK, Craig JM, Theda C, Bækvad-Hansen M et al. An epigenetic clock for gestational age at birth based on blood methylation data. Genome Biol 2016 Oct 7;17(1):206. PMID: 27717399
  • Wainberg M, Alipanahi B, Frey B et al. Does conservation account for splicing patterns? BMC Genomics 2016 Oct 7;17(1):787. PMID: 27717327
  • Biasiotta A, D'Arcangelo D, Passarelli F, Nicodemi EM et al. Ion channels expression and function are strongly modified in solid tumors and vascular malformations. J Transl Med 2016 Oct 4;14(1):285. PMID: 27716384
  • Yang Z, Wong A, Kuh D, Paul DS et al. Correlation of an epigenetic mitotic clock with cancer risk. Genome Biol 2016 Oct 3;17(1):205. PMID: 27716309
  • Fujimori K, Tezuka T, Ishiura H, Mitsui J et al. Modeling neurological diseases with induced pluripotent cells reprogrammed from immortalized lymphoblastoid cell lines. Mol Brain 2016 Oct 3;9(1):88. PMID: 27716287
  • Du C, Pan P, Jiang Y, Zhang Q et al. Microarray data analysis to identify crucial genes regulated by CEBPB in human SNB19 glioma cells. World J Surg Oncol 2016 Oct 6;14(1):258. PMID: 27716259
  • Zhou Y, Xu L, Bickhart DM, Abdel Hay EH et al. Reduced representation bisulphite sequencing of ten bovine somatic tissues reveals DNA methylation patterns and their impacts on gene expression. BMC Genomics 2016 Oct 6;17(1):779. PMID: 27716143
  • Wake C, Labadorf A, Dumitriu A, Hoss AG et al. Novel microRNA discovery using small RNA sequencing in post-mortem human brain. BMC Genomics 2016 Oct 4;17(1):776. PMID: 27716130
  • Liang C, Meng Z, Meng Z, Malik W et al. GhABF2, a bZIP transcription factor, confers drought and salinity tolerance in cotton (Gossypium hirsutum L.). Sci Rep 2016 Oct 7;6:35040. PMID: 27713524
  • Liu H, Lyu J, Liu H, Gao Y et al. Computational identification of putative lincRNAs in mouse embryonic stem cell. Sci Rep 2016 Oct 7;6:34892. PMID: 27713513
  • Liu D, Zhang Q, Zhang H, Tang L et al. A comprehensive transcriptomic analysis of differentiating embryonic stem cells in response to the overexpression of Mesogenin 1. Aging (Albany NY) 2016 Oct 6;8(10):2324-2336. PMID: 27713115
  • Price MN, Wetmore KM, Deutschbauer AM, Arkin AP et al. A Comparison of the Costs and Benefits of Bacterial Gene Expression. PLoS One 2016;11(10):e0164314. PMID: 27711251
  • Torres DJ, Cannon JL, Ricoy UM, Johnson C et al. Self-Contained Statistical Analysis of Gene Sets. PLoS One 2016;11(10):e0163918. PMID: 27711232
  • Colak D, Alaiya AA, Kaya N, Muiya NP et al. Integrated Left Ventricular Global Transcriptome and Proteome Profiling in Human End-Stage Dilated Cardiomyopathy. PLoS One 2016;11(10):e0162669. PMID: 27711126
  • Alvarez JP, Furumizu C, Efroni I, Eshed Y et al. Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife 2016 Oct 6;5. PMID: 27710768
  • Kishimoto W, Nishikori M, Arima H, Miyoshi H et al. Expression of Tim-1 in primary CNS lymphoma. Cancer Med 2016 Nov;5(11):3235-3245. PMID: 27709813
  • Hu AX, Huang ZY, Liu P, Xiang T et al. A new ten-gene risk fraction model serving as prognostic indicator for clinical outcome of multiple myeloma. Tumour Biol 2016 Oct 5 PMID: 27709552
  • Kolb R, Phan L, Borcherding N, Liu Y et al. Obesity-associated NLRC4 inflammasome activation drives breast cancer progression. Nat Commun 2016 Oct 6;7:13007. PMID: 27708283
  • Elias EV, de Castro NP, Pineda PH, Abuázar CS et al. Epithelial cells captured from ductal carcinoma in situ reveal a gene expression signature associated with progression to invasive breast cancer. Oncotarget 2016 Nov 15;7(46):75672-75684. PMID: 27708222
  • Torres CM, Biran A, Burney MJ, Patel H et al. The linker histone H1.0 generates epigenetic and functional intratumor heterogeneity. Science 2016 Sep 30;353(6307). PMID: 27708074
  • Chandele A, Sewatanon J, Gunisetty S, Singla M et al. Characterization of Human CD8 T Cell Responses in Dengue Virus-Infected Patients from India. J Virol 2016 Dec 15;90(24):11259-11278. PMID: 27707928
  • Bi WL, Horowitz P, Greenwald NF, Abedalthagafi M et al. Landscape of Genomic Alterations in Pituitary Adenomas. Clin Cancer Res 2017 Apr 1;23(7):1841-1851. PMID: 27707790
  • Zhang K, Lee HM, Wei GH, Manninen A et al. Meta-analysis of gene expression and integrin-associated signaling pathways in papillary renal cell carcinoma subtypes. Oncotarget 2016 Dec 20;7(51):84178-84189. PMID: 27705936
  • Zuo Y, Su G, Wang S, Yang L et al. Exploring timing activation of functional pathway based on differential co-expression analysis in preimplantation embryogenesis. Oncotarget 2016 Nov 8;7(45):74120-74131. PMID: 27705919
  • Hassler MR, Pulverer W, Lakshminarasimhan R, Redl E et al. Insights into the Pathogenesis of Anaplastic Large-Cell Lymphoma through Genome-wide DNA Methylation Profiling. Cell Rep 2016 Oct 4;17(2):596-608. PMID: 27705804
  • Daneshvar K, Pondick JV, Kim BM, Zhou C et al. DIGIT Is a Conserved Long Noncoding RNA that Regulates GSC Expression to Control Definitive Endoderm Differentiation of Embryonic Stem Cells. Cell Rep 2016 Oct 4;17(2):353-365. PMID: 27705785
  • Rose NR, King HW, Blackledge NP, Fursova NA et al. RYBP stimulates PRC1 to shape chromatin-based communication between Polycomb repressive complexes. Elife 2016 Oct 5;5. PMID: 27705745
  • Falgreen S, Ellern Bilgrau A, Brøndum RF, Hjort Jakobsen L et al. hemaClass.org: Online One-By-One Microarray Normalization and Classification of Hematological Cancers for Precision Medicine. PLoS One 2016;11(10):e0163711. PMID: 27701436
  • Imai Y, Ohta E, Takeda S, Sunamura S et al. Histone deacetylase inhibitor panobinostat induces calcineurin degradation in multiple myeloma. JCI Insight 2016 Apr 21;1(5):e85061. PMID: 27699258
  • Inkeles MS, Teles RM, Pouldar D, Andrade PR et al. Cell-type deconvolution with immune pathways identifies gene networks of host defense and immunopathology in leprosy. JCI Insight 2016 Sep 22;1(15):e88843. PMID: 27699251
  • Rousseau M, Goh HMS, Holec S, Albert ML et al. Bladder catheterization increases susceptibility to infection that can be prevented by prophylactic antibiotic treatment. JCI Insight 2016 Sep 22;1(15):e88178. PMID: 27699248
  • Wang J, Mei F, Gao X, Wang S et al. Identification of genes involved in Epstein-Barr virus-associated nasopharyngeal carcinoma. Oncol Lett 2016 Oct;12(4):2375-2380. PMID: 27698802
  • Jin GH, Xu W, Shi Y, Wang LB et al. Celecoxib exhibits an anti-gastric cancer effect by targeting focal adhesion and leukocyte transendothelial migration-associated genes. Oncol Lett 2016 Oct;12(4):2345-2350. PMID: 27698798
  • Li H, Zhang H, Lu G, Li Q et al. Mechanism analysis of colorectal cancer according to the microRNA expression profile. Oncol Lett 2016 Oct;12(4):2329-2336. PMID: 27698796
  • Tanigawa H, Miyata K, Tian Z, Aoi J et al. Upregulation of ANGPTL6 in mouse keratinocytes enhances susceptibility to psoriasis. Sci Rep 2016 Oct 4;6:34690. PMID: 27698489
  • Oruganti SR, Torres DJ, Krebsbach S, Asperti-Boursin F et al. CARMA1 is a novel regulator of T-ALL disease and leukemic cell migration to the CNS. Leukemia 2017 Jan;31(1):255-258. PMID: 27698445
  • Kammerer S, Jahn SW, Winter E, Eidenhammer S et al. Critical evaluation of KCNJ3 gene product detection in human breast cancer: mRNA in situ hybridisation is superior to immunohistochemistry. J Clin Pathol 2016 Dec;69(12):1116-1121. PMID: 27698251
  • Wang C, Lee JE, Lai B, Macfarlan TS et al. Enhancer priming by H3K4 methyltransferase MLL4 controls cell fate transition. Proc Natl Acad Sci U S A 2016 Oct 18;113(42):11871-11876. PMID: 27698142
  • Nakajima S, Koh V, Kua LF, So J et al. Accumulation of CD11c+CD163+ Adipose Tissue Macrophages through Upregulation of Intracellular 11β-HSD1 in Human Obesity. J Immunol 2016 Nov 1;197(9):3735-3745. PMID: 27698011
  • Hoang CQ, Hale MA, Azevedo-Pouly AC, Elsässer HP et al. Transcriptional Maintenance of Pancreatic Acinar Identity, Differentiation, and Homeostasis by PTF1A. Mol Cell Biol 2016 Dec 15;36(24):3033-3047. PMID: 27697859
  • Napier BA, Brubaker SW, Sweeney TE, Monette P et al. Complement pathway amplifies caspase-11-dependent cell death and endotoxin-induced sepsis severity. J Exp Med 2016 Oct 17;213(11):2365-2382. PMID: 27697835
  • Feng K, Liu F, Zou J, Xing G et al. Genome-Wide Identification, Evolution, and Co-expression Network Analysis of Mitogen-Activated Protein Kinase Kinase Kinases in Brachypodium distachyon. Front Plant Sci 2016;7:1400. PMID: 27695474
  • Simm S, Scharf KD, Jegadeesan S, Chiusano ML et al. Survey of Genes Involved in Biosynthesis, Transport, and Signaling of Phytohormones with Focus on Solanum lycopersicum. Bioinform Biol Insights 2016;10:185-207. PMID: 27695302
  • Martin AJ, Dominguez C, Contreras-Riquelme S, Holmes DS et al. Graphlet Based Metrics for the Comparison of Gene Regulatory Networks. PLoS One 2016;11(10):e0163497. PMID: 27695050
  • Staals RH, Jackson SA, Biswas A, Brouns SJ et al. Interference-driven spacer acquisition is dominant over naive and primed adaptation in a native CRISPR-Cas system. Nat Commun 2016 Oct 3;7:12853. PMID: 27694798
  • Fang Q, Chen X, Zhi X et al. Long Non-Coding RNA (LncRNA) Urothelial Carcinoma Associated 1 (UCA1) Increases Multi-Drug Resistance of Gastric Cancer via Downregulating miR-27b. Med Sci Monit 2016 Oct 1;22:3506-3513. PMID: 27694794
  • Alphonse MP, Duong TT, Shumitzu C, Hoang TL et al. Inositol-Triphosphate 3-Kinase C Mediates Inflammasome Activation and Treatment Response in Kawasaki Disease. J Immunol 2016 Nov 1;197(9):3481-3489. PMID: 27694492
  • Zhao N, Liu Y, Wei Y, Yan Z et al. Optimization of cell lines as tumour models by integrating multi-omics data. Brief Bioinform 2017 May 1;18(3):515-529. PMID: 27694350
  • Alhamdoosh M, Ng M, Wilson NJ, Sheridan JM et al. Combining multiple tools outperforms individual methods in gene set enrichment analyses. Bioinformatics 2017 Feb 1;33(3):414-424. PMID: 27694195
  • John D, Weirick T, Dimmeler S, Uchida S et al. RNAEditor: easy detection of RNA editing events and the introduction of editing islands. Brief Bioinform 2017 Nov 1;18(6):993-1001. PMID: 27694136
  • Romasko EJ, Engel N et al. Male-Specific Transcription Factor Occupancy Alone Does Not Account for Differential Methylation at Imprinted Genes in the mouse Germ Cell Lineage. G3 (Bethesda) 2016 Dec 7;6(12):3975-3983. PMID: 27694116
  • Tang BGenomic feature extraction and comparison based on global alignment of ChIP-sequencing data. Bioengineered 2017 May 4;8(3):248-255. PMID: 27690208
  • Maina PK, Shao P, Liu Q, Fazli L et al. c-MYC drives histone demethylase PHF8 during neuroendocrine differentiation and in castration-resistant prostate cancer. Oncotarget 2016 Nov 15;7(46):75585-75602. PMID: 27689328
  • Wu J, Gong H, Bai Y, Zhang W et al. Analyzing the miRNA-Gene Networks to Mine the Important miRNAs under Skin of Human and Mouse. Biomed Res Int 2016;2016:5469371. PMID: 27689084
  • Lee MK, Hong Y, Kim SY, London SJ et al. DNA methylation and smoking in Korean adults: epigenome-wide association study. Clin Epigenetics 2016;8:103. PMID: 27688819
  • Di Pierro M, Zhang B, Aiden EL, Wolynes PG et al. Transferable model for chromosome architecture. Proc Natl Acad Sci U S A 2016 Oct 25;113(43):12168-12173. PMID: 27688758
  • Nelms BD, Waldron L, Barrera LA, Weflen AW et al. CellMapper: rapid and accurate inference of gene expression in difficult-to-isolate cell types. Genome Biol 2016 Sep 29;17(1):201. PMID: 27687735
  • Barøy T, Chilamakuri CS, Lorenz S, Sun J et al. Genome Analysis of Osteosarcoma Progression Samples Identifies FGFR1 Overexpression as a Potential Treatment Target and CHM as a Candidate Tumor Suppressor Gene. PLoS One 2016;11(9):e0163859. PMID: 27685995
  • Waardenberg AJ, Homan B, Mohamed S, Harvey RP et al. Prediction and validation of protein-protein interactors from genome-wide DNA-binding data using a knowledge-based machine-learning approach. Open Biol 2016 Sep;6(9). PMID: 27683156
  • Böttcher R, Dulla K, van Strijp D, Dits N et al. Human PDE4D isoform composition is deregulated in primary prostate cancer and indicative for disease progression and development of distant metastases. Oncotarget 2016 Oct 25;7(43):70669-70684. PMID: 27683107
  • Pereira EM, Labilloy A, Eshbach ML, Roy A et al. Characterization and phosphoproteomic analysis of a human immortalized podocyte model of Fabry disease generated using CRISPR/Cas9 technology. Am J Physiol Renal Physiol 2016 Nov 1;311(5):F1015-F1024. PMID: 27681560
  • Kim M, Lu F, Zhang Y et al. Loss of HDAC-Mediated Repression and Gain of NF-κB Activation Underlie Cytokine Induction in ARID1A- and PIK3CA-Mutation-Driven Ovarian Cancer. Cell Rep 2016 Sep 27;17(1):275-288. PMID: 27681437
  • Rouleau M, Tourancheau A, Girard-Bock C, Villeneuve L et al. Divergent Expression and Metabolic Functions of Human Glucuronosyltransferases through Alternative Splicing. Cell Rep 2016 Sep 27;17(1):114-124. PMID: 27681425
  • Tian S, Chang HH, Wang C et al. Weighted-SAMGSR: combining significance analysis of microarray-gene set reduction algorithm with pathway topology-based weights to select relevant genes. Biol Direct 2016 Sep 29;11(1):50. PMID: 27681389
  • Sweeney TE, Khatri P et al. Benchmarking Sepsis Gene Expression Diagnostics Using Public Data. Crit Care Med 2017 Jan;45(1):1-10. PMID: 27681387
  • Zhong S, Han W, Hou C, Liu J et al. Relation of Transcriptional Factors to the Expression and Activity of Cytochrome P450 and UDP-Glucuronosyltransferases 1A in Human Liver: Co-Expression Network Analysis. AAPS J 2017 Jan;19(1):203-214. PMID: 27681103
  • Brzezinka K, Altmann S, Czesnick H, Nicolas P et al. Arabidopsis FORGETTER1 mediates stress-induced chromatin memory through nucleosome remodeling. Elife 2016 Sep 28;5. PMID: 27680998
  • Srivastava R, Bajaj D, Malik A, Singh M et al. Transcriptome landscape of perennial wild Cicer microphyllum uncovers functionally relevant molecular tags regulating agronomic traits in chickpea. Sci Rep 2016 Sep 29;6:33616. PMID: 27680662
  • Yang S, Kim CY, Hwang S, Kim E et al. COEXPEDIA: exploring biomedical hypotheses via co-expressions associated with medical subject headings (MeSH). Nucleic Acids Res 2017 Jan 4;45(D1):D389-D396. PMID: 27679477
  • Meng Y, Guan Y, Zhang W, Wu YE et al. RNA-seq analysis of the hypothalamic transcriptome reveals the networks regulating physiopathological progress in the diabetic GK rat. Sci Rep 2016 Sep 28;6:34138. PMID: 27677945
  • Aliper A, Belikov AV, Garazha A, Jellen L et al. In search for geroprotectors: in silico screening and in vitro validation of signalome-level mimetics of young healthy state. Aging (Albany NY) 2016 Sep 24;8(9):2127-2152. PMID: 27677171
  • Stock AJ, Kasus-Jacobi A, Wren JD, Sjoelund VH et al. The Role of Neutrophil Proteins on the Amyloid Beta-RAGE Axis. PLoS One 2016;11(9):e0163330. PMID: 27676391
  • Auslander N, Wagner A, Oberhardt M, Ruppin E et al. Data-Driven Metabolic Pathway Compositions Enhance Cancer Survival Prediction. PLoS Comput Biol 2016 Sep;12(9):e1005125. PMID: 27673682
  • Munkácsy G, Sztupinszki Z, Herman P, Bán B et al. Validation of RNAi Silencing Efficiency Using Gene Array Data shows 18.5% Failure Rate across 429 Independent Experiments. Mol Ther Nucleic Acids 2016 Sep 27;5(9):e366. PMID: 27673562
  • Zhang X, Justice AC, Hu Y, Wang Z et al. Epigenome-wide differential DNA methylation between HIV-infected and uninfected individuals. Epigenetics 2016 Oct 2;11(10):750-760. PMID: 27672717
  • Liu F, He Y, Cao Q, Liu N et al. TBL1XR1 Is Highly Expressed in Gastric Cancer and Predicts Poor Prognosis. Dis Markers 2016;2016:2436518. PMID: 27672238
  • Bacalini MG, Deelen J, Pirazzini C, De Cecco M et al. Systemic Age-Associated DNA Hypermethylation of ELOVL2 Gene: In Vivo and In Vitro Evidences of a Cell Replication Process. J Gerontol A Biol Sci Med Sci 2017 Aug 1;72(8):1015-1023. PMID: 27672102
  • Balaji K, Vijayaraghavan S, Diao L, Tong P et al. AXL Inhibition Suppresses the DNA Damage Response and Sensitizes Cells to PARP Inhibition in Multiple Cancers. Mol Cancer Res 2017 Jan;15(1):45-58. PMID: 27671334
  • Zenoni S, Fasoli M, Guzzo F, Dal Santo S et al. Disclosing the Molecular Basis of the Postharvest Life of Berry in Different Grapevine Genotypes. Plant Physiol 2016 Nov;172(3):1821-1843. PMID: 27670818
  • Borovski T, Vellinga TT, Laoukili J, Santo EE et al. Inhibition of RAF1 kinase activity restores apicobasal polarity and impairs tumour growth in human colorectal cancer. Gut 2017 Jun;66(6):1106-1115. PMID: 27670374
  • McNair C, Urbanucci A, Comstock CE, Augello MA et al. Cell cycle-coupled expansion of AR activity promotes cancer progression. Oncogene 2017 Mar 23;36(12):1655-1668. PMID: 27669432
  • Ding LJ, Li Y, Wang SD, Wang XS et al. Long Noncoding RNA lncCAMTA1 Promotes Proliferation and Cancer Stem Cell-Like Properties of Liver Cancer by Inhibiting CAMTA1. Int J Mol Sci 2016 Sep 23;17(10). PMID: 27669232
  • Li L, Xu X, Chen C, Shen Z et al. Genome-Wide Characterization and Expression Analysis of the Germin-Like Protein Family in Rice and Arabidopsis. Int J Mol Sci 2016 Sep 23;17(10). PMID: 27669230
  • Vanhoutte D, Schips TG, Kwong JQ, Davis J et al. Thrombospondin expression in myofibers stabilizes muscle membranes. Elife 2016 Sep 26;5. PMID: 27669143
  • Muffat J, Li Y, Yuan B, Mitalipova M et al. Efficient derivation of microglia-like cells from human pluripotent stem cells. Nat Med 2016 Nov;22(11):1358-1367. PMID: 27668937
  • Fromer M, Roussos P, Sieberts SK, Johnson JS et al. Gene expression elucidates functional impact of polygenic risk for schizophrenia. Nat Neurosci 2016 Nov;19(11):1442-1453. PMID: 27668389
  • Yan Y, Qiu S, Jin Z, Gong S et al. Detecting subnetwork-level dynamic correlations. Bioinformatics 2017 Jan 15;33(2):256-265. PMID: 27667792
  • Cao L, Zhang Q, Cheng S, Chen Z et al. Long non-coding RNAs and genes contributing to the generation of cancer stem cells in hepatocellular carcinoma identified by RNA sequencing analysis. Oncol Rep 2016 Nov;36(5):2619-2624. PMID: 27667473
  • Wang Z, Monteiro CD, Jagodnik KM, Fernandez NF et al. Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd. Nat Commun 2016 Sep 26;7:12846. PMID: 27667448
  • Baron M, Veres A, Wolock SL, Faust AL et al. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst 2016 Oct 26;3(4):346-360.e4. PMID: 27667365
  • Smid M, Rodríguez-González FG, Sieuwerts AM, Salgado R et al. Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration. Nat Commun 2016 Sep 26;7:12910. PMID: 27666519
  • Fontoura CA, Castellani G, Mombach JC et al. The R implementation of the CRAN package PATHChange, a tool to study genetic pathway alterations in transcriptomic data. Comput Biol Med 2016 Nov 1;78:76-80. PMID: 27665533
  • Ren L, Xie D, Li P, Qu X et al. Radiation protective effects of baclofen predicted by a computational drug repurposing strategy. Pharmacol Res 2016 Nov;113(Pt A):475-483. PMID: 27664700
  • Blinka S, Reimer MH Jr, Pulakanti K, Pinello L et al. Identification of Transcribed Enhancers by Genome-Wide Chromatin Immunoprecipitation Sequencing. Methods Mol Biol 2017;1468:91-109. PMID: 27662872
  • Sayagués JM, Corchete LA, Gutiérrez ML, Sarasquete ME et al. Genomic characterization of liver metastases from colorectal cancer patients. Oncotarget 2016 Nov 8;7(45):72908-72922. PMID: 27662660
  • Kikani CK, Wu X, Paul L, Sabic H et al. Pask integrates hormonal signaling with histone modification via Wdr5 phosphorylation to drive myogenesis. Elife 2016 Sep 23;5. PMID: 27661449
  • Zhang J, Li B, Yang Y, Hu W et al. Genome-Wide Characterization and Expression Profiles of the Superoxide Dismutase Gene Family in Gossypium. Int J Genomics 2016;2016:8740901. PMID: 27660755
  • Katanic D, Khan A, Thakar J et al. PathCellNet: Cell-type specific pathogen-response network explorer. J Immunol Methods 2016 Dec;439:15-22. PMID: 27659011
  • Fransecky L, Neumann M, Heesch S, Schlee C et al. Silencing of GATA3 defines a novel stem cell-like subgroup of ETP-ALL. J Hematol Oncol 2016 Sep 22;9(1):95. PMID: 27658391
  • Lindholm ME, Giacomello S, Werne Solnestam B, Fischer H et al. The Impact of Endurance Training on Human Skeletal Muscle Memory, Global Isoform Expression and Novel Transcripts. PLoS Genet 2016 Sep;12(9):e1006294. PMID: 27657503
  • MohanKumar K, Namachivayam K, Cheng F, Jiang RH et al. Trinitrobenzene sulfonic acid-induced intestinal injury in neonatal mice activates transcriptional networks similar to those seen in human necrotizing enterocolitis. Pediatr Res 2017 Jan;81(1-1):99-112. PMID: 27656771
  • Chen W, McDonnell SK, Thibodeau SN, Tillmans LS et al. Incorporating Functional Annotations for Fine-Mapping Causal Variants in a Bayesian Framework Using Summary Statistics. Genetics 2016 Nov;204(3):933-958. PMID: 27655946
  • Wang L, Li H, Yang S, Ma W et al. Cyanidin-3-o-glucoside directly binds to ERα36 and inhibits EGFR-positive triple-negative breast cancer. Oncotarget 2016 Oct 18;7(42):68864-68882. PMID: 27655695
  • Chang JG, Chen CC, Wu YY, Che TF et al. Uncovering synthetic lethal interactions for therapeutic targets and predictive markers in lung adenocarcinoma. Oncotarget 2016 Nov 8;7(45):73664-73680. PMID: 27655641
  • Pashaei E, Guzel E, Ozgurses ME, Demirel G et al. A Meta-Analysis: Identification of Common Mir-145 Target Genes that have Similar Behavior in Different GEO Datasets. PLoS One 2016;11(9):e0161491. PMID: 27655328
  • McNew KL, Whipple WJ, Mehta AK, Grant TJ et al. MEK and TAK1 Regulate Apoptosis in Colon Cancer Cells with KRAS-Dependent Activation of Proinflammatory Signaling. Mol Cancer Res 2016 Dec;14(12):1204-1216. PMID: 27655129
  • Lee KW, Lee SS, Hwang JE, Jang HJ et al. Development and Validation of a Six-Gene Recurrence Risk Score Assay for Gastric Cancer. Clin Cancer Res 2016 Dec 15;22(24):6228-6235. PMID: 27654712
  • Goldman AR, Bitler BG, Schug Z, Conejo-Garcia JR et al. The Primary Effect on the Proteome of ARID1A-mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post-transcriptional Level. Mol Cell Proteomics 2016 Nov;15(11):3348-3360. PMID: 27654507
  • He DX, Gu F, Wu J, Gu XT et al. Targeting PSG1 to enhance chemotherapeutic efficacy: new application for anti-coagulant the dicumarol. Clin Sci (Lond) 2016 Dec 1;130(24):2267-2276. PMID: 27653744
  • Liu CH, Wang Z, Sun Y, SanGiovanni JP et al. Retinal expression of small non-coding RNAs in a murine model of proliferative retinopathy. Sci Rep 2016 Sep 22;6:33947. PMID: 27653551
  • Chi HC, Chen SL, Tsai CY, Chuang WY et al. Thyroid hormone suppresses hepatocarcinogenesis via DAPK2 and SQSTM1-dependent selective autophagy. Autophagy 2016 Dec;12(12):2271-2285. PMID: 27653365
  • Zhang J, Lin JE, Harris C, Campos Mastrotti Pereira F et al. DAO1 catalyzes temporal and tissue-specific oxidative inactivation of auxin in Arabidopsis thaliana. Proc Natl Acad Sci U S A 2016 Sep 27;113(39):11010-5. PMID: 27651492
  • Najafova Z, Tirado-Magallanes R, Subramaniam M, Hossan T et al. BRD4 localization to lineage-specific enhancers is associated with a distinct transcription factor repertoire. Nucleic Acids Res 2017 Jan 9;45(1):127-141. PMID: 27651452
  • Sun M, Nie F, Wang Y, Zhang Z et al. LncRNA HOXA11-AS Promotes Proliferation and Invasion of Gastric Cancer by Scaffolding the Chromatin Modification Factors PRC2, LSD1, and DNMT1. Cancer Res 2016 Nov 1;76(21):6299-6310. PMID: 27651312
  • Jagannathan S, Bradley RK et al. Translational plasticity facilitates the accumulation of nonsense genetic variants in the human population. Genome Res 2016 Dec;26(12):1639-1650. PMID: 27646533
  • Chaiwongwatanakul S, Yanatatsaneejit P, Tongsima S, Mutirangura A et al. Sex Steroids Regulate Expression of Genes Containing Long Interspersed Elements-1s in Breast Cancer Cells. Asian Pac J Cancer Prev 2016;17(8):4003-7. PMID: 27644652
  • Jiang M, Azevedo-Pouly AC, Deering TG, Hoang CQ et al. MIST1 and PTF1 Collaborate in Feed-Forward Regulatory Loops That Maintain the Pancreatic Acinar Phenotype in Adult Mice. Mol Cell Biol 2016 Dec 1;36(23):2945-2955. PMID: 27644326
  • Zhang K, Xu W, Wang C, Yi X et al. Differential deposition of H2A.Z in combination with histone modifications within related genes in Oryza sativa callus and seedling. Plant J 2017 Jan;89(2):264-277. PMID: 27643852
  • Mumbach MR, Rubin AJ, Flynn RA, Dai C et al. HiChIP: efficient and sensitive analysis of protein-directed genome architecture. Nat Methods 2016 Nov;13(11):919-922. PMID: 27643841
  • Loubière V, Delest A, Thomas A, Bonev B et al. Coordinate redeployment of PRC1 proteins suppresses tumor formation during Drosophila development. Nat Genet 2016 Nov;48(11):1436-1442. PMID: 27643538
  • Snijders AM, Mao JH et al. Multi-omics approach to infer cancer therapeutic targets on chromosome 20q across tumor types. Adv Mod Oncol Res 2016;2(4):215-223. PMID: 27642640
  • Zhang S, Zhou B, Wang L, Li P et al. INO80 is required for oncogenic transcription and tumor growth in non-small cell lung cancer. Oncogene 2017 Mar;36(10):1430-1439. PMID: 27641337
  • Toropainen S, Niskanen EA, Malinen M, Sutinen P et al. Global analysis of transcription in castration-resistant prostate cancer cells uncovers active enhancers and direct androgen receptor targets. Sci Rep 2016 Sep 19;6:33510. PMID: 27641228
  • Gabriel CH, Gross F, Karl M, Stephanowitz H et al. Identification of Novel Nuclear Factor of Activated T Cell (NFAT)-associated Proteins in T Cells. J Biol Chem 2016 Nov 11;291(46):24172-24187. PMID: 27637333
  • Henrich KO, Bender S, Saadati M, Dreidax D et al. Integrative Genome-Scale Analysis Identifies Epigenetic Mechanisms of Transcriptional Deregulation in Unfavorable Neuroblastomas. Cancer Res 2016 Sep 15;76(18):5523-37. PMID: 27635046
  • Zhong Y, Karaletsos T, Drewe P, Sreedharan VT et al. RiboDiff: detecting changes of mRNA translation efficiency from ribosome footprints. Bioinformatics 2017 Jan 1;33(1):139-141. PMID: 27634950
  • Ibn-Salem J, Muro EM, Andrade-Navarro MA et al. Co-regulation of paralog genes in the three-dimensional chromatin architecture. Nucleic Acids Res 2017 Jan 9;45(1):81-91. PMID: 27634932
  • Guan Q, Chen R, Yan H, Cai H et al. Differential expression analysis for individual cancer samples based on robust within-sample relative gene expression orderings across multiple profiling platforms. Oncotarget 2016 Oct 18;7(42):68909-68920. PMID: 27634898
  • Ju X, Jiao X, Ertel A, Casimiro MC et al. v-Src Oncogene Induces Trop2 Proteolytic Activation via Cyclin D1. Cancer Res 2016 Nov 15;76(22):6723-6734. PMID: 27634768
  • Kumamoto T, Seki N, Mataki H, Mizuno K et al. Regulation of TPD52 by antitumor microRNA-218 suppresses cancer cell migration and invasion in lung squamous cell carcinoma. Int J Oncol 2016 Nov;49(5):1870-1880. PMID: 27633630
  • Zhong Y, Zou L, Wang Z, Pan Y et al. Lrrc75b is a novel negative regulator of C2C12 myogenic differentiation. Int J Mol Med 2016 Nov;38(5):1411-1418. PMID: 27633041
  • Sun B, Li T, Xiao J, Liu L et al. Contribution of Multiple Inter-Kingdom Horizontal Gene Transfers to Evolution and Adaptation of Amphibian-Killing Chytrid, Batrachochytrium dendrobatidis. Front Microbiol 2016;7:1360. PMID: 27630622
  • Xie H, Peng C, Huang J, Li BE et al. Chronic Myelogenous Leukemia- Initiating Cells Require Polycomb Group Protein EZH2. Cancer Discov 2016 Nov;6(11):1237-1247. PMID: 27630126
  • Dey P, Panga V, Raghunathan S et al. A Cytokine Signalling Network for the Regulation of Inducible Nitric Oxide Synthase Expression in Rheumatoid Arthritis. PLoS One 2016;11(9):e0161306. PMID: 27626941
  • Wang W, Ji G, Xiao X, Chen X et al. Epigenetically regulated miR-145 suppresses colon cancer invasion and metastasis by targeting LASP1. Oncotarget 2016 Oct 18;7(42):68674-68687. PMID: 27626692
  • Liu X, Wang C, Liu W, Li J et al. Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos. Nature 2016 Sep 22;537(7621):558-562. PMID: 27626379
  • Dahl JA, Jung I, Aanes H, Greggains GD et al. Broad histone H3K4me3 domains in mouse oocytes modulate maternal-to-zygotic transition. Nature 2016 Sep 22;537(7621):548-552. PMID: 27626377
  • Riz I, Hawley TS, Marsal JW, Hawley RG et al. Noncanonical SQSTM1/p62-Nrf2 pathway activation mediates proteasome inhibitor resistance in multiple myeloma cells via redox, metabolic and translational reprogramming. Oncotarget 2016 Oct 11;7(41):66360-66385. PMID: 27626179
  • Haase T, Börnigen D, Müller C, Zeller T et al. Systems Medicine as an Emerging Tool for Cardiovascular Genetics. Front Cardiovasc Med 2016;3:27. PMID: 27626034
  • Riddell N, Giummarra L, Hall NE, Crewther SG et al. Bidirectional Expression of Metabolic, Structural, and Immune Pathways in Early Myopia and Hyperopia. Front Neurosci 2016;10:390. PMID: 27625591
  • Li G, Chen Y, Snyder MP, Zhang MQ et al. ChIA-PET2: a versatile and flexible pipeline for ChIA-PET data analysis. Nucleic Acids Res 2017 Jan 9;45(1):e4. PMID: 27625391
  • Deo RCAlternative Splicing, Internal Promoter, Nonsense-Mediated Decay, or All Three: Explaining the Distribution of Truncation Variants in Titin. Circ Cardiovasc Genet 2016 Oct;9(5):419-425. PMID: 27625338
  • Lachmandas E, Beigier-Bompadre M, Cheng SC, Kumar V et al. Rewiring cellular metabolism via the AKT/mTOR pathway contributes to host defence against Mycobacterium tuberculosis in human and murine cells. Eur J Immunol 2016 Nov;46(11):2574-2586. PMID: 27624090
  • Morin A, Kwan T, Ge B, Letourneau L et al. Immunoseq: the identification of functionally relevant variants through targeted capture and sequencing of active regulatory regions in human immune cells. BMC Med Genomics 2016 Sep 13;9(1):59. PMID: 27624058
  • Conlon EG, Lu L, Sharma A, Yamazaki T et al. The C9ORF72 GGGGCC expansion forms RNA G-quadruplex inclusions and sequesters hnRNP H to disrupt splicing in ALS brains. Elife 2016 Sep 13;5. PMID: 27623008
  • Tosolini M, Algans C, Pont F, Ycart B et al. Large-scale microarray profiling reveals four stages of immune escape in non-Hodgkin lymphomas. Oncoimmunology 2016 Jul;5(7):e1188246. PMID: 27622044
  • Benítez-Burraco A, Lattanzi W, Murphy E et al. Language Impairments in ASD Resulting from a Failed Domestication of the Human Brain. Front Neurosci 2016;10:373. PMID: 27621700
  • Chorny A, Casas-Recasens S, Sintes J, Shan M et al. The soluble pattern recognition receptor PTX3 links humoral innate and adaptive immune responses by helping marginal zone B cells. J Exp Med 2016 Sep 19;213(10):2167-85. PMID: 27621420
  • Zhang B, Chu S, Agarwal P, Campbell VL et al. Inhibition of interleukin-1 signaling enhances elimination of tyrosine kinase inhibitor-treated CML stem cells. Blood 2016 Dec 8;128(23):2671-2682. PMID: 27621307
  • Teppo S, Laukkanen S, Liuksiala T, Nordlund J et al. Genome-wide repression of eRNA and target gene loci by the ETV6-RUNX1 fusion in acute leukemia. Genome Res 2016 Nov;26(11):1468-1477. PMID: 27620872
  • Ghandchi FP, Caetano-Anolles G, Clough SJ, Ort DR et al. Investigating the Control of Chlorophyll Degradation by Genomic Correlation Mining. PLoS One 2016;11(9):e0162327. PMID: 27618630
  • Olofsson PS, Steinberg BE, Sobbi R, Cox MA et al. Blood pressure regulation by CD4(+) lymphocytes expressing choline acetyltransferase. Nat Biotechnol 2016 Oct;34(10):1066-1071. PMID: 27617738
  • Van Grembergen O, Bizet M, de Bony EJ, Calonne E et al. Portraying breast cancers with long noncoding RNAs. Sci Adv 2016 Sep;2(9):e1600220. PMID: 27617288
  • Deb A, Grewal RK, Kundu S et al. Regulatory Cross-Talks and Cascades in Rice Hormone Biosynthesis Pathways Contribute to Stress Signaling. Front Plant Sci 2016;7:1303. PMID: 27617021
  • Bujko M, Kober P, Rusetska N, Wakuła M et al. Aberrant DNA methylation of alternative promoter of DLC1 isoform 1 in meningiomas. J Neurooncol 2016 Dec;130(3):473-484. PMID: 27614886
  • Luo F, Li J, Wu S, Wu X et al. Comparative profiling between primary colorectal carcinomas and metastases identifies heterogeneity on drug resistance. Oncotarget 2016 Sep 27;7(39):63937-63949. PMID: 27613840
  • Goldstein B, Speth RC, Trivedi M et al. Renin-angiotensin system gene expression and neurodegenerative diseases. J Renin Angiotensin Aldosterone Syst 2016 Jul;17(3). PMID: 27613758
  • Noro R, Ishigame T, Walsh N, Shiraishi K et al. A Two-Gene Prognostic Classifier for Early-Stage Lung Squamous Cell Carcinoma in Multiple Large-Scale and Geographically Diverse Cohorts. J Thorac Oncol 2017 Jan;12(1):65-76. PMID: 27613525
  • Osier ND, Imes CC, Khalil H, Zelazny J et al. Symptom Science: Repurposing Existing Omics Data. Biol Res Nurs 2017 Jan;19(1):18-27. PMID: 27613438
  • Wan J, Xu W, Zhan J, Ma J et al. PCAF-mediated acetylation of transcriptional factor HOXB9 suppresses lung adenocarcinoma progression by targeting oncogenic protein JMJD6. Nucleic Acids Res 2016 Dec 15;44(22):10662-10675. PMID: 27613418
  • Machado JP, Philip S, Maldonado E, O'Brien SJ et al. Positive Selection Linked with Generation of Novel Mammalian Dentition Patterns. Genome Biol Evol 2016 Sep 11;8(9):2748-59. PMID: 27613398
  • Wang Z, Wang Z, Zhou Z, Ren Y et al. Crucial genes associated with diabetic nephropathy explored by microarray analysis. BMC Nephrol 2016 Sep 9;17(1):128. PMID: 27613243
  • Cao XH, Stojkovic I, Obradovic Z et al. A robust data scaling algorithm to improve classification accuracies in biomedical data. BMC Bioinformatics 2016 Sep 9;17(1):359. PMID: 27612635
  • Mariani E, Frabetti F, Tarozzi A, Pelleri MC et al. Meta-Analysis of Parkinson's Disease Transcriptome Data Using TRAM Software: Whole Substantia Nigra Tissue and Single Dopamine Neuron Differential Gene Expression. PLoS One 2016;11(9):e0161567. PMID: 27611585
  • Bing Z, Tian J, Zhang J, Li X et al. An Integrative Model of miRNA and mRNA Expression Signature for Patients of Breast Invasive Carcinoma with Radiotherapy Prognosis. Cancer Biother Radiopharm 2016 Sep;31(7):253-60. PMID: 27610468
  • Jin X, Liu X, Li X, Guan Y et al. Integrated Analysis of DNA Methylation and mRNA Expression Profiles Data to Identify Key Genes in Lung Adenocarcinoma. Biomed Res Int 2016;2016:4369431. PMID: 27610375
  • Zhang X, Gao L, Liu ZP, Jia S et al. Uncovering Driver DNA Methylation Events in Nonsmoking Early Stage Lung Adenocarcinoma. Biomed Res Int 2016;2016:2090286. PMID: 27610367
  • Yin H, Wang G, Ma L, Yi SV et al. What Signatures Dominantly Associate with Gene Age? Genome Biol Evol 2016 Oct 13;8(10):3083-3089. PMID: 27609935
  • Hilakivi-Clarke L, Wärri A, Bouker KB, Zhang X et al. Effects of In Utero Exposure to Ethinyl Estradiol on Tamoxifen Resistance and Breast Cancer Recurrence in a Preclinical Model. J Natl Cancer Inst 2017 Jan;109(1). PMID: 27609189
  • Jia D, Liu Z, Deng N, Tan TZ et al. A COL11A1-correlated pan-cancer gene signature of activated fibroblasts for the prioritization of therapeutic targets. Cancer Lett 2016 Nov 28;382(2):203-214. PMID: 27609069
  • Banfield E, Brown AL, Peckham EC, Rednam SP et al. Exploratory analysis of ERCC2 DNA methylation in survival among pediatric medulloblastoma patients. Cancer Epidemiol 2016 Oct;44:161-166. PMID: 27607585
  • Koch M, Wiese M et al. Quality Visualization of Microarray Datasets Using Circos. Microarrays (Basel) 2012 Aug 7;1(2):84-94. PMID: 27605337
  • Hesler RA, Huang JJ, Starr MD, Treboschi VM et al. TGF-β-induced stromal CYR61 promotes resistance to gemcitabine in pancreatic ductal adenocarcinoma through downregulation of the nucleoside transporters hENT1 and hCNT3. Carcinogenesis 2016 Nov 1;37(11):1041-1051. PMID: 27604902
  • Bouttier M, Laperriere D, Memari B, Mangiapane J et al. Alu repeats as transcriptional regulatory platforms in macrophage responses to M. tuberculosis infection. Nucleic Acids Res 2016 Dec 15;44(22):10571-10587. PMID: 27604870
  • Honardoost M, Arefian E, Soleimani M, Soudi S et al. Development of Insulin Resistance through Induction of miRNA-135 in C2C12 Cells. Cell J 2016 Fall;18(3):353-61. PMID: 27602317
  • Wang S, Chen Y, Bai Y et al. p21 participates in the regulation of anaplastic thyroid cancer cell proliferation by miR-146b. Oncol Lett 2016 Sep;12(3):2018-2022. PMID: 27602131
  • Yang J, Feng W, Zhang J, Xi Z et al. Candida albicans triggers the expression of inflammatory genes in human umbilical vein endothelial cells. Exp Ther Med 2016 Sep;12(3):1490-1494. PMID: 27602073
  • Schuette V, Embgenbroich M, Ulas T, Welz M et al. Mannose receptor induces T-cell tolerance via inhibition of CD45 and up-regulation of CTLA-4. Proc Natl Acad Sci U S A 2016 Sep 20;113(38):10649-54. PMID: 27601670
  • Mameri H, Bièche I, Meseure D, Marangoni E et al. Cytidine Deaminase Deficiency Reveals New Therapeutic Opportunities against Cancer. Clin Cancer Res 2017 Apr 15;23(8):2116-2126. PMID: 27601591
  • Chauhan V, Kuo B, McNamee JP, Wilkins RC et al. Transcriptional benchmark dose modeling: Exploring how advances in chemical risk assessment may be applied to the radiation field. Environ Mol Mutagen 2016 Oct;57(8):589-604. PMID: 27601323
  • Mutlu M, Saatci Ö, Ansari SA, Yurdusev E et al. miR-564 acts as a dual inhibitor of PI3K and MAPK signaling networks and inhibits proliferation and invasion in breast cancer. Sci Rep 2016 Sep 7;6:32541. PMID: 27600857
  • Paultre DSG, Gustin MP, Molnar A, Oparka KJ et al. Lost in Transit: Long-Distance Trafficking and Phloem Unloading of Protein Signals in Arabidopsis Homografts. Plant Cell 2016 Sep;28(9):2016-2025. PMID: 27600534
  • Barat A, Ruskin HJ, Byrne AT, Prehn JH et al. Integrating Colon Cancer Microarray Data: Associating Locus-Specific Methylation Groups to Gene Expression-Based Classifications. Microarrays (Basel) 2015 Nov 23;4(4):630-46. PMID: 27600244
  • Koschmann J, Bhar A, Stegmaier P, Kel AE et al. "Upstream Analysis": An Integrated Promoter-Pathway Analysis Approach to Causal Interpretation of Microarray Data. Microarrays (Basel) 2015 May 21;4(2):270-86. PMID: 27600225
  • Hori M, Nakamachi T, Shibato J, Rakwal R et al. Unraveling the Specific Ischemic Core and Penumbra Transcriptome in the Permanent Middle Cerebral Artery Occlusion Mouse Model Brain Treated with the Neuropeptide PACAP38. Microarrays (Basel) 2015 Jan 21;4(1):2-24. PMID: 27600210
  • Poveda J, Sanz AB, Fernandez-Fernandez B, Carrasco S et al. MXRA5 is a TGF-β1-regulated human protein with anti-inflammatory and anti-fibrotic properties. J Cell Mol Med 2017 Jan;21(1):154-164. PMID: 27599751
  • Hsu CL, Chung FH, Chen CH, Hsu TT et al. Genotypes of cancer stem cells characterized by epithelial-to-mesenchymal transition and proliferation related functions. Sci Rep 2016 Sep 6;6:32523. PMID: 27597445
  • Chattopadhyay E, Singh R, Ray A, Roy R et al. Expression deregulation of mir31 and CXCL12 in two types of oral precancers and cancer: importance in progression of precancer and cancer. Sci Rep 2016 Sep 6;6:32735. PMID: 27597234
  • Liu X, Wang Y, Ji H, Aihara K et al. Personalized characterization of diseases using sample-specific networks. Nucleic Acids Res 2016 Dec 15;44(22):e164. PMID: 27596597
  • Larriba Y, Rueda C, Fernández MA, Peddada SD et al. Order restricted inference for oscillatory systems for detecting rhythmic signals. Nucleic Acids Res 2016 Dec 15;44(22):e163. PMID: 27596593
  • Ahmed M, Sottnik JL, Dancik GM, Sahu D et al. An Osteopontin/CD44 Axis in RhoGDI2-Mediated Metastasis Suppression. Cancer Cell 2016 Sep 12;30(3):432-443. PMID: 27593345
  • Ma HL, Jin SF, Tao WJ, Zhang ML et al. Overexpression of stathmin/oncoprotein 18 correlates with poorer prognosis and interacts with p53 in oral squamous cell carcinoma. J Craniomaxillofac Surg 2016 Oct;44(10):1725-1732. PMID: 27591090
  • Djordjevic D, Kusumi K, Ho JW et al. XGSA: A statistical method for cross-species gene set analysis. Bioinformatics 2016 Sep 1;32(17):i620-i628. PMID: 27587682
  • Ammad-Ud-Din M, Khan SA, Malani D, Murumägi A et al. Drug response prediction by inferring pathway-response associations with kernelized Bayesian matrix factorization. Bioinformatics 2016 Sep 1;32(17):i455-i463. PMID: 27587662
  • Kapourani CA, Sanguinetti G et al. Higher order methylation features for clustering and prediction in epigenomic studies. Bioinformatics 2016 Sep 1;32(17):i405-i412. PMID: 27587656
  • Duggan SP, Behan FM, Kirca M, Zaheer A et al. The characterization of an intestine-like genomic signature maintained during Barrett's-associated adenocarcinogenesis reveals an NR5A2-mediated promotion of cancer cell survival. Sci Rep 2016 Sep 2;6:32638. PMID: 27586588
  • Wu S, Li J, Cao M, Yang J et al. A novel integrated gene coexpression analysis approach reveals a prognostic three-transcription-factor signature for glioma molecular subtypes. BMC Syst Biol 2016 Aug 26;10 Suppl 3(Suppl 3):71. PMID: 27586240
  • Wilop S, Chou WC, Jost E, Crysandt M et al. A three-gene expression-based risk score can refine the European LeukemiaNet AML classification. J Hematol Oncol 2016 Sep 1;9(1):78. PMID: 27585840
  • Caberlotto L, Marchetti L, Lauria M, Scotti M et al. Integration of transcriptomic and genomic data suggests candidate mechanisms for APOE4-mediated pathogenic action in Alzheimer's disease. Sci Rep 2016 Sep 2;6:32583. PMID: 27585646
  • Cardoso J, Mesquita M, Dias Pereira A, Bettencourt-Dias M et al. CYR61 and TAZ Upregulation and Focal Epithelial to Mesenchymal Transition May Be Early Predictors of Barrett's Esophagus Malignant Progression. PLoS One 2016;11(9):e0161967. PMID: 27583562
  • Wang Z, Ma'ayan A et al. An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study. F1000Res 2016;5:1574. PMID: 27583132
  • Ladle BH, Li KP, Phillips MJ, Pucsek AB et al. De novo DNA methylation by DNA methyltransferase 3a controls early effector CD8+ T-cell fate decisions following activation. Proc Natl Acad Sci U S A 2016 Sep 20;113(38):10631-6. PMID: 27582468
  • Müller R, Weirick T, John D, Militello G et al. ANGIOGENES: knowledge database for protein-coding and noncoding RNA genes in endothelial cells. Sci Rep 2016 Sep 1;6:32475. PMID: 27582018
  • Våtsveen TK, Sponaas AM, Tian E, Zhang Q et al. Erythropoietin (EPO)-receptor signaling induces cell death of primary myeloma cells in vitro. J Hematol Oncol 2016 Aug 31;9(1):75. PMID: 27581518
  • Zhang X, Zhang H, Li L, Lan H et al. Characterizing the population structure and genetic diversity of maize breeding germplasm in Southwest China using genome-wide SNP markers. BMC Genomics 2016 Aug 31;17(1):697. PMID: 27581193
  • Garin-Muga A, Odriozola L, Martínez-Val A, Del Toro N et al. Detection of Missing Proteins Using the PRIDE Database as a Source of Mass Spectrometry Evidence. J Proteome Res 2016 Nov 4;15(11):4101-4115. PMID: 27581094
  • Pietrosanto M, Mattei E, Helmer-Citterich M, Ferrè F et al. A novel method for the identification of conserved structural patterns in RNA: From small scale to high-throughput applications. Nucleic Acids Res 2016 Oct 14;44(18):8600-8609. PMID: 27580722
  • Sciacovelli M, Gonçalves E, Johnson TI, Zecchini VR et al. Fumarate is an epigenetic modifier that elicits epithelial-to-mesenchymal transition. Nature 2016 Aug 31;537(7621):544-547. PMID: 27580029
  • Liang B, Shao Y, Long F, Jiang SJ et al. Predicting Diagnostic Gene Biomarkers for Non-Small-Cell Lung Cancer. Biomed Res Int 2016;2016:3952494. PMID: 27579312
  • Smola MJ, Christy TW, Inoue K, Nicholson CO et al. SHAPE reveals transcript-wide interactions, complex structural domains, and protein interactions across the Xist lncRNA in living cells. Proc Natl Acad Sci U S A 2016 Sep 13;113(37):10322-7. PMID: 27578869
  • Jouhilahti EM, Madissoon E, Vesterlund L, Töhönen V et al. The human PRD-like homeobox gene LEUTX has a central role in embryo genome activation. Development 2016 Oct 1;143(19):3459-3469. PMID: 27578796
  • Zhang W, Mao JH, Zhu W, Jain AK et al. Centromere and kinetochore gene misexpression predicts cancer patient survival and response to radiotherapy and chemotherapy. Nat Commun 2016 Aug 31;7:12619. PMID: 27577169
  • Lamhamedi-Cherradi SE, Menegaz BA, Ramamoorthy V, Vishwamitra D et al. IGF-1R and mTOR Blockade: Novel Resistance Mechanisms and Synergistic Drug Combinations for Ewing Sarcoma. J Natl Cancer Inst 2016 Dec;108(12). PMID: 27576731
  • Hung JH, Weng Z et al. Mapping Short Sequence Reads to a Reference Genome. Cold Spring Harb Protoc 2017 Feb 1;2017(2). PMID: 27574204
  • Sasaki N, Sachs N, Wiebrands K, Ellenbroek SI et al. Reg4+ deep crypt secretory cells function as epithelial niche for Lgr5+ stem cells in colon. Proc Natl Acad Sci U S A 2016 Sep 13;113(37):E5399-407. PMID: 27573849
  • Bi P, Yue F, Karki A, Castro B et al. Notch activation drives adipocyte dedifferentiation and tumorigenic transformation in mice. J Exp Med 2016 Sep 19;213(10):2019-37. PMID: 27573812
  • Guo W, Zhang MQ, Wu H et al. Mammalian non-CG methylations are conserved and cell-type specific and may have been involved in the evolution of transposon elements. Sci Rep 2016 Aug 30;6:32207. PMID: 27573482
  • Flegel C, Vogel F, Hofreuter A, Wojcik S et al. Characterization of non-olfactory GPCRs in human sperm with a focus on GPR18. Sci Rep 2016 Aug 30;6:32255. PMID: 27572937
  • Jones RA, Robinson TJ, Liu JC, Shrestha M et al. RB1 deficiency in triple-negative breast cancer induces mitochondrial protein translation. J Clin Invest 2016 Oct 3;126(10):3739-3757. PMID: 27571409
  • Liu F, Wang C, Liu P et al. A Semi-parametric Bayesian Approach for Differential Expression Analysis of RNA-seq Data. J Agric Biol Environ Stat 2015 Dec;20(4):555-576. PMID: 27570441
  • Cheng P, Wang J, Waghmare I, Sartini S et al. FOXD1-ALDH1A3 Signaling Is a Determinant for the Self-Renewal and Tumorigenicity of Mesenchymal Glioma Stem Cells. Cancer Res 2016 Dec 15;76(24):7219-7230. PMID: 27569208
  • Yin F, Shu L, Liu X, Li T et al. Microarray-based identification of genes associated with cancer progression and prognosis in hepatocellular carcinoma. J Exp Clin Cancer Res 2016 Aug 27;35(1):127. PMID: 27567667
  • Cavalli G, Koenders M, Kalabokis V, Kim J et al. Treating experimental arthritis with the innate immune inhibitor interleukin-37 reduces joint and systemic inflammation. Rheumatology (Oxford) 2016 Dec;55(12):2220-2229. PMID: 27567100
  • Tarantini S, Giles CB, Wren JD, Ashpole NM et al. IGF-1 deficiency in a critical period early in life influences the vascular aging phenotype in mice by altering miRNA-mediated post-transcriptional gene regulation: implications for the developmental origins of health and disease hypothesis. Age (Dordr) 2016 Aug;38(4):239-258. PMID: 27566308
  • He F, Karve AA, Maslov S, Babst BA et al. Large-Scale Public Transcriptomic Data Mining Reveals a Tight Connection between the Transport of Nitrogen and Other Transport Processes in Arabidopsis. Front Plant Sci 2016;7:1207. PMID: 27563305
  • Mendizabal I, Shi L, Keller TE, Konopka G et al. Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution. Mol Biol Evol 2016 Nov;33(11):2947-2959. PMID: 27563052
  • Sandin L, Bergkvist L, Nath S, Kielkopf C et al. Beneficial effects of increased lysozyme levels in Alzheimer's disease modelled in Drosophila melanogaster. FEBS J 2016 Oct;283(19):3508-3522. PMID: 27562772
  • Nault R, Fader KA, Ammendolia DA, Dornbos P et al. Dose-Dependent Metabolic Reprogramming and Differential Gene Expression in TCDD-Elicited Hepatic Fibrosis. Toxicol Sci 2016 Dec;154(2):253-266. PMID: 27562557
  • Brew O, Sullivan MH, Woodman A et al. Comparison of Normal and Pre-Eclamptic Placental Gene Expression: A Systematic Review with Meta-Analysis. PLoS One 2016;11(8):e0161504. PMID: 27560381
  • Peng Y, Miao H, Wu S, Yang W et al. ABHD5 interacts with BECN1 to regulate autophagy and tumorigenesis of colon cancer independent of PNPLA2. Autophagy 2016 Nov;12(11):2167-2182. PMID: 27559856
  • Higareda-Almaraz JC, Ruiz-Moreno JS, Klimentova J, Barbieri D et al. Systems-level effects of ectopic galectin-7 reconstitution in cervical cancer and its microenvironment. BMC Cancer 2016 Aug 24;16(1):680. PMID: 27558259
  • Zhang X, Xiao W, Acencio ML, Lemke N et al. An ensemble framework for identifying essential proteins. BMC Bioinformatics 2016 Aug 25;17(1):322. PMID: 27557880
  • Castro-Mondragon JA, Rioualen C, Contreras-Moreira B, van Helden J et al. RSAT::Plants: Motif Discovery in ChIP-Seq Peaks of Plant Genomes. Methods Mol Biol 2016;1482:297-322. PMID: 27557775
  • Nakamura T, Okamoto I, Sasaki K, Yabuta Y et al. A developmental coordinate of pluripotency among mice, monkeys and humans. Nature 2016 Sep 1;537(7618):57-62. PMID: 27556940
  • Wang W, Wang Z, Zhao J, Wei M et al. A novel molecular and clinical staging model to predict survival for patients with esophageal squamous cell carcinoma. Oncotarget 2016 Sep 27;7(39):63526-63536. PMID: 27556859
  • Bai Y, Kinne J, Donham B, Jiang F et al. Read-Split-Run: an improved bioinformatics pipeline for identification of genome-wide non-canonical spliced regions using RNA-Seq data. BMC Genomics 2016 Aug 22;17 Suppl 7(Suppl 7):503. PMID: 27556805
  • Sambaturu N, Mishra M, Chandra N et al. EpiTracer - an algorithm for identifying epicenters in condition-specific biological networks. BMC Genomics 2016 Aug 18;17 Suppl 4(Suppl 4):543. PMID: 27556637
  • Cui X, Meng J, Zhang S, Rao MK et al. A hierarchical model for clustering m(6)A methylation peaks in MeRIP-seq data. BMC Genomics 2016 Aug 22;17 Suppl 7(Suppl 7):520. PMID: 27556597
  • Gao Y, Li J, Qiao N, Meng Q et al. Adrenomedullin blockade suppresses sunitinib-resistant renal cell carcinoma growth by targeting the ERK/MAPK pathway. Oncotarget 2016 Sep 27;7(39):63374-63387. PMID: 27556517
  • Lee J, Lee WK, Seol MY, Lee SG et al. Coupling of LETM1 up-regulation with oxidative phosphorylation and platelet-derived growth factor receptor signaling via YAP1 transactivation. Oncotarget 2016 Oct 11;7(41):66728-66739. PMID: 27556512
  • Ma C, Sastry KS, Flore M, Gehani S et al. CrossLink: a novel method for cross-condition classification of cancer subtypes. BMC Genomics 2016 Aug 22;17 Suppl 7(Suppl 7):549. PMID: 27556419
  • Rai VP, Rai A, Kumar R, Kumar S et al. Microarray analyses for identifying genes conferring resistance to pepper leaf curl virus in chilli pepper (Capsicum spp.). Genom Data 2016 Sep;9:140-2. PMID: 27556012
  • Kulshrestha A, Suman S, Ranjan R et al. Network analysis reveals potential markers for pediatric adrenocortical carcinoma. Onco Targets Ther 2016;9:4569-81. PMID: 27555782
  • Vasilaki E, Morikawa M, Koinuma D, Mizutani A et al. Ras and TGF-β signaling enhance cancer progression by promoting the ΔNp63 transcriptional program. Sci Signal 2016 Aug 23;9(442):ra84. PMID: 27555661
  • Meadows JP, Guzman-Karlsson MC, Phillips S, Brown JA et al. Dynamic DNA methylation regulates neuronal intrinsic membrane excitability. Sci Signal 2016 Aug 23;9(442):ra83. PMID: 27555660
  • Jiang H, Good DJ et al. A molecular conundrum involving hypothalamic responses to and roles of long non-coding RNAs following food deprivation. Mol Cell Endocrinol 2016 Dec 15;438:52-60. PMID: 27555291
  • DeTomaso D, Yosef N et al. FastProject: a tool for low-dimensional analysis of single-cell RNA-Seq data. BMC Bioinformatics 2016 Aug 23;17(1):315. PMID: 27553427
  • [No authors listed]Oral Free Paper Sessions. Virchows Arch 2016 Sep;469 Suppl 1(Suppl 1):1-346. PMID: 27553392
  • Ziemann M, Eren Y, El-Osta A et al. Gene name errors are widespread in the scientific literature. Genome Biol 2016 Aug 23;17(1):177. PMID: 27552985
  • Hsieh YY, Chou CJ, Lo HL, Yang PM et al. Repositioning of a cyclin-dependent kinase inhibitor GW8510 as a ribonucleotide reductase M2 inhibitor to treat human colorectal cancer. Cell Death Discov 2016;2:16027. PMID: 27551518
  • KalantarMotamedi Y, Peymani M, Baharvand H, Nasr-Esfahani MH et al. Systematic selection of small molecules to promote differentiation of embryonic stem cells and experimental validation for generating cardiomyocytes. Cell Death Discov 2016;2:16007. PMID: 27551501
  • Kim KW, Williams JW, Wang YT, Ivanov S et al. MHC II+ resident peritoneal and pleural macrophages rely on IRF4 for development from circulating monocytes. J Exp Med 2016 Sep 19;213(10):1951-9. PMID: 27551152
  • Reilly JN, McLaughlin EA, Stanger SJ, Anderson AL et al. Characterisation of mouse epididymosomes reveals a complex profile of microRNAs and a potential mechanism for modification of the sperm epigenome. Sci Rep 2016 Aug 23;6:31794. PMID: 27549865
  • Liu KT, Liu YH, Lin CY, Tsai MJ et al. Serum neutrophil gelatinase-associated lipocalin and resistin are associated with dengue infection in adults. BMC Infect Dis 2016 Aug 22;16(1):441. PMID: 27549428
  • Georgiou G, van Heeringen SJ et al. fluff: exploratory analysis and visualization of high-throughput sequencing data. PeerJ 2016;4:e2209. PMID: 27547532
  • Wu HL, Hsiao TH, Chen PJ, Wong SH et al. Liver Gene Expression Profiles Correlate with Virus Infection and Response to Interferon Therapy in Chronic Hepatitis B Patients. Sci Rep 2016 Aug 22;6:31349. PMID: 27546197
  • Désert R, Mebarki S, Desille M, Sicard M et al. "Fibrous nests" in human hepatocellular carcinoma express a Wnt-induced gene signature associated with poor clinical outcome. Int J Biochem Cell Biol 2016 Dec;81(Pt A):195-207. PMID: 27545991
  • Eskiocak U, Ramesh V, Gill JG, Zhao Z et al. Synergistic effects of ion transporter and MAP kinase pathway inhibitors in melanoma. Nat Commun 2016 Aug 22;7:12336. PMID: 27545456
  • Li S, Oh S et al. Improving feature selection performance using pairwise pre-evaluation. BMC Bioinformatics 2016 Aug 20;17:312. PMID: 27544506
  • Chandran AKN, Yoo YH, Cao P, Sharma R et al. Updated Rice Kinase Database RKD 2.0: enabling transcriptome and functional analysis of rice kinase genes. Rice (N Y) 2016 Dec;9(1):40. PMID: 27540739
  • Chahal HS, Wu W, Ransohoff KJ, Yang L et al. Genome-wide association study identifies 14 novel risk alleles associated with basal cell carcinoma. Nat Commun 2016 Aug 19;7:12510. PMID: 27539887
  • Omae K, Komori O, Eguchi S et al. Reproducible detection of disease-associated markers from gene expression data. BMC Med Genomics 2016 Aug 18;9(1):53. PMID: 27538512
  • Beleut M, Soeldner R, Egorov M, Guenther R et al. Discretization of Gene Expression Data Unmasks Molecular Subgroups Recurring in Different Human Cancer Types. PLoS One 2016;11(8):e0161514. PMID: 27537329
  • Zeng MN, Ma WL, Zheng WL et al. [Bioinformatics analysis of microRNA comprehensive regulatory network in B- cell acute lymphoblastic leukemia]. Zhonghua Xue Ye Xue Za Zhi 2016 Jul;37(7):585-90. PMID: 27535859
  • Li J, Yu H, Xi M, Lu X et al. Long noncoding RNA C17orf91 is a potential prognostic marker and functions as an oncogene in ovarian cancer. J Ovarian Res 2016 Aug 17;9(1):49. PMID: 27535740
  • Taguchi YH, Iwadate M, Umeyama H et al. SFRP1 is a possible candidate for epigenetic therapy in non-small cell lung cancer. BMC Med Genomics 2016 Aug 12;9 Suppl 1(Suppl 1):28. PMID: 27534621
  • Cha K, Li Y, Yi GS et al. Discovering gene expression signatures responding to tyrosine kinase inhibitor treatment in chronic myeloid leukemia. BMC Med Genomics 2016 Aug 12;9 Suppl 1(Suppl 1):29. PMID: 27534394
  • Yang M, Wang Y, Jiang F, Song T et al. miR-71 and miR-263 Jointly Regulate Target Genes Chitin synthase and Chitinase to Control Locust Molting. PLoS Genet 2016 Aug;12(8):e1006257. PMID: 27532544
  • Lagarde J, Uszczynska-Ratajczak B, Santoyo-Lopez J, Gonzalez JM et al. Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq). Nat Commun 2016 Aug 17;7:12339. PMID: 27531712
  • Wu HJ, Michor F et al. A computational strategy to adjust for copy number in tumor Hi-C data. Bioinformatics 2016 Dec 15;32(24):3695-3701. PMID: 27531101
  • Kim S, Eliot M, Koestler DC, Houseman EA et al. Enlarged leukocyte referent libraries can explain additional variance in blood-based epigenome-wide association studies. Epigenomics 2016 Sep;8(9):1185-92. PMID: 27529193
  • Corvaisier M, Bauzone M, Corfiotti F, Renaud F et al. Regulation of cellular quiescence by YAP/TAZ and Cyclin E1 in colon cancer cells: Implication in chemoresistance and cancer relapse. Oncotarget 2016 Aug 30;7(35):56699-56712. PMID: 27527859
  • Cui L, Feng K, Wang M, Wang M et al. Genome-wide identification, phylogeny and expression analysis of AP2/ERF transcription factors family in Brachypodium distachyon. BMC Genomics 2016 Aug 15;17(1):636. PMID: 27527343
  • He B, Zhang ZK, Liu J, He YX et al. Bioinformatics and Microarray Analysis of miRNAs in Aged Female Mice Model Implied New Molecular Mechanisms for Impaired Fracture Healing. Int J Mol Sci 2016 Aug 3;17(8). PMID: 27527150
  • Henry EK, Sy CB, Inclan-Rico JM, Espinosa V et al. Carbonic anhydrase enzymes regulate mast cell-mediated inflammation. J Exp Med 2016 Aug 22;213(9):1663-73. PMID: 27526715
  • Guo H, Ahmed M, Zhang F, Yao CQ et al. Modulation of long noncoding RNAs by risk SNPs underlying genetic predispositions to prostate cancer. Nat Genet 2016 Oct;48(10):1142-50. PMID: 27526323
  • Hoare M, Ito Y, Kang TW, Weekes MP et al. NOTCH1 mediates a switch between two distinct secretomes during senescence. Nat Cell Biol 2016 Sep;18(9):979-92. PMID: 27525720
  • Belanger KK, Ameredes BT, Boldogh I, Aguilera-Aguirre L et al. The Potential Role of 8-Oxoguanine DNA Glycosylase-Driven DNA Base Excision Repair in Exercise-Induced Asthma. Mediators Inflamm 2016;2016:3762561. PMID: 27524866
  • Kim TH, Saadatpour A, Guo G, Saxena M et al. Single-Cell Transcript Profiles Reveal Multilineage Priming in Early Progenitors Derived from Lgr5(+) Intestinal Stem Cells. Cell Rep 2016 Aug 23;16(8):2053-2060. PMID: 27524622
  • Wang S, Mares MA, Guo YK et al. CGDM: collaborative genomic data model for molecular profiling data using NoSQL. Bioinformatics 2016 Dec 1;32(23):3654-3660. PMID: 27522085
  • Yang EW, Jiang T et al. SDEAP: a splice graph based differential transcript expression analysis tool for population data. Bioinformatics 2016 Dec 1;32(23):3593-3602. PMID: 27522083
  • Xu Z, Taylor JA, Leung YK, Ho SM et al. oxBS-MLE: an efficient method to estimate 5-methylcytosine and 5-hydroxymethylcytosine in paired bisulfite and oxidative bisulfite treated DNA. Bioinformatics 2016 Dec 1;32(23):3667-3669. PMID: 27522082
  • Pimiento JM, Neill KG, Henderson-Jackson E, Eschrich SA et al. Knockdown of CSE1L Gene in Colorectal Cancer Reduces Tumorigenesis in Vitro. Am J Pathol 2016 Oct;186(10):2761-8. PMID: 27521996
  • Haubrock M, Hartmann F, Wingender E et al. NF-Y Binding Site Architecture Defines a C-Fos Targeted Promoter Class. PLoS One 2016;11(8):e0160803. PMID: 27517874
  • Sahu D, Hsu CL, Lin CC, Yang TW et al. Co-expression analysis identifies long noncoding RNA SNHG1 as a novel predictor for event-free survival in neuroblastoma. Oncotarget 2016 Sep 6;7(36):58022-58037. PMID: 27517149
  • Ren C, Zhang Z, Wang Y, Li S et al. Genome-wide identification and characterization of the NF-Y gene family in grape (vitis vinifera L.). BMC Genomics 2016 Aug 11;17(1):605. PMID: 27516172
  • Su CY, Chang YC, Yang CJ, Huang MS et al. The opposite prognostic effect of NDUFS1 and NDUFS8 in lung cancer reflects the oncojanus role of mitochondrial complex I. Sci Rep 2016 Aug 12;6:31357. PMID: 27516145
  • Miyazaki H, Wangemann P, Marcus DC et al. The gastric H,K-ATPase in stria vascularis contributes to pH regulation of cochlear endolymph but not to K secretion. BMC Physiol 2016 Aug 11;17(1):1. PMID: 27515813
  • Yang L, Tang Y, Xiao F, Xiong J et al. Hemophagocytic Lymphohistocytosis in the Chinese Han Population May Be Associated with an STXBP2 Gene Polymorphism. PLoS One 2016;11(8):e0159454. PMID: 27513731
  • Wang C, Wang J, Li J, Hu G et al. KDM5A controls bone morphogenic protein 2-induced osteogenic differentiation of bone mesenchymal stem cells during osteoporosis. Cell Death Dis 2016 Aug 11;7(8):e2335. PMID: 27512956
  • Karaman S, Hollmén M, Yoon SY, Alkan HF et al. Transgenic overexpression of VEGF-C induces weight gain and insulin resistance in mice. Sci Rep 2016 Aug 11;6:31566. PMID: 27511834
  • Pers THGene set analysis for interpreting genetic studies. Hum Mol Genet 2016 Oct 1;25(R2):R133-R140. PMID: 27511725
  • Horvath S, Gurven M, Levine ME, Trumble BC et al. An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease. Genome Biol 2016 Aug 11;17(1):171. PMID: 27511193
  • Bam M, Yang X, Zumbrun EE, Zhong Y et al. Dysregulated immune system networks in war veterans with PTSD is an outcome of altered miRNA expression and DNA methylation. Sci Rep 2016 Aug 11;6:31209. PMID: 27510991
  • Valsesia A, Saris WH, Astrup A, Hager J et al. Distinct lipid profiles predict improved glycemic control in obese, nondiabetic patients after a low-caloric diet intervention: the Diet, Obesity and Genes randomized trial. Am J Clin Nutr 2016 Sep;104(3):566-75. PMID: 27510538
  • Wei YB, Melas PA, Villaescusa JC, Liu JJ et al. MicroRNA 101b Is Downregulated in the Prefrontal Cortex of a Genetic Model of Depression and Targets the Glutamate Transporter SLC1A1 (EAAT3) in Vitro. Int J Neuropsychopharmacol 2016 Dec;19(12). PMID: 27507301
  • Panda K, Ji L, Neumann DA, Daron J et al. Full-length autonomous transposable elements are preferentially targeted by expression-dependent forms of RNA-directed DNA methylation. Genome Biol 2016 Aug 9;17(1):170. PMID: 27506905
  • Platt JL, Salama R, Smythies J, Choudhry H et al. Capture-C reveals preformed chromatin interactions between HIF-binding sites and distant promoters. EMBO Rep 2016 Oct;17(10):1410-1421. PMID: 27506891
  • Wang W, Jiang M, Liu S, Zhang S et al. RNF122 suppresses antiviral type I interferon production by targeting RIG-I CARDs to mediate RIG-I degradation. Proc Natl Acad Sci U S A 2016 Aug 23;113(34):9581-6. PMID: 27506794
  • Karthik D, Stelzer G, Gershanov S, Baranes D et al. Elucidating tissue specific genes using the Benford distribution. BMC Genomics 2016 Aug 9;17:595. PMID: 27506195
  • Westermark POLinking Core Promoter Classes to Circadian Transcription. PLoS Genet 2016 Aug;12(8):e1006231. PMID: 27504829
  • Fattore L, Mancini R, Acunzo M, Romano G et al. miR-579-3p controls melanoma progression and resistance to target therapy. Proc Natl Acad Sci U S A 2016 Aug 23;113(34):E5005-13. PMID: 27503895
  • Zhou M, Zhong L, Xu W, Sun Y et al. Discovery of potential prognostic long non-coding RNA biomarkers for predicting the risk of tumor recurrence of breast cancer patients. Sci Rep 2016 Aug 9;6:31038. PMID: 27503456
  • Zapata I, Serpell JA, Alvarez CE et al. Genetic mapping of canine fear and aggression. BMC Genomics 2016 Aug 8;17:572. PMID: 27503363
  • Giuliani C, Sazzini M, Bacalini MG, Pirazzini C et al. Epigenetic Variability across Human Populations: A Focus on DNA Methylation Profiles of the KRTCAP3, MAD1L1 and BRSK2 Genes. Genome Biol Evol 2016 Sep 19;8(9):2760-73. PMID: 27503294
  • Dumas J, Gargano MA, Dancik GM et al. shinyGEO: a web-based application for analyzing gene expression omnibus datasets. Bioinformatics 2016 Dec 1;32(23):3679-3681. PMID: 27503226
  • Solana J, Irimia M, Ayoub S, Orejuela MR et al. Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians. Elife 2016 Aug 9;5. PMID: 27502555
  • Yang Q, Lin J, Liu M, Li R et al. Highly sensitive sequencing reveals dynamic modifications and activities of small RNAs in mouse oocytes and early embryos. Sci Adv 2016 Jun;2(6):e1501482. PMID: 27500274
  • Chen M, Ren Z, Zhao H, Zhou H et al. Asymptotically Normal and Efficient Estimation of Covariate-Adjusted Gaussian Graphical Model. J Am Stat Assoc 2016 Mar;111(513):394-406. PMID: 27499564
  • Kong Y, Zheng Y, Jia Y, Li P et al. Decreased LIPF expression is correlated with DGKA and predicts poor outcome of gastric cancer. Oncol Rep 2016 Oct;36(4):1852-60. PMID: 27498782
  • Grammer AC, Ryals MM, Heuer SE, Robl RD et al. Drug repositioning in SLE: crowd-sourcing, literature-mining and Big Data analysis. Lupus 2016 Sep;25(10):1150-70. PMID: 27497259
  • Wang DH, Lee HS, Yoon D, Berry G et al. Progression of EGFR-Mutant Lung Adenocarcinoma is Driven By Alveolar Macrophages. Clin Cancer Res 2017 Feb 1;23(3):778-788. PMID: 27496865
  • Zhang HF, Alshareef A, Wu C, Jiao JW et al. miR-200b induces cell cycle arrest and represses cell growth in esophageal squamous cell carcinoma. Carcinogenesis 2016 Sep;37(9):858-869. PMID: 27496804
  • Wang J, Liu Q, Sun J, Shyr Y et al. Disrupted cooperation between transcription factors across diverse cancer types. BMC Genomics 2016 Aug 5;17:560. PMID: 27496222
  • Hu B, Huo Y, Chen G, Yang L et al. Functional prediction of differentially expressed lncRNAs in HSV-1 infected human foreskin fibroblasts. Virol J 2016 Aug 5;13:137. PMID: 27496175
  • Helfrich BA, Kim J, Gao D, Chan DC et al. Barasertib (AZD1152), a Small Molecule Aurora B Inhibitor, Inhibits the Growth of SCLC Cell Lines In Vitro and In Vivo. Mol Cancer Ther 2016 Oct;15(10):2314-2322. PMID: 27496133
  • Su H, Sun T, Wang H, Shi G et al. Decreased TCL6 expression is associated with poor prognosis in patients with clear cell renal cell carcinoma. Oncotarget 2017 Jan 24;8(4):5789-5799. PMID: 27494890
  • Ye YP, Wu P, Gu CC, Deng DL et al. miR-450b-5p induced by oncogenic KRAS is required for colorectal cancer progression. Oncotarget 2016 Sep 20;7(38):61312-61324. PMID: 27494869
  • Croteau-Chonka DC, Qiu W, Martinez FD, Strunk RC et al. Gene Expression Profiling in Blood Provides Reproducible Molecular Insights into Asthma Control. Am J Respir Crit Care Med 2017 Jan 15;195(2):179-188. PMID: 27494826
  • Wang J, Wang Y, Gu W, Ni B et al. Comparative Transcriptome Analysis Reveals Substantial Tissue Specificity in Human Aortic Valve. Evol Bioinform Online 2016;12:175-84. PMID: 27493474
  • Wen Y, Chen F, Zhang Q, Zhuang Y et al. Detection of differentially methylated regions in whole genome bisulfite sequencing data using local Getis-Ord statistics. Bioinformatics 2016 Nov 15;32(22):3396-3404. PMID: 27493194
  • Shi Y, Wu W, Chai Q, Li Q et al. LTβR controls thymic portal endothelial cells for haematopoietic progenitor cell homing and T-cell regeneration. Nat Commun 2016 Aug 5;7:12369. PMID: 27493002
  • Kim E, Hwang S, Lee I et al. SoyNet: a database of co-functional networks for soybean Glycine max. Nucleic Acids Res 2017 Jan 4;45(D1):D1082-D1089. PMID: 27492285
  • Kaiser VB, Taylor MS, Semple CA et al. Mutational Biases Drive Elevated Rates of Substitution at Regulatory Sites across Cancer Types. PLoS Genet 2016 Aug;12(8):e1006207. PMID: 27490693
  • Kim SG, Theera-Ampornpunt N, Fang CH, Harwani M et al. Opening up the blackbox: an interpretable deep neural network-based classifier for cell-type specific enhancer predictions. BMC Syst Biol 2016 Aug 1;10 Suppl 2(Suppl 2):54. PMID: 27490187
  • Sandhu V, Wedge DC, Bowitz Lothe IM, Labori KJ et al. The Genomic Landscape of Pancreatic and Periampullary Adenocarcinoma. Cancer Res 2016 Sep 1;76(17):5092-102. PMID: 27488532
  • Kamikawaji K, Seki N, Watanabe M, Mataki H et al. Regulation of LOXL2 and SERPINH1 by antitumor microRNA-29a in lung cancer with idiopathic pulmonary fibrosis. J Hum Genet 2016 Dec;61(12):985-993. PMID: 27488440
  • Alajez NMSignificance of BMI1 and FSCN1 expression in colorectal cancer. Saudi J Gastroenterol 2016 Jul-Aug;22(4):288-93. PMID: 27488323
  • Yang W, Rosenstiel PC, Schulenburg H et al. ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences. BMC Genomics 2016 Aug 4;17:541. PMID: 27488180
  • He Q, Cai T, Liu Y, Zhao N et al. Prioritizing individual genetic variants after kernel machine testing using variable selection. Genet Epidemiol 2016 Dec;40(8):722-731. PMID: 27488097
  • Bertaut A, Truntzer C, Madkouri R, Kaderbhai CG et al. Blood baseline neutrophil count predicts bevacizumab efficacy in glioblastoma. Oncotarget 2016 Oct 25;7(43):70948-70958. PMID: 27487142
  • Zhou M, Diao Z, Yue X, Chen Y et al. Construction and analysis of dysregulated lncRNA-associated ceRNA network identified novel lncRNA biomarkers for early diagnosis of human pancreatic cancer. Oncotarget 2016 Aug 30;7(35):56383-56394. PMID: 27487139
  • Goto Y, Kurozumi A, Nohata N, Kojima S et al. The microRNA signature of patients with sunitinib failure: regulation of UHRF1 pathways by microRNA-101 in renal cell carcinoma. Oncotarget 2016 Sep 13;7(37):59070-59086. PMID: 27487138
  • Field MG, Durante MA, Decatur CL, Tarlan B et al. Epigenetic reprogramming and aberrant expression of PRAME are associated with increased metastatic risk in Class 1 and Class 2 uveal melanomas. Oncotarget 2016 Sep 13;7(37):59209-59219. PMID: 27486988
  • John A, Vinayan K, Varghese J et al. Achiasmy: Male Fruit Flies Are Not Ready to Mix. Front Cell Dev Biol 2016;4:75. PMID: 27486580
  • Young MR, Craft DL et al. Pathway-Informed Classification System (PICS) for Cancer Analysis Using Gene Expression Data. Cancer Inform 2016;15:151-61. PMID: 27486299
  • Yang Z, Koehler AN, Wang L et al. A Novel Small Molecule Activator of Nuclear Receptor SHP Inhibits HCC Cell Migration via Suppressing Ccl2. Mol Cancer Ther 2016 Oct;15(10):2294-2301. PMID: 27486225
  • Wang J, Tao F, Marowsky NC, Fan C et al. Evolutionary Fates and Dynamic Functionalization of Young Duplicate Genes in Arabidopsis Genomes. Plant Physiol 2016 Sep;172(1):427-40. PMID: 27485883
  • Allhoff M, Seré K, F Pires J, Zenke M et al. Differential peak calling of ChIP-seq signals with replicates with THOR. Nucleic Acids Res 2016 Nov 16;44(20):e153. PMID: 27484474
  • Pedersen CC, Borup R, Fischer-Nielsen A, Mora-Jensen H et al. Changes in Gene Expression during G-CSF-Induced Emergency Granulopoiesis in Humans. J Immunol 2016 Sep 1;197(5):1989-99. PMID: 27481851
  • Boucard-Jourdin M, Kugler D, Endale Ahanda ML, This S et al. β8 Integrin Expression and Activation of TGF-β by Intestinal Dendritic Cells Are Determined by Both Tissue Microenvironment and Cell Lineage. J Immunol 2016 Sep 1;197(5):1968-78. PMID: 27481847
  • Yoldi G, Pellegrini P, Trinidad EM, Cordero A et al. RANK Signaling Blockade Reduces Breast Cancer Recurrence by Inducing Tumor Cell Differentiation. Cancer Res 2016 Oct 1;76(19):5857-5869. PMID: 27480274
  • Pan H, Holbrook JD, Karnani N, Kwoh CK et al. Gene, Environment and Methylation (GEM): a tool suite to efficiently navigate large scale epigenome wide association studies and integrate genotype and interaction between genotype and environment. BMC Bioinformatics 2016 Aug 2;17:299. PMID: 27480116
  • Krishnan A, Zhang R, Yao V, Theesfeld CL et al. Genome-wide prediction and functional characterization of the genetic basis of autism spectrum disorder. Nat Neurosci 2016 Nov;19(11):1454-1462. PMID: 27479844
  • Neaves SR, Millard LA, Tsoka S et al. Using ILP to Identify Pathway Activation Patterns in Systems Biology. Inductive Log Program 2016;9575:137-151. PMID: 27478883
  • Canela A, Sridharan S, Sciascia N, Tubbs A et al. DNA Breaks and End Resection Measured Genome-wide by End Sequencing. Mol Cell 2016 Sep 1;63(5):898-911. PMID: 27477910
  • Pellegrino RM, Boda E, Montarolo F, Boero M et al. Transferrin Receptor 2 Dependent Alterations of Brain Iron Metabolism Affect Anxiety Circuits in the Mouse. Sci Rep 2016 Aug 1;6:30725. PMID: 27477597
  • Chen HR, Sherr DH, Hu Z, DeLisi C et al. A network based approach to drug repositioning identifies plausible candidates for breast cancer and prostate cancer. BMC Med Genomics 2016 Jul 30;9(1):51. PMID: 27475327
  • Han J, Liu S, Zhang Y, Xu Y et al. MiRSEA: Discovering the pathways regulated by dysfunctional MicroRNAs. Oncotarget 2016 Aug 23;7(34):55012-55025. PMID: 27474169
  • Drillon G, Audit B, Argoul F, Arneodo A et al. Evidence of selection for an accessible nucleosomal array in human. BMC Genomics 2016 Jul 29;17:526. PMID: 27472913
  • Chang IW, Li CF, Lin VC, He HL et al. Prognostic Impact of Thrombospodin-2 (THBS2) Overexpression on Patients with Urothelial Carcinomas of Upper Urinary Tracts and Bladders. J Cancer 2016;7(11):1541-9. PMID: 27471570
  • Vidal-Bralo L, Lopez-Golan Y, Gonzalez A et al. Simplified Assay for Epigenetic Age Estimation in Whole Blood of Adults. Front Genet 2016;7:126. PMID: 27471517
  • Wang H, Horbinski C, Wu H, Liu Y et al. NanoStringDiff: a novel statistical method for differential expression analysis based on NanoString nCounter data. Nucleic Acids Res 2016 Nov 16;44(20):e151. PMID: 27471031
  • Perisic Matic L, Rykaczewska U, Razuvaev A, Sabater-Lleal M et al. Phenotypic Modulation of Smooth Muscle Cells in Atherosclerosis Is Associated With Downregulation of LMOD1, SYNPO2, PDLIM7, PLN, and SYNM. Arterioscler Thromb Vasc Biol 2016 Sep;36(9):1947-61. PMID: 27470516
  • Derr A, Yang C, Zilionis R, Sergushichev A et al. End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data. Genome Res 2016 Oct;26(10):1397-1410. PMID: 27470110
  • Li Q, Yuan W, Wang X, Liu Y et al. Retraction: 'A pair of transposon-derived proteins regulate active DNA demethylation in Arabidopsis'. EMBO J 2016 Sep 15;35(18):2060. PMID: 27470001
  • Cockburn JG, Hallett RM, Gillgrass AE, Dias KN et al. The effects of lymph node status on predicting outcome in ER+ /HER2- tamoxifen treated breast cancer patients using gene signatures. BMC Cancer 2016 Jul 28;16:555. PMID: 27469239
  • Patharkar OR, Walker JC et al. Core Mechanisms Regulating Developmentally Timed and Environmentally Triggered Abscission. Plant Physiol 2016 Sep;172(1):510-20. PMID: 27468996
  • Sung MK, Jang J, Lee KS, Ghim CM et al. Selected heterozygosity at cis-regulatory sequences increases the expression homogeneity of a cell population in humans. Genome Biol 2016 Jul 28;17(1):164. PMID: 27468897
  • Liu SL, Sui YF, Lin MZ et al. MiR-375 is epigenetically downregulated due to promoter methylation and modulates multi-drug resistance in breast cancer cells via targeting YBX1. Eur Rev Med Pharmacol Sci 2016 Jul;20(15):3223-9. PMID: 27466996
  • Bernig T, Ritz S, Brodt G, Volkmer I et al. Glutathione-S-transferases and Chemotherapy Resistance of Hodgkin's Lymphoma Cell Lines. Anticancer Res 2016 Aug;36(8):3905-15. PMID: 27466493
  • Zhang Y, Sriraman SK, Kenny HA, Luther E et al. Reversal of Chemoresistance in Ovarian Cancer by Co-Delivery of a P-Glycoprotein Inhibitor and Paclitaxel in a Liposomal Platform. Mol Cancer Ther 2016 Oct;15(10):2282-2293. PMID: 27466355
  • Rawlik K, Rowlatt A, Tenesa A et al. Imputation of DNA Methylation Levels in the Brain Implicates a Risk Factor for Parkinson's Disease. Genetics 2016 Oct;204(2):771-781. PMID: 27466229
  • Zhang XL, Wu J, Wang J, Shen T et al. Integrative epigenomic analysis reveals unique epigenetic signatures involved in unipotency of mouse female germline stem cells. Genome Biol 2016 Jul 27;17(1):162. PMID: 27465593
  • Marceau AH, Felthousen JG, Goetsch PD, Iness AN et al. Structural basis for LIN54 recognition of CHR elements in cell cycle-regulated promoters. Nat Commun 2016 Jul 28;7:12301. PMID: 27465258
  • Maeda K, Ma X, Chalajour F, Hanley FL et al. Critical Role of Coaptive Strain in Aortic Valve Leaflet Homeostasis: Use of a Novel Flow Culture Bioreactor to Explore Heart Valve Mechanobiology. J Am Heart Assoc 2016 Jul 27;5(8). PMID: 27464792
  • Dorand RD, Nthale J, Myers JT, Barkauskas DS et al. Cdk5 disruption attenuates tumor PD-L1 expression and promotes antitumor immunity. Science 2016 Jul 22;353(6297):399-403. PMID: 27463676
  • Colombo M, Galletti S, Bulfamante G, Falleni M et al. Multiple myeloma-derived Jagged ligands increases autocrine and paracrine interleukin-6 expression in bone marrow niche. Oncotarget 2016 Aug 30;7(35):56013-56029. PMID: 27463014
  • Thakurela S, Tiwari N, Schick S, Garding A et al. Mapping gene regulatory circuitry of Pax6 during neurogenesis. Cell Discov 2016;2:15045. PMID: 27462442
  • Lysenko A, Roznovăţ IA, Saqi M, Mazein A et al. Representing and querying disease networks using graph databases. BioData Min 2016;9:23. PMID: 27462371
  • Zhang K, Li N, Ainsworth RI, Wang W et al. Systematic identification of protein combinations mediating chromatin looping. Nat Commun 2016 Jul 27;7:12249. PMID: 27461729
  • Lorenzin F, Benary U, Baluapuri A, Walz S et al. Different promoter affinities account for specificity in MYC-dependent gene regulation. Elife 2016 Jul 27;5. PMID: 27460974
  • Stevens JR, Kearney ML, St-Onge MP, Stanhope KL et al. Inverse association between carbohydrate consumption and plasma adropin concentrations in humans. Obesity (Silver Spring) 2016 Aug;24(8):1731-40. PMID: 27460714
  • Fan ZY, Liu W, Yan C, Zhu ZL et al. Identification of a five-lncRNA signature for the diagnosis and prognosis of gastric cancer. Tumour Biol 2016 Oct;37(10):13265-13277. PMID: 27460075
  • Hossain M, Stillman B et al. Opposing roles for DNA replication initiator proteins ORC1 and CDC6 in control of Cyclin E gene transcription. Elife 2016 Jul 26;5. PMID: 27458800
  • Chen J, Qian Z, Li F, Li J et al. Integrative Analysis of Microarray Data to Reveal Regulation Patterns in the Pathogenesis of Hepatocellular Carcinoma. Gut Liver 2017 Jan 15;11(1):112-120. PMID: 27458175
  • Zhang Y, Li X, Li J, Hu H et al. Human hemokinin-1 promotes migration of melanoma cells and increases MMP-2 and MT1-MMP expression by activating tumor cell NK1 receptors. Peptides 2016 Sep;83:8-15. PMID: 27458061
  • Jia M, Andreassen T, Jensen L, Bathen TF et al. Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism. Cancer Res 2016 Oct 1;76(19):5634-5646. PMID: 27457520
  • Nelson DM, Jaber-Hijazi F, Cole JJ, Robertson NA et al. Mapping H4K20me3 onto the chromatin landscape of senescent cells indicates a function in control of cell senescence and tumor suppression through preservation of genetic and epigenetic stability. Genome Biol 2016 Jul 25;17(1):158. PMID: 27457071
  • Chen Y, Pai AA, Herudek J, Lubas M et al. Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters. Nat Genet 2016 Sep;48(9):984-94. PMID: 27455346
  • Sticca T, Caberg JH, Wenric S, Poulet C et al. Genomic studies of multiple myeloma reveal an association between X chromosome alterations and genomic profile complexity. Genes Chromosomes Cancer 2017 Jan;56(1):18-27. PMID: 27454822
  • Joe S, Nam H et al. Prognostic factor analysis for breast cancer using gene expression profiles. BMC Med Inform Decis Mak 2016 Jul 18;16 Suppl 1(Suppl 1):56. PMID: 27454576
  • Kent LN, Rakijas JB, Pandit SK, Westendorp B et al. E2f8 mediates tumor suppression in postnatal liver development. J Clin Invest 2016 Aug 1;126(8):2955-69. PMID: 27454291
  • Visakh R, Abdul Nazeer KA et al. Identifying epigenetically dysregulated pathways from pathway-pathway interaction networks. Comput Biol Med 2016 Sep 1;76:160-7. PMID: 27454244
  • Kong FY, Wei X, Zhou K, Hu W et al. Bioinformatics Analysis Reveals Distinct Molecular Characteristics of Hepatitis B-Related Hepatocellular Carcinomas from Very Early to Advanced Barcelona Clinic Liver Cancer Stages. PLoS One 2016;11(7):e0158286. PMID: 27454179
  • O'Connell PJ, Zhang W, Menon MC, Yi Z et al. Biopsy transcriptome expression profiling to identify kidney transplants at risk of chronic injury: a multicentre, prospective study. Lancet 2016 Sep 3;388(10048):983-93. PMID: 27452608
  • Wu Y, Yao YG, Luo XJ et al. SZDB: A Database for Schizophrenia Genetic Research. Schizophr Bull 2017 Mar 1;43(2):459-471. PMID: 27451428
  • Yuan S, Wang J, Yang Y, Zhang J et al. The Prediction of Clinical Outcome in Hepatocellular Carcinoma Based on a Six-Gene Metastasis Signature. Clin Cancer Res 2017 Jan 1;23(1):289-297. PMID: 27449498
  • Li Y, Shi X, Yang W, Lu Z et al. Transcriptome profiling of lncRNA and co-expression networks in esophageal squamous cell carcinoma by RNA sequencing. Tumour Biol 2016 Oct;37(10):13091-13100. PMID: 27449043
  • Kirschner A, Thiede M, Blaeschke F, Richter GH et al. Lysosome-associated membrane glycoprotein 1 predicts fratricide amongst T cell receptor transgenic CD8+ T cells directed against tumor-associated antigens. Oncotarget 2016 Aug 30;7(35):56584-56597. PMID: 27447745
  • Zhang L, Wang L, Du B, Wang T et al. Classification of Non-Small Cell Lung Cancer Using Significance Analysis of Microarray-Gene Set Reduction Algorithm. Biomed Res Int 2016;2016:2491671. PMID: 27446945
  • Han R, Huang S, Bao Y, Liu X et al. Upregulation of SOX4 antagonizes cellular senescence in esophageal squamous cell carcinoma. Oncol Lett 2016 Aug;12(2):1367-1372. PMID: 27446439
  • Liu F, Du J, Liu J, Wen B et al. Identification of key target genes and pathways in laryngeal carcinoma. Oncol Lett 2016 Aug;12(2):1279-1286. PMID: 27446427
  • Zheng T, Zhang X, Wang Y, Yu X et al. Predicting associations between microRNAs and target genes in breast cancer by bioinformatics analyses. Oncol Lett 2016 Aug;12(2):1067-1073. PMID: 27446395
  • Wang G, Li Z, Tian N, Han L et al. miR-148b-3p inhibits malignant biological behaviors of human glioma cells induced by high HOTAIR expression. Oncol Lett 2016 Aug;12(2):879-886. PMID: 27446363
  • Staege MSGene Expression Music Algorithm-Based Characterization of the Ewing Sarcoma Stem Cell Signature. Stem Cells Int 2016;2016:7674824. PMID: 27446218
  • Lim J, Lee M, Son A, Chang H et al. mTAIL-seq reveals dynamic poly(A) tail regulation in oocyte-to-embryo development. Genes Dev 2016 Jul 15;30(14):1671-82. PMID: 27445395
  • Mayr A, Hofner B, Schmid M et al. Boosting the discriminatory power of sparse survival models via optimization of the concordance index and stability selection. BMC Bioinformatics 2016 Jul 22;17:288. PMID: 27444890
  • Lao T, Jiang Z, Yun J, Qiu W et al. Hhip haploinsufficiency sensitizes mice to age-related emphysema. Proc Natl Acad Sci U S A 2016 Aug 9;113(32):E4681-7. PMID: 27444019
  • Ai L, Wang X, Chen Z, Lin Q et al. A20 reduces lipid storage and inflammation in hypertrophic adipocytes via p38 and Akt signaling. Mol Cell Biochem 2016 Sep;420(1-2):73-83. PMID: 27443844
  • Donato E, Croci O, Sabò A, Muller H et al. Compensatory RNA polymerase 2 loading determines the efficacy and transcriptional selectivity of JQ1 in Myc-driven tumors. Leukemia 2017 Feb;31(2):479-490. PMID: 27443262
  • Kludas J, Arvas M, Castillo S, Pakula T et al. Machine Learning of Protein Interactions in Fungal Secretory Pathways. PLoS One 2016;11(7):e0159302. PMID: 27441920
  • Satagopam V, Gu W, Eifes S, Gawron P et al. Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases. Big Data 2016 Jun;4(2):97-108. PMID: 27441714
  • Paíno T, Garcia-Gomez A, González-Méndez L, San-Segundo L et al. The Novel Pan-PIM Kinase Inhibitor, PIM447, Displays Dual Antimyeloma and Bone-Protective Effects, and Potently Synergizes with Current Standards of Care. Clin Cancer Res 2017 Jan 1;23(1):225-238. PMID: 27440267
  • Fan Y, Wang YF, Su HF, Fang N et al. Decreased expression of the long noncoding RNA LINC00261 indicate poor prognosis in gastric cancer and suppress gastric cancer metastasis by affecting the epithelial-mesenchymal transition. J Hematol Oncol 2016 Jul 21;9(1):57. PMID: 27439973
  • Jiang T, Raviram R, Snetkova V, Rocha PP et al. Identification of multi-loci hubs from 4C-seq demonstrates the functional importance of simultaneous interactions. Nucleic Acids Res 2016 Oct 14;44(18):8714-8725. PMID: 27439714
  • Tramantano M, Sun L, Au C, Labuz D et al. Constitutive turnover of histone H2A.Z at yeast promoters requires the preinitiation complex. Elife 2016 Jul 20;5. PMID: 27438412
  • Kojima Y, Volkmer JP, McKenna K, Civelek M et al. CD47-blocking antibodies restore phagocytosis and prevent atherosclerosis. Nature 2016 Aug 4;536(7614):86-90. PMID: 27437576
  • Chen M, Xu J, Devis D, Shi J et al. Origin and Functional Prediction of Pollen Allergens in Plants. Plant Physiol 2016 Sep;172(1):341-57. PMID: 27436829
  • Chen YK, Tung CW, Lee JY, Hung YC et al. Plasma matrix metalloproteinase 1 improves the detection and survival prediction of esophageal squamous cell carcinoma. Sci Rep 2016 Jul 20;6:30057. PMID: 27436512
  • Gordon EJ, Fukuhara D, Weström S, Padhan N et al. The endothelial adaptor molecule TSAd is required for VEGF-induced angiogenic sprouting through junctional c-Src activation. Sci Signal 2016 Jul 19;9(437):ra72. PMID: 27436360
  • Yang X, Gao L, Zhang S et al. Comparative pan-cancer DNA methylation analysis reveals cancer common and specific patterns. Brief Bioinform 2017 Sep 1;18(5):761-773. PMID: 27436122
  • Richard AC, Peters JE, Lee JC, Vahedi G et al. Targeted genomic analysis reveals widespread autoimmune disease association with regulatory variants in the TNF superfamily cytokine signalling network. Genome Med 2016 Jul 19;8(1):76. PMID: 27435189
  • Gordon ED, Simpson LJ, Rios CL, Ringel L et al. Alternative splicing of interleukin-33 and type 2 inflammation in asthma. Proc Natl Acad Sci U S A 2016 Aug 2;113(31):8765-70. PMID: 27432971
  • Uosaki H, Taguchi YH et al. Comparative Gene Expression Analysis of Mouse and Human Cardiac Maturation. Genomics Proteomics Bioinformatics 2016 Aug;14(4):207-15. PMID: 27431744
  • Zhu L, Tian G, Yang Q, De G et al. Thyroid hormone receptor β1 suppresses proliferation and migration by inhibiting PI3K/Akt signaling in human colorectal cancer cells. Oncol Rep 2016 Sep;36(3):1419-26. PMID: 27431682
  • Thomas RS, Henson A, Gerrish A, Jones L et al. Decreasing the expression of PICALM reduces endocytosis and the activity of β-secretase: implications for Alzheimer's disease. BMC Neurosci 2016 Jul 18;17(1):50. PMID: 27430330
  • Wu YY, Chang CL, Chuang YJ, Wu JE et al. CASZ1 is a novel promoter of metastasis in ovarian cancer. Am J Cancer Res 2016;6(6):1253-70. PMID: 27429842
  • Madan M, Patel A, Skruber K, Geerts D et al. ATP13A3 and caveolin-1 as potential biomarkers for difluoromethylornithine-based therapies in pancreatic cancers. Am J Cancer Res 2016;6(6):1231-52. PMID: 27429841
  • Krueger F, Andrews SR et al. SNPsplit: Allele-specific splitting of alignments between genomes with known SNP genotypes. F1000Res 2016;5:1479. PMID: 27429743
  • Ju CJ, Zhao Z, Wang W et al. Efficient Approach to Correct Read Alignment for Pseudogene Abundance Estimates. IEEE/ACM Trans Comput Biol Bioinform 2017 May-Jun;14(3):522-533. PMID: 27429446
  • Ho R, Sances S, Gowing G, Amoroso MW et al. ALS disrupts spinal motor neuron maturation and aging pathways within gene co-expression networks. Nat Neurosci 2016 Sep;19(9):1256-67. PMID: 27428653
  • Plaisier CL, O'Brien S, Bernard B, Reynolds S et al. Causal Mechanistic Regulatory Network for Glioblastoma Deciphered Using Systems Genetics Network Analysis. Cell Syst 2016 Aug;3(2):172-186. PMID: 27426982
  • Sharma S, Xing F, Liu Y, Wu K et al. Secreted Protein Acidic and Rich in Cysteine (SPARC) Mediates Metastatic Dormancy of Prostate Cancer in Bone. J Biol Chem 2016 Sep 9;291(37):19351-63. PMID: 27422817
  • Spengler RM, Zhang X, Cheng C, McLendon JM et al. Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP. Nucleic Acids Res 2016 Sep 6;44(15):7120-31. PMID: 27418678
  • Jo BS, Koh IU, Bae JB, Yu HY et al. Methylome analysis reveals alterations in DNA methylation in the regulatory regions of left ventricle development genes in human dilated cardiomyopathy. Genomics 2016 Aug;108(2):84-92. PMID: 27417303
  • Liu Z, Gui T, Wang Z, Li H et al. cisASE: a likelihood-based method for detecting putative cis-regulated allele-specific expression in RNA sequencing data. Bioinformatics 2016 Nov 1;32(21):3291-3297. PMID: 27412088
  • Höckendorf U, Yabal M, Herold T, Munkhbaatar E et al. RIPK3 Restricts Myeloid Leukemogenesis by Promoting Cell Death and Differentiation of Leukemia Initiating Cells. Cancer Cell 2016 Jul 11;30(1):75-91. PMID: 27411587
  • O'Grady T, Wang X, Höner Zu Bentrup K, Baddoo M et al. Global transcript structure resolution of high gene density genomes through multi-platform data integration. Nucleic Acids Res 2016 Oct 14;44(18):e145. PMID: 27407110
  • Zhang JX, Chen ZH, Xu Y, Chen JW et al. Downregulation of MicroRNA-644a Promotes Esophageal Squamous Cell Carcinoma Aggressiveness and Stem Cell-like Phenotype via Dysregulation of PITX2. Clin Cancer Res 2017 Jan 1;23(1):298-310. PMID: 27407092
  • Liu P, Sanalkumar R, Bresnick EH, Keleş S et al. Integrative analysis with ChIP-seq advances the limits of transcript quantification from RNA-seq. Genome Res 2016 Aug;26(8):1124-33. PMID: 27405803
  • Sakurai K, Kurtz A, Stacey G, Sheldon M et al. First Proposal of Minimum Information About a Cellular Assay for Regenerative Medicine. Stem Cells Transl Med 2016 Oct;5(10):1345-1361. PMID: 27405781
  • Tao Y, van Peer AF, Huang Q, Shao Y et al. Identification of novel and robust internal control genes from Volvariella volvacea that are suitable for RT-qPCR in filamentous fungi. Sci Rep 2016 Jul 12;6:29236. PMID: 27405087
  • Peng P, Wu W, Zhao J, Song S et al. Decreased expression of Calpain-9 predicts unfavorable prognosis in patients with gastric cancer. Sci Rep 2016 Jul 12;6:29604. PMID: 27404891
  • Rojo F, González-Pérez A, Furriol J, Nicolau MJ et al. Non-canonical NF-κB pathway activation predicts outcome in borderline oestrogen receptor positive breast carcinoma. Br J Cancer 2016 Jul 26;115(3):322-31. PMID: 27404455
  • Homs A, Codina-Solà M, Rodríguez-Santiago B, Villanueva CM et al. Genetic and epigenetic methylation defects and implication of the ERMN gene in autism spectrum disorders. Transl Psychiatry 2016 Jul 12;6(7):e855. PMID: 27404287
  • Xu G, Li K, Zhang N, Zhu B et al. Screening Driving Transcription Factors in the Processing of Gastric Cancer. Gastroenterol Res Pract 2016;2016:8431480. PMID: 27403158
  • Orman-Ligeza B, Parizot B, de Rycke R, Fernandez A et al. RBOH-mediated ROS production facilitates lateral root emergence in Arabidopsis. Development 2016 Sep 15;143(18):3328-39. PMID: 27402709
  • Sritharan MIron Homeostasis in Mycobacterium tuberculosis: Mechanistic Insights into Siderophore-Mediated Iron Uptake. J Bacteriol 2016 Sep 15;198(18):2399-409. PMID: 27402628
  • Strong MJ, Blanchard E 4th, Lin Z, Morris CA et al. A comprehensive next generation sequencing-based virome assessment in brain tissue suggests no major virus - tumor association. Acta Neuropathol Commun 2016 Jul 11;4(1):71. PMID: 27402152
  • D'Ippolito E, Plantamura I, Bongiovanni L, Casalini P et al. miR-9 and miR-200 Regulate PDGFRβ-Mediated Endothelial Differentiation of Tumor Cells in Triple-Negative Breast Cancer. Cancer Res 2016 Sep 15;76(18):5562-72. PMID: 27402080
  • Rowe RG, Wang LD, Coma S, Han A et al. Developmental regulation of myeloerythroid progenitor function by the Lin28b-let-7-Hmga2 axis. J Exp Med 2016 Jul 25;213(8):1497-512. PMID: 27401346
  • Horikawa N, Abiko K, Matsumura N, Hamanishi J et al. Expression of Vascular Endothelial Growth Factor in Ovarian Cancer Inhibits Tumor Immunity through the Accumulation of Myeloid-Derived Suppressor Cells. Clin Cancer Res 2017 Jan 15;23(2):587-599. PMID: 27401249
  • De Robertis M, Loiacono L, Fusilli C, Poeta ML et al. Dysregulation of EGFR Pathway in EphA2 Cell Subpopulation Significantly Associates with Poor Prognosis in Colorectal Cancer. Clin Cancer Res 2017 Jan 1;23(1):159-170. PMID: 27401248
  • Li ZW, Chen X, Wu Q, Hagmann J et al. On the Origin of De Novo Genes in Arabidopsis thaliana Populations. Genome Biol Evol 2016 Aug 3;8(7):2190-202. PMID: 27401176
  • Loo SY, Hirpara JL, Pandey V, Tan TZ et al. Manganese Superoxide Dismutase Expression Regulates the Switch Between an Epithelial and a Mesenchymal-Like Phenotype in Breast Carcinoma. Antioxid Redox Signal 2016 Aug 20;25(6):283-99. PMID: 27400860
  • Morris DL, Sheng Y, Zhang Y, Wang YF et al. Genome-wide association meta-analysis in Chinese and European individuals identifies ten new loci associated with systemic lupus erythematosus. Nat Genet 2016 Aug;48(8):940-946. PMID: 27399966
  • Xu HX, Wu KJ, Tian YJ, Liu Q et al. Expression profile of SIX family members correlates with clinic-pathological features and prognosis of breast cancer: A systematic review and meta-analysis. Medicine (Baltimore) 2016 Jul;95(27):e4085. PMID: 27399099
  • Qu W, Ding SM, Cao G, Wang SJ et al. miR-132 mediates a metabolic shift in prostate cancer cells by targeting Glut1. FEBS Open Bio 2016 Jul;6(7):735-41. PMID: 27398313
  • George J, Uyar A, Young K, Kuffler L et al. Leukaemia cell of origin identified by chromatin landscape of bulk tumour cells. Nat Commun 2016 Jul 11;7:12166. PMID: 27397025
  • Zhao S, Bai N, Cui J, Xiang R et al. Prediction of survival of diffuse large B-cell lymphoma patients via the expression of three inflammatory genes. Cancer Med 2016 Aug;5(8):1950-61. PMID: 27394196
  • Iyappan A, Kawalia SB, Raschka T, Hofmann-Apitius M et al. NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease. J Biomed Semantics 2016 Jul 8;7:45. PMID: 27392431
  • Gong L, Song J, Lin X, Wei F et al. Serine-arginine protein kinase 1 promotes a cancer stem cell-like phenotype through activation of Wnt/β-catenin signalling in NSCLC. J Pathol 2016 Oct;240(2):184-96. PMID: 27391422
  • Luce LN, Abbate M, Cotignola J, Giliberto F et al. Non-myogenic tumors display altered expression of dystrophin (DMD) and a high frequency of genetic alterations. Oncotarget 2017 Jan 3;8(1):145-155. PMID: 27391342
  • Huang MD, Chen WM, Qi FZ, Xia R et al. Long non-coding RNA ANRIL is upregulated in hepatocellular carcinoma and regulates cell proliferation by epigenetic silencing of KLF2. J Hematol Oncol 2015 May 29;8(1):57. PMID: 27391317
  • Fang S, Xu C, Zhang Y, Xue C et al. Umbilical Cord-Derived Mesenchymal Stem Cell-Derived Exosomal MicroRNAs Suppress Myofibroblast Differentiation by Inhibiting the Transforming Growth Factor-β/SMAD2 Pathway During Wound Healing. Stem Cells Transl Med 2016 Oct;5(10):1425-1439. PMID: 27388239
  • Mei ZZ, Chen XY, Hu SW, Wang N et al. Kelch-like Protein 21 (KLHL21) Targets IκB Kinase-β to Regulate Nuclear Factor κ-Light Chain Enhancer of Activated B Cells (NF-κB) Signaling Negatively. J Biol Chem 2016 Aug 26;291(35):18176-89. PMID: 27387502
  • Singhal H, Greene ME, Tarulli G, Zarnke AL et al. Genomic agonism and phenotypic antagonism between estrogen and progesterone receptors in breast cancer. Sci Adv 2016 Jun;2(6):e1501924. PMID: 27386569
  • Lee YJ, Starrett GJ, Lee ST, Yang R et al. Lineage-Specific Effector Signatures of Invariant NKT Cells Are Shared amongst γδ T, Innate Lymphoid, and Th Cells. J Immunol 2016 Aug 15;197(4):1460-70. PMID: 27385777
  • Yang W, Cho H, Shin HY, Chung JY et al. Accumulation of cytoplasmic Cdk1 is associated with cancer growth and survival rate in epithelial ovarian cancer. Oncotarget 2016 Aug 2;7(31):49481-49497. PMID: 27385216
  • Zhang W, Lv Y, Xue Y, Wu C et al. Co-expression modules of NF1, PTEN and sprouty enable distinction of adult diffuse gliomas according to pathway activities of receptor tyrosine kinases. Oncotarget 2016 Sep 13;7(37):59098-59114. PMID: 27385209
  • Sweeney TE, Wong HR, Khatri P et al. Robust classification of bacterial and viral infections via integrated host gene expression diagnostics. Sci Transl Med 2016 Jul 6;8(346):346ra91. PMID: 27384347
  • Thakur J, Henikoff S et al. CENPT bridges adjacent CENPA nucleosomes on young human α-satellite dimers. Genome Res 2016 Sep;26(9):1178-87. PMID: 27384170
  • Taminiau A, Draime A, Tys J, Lambert B et al. HOXA1 binds RBCK1/HOIL-1 and TRAF2 and modulates the TNF/NF-κB pathway in a transcription-independent manner. Nucleic Acids Res 2016 Sep 6;44(15):7331-49. PMID: 27382069
  • Gruber AJ, Schmidt R, Gruber AR, Martin G et al. A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation. Genome Res 2016 Aug;26(8):1145-59. PMID: 27382025
  • Kaltdorf M, Srivastava M, Gupta SK, Liang C et al. Systematic Identification of Anti-Fungal Drug Targets by a Metabolic Network Approach. Front Mol Biosci 2016;3:22. PMID: 27379244
  • Iuliano A, Occhipinti A, Angelini C, De Feis I et al. Cancer Markers Selection Using Network-Based Cox Regression: A Methodological and Computational Practice. Front Physiol 2016;7:208. PMID: 27378931
  • Sasagawa S, Nishimura Y, Okabe S, Murakami S et al. Downregulation of GSTK1 Is a Common Mechanism Underlying Hypertrophic Cardiomyopathy. Front Pharmacol 2016;7:162. PMID: 27378925
  • Milevskiy MJ, Al-Ejeh F, Saunus JM, Northwood KS et al. Long-range regulators of the lncRNA HOTAIR enhance its prognostic potential in breast cancer. Hum Mol Genet 2016 Aug 1;25(15):3269-3283. PMID: 27378691
  • Clancy T, Hovig E et al. Profiling networks of distinct immune-cells in tumors. BMC Bioinformatics 2016 Jul 4;17(1):263. PMID: 27377892
  • Hohmann AF, Martin LJ, Minder JL, Roe JS et al. Sensitivity and engineered resistance of myeloid leukemia cells to BRD9 inhibition. Nat Chem Biol 2016 Sep;12(9):672-9. PMID: 27376689
  • Snijders AM, Mao JH et al. Co-Expression Network Analysis of Fbxw7-Associated LncRNAs Reveals Their Functions in Radiation-Induced Thymic Lymphoma. Insights Cancer Res 2016;1:1-5. PMID: 27376155
  • Bhat A, Mokou M, Zoidakis J, Jankowski V et al. BcCluster: A Bladder Cancer Database at the Molecular Level. Bladder Cancer 2016 Jan 7;2(1):65-76. PMID: 27376128
  • Bonnet M, Tournayre J, Cassar-Malek I et al. Integrated data mining of transcriptomic and proteomic datasets to predict the secretome of adipose tissue and muscle in ruminants. Mol Biosyst 2016 Aug 16;12(9):2722-34. PMID: 27374837
  • Grunin M, Hagbi-Levi S, Rinsky B, Smith Y et al. Transcriptome Analysis on Monocytes from Patients with Neovascular Age-Related Macular Degeneration. Sci Rep 2016 Jul 4;6:29046. PMID: 27374485
  • Tan L, Song X, Sun X, Wang N et al. ART3 regulates triple-negative breast cancer cell function via activation of Akt and ERK pathways. Oncotarget 2016 Jul 19;7(29):46589-46602. PMID: 27374177
  • Rouillard AD, Gundersen GW, Fernandez NF, Wang Z et al. The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. Database (Oxford) 2016;2016. PMID: 27374120
  • Jaakkola MK, Seyednasrollah F, Mehmood A, Elo LL et al. Comparison of methods to detect differentially expressed genes between single-cell populations. Brief Bioinform 2017 Sep 1;18(5):735-743. PMID: 27373736
  • Che D, Wang Y, Bai W, Li L et al. Dynamic and modular gene regulatory networks drive the development of gametogenesis. Brief Bioinform 2017 Jul 1;18(4):712-721. PMID: 27373733
  • Ni T, Yang W, Han M, Zhang Y et al. Global intron retention mediated gene regulation during CD4+ T cell activation. Nucleic Acids Res 2016 Aug 19;44(14):6817-29. PMID: 27369383
  • Hu Z, Mao JH, Curtis C, Huang G et al. Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer. Breast Cancer Res 2016 Jul 1;18(1):70. PMID: 27368372
  • Shiihashi G, Ito D, Yagi T, Nihei Y et al. Mislocated FUS is sufficient for gain-of-toxic-function amyotrophic lateral sclerosis phenotypes in mice. Brain 2016 Sep;139(Pt 9):2380-94. PMID: 27368346
  • Shi H, Zhang G, Wang J, Wang Z et al. Studying Dynamic Features in Myocardial Infarction Progression by Integrating miRNA-Transcription Factor Co-Regulatory Networks and Time-Series RNA Expression Data from Peripheral Blood Mononuclear Cells. PLoS One 2016;11(7):e0158638. PMID: 27367417
  • Zhang XO, Dong R, Zhang Y, Zhang JL et al. Diverse alternative back-splicing and alternative splicing landscape of circular RNAs. Genome Res 2016 Sep;26(9):1277-87. PMID: 27365365
  • Rodor J, Pan Q, Blencowe BJ, Eyras E et al. The RNA-binding profile of Acinus, a peripheral component of the exon junction complex, reveals its role in splicing regulation. RNA 2016 Sep;22(9):1411-26. PMID: 27365209
  • Pedersen EA, Menon R, Bailey KM, Thomas DG et al. Activation of Wnt/β-Catenin in Ewing Sarcoma Cells Antagonizes EWS/ETS Function and Promotes Phenotypic Transition to More Metastatic Cell States. Cancer Res 2016 Sep 1;76(17):5040-53. PMID: 27364557
  • Xing F, Liu Y, Sharma S, Wu K et al. Activation of the c-Met Pathway Mobilizes an Inflammatory Network in the Brain Microenvironment to Promote Brain Metastasis of Breast Cancer. Cancer Res 2016 Sep 1;76(17):4970-80. PMID: 27364556
  • Cheng CT, Kuo CY, Ouyang C, Li CF et al. Metabolic Stress-Induced Phosphorylation of KAP1 Ser473 Blocks Mitochondrial Fusion in Breast Cancer Cells. Cancer Res 2016 Sep 1;76(17):5006-18. PMID: 27364555
  • Fournier P, Dussault S, Fusco A, Rivard A et al. Tyrosine Phosphatase PTPRJ/DEP-1 Is an Essential Promoter of Vascular Permeability, Angiogenesis, and Tumor Progression. Cancer Res 2016 Sep 1;76(17):5080-91. PMID: 27364551
  • von Heyking K, Roth L, Ertl M, Schmidt O et al. The posterior HOXD locus: Its contribution to phenotype and malignancy of Ewing sarcoma. Oncotarget 2016 Jul 5;7(27):41767-41780. PMID: 27363011
  • Kaliszczak M, Trousil S, Ali T, Aboagye EO et al. AKT activation controls cell survival in response to HDAC6 inhibition. Cell Death Dis 2016 Jun 30;7(6):e2286. PMID: 27362804
  • Pruksananonda K, Wasinarom A, Sereepapong W, Sirayapiwat P et al. Epigenetic modification of long interspersed elements-1 in cumulus cells of mature and immature oocytes from patients with polycystic ovary syndrome. Clin Exp Reprod Med 2016 Jun;43(2):82-9. PMID: 27358825
  • Faulk C, Kim JH, Jones TR, McEachin RC et al. Bisphenol A-associated alterations in genome-wide DNA methylation and gene expression patterns reveal sequence-dependent and non-monotonic effects in human fetal liver. Environ Epigenet 2015 Dec;1(1). PMID: 27358748
  • Dama E, Melocchi V, Dezi F, Pirroni S et al. An Aggressive Subtype of Stage I Lung Adenocarcinoma with Molecular and Prognostic Characteristics Typical of Advanced Lung Cancers. Clin Cancer Res 2017 Jan 1;23(1):62-72. PMID: 27358486
  • Rinschen MM, Schroeter CB, Koehler S, Ising C et al. Quantitative deep mapping of the cultured podocyte proteome uncovers shifts in proteostatic mechanisms during differentiation. Am J Physiol Cell Physiol 2016 Sep 1;311(3):C404-17. PMID: 27357545
  • Chen J, Schlitzer A, Chakarov S, Ginhoux F et al. Mpath maps multi-branching single-cell trajectories revealing progenitor cell progression during development. Nat Commun 2016 Jun 30;7:11988. PMID: 27356503
  • Yonemori M, Seki N, Yoshino H, Matsushita R et al. Dual tumor-suppressors miR-139-5p and miR-139-3p targeting matrix metalloprotease 11 in bladder cancer. Cancer Sci 2016 Sep;107(9):1233-42. PMID: 27355528
  • Ducreux J, Houssiau FA, Vandepapelière P, Jorgensen C et al. Interferon α kinoid induces neutralizing anti-interferon α antibodies that decrease the expression of interferon-induced and B cell activation associated transcripts: analysis of extended follow-up data from the interferon α kinoid phase I/II study. Rheumatology (Oxford) 2016 Oct;55(10):1901-5. PMID: 27354683
  • Girard L, Rodriguez-Canales J, Behrens C, Thompson DM et al. An Expression Signature as an Aid to the Histologic Classification of Non-Small Cell Lung Cancer. Clin Cancer Res 2016 Oct 1;22(19):4880-4889. PMID: 27354471
  • Barras D, Missiaglia E, Wirapati P, Sieber OM et al. BRAF V600E Mutant Colorectal Cancer Subtypes Based on Gene Expression. Clin Cancer Res 2017 Jan 1;23(1):104-115. PMID: 27354468
  • Zhang Y, Tang J, Yang N, Liu Q et al. FAT10 Is Critical in Influenza A Virus Replication by Inhibiting Type I IFN. J Immunol 2016 Aug 1;197(3):824-33. PMID: 27354218
  • Luo T, Ji WJ, Yuan F, Guo ZZ et al. Th17/Treg Imbalance Induced by Dietary Salt Variation Indicates Inflammation of Target Organs in Humans. Sci Rep 2016 Jun 29;6:26767. PMID: 27353721
  • Sun W, Ma X, Shen J, Yin F et al. Bioinformatics analysis of differentially expressed pathways related to the metastatic characteristics of osteosarcoma. Int J Mol Med 2016 Aug;38(2):466-74. PMID: 27353415
  • Blayney JK, Davison T, McCabe N, Walker S et al. Prior knowledge transfer across transcriptional data sets and technologies using compositional statistics yields new mislabelled ovarian cell line. Nucleic Acids Res 2016 Sep 30;44(17):e137. PMID: 27353327
  • Miller HC, Frampton AE, Malczewska A, Ottaviani S et al. MicroRNAs associated with small bowel neuroendocrine tumours and their metastases. Endocr Relat Cancer 2016 Sep;23(9):711-26. PMID: 27353039
  • Wu D, Chen B, Cui F, He X et al. Hypoxia-induced microRNA-301b regulates apoptosis by targeting Bim in lung cancer. Cell Prolif 2016 Aug;49(4):476-83. PMID: 27352910
  • Tian T, You Q, Zhang L, Yi X et al. SorghumFDB: sorghum functional genomics database with multidimensional network analysis. Database (Oxford) 2016;2016. PMID: 27352859
  • Usui-Ouchi A, Ouchi Y, Kiyokawa M, Sakuma T et al. Upregulation of Mir-21 Levels in the Vitreous Humor Is Associated with Development of Proliferative Vitreoretinal Disease. PLoS One 2016;11(6):e0158043. PMID: 27351379
  • Ramsay JE, Rhodes CH, Thirtamara-Rajamani K, Smith RM et al. Genetic influences on nicotinic α5 receptor (CHRNA5) CpG methylation and mRNA expression in brain and adipose tissue. Genes Environ 2015;37:14. PMID: 27350810
  • Liu M, Zhu K, Qian X, Li W et al. Identification of miRNA/mRNA-Negative Regulation Pairs in Nasopharyngeal Carcinoma. Med Sci Monit 2016 Jun 28;22:2215-34. PMID: 27350400
  • Gao Y, Wang J, Zheng Y, Zhang J et al. Comprehensive identification of internal structure and alternative splicing events in circular RNAs. Nat Commun 2016 Jun 28;7:12060. PMID: 27350239
  • Krusche B, Ottone C, Clements MP, Johnstone ER et al. EphrinB2 drives perivascular invasion and proliferation of glioblastoma stem-like cells. Elife 2016 Jun 28;5. PMID: 27350048
  • Xu J, Jing R, Liu Y, Dong Y et al. A new strategy for exploring the hierarchical structure of cancers by adaptively partitioning functional modules from gene expression network. Sci Rep 2016 Jun 28;6:28720. PMID: 27349736
  • Osathanon T, Nowwarote N, Pavasant P et al. Expression and influence of Notch signaling in oral squamous cell carcinoma. J Oral Sci 2016;58(2):283-94. PMID: 27349552
  • Almstrup K, Lindhardt Johansen M, Busch AS, Hagen CP et al. Pubertal development in healthy children is mirrored by DNA methylation patterns in peripheral blood. Sci Rep 2016 Jun 28;6:28657. PMID: 27349168
  • Rahman M, Boughorbel S, Presnell S, Quinn C et al. A curated transcriptome dataset collection to investigate the functional programming of human hematopoietic cells in early life. F1000Res 2016;5:414. PMID: 27347375
  • Liao J, Wei B, Chen H, Liu Y et al. Bioinformatics investigation of therapeutic mechanisms of Xuesaitong capsule treating ischemic cerebrovascular rat model with comparative transcriptome analysis. Am J Transl Res 2016;8(5):2438-49. PMID: 27347353
  • Lee F, Lee JJ, Jan WC, Wu CJ et al. Molecular pathways associated with transcriptional alterations in hyperparathyroidism. Oncol Lett 2016 Jul;12(1):621-626. PMID: 27347190
  • Long J, Liu Z, Wu X, Xu Y et al. Identification of disease-associated pathways in pancreatic cancer by integrating genome-wide association study and gene expression data. Oncol Lett 2016 Jul;12(1):537-543. PMID: 27347177
  • Yao T, Wang Q, Zhang W, Bian A et al. Identification of genes associated with renal cell carcinoma using gene expression profiling analysis. Oncol Lett 2016 Jul;12(1):73-78. PMID: 27347102
  • Siangphoe U, Archer KJ et al. Estimation of random effects and identifying heterogeneous genes in meta-analysis of gene expression studies. Brief Bioinform 2017 Jul 1;18(4):602-618. PMID: 27345525
  • Hynes AP, Shakya M, Mercer RG, Grüll MP et al. Functional and Evolutionary Characterization of a Gene Transfer Agent's Multilocus "Genome". Mol Biol Evol 2016 Oct;33(10):2530-43. PMID: 27343288
  • Misawa A, Takayama K, Urano T, Inoue S et al. Androgen-induced Long Noncoding RNA (lncRNA) SOCS2-AS1 Promotes Cell Growth and Inhibits Apoptosis in Prostate Cancer Cells. J Biol Chem 2016 Aug 19;291(34):17861-80. PMID: 27342777
  • Luce MJ, Akpawu AA, Tucunduva DC, Mason S et al. Extent of pre-translational regulation for the control of nucleocytoplasmic protein localization. BMC Genomics 2016 Jun 24;17:472. PMID: 27342569
  • Acharya CR, McCarthy JM, Owzar K, Allen AS et al. Exploiting expression patterns across multiple tissues to map expression quantitative trait loci. BMC Bioinformatics 2016 Jun 24;17:257. PMID: 27341818
  • Tishchenko I, Milioli HH, Riveros C, Moscato P et al. Extensive Transcriptomic and Genomic Analysis Provides New Insights about Luminal Breast Cancers. PLoS One 2016;11(6):e0158259. PMID: 27341628
  • Kori M, Gov E, Arga KY et al. Molecular signatures of ovarian diseases: Insights from network medicine perspective. Syst Biol Reprod Med 2016 Aug;62(4):266-82. PMID: 27341345
  • López Sánchez A, Stassen JH, Furci L, Smith LM et al. The role of DNA (de)methylation in immune responsiveness of Arabidopsis. Plant J 2016 Nov;88(3):361-374. PMID: 27341062
  • Subotički T, Mitrović Ajtić O, Beleslin-Čokić BB, Nienhold R et al. Angiogenic factors are increased in circulating granulocytes and CD34(+) cells of myeloproliferative neoplasms. Mol Carcinog 2017 Feb;56(2):567-579. PMID: 27341002
  • Gwak J, Shin JY, Lee K, Hong SK et al. SFMBT2 (Scm-like with four mbt domains 2) negatively regulates cell migration and invasion in prostate cancer cells. Oncotarget 2016 Jul 26;7(30):48250-48264. PMID: 27340776
  • Ignacio RM, Gibbs CR, Lee ES, Son DS et al. Differential Chemokine Signature between Human Preadipocytes and Adipocytes. Immune Netw 2016 Jun;16(3):189-94. PMID: 27340388
  • Zhou B, Wang L, Zhang S, Bennett BD et al. INO80 governs superenhancer-mediated oncogenic transcription and tumor growth in melanoma. Genes Dev 2016 Jun 15;30(12):1440-53. PMID: 27340176
  • Shrestha G, MacNeil SM, McQuerry JA, Jenkins DF et al. The value of genomics in dissecting the RAS-network and in guiding therapeutics for RAS-driven cancers. Semin Cell Dev Biol 2016 Oct;58:108-17. PMID: 27338857
  • Ebert LM, Tan LY, Johan MZ, Min KK et al. A non-canonical role for desmoglein-2 in endothelial cells: implications for neoangiogenesis. Angiogenesis 2016 Oct;19(4):463-86. PMID: 27338829
  • Huang YC, Lin SJ, Lin KM, Chou YC et al. Regulation of EBV LMP1-triggered EphA4 downregulation in EBV-associated B lymphoma and its impact on patients' survival. Blood 2016 Sep 22;128(12):1578-89. PMID: 27338098
  • Liu-Chittenden Y, Patel D, Gaskins K, Giordano TJ et al. Serum RARRES2 Is a Prognostic Marker in Patients With Adrenocortical Carcinoma. J Clin Endocrinol Metab 2016 Sep;101(9):3345-52. PMID: 27336360
  • Spina V, Khiabanian H, Messina M, Monti S et al. The genetics of nodal marginal zone lymphoma. Blood 2016 Sep 8;128(10):1362-73. PMID: 27335277
  • Hu SP, Zhao JJ, Wang WX, Liu Y et al. Dexmedetomidine increases acetylation level of histone through ERK1/2 pathway in dopamine neuron. Hum Exp Toxicol 2017 May;36(5):474-482. PMID: 27334975
  • Yang CW, Chen CL, Chou WC, Lin HC et al. An Integrative Transcriptomic Analysis for Identifying Novel Target Genes Corresponding to Severity Spectrum in Spinal Muscular Atrophy. PLoS One 2016;11(6):e0157426. PMID: 27331400
  • Bediaga NG, Beristain E, Calvo B, Viguri MA et al. Luminal B breast cancer subtype displays a dicotomic epigenetic pattern. Springerplus 2016;5:623. PMID: 27330889
  • Lawlor N, Fabbri A, Guan P, George J et al. multiClust: An R-package for Identifying Biologically Relevant Clusters in Cancer Transcriptome Profiles. Cancer Inform 2016;15:103-14. PMID: 27330269
  • Zou N, Baydogan M, Zhu Y, Wang W et al. A Transfer Learning Approach for Predictive Modeling of Degenerate Biological Systems. Technometrics 2015;57(3):362-373. PMID: 27330227
  • Cataisson C, Michalowski AM, Shibuya K, Ryscavage A et al. MET signaling in keratinocytes activates EGFR and initiates squamous carcinogenesis. Sci Signal 2016 Jun 21;9(433):ra62. PMID: 27330189
  • Stover DG, Coloff JL, Barry WT, Brugge JS et al. The Role of Proliferation in Determining Response to Neoadjuvant Chemotherapy in Breast Cancer: A Gene Expression-Based Meta-Analysis. Clin Cancer Res 2016 Dec 15;22(24):6039-6050. PMID: 27330058
  • Feng SW, Chen Y, Tsai WC, Chiou HC et al. Overexpression of TELO2 decreases survival in human high-grade gliomas. Oncotarget 2016 Jul 19;7(29):46056-46066. PMID: 27329594
  • Jiang J, Sun X, Wu W, Li L et al. Construction and application of a co-expression network in Mycobacterium tuberculosis. Sci Rep 2016 Jun 22;6:28422. PMID: 27328747
  • Lee H, Goodarzi H, Tavazoie SF, Alarcón CR et al. TMEM2 Is a SOX4-Regulated Gene That Mediates Metastatic Migration and Invasion in Breast Cancer. Cancer Res 2016 Sep 1;76(17):4994-5005. PMID: 27328729
  • Barrionuevo FJ, Hurtado A, Kim GJ, Real FM et al. Sox9 and Sox8 protect the adult testis from male-to-female genetic reprogramming and complete degeneration. Elife 2016 Jun 21;5. PMID: 27328324
  • Liao KM, Chao TB, Tian YF, Lin CY et al. Overexpression of the PSAT1 Gene in Nasopharyngeal Carcinoma Is an Indicator of Poor Prognosis. J Cancer 2016;7(9):1088-94. PMID: 27326252
  • Pikman Y, Puissant A, Alexe G, Furman A et al. Targeting MTHFD2 in acute myeloid leukemia. J Exp Med 2016 Jun 27;213(7):1285-306. PMID: 27325891
  • Faiz A, Donovan C, Nieuwenhuis MA, van den Berge M et al. Latrophilin receptors: novel bronchodilator targets in asthma. Thorax 2017 Jan;72(1):74-82. PMID: 27325752
  • Stopsack KH, Gerke TA, Sinnott JA, Penney KL et al. Cholesterol Metabolism and Prostate Cancer Lethality. Cancer Res 2016 Aug 15;76(16):4785-90. PMID: 27325648
  • Bakdash G, Buschow SI, Gorris MA, Halilovic A et al. Expansion of a BDCA1+CD14+ Myeloid Cell Population in Melanoma Patients May Attenuate the Efficacy of Dendritic Cell Vaccines. Cancer Res 2016 Aug 1;76(15):4332-46. PMID: 27325645
  • Takeda E, Suzuki Y, Sato Y et al. Age-associated downregulation of vasohibin-1 in vascular endothelial cells. Aging Cell 2016 Oct;15(5):885-92. PMID: 27325558
  • Notwell JH, Heavner WE, Darbandi SF, Katzman S et al. TBR1 regulates autism risk genes in the developing neocortex. Genome Res 2016 Aug;26(8):1013-22. PMID: 27325115
  • Pashaiasl M, Ebrahimi M, Ebrahimie E et al. Identification of the key regulating genes of diminished ovarian reserve (DOR) by network and gene ontology analysis. Mol Biol Rep 2016 Sep;43(9):923-37. PMID: 27324248
  • Nandal UK, van Kampen AH, Moerland PD et al. compendiumdb: an R package for retrieval and storage of functional genomics data. Bioinformatics 2016 Sep 15;32(18):2856-7. PMID: 27323392
  • Simons RL, Lei MK, Beach SRH, Cutrona CE et al. Methylation of the oxytocin receptor gene mediates the effect of adversity on negative schemas and depression. Dev Psychopathol 2017 Aug;29(3):725-736. PMID: 27323309
  • Zhang W, Barger CJ, Eng KH, Klinkebiel D et al. PRAME expression and promoter hypomethylation in epithelial ovarian cancer. Oncotarget 2016 Jul 19;7(29):45352-45369. PMID: 27322684
  • Torrente A, Lukk M, Xue V, Parkinson H et al. Identification of Cancer Related Genes Using a Comprehensive Map of Human Gene Expression. PLoS One 2016;11(6):e0157484. PMID: 27322383
  • Sanchez R, Mackenzie SA et al. Genome-Wide Discriminatory Information Patterns of Cytosine DNA Methylation. Int J Mol Sci 2016 Jun 17;17(6). PMID: 27322251
  • Wei Y, Li M, Cui S, Wang D et al. Shikonin Inhibits the Proliferation of Human Breast Cancer Cells by Reducing Tumor-Derived Exosomes. Molecules 2016 Jun 16;21(6). PMID: 27322220
  • Kapoor A, Bakshy K, Xu L, Nandakumar P et al. Rare coding TTN variants are associated with electrocardiographic QT interval in the general population. Sci Rep 2016 Jun 20;6:28356. PMID: 27321809
  • Tsukumo Y, Alain T, Fonseca BD, Nadon R et al. Translation control during prolonged mTORC1 inhibition mediated by 4E-BP3. Nat Commun 2016 Jun 20;7:11776. PMID: 27319316
  • Huang Y, Sanguinetti G et al. Statistical modeling of isoform splicing dynamics from RNA-seq time series data. Bioinformatics 2016 Oct 1;32(19):2965-72. PMID: 27318208
  • Kapur A, Marwah K, Alterovitz G et al. Gene expression prediction using low-rank matrix completion. BMC Bioinformatics 2016 Jun 17;17(1):243. PMID: 27317252
  • Greco S, Zaccagnini G, Perfetti A, Fuschi P et al. Long noncoding RNA dysregulation in ischemic heart failure. J Transl Med 2016 Jun 18;14(1):183. PMID: 27317124
  • Wen B, Xu S, Zhou R, Zhang B et al. PGA: an R/Bioconductor package for identification of novel peptides using a customized database derived from RNA-Seq. BMC Bioinformatics 2016 Jun 17;17(1):244. PMID: 27316337
  • Hector RD, Dando O, Landsberger N, Kilstrup-Nielsen C et al. Characterisation of CDKL5 Transcript Isoforms in Human and Mouse. PLoS One 2016;11(6):e0157758. PMID: 27315173
  • Creanza TM, Liguori M, Liuni S, Nuzziello N et al. Meta-Analysis of Differential Connectivity in Gene Co-Expression Networks in Multiple Sclerosis. Int J Mol Sci 2016 Jun 15;17(6). PMID: 27314336
  • Wang Y, Xue D, Li Y, Pan X et al. The Long Noncoding RNA MALAT-1 is A Novel Biomarker in Various Cancers: A Meta-analysis Based on the GEO Database and Literature. J Cancer 2016;7(8):991-1001. PMID: 27313790
  • Chen C, Sun C, Tang D, Yang G et al. Identification of key genes in glioblastoma-associated stromal cells using bioinformatics analysis. Oncol Lett 2016 Jun;11(6):3999-4007. PMID: 27313730
  • Meyers PJ, Powell TH, Walden KK, Schieferecke AJ et al. Divergence of the diapause transcriptome in apple maggot flies: winter regulation and post-winter transcriptional repression. J Exp Biol 2016 Sep 1;219(Pt 17):2613-22. PMID: 27312473
  • Szulzewsky F, Arora S, de Witte L, Ulas T et al. Human glioblastoma-associated microglia/monocytes express a distinct RNA profile compared to human control and murine samples. Glia 2016 Aug;64(8):1416-36. PMID: 27312099
  • Weidner C, Steinfath M, Opitz E, Oelgeschläger M et al. Defining the optimal animal model for translational research using gene set enrichment analysis. EMBO Mol Med 2016 Aug;8(8):831-8. PMID: 27311961
  • Ploeger C, Waldburger N, Fraas A, Goeppert B et al. Chromosome 8p tumor suppressor genes SH2D4A and SORBS3 cooperate to inhibit interleukin-6 signaling in hepatocellular carcinoma. Hepatology 2016 Sep;64(3):828-42. PMID: 27311882
  • Miyamoto K, Seki N, Matsushita R, Yonemori M et al. Tumour-suppressive miRNA-26a-5p and miR-26b-5p inhibit cell aggressiveness by regulating PLOD2 in bladder cancer. Br J Cancer 2016 Jul 26;115(3):354-63. PMID: 27310702
  • Schissler AG, Li Q, Chen JL, Kenost C et al. Analysis of aggregated cell-cell statistical distances within pathways unveils therapeutic-resistance mechanisms in circulating tumor cells. Bioinformatics 2016 Jun 15;32(12):i80-i89. PMID: 27307648
  • Cui X, Meng J, Zhang S, Chen Y et al. A novel algorithm for calling mRNA m6A peaks by modeling biological variances in MeRIP-seq data. Bioinformatics 2016 Jun 15;32(12):i378-i385. PMID: 27307641
  • Orenstein Y, Wang Y, Berger B et al. RCK: accurate and efficient inference of sequence- and structure-based protein-RNA binding models from RNAcompete data. Bioinformatics 2016 Jun 15;32(12):i351-i359. PMID: 27307637
  • Srivastava A, Sarkar H, Gupta N, Patro R et al. RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes. Bioinformatics 2016 Jun 15;32(12):i192-i200. PMID: 27307617
  • Liu TY, Song YS et al. Prediction of ribosome footprint profile shapes from transcript sequences. Bioinformatics 2016 Jun 15;32(12):i183-i191. PMID: 27307616
  • Topa H, Honkela A et al. Analysis of differential splicing suggests different modes of short-term splicing regulation. Bioinformatics 2016 Jun 15;32(12):i147-i155. PMID: 27307611
  • Sun J, Jiang Z, Tian X, Bi J et al. A cross-species bi-clustering approach to identifying conserved co-regulated genes. Bioinformatics 2016 Jun 15;32(12):i137-i146. PMID: 27307610
  • Abdulghani J, Gokare P, Gallant JN, Dicker D et al. Sorafenib and Quinacrine Target Anti-Apoptotic Protein MCL1: A Poor Prognostic Marker in Anaplastic Thyroid Cancer (ATC). Clin Cancer Res 2016 Dec 15;22(24):6192-6203. PMID: 27307592
  • Kim YS, Park SJ, Lee YS, Kong HK et al. miRNAs involved in LY6K and estrogen receptor α contribute to tamoxifen-susceptibility in breast cancer. Oncotarget 2016 Jul 5;7(27):42261-42273. PMID: 27304060
  • Vale-Silva LA, Moeckli B, Torelli R, Posteraro B et al. Upregulation of the Adhesin Gene EPA1 Mediated by PDR1 in Candida glabrata Leads to Enhanced Host Colonization. mSphere 2016 Mar-Apr;1(2). PMID: 27303714
  • Marr AK, Boughorbel S, Presnell S, Quinn C et al. A curated transcriptome dataset collection to investigate the development and differentiation of the human placenta and its associated pathologies. F1000Res 2016;5:305. PMID: 27303626
  • Schwämmle V, Sidoli S, Ruminowicz C, Wu X et al. Systems Level Analysis of Histone H3 Post-translational Modifications (PTMs) Reveals Features of PTM Crosstalk in Chromatin Regulation. Mol Cell Proteomics 2016 Aug;15(8):2715-29. PMID: 27302890
  • You S, Knudsen BS, Erho N, Alshalalfa M et al. Integrated Classification of Prostate Cancer Reveals a Novel Luminal Subtype with Poor Outcome. Cancer Res 2016 Sep 1;76(17):4948-58. PMID: 27302169
  • Schuierer S, Roma G et al. The exon quantification pipeline (EQP): a comprehensive approach to the quantification of gene, exon and junction expression from RNA-seq data. Nucleic Acids Res 2016 Sep 19;44(16):e132. PMID: 27302131
  • Criscione SW, Theodosakis N, Micevic G, Cornish TC et al. Genome-wide characterization of human L1 antisense promoter-driven transcripts. BMC Genomics 2016 Jun 14;17:463. PMID: 27301971
  • Brietz A, Schuch KV, Wangorsch G, Lorenz K et al. Analyzing ERK 1/2 signalling and targets. Mol Biosyst 2016 Jul 19;12(8):2436-46. PMID: 27301697
  • Malki K, Koritskaya E, Harris F, Bryson K et al. Epigenetic differences in monozygotic twins discordant for major depressive disorder. Transl Psychiatry 2016 Jun 14;6(6):e839. PMID: 27300265
  • Nigita G, Acunzo M, Romano G, Veneziano D et al. microRNA editing in seed region aligns with cellular changes in hypoxic conditions. Nucleic Acids Res 2016 Jul 27;44(13):6298-308. PMID: 27298257
  • Xie T, Yang QY, Wang XT, McLysaght A et al. Spatial Colocalization of Human Ohnolog Pairs Acts to Maintain Dosage-Balance. Mol Biol Evol 2016 Sep;33(9):2368-75. PMID: 27297469
  • Li CW, Chen BS et al. Investigating core genetic-and-epigenetic cell cycle networks for stemness and carcinogenic mechanisms, and cancer drug design using big database mining and genome-wide next-generation sequencing data. Cell Cycle 2016 Oct;15(19):2593-2607. PMID: 27295129
  • Chouvardas P, Kollias G, Nikolaou C et al. Inferring active regulatory networks from gene expression data using a combination of prior knowledge and enrichment analysis. BMC Bioinformatics 2016 Jun 6;17 Suppl 5(Suppl 5):181. PMID: 27295045
  • Winge MC, Ohyama B, Dey CN, Boxer LM et al. RAC1 activation drives pathologic interactions between the epidermis and immune cells. J Clin Invest 2016 Jul 1;126(7):2661-77. PMID: 27294528
  • Sun J, Cheng L, Shi H, Zhang Z et al. A potential panel of six-long non-coding RNA signature to improve survival prediction of diffuse large-B-cell lymphoma. Sci Rep 2016 Jun 13;6:27842. PMID: 27292966
  • Bain CC, Hawley CA, Garner H, Scott CL et al. Long-lived self-renewing bone marrow-derived macrophages displace embryo-derived cells to inhabit adult serous cavities. Nat Commun 2016 Jun 13;7:ncomms11852. PMID: 27292029
  • Rojas A, Zhang P, Wang Y, Foo WC et al. A Positive TGF-β/c-KIT Feedback Loop Drives Tumor Progression in Advanced Primary Liver Cancer. Neoplasia 2016 Jun;18(6):371-86. PMID: 27292026
  • Migale R, MacIntyre DA, Cacciatore S, Lee YS et al. Modeling hormonal and inflammatory contributions to preterm and term labor using uterine temporal transcriptomics. BMC Med 2016 Jun 13;14(1):86. PMID: 27291689
  • Atwood BL, Woolnough JL, Lefevre GM, Saint Just Ribeiro M et al. Human Argonaute 2 Is Tethered to Ribosomal RNA through MicroRNA Interactions. J Biol Chem 2016 Aug 19;291(34):17919-28. PMID: 27288410
  • Milligan L, Huynh-Thu VA, Delan-Forino C, Tuck A et al. Strand-specific, high-resolution mapping of modified RNA polymerase II. Mol Syst Biol 2016 Jun 10;12(6):874. PMID: 27288397
  • Chida S, Okayama H, Noda M, Saito K et al. Stromal VCAN expression as a potential prognostic biomarker for disease recurrence in stage II-III colon cancer. Carcinogenesis 2016 Sep;37(9):878-887. PMID: 27287872
  • Rognoni E, Gomez C, Pisco AO, Rawlins EL et al. Inhibition of β-catenin signalling in dermal fibroblasts enhances hair follicle regeneration during wound healing. Development 2016 Jul 15;143(14):2522-35. PMID: 27287810
  • Bachegowda L, Morrone K, Winski SL, Mantzaris I et al. Pexmetinib: A Novel Dual Inhibitor of Tie2 and p38 MAPK with Efficacy in Preclinical Models of Myelodysplastic Syndromes and Acute Myeloid Leukemia. Cancer Res 2016 Aug 15;76(16):4841-4849. PMID: 27287719
  • Friedel M, André S, Goldschmidt H, Gabius HJ et al. Galectin-8 enhances adhesion of multiple myeloma cells to vascular endothelium and is an adverse prognostic factor. Glycobiology 2016 Oct;26(10):1048-1058. PMID: 27287437
  • Cea M, Cagnetta A, Acharya C, Acharya P et al. Dual NAMPT and BTK Targeting Leads to Synergistic Killing of Waldenström Macroglobulinemia Cells Regardless of MYD88 and CXCR4 Somatic Mutation Status. Clin Cancer Res 2016 Dec 15;22(24):6099-6109. PMID: 27287071
  • Celik S, Logsdon BA, Battle S, Drescher CW et al. Extracting a low-dimensional description of multiple gene expression datasets reveals a potential driver for tumor-associated stroma in ovarian cancer. Genome Med 2016 Jun 10;8(1):66. PMID: 27287041
  • Malcomson B, Wilson H, Veglia E, Thillaiyampalam G et al. Connectivity mapping (ssCMap) to predict A20-inducing drugs and their antiinflammatory action in cystic fibrosis. Proc Natl Acad Sci U S A 2016 Jun 28;113(26):E3725-34. PMID: 27286825
  • Obulkasim A, Ylstra B, van Essen HF, Benner C et al. Reduced genomic tumor heterogeneity after neoadjuvant chemotherapy is related to favorable outcome in patients with esophageal adenocarcinoma. Oncotarget 2016 Jul 12;7(28):44084-44095. PMID: 27286451
  • Chang CC, Huang CC, Yang SH, Chien CC et al. Data on clinical significance of GAS2 in colorectal cancer cells. Data Brief 2016 Sep;8:82-6. PMID: 27284567
  • Mar-Aguilar F, Rodríguez-Padilla C, Reséndez-Pérez D et al. Web-based tools for microRNAs involved in human cancer. Oncol Lett 2016 Jun;11(6):3563-3570. PMID: 27284356
  • Cai H, Xu J, Han Y, Lu Z et al. Integrated miRNA-risk gene-pathway pair network analysis provides prognostic biomarkers for gastric cancer. Onco Targets Ther 2016;9:2975-86. PMID: 27284247
  • Ziemann M, Kaspi A, El-Osta A et al. Evaluation of microRNA alignment techniques. RNA 2016 Aug;22(8):1120-38. PMID: 27284164
  • Carnero E, Barriocanal M, Prior C, Pablo Unfried J et al. Long noncoding RNA EGOT negatively affects the antiviral response and favors HCV replication. EMBO Rep 2016 Jul;17(7):1013-28. PMID: 27283940
  • Campbell BW, Hofstad AN, Sreekanta S, Fu F et al. Fast neutron-induced structural rearrangements at a soybean NAP1 locus result in gnarled trichomes. Theor Appl Genet 2016 Sep;129(9):1725-38. PMID: 27282876
  • Chen J, Tian W et al. Explaining the disease phenotype of intergenic SNP through predicted long range regulation. Nucleic Acids Res 2016 Oct 14;44(18):8641-8654. PMID: 27280978
  • Yang ZW, Jiang YH, Ma C, Silvestri G et al. Coexpression Network Analysis of Benign and Malignant Phenotypes of SIV-Infected Sooty Mangabey and Rhesus Macaque. PLoS One 2016;11(6):e0156170. PMID: 27280726
  • Li Z, Peng R, Tian Y, Han H et al. Genome-Wide Identification and Analysis of the MYB Transcription Factor Superfamily in Solanum lycopersicum. Plant Cell Physiol 2016 Aug;57(8):1657-77. PMID: 27279646
  • Bellouze S, Baillat G, Buttigieg D, de la Grange P et al. Stathmin 1/2-triggered microtubule loss mediates Golgi fragmentation in mutant SOD1 motor neurons. Mol Neurodegener 2016 Jun 9;11(1):43. PMID: 27277231
  • Suzuki K, Yamamoto K, Arakawa Y, Yamada H et al. Antimyeloma activity of bromodomain inhibitors on the human myeloma cell line U266 by downregulation of MYCL. Anticancer Drugs 2016 Sep;27(8):756-65. PMID: 27276402
  • Chang CM, Chuang CM, Wang ML, Yang MJ et al. Gene Set-Based Functionome Analysis of Pathogenesis in Epithelial Ovarian Serous Carcinoma and the Molecular Features in Different FIGO Stages. Int J Mol Sci 2016 Jun 6;17(6). PMID: 27275818
  • Papadopoulos T, Krochmal M, Cisek K, Fernandes M et al. Omics databases on kidney disease: where they can be found and how to benefit from them. Clin Kidney J 2016 Jun;9(3):343-52. PMID: 27274817
  • Yu M, Wang U, Wang Z et al. E2F and GATA switches turn off WD repeat domain 77 expression in differentiating cells. Biochem J 2016 Aug 1;473(15):2331-43. PMID: 27274086
  • Shahabi A, Lewinger JP, Ren J, April C et al. Novel Gene Expression Signature Predictive of Clinical Recurrence After Radical Prostatectomy in Early Stage Prostate Cancer Patients. Prostate 2016 Oct;76(14):1239-56. PMID: 27272349
  • Lee MS, McGuffey EJ, Morris JS, Manyam G et al. Association of CpG island methylator phenotype and EREG/AREG methylation and expression in colorectal cancer. Br J Cancer 2016 Jun 14;114(12):1352-61. PMID: 27272216
  • Zhang Y, Huang L, Fu H, Smith OK et al. A replicator-specific binding protein essential for site-specific initiation of DNA replication in mammalian cells. Nat Commun 2016 Jun 8;7:11748. PMID: 27272143
  • Fan R, Toubal A, Goñi S, Drareni K et al. Loss of the co-repressor GPS2 sensitizes macrophage activation upon metabolic stress induced by obesity and type 2 diabetes. Nat Med 2016 Jul;22(7):780-91. PMID: 27270589
  • Villegas-Ruiz V, Moreno J, Jacome-Lopez K, Zentella-Dehesa A et al. Quality Control Usage in High-Density Microarrays Reveals Differential Gene Expression Profiles in Ovarian Cancer. Asian Pac J Cancer Prev 2016;17(5):2519-25. PMID: 27268623
  • Beck D, Zobel J, Barber R, Evans S et al. Synthetic Lethal Screen Demonstrates That a JAK2 Inhibitor Suppresses a BCL6-dependent IL10RA/JAK2/STAT3 Pathway in High Grade B-cell Lymphoma. J Biol Chem 2016 Aug 5;291(32):16686-98. PMID: 27268052
  • Huang W, Li J, Guo X, Zhao Y et al. miR-663a inhibits hepatocellular carcinoma cell proliferation and invasion by targeting HMGA2. Biomed Pharmacother 2016 Jul;81:431-438. PMID: 27261623
  • Sun L, Wang D, Li X, Zhang L et al. Extracellular matrix protein ITGBL1 promotes ovarian cancer cell migration and adhesion through Wnt/PCP signaling and FAK/SRC pathway. Biomed Pharmacother 2016 Jul;81:145-151. PMID: 27261588
  • Asgharpour A, Cazanave SC, Pacana T, Seneshaw M et al. A diet-induced animal model of non-alcoholic fatty liver disease and hepatocellular cancer. J Hepatol 2016 Sep;65(3):579-88. PMID: 27261415
  • Zafrir Z, Zur H, Tuller T et al. Selection for reduced translation costs at the intronic 5' end in fungi. DNA Res 2016 Aug;23(4):377-94. PMID: 27260512
  • Aguirre AJ, Meyers RM, Weir BA, Vazquez F et al. Genomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting. Cancer Discov 2016 Aug;6(8):914-29. PMID: 27260156
  • Klinkebiel D, Zhang W, Akers SN, Odunsi K et al. DNA Methylome Analyses Implicate Fallopian Tube Epithelia as the Origin for High-Grade Serous Ovarian Cancer. Mol Cancer Res 2016 Sep;14(9):787-94. PMID: 27259716
  • Tagde A, Rajabi H, Stroopinsky D, Gali R et al. MUC1-C induces DNA methyltransferase 1 and represses tumor suppressor genes in acute myeloid leukemia. Oncotarget 2016 Jun 28;7(26):38974-38987. PMID: 27259275
  • Quadrana L, Bortolini Silveira A, Mayhew GF, LeBlanc C et al. The Arabidopsis thaliana mobilome and its impact at the species level. Elife 2016 Jun 3;5. PMID: 27258693
  • Liang L, Sun H, Zhang W, Zhang M et al. Meta-Analysis of EMT Datasets Reveals Different Types of EMT. PLoS One 2016;11(6):e0156839. PMID: 27258544
  • Garcia CBoCluSt: Bootstrap Clustering Stability Algorithm for Community Detection. PLoS One 2016;11(6):e0156576. PMID: 27258041
  • Bing PF, Xia W, Wang L, Zhang YH et al. Common Marker Genes Identified from Various Sample Types for Systemic Lupus Erythematosus. PLoS One 2016;11(6):e0156234. PMID: 27257790
  • Nikolaichik Y, Damienikan AU et al. SigmoID: a user-friendly tool for improving bacterial genome annotation through analysis of transcription control signals. PeerJ 2016;4:e2056. PMID: 27257541
  • Agger K, Miyagi S, Pedersen MT, Kooistra SM et al. Jmjd2/Kdm4 demethylases are required for expression of Il3ra and survival of acute myeloid leukemia cells. Genes Dev 2016 Jun 1;30(11):1278-88. PMID: 27257215
  • Nemajerova A, Kramer D, Siller SS, Herr C et al. TAp73 is a central transcriptional regulator of airway multiciliogenesis. Genes Dev 2016 Jun 1;30(11):1300-12. PMID: 27257214
  • Riso V, Cammisa M, Kukreja H, Anvar Z et al. ZFP57 maintains the parent-of-origin-specific expression of the imprinted genes and differentially affects non-imprinted targets in mouse embryonic stem cells. Nucleic Acids Res 2016 Sep 30;44(17):8165-78. PMID: 27257070
  • Yang YA, Zhao JC, Fong KW, Kim J et al. FOXA1 potentiates lineage-specific enhancer activation through modulating TET1 expression and function. Nucleic Acids Res 2016 Sep 30;44(17):8153-64. PMID: 27257062
  • Bhattacharyya S, Wang W, Morales-Nebreda L, Feng G et al. Tenascin-C drives persistence of organ fibrosis. Nat Commun 2016 Jun 3;7:11703. PMID: 27256716
  • Pérez-Peña J, Serrano-Heras G, Montero JC, Corrales-Sánchez V et al. In Silico Analysis Guides Selection of BET Inhibitors for Triple-Negative Breast Cancer Treatment. Mol Cancer Ther 2016 Aug;15(8):1823-33. PMID: 27256375
  • Li G, Bankhead P, Dunne PD, O'Reilly PG et al. Embracing an integromic approach to tissue biomarker research in cancer: Perspectives and lessons learned. Brief Bioinform 2017 Jul 1;18(4):634-646. PMID: 27255914
  • Luef B, Handle F, Kharaishvili G, Hager M et al. The AR/NCOA1 axis regulates prostate cancer migration by involvement of PRKD1. Endocr Relat Cancer 2016 Jun;23(6):495-508. PMID: 27255895
  • Svalina MN, Kikuchi K, Abraham J, Lal S et al. IGF1R as a Key Target in High Risk, Metastatic Medulloblastoma. Sci Rep 2016 Jun 3;6:27012. PMID: 27255663
  • Lenz M, Müller FJ, Zenke M, Schuppert A et al. Principal components analysis and the reported low intrinsic dimensionality of gene expression microarray data. Sci Rep 2016 Jun 2;6:25696. PMID: 27254731
  • Bime C, Zhou T, Wang T, Slepian MJ et al. Reactive oxygen species-associated molecular signature predicts survival in patients with sepsis. Pulm Circ 2016 Jun;6(2):196-201. PMID: 27252846
  • Tekpli X, Urbanucci A, Hashim A, Vågbø CB et al. Changes of 5-hydroxymethylcytosine distribution during myeloid and lymphoid differentiation of CD34+ cells. Epigenetics Chromatin 2016;9:21. PMID: 27252783
  • Reber S, Stettler J, Filosa G, Colombo M et al. Minor intron splicing is regulated by FUS and affected by ALS-associated FUS mutants. EMBO J 2016 Jul 15;35(14):1504-21. PMID: 27252488
  • Hartmann L, Dutta S, Opatz S, Vosberg S et al. ZBTB7A mutations in acute myeloid leukaemia with t(8;21) translocation. Nat Commun 2016 Jun 2;7:11733. PMID: 27252013
  • Degueurce G, D'Errico I, Pich C, Ibberson M et al. Identification of a novel PPARβ/δ/miR-21-3p axis in UV-induced skin inflammation. EMBO Mol Med 2016 Aug;8(8):919-36. PMID: 27250636
  • Kodama T, Newberg JY, Kodama M, Rangel R et al. Transposon mutagenesis identifies genes and cellular processes driving epithelial-mesenchymal transition in hepatocellular carcinoma. Proc Natl Acad Sci U S A 2016 Jun 14;113(24):E3384-93. PMID: 27247392
  • Guo LL, Yu SY, Li M et al. Functional analysis of HBO1 in tumor development and inhibitor screening. Int J Mol Med 2016 Jul;38(1):300-4. PMID: 27247147
  • Nie F, Yu X, Huang M, Wang Y et al. Long noncoding RNA ZFAS1 promotes gastric cancer cells proliferation by epigenetically repressing KLF2 and NKD2 expression. Oncotarget 2017 Jun 13;8(24):38227-38238. PMID: 27246976
  • El Hajj N, Dittrich M, Böck J, Kraus TF et al. Epigenetic dysregulation in the developing Down syndrome cortex. Epigenetics 2016 Aug 2;11(8):563-78. PMID: 27245352
  • Kim J, Kim K, Kim JH et al. Semantic Signature: Comparative Interpretation of Gene Expression on a Semantic Space. Comput Math Methods Med 2016;2016:5174503. PMID: 27242916
  • Wei Y, Zeng H, Hu W, Chen L et al. Comparative Transcriptional Profiling of Melatonin Synthesis and Catabolic Genes Indicates the Possible Role of Melatonin in Developmental and Stress Responses in Rice. Front Plant Sci 2016;7:676. PMID: 27242875
  • Kawase R, Nishimura Y, Ashikawa Y, Sasagawa S et al. EP300 Protects from Light-Induced Retinopathy in Zebrafish. Front Pharmacol 2016;7:126. PMID: 27242532
  • Munch EM, Sparks AE, Gonzalez Bosquet J, Christenson LK et al. Differentially expressed genes in preimplantation human embryos: potential candidate genes for blastocyst formation and implantation. J Assist Reprod Genet 2016 Aug;33(8):1017-25. PMID: 27241529
  • Giulietti M, Occhipinti G, Principato G, Piva F et al. Weighted gene co-expression network analysis reveals key genes involved in pancreatic ductal adenocarcinoma development. Cell Oncol (Dordr) 2016 Aug;39(4):379-88. PMID: 27240826
  • Na HS, Park MH, Song YR, Kim S et al. Elevated MicroRNA-128 in Periodontitis Mitigates Tumor Necrosis Factor-α Response via p38 Signaling Pathway in Macrophages. J Periodontol 2016 Sep;87(9):e173-82. PMID: 27240473
  • Zhao Y, Wang Y, Zou L, Huang J et al. Reconstruction and applications of consensus yeast metabolic network based on RNA sequencing. FEBS Open Bio 2016 Apr;6(4):264-75. PMID: 27239440
  • Zhang X, Wu Y, Wang L, Li R et al. A Consistent Information Criterion for Support Vector Machines in Diverging Model Spaces. J Mach Learn Res 2016;17(16):1-26. PMID: 27239164
  • Xu L, Tang Y, Gao S, Su S et al. Comprehensive analyses of the annexin gene family in wheat. BMC Genomics 2016 May 28;17:415. PMID: 27236332
  • Campbell TM, Castro MAA, de Santiago I, Fletcher MNC et al. FGFR2 risk SNPs confer breast cancer risk by augmenting oestrogen responsiveness. Carcinogenesis 2016 Aug;37(8):741-750. PMID: 27236187
  • Qu Z, Li D, Xu H, Zhang R et al.  CUL4B, NEDD4, and UGT1As involve in the TGF-β signalling in hepatocellular carcinoma. Ann Hepatol 2016 Jul-Aug;15(4):568-76. PMID: 27236156
  • Raducu M, Fung E, Serres S, Infante P et al. SCF (Fbxl17) ubiquitylation of Sufu regulates Hedgehog signaling and medulloblastoma development. EMBO J 2016 Jul 1;35(13):1400-16. PMID: 27234298
  • Fotuhi Siahpirani A, Ay F, Roy S et al. A multi-task graph-clustering approach for chromosome conformation capture data sets identifies conserved modules of chromosomal interactions. Genome Biol 2016 May 27;17(1):114. PMID: 27233632
  • Wang J, Meng F, Dai E, Yang F et al. Identification of associations between small molecule drugs and miRNAs based on functional similarity. Oncotarget 2016 Jun 21;7(25):38658-38669. PMID: 27232942
  • Keating ST, Plutzky J, El-Osta A et al. Epigenetic Changes in Diabetes and Cardiovascular Risk. Circ Res 2016 May 27;118(11):1706-22. PMID: 27230637
  • Wolf C, Rapp A, Berndt N, Staroske W et al. RPA and Rad51 constitute a cell intrinsic mechanism to protect the cytosol from self DNA. Nat Commun 2016 May 27;7:11752. PMID: 27230542
  • Jeyapalan JN, Doctor GT, Jones TA, Alberman SN et al. DNA methylation analysis of paediatric low-grade astrocytomas identifies a tumour-specific hypomethylation signature in pilocytic astrocytomas. Acta Neuropathol Commun 2016 May 27;4(1):54. PMID: 27229157
  • Monte E, Rosa-Garrido M, Karbassi E, Chen H et al. Reciprocal Regulation of the Cardiac Epigenome by Chromatin Structural Proteins Hmgb and Ctcf: IMPLICATIONS FOR TRANSCRIPTIONAL REGULATION. J Biol Chem 2016 Jul 22;291(30):15428-46. PMID: 27226577
  • Knights AJ, Yik JJ, Mat Jusoh H, Norton LJ et al. Krüppel-like Factor 3 (KLF3/BKLF) Is Required for Widespread Repression of the Inflammatory Modulator Galectin-3 (Lgals3). J Biol Chem 2016 Jul 29;291(31):16048-58. PMID: 27226561
  • Sabatino M, Hu J, Sommariva M, Gautam S et al. Generation of clinical-grade CD19-specific CAR-modified CD8+ memory stem cells for the treatment of human B-cell malignancies. Blood 2016 Jul 28;128(4):519-28. PMID: 27226436
  • Robertson J, Haas CT, Pele LC, Monie TP et al. Intestinal APCs of the endogenous nanomineral pathway fail to express PD-L1 in Crohn's disease. Sci Rep 2016 May 26;6:26747. PMID: 27226337
  • Zan Y, Shen X, Forsberg SK, Carlborg Ö et al. Genetic Regulation of Transcriptional Variation in Natural Arabidopsis thaliana Accessions. G3 (Bethesda) 2016 Aug 9;6(8):2319-28. PMID: 27226169
  • Morgan DJ, Poolman TM, Williamson AJ, Wang Z et al. Glucocorticoid receptor isoforms direct distinct mitochondrial programs to regulate ATP production. Sci Rep 2016 May 26;6:26419. PMID: 27226058
  • Kerchev P, Waszczak C, Lewandowska A, Willems P et al. Lack of GLYCOLATE OXIDASE1, but Not GLYCOLATE OXIDASE2, Attenuates the Photorespiratory Phenotype of CATALASE2-Deficient Arabidopsis. Plant Physiol 2016 Jul;171(3):1704-19. PMID: 27225899
  • Taddei L, Stella GR, Rogato A, Bailleul B et al. Multisignal control of expression of the LHCX protein family in the marine diatom Phaeodactylum tricornutum. J Exp Bot 2016 Jun;67(13):3939-51. PMID: 27225826
  • Price TT, Burness ML, Sivan A, Warner MJ et al. Dormant breast cancer micrometastases reside in specific bone marrow niches that regulate their transit to and from bone. Sci Transl Med 2016 May 25;8(340):340ra73. PMID: 27225183
  • Chen Q, Boire A, Jin X, Valiente M et al. Carcinoma-astrocyte gap junctions promote brain metastasis by cGAMP transfer. Nature 2016 May 26;533(7604):493-498. PMID: 27225120
  • Swindell WR, Xing X, Fritz Y, Diaconu D et al. Deficiency of myeloid-related proteins 8 and 14 (Mrp8/Mrp14) does not block inflammaging but prevents steatosis. Oncotarget 2016 Jun 14;7(24):35535-35551. PMID: 27224926
  • Wong KK, Gascoyne DM, Soilleux EJ, Lyne L et al. FOXP2-positive diffuse large B-cell lymphomas exhibit a poor response to R-CHOP therapy and distinct biological signatures. Oncotarget 2016 Aug 16;7(33):52940-52956. PMID: 27224915
  • Gorelenkova Miller O, Behring JB, Siedlak SL, Jiang S et al. Upregulation of Glutaredoxin-1 Activates Microglia and Promotes Neurodegeneration: Implications for Parkinson's Disease. Antioxid Redox Signal 2016 Dec 20;25(18):967-982. PMID: 27224303
  • Blee AM, Liu S, Wang L, Huang H et al. BET bromodomain-mediated interaction between ERG and BRD4 promotes prostate cancer cell invasion. Oncotarget 2016 Jun 21;7(25):38319-38332. PMID: 27223260
  • Huang Z, Li J, Du S, Tang Y et al. FKBP14 overexpression contributes to osteosarcoma carcinogenesis and indicates poor survival outcome. Oncotarget 2016 Jun 28;7(26):39872-39884. PMID: 27223089
  • Tu Z, He D, Deng X, Xiong M et al. An eight-long non-coding RNA signature as a candidate prognostic biomarker for lung cancer. Oncol Rep 2016 Jul;36(1):215-22. PMID: 27222340
  • Fessler E, Drost J, van Hooff SR, Linnekamp JF et al. TGFβ signaling directs serrated adenomas to the mesenchymal colorectal cancer subtype. EMBO Mol Med 2016 Jul;8(7):745-60. PMID: 27221051
  • Zhang M, Li H, Zou D, Gao J et al. Ruguo key genes and tumor driving factors identification of bladder cancer based on the RNA-seq profile. Onco Targets Ther 2016;9:2717-23. PMID: 27217782
  • Bing F, Zhao Y et al. Screening of biomarkers for prediction of response to and prognosis after chemotherapy for breast cancers. Onco Targets Ther 2016;9:2593-600. PMID: 27217777
  • Blohmke CJ, Darton TC, Jones C, Suarez NM et al. Interferon-driven alterations of the host's amino acid metabolism in the pathogenesis of typhoid fever. J Exp Med 2016 May 30;213(6):1061-77. PMID: 27217537
  • Caron L, Kher D, Lee KL, McKernan R et al. A Human Pluripotent Stem Cell Model of Facioscapulohumeral Muscular Dystrophy-Affected Skeletal Muscles. Stem Cells Transl Med 2016 Sep;5(9):1145-61. PMID: 27217344
  • Matkovich SJA balancing act in cardiac hypertrophy. Cardiovasc Res 2016 Jul 1;111(1):8-9. PMID: 27216864
  • Botla SK, Savant S, Jandaghi P, Bauer AS et al. Early Epigenetic Downregulation of microRNA-192 Expression Promotes Pancreatic Cancer Progression. Cancer Res 2016 Jul 15;76(14):4149-59. PMID: 27216198
  • Guo W, Benlhabib H, Mendelson CR et al. The MicroRNA 29 Family Promotes Type II Cell Differentiation in Developing Lung. Mol Cell Biol 2016 Aug 15;36(16):2141. PMID: 27215389
  • Yoo KH, Oh S, Kang K, Wang C et al. Histone Demethylase KDM6A Controls the Mammary Luminal Lineage through Enzyme-Independent Mechanisms. Mol Cell Biol 2016 Aug 15;36(16):2108-20. PMID: 27215382
  • Mayama T, Marr AK, Kino T et al. Differential Expression of Glucocorticoid Receptor Noncoding RNA Repressor Gas5 in Autoimmune and Inflammatory Diseases. Horm Metab Res 2016 Aug;48(8):550-7. PMID: 27214311
  • Torrano V, Valcarcel-Jimenez L, Cortazar AR, Liu X et al. The metabolic co-regulator PGC1α suppresses prostate cancer metastasis. Nat Cell Biol 2016 Jun;18(6):645-656. PMID: 27214280
  • Barr TL, VanGilder RL, Seiberg R, Petrone A et al. Systemic Transcriptional Alterations of Innate and Adaptive Immune Signaling Pathways in Atherosclerosis, Ischemia Stroke, and Myocardial Infarction. J Bioanal Biomed 2015 Apr;7(2):029-34. PMID: 27213032
  • Okato A, Goto Y, Kurozumi A, Kato M et al. Direct regulation of LAMP1 by tumor-suppressive microRNA-320a in prostate cancer. Int J Oncol 2016 Jul;49(1):111-22. PMID: 27212625
  • Liang YC, Lee CC, Yao YL, Lai CC et al. SUMO5, a Novel Poly-SUMO Isoform, Regulates PML Nuclear Bodies. Sci Rep 2016 May 23;6:26509. PMID: 27211601
  • Oh TG, Wang SM, Acharya BR, Goode JM et al. The Nuclear Receptor, RORγ, Regulates Pathways Necessary for Breast Cancer Metastasis. EBioMedicine 2016 Apr;6:59-72. PMID: 27211549
  • Lin CW, Yang WE, Lee WJ, Hua KT et al. Lipocalin 2 prevents oral cancer metastasis through carbonic anhydrase IX inhibition and is associated with favourable prognosis. Carcinogenesis 2016 Jul;37(7):712-722. PMID: 27207653
  • Vazirani RP, Verma A, Sadacca LA, Buckman MS et al. Disruption of Adipose Rab10-Dependent Insulin Signaling Causes Hepatic Insulin Resistance. Diabetes 2016 Jun;65(6):1577-89. PMID: 27207531
  • Wang M, Li Z, Chu H, Lv Q et al. Genome-Wide Association Study of Bladder Cancer in a Chinese Cohort Reveals a New Susceptibility Locus at 5q12.3. Cancer Res 2016 Jun 1;76(11):3277-84. PMID: 27206850
  • Ding Y, Zhou X, Zuo L, Wang H et al. Identification and functional characterization of the sulfate transporter gene GmSULTR1;2b in soybean. BMC Genomics 2016 May 20;17:373. PMID: 27206527
  • Dong Z, Huang M, Liu Z, Xie P et al. Focused screening of mitochondrial metabolism reveals a crucial role for a tumor suppressor Hbp1 in ovarian reserve. Cell Death Differ 2016 Oct;23(10):1602-14. PMID: 27206316
  • Ni TK, Kuperwasser C et al. Premature polyadenylation of MAGI3 produces a dominantly-acting oncogene in human breast cancer. Elife 2016 May 20;5. PMID: 27205883
  • Hsu CP, Chuang HC, Lee MC, Tsou HH et al. GLK/MAP4K3 overexpression associates with recurrence risk for non-small cell lung cancer. Oncotarget 2016 Jul 5;7(27):41748-41757. PMID: 27203390
  • Mourad R, Cuvier O et al. Computational Identification of Genomic Features That Influence 3D Chromatin Domain Formation. PLoS Comput Biol 2016 May;12(5):e1004908. PMID: 27203237
  • Lee SY, Park CH, Yoon JH, Yun S et al. GEE: An Informatics Tool for Gene Expression Data Explore. Healthc Inform Res 2016 Apr;22(2):81-8. PMID: 27200217
  • Bianchi V, Ceol A, Ogier AG, de Pretis S et al. Integrated Systems for NGS Data Management and Analysis: Open Issues and Available Solutions. Front Genet 2016;7:75. PMID: 27200084
  • Tong P, Diao L, Shen L, Li L et al. Selecting Reliable mRNA Expression Measurements Across Platforms Improves Downstream Analysis. Cancer Inform 2016;15:81-9. PMID: 27199546
  • Quail DF, Bowman RL, Akkari L, Quick ML et al. The tumor microenvironment underlies acquired resistance to CSF-1R inhibition in gliomas. Science 2016 May 20;352(6288):aad3018. PMID: 27199435
  • Nagashima T, Shirakawa H, Nakagawa T, Kaneko S et al. Prevention of antipsychotic-induced hyperglycaemia by vitamin D: a data mining prediction followed by experimental exploration of the molecular mechanism. Sci Rep 2016 May 20;6:26375. PMID: 27199286
  • Franks TM, Benner C, Narvaiza I, Marchetto MC et al. Evolution of a transcriptional regulator from a transmembrane nucleoporin. Genes Dev 2016 May 15;30(10):1155-71. PMID: 27198230
  • Yogev O, Barker K, Sikka A, Almeida GS et al. p53 Loss in MYC-Driven Neuroblastoma Leads to Metabolic Adaptations Supporting Radioresistance. Cancer Res 2016 May 15;76(10):3025-35. PMID: 27197232
  • Bemm F, Becker D, Larisch C, Kreuzer I et al. Venus flytrap carnivorous lifestyle builds on herbivore defense strategies. Genome Res 2016 Jun;26(6):812-25. PMID: 27197216
  • Hatzl S, Geiger O, Kuepper MK, Caraffini V et al. Increased Expression of miR-23a Mediates a Loss of Expression in the RAF Kinase Inhibitor Protein RKIP. Cancer Res 2016 Jun 15;76(12):3644-54. PMID: 27197200
  • Fehringer G, Kraft P, Pharoah PD, Eeles RA et al. Cross-Cancer Genome-Wide Analysis of Lung, Ovary, Breast, Prostate, and Colorectal Cancer Reveals Novel Pleiotropic Associations. Cancer Res 2016 Sep 1;76(17):5103-14. PMID: 27197191
  • Yang S, He P, Wang J, Schetter A et al. A Novel MIF Signaling Pathway Drives the Malignant Character of Pancreatic Cancer by Targeting NR3C2. Cancer Res 2016 Jul 1;76(13):3838-50. PMID: 27197190
  • Albino D, Civenni G, Dallavalle C, Roos M et al. Activation of the Lin28/let-7 Axis by Loss of ESE3/EHF Promotes a Tumorigenic and Stem-like Phenotype in Prostate Cancer. Cancer Res 2016 Jun 15;76(12):3629-43. PMID: 27197175
  • Hirata H, Sugimachi K, Komatsu H, Ueda M et al. Decreased Expression of Fructose-1,6-bisphosphatase Associates with Glucose Metabolism and Tumor Progression in Hepatocellular Carcinoma. Cancer Res 2016 Jun 1;76(11):3265-76. PMID: 27197151
  • Miller LD, Chou JA, Black MA, Print C et al. Immunogenic Subtypes of Breast Cancer Delineated by Gene Classifiers of Immune Responsiveness. Cancer Immunol Res 2016 Jul;4(7):600-10. PMID: 27197066
  • Gurard-Levin ZA, Wilson LO, Pancaldi V, Postel-Vinay S et al. Chromatin Regulators as a Guide for Cancer Treatment Choice. Mol Cancer Ther 2016 Jul;15(7):1768-77. PMID: 27196757
  • Nagar SD, Aggarwal B, Joon S, Bhatnagar R et al. A Network Biology Approach to Decipher Stress Response in Bacteria Using Escherichia coli As a Model. OMICS 2016 May;20(5):310-24. PMID: 27195968
  • Junier I, Rivoire O et al. Conserved Units of Co-Expression in Bacterial Genomes: An Evolutionary Insight into Transcriptional Regulation. PLoS One 2016;11(5):e0155740. PMID: 27195891
  • Reches A, Nachmani D, Berhani O, Duev-Cohen A et al. HNRNPR Regulates the Expression of Classical and Nonclassical MHC Class I Proteins. J Immunol 2016 Jun 15;196(12):4967-76. PMID: 27194785
  • Hooks KB, Naseeb S, Parker S, Griffiths-Jones S et al. Novel Intronic RNA Structures Contribute to Maintenance of Phenotype in Saccharomyces cerevisiae. Genetics 2016 Jul;203(3):1469-81. PMID: 27194751
  • Malacarne G, Coller E, Czemmel S, Vrhovsek U et al. The grapevine VvibZIPC22 transcription factor is involved in the regulation of flavonoid biosynthesis. J Exp Bot 2016 May;67(11):3509-22. PMID: 27194742
  • Wang X, Li Q, Yuan W, Cao Z et al. The cytosolic Fe-S cluster assembly component MET18 is required for the full enzymatic activity of ROS1 in active DNA demethylation. Sci Rep 2016 May 19;6:26443. PMID: 27193999
  • Li A, Wang R, Li X, Liu M et al. Proteomic profiling of cellulase-aid-extracted membrane proteins for functional identification of cellulose synthase complexes and their potential associated- components in cotton fibers. Sci Rep 2016 May 19;6:26356. PMID: 27192945
  • Sang M, Hulsurkar M, Zhang X, Song H et al. GRK3 is a direct target of CREB activation and regulates neuroendocrine differentiation of prostate cancer cells. Oncotarget 2016 Jul 19;7(29):45171-45185. PMID: 27191986
  • Tseng JC, Lin CY, Su LC, Fu HH et al. CAPE suppresses migration and invasion of prostate cancer cells via activation of non-canonical Wnt signaling. Oncotarget 2016 Jun 21;7(25):38010-38024. PMID: 27191743
  • Hudson CD, Savadelis A, Nagaraj AB, Joseph P et al. Altered glutamine metabolism in platinum resistant ovarian cancer. Oncotarget 2016 Jul 5;7(27):41637-41649. PMID: 27191653
  • Mebarki S, Désert R, Sulpice L, Sicard M et al. De novo HAPLN1 expression hallmarks Wnt-induced stem cell and fibrogenic networks leading to aggressive human hepatocellular carcinomas. Oncotarget 2016 Jun 28;7(26):39026-39043. PMID: 27191501
  • Strbenac D, Mann GJ, Yang JY, Ormerod JT et al. Differential distribution improves gene selection stability and has competitive classification performance for patient survival. Nucleic Acids Res 2016 Jul 27;44(13):e119. PMID: 27190235
  • Liu H, Mastriani E, Yan ZQ, Yin SY et al. SOX7 co-regulates Wnt/β-catenin signaling with Axin-2: both expressed at low levels in breast cancer. Sci Rep 2016 May 18;6:26136. PMID: 27188720
  • Vargas JE, Porto BN, Puga R, Stein RT et al. Identifying a biomarker network for corticosteroid resistance in asthma from bronchoalveolar lavage samples. Mol Biol Rep 2016 Jul;43(7):697-710. PMID: 27188427
  • Şener DD, Oğul H et al. Retrieving relevant time-course experiments: a study on Arabidopsis microarrays. IET Syst Biol 2016 Jun;10(3):87-93. PMID: 27187987
  • Yang J, Liu J, Ouyang L, Chen Y et al. CTLPScanner: a web server for chromothripsis-like pattern detection. Nucleic Acids Res 2016 Jul 8;44(W1):W252-8. PMID: 27185889
  • Faouzi M, Hague F, Geerts D, Ay AS et al. Functional cooperation between KCa3.1 and TRPC1 channels in human breast cancer: Role in cell proliferation and patient prognosis. Oncotarget 2016 Jun 14;7(24):36419-36435. PMID: 27183905
  • Patenaude J, Perreault C et al. Thymic Mesenchymal Cells Have a Distinct Transcriptomic Profile. J Immunol 2016 Jun 1;196(11):4760-70. PMID: 27183606
  • Wang Q, Ma S, Song N, Li X et al. Stabilization of histone demethylase PHF8 by USP7 promotes breast carcinogenesis. J Clin Invest 2016 Jun 1;126(6):2205-20. PMID: 27183383
  • Garg B, Pathria G, Wagner C, Maurer M et al. Signal Sequence Receptor 2 is required for survival of human melanoma cells as part of an unfolded protein response to endoplasmic reticulum stress. Mutagenesis 2016 Sep;31(5):573-82. PMID: 27180333
  • Zheng LL, Xu WL, Liu S, Sun WJ et al. tRF2Cancer: A web server to detect tRNA-derived small RNA fragments (tRFs) and their expression in multiple cancers. Nucleic Acids Res 2016 Jul 8;44(W1):W185-93. PMID: 27179031
  • Chang CW, Yang SF, Wang PH, Chang HJ et al. Association of the Genetic Polymorphisms RRM1 -756T>C and -269C>A With Cervical Neoplasia. Biol Res Nurs 2016 Oct;18(5):567-72. PMID: 27179014
  • Hu Y, Zhao Y et al. Molecular basis for differential light responses in Arabidopsis stems and leaves. Proc Natl Acad Sci U S A 2016 May 24;113(21):5774-6. PMID: 27179007
  • Krishnan P, Ghosh S, Graham K, Mackey JR et al. Piwi-interacting RNAs and PIWI genes as novel prognostic markers for breast cancer. Oncotarget 2016 Jun 21;7(25):37944-37956. PMID: 27177224
  • Wiedenhoeft J, Brugel E, Schliep A et al. Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. PLoS Comput Biol 2016 May;12(5):e1004871. PMID: 27177143
  • Zhang X, Tao T, Liu C, Guan H et al. Downregulation of miR-195 promotes prostate cancer progression by targeting HMGA1. Oncol Rep 2016 Jul;36(1):376-82. PMID: 27175617
  • Brasseur K, Fabi F, Adam P, Parent S et al. Post-translational regulation of the cleaved fragment of Par-4 in ovarian and endometrial cancer cells. Oncotarget 2016 Jun 14;7(24):36971-36987. PMID: 27175591
  • Berns K, Sonnenblick A, Gennissen A, Brohée S et al. Loss of ARID1A Activates ANXA1, which Serves as a Predictive Biomarker for Trastuzumab Resistance. Clin Cancer Res 2016 Nov 1;22(21):5238-5248. PMID: 27172896
  • Seymour M, Ji L, Santos AM, Kamei M et al. Histone H1 Limits DNA Methylation in Neurospora crassa. G3 (Bethesda) 2016 Jul 7;6(7):1879-89. PMID: 27172195
  • Khedkar S, Seshasayee AS et al. Comparative Genomics of Interreplichore Translocations in Bacteria: A Measure of Chromosome Topology? G3 (Bethesda) 2016 Jun 1;6(6):1597-606. PMID: 27172194
  • Arbeitman MN, New FN, Fear JM, Howard TS et al. Sex Differences in Drosophila Somatic Gene Expression: Variation and Regulation by doublesex. G3 (Bethesda) 2016 Jul 7;6(7):1799-808. PMID: 27172187
  • Liu L, Yin X, Wen L, Yang C et al. Several Critical Cell Types, Tissues, and Pathways Are Implicated in Genome-Wide Association Studies for Systemic Lupus Erythematosus. G3 (Bethesda) 2016 Jun 1;6(6):1503-11. PMID: 27172182
  • Wang J, Wang CD, Zhang N, Tong WX et al. Mechanical stimulation orchestrates the osteogenic differentiation of human bone marrow stromal cells by regulating HDAC1. Cell Death Dis 2016 May 12;7(5):e2221. PMID: 27171263
  • Taguchi YHIdentification of More Feasible MicroRNA-mRNA Interactions within Multiple Cancers Using Principal Component Analysis Based Unsupervised Feature Extraction. Int J Mol Sci 2016 May 10;17(5). PMID: 27171078
  • Chabbert CD, Steinmetz LM, Klaus B et al. DChIPRep, an R/Bioconductor package for differential enrichment analysis in chromatin studies. PeerJ 2016;4:e1981. PMID: 27168989
  • Ma C, Ying Y, Zhang T, Zhang W et al. Establishment of a prediction model of changing trends in cardiac hypertrophy disease based on microarray data screening. Exp Ther Med 2016 May;11(5):1734-1740. PMID: 27168795
  • Naulaerts S, Moens S, Engelen K, Berghe WV et al. Practical Approaches for Mining Frequent Patterns in Molecular Datasets. Bioinform Biol Insights 2016;10:37-47. PMID: 27168722
  • Muter J, Brighton PJ, Lucas ES, Lacey L et al. Progesterone-Dependent Induction of Phospholipase C-Related Catalytically Inactive Protein 1 (PRIP-1) in Decidualizing Human Endometrial Stromal Cells. Endocrinology 2016 Jul;157(7):2883-93. PMID: 27167772
  • Cheng CP, Huang LC, Chang YL, Hsieh CH et al. The mechanisms of malic enzyme 2 in the tumorigenesis of human gliomas. Oncotarget 2016 Jul 5;7(27):41460-41472. PMID: 27166188
  • Sigdel TK, Gao Y, He J, Wang A et al. Mining the human urine proteome for monitoring renal transplant injury. Kidney Int 2016 Jun;89(6):1244-52. PMID: 27165815
  • Fulford L, Milewski D, Ustiyan V, Ravishankar N et al. The transcription factor FOXF1 promotes prostate cancer by stimulating the mitogen-activated protein kinase ERK5. Sci Signal 2016 May 10;9(427):ra48. PMID: 27165781
  • Pfaffenseller B, da Silva Magalhães PV, De Bastiani MA, Castro MA et al. Differential expression of transcriptional regulatory units in the prefrontal cortex of patients with bipolar disorder: potential role of early growth response gene 3. Transl Psychiatry 2016 May 10;6(5):e805. PMID: 27163206
  • Joo MS, Kim WD, Lee KY, Kim JH et al. AMPK Facilitates Nuclear Accumulation of Nrf2 by Phosphorylating at Serine 550. Mol Cell Biol 2016 Jul 15;36(14):1931-42. PMID: 27161318
  • Wise R, Duhachek-Muggy S, Qi Y, Zolkiewski M et al. Protein disulfide isomerases in the endoplasmic reticulum promote anchorage-independent growth of breast cancer cells. Breast Cancer Res Treat 2016 Jun;157(2):241-252. PMID: 27161215
  • Liu Y, Wang Y, Teng Z, Zhang X et al. DNA Microarray Analysis in Screening Features of Genes Involved in Spinal Cord Injury. Med Sci Monit 2016 May 10;22:1571-81. PMID: 27160807
  • He L, Sheng Y, Huang C, Huang G et al. Identification of Differentially Expressed Genes in Kawasaki Disease Patients as Potential Biomarkers for IVIG Sensitivity by Bioinformatics Analysis. Pediatr Cardiol 2016 Aug;37(6):1003-12. PMID: 27160104
  • Zhang L, Wang SB, Li QG, Song J et al. An Integrated Bioinformatics Analysis Reveals Divergent Evolutionary Pattern of Oil Biosynthesis in High- and Low-Oil Plants. PLoS One 2016;11(5):e0154882. PMID: 27159078
  • Tsai LY, Chang YW, Lee MC, Chang YC et al. Biphasic and Stage-Associated Expression of CPEB4 in Hepatocellular Carcinoma. PLoS One 2016;11(5):e0155025. PMID: 27158894
  • Rinchai D, Boughorbel S, Presnell S, Quinn C et al. A curated compendium of monocyte transcriptome datasets of relevance to human monocyte immunobiology research. F1000Res 2016;5:291. PMID: 27158452
  • Hargis KE, Blalock EM et al. Transcriptional signatures of brain aging and Alzheimer's disease: What are our rodent models telling us? Behav Brain Res 2017 Mar 30;322(Pt B):311-328. PMID: 27155503
  • Jiao J, Ooka K, Fey H, Fiel MI et al. Interleukin-15 receptor α on hepatic stellate cells regulates hepatic fibrogenesis in mice. J Hepatol 2016 Aug;65(2):344-353. PMID: 27154062
  • Chen P, Liu R, Li Y, Chen L et al. Detecting critical state before phase transition of complex biological systems by hidden Markov model. Bioinformatics 2016 Jul 15;32(14):2143-50. PMID: 27153710
  • Niu L, Xu Z, Taylor JA et al. RCP: a novel probe design bias correction method for Illumina Methylation BeadChip. Bioinformatics 2016 Sep 1;32(17):2659-63. PMID: 27153672
  • Christinat Y, Pawłowski R, Krek W et al. jSplice: a high-performance method for accurate prediction of alternative splicing events and its application to large-scale renal cancer transcriptome data. Bioinformatics 2016 Jul 15;32(14):2111-9. PMID: 27153587
  • Charlet J, Duymich CE, Lay FD, Mundbjerg K et al. Bivalent Regions of Cytosine Methylation and H3K27 Acetylation Suggest an Active Role for DNA Methylation at Enhancers. Mol Cell 2016 May 5;62(3):422-431. PMID: 27153539
  • Schaefer KA, Toral MA, Velez G, Cox AJ et al. Calpain-5 Expression in the Retina Localizes to Photoreceptor Synapses. Invest Ophthalmol Vis Sci 2016 May 1;57(6):2509-21. PMID: 27152965
  • Georgescu I, Gooding RJ, Doiron RC, Day A et al. Molecular characterization of Gleason patterns 3 and 4 prostate cancer using reverse Warburg effect-associated genes. Cancer Metab 2016;4:8. PMID: 27152194
  • Dunne PD, McArt DG, Bradley CA, O'Reilly PG et al. Challenging the Cancer Molecular Stratification Dogma: Intratumoral Heterogeneity Undermines Consensus Molecular Subtypes and Potential Diagnostic Value in Colorectal Cancer. Clin Cancer Res 2016 Aug 15;22(16):4095-104. PMID: 27151745
  • He W, Chen S, Chen X, Li S et al. Bioinformatic Analysis of Potential microRNAs in Ischemic Stroke. J Stroke Cerebrovasc Dis 2016 Jul;25(7):1753-1759. PMID: 27151415
  • Kan JY, Yen MC, Wang JY, Wu DC et al. Nesfatin-1/Nucleobindin-2 enhances cell migration, invasion, and epithelial-mesenchymal transition via LKB1/AMPK/TORC1/ZEB1 pathways in colon cancer. Oncotarget 2016 May 24;7(21):31336-49. PMID: 27150059
  • Chang CC, Zhang C, Zhang Q, Sahin O et al. Upregulation of lactate dehydrogenase a by 14-3-3ζ leads to increased glycolysis critical for breast cancer initiation and progression. Oncotarget 2016 Jun 7;7(23):35270-83. PMID: 27150057
  • Pfefferle AD, Agrawal YN, Koboldt DC, Kanchi KL et al. Genomic profiling of murine mammary tumors identifies potential personalized drug targets for p53-deficient mammary cancers. Dis Model Mech 2016 Jul 1;9(7):749-57. PMID: 27149990
  • Drelon C, Berthon A, Mathieu M, Ragazzon B et al. EZH2 is overexpressed in adrenocortical carcinoma and is associated with disease progression. Hum Mol Genet 2016 Jul 1;25(13):2789-2800. PMID: 27149985
  • Li J, Hardy K, Phetsouphanh C, Tu WJ et al. Nuclear PKC-θ facilitates rapid transcriptional responses in human memory CD4+ T cells through p65 and H2B phosphorylation. J Cell Sci 2016 Jun 15;129(12):2448-61. PMID: 27149922
  • Parker JD, Shen Y, Pleasance E, Li Y et al. Molecular etiology of an indolent lymphoproliferative disorder determined by whole-genome sequencing. Cold Spring Harb Mol Case Stud 2016 Mar;2(2):a000679. PMID: 27148583
  • Fang L, Zhang M, Li Y, Liu Y et al. PPARgene: A Database of Experimentally Verified and Computationally Predicted PPAR Target Genes. PPAR Res 2016;2016:6042162. PMID: 27148361
  • Shi L, Eugenin EA, Subbian S et al. Immunometabolism in Tuberculosis. Front Immunol 2016;7:150. PMID: 27148269
  • Davis-Richardson AG, Russell JT, Dias R, McKinlay AJ et al. Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis. Front Microbiol 2016;7:518. PMID: 27148207
  • Özcan E, Çakır T et al. Reconstructed Metabolic Network Models Predict Flux-Level Metabolic Reprogramming in Glioblastoma. Front Neurosci 2016;10:156. PMID: 27147948
  • Sun TT, He J, Liang Q, Ren LL et al. LncRNA GClnc1 Promotes Gastric Carcinogenesis and May Act as a Modular Scaffold of WDR5 and KAT2A Complexes to Specify the Histone Modification Pattern. Cancer Discov 2016 Jul;6(7):784-801. PMID: 27147598
  • Pan CW, Liu H, Zhao Y, Qian C et al. JNK2 downregulation promotes tumorigenesis and chemoresistance by decreasing p53 stability in bladder cancer. Oncotarget 2016 Jun 7;7(23):35119-31. PMID: 27147566
  • Wang ZL, Li B, Piccolo SR, Zhang XQ et al. Integrative analysis reveals clinical phenotypes and oncogenic potentials of long non-coding RNAs across 15 cancer types. Oncotarget 2016 Jun 7;7(23):35044-55. PMID: 27147563
  • Fu L, Wu H, Cheng SY, Gao D et al. Set7 mediated Gli3 methylation plays a positive role in the activation of Sonic Hedgehog pathway in mammals. Elife 2016 May 5;5. PMID: 27146893
  • Tobalina L, Pey J, Rezola A, Planes FJ et al. Assessment of FBA Based Gene Essentiality Analysis in Cancer with a Fast Context-Specific Network Reconstruction Method. PLoS One 2016;11(5):e0154583. PMID: 27145226
  • Fu X, Chen G, Cai ZD, Wang C et al. Overexpression of BUB1B contributes to progression of prostate cancer and predicts poor outcome in patients with prostate cancer. Onco Targets Ther 2016;9:2211-20. PMID: 27143916
  • Peters DT, Henderson CA, Warren CR, Friesen M et al. Asialoglycoprotein receptor 1 is a specific cell-surface marker for isolating hepatocytes derived from human pluripotent stem cells. Development 2016 May 1;143(9):1475-81. PMID: 27143754
  • Cicchini L, Westrich JA, Xu T, Vermeer DW et al. Suppression of Antitumor Immune Responses by Human Papillomavirus through Epigenetic Downregulation of CXCL14. mBio 2016 May 3;7(3). PMID: 27143385
  • Li C, Li X, Wu L, Jiang Z et al. Elevated AQP1 Expression Is Associated With Unfavorable Oncologic Outcome in Patients With Hilar Cholangiocarcinoma. Technol Cancer Res Treat 2017 Aug;16(4):421-427. PMID: 27143047
  • Amin N, Allebrandt KV, van der Spek A, Müller-Myhsok B et al. Genetic variants in RBFOX3 are associated with sleep latency. Eur J Hum Genet 2016 Oct;24(10):1488-95. PMID: 27142678
  • McGregor K, Bernatsky S, Colmegna I, Hudson M et al. An evaluation of methods correcting for cell-type heterogeneity in DNA methylation studies. Genome Biol 2016 May 3;17:84. PMID: 27142380
  • Galeota E, Pelizzola M et al. Ontology-based annotations and semantic relations in large-scale (epi)genomics data. Brief Bioinform 2017 May 1;18(3):403-412. PMID: 27142216
  • Li Y, Schulz VP, Deng C, Li G et al. Setd1a and NURF mediate chromatin dynamics and gene regulation during erythroid lineage commitment and differentiation. Nucleic Acids Res 2016 Sep 6;44(15):7173-88. PMID: 27141965
  • Kuleshov MV, Jones MR, Rouillard AD, Fernandez NF et al. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res 2016 Jul 8;44(W1):W90-7. PMID: 27141961
  • Marthandan S, Baumgart M, Priebe S, Groth M et al. Conserved Senescence Associated Genes and Pathways in Primary Human Fibroblasts Detected by RNA-Seq. PLoS One 2016;11(5):e0154531. PMID: 27140416
  • Çelik H, Bulut G, Han J, Graham GT et al. Ezrin Inhibition Up-regulates Stress Response Gene Expression. J Biol Chem 2016 Jun 17;291(25):13257-70. PMID: 27137931
  • Al-Temaimi RA, Tan TZ, Marafie MJ, Thiery JP et al. Identification of 42 Genes Linked to Stage II Colorectal Cancer Metastatic Relapse. Int J Mol Sci 2016 Apr 28;17(5). PMID: 27136531
  • Huang HH, Liu XY, Liang Y et al. Feature Selection and Cancer Classification via Sparse Logistic Regression with the Hybrid L1/2 +2 Regularization. PLoS One 2016;11(5):e0149675. PMID: 27136190
  • Rapp YG, Ransbotyn V, Grafi G et al. Senescence Meets Dedifferentiation. Plants (Basel) 2015 Jun 29;4(3):356-68. PMID: 27135333
  • Blazkova J, Boughorbel S, Presnell S, Quinn C et al. A curated transcriptome dataset collection to investigate the immunobiology of HIV infection. F1000Res 2016;5:327. PMID: 27134731
  • Wang F, Gao C, Lu J, Tatetsu H et al. Leukemic survival factor SALL4 contributes to defective DNA damage repair. Oncogene 2016 Nov 24;35(47):6087-6095. PMID: 27132514
  • Kawakami E, Nakaoka S, Ohta T, Kitano H et al. Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data. Nucleic Acids Res 2016 Jun 20;44(11):5010-21. PMID: 27131787
  • Qin W, Li X, Xie L, Li S et al. A long non-coding RNA, APOA4-AS, regulates APOA4 expression depending on HuR in mice. Nucleic Acids Res 2016 Jul 27;44(13):6423-33. PMID: 27131369
  • Backes C, Khaleeq QT, Meese E, Keller A et al. miEAA: microRNA enrichment analysis and annotation. Nucleic Acids Res 2016 Jul 8;44(W1):W110-6. PMID: 27131362
  • Bhuvaneshwar K, Belouali A, Singh V, Johnson RM et al. G-DOC Plus - an integrative bioinformatics platform for precision medicine. BMC Bioinformatics 2016 Apr 30;17(1):193. PMID: 27130330
  • Kim SH, Kaschula CH, Priedigkeit N, Lee AV et al. Forkhead Box Q1 Is a Novel Target of Breast Cancer Stem Cell Inhibition by Diallyl Trisulfide. J Biol Chem 2016 Jun 24;291(26):13495-508. PMID: 27129776
  • Hörber S, Hildebrand DG, Lieb WS, Lorscheid S et al. The Atypical Inhibitor of NF-κB, IκBζ, Controls Macrophage Interleukin-10 Expression. J Biol Chem 2016 Jun 10;291(24):12851-12861. PMID: 27129283
  • Liu Y, Zhang B, Kuang H, Korakavi G et al. Zinc Finger Protein 618 Regulates the Function of UHRF2 (Ubiquitin-like with PHD and Ring Finger Domains 2) as a Specific 5-Hydroxymethylcytosine Reader. J Biol Chem 2016 Jun 24;291(26):13679-88. PMID: 27129234
  • Chen Y, Pan K, Wang P, Cao Z et al. HBP1-mediated Regulation of p21 Protein through the Mdm2/p53 and TCF4/EZH2 Pathways and Its Impact on Cell Senescence and Tumorigenesis. J Biol Chem 2016 Jun 10;291(24):12688-12705. PMID: 27129219
  • Neely BA, Wilkins CE, Marlow LA, Malyarenko D et al. Proteotranscriptomic Analysis Reveals Stage Specific Changes in the Molecular Landscape of Clear-Cell Renal Cell Carcinoma. PLoS One 2016;11(4):e0154074. PMID: 27128972
  • Borup R, Thuesen LL, Andersen CY, Nyboe-Andersen A et al. Competence Classification of Cumulus and Granulosa Cell Transcriptome in Embryos Matched by Morphology and Female Age. PLoS One 2016;11(4):e0153562. PMID: 27128483
  • Saba NS, Liu D, Herman SE, Underbayev C et al. Pathogenic role of B-cell receptor signaling and canonical NF-κB activation in mantle cell lymphoma. Blood 2016 Jul 7;128(1):82-92. PMID: 27127301
  • Zhang H, Ryu D, Wu Y, Gariani K et al. NAD⁺ repletion improves mitochondrial and stem cell function and enhances life span in mice. Science 2016 Jun 17;352(6292):1436-43. PMID: 27127236
  • Rialdi A, Campisi L, Zhao N, Lagda AC et al. Topoisomerase 1 inhibition suppresses inflammatory genes and protects from death by inflammation. Science 2016 May 27;352(6289):aad7993. PMID: 27127234
  • Xu H, Li C, Zeng Q, Agrawal I et al. Genome-wide identification of suitable zebrafish Danio rerio reference genes for normalization of gene expression data by RT-qPCR. J Fish Biol 2016 Jun;88(6):2095-110. PMID: 27126589
  • Kuang J, Zhao M, Li H, Dang W et al. Identification of potential therapeutic target genes and mechanisms in head and neck squamous cell carcinoma by bioinformatics analysis. Oncol Lett 2016 May;11(5):3009-3014. PMID: 27123054
  • Rodriguez-Gil A, Ritter O, Hornung J, Stekman H et al. HIPK family kinases bind and regulate the function of the CCR4-NOT complex. Mol Biol Cell 2016 Jun 15;27(12):1969-80. PMID: 27122605
  • Lun AT, Bach K, Marioni JC et al. Pooling across cells to normalize single-cell RNA sequencing data with many zero counts. Genome Biol 2016 Apr 27;17:75. PMID: 27122128
  • Hashimshony T, Senderovich N, Avital G, Klochendler A et al. CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq. Genome Biol 2016 Apr 28;17:77. PMID: 27121950
  • Yang Y, Xing Y, Liang C, Hu L et al. An examination of the regulatory mechanism of Pxdn mutation-induced eye disorders using microarray analysis. Int J Mol Med 2016 Jun;37(6):1449-56. PMID: 27121343
  • Yue J, Xu W, Ban R, Huang S et al. PTIR: Predicted Tomato Interactome Resource. Sci Rep 2016 Apr 28;6:25047. PMID: 27121261
  • Ke J, Lou J, Zhong R, Chen X et al. Identification of a Potential Regulatory Variant for Colorectal Cancer Risk Mapping to 3p21.31 in Chinese Population. Sci Rep 2016 Apr 28;6:25194. PMID: 27120998
  • Kirkland TNA few shared up-regulated genes may influence conidia to yeast transformation in dimorphic fungal pathogens. Med Mycol 2016 Aug 1;54(6):648-53. PMID: 27118798
  • Massie CE, Mills IG, Lynch AG et al. The importance of DNA methylation in prostate cancer development. J Steroid Biochem Mol Biol 2017 Feb;166:1-15. PMID: 27117390
  • Tapak L, Mahjub H, Sadeghifar M, Saidijam M et al. Predicting the Survival Time for Bladder Cancer Using an Additive Hazards Model in Microarray Data. Iran J Public Health 2016 Feb;45(2):239-48. PMID: 27114989
  • Gunapati S, Naresh R, Ranjan S, Nigam D et al. Expression of GhNAC2 from G. herbaceum, improves root growth and imparts tolerance to drought in transgenic cotton and Arabidopsis. Sci Rep 2016 Apr 26;6:24978. PMID: 27113714
  • Sudo T, Yokota T, Okuzaki D, Ueda T et al. Endothelial Cell-Selective Adhesion Molecule Expression in Hematopoietic Stem/Progenitor Cells Is Essential for Erythropoiesis Recovery after Bone Marrow Injury. PLoS One 2016;11(4):e0154189. PMID: 27111450
  • Nunnari G, Fagone P, Condorelli F, Nicoletti F et al. CD4+ T-cell gene expression of healthy donors, HIV-1 and elite controllers: Immunological chaos. Cytokine 2016 Jul;83:127-135. PMID: 27108398
  • Kimmel M, Clive M, Gispen F, Guintivano J et al. Oxytocin receptor DNA methylation in postpartum depression. Psychoneuroendocrinology 2016 Jul;69:150-60. PMID: 27108164
  • Fagone P, Nunnari G, Lazzara F, Longo A et al. Induction of OAS gene family in HIV monocyte infected patients with high and low viral load. Antiviral Res 2016 Jul;131:66-73. PMID: 27107898
  • Teng M, Love MI, Davis CA, Djebali S et al. A benchmark for RNA-seq quantification pipelines. Genome Biol 2016 Apr 23;17:74. PMID: 27107712
  • Torosyan Y, Hu Y, Hoffman S, Luo Q et al. An in silico framework for integrating epidemiologic and genetic evidence with health care applications: ventilation-related pneumothorax as a case illustration. J Am Med Inform Assoc 2016 Jul;23(4):711-20. PMID: 27107435
  • Birnbaum DJ, Bertucci F, Finetti P, Adélaïde J et al. Expression of Genes with Copy Number Alterations and Survival of Patients with Pancreatic Adenocarcinoma. Cancer Genomics Proteomics 2016 May-Jun;13(3):191-200. PMID: 27107061
  • Ledur PF, Liu C, He H, Harris AR et al. Culture conditions tailored to the cell of origin are critical for maintaining native properties and tumorigenicity of glioma cells. Neuro Oncol 2016 Oct;18(10):1413-24. PMID: 27106408
  • Zhou M, Xu W, Yue X, Zhao H et al. Relapse-related long non-coding RNA signature to improve prognosis prediction of lung adenocarcinoma. Oncotarget 2016 May 17;7(20):29720-38. PMID: 27105492
  • Gross AM, Jaeger PA, Kreisberg JF, Licon K et al. Methylome-wide Analysis of Chronic HIV Infection Reveals Five-Year Increase in Biological Age and Epigenetic Targeting of HLA. Mol Cell 2016 Apr 21;62(2):157-168. PMID: 27105112
  • Li L, Silveira LJ, Hamzeh N, Gillespie M et al. Beryllium-induced lung disease exhibits expression profiles similar to sarcoidosis. Eur Respir J 2016 Jun;47(6):1797-808. PMID: 27103383
  • Yu L, Fan Z, Fang S, Yang J et al. Cisplatin selects for stem-like cells in osteosarcoma by activating Notch signaling. Oncotarget 2016 May 31;7(22):33055-68. PMID: 27102300
  • Gouignard N, Maccarana M, Strate I, von Stedingk K et al. Musculocontractural Ehlers-Danlos syndrome and neurocristopathies: dermatan sulfate is required for Xenopus neural crest cells to migrate and adhere to fibronectin. Dis Model Mech 2016 Jun 1;9(6):607-20. PMID: 27101845
  • Tessem MB, Bertilsson H, Angelsen A, Bathen TF et al. A Balanced Tissue Composition Reveals New Metabolic and Gene Expression Markers in Prostate Cancer. PLoS One 2016;11(4):e0153727. PMID: 27100877
  • Shen X, Yi L, Jiang X, He T et al. Mining Temporal Protein Complex Based on the Dynamic PIN Weighted with Connected Affinity and Gene Co-Expression. PLoS One 2016;11(4):e0153967. PMID: 27100396
  • Alves da Silva AF, Machado FB, Pavarino ÉC, Biselli-Périco JM et al. Trisomy 21 Alters DNA Methylation in Parent-of-Origin-Dependent and -Independent Manners. PLoS One 2016;11(4):e0154108. PMID: 27100087
  • Perovanovic J, Dell'Orso S, Gnochi VF, Jaiswal JK et al. Laminopathies disrupt epigenomic developmental programs and cell fate. Sci Transl Med 2016 Apr 20;8(335):335ra58. PMID: 27099177
  • Zhou X, Li R, Michal JJ, Wu XL et al. Accurate Profiling of Gene Expression and Alternative Polyadenylation with Whole Transcriptome Termini Site Sequencing (WTTS-Seq). Genetics 2016 Jun;203(2):683-97. PMID: 27098915
  • Liu YZ, Yang H, Cao J, Jiang YY et al. KIAA1522 is a novel prognostic biomarker in patients with non-small cell lung cancer. Sci Rep 2016 Apr 21;6:24786. PMID: 27098511
  • Sergushichev AA, Loboda AA, Jha AK, Vincent EE et al. GAM: a web-service for integrated transcriptional and metabolic network analysis. Nucleic Acids Res 2016 Jul 8;44(W1):W194-200. PMID: 27098040
  • Rykunov D, Beckmann ND, Li H, Uzilov A et al. A new molecular signature method for prediction of driver cancer pathways from transcriptional data. Nucleic Acids Res 2016 Jun 20;44(11):e110. PMID: 27098033
  • Riba M, Garcia Manteiga JM, Bošnjak B, Cittaro D et al. Revealing the acute asthma ignorome: characterization and validation of uninvestigated gene networks. Sci Rep 2016 Apr 21;6:24647. PMID: 27097888
  • Li J, Huang Z, Wei L et al. Bioinformatics analysis of the gene expression profile of hepatocellular carcinoma: preliminary results. Contemp Oncol (Pozn) 2016;20(1):20-7. PMID: 27095935
  • Montagnani V, Benelli M, Apollo A, Pescucci C et al. Thin and thick primary cutaneous melanomas reveal distinct patterns of somatic copy number alterations. Oncotarget 2016 May 24;7(21):30365-78. PMID: 27095580
  • Francoz E, Ranocha P, Pernot C, Le Ru A et al. Complementarity of medium-throughput in situ RNA hybridization and tissue-specific transcriptomics: case study of Arabidopsis seed development kinetics. Sci Rep 2016 Apr 20;6:24644. PMID: 27095274
  • Pundhir S, Bagger FO, Lauridsen FB, Rapin N et al. Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality. Nucleic Acids Res 2016 May 19;44(9):4037-51. PMID: 27095194
  • Yang SF, Bier-Laning CM, Adams W, Zilliox MJ et al. Candidate Biomarkers for HPV-Negative Head and Neck Cancer Identified via Gene Expression Barcode Analysis. Otolaryngol Head Neck Surg 2016 Sep;155(3):416-22. PMID: 27095047
  • He DX, Gu F, Gao F, Hao JJ et al. Genome-wide profiles of methylation, microRNAs, and gene expression in chemoresistant breast cancer. Sci Rep 2016 Apr 20;6:24706. PMID: 27094684
  • Xu Q, Zhang X et al. The Influence of the Global Gene Expression Shift on Downstream Analyses. PLoS One 2016;11(4):e0153903. PMID: 27092944
  • Orlanski S, Labi V, Reizel Y, Spiro A et al. Tissue-specific DNA demethylation is required for proper B-cell differentiation and function. Proc Natl Acad Sci U S A 2016 May 3;113(18):5018-23. PMID: 27091986
  • Schwaiger M, Grinberg M, Moser D, Zang JC et al. Altered Stress-Induced Regulation of Genes in Monocytes in Adults with a History of Childhood Adversity. Neuropsychopharmacology 2016 Sep;41(10):2530-40. PMID: 27091381
  • Chang CW, Lu TP, She CX, Feng YC et al. Gene-set Analysis with CGI Information for Differential DNA Methylation Profiling. Sci Rep 2016 Apr 19;6:24666. PMID: 27090937
  • Andorfer P, Heuwieser A, Heinzel A, Lukas A et al. Vascular endothelial growth factor A as predictive marker for mTOR inhibition in relapsing high-grade serous ovarian cancer. BMC Syst Biol 2016 Apr 18;10:33. PMID: 27090655
  • Kumar A, Chalamalasetty RB, Kennedy MW, Thomas S et al. Zfp703 Is a Wnt/β-Catenin Feedback Suppressor Targeting the β-Catenin/Tcf1 Complex. Mol Cell Biol 2016 Jun 15;36(12):1793-802. PMID: 27090637
  • Carlevaro-Fita J, Rahim A, Guigó R, Vardy LA et al. Cytoplasmic long noncoding RNAs are frequently bound to and degraded at ribosomes in human cells. RNA 2016 Jun;22(6):867-82. PMID: 27090285
  • Hao Y, Wu W, Li H, Yuan J et al. NPInter v3.0: an upgraded database of noncoding RNA-associated interactions. Database (Oxford) 2016;2016. PMID: 27087310
  • Huang CJ, Lee CL, Yang SH, Chien CC et al. Upregulation of the growth arrest-specific-2 in recurrent colorectal cancers, and its susceptibility to chemotherapy in a model cell system. Biochim Biophys Acta 2016 Jul;1862(7):1345-53. PMID: 27085973
  • Kenigsberg E, Yehuda Y, Marjavaara L, Keszthelyi A et al. The mutation spectrum in genomic late replication domains shapes mammalian GC content. Nucleic Acids Res 2016 May 19;44(9):4222-32. PMID: 27085808
  • Bhardwaj S, Schlackow M, Rabajdova M, Gullerova M et al. Transcription facilitates sister chromatid cohesion on chromosomal arms. Nucleic Acids Res 2016 Aug 19;44(14):6676-92. PMID: 27084937
  • Dekervel J, Popovic D, van Malenstein H, Windmolders P et al. A Global Risk Score (GRS) to Simultaneously Predict Early and Late Tumor Recurrence Risk after Resection of Hepatocellular Carcinoma. Transl Oncol 2016 Apr;9(2):139-146. PMID: 27084430
  • Wang X, Li T, Wang W, Yuan W et al. Cytokine-like 1 Chemoattracts Monocytes/Macrophages via CCR2. J Immunol 2016 May 15;196(10):4090-9. PMID: 27084102
  • Ghosh A, Islam T et al. Genome-wide analysis and expression profiling of glyoxalase gene families in soybean (Glycine max) indicate their development and abiotic stress specific response. BMC Plant Biol 2016 Apr 16;16:87. PMID: 27083416
  • Wang T, Wang B et al. Identification of microRNA-mRNA interactions in atrial fibrillation using microarray expression profiles and bioinformatics analysis. Mol Med Rep 2016 Jun;13(6):4535-40. PMID: 27082053
  • Weerts MJ, Sieuwerts AM, Smid M, Look MP et al. Mitochondrial DNA content in breast cancer: Impact on in vitro and in vivo phenotype and patient prognosis. Oncotarget 2016 May 17;7(20):29166-76. PMID: 27081694
  • Zhu Q, Izumchenko E, Aliper AM, Makarev E et al. Pathway activation strength is a novel independent prognostic biomarker for cetuximab sensitivity in colorectal cancer patients. Hum Genome Var 2015;2:15009. PMID: 27081524
  • Ramírez F, Ryan DP, Grüning B, Bhardwaj V et al. deepTools2: a next generation web server for deep-sequencing data analysis. Nucleic Acids Res 2016 Jul 8;44(W1):W160-5. PMID: 27079975
  • Dao P, Wojtowicz D, Nelson S, Levens D et al. Ups and Downs of Poised RNA Polymerase II in B-Cells. PLoS Comput Biol 2016 Apr;12(4):e1004821. PMID: 27078128
  • Vandenbon A, Dinh VH, Mikami N, Kitagawa Y et al. Immuno-Navigator, a batch-corrected coexpression database, reveals cell type-specific gene networks in the immune system. Proc Natl Acad Sci U S A 2016 Apr 26;113(17):E2393-402. PMID: 27078110
  • Börnigen D, Tyekucheva S, Wang X, Rider JR et al. Computational Reconstruction of NFκB Pathway Interaction Mechanisms during Prostate Cancer. PLoS Comput Biol 2016 Apr;12(4):e1004820. PMID: 27078000
  • Hoffmann J, Wilhelm J, Olschewski A, Kwapiszewska G et al. Microarray analysis in pulmonary hypertension. Eur Respir J 2016 Jul;48(1):229-41. PMID: 27076594
  • Baker JL, Dunn KA, Mingrone J, Wood BA et al. Functional Divergence of the Nuclear Receptor NR2C1 as a Modulator of Pluripotentiality During Hominid Evolution. Genetics 2016 Jun;203(2):905-22. PMID: 27075724
  • Zhuang Q, Zhou T, He C, Zhang S et al. Protein phosphatase 2A-B55δ enhances chemotherapy sensitivity of human hepatocellular carcinoma under the regulation of microRNA-133b. J Exp Clin Cancer Res 2016 Apr 14;35:67. PMID: 27074866
  • Klasić M, Krištić J, Korać P, Horvat T et al. DNA hypomethylation upregulates expression of the MGAT3 gene in HepG2 cells and leads to changes in N-glycosylation of secreted glycoproteins. Sci Rep 2016 Apr 13;6:24363. PMID: 27073020
  • Matsushita R, Yoshino H, Enokida H, Goto Y et al. Regulation of UHRF1 by dual-strand tumor-suppressor microRNA-145 (miR-145-5p and miR-145-3p): Inhibition of bladder cancer cell aggressiveness. Oncotarget 2016 May 10;7(19):28460-87. PMID: 27072587
  • Ciryam P, Kundra R, Freer R, Morimoto RI et al. A transcriptional signature of Alzheimer's disease is associated with a metastable subproteome at risk for aggregation. Proc Natl Acad Sci U S A 2016 Apr 26;113(17):4753-8. PMID: 27071083
  • Goto Y, Kojima S, Kurozumi A, Kato M et al. Regulation of E3 ubiquitin ligase-1 (WWP1) by microRNA-452 inhibits cancer cell migration and invasion in prostate cancer. Br J Cancer 2016 May 10;114(10):1135-44. PMID: 27070713
  • Yang Y, Kelly P, Shaffer AL 3rd, Schmitz R et al. Targeting Non-proteolytic Protein Ubiquitination for the Treatment of Diffuse Large B Cell Lymphoma. Cancer Cell 2016 Apr 11;29(4):494-507. PMID: 27070702
  • Bachy E, Urb M, Chandra S, Robinot R et al. CD1d-restricted peripheral T cell lymphoma in mice and humans. J Exp Med 2016 May 2;213(5):841-57. PMID: 27069116
  • Lu Y, Shan G, Xue J, Chen C et al. Defining the multivalent functions of CTCF from chromatin state and three-dimensional chromatin interactions. Nucleic Acids Res 2016 Jul 27;44(13):6200-12. PMID: 27067545
  • Park JH, Choi Y, Song MJ, Park K et al. Dynamic Long-Range Chromatin Interaction Controls Expression of IL-21 in CD4+ T Cells. J Immunol 2016 May 15;196(10):4378-89. PMID: 27067007
  • Shi X, Wang Q, Gu J, Xuan Z et al. SMARCA4/Brg1 coordinates genetic and epigenetic networks underlying Shh-type medulloblastoma development. Oncogene 2016 Nov 3;35(44):5746-5758. PMID: 27065321
  • Kaimori JY, Maehara K, Hayashi-Takanaka Y, Harada A et al. Histone H4 lysine 20 acetylation is associated with gene repression in human cells. Sci Rep 2016 Apr 11;6:24318. PMID: 27064113
  • Li CS, Tang F, Zhang P, Jiang T et al. Trap1a is an X-linked and cell-intrinsic regulator of thymocyte development. Cell Mol Immunol 2017 Aug;14(8):685-692. PMID: 27063468
  • Webb AE, Kundaje A, Brunet A et al. Characterization of the direct targets of FOXO transcription factors throughout evolution. Aging Cell 2016 Aug;15(4):673-85. PMID: 27061590
  • Zu Y, Ping W, Deng T, Zhang N et al. Lipopolysaccharide-induced toll-like receptor 4 signaling in esophageal squamous cell carcinoma promotes tumor proliferation and regulates inflammatory cytokines expression. Dis Esophagus 2017 Feb 1;30(2):1-8. PMID: 27061118
  • Küçük C, Hu X, Gong Q, Jiang B et al. Diagnostic and Biological Significance of KIR Expression Profile Determined by RNA-Seq in Natural Killer/T-Cell Lymphoma. Am J Pathol 2016 Jun;186(6):1435-41. PMID: 27060228
  • Chen Y, Wang Y, Xuan Z, Chen M et al. De novo deciphering three-dimensional chromatin interaction and topological domains by wavelet transformation of epigenetic profiles. Nucleic Acids Res 2016 Jun 20;44(11):e106. PMID: 27060148
  • Quilez J, Guilmatre A, Garg P, Highnam G et al. Polymorphic tandem repeats within gene promoters act as modifiers of gene expression and DNA methylation in humans. Nucleic Acids Res 2016 May 5;44(8):3750-62. PMID: 27060133
  • Zhou G, Stevenson MM, Geary TG, Xia J et al. Comprehensive Transcriptome Meta-analysis to Characterize Host Immune Responses in Helminth Infections. PLoS Negl Trop Dis 2016 Apr;10(4):e0004624. PMID: 27058578
  • Huang B, Deng S, Loo SY, Datta A et al. Gelsolin-mediated activation of PI3K/Akt pathway is crucial for hepatocyte growth factor-induced cell scattering in gastric carcinoma. Oncotarget 2016 May 3;7(18):25391-407. PMID: 27058427
  • Garg AD, De Ruysscher D, Agostinis P et al. Immunological metagene signatures derived from immunogenic cancer cell death associate with improved survival of patients with lung, breast or ovarian malignancies: A large-scale meta-analysis. Oncoimmunology 2016 Feb;5(2):e1069938. PMID: 27057433
  • Brown PJ, Gascoyne DM, Lyne L, Spearman H et al. N-terminally truncated FOXP1 protein expression and alternate internal FOXP1 promoter usage in normal and malignant B cells. Haematologica 2016 Jul;101(7):861-71. PMID: 27056922
  • Schwarz E, Izmailov R, Liò P, Meyer-Lindenberg A et al. Protein Interaction Networks Link Schizophrenia Risk Loci to Synaptic Function. Schizophr Bull 2016 Nov;42(6):1334-1342. PMID: 27056717
  • Wong MK, Guan D, Ng KHC, Ho VWS et al. Timing of Tissue-specific Cell Division Requires a Differential Onset of Zygotic Transcription during Metazoan Embryogenesis. J Biol Chem 2016 Jun 10;291(24):12501-12513. PMID: 27056332
  • Ghosh S, Taylor A, Chin M, Huang HR et al. Regulatory T Cell Modulation by CBP/EP300 Bromodomain Inhibition. J Biol Chem 2016 Jun 17;291(25):13014-27. PMID: 27056325
  • Hall AE, Lu WT, Godfrey JD, Antonov AV et al. The cytoskeleton adaptor protein ankyrin-1 is upregulated by p53 following DNA damage and alters cell migration. Cell Death Dis 2016 Apr 7;7(4):e2184. PMID: 27054339
  • Xu X, Zhou Y, Miao R, Chen W et al. Transcriptional modules related to hepatocellular carcinoma survival: coexpression network analysis. Front Med 2016 Jun;10(2):183-90. PMID: 27052251
  • Yabe S, Alexenko AP, Amita M, Yang Y et al. Comparison of syncytiotrophoblast generated from human embryonic stem cells and from term placentas. Proc Natl Acad Sci U S A 2016 May 10;113(19):E2598-607. PMID: 27051068
  • Jiang J, Li W, Liang B, Xie R et al. A Novel Prioritization Method in Identifying Recurrent Venous Thromboembolism-Related Genes. PLoS One 2016;11(4):e0153006. PMID: 27050193
  • Zheng Y, Cai J, Hutchins AP, Jia L et al. Remission for Loss of Odontogenic Potential in a New Micromilieu In Vitro. PLoS One 2016;11(4):e0152893. PMID: 27050091
  • Wang Z, Xie J, Yan M, Wang J et al. Downregulation of ATOH8 induced by EBV-encoded LMP1 contributes to the malignant phenotype of nasopharyngeal carcinoma. Oncotarget 2016 May 3;7(18):26765-79. PMID: 27049918
  • Shi C, Huang F, Gu X, Zhang M et al. Adipogenic miRNA and meta-signature miRNAs involved in human adipocyte differentiation and obesity. Oncotarget 2016 Jun 28;7(26):40830-40845. PMID: 27049726
  • Rühle F, Stoll M et al. Long non-coding RNA Databases in Cardiovascular Research. Genomics Proteomics Bioinformatics 2016 Aug;14(4):191-9. PMID: 27049585
  • Brehme M, Koschmieder S, Montazeri M, Copland M et al. Combined Population Dynamics and Entropy Modelling Supports Patient Stratification in Chronic Myeloid Leukemia. Sci Rep 2016 Apr 6;6:24057. PMID: 27048866
  • Liu Z, Wang Y, Borlak J, Tong W et al. Mechanistically linked serum miRNAs distinguish between drug induced and fatty liver disease of different grades. Sci Rep 2016 Apr 5;6:23709. PMID: 27045805
  • Uhlén M, Hallström BM, Lindskog C, Mardinoglu A et al. Transcriptomics resources of human tissues and organs. Mol Syst Biol 2016 Apr 4;12(4):862. PMID: 27044256
  • Kloepper J, Riedemann L, Amoozgar Z, Seano G et al. Ang-2/VEGF bispecific antibody reprograms macrophages and resident microglia to anti-tumor phenotype and prolongs glioblastoma survival. Proc Natl Acad Sci U S A 2016 Apr 19;113(16):4476-81. PMID: 27044098
  • Wakabayashi A, Ulirsch JC, Ludwig LS, Fiorini C et al. Insight into GATA1 transcriptional activity through interrogation of cis elements disrupted in human erythroid disorders. Proc Natl Acad Sci U S A 2016 Apr 19;113(16):4434-9. PMID: 27044088
  • Ma F, Ye H, He HH, Gerrin SJ et al. SOX9 drives WNT pathway activation in prostate cancer. J Clin Invest 2016 May 2;126(5):1745-58. PMID: 27043282
  • Wang J, Gamazon ER, Pierce BL, Stranger BE et al. Imputing Gene Expression in Uncollected Tissues Within and Beyond GTEx. Am J Hum Genet 2016 Apr 7;98(4):697-708. PMID: 27040689
  • Joo JW, Hormozdiari F, Han B, Eskin E et al. Multiple testing correction in linear mixed models. Genome Biol 2016 Apr 1;17:62. PMID: 27039378
  • Peng HY, Jiang SS, Hsiao JR, Hsiao M et al. IL-8 induces miR-424-5p expression and modulates SOCS2/STAT5 signaling pathway in oral squamous cell carcinoma. Mol Oncol 2016 Jun;10(6):895-909. PMID: 27038552
  • Hur JK, Luo Y, Moon S, Ninova M et al. Splicing-independent loading of TREX on nascent RNA is required for efficient expression of dual-strand piRNA clusters in Drosophila. Genes Dev 2016 Apr 1;30(7):840-55. PMID: 27036967
  • Urgese G, Paciello G, Acquaviva A, Ficarra E et al. isomiR-SEA: an RNA-Seq analysis tool for miRNAs/isomiRs expression level profiling and miRNA-mRNA interaction sites evaluation. BMC Bioinformatics 2016 Mar 31;17:148. PMID: 27036505
  • Miao MH, Ji XQ, Zhang H, Xu J et al. miR-590 promotes cell proliferation and invasion in T-cell acute lymphoblastic leukaemia by inhibiting RB1. Oncotarget 2016 Jun 28;7(26):39527-39534. PMID: 27036041
  • Hsieh YY, Huang TC, Lo HL, Jhan JY et al. Systematic discovery of drug action mechanisms by an integrated chemical genomics approach: identification of functional disparities between azacytidine and decitabine. Oncotarget 2016 May 10;7(19):27363-78. PMID: 27036028
  • Krampitz GW, George BM, Willingham SB, Volkmer JP et al. Identification of tumorigenic cells and therapeutic targets in pancreatic neuroendocrine tumors. Proc Natl Acad Sci U S A 2016 Apr 19;113(16):4464-9. PMID: 27035983
  • Shang C, Zhu W, Liu T, Wang W et al. Characterization of long non-coding RNA expression profiles in lymph node metastasis of early-stage cervical cancer. Oncol Rep 2016 Jun;35(6):3185-97. PMID: 27035672
  • Sucularli C, Shehwana H, Kuscu C, Dungul DC et al. Functionally conserved effects of rapamycin exposure on zebrafish. Mol Med Rep 2016 May;13(5):4421-30. PMID: 27035657
  • Zheng Y, Shao X, Huang Y, Shi L et al. Role of estrogen receptor in breast cancer cell gene expression. Mol Med Rep 2016 May;13(5):4046-50. PMID: 27035558
  • Kravchenko-Balasha N, Johnson H, White FM, Heath JR et al. A Thermodynamic-Based Interpretation of Protein Expression Heterogeneity in Different Glioblastoma Multiforme Tumors Identifies Tumor-Specific Unbalanced Processes. J Phys Chem B 2016 Jul 7;120(26):5990-7. PMID: 27035264
  • Long J, Liu Z, Wu X, Xu Y et al. Screening for genes and subnetworks associated with pancreatic cancer based on the gene expression profile. Mol Med Rep 2016 May;13(5):3779-86. PMID: 27035224
  • Zeng X, Zhao J, Wu X, Shi H et al. PageRank analysis reveals topologically expressed genes correspond to psoriasis and their functions are associated with apoptosis resistance. Mol Med Rep 2016 May;13(5):3969-76. PMID: 27035208
  • Fernández-Fernández ÁD, Corpas FJ et al. In Silico Analysis of Arabidopsis thaliana Peroxisomal 6-Phosphogluconate Dehydrogenase. Scientifica (Cairo) 2016;2016:3482760. PMID: 27034898
  • Ranoa DR, Parekh AD, Pitroda SP, Huang X et al. Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs. Oncotarget 2016 May 3;7(18):26496-515. PMID: 27034163
  • Butovich IA, McMahon A, Wojtowicz JC, Lin F et al. Dissecting lipid metabolism in meibomian glands of humans and mice: An integrative study reveals a network of metabolic reactions not duplicated in other tissues. Biochim Biophys Acta 2016 Jun;1861(6):538-53. PMID: 27032494
  • Lian YF, Yuan J, Cui Q, Feng QS et al. Upregulation of KLHDC4 Predicts a Poor Prognosis in Human Nasopharyngeal Carcinoma. PLoS One 2016;11(3):e0152820. PMID: 27030985
  • Zhang X, Zhang W et al. Transcript Isoform Variation Associated with Cytosine Modification in Human Lymphoblastoid Cell Lines. Genetics 2016 Jun;203(2):985-95. PMID: 27029734
  • Boufraqech M, Zhang L, Nilubol N, Sadowski SM et al. Lysyl Oxidase (LOX) Transcriptionally Regulates SNAI2 Expression and TIMP4 Secretion in Human Cancers. Clin Cancer Res 2016 Sep 1;22(17):4491-504. PMID: 27029493
  • Sutherland JJ, Jolly RA, Goldstein KM, Stevens JL et al. Assessing Concordance of Drug-Induced Transcriptional Response in Rodent Liver and Cultured Hepatocytes. PLoS Comput Biol 2016 Mar;12(3):e1004847. PMID: 27028627
  • Bunik VI, Mkrtchyan G, Grabarska A, Oppermann H et al. Inhibition of mitochondrial 2-oxoglutarate dehydrogenase impairs viability of cancer cells in a cell-specific metabolism-dependent manner. Oncotarget 2016 May 3;7(18):26400-21. PMID: 27027236
  • Jiang SY, Ramachandran S et al. Expansion Mechanisms and Evolutionary History on Genes Encoding DNA Glycosylases and Their Involvement in Stress and Hormone Signaling. Genome Biol Evol 2016 Apr 25;8(4):1165-84. PMID: 27026054
  • Kalyani R, Lee JY, Min H, Yoon H et al. Genes Frequently Coexpressed with Hoxc8 Provide Insight into the Discovery of Target Genes. Mol Cells 2016 May 31;39(5):395-402. PMID: 27025388
  • Kidd BA, Readhead BP, Eden C, Parekh S et al. Integrative network modeling approaches to personalized cancer medicine. Per Med 2015 Jun 1;12(3):245-257. PMID: 27019658
  • Ma JJ, Han M et al. Genomewide analysis of ABCBs with a focus on ABCB1 and ABCB19 in Malus domestica. J Genet 2016 Mar;95(1):141-9. PMID: 27019441
  • Telorac J, Prykhozhij SV, Schöne S, Meierhofer D et al. Identification and characterization of DNA sequences that prevent glucocorticoid receptor binding to nearby response elements. Nucleic Acids Res 2016 Jul 27;44(13):6142-56. PMID: 27016732
  • Meyer SE, Qin T, Muench DE, Masuda K et al. DNMT3A Haploinsufficiency Transforms FLT3ITD Myeloproliferative Disease into a Rapid, Spontaneous, and Fully Penetrant Acute Myeloid Leukemia. Cancer Discov 2016 May;6(5):501-15. PMID: 27016502
  • Wen Y, Wei Y, Zhang S, Li S et al. Cell subpopulation deconvolution reveals breast cancer heterogeneity based on DNA methylation signature. Brief Bioinform 2017 May 1;18(3):426-440. PMID: 27016391
  • Leonard B, Starrett GJ, Maurer MJ, Oberg AL et al. APOBEC3G Expression Correlates with T-Cell Infiltration and Improved Clinical Outcomes in High-grade Serous Ovarian Carcinoma. Clin Cancer Res 2016 Sep 15;22(18):4746-55. PMID: 27016308
  • Murakami R, Matsumura N, Brown JB, Wang Z et al. Prediction of taxane and platinum sensitivity in ovarian cancer based on gene expression profiles. Gynecol Oncol 2016 Apr;141(1):49-56. PMID: 27016229
  • Kwilas AR, Ardiani A, Gameiro SR, Richards J et al. Androgen deprivation therapy sensitizes triple negative breast cancer cells to immune-mediated lysis through androgen receptor independent modulation of osteoprotegerin. Oncotarget 2016 Apr 26;7(17):23498-511. PMID: 27015557
  • Lin EH, Kao YR, Lin CA, Kuo TY et al. Hedgehog pathway maintains cell survival under stress conditions, and drives drug resistance in lung adenocarcinoma. Oncotarget 2016 Apr 26;7(17):24179-93. PMID: 27015549
  • Gupta R, Ahn R, Lai K, Mullins E et al. Landscape of Long Noncoding RNAs in Psoriatic and Healthy Skin. J Invest Dermatol 2016 Mar;136(3):603-609. PMID: 27015450
  • Winkler J, Roessler S, Sticht C, DiGuilio AL et al. Cellular apoptosis susceptibility (CAS) is linked to integrin β1 and required for tumor cell migration and invasion in hepatocellular carcinoma (HCC). Oncotarget 2016 Apr 19;7(16):22883-92. PMID: 27015362
  • Bae GY, Hong SK, Park JR, Kwon OS et al. Chronic TGFβ stimulation promotes the metastatic potential of lung cancer cells by Snail protein stabilization through integrin β3-Akt-GSK3β signaling. Oncotarget 2016 May 3;7(18):25366-76. PMID: 27015122
  • He F, Yoo S, Wang D, Kumari S et al. Large-scale atlas of microarray data reveals the distinct expression landscape of different tissues in Arabidopsis. Plant J 2016 Jun;86(6):472-80. PMID: 27015116
  • Berto S, Perdomo-Sabogal A, Gerighausen D, Qin J et al. A Consensus Network of Gene Regulatory Factors in the Human Frontal Lobe. Front Genet 2016;7:31. PMID: 27014338
  • Scuffi D, Lamattina L, García-Mata C et al. Gasotransmitters and Stomatal Closure: Is There Redundancy, Concerted Action, or Both? Front Plant Sci 2016;7:277. PMID: 27014301
  • Chan TS, Hawkins C, Krieger JR, McGlade CJ et al. JPO2/CDCA7L and LEDGF/p75 Are Novel Mediators of PI3K/AKT Signaling and Aggressive Phenotypes in Medulloblastoma. Cancer Res 2016 May 1;76(9):2802-12. PMID: 27013196
  • Henrique T, José Freitas da Silveira N, Henrique Cunha Volpato A, Mioto MM et al. HNdb: an integrated database of gene and protein information on head and neck squamous cell carcinoma. Database (Oxford) 2016;2016. PMID: 27013077
  • Evageliou NF, Haber M, Vu A, Laetsch TW et al. Polyamine Antagonist Therapies Inhibit Neuroblastoma Initiation and Progression. Clin Cancer Res 2016 Sep 1;22(17):4391-404. PMID: 27012811
  • Iwanowycz S, Wang J, Altomare D, Hui Y et al. Emodin Bidirectionally Modulates Macrophage Polarization and Epigenetically Regulates Macrophage Memory. J Biol Chem 2016 May 27;291(22):11491-503. PMID: 27008857
  • Mendoza-Parra MA, Saleem MA, Blum M, Cholley PE et al. NGS-QC Generator: A Quality Control System for ChIP-Seq and Related Deep Sequencing-Generated Datasets. Methods Mol Biol 2016;1418:243-65. PMID: 27008019
  • Waldron L, Riester M et al. Meta-Analysis in Gene Expression Studies. Methods Mol Biol 2016;1418:161-76. PMID: 27008014
  • Zhou C, York SR, Chen JY, Pondick JV et al. Long noncoding RNAs expressed in human hepatic stellate cells form networks with extracellular matrix proteins. Genome Med 2016 Mar 23;8(1):31. PMID: 27007663
  • Ao L, Song X, Li X, Tong M et al. An individualized prognostic signature and multi‑omics distinction for early stage hepatocellular carcinoma patients with surgical resection. Oncotarget 2016 Apr 26;7(17):24097-110. PMID: 27006471
  • Leung A, Trac C, Du J, Natarajan R et al. Persistent Chromatin Modifications Induced by High Fat Diet. J Biol Chem 2016 May 13;291(20):10446-55. PMID: 27006400
  • Haas CT, Roe JK, Pollara G, Mehta M et al. Diagnostic 'omics' for active tuberculosis. BMC Med 2016 Mar 23;14:37. PMID: 27005907
  • Li J, Bushel PR et al. EPIG-Seq: extracting patterns and identifying co-expressed genes from RNA-Seq data. BMC Genomics 2016 Mar 22;17:255. PMID: 27004791
  • Chen X, Liu B, Yang R, Guo Y et al. Integrated analysis of long non-coding RNAs in human colorectal cancer. Oncotarget 2016 Apr 26;7(17):23897-908. PMID: 27004403
  • Jager J, Wang F, Fang B, Lim HW et al. The Nuclear Receptor Rev-erbα Regulates Adipose Tissue-specific FGF21 Signaling. J Biol Chem 2016 May 13;291(20):10867-75. PMID: 27002153
  • Jia T, Macare C, Desrivières S, Gonzalez DA et al. Neural basis of reward anticipation and its genetic determinants. Proc Natl Acad Sci U S A 2016 Apr 5;113(14):3879-84. PMID: 27001827
  • St Laurent G, Vyatkin Y, Antonets D, Ri M et al. Functional annotation of the vlinc class of non-coding RNAs using systems biology approach. Nucleic Acids Res 2016 Apr 20;44(7):3233-52. PMID: 27001520
  • Vishal M, Sharma A, Kaurani L, Alfano G et al. Genetic association and stress mediated down-regulation in trabecular meshwork implicates MPP7 as a novel candidate gene in primary open angle glaucoma. BMC Med Genomics 2016 Mar 22;9:15. PMID: 27001270
  • Puniya BL, Kulshreshtha D, Mittal I, Mobeen A et al. Integration of Metabolic Modeling with Gene Co-expression Reveals Transcriptionally Programmed Reactions Explaining Robustness in Mycobacterium tuberculosis. Sci Rep 2016 Mar 22;6:23440. PMID: 27000948
  • Sun Y, Gao Y, Sun J, Liu X et al. Expression profile analysis based on DNA microarray for patients undergoing off-pump coronary artery bypass surgery. Exp Ther Med 2016 Mar;11(3):864-872. PMID: 26998004
  • Zhang H, Gayen S, Xiong J, Zhou B et al. MLL1 Inhibition Reprograms Epiblast Stem Cells to Naive Pluripotency. Cell Stem Cell 2016 Apr 7;18(4):481-94. PMID: 26996599
  • Rogic S, Wong A, Pavlidis P et al. Meta-Analysis of Gene Expression Patterns in Animal Models of Prenatal Alcohol Exposure Suggests Role for Protein Synthesis Inhibition and Chromatin Remodeling. Alcohol Clin Exp Res 2016 Apr;40(4):717-27. PMID: 26996386
  • Becht E, de Reyniès A, Giraldo NA, Pilati C et al. Immune and Stromal Classification of Colorectal Cancer Is Associated with Molecular Subtypes and Relevant for Precision Immunotherapy. Clin Cancer Res 2016 Aug 15;22(16):4057-66. PMID: 26994146
  • Rodia MT, Ugolini G, Mattei G, Montroni I et al. Systematic large-scale meta-analysis identifies a panel of two mRNAs as blood biomarkers for colorectal cancer detection. Oncotarget 2016 May 24;7(21):30295-306. PMID: 26993598
  • Kumari S, Deng W, Gunasekara C, Chiang V et al. Bottom-up GGM algorithm for constructing multilayered hierarchical gene regulatory networks that govern biological pathways or processes. BMC Bioinformatics 2016 Mar 18;17:132. PMID: 26993098
  • Mittal K, Choi DH, Klimov S, Pawar S et al. A centrosome clustering protein, KIFC1, predicts aggressive disease course in serous ovarian adenocarcinomas. J Ovarian Res 2016 Mar 18;9:17. PMID: 26992853
  • Ocaña A, Pérez-Peña J, Alcaraz-Sanabria A, Sánchez-Corrales V et al. In silico analyses identify gene-sets, associated with clinical outcome in ovarian cancer: role of mitotic kinases. Oncotarget 2016 Apr 19;7(16):22865-72. PMID: 26992217
  • Xu Q, Chen J, Ni S, Tan C et al. Pan-cancer transcriptome analysis reveals a gene expression signature for the identification of tumor tissue origin. Mod Pathol 2016 Jun;29(6):546-56. PMID: 26990976
  • Shi M, He J et al. ColoFinder: a prognostic 9-gene signature improves prognosis for 871 stage II and III colorectal cancer patients. PeerJ 2016;4:e1804. PMID: 26989635
  • de Oliveira KA, Kaergel E, Heinig M, Fontaine JF et al. A roadmap of constitutive NF-κB activity in Hodgkin lymphoma: Dominant roles of p50 and p52 revealed by genome-wide analyses. Genome Med 2016 Mar 17;8(1):28. PMID: 26988706
  • Morena D, Maestro N, Bersani F, Forni PE et al. Hepatocyte Growth Factor-mediated satellite cells niche perturbation promotes development of distinct sarcoma subtypes. Elife 2016 Mar 17;5. PMID: 26987019
  • Wang WN, Zhang WL, Zhou GY, Ma FZ et al. Prediction of the molecular mechanisms and potential therapeutic targets for diabetic nephropathy by bioinformatics methods. Int J Mol Med 2016 May;37(5):1181-8. PMID: 26986014
  • Tang W, Robles AI, Beyer RP, Gray LT et al. The Werner syndrome RECQ helicase targets G4 DNA in human cells to modulate transcription. Hum Mol Genet 2016 May 15;25(10):2060-2069. PMID: 26984941
  • Lin TC, Su CY, Wu PY, Lai TC et al. The nucleolar protein NIFK promotes cancer progression via CK1α/β-catenin in metastasis and Ki-67-dependent cell proliferation. Elife 2016 Mar 17;5. PMID: 26984280
  • Villarino GH, Hu Q, Manrique S, Flores-Vergara M et al. Transcriptomic Signature of the SHATTERPROOF2 Expression Domain Reveals the Meristematic Nature of Arabidopsis Gynoecial Medial Domain. Plant Physiol 2016 May;171(1):42-61. PMID: 26983993
  • Kurozumi A, Kato M, Goto Y, Matsushita R et al. Regulation of the collagen cross-linking enzymes LOXL2 and PLOD2 by tumor-suppressive microRNA-26a/b in renal cell carcinoma. Int J Oncol 2016 May;48(5):1837-46. PMID: 26983694
  • Barbone D, Van Dam L, Follo C, Jithesh PV et al. Analysis of Gene Expression in 3D Spheroids Highlights a Survival Role for ASS1 in Mesothelioma. PLoS One 2016;11(3):e0150044. PMID: 26982031
  • Grünvogel O, Esser-Nobis K, Windisch MP, Frese M et al. Type I and type II interferon responses in two human liver cell lines (Huh-7 and HuH6). Genom Data 2016 Mar;7:166-70. PMID: 26981398
  • Bradford JR, Wappett M, Beran G, Logie A et al. Whole transcriptome profiling of patient-derived xenograft models as a tool to identify both tumor and stromal specific biomarkers. Oncotarget 2016 Apr 12;7(15):20773-87. PMID: 26980748
  • Xu S, Wang P, You Z, Meng H et al. The long non-coding RNA EPB41L4A-AS2 inhibits tumor proliferation and is associated with favorable prognoses in breast cancer and other solid tumors. Oncotarget 2016 Apr 12;7(15):20704-17. PMID: 26980733
  • Hong EL, Sloan CA, Chan ET, Davidson JM et al. Principles of metadata organization at the ENCODE data coordination center. Database (Oxford) 2016;2016. PMID: 26980513
  • Carmody RN, Dannemann M, Briggs AW, Nickel B et al. Genetic Evidence of Human Adaptation to a Cooked Diet. Genome Biol Evol 2016 Apr 13;8(4):1091-103. PMID: 26979798
  • Wen CL, Cheng Q, Zhao L, Mao A et al. Identification and characterisation of Dof transcription factors in the cucumber genome. Sci Rep 2016 Mar 16;6:23072. PMID: 26979661
  • Nakato R, Shirahige K et al. Recent advances in ChIP-seq analysis: from quality management to whole-genome annotation. Brief Bioinform 2017 Mar 1;18(2):279-290. PMID: 26979602
  • Crespo I, Doucey MA, Xenarios I et al. Social networks help to infer causality in the tumor microenvironment. BMC Res Notes 2016 Mar 15;9:168. PMID: 26979239
  • Lehmann-Werman R, Neiman D, Zemmour H, Moss J et al. Identification of tissue-specific cell death using methylation patterns of circulating DNA. Proc Natl Acad Sci U S A 2016 Mar 29;113(13):E1826-34. PMID: 26976580
  • Cho HG, Fiorentino D, Lewis M, Sirota M et al. Identification of Alpha-Adrenergic Agonists as Potential Therapeutic Agents for Dermatomyositis through Drug-Repurposing Using Public Expression Datasets. J Invest Dermatol 2016 Jul;136(7):1517-1520. PMID: 26975725
  • da Rocha EL, Ung CY, McGehee CD, Correia C et al. NetDecoder: a network biology platform that decodes context-specific biological networks and gene activities. Nucleic Acids Res 2016 Jun 2;44(10):e100. PMID: 26975659
  • Cass AA, Bahn JH, Lee JH, Greer C et al. Global analyses of endonucleolytic cleavage in mammals reveal expanded repertoires of cleavage-inducing small RNAs and their targets. Nucleic Acids Res 2016 Apr 20;44(7):3253-63. PMID: 26975654
  • Ori A, Iskar M, Buczak K, Kastritis P et al. Spatiotemporal variation of mammalian protein complex stoichiometries. Genome Biol 2016 Mar 14;17:47. PMID: 26975353
  • Ung MH, Sun CH, Weng CW, Huang CC et al. Integrated Drug Expression Analysis for leukemia: an integrated in silico and in vivo approach to drug discovery. Pharmacogenomics J 2017 Jul;17(4):351-359. PMID: 26975228
  • Li Y, Liu H, Barta CL, Judge PD et al. Transcription Factors Expressed in Mouse Cochlear Inner and Outer Hair Cells. PLoS One 2016;11(3):e0151291. PMID: 26974322
  • Zhang J, Medina-Cleghorn D, Bernal-Mizrachi L, Bracci PM et al. The potential relevance of the endocannabinoid, 2-arachidonoylglycerol, in diffuse large B-cell lymphoma. Oncoscience 2016;3(1):31-41. PMID: 26973858
  • Hsiao TH, Chiu YC, Hsu PY, Lu TP et al. Differential network analysis reveals the genome-wide landscape of estrogen receptor modulation in hormonal cancers. Sci Rep 2016 Mar 14;6:23035. PMID: 26972162
  • Piccolo SR, Hoffman LM, Conner T, Shrestha G et al. Integrative analyses reveal signaling pathways underlying familial breast cancer susceptibility. Mol Syst Biol 2016 Mar 10;12(3):860. PMID: 26969729
  • Zhao W, Chen B, Guo X, Wang R et al. A rank-based transcriptional signature for predicting relapse risk of stage II colorectal cancer identified with proper data sources. Oncotarget 2016 Apr 5;7(14):19060-71. PMID: 26967049
  • Yoshikawa M, Iki T, Numa H, Miyashita K et al. A Short Open Reading Frame Encompassing the MicroRNA173 Target Site Plays a Role in trans-Acting Small Interfering RNA Biogenesis. Plant Physiol 2016 May;171(1):359-68. PMID: 26966170
  • Woo HR, Koo HJ, Kim J, Jeong H et al. Programming of Plant Leaf Senescence with Temporal and Inter-Organellar Coordination of Transcriptome in Arabidopsis. Plant Physiol 2016 May;171(1):452-67. PMID: 26966169
  • Honn KV, Guo Y, Cai Y, Lee MJ et al. 12-HETER1/GPR31, a high-affinity 12(S)-hydroxyeicosatetraenoic acid receptor, is significantly up-regulated in prostate cancer and plays a critical role in prostate cancer progression. FASEB J 2016 Jun;30(6):2360-9. PMID: 26965684
  • Rosenbaum C, Schick MA, Wollborn J, Heider A et al. Activation of Myenteric Glia during Acute Inflammation In Vitro and In Vivo. PLoS One 2016;11(3):e0151335. PMID: 26964064
  • Sanchez R, Mackenzie SA et al. Information Thermodynamics of Cytosine DNA Methylation. PLoS One 2016;11(3):e0150427. PMID: 26963711
  • Planey CR, Gevaert O et al. CoINcIDE: A framework for discovery of patient subtypes across multiple datasets. Genome Med 2016 Mar 9;8(1):27. PMID: 26961683
  • Oshida K, Vasani N, Waxman DJ, Corton JC et al. Disruption of STAT5b-Regulated Sexual Dimorphism of the Liver Transcriptome by Diverse Factors Is a Common Event. PLoS One 2016;11(3):e0148308. PMID: 26959975
  • Chen SR, Hao XX, Zhang Y, Deng SL et al. Androgen receptor in Sertoli cells regulates DNA double-strand break repair and chromosomal synapsis of spermatocytes partially through intercellular EGF-EGFR signaling. Oncotarget 2016 Apr 5;7(14):18722-35. PMID: 26959739
  • Oshida K, Waxman DJ, Corton JC et al. Chemical and Hormonal Effects on STAT5b-Dependent Sexual Dimorphism of the Liver Transcriptome. PLoS One 2016;11(3):e0150284. PMID: 26959237
  • Araujo JM, Prado A, Cardenas NK, Zaharia M et al. Repeated observation of immune gene sets enrichment in women with non-small cell lung cancer. Oncotarget 2016 Apr 12;7(15):20282-92. PMID: 26958810
  • Chen Y, Cai X, Xu R et al. Combining Human Disease Genetics and Mouse Model Phenotypes towards Drug Repositioning for Parkinson's disease. AMIA Annu Symp Proc 2015;2015:1851-60. PMID: 26958284
  • Neems DS, Garza-Gongora AG, Smith ED, Kosak ST et al. Topologically associated domains enriched for lineage-specific genes reveal expression-dependent nuclear topologies during myogenesis. Proc Natl Acad Sci U S A 2016 Mar 22;113(12):E1691-700. PMID: 26957603
  • Kumar V, Rayan NA, Muratani M, Lim S et al. Comprehensive benchmarking reveals H2BK20 acetylation as a distinctive signature of cell-state-specific enhancers and promoters. Genome Res 2016 May;26(5):612-23. PMID: 26957309
  • Kober KM, Dunn L, Mastick J, Cooper B et al. Gene Expression Profiling of Evening Fatigue in Women Undergoing Chemotherapy for Breast Cancer. Biol Res Nurs 2016 Jul;18(4):370-85. PMID: 26957308
  • Gossmann TI, Saleh D, Schmid MW, Spence MA et al. Transcriptomes of Plant Gametophytes Have a Higher Proportion of Rapidly Evolving and Young Genes than Sporophytes. Mol Biol Evol 2016 Jul;33(7):1669-78. PMID: 26956888
  • Yeo SY, Itahana Y, Guo AK, Han R et al. Transglutaminase 2 contributes to a TP53-induced autophagy program to prevent oncogenic transformation. Elife 2016 Mar 9;5:e07101. PMID: 26956429
  • Peterman N, Levine E et al. Sort-seq under the hood: implications of design choices on large-scale characterization of sequence-function relations. BMC Genomics 2016 Mar 9;17:206. PMID: 26956374
  • Chang HR, Park HS, Ahn YZ, Nam S et al. Improving gastric cancer preclinical studies using diverse in vitro and in vivo model systems. BMC Cancer 2016 Mar 9;16:200. PMID: 26955870
  • Zhang R, Podtelezhnikov AA, Hogenesch JB, Anafi RC et al. Discovering Biology in Periodic Data through Phase Set Enrichment Analysis (PSEA). J Biol Rhythms 2016 Jun;31(3):244-57. PMID: 26955841
  • Hu J, Zhang L, Wang HJ et al. Sequential model selection-based segmentation to detect DNA copy number variation. Biometrics 2016 Sep;72(3):815-26. PMID: 26954760
  • Won KH, Song KD, Park JE, Kim DK et al. Identification of Gene Expression Signatures in the Chicken Intestinal Intraepithelial Lymphocytes in Response to Herb Additive Supplementations. Asian-Australas J Anim Sci 2016 Oct;29(10):1515-21. PMID: 26954117
  • Lee H, Kang S, Kim W et al. Drug Repositioning for Cancer Therapy Based on Large-Scale Drug-Induced Transcriptional Signatures. PLoS One 2016;11(3):e0150460. PMID: 26954019
  • Boutzen H, Saland E, Larrue C, de Toni F et al. Isocitrate dehydrogenase 1 mutations prime the all-trans retinoic acid myeloid differentiation pathway in acute myeloid leukemia. J Exp Med 2016 Apr 4;213(4):483-97. PMID: 26951332
  • Zhao M, Liu Q, Gong Y, Xu X et al. GSH-dependent antioxidant defense contributes to the acclimation of colon cancer cells to acidic microenvironment. Cell Cycle 2016;15(8):1125-33. PMID: 26950675
  • Camarda R, Zhou AY, Kohnz RA, Balakrishnan S et al. Inhibition of fatty acid oxidation as a therapy for MYC-overexpressing triple-negative breast cancer. Nat Med 2016 Apr;22(4):427-32. PMID: 26950360
  • Xin A, Masson F, Liao Y, Preston S et al. A molecular threshold for effector CD8(+) T cell differentiation controlled by transcription factors Blimp-1 and T-bet. Nat Immunol 2016 Apr;17(4):422-32. PMID: 26950239
  • Anjum A, Jaggi S, Varghese E, Lall S et al. Identification of Differentially Expressed Genes in RNA-seq Data of Arabidopsis thaliana: A Compound Distribution Approach. J Comput Biol 2016 Apr;23(4):239-47. PMID: 26949988
  • Kalathur RK, Giner-Lamia J, Machado S, Barata T et al. The unfolded protein response and its potential role in Huntington's disease elucidated by a systems biology approach. F1000Res 2015;4:103. PMID: 26949515
  • De Silva L, Chuah LH, Meganathan P, Fu JY et al. Tocotrienol and cancer metastasis. Biofactors 2016 Mar-Apr;42(2):149-62. PMID: 26948691
  • Fang F, Marangoni RG, Zhou X, Yang Y et al. Toll-like Receptor 9 Signaling Is Augmented in Systemic Sclerosis and Elicits Transforming Growth Factor β-Dependent Fibroblast Activation. Arthritis Rheumatol 2016 Aug;68(8):1989-2002. PMID: 26946325
  • Zhang C, Liu J, Zhao T, Gomez A et al. A Drought-Inducible Transcription Factor Delays Reproductive Timing in Rice. Plant Physiol 2016 May;171(1):334-43. PMID: 26945049
  • Pineda AL, Ogoe HA, Balasubramanian JB, Rangel Escareño C et al. On Predicting lung cancer subtypes using 'omic' data from tumor and tumor-adjacent histologically-normal tissue. BMC Cancer 2016 Mar 4;16:184. PMID: 26944944
  • Liu J, Jing L, Tu X et al. Weighted gene co-expression network analysis identifies specific modules and hub genes related to coronary artery disease. BMC Cardiovasc Disord 2016 Mar 5;16:54. PMID: 26944061
  • Li H, Guo Z, Guo Y, Li M et al. Common DNA methylation alterations of Alzheimer's disease and aging in peripheral whole blood. Oncotarget 2016 Apr 12;7(15):19089-98. PMID: 26943045
  • Kamatuka K, Hattori M, Sugiyama T et al. shRNA target prediction informed by comprehensive enquiry (SPICE): a supporting system for high-throughput screening of shRNA library. EURASIP J Bioinform Syst Biol 2016 Dec;2016(1):7. PMID: 26941783
  • Ding B, Cave JW, Dobner PR, Mullikin-Kilpatrick D et al. Reciprocal autoregulation by NFI occupancy and ETV1 promotes the developmental expression of dendrite-synapse genes in cerebellar granule neurons. Mol Biol Cell 2016 May 1;27(9):1488-99. PMID: 26941328
  • Abd-Elrahman I, Meir K, Kosuge H, Ben-Nun Y et al. Characterizing Cathepsin Activity and Macrophage Subtypes in Excised Human Carotid Plaques. Stroke 2016 Apr;47(4):1101-8. PMID: 26941255
  • Wakita D, Kurashima Y, Crother TR, Noval Rivas M et al. Role of Interleukin-1 Signaling in a Mouse Model of Kawasaki Disease-Associated Abdominal Aortic Aneurysm. Arterioscler Thromb Vasc Biol 2016 May;36(5):886-97. PMID: 26941015
  • Wang L, Steele I, Kumar JD, Dimaline R et al. Distinct miRNA profiles in normal and gastric cancer myofibroblasts and significance in Wnt signaling. Am J Physiol Gastrointest Liver Physiol 2016 May 1;310(9):G696-704. PMID: 26939869
  • Khazaie N, Massumi M, Wee P, Salimi M et al. Involvement of Polycomb Repressive Complex 2 in Maturation of Induced Pluripotent Stem Cells during Reprogramming of Mouse and Human Fibroblasts. PLoS One 2016;11(3):e0150518. PMID: 26938987
  • Zhu Y, Zhang C, Gu C, Li Q et al. Function of Deubiquitinating Enzyme USP14 as Oncogene in Different Types of Cancer. Cell Physiol Biochem 2016;38(3):993-1002. PMID: 26938858
  • Wang K, Xu R, Snider AJ, Schrandt J et al. Alkaline ceramidase 3 deficiency aggravates colitis and colitis-associated tumorigenesis in mice by hyperactivating the innate immune system. Cell Death Dis 2016 Mar 3;7(3):e2124. PMID: 26938296
  • Denton RM, Pullen TJ, Armstrong CT, Heesom KJ et al. Calcium-insensitive splice variants of mammalian E1 subunit of 2-oxoglutarate dehydrogenase complex with tissue-specific patterns of expression. Biochem J 2016 May 1;473(9):1165-78. PMID: 26936970
  • Zou C, Zhang Y, Ouyang Z et al. HSA: integrating multi-track Hi-C data for genome-scale reconstruction of 3D chromatin structure. Genome Biol 2016 Mar 2;17:40. PMID: 26936376
  • Xu X, Li H et al. Integrated microRNA‑gene analysis of coronary artery disease based on miRNA and gene expression profiles. Mol Med Rep 2016 Apr;13(4):3063-73. PMID: 26936111
  • Sin C, Chiarugi D, Valleriani A et al. Quantitative assessment of ribosome drop-off in E. coli. Nucleic Acids Res 2016 Apr 7;44(6):2528-37. PMID: 26935582
  • Unachukwu UJ, Warren A, Li Z, Mishra S et al. Predicted molecular signaling guiding photoreceptor cell migration following transplantation into damaged retina. Sci Rep 2016 Mar 3;6:22392. PMID: 26935401
  • Sun L, Xue H, Jiang C, Zhou H et al. LncRNA DQ786243 contributes to proliferation and metastasis of colorectal cancer both in vitro and in vivo. Biosci Rep 2016 Jun;36(3). PMID: 26934980
  • Younis S, Javed Q, Blumenberg M et al. Meta-Analysis of Transcriptional Responses to Mastitis-Causing Escherichia coli. PLoS One 2016;11(3):e0148562. PMID: 26933871
  • Oh DY, Dowling DJ, Ahmed S, Choi H et al. Adjuvant-induced Human Monocyte Secretome Profiles Reveal Adjuvant- and Age-specific Protein Signatures. Mol Cell Proteomics 2016 Jun;15(6):1877-94. PMID: 26933193
  • Caiazza F, Murray A, Madden SF, Synnott NC et al. Preclinical evaluation of the AR inhibitor enzalutamide in triple-negative breast cancer cells. Endocr Relat Cancer 2016 Apr;23(4):323-34. PMID: 26932782
  • Takagi H, Ishiga Y, Watanabe S, Konishi T et al. Allantoin, a stress-related purine metabolite, can activate jasmonate signaling in a MYC2-regulated and abscisic acid-dependent manner. J Exp Bot 2016 Apr;67(8):2519-2532. PMID: 26931169
  • Tao Y, Gao H, Ackerman B, Guo W et al. Evidence for contribution of common genetic variants within chromosome 8p21.2-8p21.1 to restricted and repetitive behaviors in autism spectrum disorders. BMC Genomics 2016 Mar 1;17:163. PMID: 26931105
  • Lapierre M, Linares A, Dalvai M, Duraffourd C et al. Histone deacetylase 9 regulates breast cancer cell proliferation and the response to histone deacetylase inhibitors. Oncotarget 2016 Apr 12;7(15):19693-708. PMID: 26930713
  • Athanasiadis E, Bourdakou M, Spyrou G et al. D-Map: Random Walking on Gene Network Inference Maps Towards differential Avenue Discovery. IEEE/ACM Trans Comput Biol Bioinform 2017 Mar-Apr;14(2):484-490. PMID: 26930690
  • Kazmi N, Gaunt TR et al. Diagnosis of Coronary Heart Diseases Using Gene Expression Profiling; Stable Coronary Artery Disease, Cardiac Ischemia with and without Myocardial Necrosis. PLoS One 2016;11(3):e0149475. PMID: 26930047
  • Tripathi SC, Peters HL, Taguchi A, Katayama H et al. Immunoproteasome deficiency is a feature of non-small cell lung cancer with a mesenchymal phenotype and is associated with a poor outcome. Proc Natl Acad Sci U S A 2016 Mar 15;113(11):E1555-64. PMID: 26929325
  • Kordaß T, Weber CE, Oswald M, Ast V et al. SOX5 is involved in balanced MITF regulation in human melanoma cells. BMC Med Genomics 2016 Feb 29;9:10. PMID: 26927636
  • Wu CC, Chen BS et al. Key Immune Events of the Pathomechanisms of Early Cardioembolic Stroke: Multi-Database Mining and Systems Biology Approach. Int J Mol Sci 2016 Feb 27;17(3):305. PMID: 26927091
  • Chang H, Liu Y, Xue M, Liu H et al. Synergistic action of master transcription factors controls epithelial-to-mesenchymal transition. Nucleic Acids Res 2016 Apr 7;44(6):2514-27. PMID: 26926107
  • Baheti S, Kanwar R, Goelzenleuchter M, Kocher JP et al. Targeted alignment and end repair elimination increase alignment and methylation measure accuracy for reduced representation bisulfite sequencing data. BMC Genomics 2016 Feb 27;17:149. PMID: 26922377
  • Ludwig N, Leidinger P, Becker K, Backes C et al. Distribution of miRNA expression across human tissues. Nucleic Acids Res 2016 May 5;44(8):3865-77. PMID: 26921406
  • Miftakhova R, Hedblom A, Semenas J, Robinson B et al. Cyclin A1 and P450 Aromatase Promote Metastatic Homing and Growth of Stem-like Prostate Cancer Cells in the Bone Marrow. Cancer Res 2016 Apr 15;76(8):2453-64. PMID: 26921336
  • Bossi P, Bergamini C, Siano M, Cossu Rocca M et al. Functional Genomics Uncover the Biology behind the Responsiveness of Head and Neck Squamous Cell Cancer Patients to Cetuximab. Clin Cancer Res 2016 Aug 1;22(15):3961-70. PMID: 26920888
  • Gajulapalli VN, Samanthapudi VS, Pulaganti M, Khumukcham SS et al. A transcriptional repressive role for epithelial-specific ETS factor ELF3 on oestrogen receptor alpha in breast cancer cells. Biochem J 2016 Apr 15;473(8):1047-61. PMID: 26920025
  • Yue W, Lin Y, Yang X, Li B et al. Thymic stromal lymphopoietin (TSLP) inhibits human colon tumor growth by promoting apoptosis of tumor cells. Oncotarget 2016 Mar 29;7(13):16840-54. PMID: 26919238
  • Feng L, Tong R, Liu X, Zhang K et al. A network-based method for identifying prognostic gene modules in lung squamous carcinoma. Oncotarget 2016 Apr 5;7(14):18006-20. PMID: 26919109
  • Lv D, Wang X, Dong J, Zhuang Y et al. Systematic characterization of lncRNAs' cell-to-cell expression heterogeneity in glioblastoma cells. Oncotarget 2016 Apr 5;7(14):18403-14. PMID: 26918340
  • Chung H, Lee BK, Uprety N, Shen W et al. Yap1 is dispensable for self-renewal but required for proper differentiation of mouse embryonic stem (ES) cells. EMBO Rep 2016 Apr;17(4):519-29. PMID: 26917425
  • Messier TL, Boyd JR, Gordon JA, Stein JL et al. Oncofetal Epigenetic Bivalency in Breast Cancer Cells: H3K4 and H3K27 Tri-Methylation as a Biomarker for Phenotypic Plasticity. J Cell Physiol 2016 Nov;231(11):2474-81. PMID: 26916849
  • Guo Y, Xing Y et al. Weighted gene co-expression network analysis of pneumocytes under exposure to a carcinogenic dose of chloroprene. Life Sci 2016 Apr 15;151:339-347. PMID: 26916823
  • Adams CM, Eischen CM et al. Histone deacetylase inhibition reveals a tumor-suppressive function of MYC-regulated miRNA in breast and lung carcinoma. Cell Death Differ 2016 Aug;23(8):1312-21. PMID: 26915294
  • Lee JH, Kang SH, Lee JY, Kim CK et al. NABIC Microarray: an integrated database of high throughput data for gene expression profiles. Bioinformation 2015;11(11):509-11. PMID: 26912952
  • Yi J, Lee YS, Lee DY, Cho MH et al. OsMPK6 plays a critical role in cell differentiation during early embryogenesis in Oryza sativa. J Exp Bot 2016 Apr;67(8):2425-37. PMID: 26912801
  • Liu Y, Yang S, Song Y, Men S et al. Gain-of-function analysis of poplar CLE genes in Arabidopsis by exogenous application and over-expression assays. J Exp Bot 2016 Apr;67(8):2309-24. PMID: 26912800
  • Yuan XL, Gao N, Xing Y, Zhang HB et al. Profiling the genome-wide DNA methylation pattern of porcine ovaries using reduced representation bisulfite sequencing. Sci Rep 2016 Feb 25;6:22138. PMID: 26912189
  • Croisé P, Houy S, Gand M, Lanoix J et al. Cdc42 and Rac1 activity is reduced in human pheochromocytoma and correlates with FARP1 and ARHGEF1 expression. Endocr Relat Cancer 2016 Apr;23(4):281-93. PMID: 26911374
  • DeFreitas T, Saddiki H, Flaherty P et al. GEMINI: a computationally-efficient search engine for large gene expression datasets. BMC Bioinformatics 2016 Feb 24;17:102. PMID: 26911289
  • Wang D, Han S, Peng R, Jiao C et al. Depletion of histone demethylase KDM5B inhibits cell proliferation of hepatocellular carcinoma by regulation of cell cycle checkpoint proteins p15 and p27. J Exp Clin Cancer Res 2016 Feb 25;35:37. PMID: 26911146
  • Fu L, Fu H, Tian L, Xu K et al. High expression of RUNX1 is associated with poorer outcomes in cytogenetically normal acute myeloid leukemia. Oncotarget 2016 Mar 29;7(13):15828-39. PMID: 26910834
  • Ma Y, Hu J, Zhang N, Dong X et al. Prediction of Candidate Drugs for Treating Pancreatic Cancer by Using a Combined Approach. PLoS One 2016;11(2):e0149896. PMID: 26910401
  • [No authors listed]Retraction: "Identification of Novel Biomarkers for Pancreatic Cancer Using Integrated Transcriptomics With Functional Pathways Analysis" by Zhang, X., Tong, P., Chen, J., Pei, Z., Zhang, X., Chen, W., Xu, J. and Wang, J. J Cell Physiol 2017 Nov;232(11):3197. PMID: 26909671
  • Swetzig WM, Wang J, Das GM et al. Estrogen receptor alpha (ERα/ESR1) mediates the p53-independent overexpression of MDM4/MDMX and MDM2 in human breast cancer. Oncotarget 2016 Mar 29;7(13):16049-69. PMID: 26909605
  • Planello AC, Singhania R, Kron KJ, Bailey SD et al. Pre-neoplastic epigenetic disruption of transcriptional enhancers in chronic inflammation. Oncotarget 2016 Mar 29;7(13):15772-86. PMID: 26908456
  • Cao W, Liu J, Xia R, Lin L et al. X-linked FHL1 as a novel therapeutic target for head and neck squamous cell carcinoma. Oncotarget 2016 Mar 22;7(12):14537-50. PMID: 26908444
  • Bell RE, Golan T, Sheinboim D, Malcov H et al. Enhancer methylation dynamics contribute to cancer plasticity and patient mortality. Genome Res 2016 May;26(5):601-11. PMID: 26907635
  • Tagde A, Rajabi H, Bouillez A, Alam M et al. MUC1-C drives MYC in multiple myeloma. Blood 2016 May 26;127(21):2587-97. PMID: 26907633
  • Sweeney TE, Braviak L, Tato CM, Khatri P et al. Genome-wide expression for diagnosis of pulmonary tuberculosis: a multicohort analysis. Lancet Respir Med 2016 Mar;4(3):213-24. PMID: 26907218
  • Bartels LE, Mattheolabakis G, Vaeth BM, LaComb JF et al. The novel agent phospho-glycerol-ibuprofen-amide (MDC-330) inhibits glioblastoma growth in mice: an effect mediated by cyclin D1. Carcinogenesis 2016 Apr;37(4):420-429. PMID: 26905586
  • Gao X, Wu T, Johnson KD, Lahvic JL et al. GATA Factor-G-Protein-Coupled Receptor Circuit Suppresses Hematopoiesis. Stem Cell Reports 2016 Mar 8;6(3):368-82. PMID: 26905203
  • Ganic E, Singh T, Luan C, Fadista J et al. MafA-Controlled Nicotinic Receptor Expression Is Essential for Insulin Secretion and Is Impaired in Patients with Type 2 Diabetes. Cell Rep 2016 Mar 1;14(8):1991-2002. PMID: 26904947
  • Puniya BL, Allen L, Hochfelder C, Majumder M et al. Systems Perturbation Analysis of a Large-Scale Signal Transduction Model Reveals Potentially Influential Candidates for Cancer Therapeutics. Front Bioeng Biotechnol 2016;4:10. PMID: 26904540
  • Lim X, Tan SH, Yu KL, Lim SB et al. Axin2 marks quiescent hair follicle bulge stem cells that are maintained by autocrine Wnt/β-catenin signaling. Proc Natl Acad Sci U S A 2016 Mar 15;113(11):E1498-505. PMID: 26903625
  • Roccaro AM, Sacco A, Shi J, Chiarini M et al. Exome sequencing reveals recurrent germ line variants in patients with familial Waldenström macroglobulinemia. Blood 2016 May 26;127(21):2598-606. PMID: 26903547
  • Robaina-Estévez S, Nikoloski Z et al. Metabolic Network Constrains Gene Regulation of C4 Photosynthesis: The Case of Maize. Plant Cell Physiol 2016 May;57(5):933-43. PMID: 26903529
  • Ritter C, Fan K, Paulson KG, Nghiem P et al. Reversal of epigenetic silencing of MHC class I chain-related protein A and B improves immune recognition of Merkel cell carcinoma. Sci Rep 2016 Feb 23;6:21678. PMID: 26902929
  • Lee JK, Bou Dagher J et al. Regulator of G-protein Signaling (RGS)1 and RGS10 Proteins as Potential Drug Targets for Neuroinflammatory and Neurodegenerative Diseases. AAPS J 2016 May;18(3):545-9. PMID: 26902301
  • Dutta B, Azhir A, Merino LH, Guo Y et al. An interactive web-based application for Comprehensive Analysis of RNAi-screen Data. Nat Commun 2016 Feb 23;7:10578. PMID: 26902267
  • Stafford P, Wrapp D, Johnston SA et al. General Assessment of Humoral Activity in Healthy Humans. Mol Cell Proteomics 2016 May;15(5):1610-21. PMID: 26902205
  • Sumantran VN, Mishra P, Bera R, Sudhakar N et al. Microarray Analysis of Differentially-Expressed Genes Encoding CYP450 and Phase II Drug Metabolizing Enzymes in Psoriasis and Melanoma. Pharmaceutics 2016 Feb 17;8(1). PMID: 26901218
  • Zhao X, Han Y, Liang Y, Nie C et al. RNA-Seq Reveals the Angiogenesis Diversity between the Fetal and Adults Bone Mesenchyme Stem Cell. PLoS One 2016;11(2):e0149171. PMID: 26901069
  • Wang H, Fan Z, Zhao M, Li J et al. Oscillating primary transcripts harbor miRNAs with circadian functions. Sci Rep 2016 Feb 22;6:21598. PMID: 26898952
  • Gao SG, Liu RM, Zhao YG, Wang P et al. Integrative topological analysis of mass spectrometry data reveals molecular features with clinical relevance in esophageal squamous cell carcinoma. Sci Rep 2016 Feb 22;6:21586. PMID: 26898710
  • Dolfini D, Zambelli F, Pedrazzoli M, Mantovani R et al. A high definition look at the NF-Y regulome reveals genome-wide associations with selected transcription factors. Nucleic Acids Res 2016 Jun 2;44(10):4684-702. PMID: 26896797
  • Chang HC, Wu R, Shang M, Sato T et al. Reduction in mitochondrial iron alleviates cardiac damage during injury. EMBO Mol Med 2016 Mar 1;8(3):247-67. PMID: 26896449
  • Yu N, Nützmann HW, MacDonald JT, Moore B et al. Delineation of metabolic gene clusters in plant genomes by chromatin signatures. Nucleic Acids Res 2016 Mar 18;44(5):2255-65. PMID: 26895889
  • Zhang SD, McCrudden CM, Yuen HF, Leung KL et al. Association between the expression levels of TAZ, AXL and CTGF and clinicopathological parameters in patients with colon cancer. Oncol Lett 2016 Feb;11(2):1223-1229. PMID: 26893723
  • Wang Z, Wang Z, Zhou Z, Ren Y et al. Revealing the role of VEGFA in clear cell sarcoma of the kidney by protein-protein interaction network and significant pathway analysis. Oncol Lett 2016 Feb;11(2):953-958. PMID: 26893674
  • Li H, Cang J, Zhang X et al. Sevoflurane exerts a more marked influence compared with propofol on gene expression in patients undergoing coronary artery bypass graft surgery. Exp Ther Med 2016 Feb;11(2):448-454. PMID: 26893629
  • Bourdakou MM, Athanasiadis EI, Spyrou GM et al. Discovering gene re-ranking efficiency and conserved gene-gene relationships derived from gene co-expression network analysis on breast cancer data. Sci Rep 2016 Feb 19;6:20518. PMID: 26892392
  • Li WX, Dai SX, Liu JQ, Wang Q et al. Integrated Analysis of Alzheimer's Disease and Schizophrenia Dataset Revealed Different Expression Pattern in Learning and Memory. J Alzheimers Dis 2016;51(2):417-25. PMID: 26890750
  • Grothaus K, Kanber D, Gellhaus A, Mikat B et al. Genome-wide methylation analysis of retrocopy-associated CpG islands and their genomic environment. Epigenetics 2016 Mar 3;11(3):216-26. PMID: 26890210
  • Gu J, Stevens M, Xing X, Li D et al. Mapping of Variable DNA Methylation Across Multiple Cell Types Defines a Dynamic Regulatory Landscape of the Human Genome. G3 (Bethesda) 2016 Apr 7;6(4):973-86. PMID: 26888867
  • Hsiao YH, Bahn JH, Lin X, Chan TM et al. Alternative splicing modulated by genetic variants demonstrates accelerated evolution regulated by highly conserved proteins. Genome Res 2016 Apr;26(4):440-50. PMID: 26888265
  • Hernandez W, Gamazon ER, Smithberger E, O'Brien TJ et al. Novel genetic predictors of venous thromboembolism risk in African Americans. Blood 2016 Apr 14;127(15):1923-9. PMID: 26888256
  • Wang D, Berglund A, Kenchappa RS, Forsyth PA et al. BIRC3 is a novel driver of therapeutic resistance in Glioblastoma. Sci Rep 2016 Feb 18;6:21710. PMID: 26888114
  • Chung VY, Tan TZ, Tan M, Wong MK et al. GRHL2-miR-200-ZEB1 maintains the epithelial status of ovarian cancer through transcriptional regulation and histone modification. Sci Rep 2016 Feb 18;6:19943. PMID: 26887977
  • Hui-Yuen JS, Christiano AM, Askanase A et al. Sex differences in genomics in lupus: girls with systemic lupus have high interferon gene expression while boys have high levels of tumour necrosis factor-related gene expression. Scand J Rheumatol 2016 Oct;45(5):394-6. PMID: 26885894
  • Williams A, Halappanavar S et al. Application of biclustering of gene expression data and gene set enrichment analysis methods to identify potentially disease causing nanomaterials. Beilstein J Nanotechnol 2015;6:2438-48. PMID: 26885455
  • Zhao J, Li L, Peng L et al. MAPK1 up-regulates the expression of MALAT1 to promote the proliferation of cardiomyocytes through PI3K/AKT signaling pathway. Int J Clin Exp Pathol 2015;8(12):15947-53. PMID: 26884868
  • Ichikawa W, Terashima M, Ochiai A, Kitada K et al. Impact of insulin-like growth factor-1 receptor and amphiregulin expression on survival in patients with stage II/III gastric cancer enrolled in the Adjuvant Chemotherapy Trial of S-1 for Gastric Cancer. Gastric Cancer 2017 Mar;20(2):263-273. PMID: 26884344
  • Fan S, Li C, Ai R, Wang M et al. Computationally expanding infinium HumanMethylation450 BeadChip array data to reveal distinct DNA methylation patterns of rheumatoid arthritis. Bioinformatics 2016 Jun 15;32(12):1773-8. PMID: 26883487
  • Khammanivong A, Sorenson BS, Ross KF, Dickerson EB et al. Involvement of calprotectin (S100A8/A9) in molecular pathways associated with HNSCC. Oncotarget 2016 Mar 22;7(12):14029-47. PMID: 26883112
  • de Jong TD, Vosslamber S, Mantel E, de Ridder S et al. Physiological evidence for diversification of IFNα- and IFNβ-mediated response programs in different autoimmune diseases. Arthritis Res Ther 2016 Feb 17;18:49. PMID: 26882897
  • He B, Li T, Guan L, Liu FE et al. CTNNA3 is a tumor suppressor in hepatocellular carcinomas and is inhibited by miR-425. Oncotarget 2016 Feb 16;7(7):8078-89. PMID: 26882563
  • Yan Y, Li Z, Kong X, Jia Z et al. KLF4-Mediated Suppression of CD44 Signaling Negatively Impacts Pancreatic Cancer Stemness and Metastasis. Cancer Res 2016 Apr 15;76(8):2419-31. PMID: 26880805
  • Viziteu E, Kassambara A, Pasero P, Klein B et al. RECQ helicases are deregulated in hematological malignancies in association with a prognostic value. Biomark Res 2016;4:3. PMID: 26877874
  • Lehmann W, Mossmann D, Kleemann J, Mock K et al. ZEB1 turns into a transcriptional activator by interacting with YAP1 in aggressive cancer types. Nat Commun 2016 Feb 15;7:10498. PMID: 26876920
  • Yu P, Lin W et al. Single-cell Transcriptome Study as Big Data. Genomics Proteomics Bioinformatics 2016 Feb;14(1):21-30. PMID: 26876720
  • Zhang J, Wei Z et al. An empirical Bayes change-point model for identifying 3' and 5' alternative splicing by next-generation RNA sequencing. Bioinformatics 2016 Jun 15;32(12):1823-31. PMID: 26873932
  • Chen Y, Li Y, Narayan R, Subramanian A et al. Gene expression inference with deep learning. Bioinformatics 2016 Jun 15;32(12):1832-9. PMID: 26873929
  • Cao J, Huang W et al. Compensatory Increase of Transglutaminase 2 Is Responsible for Resistance to mTOR Inhibitor Treatment. PLoS One 2016;11(2):e0149388. PMID: 26872016
  • Zhou C, Dai X, Chen Y, Shen Y et al. G protein-coupled receptor GPR160 is associated with apoptosis and cell cycle arrest of prostate cancer cells. Oncotarget 2016 Mar 15;7(11):12823-39. PMID: 26871479
  • Schütze A, Vogeley C, Gorges T, Twarock S et al. RHAMM splice variants confer radiosensitivity in human breast cancer cell lines. Oncotarget 2016 Apr 19;7(16):21428-40. PMID: 26870892
  • Qi C, Hong L, Cheng Z, Yin Q et al. Identification of metastasis-associated genes in colorectal cancer using metaDE and survival analysis. Oncol Lett 2016 Jan;11(1):568-574. PMID: 26870249
  • Sun HIdentification of key genes associated with gastric cancer based on DNA microarray data. Oncol Lett 2016 Jan;11(1):525-530. PMID: 26870242
  • Li M, Jiang C, Wang Q, Zhao Z et al. Evolution and Functional Insights of Different Ancestral Orthologous Clades of Chitin Synthase Genes in the Fungal Tree of Life. Front Plant Sci 2016;7:37. PMID: 26870058
  • Capurso D, Bengtsson H, Segal MR et al. Discovering hotspots in functional genomic data superposed on 3D chromatin configuration reconstructions. Nucleic Acids Res 2016 Mar 18;44(5):2028-35. PMID: 26869583
  • Hoang B, Shi Y, Frost PJ, Mysore V et al. SGK Kinase Activity in Multiple Myeloma Cells Protects against ER Stress Apoptosis via a SEK-Dependent Mechanism. Mol Cancer Res 2016 Apr;14(4):397-407. PMID: 26869290
  • Zhao S, Dong X, Shen W, Ye Z et al. Machine learning-based classification of diffuse large B-cell lymphoma patients by eight gene expression profiles. Cancer Med 2016 May;5(5):837-52. PMID: 26869285
  • Xie X, Ma W, Songyang Z, Luo Z et al. CCSI: a database providing chromatin-chromatin spatial interaction information. Database (Oxford) 2016;2016. PMID: 26868054
  • Ji J, Yuan Z, Zhang X, Xue F et al. A powerful score-based statistical test for group difference in weighted biological networks. BMC Bioinformatics 2016 Feb 12;17:86. PMID: 26867929
  • Viziteu E, Grandmougin C, Goldschmidt H, Seckinger A et al. Chetomin, targeting HIF-1α/p300 complex, exhibits antitumour activity in multiple myeloma. Br J Cancer 2016 Mar 1;114(5):519-23. PMID: 26867162
  • Vanarotti MS, Finkelstein DB, Guibao CD, Nourse A et al. Structural Basis for the Interaction between Pyk2-FAT Domain and Leupaxin LD Repeats. Biochemistry 2016 Mar 8;55(9):1332-45. PMID: 26866573
  • Ryan N, Chorley B, Tice RR, Judson R et al. Moving Toward Integrating Gene Expression Profiling Into High-Throughput Testing: A Gene Expression Biomarker Accurately Predicts Estrogen Receptor α Modulation in a Microarray Compendium. Toxicol Sci 2016 May;151(1):88-103. PMID: 26865669
  • Naciff JM, Khambatta ZS, Carr GJ, Tiesman JP et al. Dose- and Time-Dependent Transcriptional Response of Ishikawa Cells Exposed to Genistein. Toxicol Sci 2016 May;151(1):71-87. PMID: 26865667
  • Yang HD, Kim PJ, Eun JW, Shen Q et al. Oncogenic potential of histone-variant H2A.Z.1 and its regulatory role in cell cycle and epithelial-mesenchymal transition in liver cancer. Oncotarget 2016 Mar 8;7(10):11412-23. PMID: 26863632
  • Reiter T, Jagoda E, Capellini TD et al. Dietary Variation and Evolution of Gene Copy Number among Dog Breeds. PLoS One 2016;11(2):e0148899. PMID: 26863414
  • Ounnas F, Privé F, Salen P, Gaci N et al. Whole Rye Consumption Improves Blood and Liver n-3 Fatty Acid Profile and Gut Microbiota Composition in Rats. PLoS One 2016;11(2):e0148118. PMID: 26862900
  • Luo L, McGarvey P, Madhavan S, Kumar R et al. Distinct lymphocyte antigens 6 (Ly6) family members Ly6D, Ly6E, Ly6K and Ly6H drive tumorigenesis and clinical outcome. Oncotarget 2016 Mar 8;7(10):11165-93. PMID: 26862846
  • Vieri M, Geng H, Patterson JB, Panse J et al. Deregulated expression of the HSP40 family members Auxilin-1 and -2 is indicative of proteostasis imbalance and predicts patient outcome in Ph(+) leukemia. Exp Hematol Oncol 2015;5:5. PMID: 26862466
  • Triplett TA, Cardenas KT, Lancaster JN, Hu Z et al. Endogenous dendritic cells from the tumor microenvironment support T-ALL growth via IGF1R activation. Proc Natl Acad Sci U S A 2016 Feb 23;113(8):E1016-25. PMID: 26862168
  • Yu H, Zhao X, Li Q et al. Genome-wide identification and characterization of long intergenic noncoding RNAs and their potential association with larval development in the Pacific oyster. Sci Rep 2016 Feb 10;6:20796. PMID: 26861843
  • Brown AS, Kong SW, Kohane IS, Patel CJ et al. ksRepo: a generalized platform for computational drug repositioning. BMC Bioinformatics 2016 Feb 9;17:78. PMID: 26860211
  • Liu CH, Ho BC, Chen CL, Chang YH et al. ePIANNO: ePIgenomics ANNOtation tool. PLoS One 2016;11(2):e0148321. PMID: 26859295
  • Tsugata T, Nikoh N, Kin T, Saitoh I et al. Potential Factors for the Differentiation of ESCs/iPSCs Into Insulin-Producing Cells. Cell Med 2015 Feb 8;7(2):83-93. PMID: 26858897
  • Zhao Y, Luo A, Li S, Zhang W et al. Inhibitor of Differentiation/DNA Binding 1 (ID1) Inhibits Etoposide-induced Apoptosis in a c-Jun/c-Fos-dependent Manner. J Biol Chem 2016 Mar 25;291(13):6831-42. PMID: 26858249
  • Sansone P, Ceccarelli C, Berishaj M, Chang Q et al. Self-renewal of CD133(hi) cells by IL6/Notch3 signalling regulates endocrine resistance in metastatic breast cancer. Nat Commun 2016 Feb 9;7:10442. PMID: 26858125
  • Yang HJ, Bogomolnaya LM, Elfenbein JR, Endicott-Yazdani T et al. Novel Two-Step Hierarchical Screening of Mutant Pools Reveals Mutants under Selection in Chicks. Infect Immun 2016 Apr;84(4):1226-1238. PMID: 26857572
  • Margolin G, Petrykowska HM, Jameel N, Bell DW et al. Robust Detection of DNA Hypermethylation of ZNF154 as a Pan-Cancer Locus with in Silico Modeling for Blood-Based Diagnostic Development. J Mol Diagn 2016 Mar;18(2):283-98. PMID: 26857064
  • Cheng C, Lou S, Andrews EH, Ung MH et al. Integrative Genomic Analyses Yield Cell-Cycle Regulatory Programs with Prognostic Value. Mol Cancer Res 2016 Apr;14(4):332-43. PMID: 26856934
  • Xu H, Tian Y, Yuan X, Liu Y et al. Enrichment of CD44 in basal-type breast cancer correlates with EMT, cancer stem cell gene profile, and prognosis. Onco Targets Ther 2016;9:431-44. PMID: 26855592
  • Hsueh HM, Tsai CA et al. Gene set analysis using sufficient dimension reduction. BMC Bioinformatics 2016 Feb 6;17:74. PMID: 26852017
  • Lou Y, Diao L, Cuentas ER, Denning WL et al. Epithelial-Mesenchymal Transition Is Associated with a Distinct Tumor Microenvironment Including Elevation of Inflammatory Signals and Multiple Immune Checkpoints in Lung Adenocarcinoma. Clin Cancer Res 2016 Jul 15;22(14):3630-42. PMID: 26851185
  • Wu SP, Pfeiffer RM, Ahn IE, Mailankody S et al. Impact of Genes Highly Correlated with MMSET Myeloma on the Survival of Non-MMSET Myeloma Patients. Clin Cancer Res 2016 Aug 15;22(16):4039-44. PMID: 26847058
  • Ma QQ, Huang JT, Xiong YG, Yang XY et al. MicroRNA-96 Regulates Apoptosis by Targeting PDCD4 in Human Glioma Cells. Technol Cancer Res Treat 2017 Feb;16(1):92-98. PMID: 26846266
  • Lee H, Nam D, Choi JK, Araúzo-Bravo MJ et al. Establishment of feeder-free culture system for human induced pluripotent stem cell on DAS nanocrystalline graphene. Sci Rep 2016 Feb 5;6:20708. PMID: 26846167
  • Cummins NW, Sainski AM, Dai H, Natesampillai S et al. Prime, Shock, and Kill: Priming CD4 T Cells from HIV Patients with a BCL-2 Antagonist before HIV Reactivation Reduces HIV Reservoir Size. J Virol 2016 Apr;90(8):4032-4048. PMID: 26842479
  • Diaz-Lagares A, Mendez-Gonzalez J, Hervas D, Saigi M et al. A Novel Epigenetic Signature for Early Diagnosis in Lung Cancer. Clin Cancer Res 2016 Jul 1;22(13):3361-71. PMID: 26842235
  • Feng A, Tu Z, Yin B et al. The effect of HMGB1 on the clinicopathological and prognostic features of non-small cell lung cancer. Oncotarget 2016 Apr 12;7(15):20507-19. PMID: 26840258
  • Zang C, Nie FQ, Wang Q, Sun M et al. Long non-coding RNA LINC01133 represses KLF2, P21 and E-cadherin transcription through binding with EZH2, LSD1 in non small cell lung cancer. Oncotarget 2016 Mar 8;7(10):11696-707. PMID: 26840083
  • Zhang Z, Shi L, Dawany N, Kelsen J et al. H3K4 tri-methylation breadth at transcription start sites impacts the transcriptome of systemic lupus erythematosus. Clin Epigenetics 2016;8:14. PMID: 26839600
  • Ye LY, Chen W, Bai XL, Xu XY et al. Hypoxia-Induced Epithelial-to-Mesenchymal Transition in Hepatocellular Carcinoma Induces an Immunosuppressive Tumor Microenvironment to Promote Metastasis. Cancer Res 2016 Feb 15;76(4):818-30. PMID: 26837767
  • Yuan Y, Zheng S, Li Q, Xiang X et al. Overexpression of miR-30a in lung adenocarcinoma A549 cell line inhibits migration and invasion via targeting EYA2. Acta Biochim Biophys Sin (Shanghai) 2016 Mar;48(3):220-8. PMID: 26837415
  • Decock A, Ongenaert M, Van Criekinge W, Speleman F et al. DNA methylation profiling of primary neuroblastoma tumors using methyl-CpG-binding domain sequencing. Sci Data 2016 Feb 2;3:160004. PMID: 26836295
  • Pacheco MP, Pfau T, Sauter T et al. Benchmarking Procedures for High-Throughput Context Specific Reconstruction Algorithms. Front Physiol 2015;6:410. PMID: 26834640
  • Han EJ, Yoo SA, Kim GM, Hwang D et al. GREM1 Is a Key Regulator of Synoviocyte Hyperplasia and Invasiveness. J Rheumatol 2016 Mar;43(3):474-85. PMID: 26834210
  • Lin CC, Bradstreet TR, Schwarzkopf EA, Jarjour NN et al. IL-1-induced Bhlhe40 identifies pathogenic T helper cells in a model of autoimmune neuroinflammation. J Exp Med 2016 Feb 8;213(2):251-71. PMID: 26834156
  • Bouillez A, Rajabi H, Pitroda S, Jin C et al. Inhibition of MUC1-C Suppresses MYC Expression and Attenuates Malignant Growth in KRAS Mutant Lung Adenocarcinomas. Cancer Res 2016 Mar 15;76(6):1538-48. PMID: 26833129
  • Youngblood VM, Kim LC, Edwards DN, Hwang Y et al. The Ephrin-A1/EPHA2 Signaling Axis Regulates Glutamine Metabolism in HER2-Positive Breast Cancer. Cancer Res 2016 Apr 1;76(7):1825-36. PMID: 26833123
  • Lee JK, Kannarkat GT, Chung J, Joon Lee H et al. RGS10 deficiency ameliorates the severity of disease in experimental autoimmune encephalomyelitis. J Neuroinflammation 2016 Feb 1;13:24. PMID: 26831924
  • Canzar S, Andreotti S, Weese D, Reinert K et al. CIDANE: comprehensive isoform discovery and abundance estimation. Genome Biol 2016 Jan 30;17:16. PMID: 26831908
  • Vučković F, Theodoratou E, Thaçi K, Timofeeva M et al. IgG Glycome in Colorectal Cancer. Clin Cancer Res 2016 Jun 15;22(12):3078-86. PMID: 26831718
  • Chadani Y, Niwa T, Chiba S, Taguchi H et al. Integrated in vivo and in vitro nascent chain profiling reveals widespread translational pausing. Proc Natl Acad Sci U S A 2016 Feb 16;113(7):E829-38. PMID: 26831095
  • Vaquero-Garcia J, Barrera A, Gazzara MR, González-Vallinas J et al. A new view of transcriptome complexity and regulation through the lens of local splicing variations. Elife 2016 Feb 1;5:e11752. PMID: 26829591
  • Kuosmanen SM, Viitala S, Laitinen T, Peräkylä M et al. The Effects of Sequence Variation on Genome-wide NRF2 Binding--New Target Genes and Regulatory SNPs. Nucleic Acids Res 2016 Feb 29;44(4):1760-75. PMID: 26826707
  • Leclerc C, Haeich J, Aulestia FJ, Kilhoffer MC et al. Calcium signaling orchestrates glioblastoma development: Facts and conjunctures. Biochim Biophys Acta 2016 Jun;1863(6 Pt B):1447-59. PMID: 26826650
  • Jeong S, Lee J, Kim D, Seol MY et al. Relationship of Focally Amplified Long Noncoding on Chromosome 1 (FAL1) lncRNA with E2F Transcription Factors in Thyroid Cancer. Medicine (Baltimore) 2016 Jan;95(4):e2592. PMID: 26825907
  • Wong JJ, Au AY, Gao D, Pinello N et al. RBM3 regulates temperature sensitive miR-142-5p and miR-143 (thermomiRs), which target immune genes and control fever. Nucleic Acids Res 2016 Apr 7;44(6):2888-97. PMID: 26825461
  • Ezell SA, Wang S, Bihani T, Lai Z et al. Differential regulation of mTOR signaling determines sensitivity to AKT inhibition in diffuse large B cell lymphoma. Oncotarget 2016 Feb 23;7(8):9163-74. PMID: 26824321
  • Sun Y, Zhang W, Chen Y, Ma Q et al. Identifying anti-cancer drug response related genes using an integrative analysis of transcriptomic and genomic variations with cell line-based drug perturbations. Oncotarget 2016 Feb 23;7(8):9404-19. PMID: 26824188
  • Wang M, Zhang J, Tong L, Ma X et al. MiR-195 is a key negative regulator of hepatocellular carcinoma metastasis by targeting FGF2 and VEGFA. Int J Clin Exp Pathol 2015;8(11):14110-20. PMID: 26823724
  • Geng X, Wang Y, Hong Q, Yang J et al. Differences in gene expression profiles and signaling pathways in rhabdomyolysis-induced acute kidney injury. Int J Clin Exp Pathol 2015;8(11):14087-98. PMID: 26823722
  • Wang RL, Biales AD, Garcia-Reyero N, Perkins EJ et al. Fish connectivity mapping: linking chemical stressors by their mechanisms of action-driven transcriptomic profiles. BMC Genomics 2016 Jan 28;17:84. PMID: 26822894
  • Xu Y, Chang JT, Myers MG Jr, Xu Y et al. Euglycemia Restoration by Central Leptin in Type 1 Diabetes Requires STAT3 Signaling but Not Fast-Acting Neurotransmitter Release. Diabetes 2016 Apr;65(4):1040-9. PMID: 26822087
  • Elkahloun AG, Hafko R, Saavedra JM et al. An integrative genome-wide transcriptome reveals that candesartan is neuroprotective and a candidate therapeutic for Alzheimer's disease. Alzheimers Res Ther 2016 Jan 28;8:5. PMID: 26822027
  • Zhang X, Wang X, Liu T, Mo M et al. Smad2/3 Upregulates the Expression of Vimentin and Affects Its Distribution in DBP-Exposed Sertoli Cells. PPAR Res 2015;2015:489314. PMID: 26819576
  • Park Y, Wu H et al. Differential methylation analysis for BS-seq data under general experimental design. Bioinformatics 2016 May 15;32(10):1446-53. PMID: 26819470
  • Kumar S, Bucher P et al. Predicting transcription factor site occupancy using DNA sequence intrinsic and cell-type specific chromatin features. BMC Bioinformatics 2016 Jan 11;17 Suppl 1(Suppl 1):4. PMID: 26818008
  • Yu H, Choo S, Park J, Jung J et al. Prediction of drugs having opposite effects on disease genes in a directed network. BMC Syst Biol 2016 Jan 11;10 Suppl 1(Suppl 1):2. PMID: 26818006
  • Huang CH, Chang PM, Hsu CW, Huang CY et al. Drug repositioning for non-small cell lung cancer by using machine learning algorithms and topological graph theory. BMC Bioinformatics 2016 Jan 11;17 Suppl 1(Suppl 1):2. PMID: 26817825
  • Chen L, Zeng X, Kleibeuker E, Buffa F et al. Paracrine effect of GTP cyclohydrolase and angiopoietin-1 interaction in stromal fibroblasts on tumor Tie2 activation and breast cancer growth. Oncotarget 2016 Feb 23;7(8):9353-67. PMID: 26814432
  • Liu YZ, Maney P, Puri J, Zhou Y et al. RNA-sequencing study of peripheral blood monocytes in chronic periodontitis. Gene 2016 May 1;581(2):152-60. PMID: 26812355
  • Shultz DB, Pai J, Chiu W, Ng K et al. A Novel Biomarker Panel Examining Response to Gemcitabine with or without Erlotinib for Pancreatic Cancer Therapy in NCIC Clinical Trials Group PA.3. PLoS One 2016;11(1):e0147995. PMID: 26808546
  • Browne JA, Yang R, Eggener SE, Leir SH et al. HNF1 regulates critical processes in the human epididymis epithelium. Mol Cell Endocrinol 2016 Apr 15;425:94-102. PMID: 26808453
  • He H, Cao S, Niu T, Zhou Y et al. Network-Based Meta-Analyses of Associations of Multiple Gene Expression Profiles with Bone Mineral Density Variations in Women. PLoS One 2016;11(1):e0147475. PMID: 26808152
  • Sun C, Molineros JE, Looger LL, Zhou XJ et al. High-density genotyping of immune-related loci identifies new SLE risk variants in individuals with Asian ancestry. Nat Genet 2016 Mar;48(3):323-30. PMID: 26808113
  • Lin CY, Lin CY, Chang IW, Sheu MJ et al. Low thrombospondin 2 expression is predictive of low tumor regression after neoadjuvant chemoradiotherapy in rectal cancer. Am J Transl Res 2015;7(11):2423-32. PMID: 26807188
  • De Maeyer D, Weytjens B, De Raedt L, Marchal K et al. Network-Based Analysis of eQTL Data to Prioritize Driver Mutations. Genome Biol Evol 2016 Jan 23;8(3):481-94. PMID: 26802430
  • Niu Z, Chasman D, Eisfeld AJ, Kawaoka Y et al. Multi-task consensus clustering of genome-wide transcriptomes from related biological conditions. Bioinformatics 2016 May 15;32(10):1509-17. PMID: 26801959
  • Dropmann A, Dediulia T, Breitkopf-Heinlein K, Korhonen H et al. TGF-β1 and TGF-β2 abundance in liver diseases of mice and men. Oncotarget 2016 Apr 12;7(15):19499-518. PMID: 26799667
  • Li Q, Lex RK, Chung H, Giovanetti SM et al. The Pluripotency Factor NANOG Binds to GLI Proteins and Represses Hedgehog-mediated Transcription. J Biol Chem 2016 Mar 25;291(13):7171-82. PMID: 26797124
  • Luo R, Wang Y, Xu P, Cao G et al. Hypoxia-inducible miR-210 contributes to preeclampsia via targeting thrombospondin type I domain containing 7A. Sci Rep 2016 Jan 22;6:19588. PMID: 26796133
  • Godec J, Tan Y, Liberzon A, Tamayo P et al. Compendium of Immune Signatures Identifies Conserved and Species-Specific Biology in Response to Inflammation. Immunity 2016 Jan 19;44(1):194-206. PMID: 26795250
  • de Abreu Neto JB, Frei M et al. Microarray Meta-Analysis Focused on the Response of Genes Involved in Redox Homeostasis to Diverse Abiotic Stresses in Rice. Front Plant Sci 2015;6:1260. PMID: 26793229
  • Moore BD, Jin RU, Lo H, Jung M et al. Transcriptional Regulation of X-Box-binding Protein One (XBP1) by Hepatocyte Nuclear Factor 4α (HNF4Α) Is Vital to Beta-cell Function. J Biol Chem 2016 Mar 18;291(12):6146-57. PMID: 26792861
  • Rothenberg EV, Ungerbäck J, Champhekar A et al. Forging T-Lymphocyte Identity: Intersecting Networks of Transcriptional Control. Adv Immunol 2016;129:109-74. PMID: 26791859
  • Lee SI, Yi JK, Bae WJ, Lee S et al. Thymosin Beta-4 Suppresses Osteoclastic Differentiation and Inflammatory Responses in Human Periodontal Ligament Cells. PLoS One 2016;11(1):e0146708. PMID: 26789270
  • Hayashi M, Jin Y, Yorgov D, Santorico SA et al. Autoimmune vitiligo is associated with gain-of-function by a transcriptional regulator that elevates expression of HLA-A*02:01 in vivo. Proc Natl Acad Sci U S A 2016 Feb 2;113(5):1357-62. PMID: 26787886
  • Popova T, Manié E, Boeva V, Battistella A et al. Ovarian Cancers Harboring Inactivating Mutations in CDK12 Display a Distinct Genomic Instability Pattern Characterized by Large Tandem Duplications. Cancer Res 2016 Apr 1;76(7):1882-91. PMID: 26787835
  • Muraro D, Simmons A et al. An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease. BMC Bioinformatics 2016 Jan 19;17:42. PMID: 26787018
  • Olsson M, Beck S, Kogner P, Martinsson T et al. Genome-wide methylation profiling identifies novel methylated genes in neuroblastoma tumors. Epigenetics 2016;11(1):74-84. PMID: 26786290
  • Mangold CA, Masser DR, Stanford DR, Bixler GV et al. CNS-wide Sexually Dimorphic Induction of the Major Histocompatibility Complex 1 Pathway With Aging. J Gerontol A Biol Sci Med Sci 2017 Jan;72(1):16-29. PMID: 26786204
  • Chen J, Yao ZX, Chen JS, Gi YJ et al. TGF-β/β2-spectrin/CTCF-regulated tumor suppression in human stem cell disorder Beckwith-Wiedemann syndrome. J Clin Invest 2016 Feb;126(2):527-42. PMID: 26784546
  • Bai X, Miao D, Xiao S, Qiu D et al. CYP24 inhibition as a therapeutic target in FGF23-mediated renal phosphate wasting disorders. J Clin Invest 2016 Feb;126(2):667-80. PMID: 26784541
  • Minton DR, Fu L, Mongan NP, Shevchuk MM et al. Role of NADH Dehydrogenase (Ubiquinone) 1 Alpha Subcomplex 4-Like 2 in Clear Cell Renal Cell Carcinoma. Clin Cancer Res 2016 Jun 1;22(11):2791-801. PMID: 26783287
  • Zheng F, Yue C, Li G, He B et al. Nuclear AURKA acquires kinase-independent transactivating function to enhance breast cancer stem cell phenotype. Nat Commun 2016 Jan 19;7:10180. PMID: 26782714
  • Wang S, Liu JC, Kim D, Datti A et al. Targeted Pten deletion plus p53-R270H mutation in mouse mammary epithelium induces aggressive claudin-low and basal-like breast cancer. Breast Cancer Res 2016 Jan 19;18(1):9. PMID: 26781438
  • Tian W, Liu J, Pei B, Wang X et al. Identification of miRNAs and differentially expressed genes in early phase non-small cell lung cancer. Oncol Rep 2016 Apr;35(4):2171-6. PMID: 26781349
  • Chen W, Xie K, Liu X, Chen H et al. Identification of key pathways and genes in psoriasis via gene microarray analysis. Mol Med Rep 2016 Mar;13(3):2327-37. PMID: 26781069
  • Pearson C, Thornton EE, McKenzie B, Schaupp AL et al. ILC3 GM-CSF production and mobilisation orchestrate acute intestinal inflammation. Elife 2016 Jan 18;5:e10066. PMID: 26780670
  • Oakes CC, Seifert M, Assenov Y, Gu L et al. DNA methylation dynamics during B cell maturation underlie a continuum of disease phenotypes in chronic lymphocytic leukemia. Nat Genet 2016 Mar;48(3):253-64. PMID: 26780610
  • Zhang F, Cui L, Kuo MD et al. Diversity of Gene Expression in Hepatocellular Carcinoma Cells. Genomics Proteomics Bioinformatics 2015 Dec;13(6):377-82. PMID: 26779818
  • Flegel C, Vogel F, Hofreuter A, Schreiner BS et al. Characterization of the Olfactory Receptors Expressed in Human Spermatozoa. Front Mol Biosci 2015;2:73. PMID: 26779489
  • Spriggs RV, Willis AE et al. TRANS PROF DB: A new resource for sharing translational profiles. Translation (Austin) 2014 Sep 1;2(2):e965615. PMID: 26779411
  • Li D, Xu X, Hu X, Liu Q et al. Genome-Wide Analysis and Heavy Metal-Induced Expression Profiling of the HMA Gene Family in Populus trichocarpa. Front Plant Sci 2015;6:1149. PMID: 26779188
  • Zang L, Zheng T, Chu Y, Ding C et al. Genome-Wide Analysis of the Fasciclin-Like Arabinogalactan Protein Gene Family Reveals Differential Expression Patterns, Localization, and Salt Stress Response in Populus. Front Plant Sci 2015;6:1140. PMID: 26779187
  • Liao TT, Hsu WH, Ho CH, Hwang WL et al. let-7 Modulates Chromatin Configuration and Target Gene Repression through Regulation of the ARID3B Complex. Cell Rep 2016 Jan 26;14(3):520-533. PMID: 26776511
  • Greene CS, Foster JA, Stanton BA, Hogan DA et al. COMPUTATIONAL APPROACHES TO STUDY MICROBES AND MICROBIOMES. Pac Symp Biocomput 2016;21:557-67. PMID: 26776218
  • Li YF, Xin F, Altman RB et al. SEPARATING THE CAUSES AND CONSEQUENCES IN DISEASE TRANSCRIPTOME. Pac Symp Biocomput 2016;21:381-92. PMID: 26776202
  • Voon HP, Wong LH et al. New players in heterochromatin silencing: histone variant H3.3 and the ATRX/DAXX chaperone. Nucleic Acids Res 2016 Feb 29;44(4):1496-501. PMID: 26773061
  • Borghesan M, Fusilli C, Rappa F, Panebianco C et al. DNA Hypomethylation and Histone Variant macroH2A1 Synergistically Attenuate Chemotherapy-Induced Senescence to Promote Hepatocellular Carcinoma Progression. Cancer Res 2016 Feb 1;76(3):594-606. PMID: 26772755
  • Cai Y, Zhong X, Wang Y, Yang J et al. Screening feature genes of astrocytoma using a combined method of microarray gene expression profiling and bioinformatics analysis. Int J Clin Exp Med 2015;8(10):18004-12. PMID: 26770395
  • Jiang CM, Wang XH, Shu J, Yang WX et al. Analysis of differentially expressed genes based on microarray data of glioma. Int J Clin Exp Med 2015;8(10):17321-32. PMID: 26770324
  • Hanna CW, Peñaherrera MS, Saadeh H, Andrews S et al. Pervasive polymorphic imprinted methylation in the human placenta. Genome Res 2016 Jun;26(6):756-67. PMID: 26769960
  • Tobin NP, Wennmalm K, Lindström LS, Foukakis T et al. An Endothelial Gene Signature Score Predicts Poor Outcome in Patients with Endocrine-Treated, Low Genomic Grade Breast Tumors. Clin Cancer Res 2016 May 15;22(10):2417-26. PMID: 26769751
  • Mazarico JM, Sánchez-Arévalo Lobo VJ, Favicchio R, Greenhalf W et al. Choline Kinase Alpha (CHKα) as a Therapeutic Target in Pancreatic Ductal Adenocarcinoma: Expression, Predictive Value, and Sensitivity to Inhibitors. Mol Cancer Ther 2016 Feb;15(2):323-33. PMID: 26769123
  • Xia B, Li H, Yang S, Liu T et al. MiR-381 inhibits epithelial ovarian cancer malignancy via YY1 suppression. Tumour Biol 2016 Jul;37(7):9157-67. PMID: 26768613
  • Steinhauser S, Kurzawa N, Eils R, Herrmann C et al. A comprehensive comparison of tools for differential ChIP-seq analysis. Brief Bioinform 2016 Nov;17(6):953-966. PMID: 26764273
  • Bouché V, Espinosa AP, Leone L, Sardiello M et al. Drosophila Mitf regulates the V-ATPase and the lysosomal-autophagic pathway. Autophagy 2016;12(3):484-98. PMID: 26761346
  • Yang Z, Zhuang L, Yu Y, Zhou W et al. Overexpression of APOBEC3F in tumor tissues is potentially predictive for poor recurrence-free survival from HBV-related hepatocellular carcinoma. Discov Med 2015 Dec;20(112):349-56. PMID: 26760979
  • Wu BH, Chen H, Cai CM, Fang JZ et al. Epigenetic silencing of JMJD5 promotes the proliferation of hepatocellular carcinoma cells by down-regulating the transcription of CDKN1A 686. Oncotarget 2016 Feb 9;7(6):6847-63. PMID: 26760772
  • Jiang C, Li Y, Zhao Z, Lu J et al. Identifying and functionally characterizing tissue-specific and ubiquitously expressed human lncRNAs. Oncotarget 2016 Feb 9;7(6):7120-33. PMID: 26760768
  • Schönenberger D, Harlander S, Rajski M, Jacobs RA et al. Formation of Renal Cysts and Tumors in Vhl/Trp53-Deficient Mice Requires HIF1α and HIF2α. Cancer Res 2016 Apr 1;76(7):2025-36. PMID: 26759234
  • Meng F, Wang J, Dai E, Yang F et al. Psmir: a database of potential associations between small molecules and miRNAs. Sci Rep 2016 Jan 13;6:19264. PMID: 26759061
  • Rest JS, Wilkins O, Yuan W, Purugganan MD et al. Meta-analysis and meta-regression of transcriptomic responses to water stress in Arabidopsis. Plant J 2016 Feb;85(4):548-60. PMID: 26756945
  • Nakaya HI, Clutterbuck E, Kazmin D, Wang L et al. Systems biology of immunity to MF59-adjuvanted versus nonadjuvanted trivalent seasonal influenza vaccines in early childhood. Proc Natl Acad Sci U S A 2016 Feb 16;113(7):1853-8. PMID: 26755593
  • Hornung R, Boulesteix AL, Causeur D et al. Combining location-and-scale batch effect adjustment with data cleaning by latent factor adjustment. BMC Bioinformatics 2016 Jan 12;17:27. PMID: 26753519
  • Shilova IN, Robidart JC, DeLong EF, Zehr JP et al. Genetic Diversity Affects the Daily Transcriptional Oscillations of Marine Microbial Populations. PLoS One 2016;11(1):e0146706. PMID: 26751368
  • Gosline SJ, Gurtan AM, JnBaptiste CK, Bosson A et al. Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements. Cell Rep 2016 Jan 12;14(2):310-9. PMID: 26748710
  • Li N, Dhar SS, Chen TY, Kan PY et al. JARID1D Is a Suppressor and Prognostic Marker of Prostate Cancer Invasion and Metastasis. Cancer Res 2016 Feb 15;76(4):831-43. PMID: 26747897
  • Jiang L, Yu L, Zhang X, Lei F et al. miR-892b Silencing Activates NF-κB and Promotes Aggressiveness in Breast Cancer. Cancer Res 2016 Mar 1;76(5):1101-11. PMID: 26747895
  • Evans JR, Zhao SG, Chang SL, Tomlins SA et al. Patient-Level DNA Damage and Repair Pathway Profiles and Prognosis After Prostatectomy for High-Risk Prostate Cancer. JAMA Oncol 2016 Apr;2(4):471-80. PMID: 26746117
  • Amato KR, Wang S, Tan L, Hastings AK et al. EPHA2 Blockade Overcomes Acquired Resistance to EGFR Kinase Inhibitors in Lung Cancer. Cancer Res 2016 Jan 15;76(2):305-18. PMID: 26744526
  • Mittal D, Caramia F, Michiels S, Joensuu H et al. Improved Treatment of Breast Cancer with Anti-HER2 Therapy Requires Interleukin-21 Signaling in CD8+ T Cells. Cancer Res 2016 Jan 15;76(2):264-74. PMID: 26744522
  • Wang XImproving microRNA target prediction by modeling with unambiguously identified microRNA-target pairs from CLIP-ligation studies. Bioinformatics 2016 May 1;32(9):1316-22. PMID: 26743510
  • Jin Y, Zhao C, Chen L, Liu X et al. Identification of novel gene and pathway targets for human epilepsy treatment. Biol Res 2016 Jan 7;49:3. PMID: 26742644
  • Gerovska D, Araúzo-Bravo MJ et al. Does mouse embryo primordial germ cell activation start before implantation as suggested by single-cell transcriptomics dynamics? Mol Hum Reprod 2016 Mar;22(3):208-25. PMID: 26740066
  • Wang N, Hoffman EP, Chen L, Chen L et al. Mathematical modelling of transcriptional heterogeneity identifies novel markers and subpopulations in complex tissues. Sci Rep 2016 Jan 7;6:18909. PMID: 26739359
  • Lorenzi H, Khan A, Behnke MS, Namasivayam S et al. Local admixture of amplified and diversified secreted pathogenesis determinants shapes mosaic Toxoplasma gondii genomes. Nat Commun 2016 Jan 7;7:10147. PMID: 26738725
  • He H, Willems LA, Batushansky A, Fait A et al. Effects of Parental Temperature and Nitrate on Seed Performance are Reflected by Partly Overlapping Genetic and Metabolic Pathways. Plant Cell Physiol 2016 Mar;57(3):473-87. PMID: 26738545
  • Wang H, Liu W, Black S, Turner O et al. Kaiso, a transcriptional repressor, promotes cell migration and invasion of prostate cancer cells through regulation of miR-31 expression. Oncotarget 2016 Feb 2;7(5):5677-89. PMID: 26734997
  • Dahlin A, Denny J, Roden DM, Brilliant MH et al. CMTR1 is associated with increased asthma exacerbations in patients taking inhaled corticosteroids. Immun Inflamm Dis 2015 Dec;3(4):350-9. PMID: 26734457
  • Smita S, Katiyar A, Chinnusamy V, Pandey DM et al. Transcriptional Regulatory Network Analysis of MYB Transcription Factor Family Genes in Rice. Front Plant Sci 2015;6:1157. PMID: 26734052
  • Luesse DR, Wilson ME, Haswell ES et al. RNA Sequencing Analysis of the msl2msl3, crl, and ggps1 Mutants Indicates that Diverse Sources of Plastid Dysfunction Do Not Alter Leaf Morphology Through a Common Signaling Pathway. Front Plant Sci 2015;6:1148. PMID: 26734046
  • Shahbazi J, Liu PY, Atmadibrata B, Bradner JE et al. The Bromodomain Inhibitor JQ1 and the Histone Deacetylase Inhibitor Panobinostat Synergistically Reduce N-Myc Expression and Induce Anticancer Effects. Clin Cancer Res 2016 May 15;22(10):2534-44. PMID: 26733615
  • Mai J, Nanayakkara G, Lopez-Pastrana J, Li X et al. Interleukin-17A Promotes Aortic Endothelial Cell Activation via Transcriptionally and Post-translationally Activating p38 Mitogen-activated Protein Kinase (MAPK) Pathway. J Biol Chem 2016 Mar 4;291(10):4939-54. PMID: 26733204
  • Petralia F, Song WM, Tu Z, Wang P et al. New Method for Joint Network Analysis Reveals Common and Different Coexpression Patterns among Genes and Proteins in Breast Cancer. J Proteome Res 2016 Mar 4;15(3):743-54. PMID: 26733076
  • Cheng L, Lo LY, Tang NL, Wang D et al. CrossNorm: a novel normalization strategy for microarray data in cancers. Sci Rep 2016 Jan 6;6:18898. PMID: 26732145
  • Yang Y, Mei Q et al. miRNA signature identification of retinoblastoma and the correlations between differentially expressed miRNAs during retinoblastoma progression. Mol Vis 2015;21:1307-17. PMID: 26730174
  • Flori M, Schmid CA, Sumrall ET, Tzankov A et al. The hematopoietic oncoprotein FOXP1 promotes tumor cell survival in diffuse large B-cell lymphoma by repressing S1PR2 signaling. Blood 2016 Mar 17;127(11):1438-48. PMID: 26729899
  • Jones EL, Wee JL, Demaria MC, Blakeley J et al. Dendritic Cell Migration and Antigen Presentation Are Coordinated by the Opposing Functions of the Tetraspanins CD82 and CD37. J Immunol 2016 Feb 1;196(3):978-87. PMID: 26729805
  • Tényi Á, de Atauri P, Gomez-Cabrero D, Cano I et al. ChainRank, a chain prioritisation method for contextualisation of biological networks. BMC Bioinformatics 2016 Jan 5;17:17. PMID: 26729273
  • Shields BJ, Jackson JT, Metcalf D, Shi W et al. Acute myeloid leukemia requires Hhex to enable PRC2-mediated epigenetic repression of Cdkn2a. Genes Dev 2016 Jan 1;30(1):78-91. PMID: 26728554
  • Ohguchi H, Hideshima T, Bhasin MK, Gorgun GT et al. The KDM3A-KLF2-IRF4 axis maintains myeloma cell survival. Nat Commun 2016 Jan 5;7:10258. PMID: 26728187
  • Kudlicki ASG-Quadruplexes Involving Both Strands of Genomic DNA Are Highly Abundant and Colocalize with Functional Sites in the Human Genome. PLoS One 2016;11(1):e0146174. PMID: 26727593
  • Zheng M, Turton KB, Zhu F, Li Y et al. A mix of S and ΔS variants of STAT3 enable survival of activated B-cell-like diffuse large B-cell lymphoma cells in culture. Oncogenesis 2016 Jan 4;4(1):e184. PMID: 26727576
  • Auguste D, Maier M, Baldwin C, Aoudjit L et al. Disease-causing mutations of RhoGDIα induce Rac1 hyperactivation in podocytes. Small GTPases 2016 Apr 2;7(2):107-21. PMID: 26726844
  • Harden JL, Lewis SM, Lish SR, Suárez-Fariñas M et al. The tryptophan metabolism enzyme L-kynureninase is a novel inflammatory factor in psoriasis and other inflammatory diseases. J Allergy Clin Immunol 2016 Jun;137(6):1830-1840. PMID: 26725996
  • Yan L, Guo H, Hu B, Li R et al. Epigenomic Landscape of Human Fetal Brain, Heart, and Liver. J Biol Chem 2016 Feb 26;291(9):4386-98. PMID: 26719341
  • Wang J, Xiao Y, Hsu CW, Martinez-Traverso IM et al. Yap and Taz play a crucial role in neural crest-derived craniofacial development. Development 2016 Feb 1;143(3):504-15. PMID: 26718006
  • Ghosh D, Ding L, Sivaprasad U, Geh E et al. Multiple Transcriptome Data Analysis Reveals Biologically Relevant Atopic Dermatitis Signature Genes and Pathways. PLoS One 2015;10(12):e0144316. PMID: 26717000
  • Savitsky M, Kim M, Kravchuk O, Schwartz YB et al. Distinct Roles of Chromatin Insulator Proteins in Control of the Drosophila Bithorax Complex. Genetics 2016 Feb;202(2):601-17. PMID: 26715665
  • Meißner T, Seckinger A, Hemminki K, Bertsch U et al. Profound impact of sample processing delay on gene expression of multiple myeloma plasma cells. BMC Med Genomics 2015 Dec 30;8:85. PMID: 26714877
  • Pappas Mde C, Pappas GJ Jr, Grattapaglia D et al. Genome-wide discovery and validation of Eucalyptus small RNAs reveals variable patterns of conservation and diversity across species of Myrtaceae. BMC Genomics 2015 Dec 29;16:1113. PMID: 26714854
  • Wang K, Phillips CA, Saxton AM, Langston MA et al. EntropyExplorer: an R package for computing and comparing differential Shannon entropy, differential coefficient of variation and differential expression. BMC Res Notes 2015 Dec 30;8:832. PMID: 26714840
  • Bode D, Yu L, Tate P, Pardo M et al. Characterization of Two Distinct Nucleosome Remodeling and Deacetylase (NuRD) Complex Assemblies in Embryonic Stem Cells. Mol Cell Proteomics 2016 Mar;15(3):878-91. PMID: 26714524
  • Cheng YC, Huang YC, Yeh TH, Shih HY et al. Deltex1 is inhibited by the Notch-Hairy/E(Spl) signaling pathway and induces neuronal and glial differentiation. Neural Dev 2015 Dec 30;10:28. PMID: 26714454
  • Wang J, Ding Q, Fujimori H, Motegi A et al. Loss of CtIP disturbs homologous recombination repair and sensitizes breast cancer cells to PARP inhibitors. Oncotarget 2016 Feb 16;7(7):7701-14. PMID: 26713604
  • Liu G, Gradstedt H, Ermert D, Englund E et al. Moraxella catarrhalis Evades Host Innate Immunity via Targeting Cartilage Oligomeric Matrix Protein. J Immunol 2016 Feb 1;196(3):1249-58. PMID: 26712944
  • Faigenbloom L, Rubinstein ND, Kloog Y, Mayrose I et al. Regulation of alternative splicing at the single-cell level. Mol Syst Biol 2015 Dec 28;11(12):845. PMID: 26712315
  • Fagone P, Mangano K, Di Marco R, Touil-Boukoffa C et al. Expression of DNA methylation genes in secondary progressive multiple sclerosis. J Neuroimmunol 2016 Jan 15;290:66-9. PMID: 26711572
  • Marina RJ, Sturgill D, Bailly MA, Thenoz M et al. TET-catalyzed oxidation of intragenic 5-methylcytosine regulates CTCF-dependent alternative splicing. EMBO J 2016 Feb 1;35(3):335-55. PMID: 26711177
  • Liu DLYN, a Key Gene From Bioinformatics Analysis, Contributes to Development and Progression of Esophageal Adenocarcinoma. Med Sci Monit Basic Res 2015 Dec 21;21:253-61. PMID: 26708841
  • Ketudat Cairns JR, Mahong B, Baiya S, Jeon JS et al. β-Glucosidases: Multitasking, moonlighting or simply misunderstood? Plant Sci 2015 Dec;241:246-59. PMID: 26706075
  • Mathew D, Drury JA, Valentijn AJ, Vasieva O et al. In silico, in vitro and in vivo analysis identifies a potential role for steroid hormone regulation of FOXD3 in endometriosis-associated genes. Hum Reprod 2016 Feb;31(2):345-54. PMID: 26705148
  • Zhang B, Lin T, He H et al. Comparative analysis of blood and saliva expression profiles in chronic and refractory periodontitis patients. BMC Oral Health 2015 Dec 24;15:166. PMID: 26705104
  • Chen X, Jung JG, Shajahan-Haq AN, Clarke R et al. ChIP-BIT: Bayesian inference of target genes using a novel joint probabilistic model of ChIP-seq profiles. Nucleic Acids Res 2016 Apr 20;44(7):e65. PMID: 26704972
  • Arrigoni L, Richter AS, Betancourt E, Bruder K et al. Standardizing chromatin research: a simple and universal method for ChIP-seq. Nucleic Acids Res 2016 Apr 20;44(7):e67. PMID: 26704968
  • Riley TR, Lazarovici A, Mann RS, Bussemaker HJ et al. Building accurate sequence-to-affinity models from high-throughput in vitro protein-DNA binding data using FeatureREDUCE. Elife 2015 Dec 23;4. PMID: 26701911
  • Fassan M, Saraggi D, Balsamo L, Cascione L et al. Let-7c down-regulation in Helicobacter pylori-related gastric carcinogenesis. Oncotarget 2016 Jan 26;7(4):4915-24. PMID: 26701848
  • Wang SY, Gao K, Deng DL, Cai JJ et al. TLE4 promotes colorectal cancer progression through activation of JNK/c-Jun signaling pathway. Oncotarget 2016 Jan 19;7(3):2878-88. PMID: 26701208
  • Fauteux F, Hill JJ, Jaramillo ML, Pan Y et al. Computational selection of antibody-drug conjugate targets for breast cancer. Oncotarget 2016 Jan 19;7(3):2555-71. PMID: 26700623
  • Toledo RA, Qin Y, Cheng ZM, Gao Q et al. Recurrent Mutations of Chromatin-Remodeling Genes and Kinase Receptors in Pheochromocytomas and Paragangliomas. Clin Cancer Res 2016 May 1;22(9):2301-10. PMID: 26700204
  • Yi J, Moon S, Lee YS, Zhu L et al. Defective Tapetum Cell Death 1 (DTC1) Regulates ROS Levels by Binding to Metallothionein during Tapetum Degeneration. Plant Physiol 2016 Mar;170(3):1611-23. PMID: 26697896
  • Gui T, Gai Z et al. Genome-wide profiling to analyze the effects of FXR activation on mouse renal proximal tubular cells. Genom Data 2015 Dec;6:31-2. PMID: 26697325
  • Specht CA, Lee CK, Huang H, Tipper DJ et al. Protection against Experimental Cryptococcosis following Vaccination with Glucan Particles Containing Cryptococcus Alkaline Extracts. mBio 2015 Dec 22;6(6):e01905-15. PMID: 26695631
  • Alexandre YO, Ghilas S, Sanchez C, Le Bon A et al. XCR1+ dendritic cells promote memory CD8+ T cell recall upon secondary infections with Listeria monocytogenes or certain viruses. J Exp Med 2016 Jan 11;213(1):75-92. PMID: 26694969
  • LoVerso PR, Cui F et al. A Computational Pipeline for Cross-Species Analysis of RNA-seq Data Using R and Bioconductor. Bioinform Biol Insights 2015;9:165-74. PMID: 26692761
  • An N, Yang X, Cheng S, Wang G et al. Developmental genes significantly afflicted by aberrant promoter methylation and somatic mutation predict overall survival of late-stage colorectal cancer. Sci Rep 2015 Dec 22;5:18616. PMID: 26691761
  • Weichenberger CX, Blankenburg H, Palermo A, D'Elia Y et al. Dintor: functional annotation of genomic and proteomic data. BMC Genomics 2015 Dec 21;16:1081. PMID: 26691694
  • Hofmann-Apitius M, Ball G, Gebel S, Bagewadi S et al. Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders. Int J Mol Sci 2015 Dec 7;16(12):29179-206. PMID: 26690135
  • Chen J, Yi Q, Cao Y, Wei B et al. ZmbZIP91 regulates expression of starch synthesis-related genes by binding to ACTCAT elements in their promoters. J Exp Bot 2016 Mar;67(5):1327-38. PMID: 26689855
  • McCabe KL, Kunzevitzky NJ, Chiswell BP, Xia X et al. Efficient Generation of Human Embryonic Stem Cell-Derived Corneal Endothelial Cells by Directed Differentiation. PLoS One 2015;10(12):e0145266. PMID: 26689688
  • D'Asti E, Huang A, Kool M, Meehan B et al. Tissue Factor Regulation by miR-520g in Primitive Neuronal Brain Tumor Cells: A Possible Link between Oncomirs and the Vascular Tumor Microenvironment. Am J Pathol 2016 Feb;186(2):446-59. PMID: 26687818
  • Chaillou T, Zhang X, McCarthy JJ et al. Expression of Muscle-Specific Ribosomal Protein L3-Like Impairs Myotube Growth. J Cell Physiol 2016 Sep;231(9):1894-902. PMID: 26684695
  • Dong X, Chen K, Cuevas-Diaz Duran R, You Y et al. Comprehensive Identification of Long Non-coding RNAs in Purified Cell Types from the Brain Reveals Functional LncRNA in OPC Fate Determination. PLoS Genet 2015 Dec;11(12):e1005669. PMID: 26683846
  • Li X, Qiu W, Morrow J, DeMeo DL et al. A Comparative Study of Tests for Homogeneity of Variances with Application to DNA Methylation Data. PLoS One 2015;10(12):e0145295. PMID: 26683022
  • Andres-Terre M, McGuire HM, Pouliot Y, Bongen E et al. Integrated, Multi-cohort Analysis Identifies Conserved Transcriptional Signatures across Multiple Respiratory Viruses. Immunity 2015 Dec 15;43(6):1199-211. PMID: 26682989
  • Carvunis AR, Wang T, Skola D, Yu A et al. Evidence for a common evolutionary rate in metazoan transcriptional networks. Elife 2015 Dec 18;4. PMID: 26682651
  • Maertzdorf J, McEwen G, Weiner J 3rd, Tian S et al. Concise gene signature for point-of-care classification of tuberculosis. EMBO Mol Med 2016 Feb 1;8(2):86-95. PMID: 26682570
  • Zhang Y, Delahanty R, Guo X, Zheng W et al. Integrative genomic analysis reveals functional diversification of APOBEC gene family in breast cancer. Hum Genomics 2015 Dec 18;9:34. PMID: 26682542
  • Sakai Y, Miyauchi K, Kimura S, Suzuki T et al. Biogenesis and growth phase-dependent alteration of 5-methoxycarbonylmethoxyuridine in tRNA anticodons. Nucleic Acids Res 2016 Jan 29;44(2):509-23. PMID: 26681692
  • Huisinga KL, Riddle NC, Leung W, Shimonovich S et al. Targeting of P-Element Reporters to Heterochromatic Domains by Transposable Element 1360 in Drosophila melanogaster. Genetics 2016 Feb;202(2):565-82. PMID: 26680659
  • Wong YH, Wu CC, Lai HY, Jheng BR et al. Identification of network-based biomarkers of cardioembolic stroke using a systems biology approach with time series data. BMC Syst Biol 2015;9 Suppl 6(Suppl 6):S4. PMID: 26679092
  • Konishi TPrincipal component analysis for designed experiments. BMC Bioinformatics 2015;16 Suppl 18(Suppl 18):S7. PMID: 26678818
  • Chu C, Li X, Wu Y et al. SpliceJumper: a classification-based approach for calling splicing junctions from RNA-seq data. BMC Bioinformatics 2015;16 Suppl 17(Suppl 17):S10. PMID: 26678515
  • Amadoz A, Sebastian-Leon P, Vidal E, Salavert F et al. Using activation status of signaling pathways as mechanism-based biomarkers to predict drug sensitivity. Sci Rep 2015 Dec 18;5:18494. PMID: 26678097
  • O'Brown ZK, Van Nostrand EL, Higgins JP, Kim SK et al. The Inflammatory Transcription Factors NFκB, STAT1 and STAT3 Drive Age-Associated Transcriptional Changes in the Human Kidney. PLoS Genet 2015 Dec;11(12):e1005734. PMID: 26678048
  • Yuan J, Zhang P, Cui Y, Wang J et al. Computational identification of piRNA targets on mouse mRNAs. Bioinformatics 2016 Apr 15;32(8):1170-7. PMID: 26677964
  • Kant S, Krusche CA, Gaertner A, Milting H et al. Loss of plakoglobin immunoreactivity in intercalated discs in arrhythmogenic right ventricular cardiomyopathy: protein mislocalization versus epitope masking. Cardiovasc Res 2016 Feb 1;109(2):260-71. PMID: 26676851
  • Collins-McMillen D, Kim JH, Nogalski MT, Stevenson EV et al. Human Cytomegalovirus Promotes Survival of Infected Monocytes via a Distinct Temporal Regulation of Cellular Bcl-2 Family Proteins. J Virol 2015 Dec 16;90(5):2356-71. PMID: 26676786
  • Mizuno K, Seki N, Mataki H, Matsushita R et al. Tumor-suppressive microRNA-29 family inhibits cancer cell migration and invasion directly targeting LOXL2 in lung squamous cell carcinoma. Int J Oncol 2016 Feb;48(2):450-60. PMID: 26676674
  • Kim TW, Lee SJ, Oh BM, Lee H et al. Epigenetic modification of TLR4 promotes activation of NF-κB by regulating methyl-CpG-binding domain protein 2 and Sp1 in gastric cancer. Oncotarget 2016 Jan 26;7(4):4195-209. PMID: 26675260
  • Abdel-Fatah TM, Arora A, Moseley P, Coveney C et al. ATM, ATR and DNA-PKcs expressions correlate to adverse clinical outcomes in epithelial ovarian cancers. BBA Clin 2014 Dec;2:10-7. PMID: 26674120
  • Bhasin JM, Hu B, Ting AH et al. MethylAction: detecting differentially methylated regions that distinguish biological subtypes. Nucleic Acids Res 2016 Jan 8;44(1):106-16. PMID: 26673711
  • Fernández-Nogueira P, Bragado P, Almendro V, Ametller E et al. Differential expression of neurogenes among breast cancer subtypes identifies high risk patients. Oncotarget 2016 Feb 2;7(5):5313-26. PMID: 26673618
  • Li W, Turner A, Aggarwal P, Matter A et al. Comprehensive evaluation of AmpliSeq transcriptome, a novel targeted whole transcriptome RNA sequencing methodology for global gene expression analysis. BMC Genomics 2015 Dec 16;16:1069. PMID: 26673413
  • Kirby TJ, Walton RG, Finlin B, Zhu B et al. Integrative mRNA-microRNA analyses reveal novel interactions related to insulin sensitivity in human adipose tissue. Physiol Genomics 2016 Feb;48(2):145-53. PMID: 26672043
  • Bell EH, Chakraborty AR, Mo X, Liu Z et al. SMARCA4/BRG1 Is a Novel Prognostic Biomarker Predictive of Cisplatin-Based Chemotherapy Outcomes in Resected Non-Small Cell Lung Cancer. Clin Cancer Res 2016 May 15;22(10):2396-404. PMID: 26671993
  • Kuo B, Francina Webster A, Thomas RS, Yauk CL et al. BMDExpress Data Viewer - a visualization tool to analyze BMDExpress datasets. J Appl Toxicol 2016 Aug;36(8):1048-59. PMID: 26671443
  • Kim MH, Kim J, Hong H, Lee SH et al. Actin remodeling confers BRAF inhibitor resistance to melanoma cells through YAP/TAZ activation. EMBO J 2016 Mar 1;35(5):462-78. PMID: 26668268
  • Sato T, Suyama M et al. ChromContact: A web tool for analyzing spatial contact of chromosomes from Hi-C data. BMC Genomics 2015 Dec 15;16:1060. PMID: 26666652
  • Rudd J, Zelaya RA, Demidenko E, Goode EL et al. Leveraging global gene expression patterns to predict expression of unmeasured genes. BMC Genomics 2015 Dec 15;16:1065. PMID: 26666289
  • Jubb AW, Young RS, Hume DA, Bickmore WA et al. Enhancer Turnover Is Associated with a Divergent Transcriptional Response to Glucocorticoid in Mouse and Human Macrophages. J Immunol 2016 Jan 15;196(2):813-822. PMID: 26663721
  • Li B, Byrt C, Qiu J, Baumann U et al. Identification of a Stelar-Localized Transport Protein That Facilitates Root-to-Shoot Transfer of Chloride in Arabidopsis. Plant Physiol 2016 Feb;170(2):1014-29. PMID: 26662602
  • Singhal SK, Usmani N, Michiels S, Metzger-Filho O et al. Towards understanding the breast cancer epigenome: a comparison of genome-wide DNA methylation and gene expression data. Oncotarget 2016 Jan 19;7(3):3002-17. PMID: 26657508
  • Kumasaka N, Knights AJ, Gaffney DJ et al. Fine-mapping cellular QTLs with RASQUAL and ATAC-seq. Nat Genet 2016 Feb;48(2):206-13. PMID: 26656845
  • Yuan K, Chen Z, Li W, Gao CE et al. MDK Protein Overexpression Correlates with the Malignant Status and Prognosis of Non-small Cell Lung Cancer. Arch Med Res 2015 Nov;46(8):635-41. PMID: 26656665
  • Wang L, Tian H, Yuan J, Wu H et al. CONSORT: Sam68 Is Directly Regulated by MiR-204 and Promotes the Self-Renewal Potential of Breast Cancer Cells by Activating the Wnt/Beta-Catenin Signaling Pathway. Medicine (Baltimore) 2015 Dec;94(49):e2228. PMID: 26656364
  • Finak G, McDavid A, Yajima M, Deng J et al. MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data. Genome Biol 2015 Dec 10;16:278. PMID: 26653891
  • Rivera NV, Ronninger M, Shchetynsky K, Franke A et al. High-Density Genetic Mapping Identifies New Susceptibility Variants in Sarcoidosis Phenotypes and Shows Genomic-driven Phenotypic Differences. Am J Respir Crit Care Med 2016 May 1;193(9):1008-22. PMID: 26651848
  • Thakkar A, Raj H, Ravishankar, Muthuvelan B et al. High Expression of Three-Gene Signature Improves Prediction of Relapse-Free Survival in Estrogen Receptor-Positive and Node-Positive Breast Tumors. Biomark Insights 2015;10:103-12. PMID: 26648682
  • Hounkpe BW, Fiusa MM, Colella MP, da Costa LN et al. Role of innate immunity-triggered pathways in the pathogenesis of Sickle Cell Disease: a meta-analysis of gene expression studies. Sci Rep 2015 Dec 9;5:17822. PMID: 26648000
  • Liu X, Zou J, Su J, Lu Y et al. Downregulation of transient receptor potential cation channel, subfamily C, member 1 contributes to drug resistance and high histological grade in ovarian cancer. Int J Oncol 2016 Jan;48(1):243-52. PMID: 26647723
  • Lai HM, Albrecht AA, Steinhöfel KK et al. iRDA: a new filter towards predictive, stable, and enriched candidate genes. BMC Genomics 2015 Dec 9;16:1041. PMID: 26647162
  • Wruck W, Kashofer K, Rehman S, Daskalaki A et al. Multi-omic profiles of human non-alcoholic fatty liver disease tissue highlight heterogenic phenotypes. Sci Data 2015 Dec 8;2:150068. PMID: 26646939
  • Gonseth S, Roy R, Houseman EA, de Smith AJ et al. Periconceptional folate consumption is associated with neonatal DNA methylation modifications in neural crest regulatory and cancer development genes. Epigenetics 2015;10(12):1166-76. PMID: 26646725
  • Luna RL, Kay VR, Rätsep MT, Khalaj K et al. Placental growth factor deficiency is associated with impaired cerebral vascular development in mice. Mol Hum Reprod 2016 Feb;22(2):130-42. PMID: 26646502
  • Benatti P, Chiaramonte ML, Lorenzo M, Hartley JA et al. NF-Y activates genes of metabolic pathways altered in cancer cells. Oncotarget 2016 Jan 12;7(2):1633-50. PMID: 26646448
  • Aoki Y, Okamura Y, Ohta H, Kinoshita K et al. ALCOdb: Gene Coexpression Database for Microalgae. Plant Cell Physiol 2016 Jan;57(1):e3. PMID: 26644461
  • Schick S, Becker K, Thakurela S, Fournier D et al. Identifying Novel Transcriptional Regulators with Circadian Expression. Mol Cell Biol 2016 Feb 15;36(4):545-58. PMID: 26644408
  • Hanna EM, Zaki N, Amin A et al. Detecting Protein Complexes in Protein Interaction Networks Modeled as Gene Expression Biclusters. PLoS One 2015;10(12):e0144163. PMID: 26641660
  • Ceci M, Pio G, Kuzmanovski V, Džeroski S et al. Semi-Supervised Multi-View Learning for Gene Network Reconstruction. PLoS One 2015;10(12):e0144031. PMID: 26641091
  • Jiang Z, Dong H, Zheng X, Marjani SL et al. mRNA Levels of Imprinted Genes in Bovine In Vivo Oocytes, Embryos and Cross Species Comparisons with Humans, Mice and Pigs. Sci Rep 2015 Dec 7;5:17898. PMID: 26638780
  • Glastad KM, Goodisman MA, Yi SV, Hunt BG et al. Effects of DNA Methylation and Chromatin State on Rates of Molecular Evolution in Insects. G3 (Bethesda) 2015 Dec 4;6(2):357-63. PMID: 26637432
  • Chen JH, Yang R, Wang YP, Zhang W et al. Expression data analysis to identify key target genes in visceral fat tissue associated with obstructive sleep apnea. Eur Rev Med Pharmacol Sci 2015 Nov;19(22):4293-9. PMID: 26636516
  • Mao F, Xiao L, Li X, Liang J et al. RBP-Var: a database of functional variants involved in regulation mediated by RNA-binding proteins. Nucleic Acids Res 2016 Jan 4;44(D1):D154-63. PMID: 26635394
  • Visser JJ, Cheng Y, Perry SC, Chastain AB et al. An extracellular biochemical screen reveals that FLRTs and Unc5s mediate neuronal subtype recognition in the retina. Elife 2015 Dec 2;4:e08149. PMID: 26633812
  • Wingo AP, Almli LM, Stevens JS, Klengel T et al. DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression. Nat Commun 2015 Dec 3;6:10106. PMID: 26632874
  • Teumer A, Tin A, Sorice R, Gorski M et al. Genome-wide Association Studies Identify Genetic Loci Associated With Albuminuria in Diabetes. Diabetes 2016 Mar;65(3):803-17. PMID: 26631737
  • Tsuji J, Weng Z et al. Evaluation of preprocessing, mapping and postprocessing algorithms for analyzing whole genome bisulfite sequencing data. Brief Bioinform 2016 Nov;17(6):938-952. PMID: 26628557
  • Garg AD, Dudek-Peric AM, Agostinis P et al. Melphalan, Antimelanoma Immunity, and Inflammation--Response. Cancer Res 2015 Dec 15;75(24):5400-1. PMID: 26627014
  • Shaul YD, Yuan B, Thiru P, Nutter-Upham A et al. MERAV: a tool for comparing gene expression across human tissues and cell types. Nucleic Acids Res 2016 Jan 4;44(D1):D560-6. PMID: 26626150
  • Rotin LE, Gronda M, MacLean N, Hurren R et al. Ibrutinib synergizes with poly(ADP-ribose) glycohydrolase inhibitors to induce cell death in AML cells via a BTK-independent mechanism. Oncotarget 2016 Jan 19;7(3):2765-79. PMID: 26624983
  • Shepelin D, Korzinkin M, Vanyushina A, Aliper A et al. Molecular pathway activation features linked with transition from normal skin to primary and metastatic melanomas in human. Oncotarget 2016 Jan 5;7(1):656-70. PMID: 26624979
  • Rangaraju S, Solis GM, Thompson RC, Gomez-Amaro RL et al. Suppression of transcriptional drift extends C. elegans lifespan by postponing the onset of mortality. Elife 2015 Dec 1;4:e08833. PMID: 26623667
  • Kaushik A, Saraf S, Mukherjee SK, Gupta D et al. miRMOD: a tool for identification and analysis of 5' and 3' miRNA modifications in Next Generation Sequencing small RNA data. PeerJ 2015;3:e1332. PMID: 26623179
  • Wei S, Wang Y, Xu H, Kuang Y et al. Screening of potential biomarkers for chemoresistant ovarian carcinoma with miRNA expression profiling data by bioinformatics approach. Oncol Lett 2015 Oct;10(4):2427-2431. PMID: 26622864
  • Xu A, Sun S et al. Genomic profiling screens small molecules of metastatic prostate carcinoma. Oncol Lett 2015 Sep;10(3):1402-1408. PMID: 26622681
  • Hu Y, Chen G et al. Pathogenic mechanisms of lung adenocarcinoma in smokers and non-smokers determined by gene expression interrogation. Oncol Lett 2015 Sep;10(3):1350-1370. PMID: 26622675
  • Sun Y, Yuan K, Zhang P, Ma R et al. Crosstalk analysis of pathways in breast cancer using a network model based on overlapping differentially expressed genes. Exp Ther Med 2015 Aug;10(2):743-748. PMID: 26622386
  • Shang Z, Lv H, Zhang M, Duan L et al. Genome-wide haplotype association study identify TNFRSF1A, CASP7, LRP1B, CDH1 and TG genes associated with Alzheimer's disease in Caribbean Hispanic individuals. Oncotarget 2015 Dec 15;6(40):42504-14. PMID: 26621834
  • Zhu G, Wu A, Xu XJ, Xiao PP et al. PPIM: A Protein-Protein Interaction Database for Maize. Plant Physiol 2016 Feb;170(2):618-26. PMID: 26620522
  • Jaffe AE, Gao Y, Deep-Soboslay A, Tao R et al. Mapping DNA methylation across development, genotype and schizophrenia in the human frontal cortex. Nat Neurosci 2016 Jan;19(1):40-7. PMID: 26619358
  • Druzhkov P, Zolotykh N, Meyerov I, Alsaedi A et al. Variations in the Intragene Methylation Profiles Hallmark Induced Pluripotency. Biomed Res Int 2015;2015:976362. PMID: 26618180
  • Yu B, Liu L, Sun H, Chen Y et al. Long noncoding RNA AK056155 involved in the development of Loeys-Dietz syndrome through AKT/PI3K signaling pathway. Int J Clin Exp Pathol 2015;8(9):10768-75. PMID: 26617788
  • Zhao S, Ma Y, Huang X et al. Trefoil factor 1 elevates the malignant phenotype of mucinous ovarian cancer cell through Wnt/β-catenin signaling. Int J Clin Exp Pathol 2015;8(9):10412-9. PMID: 26617749
  • Smith LR, Hammers DW, Sweeney HL, Barton ER et al. Increased collagen cross-linking is a signature of dystrophin-deficient muscle. Muscle Nerve 2016 Jun;54(1):71-8. PMID: 26616495
  • Moisan S, Berlivet S, Ka C, Le Gac G et al. Analysis of long-range interactions in primary human cells identifies cooperative CFTR regulatory elements. Nucleic Acids Res 2016 Apr 7;44(6):2564-76. PMID: 26615198
  • NCBI Resource CoordinatorsDatabase resources of the National Center for Biotechnology Information. Nucleic Acids Res 2016 Jan 4;44(D1):D7-19. PMID: 26615191
  • SIB Swiss Institute of Bioinformatics MembersThe SIB Swiss Institute of Bioinformatics' resources: focus on curated databases. Nucleic Acids Res 2016 Jan 4;44(D1):D27-37. PMID: 26615188
  • Lu G, Chang JT, Liu Z, Chen Y et al. Phospholipase C Beta 1: a Candidate Signature Gene for Proneural Subtype High-Grade Glioma. Mol Neurobiol 2016 Nov;53(9):6511-6525. PMID: 26614510
  • Leichter AL, Purcell RV, Sullivan MJ, Eccles MR et al. Multi-platform microRNA profiling of hepatoblastoma patients using formalin fixed paraffin embedded archival samples. Gigascience 2015;4:54. PMID: 26613016
  • Paraskevopoulou MD, Vlachos IS, Karagkouni D, Georgakilas G et al. DIANA-LncBase v2: indexing microRNA targets on non-coding transcripts. Nucleic Acids Res 2016 Jan 4;44(D1):D231-8. PMID: 26612864
  • Paterka M, Siffrin V, Voss JO, Werr J et al. Gatekeeper role of brain antigen-presenting CD11c+ cells in neuroinflammation. EMBO J 2016 Jan 4;35(1):89-101. PMID: 26612827
  • Browne JA, Yang R, Leir SH, Eggener SE et al. Expression profiles of human epididymis epithelial cells reveal the functional diversity of caput, corpus and cauda regions. Mol Hum Reprod 2016 Feb;22(2):69-82. PMID: 26612782
  • Wang H, Gao X, Lu X, Wang Y et al. The mitotic regulator Hec1 is a critical modulator of prostate cancer through the long non-coding RNA BX647187 in vitro. Biosci Rep 2015;35(6). PMID: 26612002
  • Xu Y, Yue W, Yao Shugart Y, Li S et al. Exploring Transcription Factors-microRNAs Co-regulation Networks in Schizophrenia. Schizophr Bull 2016 Jul;42(4):1037-45. PMID: 26609121
  • Lohr M, Hellwig B, Edlund K, Mattsson JS et al. Identification of sample annotation errors in gene expression datasets. Arch Toxicol 2015 Dec;89(12):2265-72. PMID: 26608184
  • Carén H, Stricker SH, Bulstrode H, Gagrica S et al. Glioblastoma Stem Cells Respond to Differentiation Cues but Fail to Undergo Commitment and Terminal Cell-Cycle Arrest. Stem Cell Reports 2015 Nov 10;5(5):829-842. PMID: 26607953
  • Yepes S, Torres MM, López-Kleine L et al. Regulatory network reconstruction reveals genes with prognostic value for chronic lymphocytic leukemia. BMC Genomics 2015 Nov 25;16:1002. PMID: 26606983
  • Furlan SN, Watkins B, Tkachev V, Flynn R et al. Transcriptome analysis of GVHD reveals aurora kinase A as a targetable pathway for disease prevention. Sci Transl Med 2015 Nov 25;7(315):315ra191. PMID: 26606970
  • Shityakov S, Dandekar T, Förster C et al. Gene expression profiles and protein-protein interaction network analysis in AIDS patients with HIV-associated encephalitis and dementia. HIV AIDS (Auckl) 2015;7:265-76. PMID: 26604827
  • Li C, Zhu B, Chen J, Huang X et al. Novel prognostic genes of diffuse large B-cell lymphoma revealed by survival analysis of gene expression data. Onco Targets Ther 2015;8:3407-13. PMID: 26604798
  • Hu Y, Gu Y, Wang H, Huang Y et al. Integrated network model provides new insights into castration-resistant prostate cancer. Sci Rep 2015 Nov 25;5:17280. PMID: 26603105
  • Li JR, Sun CH, Li W, Chao RF et al. Cancer RNA-Seq Nexus: a database of phenotype-specific transcriptome profiling in cancer cells. Nucleic Acids Res 2016 Jan 4;44(D1):D944-51. PMID: 26602695
  • Tada K, Kobayashi M, Takiuchi Y, Iwai F et al. Abacavir, an anti-HIV-1 drug, targets TDP1-deficient adult T cell leukemia. Sci Adv 2015 Apr;1(3):e1400203. PMID: 26601161
  • Lea AJ, Tung J, Zhou X et al. A Flexible, Efficient Binomial Mixed Model for Identifying Differential DNA Methylation in Bisulfite Sequencing Data. PLoS Genet 2015 Nov;11(11):e1005650. PMID: 26599596
  • Rossi M, Ruiz de Azua I, Barella LF, Sakamoto W et al. CK2 acts as a potent negative regulator of receptor-mediated insulin release in vitro and in vivo. Proc Natl Acad Sci U S A 2015 Dec 8;112(49):E6818-24. PMID: 26598688
  • Qian Z, Zhou T, Gurguis CI, Xu X et al. Nuclear factor, erythroid 2-like 2-associated molecular signature predicts lung cancer survival. Sci Rep 2015 Nov 24;5:16889. PMID: 26596768
  • Dong H, Liu D, Han T, Zhao Y et al. Diversification and evolution of the SDG gene family in Brassica rapa after the whole genome triplication. Sci Rep 2015 Nov 24;5:16851. PMID: 26596461
  • Nanda V, Downing KP, Ye J, Xiao S et al. CDKN2B Regulates TGFβ Signaling and Smooth Muscle Cell Investment of Hypoxic Neovessels. Circ Res 2016 Jan 22;118(2):230-40. PMID: 26596284
  • Tan Y, Wu F, Tamayo P, Haining WN et al. Constellation Map: Downstream visualization and interpretation of gene set enrichment results. F1000Res 2015;4:167. PMID: 26594333
  • Kadota PO, Hajjiri Z, Finn PW, Perkins DL et al. Precision Subtypes of T Cell-Mediated Rejection Identified by Molecular Profiles. Front Immunol 2015;6:536. PMID: 26594210
  • Casanova N, Zhou T, Knox KS, Garcia JGN et al. Identifying Novel Biomarkers in Sarcoidosis Using Genome-Based Approaches. Clin Chest Med 2015 Dec;36(4):621-630. PMID: 26593137
  • Bi BL, Wang HJ, Bian H, Tian ZT et al. Identification of therapeutic targets of ischemic stroke with DNA microarray. Eur Rev Med Pharmacol Sci 2015 Nov;19(21):4012-9. PMID: 26592822
  • Sulakhe D, Xie B, Taylor A, D'Souza M et al. Lynx: a knowledge base and an analytical workbench for integrative medicine. Nucleic Acids Res 2016 Jan 4;44(D1):D882-7. PMID: 26590263
  • Chou CH, Chang NW, Shrestha S, Hsu SD et al. miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database. Nucleic Acids Res 2016 Jan 4;44(D1):D239-47. PMID: 26590260
  • Rameneni JJ, Lee Y, Dhandapani V, Yu X et al. Genomic and Post-Translational Modification Analysis of Leucine-Rich-Repeat Receptor-Like Kinases in Brassica rapa. PLoS One 2015;10(11):e0142255. PMID: 26588465
  • Moretto M, Sonego P, Dierckxsens N, Brilli M et al. COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses. Nucleic Acids Res 2016 Jan 4;44(D1):D620-3. PMID: 26586805
  • Zhao Y, Li H, Fang S, Kang Y et al. NONCODE 2016: an informative and valuable data source of long non-coding RNAs. Nucleic Acids Res 2016 Jan 4;44(D1):D203-8. PMID: 26586799
  • Sharmin S, Taguchi A, Kaku Y, Yoshimura Y et al. Human Induced Pluripotent Stem Cell-Derived Podocytes Mature into Vascularized Glomeruli upon Experimental Transplantation. J Am Soc Nephrol 2016 Jun;27(6):1778-91. PMID: 26586691
  • Selwyn FP, Cheng SL, Klaassen CD, Cui JY et al. Regulation of Hepatic Drug-Metabolizing Enzymes in Germ-Free Mice by Conventionalization and Probiotics. Drug Metab Dispos 2016 Feb;44(2):262-74. PMID: 26586378
  • Ando T, Kato R, Honda H et al. Differential variability and correlation of gene expression identifies key genes involved in neuronal differentiation. BMC Syst Biol 2015 Nov 19;9:82. PMID: 26586157
  • Szydlowski M, Kiliszek P, Sewastianik T, Jablonska E et al. FOXO1 activation is an effector of SYK and AKT inhibition in tonic BCR signal-dependent diffuse large B-cell lymphomas. Blood 2016 Feb 11;127(6):739-48. PMID: 26585955
  • Kho AT, Chhabra D, Sharma S, Qiu W et al. Age, Sexual Dimorphism, and Disease Associations in the Developing Human Fetal Lung Transcriptome. Am J Respir Cell Mol Biol 2016 Jun;54(6):814-21. PMID: 26584061
  • Szklarczyk R, Megchelenbrink W, Cizek P, Ledent M et al. WeGET: predicting new genes for molecular systems by weighted co-expression. Nucleic Acids Res 2016 Jan 4;44(D1):D567-73. PMID: 26582928
  • Walter ND, Miller MA, Vasquez J, Weiner M et al. Blood Transcriptional Biomarkers for Active Tuberculosis among Patients in the United States: a Case-Control Study with Systematic Cross-Classifier Evaluation. J Clin Microbiol 2016 Feb;54(2):274-82. PMID: 26582831
  • Gal C, Murton HE, Subramanian L, Whale AJ et al. Abo1, a conserved bromodomain AAA-ATPase, maintains global nucleosome occupancy and organisation. EMBO Rep 2016 Jan;17(1):79-93. PMID: 26582768
  • Matthijs M, Fabris M, Broos S, Vyverman W et al. Profiling of the Early Nitrogen Stress Response in the Diatom Phaeodactylum tricornutum Reveals a Novel Family of RING-Domain Transcription Factors. Plant Physiol 2016 Jan;170(1):489-98. PMID: 26582725
  • Mantsoki A, Devailly G, Joshi A et al. CpG island erosion, polycomb occupancy and sequence motif enrichment at bivalent promoters in mammalian embryonic stem cells. Sci Rep 2015 Nov 19;5:16791. PMID: 26582124
  • Li H, Liu W, Chen W, Zhu J et al. Olfactomedin 4 deficiency promotes prostate neoplastic progression and is associated with upregulation of the hedgehog-signaling pathway. Sci Rep 2015 Nov 19;5:16974. PMID: 26581960
  • Singh VK, Jain M et al. Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean. Front Plant Sci 2015;6:918. PMID: 26579165
  • Yin C, Shen G, Guo D, Wang S et al. InsectBase: a resource for insect genomes and transcriptomes. Nucleic Acids Res 2016 Jan 4;44(D1):D801-7. PMID: 26578584
  • Lun AT, Smyth GK et al. csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows. Nucleic Acids Res 2016 Mar 18;44(5):e45. PMID: 26578583
  • Winsor GL, Griffiths EJ, Lo R, Dhillon BK et al. Enhanced annotations and features for comparing thousands of Pseudomonas genomes in the Pseudomonas genome database. Nucleic Acids Res 2016 Jan 4;44(D1):D646-53. PMID: 26578582
  • Li J, Dai X, Zhuang Z, Zhao PX et al. LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes. Nucleic Acids Res 2016 Jan 4;44(D1):D1189-94. PMID: 26578557
  • Li P, Hu Y, Yi J, Li J et al. Identification of potential biomarkers to differentially diagnose solid pseudopapillary tumors and pancreatic malignancies via a gene regulatory network. J Transl Med 2015 Nov 14;13:361. PMID: 26578390
  • Auclair G, Borgel J, Sanz LA, Vallet J et al. EHMT2 directs DNA methylation for efficient gene silencing in mouse embryos. Genome Res 2016 Feb;26(2):192-202. PMID: 26576615
  • Bhargava A, Herzel H, Ananthasubramaniam B et al. Mining for novel candidate clock genes in the circadian regulatory network. BMC Syst Biol 2015 Nov 14;9:78. PMID: 26576534
  • Lynch M, Marinov GK et al. The bioenergetic costs of a gene. Proc Natl Acad Sci U S A 2015 Dec 22;112(51):15690-5. PMID: 26575626
  • Li P, Nie Y, Yu J et al. An Effective Method to Identify Shared Pathways and Common Factors among Neurodegenerative Diseases. PLoS One 2015;10(11):e0143045. PMID: 26575483
  • Chen C, Hu Y, Li L et al. NRP1 is targeted by miR-130a and miR-130b, and is associated with multidrug resistance in epithelial ovarian cancer based on integrated gene network analysis. Mol Med Rep 2016 Jan;13(1):188-96. PMID: 26573160
  • Cugno C, Deola S, Filippini P, Stroncek DF et al. Granulocyte transfusions in children and adults with hematological malignancies: benefits and controversies. J Transl Med 2015 Nov 16;13:362. PMID: 26572736
  • Xing Y, Zhang J, Lu L, Li D et al. Identification of hub genes of pneumocyte senescence induced by thoracic irradiation using weighted gene co‑expression network analysis. Mol Med Rep 2016 Jan;13(1):107-16. PMID: 26572216
  • Dhamankar V, Assem M, Donovan MD et al. Gene expression and immunochemical localization of major cytochrome P450 drug-metabolizing enzymes in bovine nasal olfactory and respiratory mucosa. Inhal Toxicol 2015;27(14):767-77. PMID: 26572092
  • Kim M, Cooper BA, Venkat R, Phillips JB et al. GEneSTATION 1.0: a synthetic resource of diverse evolutionary and functional genomic data for studying the evolution of pregnancy-associated tissues and phenotypes. Nucleic Acids Res 2016 Jan 4;44(D1):D908-16. PMID: 26567549
  • Zhang H, Liu L, Hu J, Song L et al. MicroRNA Regulatory Network Revealing the Mechanism of Inflammation in Atrial Fibrillation. Med Sci Monit 2015 Nov 14;21:3505-13. PMID: 26567235
  • Beach SR, Dogan MV, Lei MK, Cutrona CE et al. Methylomic Aging as a Window onto the Influence of Lifestyle: Tobacco and Alcohol Use Alter the Rate of Biological Aging. J Am Geriatr Soc 2015 Dec;63(12):2519-2525. PMID: 26566992
  • Wang C, Zhang J, Cai M, Zhu Z et al. DBGC: A Database of Human Gastric Cancer. PLoS One 2015;10(11):e0142591. PMID: 26566288
  • Wood LB, Winslow AR, Proctor EA, McGuone D et al. Identification of neurotoxic cytokines by profiling Alzheimer's disease tissues and neuron culture viability screening. Sci Rep 2015 Nov 13;5:16622. PMID: 26564777
  • Guebel DV, Perera-Alberto M, Torres NV et al. Q-GDEMAR: a general method for the identification of differentially expressed genes in microarrays with unbalanced groups. Mol Biosyst 2016 Jan;12(1):120-32. PMID: 26563436
  • Mahajan G, Mande SC et al. From System-Wide Differential Gene Expression to Perturbed Regulatory Factors: A Combinatorial Approach. PLoS One 2015;10(11):e0142147. PMID: 26562430
  • Hamdoun S, Zhang C, Gill M, Kumar N et al. Differential Roles of Two Homologous Cyclin-Dependent Kinase Inhibitor Genes in Regulating Cell Cycle and Innate Immunity in Arabidopsis. Plant Physiol 2016 Jan;170(1):515-27. PMID: 26561564
  • Zheng WX, Luo CS, Deng YY, Guo FB et al. Essentiality drives the orientation bias of bacterial genes in a continuous manner. Sci Rep 2015 Nov 12;5:16431. PMID: 26560889
  • Lau WH, Pandey V, Kong X, Wang XN et al. Trefoil Factor-3 (TFF3) Stimulates De Novo Angiogenesis in Mammary Carcinoma both Directly and Indirectly via IL-8/CXCR2. PLoS One 2015;10(11):e0141947. PMID: 26559818
  • Kaushik A, Bhatia Y, Ali S, Gupta D et al. Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma. PLoS One 2015;10(11):e0142443. PMID: 26558755
  • Itoh Y, Arnold AP et al. Are females more variable than males in gene expression? Meta-analysis of microarray datasets. Biol Sex Differ 2015;6:18. PMID: 26557976
  • Kim HIe, Lee HS, Kim TH, Lee JS et al. Growth-stimulatory activity of TIMP-2 is mediated through c-Src activation followed by activation of FAK, PI3-kinase/AKT, and ERK1/2 independent of MMP inhibition in lung adenocarcinoma cells. Oncotarget 2015 Dec 15;6(40):42905-22. PMID: 26556867
  • Li R, Lin X, Geng H, Li Z et al. A network-based method to evaluate quality of reproducibility of differential expression in cancer genomics studies. Oncotarget 2015 Dec 29;6(42):44714-27. PMID: 26556852
  • Shen Q, Hu J, Jiang N, Hu X et al. contamDE: differential expression analysis of RNA-seq data for contaminated tumor samples. Bioinformatics 2016 Mar 1;32(5):705-12. PMID: 26556386
  • Yu X, Zeng T, Li G et al. Integrative enrichment analysis: a new computational method to detect dysregulated pathways in heterogeneous samples. BMC Genomics 2015 Nov 10;16:918. PMID: 26556243
  • Zeng Z, Zhou Z, Zhan N, Yuan J et al. USP10 Expression in Normal Adrenal Gland and Various Adrenal Tumors. Endocr Pathol 2015 Dec;26(4):302-8. PMID: 26555087
  • Li Y, Jiang X, Wang S, Xiong H et al. VERTIcal Grid lOgistic regression (VERTIGO). J Am Med Inform Assoc 2016 May;23(3):570-9. PMID: 26554428
  • Leung YY, Kuksa PP, Amlie-Wolf A, Valladares O et al. DASHR: database of small human noncoding RNAs. Nucleic Acids Res 2016 Jan 4;44(D1):D216-22. PMID: 26553799
  • Yang Y, Jia D, Kim H, Abd Elmageed ZY et al. Dysregulation of miR-212 Promotes Castration Resistance through hnRNPH1-Mediated Regulation of AR and AR-V7: Implications for Racial Disparity of Prostate Cancer. Clin Cancer Res 2016 Apr 1;22(7):1744-56. PMID: 26553749
  • Gómez-Torres MJ, García EM, Guerrero J, Medina S et al. Metabolites involved in cellular communication among human cumulus-oocyte-complex and sperm during in vitro fertilization. Reprod Biol Endocrinol 2015 Nov 9;13:123. PMID: 26553294
  • Chen L, Zhuo D, Chen J, Yuan H et al. Screening feature genes of lung carcinoma with DNA microarray analysis. Int J Clin Exp Med 2015;8(8):12161-71. PMID: 26550126
  • Sun J, Chen X, Wang Z, Guo M et al. A potential prognostic long non-coding RNA signature to predict metastasis-free survival of breast cancer patients. Sci Rep 2015 Nov 9;5:16553. PMID: 26549855
  • Smola MJ, Calabrese JM, Weeks KM et al. Detection of RNA-Protein Interactions in Living Cells with SHAPE. Biochemistry 2015 Nov 24;54(46):6867-75. PMID: 26544910
  • Du R, Zhou J, Lorenzano S, Liu W et al. Integrative Mouse and Human Studies Implicate ANGPT1 and ZBTB7C as Susceptibility Genes to Ischemic Injury. Stroke 2015 Dec;46(12):3514-22. PMID: 26542693
  • Zhang H, Zhu C, Zhao Y, Li M et al. Long non-coding RNA expression profiles of hepatitis C virus-related dysplasia and hepatocellular carcinoma. Oncotarget 2015 Dec 22;6(41):43770-8. PMID: 26540467
  • Costa D, Castelo R et al. Umbilical cord gene expression reveals the molecular architecture of the fetal inflammatory response in extremely preterm newborns. Pediatr Res 2016 Mar;79(3):473-81. PMID: 26539667
  • Božić T, Lin Q, Frobel J, Wilop S et al. DNA-methylation in C1R is a prognostic biomarker for acute myeloid leukemia. Clin Epigenetics 2015;7:116. PMID: 26539253
  • Elkon R, Loayza-Puch F, Korkmaz G, Lopes R et al. Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. EMBO Rep 2015 Dec;16(12):1723-36. PMID: 26538417
  • Jayavelu ND, Aasgaard LS, Bar N et al. Iterative sub-network component analysis enables reconstruction of large scale genetic networks. BMC Bioinformatics 2015 Nov 4;16:366. PMID: 26537518
  • Scarlet D, Ertl R, Aurich C, Steinborn R et al. The Orthology Clause in the Next Generation Sequencing Era: Novel Reference Genes Identified by RNA-seq in Humans Improve Normalization of Neonatal Equine Ovary RT-qPCR Data. PLoS One 2015;10(11):e0142122. PMID: 26536597
  • Geraldo MV, Kimura ET et al. Integrated Analysis of Thyroid Cancer Public Datasets Reveals Role of Post-Transcriptional Regulation on Tumor Progression by Targeting of Immune System Mediators. PLoS One 2015;10(11):e0141726. PMID: 26536459
  • Liu X, Yang X, Chen X, Zhang Y et al. Expression Profiling Identifies Bezafibrate as Potential Therapeutic Drug for Lung Adenocarcinoma. J Cancer 2015;6(12):1214-21. PMID: 26535062
  • Jiang Y, Wang L et al. Role of histone deacetylase 3 in ankylosing spondylitis via negative feedback loop with microRNA-130a and enhancement of tumor necrosis factor-1α expression in peripheral blood mononuclear cells. Mol Med Rep 2016 Jan;13(1):35-40. PMID: 26531724
  • Riesenberg S, Groetchen A, Siddaway R, Bald T et al. MITF and c-Jun antagonism interconnects melanoma dedifferentiation with pro-inflammatory cytokine responsiveness and myeloid cell recruitment. Nat Commun 2015 Nov 4;6:8755. PMID: 26530832
  • Boter M, Golz JF, Giménez-Ibañez S, Fernandez-Barbero G et al. FILAMENTOUS FLOWER Is a Direct Target of JAZ3 and Modulates Responses to Jasmonate. Plant Cell 2015 Nov;27(11):3160-74. PMID: 26530088
  • Kong R, Yi F, Wen P, Liu J et al. Myo9b is a key player in SLIT/ROBO-mediated lung tumor suppression. J Clin Invest 2015 Nov 3;125(12):4407-20. PMID: 26529257
  • Liu T, Li H, Ding G, Wang Z et al. Comparative Genome of GK and Wistar Rats Reveals Genetic Basis of Type 2 Diabetes. PLoS One 2015;10(11):e0141859. PMID: 26529237
  • Zeledón M, Eckart N, Taub M, Vernon H et al. Identification and functional studies of regulatory variants responsible for the association of NRG3 with a delusion phenotype in schizophrenia. Mol Neuropsychiatry 2015 May;1(1):36-46. PMID: 26528484
  • Kim E, Hwang S, Kim H, Shim H et al. MouseNet v2: a database of gene networks for studying the laboratory mouse and eight other model vertebrates. Nucleic Acids Res 2016 Jan 4;44(D1):D848-54. PMID: 26527726
  • Cai H, Li X, Li J, Ao L et al. Tamoxifen therapy benefit predictive signature coupled with prognostic signature of post-operative recurrent risk for early stage ER+ breast cancer. Oncotarget 2015 Dec 29;6(42):44593-608. PMID: 26527319
  • Li S, Wang W, Li X, Fan K et al. Genome-wide identification and characterization of reference genes with different transcript abundances for Streptomyces coelicolor. Sci Rep 2015 Nov 3;5:15840. PMID: 26527303
  • Isewon I, Oyelade J, Brors B, Adebiyi E et al. In Silico Gene Regulatory Network of the Maurer's Cleft Pathway in Plasmodium falciparum. Evol Bioinform Online 2015;11:231-8. PMID: 26526876
  • Murphy KM, Egger RL, Walbot V et al. Chloroplasts in anther endothecium of Zea mays (Poaceae). Am J Bot 2015 Nov;102(11):1931-7. PMID: 26526813
  • Kim SK, Chu IS et al. A Database of Gene Expression Profiles of Korean Cancer Genome. Genomics Inform 2015 Sep;13(3):86-9. PMID: 26523133
  • Hunter JE, Butterworth JA, Zhao B, Sellier H et al. The NF-κB subunit c-Rel regulates Bach2 tumour suppressor expression in B-cell lymphoma. Oncogene 2016 Jun 30;35(26):3476-84. PMID: 26522720
  • Verma A, Jiang Y, Du W, Fairchild L et al. Transcriptome sequencing reveals thousands of novel long non-coding RNAs in B cell lymphoma. Genome Med 2015 Nov 1;7:110. PMID: 26521025
  • Cestarelli V, Fiscon G, Felici G, Bertolazzi P et al. CAMUR: Knowledge extraction from RNA-seq cancer data through equivalent classification rules. Bioinformatics 2016 Mar 1;32(5):697-704. PMID: 26519501
  • Rood JE, Rao S, Paessler M, Kreiger PA et al. ST2 contributes to T-cell hyperactivation and fatal hemophagocytic lymphohistiocytosis in mice. Blood 2016 Jan 28;127(4):426-35. PMID: 26518437
  • Chuang MK, Chiu YC, Chou WC, Hou HA et al. An mRNA expression signature for prognostication in de novo acute myeloid leukemia patients with normal karyotype. Oncotarget 2015 Nov 17;6(36):39098-110. PMID: 26517675
  • Timpe LC, Li D, Yen TY, Wong J et al. Mining the Breast Cancer Proteome for Predictors of Drug Sensitivity. J Proteomics Bioinform 2015;8(9):204-211. PMID: 26516301
  • Kotlyar M, Pastrello C, Sheahan N, Jurisica I et al. Integrated interactions database: tissue-specific view of the human and model organism interactomes. Nucleic Acids Res 2016 Jan 4;44(D1):D536-41. PMID: 26516188
  • Li S, Wang J, Li X, Yin S et al. Genome-wide identification and evaluation of constitutive promoters in streptomycetes. Microb Cell Fact 2015 Oct 29;14:172. PMID: 26515616
  • Tong M, Zheng W, Lu X, Ao L et al. Identifying clinically relevant drug resistance genes in drug-induced resistant cancer cell lines and post-chemotherapy tissues. Oncotarget 2015 Dec 1;6(38):41216-27. PMID: 26515599
  • Jiang K, Sun Y, Wang C, Ji J et al. Genome-wide association study identifies two new susceptibility loci for colorectal cancer at 5q23.3 and 17q12 in Han Chinese. Oncotarget 2015 Nov 24;6(37):40327-36. PMID: 26515597
  • Conway C, Graham JL, Chengot P, Daly C et al. Elucidating drivers of oral epithelial dysplasia formation and malignant transformation to cancer using RNAseq. Oncotarget 2015 Nov 24;6(37):40186-201. PMID: 26515596
  • Zhang R, Lv W, Luan M, Zheng J et al. Genes with stable DNA methylation levels show higher evolutionary conservation than genes with fluctuant DNA methylation levels. Oncotarget 2015 Nov 24;6(37):40235-46. PMID: 26515589
  • Klein HU, Hebestreit K et al. An evaluation of methods to test predefined genomic regions for differential methylation in bisulfite sequencing data. Brief Bioinform 2016 Sep;17(5):796-807. PMID: 26515532
  • Stern JL, Theodorescu D, Vogelstein B, Papadopoulos N et al. Mutation of the TERT promoter, switch to active chromatin, and monoallelic TERT expression in multiple cancers. Genes Dev 2015 Nov 1;29(21):2219-24. PMID: 26515115
  • Fan JB, Miyauchi-Ishida S, Arimoto K, Liu D et al. Type I IFN induces protein ISGylation to enhance cytokine expression and augments colonic inflammation. Proc Natl Acad Sci U S A 2015 Nov 17;112(46):14313-8. PMID: 26515094
  • Holec M, Kuželka O, Železný F et al. Novel gene sets improve set-level classification of prokaryotic gene expression data. BMC Bioinformatics 2015 Oct 28;16:348. PMID: 26511329
  • Li P, Piao Y, Shon HS, Ryu KH et al. Comparing the normalization methods for the differential analysis of Illumina high-throughput RNA-Seq data. BMC Bioinformatics 2015 Oct 28;16:347. PMID: 26511205
  • Thiele S, Cerone L, Saez-Rodriguez J, Siegel A et al. Extended notions of sign consistency to relate experimental data to signaling and regulatory network topologies. BMC Bioinformatics 2015 Oct 28;16:345. PMID: 26510976
  • Cao Z, Wang Y, Sun Y, Du W et al. A novel filter feature selection method for paired microarray expression data analysis. Int J Data Min Bioinform 2015;12(4):363-86. PMID: 26510292
  • Muraguchi H, Umezawa K, Niikura M, Yoshida M et al. Strand-Specific RNA-Seq Analyses of Fruiting Body Development in Coprinopsis cinerea. PLoS One 2015;10(10):e0141586. PMID: 26510163
  • Han L, He H, Li F, Cui X et al. Inferring Infection Patterns Based on a Connectivity Map of Host Transcriptional Responses. Sci Rep 2015 Oct 28;5:15820. PMID: 26508266
  • Lambert AW, Wong CK, Ozturk S, Papageorgis P et al. Tumor Cell-Derived Periostin Regulates Cytokines That Maintain Breast Cancer Stem Cells. Mol Cancer Res 2016 Jan;14(1):103-13. PMID: 26507575
  • Ni Y, Li J, Panagiotou G et al. A Molecular-Level Landscape of Diet-Gut Microbiome Interactions: Toward Dietary Interventions Targeting Bacterial Genes. mBio 2015 Oct 27;6(6):e01263-15. PMID: 26507230
  • Hopp L, Nersisyan L, Löffler-Wirth H, Arakelyan A et al. Epigenetic Heterogeneity of B-Cell Lymphoma: Chromatin Modifiers. Genes (Basel) 2015 Oct 21;6(4):1076-112. PMID: 26506391
  • Du D, Rawat N, Deng Z, Gmitter FG Jr et al. Construction of citrus gene coexpression networks from microarray data using random matrix theory. Hortic Res 2015;2:15026. PMID: 26504573
  • Liang YH, Cai B, Chen F, Wang G et al. Construction and validation of a gene co-expression network in grapevine (Vitis vinifera. L.). Hortic Res 2014;1:14040. PMID: 26504546
  • Wang M, Vannozzi A, Wang G, Liang YH et al. Genome and transcriptome analysis of the grapevine (Vitis vinifera L.) WRKY gene family. Hortic Res 2014;1:14016. PMID: 26504535
  • Mossé YPAnaplastic Lymphoma Kinase as a Cancer Target in Pediatric Malignancies. Clin Cancer Res 2016 Feb 1;22(3):546-52. PMID: 26503946
  • Bunik VI, Artiukhov A, Kazantsev A, Goncalves R et al. Specific inhibition by synthetic analogs of pyruvate reveals that the pyruvate dehydrogenase reaction is essential for metabolism and viability of glioblastoma cells. Oncotarget 2015 Nov 24;6(37):40036-52. PMID: 26503465
  • Osborne L, Clive M, Kimmel M, Gispen F et al. Replication of Epigenetic Postpartum Depression Biomarkers and Variation with Hormone Levels. Neuropsychopharmacology 2016 May;41(6):1648-58. PMID: 26503311
  • Sheng WH, Sheng KT, Zhao YX, Li H et al. Identifying the biomarkers of multiple sclerosis based on non-coding RNA signature. Eur Rev Med Pharmacol Sci 2015 Oct;19(19):3635-42. PMID: 26502853
  • Bentham J, Morris DL, Graham DSC, Pinder CL et al. Genetic association analyses implicate aberrant regulation of innate and adaptive immunity genes in the pathogenesis of systemic lupus erythematosus. Nat Genet 2015 Dec;47(12):1457-1464. PMID: 26502338
  • Schneider L, Stöckel D, Kehl T, Gerasch A et al. DrugTargetInspector: An assistance tool for patient treatment stratification. Int J Cancer 2016 Apr 1;138(7):1765-76. PMID: 26501925
  • Okun JG, Conway S, Schmidt KV, Schumacher J et al. Molecular regulation of urea cycle function by the liver glucocorticoid receptor. Mol Metab 2015 Oct;4(10):732-40. PMID: 26500844
  • Ma SL, Li AJ, Hu ZY, Shang FS et al. Co‑expression of the carbamoyl‑phosphate synthase 1 gene and its long non‑coding RNA correlates with poor prognosis of patients with intrahepatic cholangiocarcinoma. Mol Med Rep 2015 Dec;12(6):7915-26. PMID: 26499888
  • Sun B, Xie C, Zheng T, Yin D et al. Selecting molecular therapeutic drug targets based on the expression profiles of intrahepatic cholangiocarcinomas and miRNA-mRNA regulatory networks. Oncol Rep 2016 Jan;35(1):382-90. PMID: 26498995
  • Chen X, Zheng C, He Y, Tian L et al. Identification of key genes associated with the human abdominal aortic aneurysm based on the gene expression profile. Mol Med Rep 2015 Dec;12(6):7891-8. PMID: 26498477
  • Liu H, Wang P, Liu L, Min Z et al. Nucleosome alterations caused by mutations at modifiable histone residues in Saccharomyces cerevisiae. Sci Rep 2015 Oct 26;5:15583. PMID: 26498326
  • Wang P, Chen S, Fang H, Wu X et al. miR-214/199a/199a* cluster levels predict poor survival in hepatocellular carcinoma through interference with cell-cycle regulators. Oncotarget 2016 Jan 5;7(1):929-45. PMID: 26498144
  • Kim JB, Lee H, Araúzo-Bravo MJ, Hwang K et al. Oct4-induced oligodendrocyte progenitor cells enhance functional recovery in spinal cord injury model. EMBO J 2015 Dec 2;34(23):2971-83. PMID: 26497893
  • Raman P, Purwin T, Pestell R, Tozeren A et al. FXYD5 is a Marker for Poor Prognosis and a Potential Driver for Metastasis in Ovarian Carcinomas. Cancer Inform 2015;14:113-9. PMID: 26494976
  • Alam SK, Yadav VK, Bajaj S, Datta A et al. DNA damage-induced ephrin-B2 reverse signaling promotes chemoresistance and drives EMT in colorectal carcinoma harboring mutant p53. Cell Death Differ 2016 Apr;23(4):707-22. PMID: 26494468
  • Chang S, Sung PS, Lee J, Park J et al. Prolonged silencing of diacylglycerol acyltransferase-1 induces a dedifferentiated phenotype in human liver cells. J Cell Mol Med 2016 Jan;20(1):38-47. PMID: 26493024
  • Zhang J, Fan D, Jian Z, Chen GG et al. Cancer Specific Long Noncoding RNAs Show Differential Expression Patterns and Competing Endogenous RNA Potential in Hepatocellular Carcinoma. PLoS One 2015;10(10):e0141042. PMID: 26492393
  • Guo ZW, Xie C, Yang JR, Li JH et al. MtiBase: a database for decoding microRNA target sites located within CDS and 5'UTR regions from CLIP-Seq and expression profile datasets. Database (Oxford) 2015;2015. PMID: 26490638
  • Xu H, Guo X, Sun Q, Zhang M et al. The influence of cancer tissue sampling on the identification of cancer characteristics. Sci Rep 2015 Oct 22;5:15474. PMID: 26490514
  • Lu D, Sinnott JA, Valdimarsdóttir U, Fang F et al. Stress-Related Signaling Pathways in Lethal and Nonlethal Prostate Cancer. Clin Cancer Res 2016 Feb 1;22(3):765-772. PMID: 26490316
  • Bayerlová M, Jung K, Kramer F, Klemm F et al. Comparative study on gene set and pathway topology-based enrichment methods. BMC Bioinformatics 2015 Oct 22;16:334. PMID: 26489510
  • Reeder JE, Kwak YT, McNamara RP, Forst CV et al. HIV Tat controls RNA Polymerase II and the epigenetic landscape to transcriptionally reprogram target immune cells. Elife 2015 Oct 21;4. PMID: 26488441
  • Cohen AS, Patek R, Enkemann SA, Johnson JO et al. Delta-Opioid Receptor (δOR) Targeted Near-Infrared Fluorescent Agent for Imaging of Lung Cancer: Synthesis and Evaluation In Vitro and In Vivo. Bioconjug Chem 2016 Feb 17;27(2):427-38. PMID: 26488422
  • Zhang Z, Presgraves DC et al. Drosophila X-Linked Genes Have Lower Translation Rates than Autosomal Genes. Mol Biol Evol 2016 Feb;33(2):413-28. PMID: 26486873
  • Zeng X, Li B, Welch R, Rojo C et al. Perm-seq: Mapping Protein-DNA Interactions in Segmental Duplication and Highly Repetitive Regions of Genomes with Prior-Enhanced Read Mapping. PLoS Comput Biol 2015 Oct;11(10):e1004491. PMID: 26484757
  • Kulkarni KK, Bankar KG, Shukla RN, Das C et al. Global gene expression profiling data analysis reveals key gene families and biological processes inhibited by Mithramycin in sarcoma cell lines. Genom Data 2015 Mar;3:8-14. PMID: 26484141
  • Ueki Y, Wilken MS, Cox KE, Chipman L et al. Transgenic expression of the proneural transcription factor Ascl1 in Müller glia stimulates retinal regeneration in young mice. Proc Natl Acad Sci U S A 2015 Nov 3;112(44):13717-22. PMID: 26483457
  • Peschek J, Acosta-Alvear D, Mendez AS, Walter P et al. A conformational RNA zipper promotes intron ejection during non-conventional XBP1 mRNA splicing. EMBO Rep 2015 Dec;16(12):1688-98. PMID: 26483401
  • Paternoster L, Standl M, Waage J, Baurecht H et al. Multi-ancestry genome-wide association study of 21,000 cases and 95,000 controls identifies new risk loci for atopic dermatitis. Nat Genet 2015 Dec;47(12):1449-1456. PMID: 26482879
  • Horikawa N, Baba T, Matsumura N, Murakami R et al. Genomic profile predicts the efficacy of neoadjuvant chemotherapy for cervical cancer patients. BMC Cancer 2015 Oct 19;15:739. PMID: 26482555
  • Kalmár A, Péterfia B, Hollósi P, Galamb O et al. DNA hypermethylation and decreased mRNA expression of MAL, PRIMA1, PTGDR and SFRP1 in colorectal adenoma and cancer. BMC Cancer 2015 Oct 19;15:736. PMID: 26482433
  • Lackey L, McArthur E, Laederach A et al. Increased Transcript Complexity in Genes Associated with Chronic Obstructive Pulmonary Disease. PLoS One 2015;10(10):e0140885. PMID: 26480348
  • Sevimoglu T, Arga KY et al. Computational Systems Biology of Psoriasis: Are We Ready for the Age of Omics and Systems Biomarkers? OMICS 2015 Nov;19(11):669-87. PMID: 26480058
  • Kuan PF, Chung D, Pan G, Thomson JA et al. A Statistical Framework for the Analysis of ChIP-Seq Data. J Am Stat Assoc 2011;106(495):891-903. PMID: 26478641
  • Vasseur R, Skrypek N, Duchêne B, Renaud F et al. The mucin MUC4 is a transcriptional and post-transcriptional target of K-ras oncogene in pancreatic cancer. Implication of MAPK/AP-1, NF-κB and RalB signaling pathways. Biochim Biophys Acta 2015 Dec;1849(12):1375-84. PMID: 26477488
  • Lin Q, Chauvistré H, Costa IG, Gusmao EG et al. Epigenetic program and transcription factor circuitry of dendritic cell development. Nucleic Acids Res 2015 Nov 16;43(20):9680-93. PMID: 26476451
  • Bagewadi S, Adhikari S, Dhrangadhariya A, Irin AK et al. NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases. Database (Oxford) 2015;2015. PMID: 26475471
  • Li B, Xu WW, Guan XY, Qin YR et al. Competitive Binding Between Id1 and E2F1 to Cdc20 Regulates E2F1 Degradation and Thymidylate Synthase Expression to Promote Esophageal Cancer Chemoresistance. Clin Cancer Res 2016 Mar 1;22(5):1243-55. PMID: 26475334
  • Chiara M, Fanelli F, Mulè G, Logrieco AF et al. Genome Sequencing of Multiple Isolates Highlights Subtelomeric Genomic Diversity within Fusarium fujikuroi. Genome Biol Evol 2015 Oct 15;7(11):3062-9. PMID: 26475319
  • Zou J, Tran D, Baalbaki M, Tang LF et al. An internal promoter underlies the difference in disease severity between N- and C-terminal truncation mutations of Titin in zebrafish. Elife 2015 Oct 16;4:e09406. PMID: 26473617
  • Staege MSA short treatise concerning a musical approach for the interpretation of gene expression data. Sci Rep 2015 Oct 16;5:15281. PMID: 26472273
  • Massey AJ, Stephens P, Rawlinson R, McGurk L et al. mTORC1 and DNA-PKcs as novel molecular determinants of sensitivity to Chk1 inhibition. Mol Oncol 2016 Jan;10(1):101-12. PMID: 26471831
  • Nguyen T, Tagett R, Donato M, Mitrea C et al. A novel bi-level meta-analysis approach: applied to biological pathway analysis. Bioinformatics 2016 Feb 1;32(3):409-16. PMID: 26471455
  • Maji A, Misra R, Kumar Mondal A, Kumar D et al. Expression profiling of lymph nodes in tuberculosis patients reveal inflammatory milieu at site of infection. Sci Rep 2015 Oct 15;5:15214. PMID: 26469538
  • Shin JH, Kim IY, Kim YN, Shin SM et al. Obesity Resistance and Enhanced Insulin Sensitivity in Ahnak-/- Mice Fed a High Fat Diet Are Related to Impaired Adipogenesis and Increased Energy Expenditure. PLoS One 2015;10(10):e0139720. PMID: 26466345
  • Honardoost M, Soleimani M, Arefian E, Sarookhani MR et al. Expression Change of miR-214 and miR-135 during Muscle Differentiation. Cell J 2015 Fall;17(3):461-70. PMID: 26464817
  • Lu T, Cui L, Zhou Y, Zhu C et al. Transcriptome-wide investigation of circular RNAs in rice. RNA 2015 Dec;21(12):2076-87. PMID: 26464523
  • Kiselev VY, Juvin V, Malek M, Luscombe N et al. Perturbations of PIP3 signalling trigger a global remodelling of mRNA landscape and reveal a transcriptional feedback loop. Nucleic Acids Res 2015 Nov 16;43(20):9663-79. PMID: 26464442
  • Cabrera IE, Pacentine IV, Lim A, Guerrero N et al. Global Analysis of Predicted G Protein-Coupled Receptor Genes in the Filamentous Fungus, Neurospora crassa. G3 (Bethesda) 2015 Oct 13;5(12):2729-43. PMID: 26464358
  • Chen H, He X et al. The Convergent Cancer Evolution toward a Single Cellular Destination. Mol Biol Evol 2016 Jan;33(1):4-12. PMID: 26464125
  • Zehetmayer S, Graf AC, Posch M et al. Sample size reassessment for a two-stage design controlling the false discovery rate. Stat Appl Genet Mol Biol 2015 Nov;14(5):429-42. PMID: 26461844
  • Gustafsson Sheppard N, Jarl L, Mahadessian D, Strittmatter L et al. The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation. Sci Rep 2015 Oct 13;5:15029. PMID: 26461067
  • Costantini TW, Coimbra R, Lopez NE, Lee JG et al. Monitoring Neutrophil-Expressed Cell Surface Esophageal Cancer Related Gene-4 after Severe Burn Injury. Surg Infect (Larchmt) 2015 Dec;16(6):669-74. PMID: 26460850
  • Xu X, Yuan B, Liang Q, Huang H et al. Gene expression profile analysis of ventilator-associated pneumonia. Mol Med Rep 2015 Nov;12(5):7455-62. PMID: 26459786
  • Melia T, Hao P, Yilmaz F, Waxman DJ et al. Hepatic Long Intergenic Noncoding RNAs: High Promoter Conservation and Dynamic, Sex-Dependent Transcriptional Regulation by Growth Hormone. Mol Cell Biol 2016 Jan 1;36(1):50-69. PMID: 26459762
  • Morozumi Y, Boussouar F, Tan M, Chaikuad A et al. Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells. J Mol Cell Biol 2016 Aug;8(4):349-62. PMID: 26459632
  • Morrison PJ, Ballantyne SJ, Macdonald SJ, Moore JW et al. Differential Requirements for IL-17A and IL-22 in Cecal versus Colonic Inflammation Induced by Helicobacter hepaticus. Am J Pathol 2015 Dec;185(12):3290-303. PMID: 26458765
  • Li J, Zhou C, Li J, Wan Y et al. Gene expression profiling of CD133-positive cells in coronary artery disease. Mol Med Rep 2015 Nov;12(5):7512-6. PMID: 26458356
  • Guinney J, Dienstmann R, Wang X, de Reyniès A et al. The consensus molecular subtypes of colorectal cancer. Nat Med 2015 Nov;21(11):1350-6. PMID: 26457759
  • Tu KC, Cheng LC, T K Vu H, Lange JJ et al. Egr-5 is a post-mitotic regulator of planarian epidermal differentiation. Elife 2015 Oct 12;4:e10501. PMID: 26457503
  • Fernandes MT, Ghezzo MN, Silveira AB, Kalathur RK et al. Lymphotoxin-β receptor in microenvironmental cells promotes the development of T-cell acute lymphoblastic leukaemia with cortical/mature immunophenotype. Br J Haematol 2015 Dec;171(5):736-51. PMID: 26456771
  • Stankiewicz AM, Goscik J, Dyr W, Juszczak GR et al. Novel candidate genes for alcoholism--transcriptomic analysis of prefrontal medial cortex, hippocampus and nucleus accumbens of Warsaw alcohol-preferring and non-preferring rats. Pharmacol Biochem Behav 2015 Dec;139(Pt A):27-38. PMID: 26455281
  • Nishijima H, Kitano S, Miyachi H, Morimoto J et al. Ectopic Aire Expression in the Thymic Cortex Reveals Inherent Properties of Aire as a Tolerogenic Factor within the Medulla. J Immunol 2015 Nov 15;195(10):4641-9. PMID: 26453754
  • Sethi S, Brietzke E et al. Omics-Based Biomarkers: Application of Metabolomics in Neuropsychiatric Disorders. Int J Neuropsychopharmacol 2015 Oct 9;19(3):pyv096. PMID: 26453695
  • Ma Q, Yang Y, Feng D, Zheng S et al. MAGI3 negatively regulates Wnt/β-catenin signaling and suppresses malignant phenotypes of glioma cells. Oncotarget 2015 Nov 3;6(34):35851-65. PMID: 26452219
  • Zhang S, Zhao H, Ng MK et al. Functional Module Analysis for Gene Coexpression Networks with Network Integration. IEEE/ACM Trans Comput Biol Bioinform 2015 Sep-Oct;12(5):1146-60. PMID: 26451826
  • Ejlerskov P, Hultberg JG, Wang J, Carlsson R et al. Lack of Neuronal IFN-β-IFNAR Causes Lewy Body- and Parkinson's Disease-like Dementia. Cell 2015 Oct 8;163(2):324-39. PMID: 26451483
  • Quah S, Holland PW et al. The Hox cluster microRNA miR-615: a case study of intronic microRNA evolution. Evodevo 2015;6:31. PMID: 26451238
  • Yang J, Wu SJ, Dai WT, Li YX et al. The human disease network in terms of dysfunctional regulatory mechanisms. Biol Direct 2015 Oct 8;10:60. PMID: 26450611
  • Smestad JA, Maher LJ 3rd et al. Relationships between putative G-quadruplex-forming sequences, RecQ helicases, and transcription. BMC Med Genet 2015 Oct 8;16:91. PMID: 26449372
  • Johannessen B, Sveen A, Skotheim RI et al. TIN: An R Package for Transcriptome Instability Analysis. Cancer Inform 2015;14:109-12. PMID: 26448683
  • Lin CC, Mitra R, Cheng F, Zhao Z et al. A cross-cancer differential co-expression network reveals microRNA-regulated oncogenic functional modules. Mol Biosyst 2015 Dec;11(12):3244-52. PMID: 26448606
  • Schell MJ, Yang M, Missiaglia E, Delorenzi M et al. A Composite Gene Expression Signature Optimizes Prediction of Colorectal Cancer Metastasis and Outcome. Clin Cancer Res 2016 Feb 1;22(3):734-45. PMID: 26446941
  • Mayes MB, Morgan T, Winston J, Buxton DS et al. Remotely acting SMCHD1 gene regulatory elements: in silico prediction and identification of potential regulatory variants in patients with FSHD. Hum Genomics 2015 Oct 7;9:25. PMID: 26446085
  • Sun J, Wen X, Jin F, Li Y et al. Bioinformatics analyses of differentially expressed genes associated with bisphosphonate-related osteonecrosis of the jaw in patients with multiple myeloma. Onco Targets Ther 2015;8:2681-8. PMID: 26445550
  • Liemburg-Apers DC, Schirris TJ, Russel FG, Willems PH et al. Mitoenergetic Dysfunction Triggers a Rapid Compensatory Increase in Steady-State Glucose Flux. Biophys J 2015 Oct 6;109(7):1372-86. PMID: 26445438
  • Zhang H, Ramakrishnan SK, Triner D, Centofanti B et al. Tumor-selective proteotoxicity of verteporfin inhibits colon cancer progression independently of YAP1. Sci Signal 2015 Oct 6;8(397):ra98. PMID: 26443705
  • Singh A, Kushwaha HR, Soni P, Gupta H et al. Tissue specific and abiotic stress regulated transcription of histidine kinases in plants is also influenced by diurnal rhythm. Front Plant Sci 2015;6:711. PMID: 26442025
  • Ballard MS, Zhu A, Iwai N, Stensrud M et al. Mammary Stem Cell Self-Renewal Is Regulated by Slit2/Robo1 Signaling through SNAI1 and mINSC. Cell Rep 2015 Oct 13;13(2):290-301. PMID: 26440891
  • Aviner R, Shenoy A, Elroy-Stein O, Geiger T et al. Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis. PLoS Genet 2015 Oct;11(10):e1005554. PMID: 26439921
  • Zhou W, Yin M, Cui H, Wang N et al. Identification of potential therapeutic target genes and mechanisms in non-small-cell lung carcinoma in non-smoking women based on bioinformatics analysis. Eur Rev Med Pharmacol Sci 2015 Sep;19(18):3375-84. PMID: 26439031
  • Liu C, Fei HD, Sun ZY, Tian JW et al. Bioinformatic analysis of the microarray gene expression profile in degenerative intervertebral disc cells exposed to TNF-α. Eur Rev Med Pharmacol Sci 2015 Sep;19(18):3332-9. PMID: 26439025
  • Patterson HC, Gerbeth C, Thiru P, Vögtle NF et al. A respiratory chain controlled signal transduction cascade in the mitochondrial intermembrane space mediates hydrogen peroxide signaling. Proc Natl Acad Sci U S A 2015 Oct 20;112(42):E5679-88. PMID: 26438848
  • Olvera-Carrillo Y, Van Bel M, Van Hautegem T, Fendrych M et al. A Conserved Core of Programmed Cell Death Indicator Genes Discriminates Developmentally and Environmentally Induced Programmed Cell Death in Plants. Plant Physiol 2015 Dec;169(4):2684-99. PMID: 26438786
  • Dmochowska-Boguta M, Alaba S, Yanushevska Y, Piechota U et al. Pathogen-regulated genes in wheat isogenic lines differing in resistance to brown rust Puccinia triticina. BMC Genomics 2015 Oct 5;16:742. PMID: 26438375
  • Nakanishi Y, Mizuno H, Sase H, Fujii T et al. ERK Signal Suppression and Sensitivity to CH5183284/Debio 1347, a Selective FGFR Inhibitor. Mol Cancer Ther 2015 Dec;14(12):2831-9. PMID: 26438159
  • Paraboschi EM, Cardamone G, Rimoldi V, Gemmati D et al. Meta-Analysis of Multiple Sclerosis Microarray Data Reveals Dysregulation in RNA Splicing Regulatory Genes. Int J Mol Sci 2015 Sep 30;16(10):23463-81. PMID: 26437396
  • Pritykin Y, Ghersi D, Singh M et al. Genome-Wide Detection and Analysis of Multifunctional Genes. PLoS Comput Biol 2015 Oct;11(10):e1004467. PMID: 26436655
  • Peng FY, Hu Z, Yang RC et al. Genome-Wide Comparative Analysis of Flowering-Related Genes in Arabidopsis, Wheat, and Barley. Int J Plant Genomics 2015;2015:874361. PMID: 26435710
  • Vital-Lopez FG, Reifman J, Wallqvist A et al. Biofilm Formation Mechanisms of Pseudomonas aeruginosa Predicted via Genome-Scale Kinetic Models of Bacterial Metabolism. PLoS Comput Biol 2015 Oct;11(10):e1004452. PMID: 26431398
  • Abe S, Yamamoto K, Kurata M, Abe-Suzuki S et al. Targeting MCM2 function as a novel strategy for the treatment of highly malignant breast tumors. Oncotarget 2015 Oct 27;6(33):34892-909. PMID: 26430873
  • Palermo G, Maisel D, Barrett M, Smith H et al. Gene expression of INPP5F as an independent prognostic marker in fludarabine-based therapy of chronic lymphocytic leukemia. Blood Cancer J 2015 Oct 2;5(10):e353. PMID: 26430724
  • Cai J, Li R, Xu X, Zhang L et al. URGCP promotes non-small cell lung cancer invasiveness by activating the NF-κB-MMP-9 pathway. Oncotarget 2015 Nov 3;6(34):36489-504. PMID: 26429875
  • Qiu YH, Deng FY, Tang ZX, Jiang ZH et al. Functional relevance for type 1 diabetes mellitus-associated genetic variants by using integrative analyses. Hum Immunol 2015 Oct;76(10):753-8. PMID: 26429317
  • Sedmak G, Jovanov-Milošević N, Puskarjov M, Ulamec M et al. Developmental Expression Patterns of KCC2 and Functionally Associated Molecules in the Human Brain. Cereb Cortex 2016 Dec;26(12):4574-4589. PMID: 26428952
  • Xiong Y, Wu S, Du Q, Wang A et al. Integrated analysis of gene expression and genomic aberration data in osteosarcoma (OS). Cancer Gene Ther 2015 Nov;22(11):524-9. PMID: 26427513
  • Cheishvili D, Stefanska B, Yi C, Li CC et al. A common promoter hypomethylation signature in invasive breast, liver and prostate cancer cell lines reveals novel targets involved in cancer invasiveness. Oncotarget 2015 Oct 20;6(32):33253-68. PMID: 26427334
  • Williams A, Buick JK, Moffat I, Swartz CD et al. A predictive toxicogenomics signature to classify genotoxic versus non-genotoxic chemicals in human TK6 cells. Data Brief 2015 Dec;5:77-83. PMID: 26425668
  • Zhao Y, Wang F, Juan L et al. MicroRNA Promoter Identification in Arabidopsis Using Multiple Histone Markers. Biomed Res Int 2015;2015:861402. PMID: 26425556
  • Fjukstad B, Standahl Olsen K, Jareid M, Lund E et al. Kvik: three-tier data exploration tools for flexible analysis of genomic data in epidemiological studies. F1000Res 2015;4:81. PMID: 26425340
  • Zhang D, Zhu R, Zhang H, Zheng CH et al. MGDB: a comprehensive database of genes involved in melanoma. Database (Oxford) 2015;2015. PMID: 26424083
  • Huang H, Nguyen T, Ibrahim S, Shantharam S et al. DMAP: a connectivity map database to enable identification of novel drug repositioning candidates. BMC Bioinformatics 2015;16 Suppl 13(Suppl 13):S4. PMID: 26423722
  • Madahian B, Roy S, Bowman D, Deng LY et al. A Bayesian approach for inducing sparsity in generalized linear models with multi-category response. BMC Bioinformatics 2015;16 Suppl 13(Suppl 13):S13. PMID: 26423345
  • Wang Y, Huang L, Wu S, Jia Y et al. Bioinformatics Analyses of the Role of Vascular Endothelial Growth Factor in Patients with Non-Small Cell Lung Cancer. PLoS One 2015;10(9):e0139285. PMID: 26422603
  • Habano W, Kawamura K, Iizuka N, Terashima J et al. Analysis of DNA methylation landscape reveals the roles of DNA methylation in the regulation of drug metabolizing enzymes. Clin Epigenetics 2015;7:105. PMID: 26421064
  • Mak MP, Tong P, Diao L, Cardnell RJ et al. A Patient-Derived, Pan-Cancer EMT Signature Identifies Global Molecular Alterations and Immune Target Enrichment Following Epithelial-to-Mesenchymal Transition. Clin Cancer Res 2016 Feb 1;22(3):609-20. PMID: 26420858
  • Cosacak MI, Papadimitriou C, Kizil C et al. Regeneration, Plasticity, and Induced Molecular Programs in Adult Zebrafish Brain. Biomed Res Int 2015;2015:769763. PMID: 26417601
  • Xu H, Li R, Qiao J et al. Homeodomain interacting protein kinase 2 is downregulated through the peroxisome proliferator-activated receptor gamma signaling pathway in an insulin-resistant population. J Diabetes Investig 2015 Sep;6(5):594-6. PMID: 26417420
  • Mollah MM, Jamal R, Mokhtar NM, Harun R et al. A Hybrid One-Way ANOVA Approach for the Robust and Efficient Estimation of Differential Gene Expression with Multiple Patterns. PLoS One 2015;10(9):e0138810. PMID: 26413858
  • Welsh IC, Kwak H, Chen FL, Werner M et al. Chromatin Architecture of the Pitx2 Locus Requires CTCF- and Pitx2-Dependent Asymmetry that Mirrors Embryonic Gut Laterality. Cell Rep 2015 Oct 13;13(2):337-49. PMID: 26411685
  • Teif VBNucleosome positioning: resources and tools online. Brief Bioinform 2016 Sep;17(5):745-57. PMID: 26411474
  • Amraoui F, Hassani Lahsinoui H, Boussata S, Keijser R et al. Placental expression of heparan sulfate 3-O-sulfotransferase-3A1 in normotensive and pre-eclamptic pregnancies. Placenta 2015 Nov;36(11):1218-24. PMID: 26410339
  • Stock AM, Klee F, Edlund K, Grinberg M et al. Gelsolin Is Associated with Longer Metastasis-free Survival and Reduced Cell Migration in Estrogen Receptor-positive Breast Cancer. Anticancer Res 2015 Oct;35(10):5277-85. PMID: 26408687
  • Souza RW, Fernandez GJ, Cunha JP, Piedade WP et al. Regulation of cardiac microRNAs induced by aerobic exercise training during heart failure. Am J Physiol Heart Circ Physiol 2015 Nov 15;309(10):H1629-41. PMID: 26408546
  • Gunaydin G, Kesikli SA, Guc D et al. Cancer associated fibroblasts have phenotypic and functional characteristics similar to the fibrocytes that represent a novel MDSC subset. Oncoimmunology 2015 Sep;4(9):e1034918. PMID: 26405600
  • Xu Y, Huang Y, Cai D, Liu J et al. Analysis of differences in the molecular mechanism of rheumatoid arthritis and osteoarthritis based on integration of gene expression profiles. Immunol Lett 2015 Dec;168(2):246-53. PMID: 26404854
  • Gariani K, Menzies KJ, Ryu D, Wegner CJ et al. Eliciting the mitochondrial unfolded protein response by nicotinamide adenine dinucleotide repletion reverses fatty liver disease in mice. Hepatology 2016 Apr;63(4):1190-204. PMID: 26404765
  • Clocchiatti A, Di Giorgio E, Viviani G, Streuli C et al. The MEF2-HDAC axis controls proliferation of mammary epithelial cells and acini formation in vitro. J Cell Sci 2015 Nov 1;128(21):3961-76. PMID: 26403201
  • Rai A, Singh R, Shirke PA, Tripathi RD et al. Expression of Rice CYP450-Like Gene (Os08g01480) in Arabidopsis Modulates Regulatory Network Leading to Heavy Metal and Other Abiotic Stress Tolerance. PLoS One 2015;10(9):e0138574. PMID: 26401987
  • Erickson JJ, Lu P, Wen S, Hastings AK et al. Acute Viral Respiratory Infection Rapidly Induces a CD8+ T Cell Exhaustion-like Phenotype. J Immunol 2015 Nov 1;195(9):4319-30. PMID: 26401005
  • He X, Cicek AE, Wang Y, Schulz MH et al. De novo ChIP-seq analysis. Genome Biol 2015 Sep 23;16(1):205. PMID: 26400819
  • Bishop CV, Xu F, Molskness TA, Stouffer RL et al. Dynamics of Immune Cell Types Within the Macaque Corpus Luteum During the Menstrual Cycle: Role of Progesterone. Biol Reprod 2015 Nov;93(5):112. PMID: 26400401
  • Zou C, Ouyang Z et al. Joint modeling of RNase footprint sequencing profiles for genome-wide inference of RNA structure. Nucleic Acids Res 2015 Oct 30;43(19):9187-97. PMID: 26400167
  • Wright KL, Adams JR, Liu JC, Loch AJ et al. Ras Signaling Is a Key Determinant for Metastatic Dissemination and Poor Survival of Luminal Breast Cancer Patients. Cancer Res 2015 Nov 15;75(22):4960-72. PMID: 26400062
  • Liu W, Wu A, Pellegrini M, Wang X et al. Integrative analysis of human protein, function and disease networks. Sci Rep 2015 Sep 24;5:14344. PMID: 26399914
  • Mihalas BP, Western PS, Loveland KL, McLaughlin EA et al. Changing expression and subcellular distribution of karyopherins during murine oogenesis. Reproduction 2015 Dec;150(6):485-96. PMID: 26399853
  • Praveen P, Jordan F, Priami C, Morine MJ et al. The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome. Microbiome 2015 Sep 24;3:41. PMID: 26399409
  • Bao J, Qin L, Cui L, Wang X et al. Microarray data analysis of neuroblastoma: Expression of SOX2 downregulates the expression of MYCN. Mol Med Rep 2015 Nov;12(5):6867-72. PMID: 26398570
  • Zhou W, Zhang K, Chen D, Gao P et al. Gene microarray analyses for potential biomarkers of single and recurrent venous thromboembolism. Mol Med Rep 2015 Nov;12(5):7358-66. PMID: 26397997
  • Hsu CH, Nguyen C, Yan C, Ries RE et al. Transcriptome Profiling of Pediatric Core Binding Factor AML. PLoS One 2015;10(9):e0138782. PMID: 26397705
  • Chu J, Zhu Y, Liu Y, Sun L et al. E2F7 overexpression leads to tamoxifen resistance in breast cancer cells by competing with E2F1 at miR-15a/16 promoter. Oncotarget 2015 Oct 13;6(31):31944-57. PMID: 26397135
  • Akman HB, Oyken M, Tuncer T, Can T et al. 3'UTR shortening and EGF signaling: implications for breast cancer. Hum Mol Genet 2015 Dec 15;24(24):6910-20. PMID: 26395459
  • Wylie TN, Wylie KM, Herter BN, Storch GA et al. Enhanced virome sequencing using targeted sequence capture. Genome Res 2015 Dec;25(12):1910-20. PMID: 26395152
  • Younesi E, Malhotra A, Gündel M, Scordis P et al. PDON: Parkinson's disease ontology for representation and modeling of the Parkinson's disease knowledge domain. Theor Biol Med Model 2015 Sep 22;12:20. PMID: 26395080
  • Fowler KD, Funt JM, Artyomov MN, Zeskind B et al. Leveraging existing data sets to generate new insights into Alzheimer's disease biology in specific patient subsets. Sci Rep 2015 Sep 23;5:14324. PMID: 26395074
  • Narang V, Ramli MA, Singhal A, Kumar P et al. Automated Identification of Core Regulatory Genes in Human Gene Regulatory Networks. PLoS Comput Biol 2015;11(9):e1004504. PMID: 26393364
  • Akdemir KC, Chin L et al. HiCPlotter integrates genomic data with interaction matrices. Genome Biol 2015 Sep 21;16(1):198. PMID: 26392354
  • Mazur PK, Herner A, Mello SS, Wirth M et al. Combined inhibition of BET family proteins and histone deacetylases as a potential epigenetics-based therapy for pancreatic ductal adenocarcinoma. Nat Med 2015 Oct;21(10):1163-71. PMID: 26390243
  • Kato N, Loh M, Takeuchi F, Verweij N et al. Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation. Nat Genet 2015 Nov;47(11):1282-1293. PMID: 26390057
  • Li Y, Zhou QL, Sun W, Chandrasekharan P et al. Non-canonical NF-κB signalling and ETS1/2 cooperatively drive C250T mutant TERT promoter activation. Nat Cell Biol 2015 Oct;17(10):1327-38. PMID: 26389665
  • Park YY, Sohn BH, Johnson RL, Kang MH et al. Yes-associated protein 1 and transcriptional coactivator with PDZ-binding motif activate the mammalian target of rapamycin complex 1 pathway by regulating amino acid transporters in hepatocellular carcinoma. Hepatology 2016 Jan;63(1):159-72. PMID: 26389641
  • Karmodiya K, Pradhan SJ, Joshi B, Jangid R et al. A comprehensive epigenome map of Plasmodium falciparum reveals unique mechanisms of transcriptional regulation and identifies H3K36me2 as a global mark of gene suppression. Epigenetics Chromatin 2015;8:32. PMID: 26388940
  • Rother MB, Palstra RJ, Jhunjhunwala S, van Kester KA et al. Nuclear positioning rather than contraction controls ordered rearrangements of immunoglobulin loci. Nucleic Acids Res 2016 Jan 8;44(1):175-86. PMID: 26384565
  • Emura T, Nakatochi M, Murotani K, Rondeau V et al. A joint frailty-copula model between tumour progression and death for meta-analysis. Stat Methods Med Res 2017 Dec;26(6):2649-2666. PMID: 26384516
  • Kumar P, Halama A, Hayat S, Billing AM et al. MetaRNA-Seq: An Interactive Tool to Browse and Annotate Metadata from RNA-Seq Studies. Biomed Res Int 2015;2015:318064. PMID: 26380270
  • Zhao L, Zhang J, Tan H, Wang W et al. Gene function analysis in osteosarcoma based on microarray gene expression profiling. Int J Clin Exp Med 2015;8(7):10401-10. PMID: 26379830
  • Fontebasso AM, Shirinian M, Khuong-Quang DA, Bechet D et al. Non-random aneuploidy specifies subgroups of pilocytic astrocytoma and correlates with older age. Oncotarget 2015 Oct 13;6(31):31844-56. PMID: 26378811
  • Scott MC, Sarver AL, Tomiyasu H, Cornax I et al. Aberrant Retinoblastoma (RB)-E2F Transcriptional Regulation Defines Molecular Phenotypes of Osteosarcoma. J Biol Chem 2015 Nov 20;290(47):28070-28083. PMID: 26378234
  • Garay CD, Dreyfuss JM, Galagan JE et al. Metabolic modeling predicts metabolite changes in Mycobacterium tuberculosis. BMC Syst Biol 2015 Sep 16;9:57. PMID: 26377923
  • Proust-Lima C, Dartigues JF, Jacqmin-Gadda H et al. Joint modeling of repeated multivariate cognitive measures and competing risks of dementia and death: a latent process and latent class approach. Stat Med 2016 Feb 10;35(3):382-98. PMID: 26376900
  • Hägg S, Ganna A, Van Der Laan SW, Esko T et al. Gene-based meta-analysis of genome-wide association studies implicates new loci involved in obesity. Hum Mol Genet 2015 Dec 1;24(23):6849-60. PMID: 26376864
  • Pavlovic M, Arnal-Estapé A, Rojo F, Bellmunt A et al. Enhanced MAF Oncogene Expression and Breast Cancer Bone Metastasis. J Natl Cancer Inst 2015 Dec;107(12):djv256. PMID: 26376684
  • Huang HH, Hassinen A, Sundaram S, Spiess AN et al. GnT1IP-L specifically inhibits MGAT1 in the Golgi via its luminal domain. Elife 2015 Sep 15;4. PMID: 26371870
  • Lai CY, Yeh DW, Lu CH, Liu YL et al. Identification of Thiostrepton as a Novel Inhibitor for Psoriasis-like Inflammation Induced by TLR7-9. J Immunol 2015 Oct 15;195(8):3912-21. PMID: 26371257
  • Fukuda A, Tanino M, Matoba R, Umezawa A et al. Imbalance between the expression dosages of X-chromosome and autosomal genes in mammalian oocytes. Sci Rep 2015 Sep 15;5:14101. PMID: 26370379
  • Zheng Z, Wei X, Hildebrandt A, Schmidt B et al. A computational method for studying the relation between alternative splicing and DNA methylation. Nucleic Acids Res 2016 Jan 29;44(2):e19. PMID: 26365234
  • Duan L, Rai G, Roggero C, Zhang QJ et al. KDM4/JMJD2 Histone Demethylase Inhibitors Block Prostate Tumor Growth by Suppressing the Expression of AR and BMYB-Regulated Genes. Chem Biol 2015 Sep 17;22(9):1185-96. PMID: 26364928
  • Liu J, Xia M, Wang P, Wang C et al. Immunoglobulin gene expression in umbilical cord blood-derived CD34⁺ hematopoietic stem/progenitor cells. Gene 2016 Jan 1;575(1):108-17. PMID: 26364572
  • Zhan Z, Cao H, Xie X, Yang L et al. Phosphatase PP4 Negatively Regulates Type I IFN Production and Antiviral Innate Immunity by Dephosphorylating and Deactivating TBK1. J Immunol 2015 Oct 15;195(8):3849-57. PMID: 26363053
  • Zhao Z, Bai J, Wu A, Wang Y et al. Co-LncRNA: investigating the lncRNA combinatorial effects in GO annotations and KEGG pathways based on human RNA-Seq data. Database (Oxford) 2015;2015. PMID: 26363020
  • Care MA, Westhead DR, Tooze RM et al. Gene expression meta-analysis reveals immune response convergence on the IFNγ-STAT1-IRF1 axis and adaptive immune resistance mechanisms in lymphoma. Genome Med 2015 Sep 11;7(1):96. PMID: 26362649
  • Adams R, Nicke B, Pohlenz HD, Sohler F et al. Deciphering Seed Sequence Based Off-Target Effects in a Large-Scale RNAi Reporter Screen for E-Cadherin Expression. PLoS One 2015;10(9):e0137640. PMID: 26361354
  • Song YJ, Li G, He JH, Guo Y et al. Bioinformatics-Based Identification of MicroRNA-Regulated and Rheumatoid Arthritis-Associated Genes. PLoS One 2015;10(9):e0137551. PMID: 26359667
  • Hemachandra LP, Shin DH, Dier U, Iuliano JN et al. Mitochondrial Superoxide Dismutase Has a Protumorigenic Role in Ovarian Clear Cell Carcinoma. Cancer Res 2015 Nov 15;75(22):4973-84. PMID: 26359457
  • Li CF, Tsai HH, Ko CY, Pan YC et al. HMDB and 5-AzadC Combination Reverses Tumor Suppressor CCAAT/Enhancer-Binding Protein Delta to Strengthen the Death of Liver Cancer Cells. Mol Cancer Ther 2015 Nov;14(11):2623-33. PMID: 26358750
  • Choi M, Lee J, Le MT, Nguyen DT et al. Genome-wide analysis of DNA methylation in pigs using reduced representation bisulfite sequencing. DNA Res 2015 Oct;22(5):343-55. PMID: 26358297
  • Masecchia S, Coco S, Barla A, Verri A et al. Genome instability model of metastatic neuroblastoma tumorigenesis by a dictionary learning algorithm. BMC Med Genomics 2015 Sep 10;8:57. PMID: 26358114
  • Wang K, Das A, Xiong ZM, Cao K et al. Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing. IEEE/ACM Trans Comput Biol Bioinform 2015 Jan-Feb;12(1):30-9. PMID: 26357076
  • Venere M, Horbinski C, Crish JF, Jin X et al. The mitotic kinesin KIF11 is a driver of invasion, proliferation, and self-renewal in glioblastoma. Sci Transl Med 2015 Sep 9;7(304):304ra143. PMID: 26355032
  • Jha A, Panzade G, Pandey R, Shankar R et al. A legion of potential regulatory sRNAs exists beyond the typical microRNAs microcosm. Nucleic Acids Res 2015 Oct 15;43(18):8713-24. PMID: 26354861
  • Yang L, Ma Y, Han W, Li W et al. Proteinase-activated receptor 2 promotes cancer cell migration through RNA methylation-mediated repression of miR-125b. J Biol Chem 2015 Oct 30;290(44):26627-37. PMID: 26354435
  • Arden JD, Lavik KI, Rubinic KA, Chiaia N et al. Small-molecule agonists of mammalian Diaphanous-related (mDia) formins reveal an effective glioblastoma anti-invasion strategy. Mol Biol Cell 2015 Nov 1;26(21):3704-18. PMID: 26354425
  • Wang L, Wu LF, Lu X, Mo XB et al. Integrated Analyses of Gene Expression Profiles Digs out Common Markers for Rheumatic Diseases. PLoS One 2015;10(9):e0137522. PMID: 26352601
  • Dhawan D, Paoloni M, Shukradas S, Choudhury DR et al. Comparative Gene Expression Analyses Identify Luminal and Basal Subtypes of Canine Invasive Urothelial Carcinoma That Mimic Patterns in Human Invasive Bladder Cancer. PLoS One 2015;10(9):e0136688. PMID: 26352142
  • Doose G, Haake A, Bernhart SH, López C et al. MINCR is a MYC-induced lncRNA able to modulate MYC's transcriptional network in Burkitt lymphoma cells. Proc Natl Acad Sci U S A 2015 Sep 22;112(38):E5261-70. PMID: 26351698
  • Dulmage KA, Todor H, Schmid AK et al. Growth-Phase-Specific Modulation of Cell Morphology and Gene Expression by an Archaeal Histone Protein. mBio 2015 Sep 8;6(5):e00649-15. PMID: 26350964
  • Ji Z, Vokes SA, Dang CV, Ji H et al. Turning publicly available gene expression data into discoveries using gene set context analysis. Nucleic Acids Res 2016 Jan 8;44(1):e8. PMID: 26350211
  • Qian X, Song X, He Y, Yang Z et al. CCNB2 overexpression is a poor prognostic biomarker in Chinese NSCLC patients. Biomed Pharmacother 2015 Aug;74:222-7. PMID: 26349989
  • Caldwell J, Wang W, Zandstra PW et al. Proportional-Integral-Derivative (PID) Control of Secreted Factors for Blood Stem Cell Culture. PLoS One 2015;10(9):e0137392. PMID: 26348930
  • Wang Q, Liu X et al. Screening of feature genes in distinguishing different types of breast cancer using support vector machine. Onco Targets Ther 2015;8:2311-7. PMID: 26347014
  • Descrimes M, Ben Zouari Y, Wery M, Legendre R et al. VING: a software for visualization of deep sequencing signals. BMC Res Notes 2015 Sep 7;8:419. PMID: 26346985
  • de Anda-Jáuregui G, Mejía-Pedroza RA, Espinal-Enríquez J, Hernández-Lemus E et al. Crosstalk events in the estrogen signaling pathway may affect tamoxifen efficacy in breast cancer molecular subtypes. Comput Biol Chem 2015 Dec;59 Pt B:42-54. PMID: 26345254
  • Stutchfield BM, Antoine DJ, Mackinnon AC, Gow DJ et al. CSF1 Restores Innate Immunity After Liver Injury in Mice and Serum Levels Indicate Outcomes of Patients With Acute Liver Failure. Gastroenterology 2015 Dec;149(7):1896-1909.e14. PMID: 26344055
  • McConkey DJ, Choi W, Shen Y, Lee IL et al. A Prognostic Gene Expression Signature in the Molecular Classification of Chemotherapy-naïve Urothelial Cancer is Predictive of Clinical Outcomes from Neoadjuvant Chemotherapy: A Phase 2 Trial of Dose-dense Methotrexate, Vinblastine, Doxorubicin, and Cisplatin with Bevacizumab in Urothelial Cancer. Eur Urol 2016 May;69(5):855-62. PMID: 26343003
  • Moskalev A, Chernyagina E, de Magalhães JP, Barardo D et al. Geroprotectors.org: a new, structured and curated database of current therapeutic interventions in aging and age-related disease. Aging (Albany NY) 2015 Sep;7(9):616-28. PMID: 26342919
  • Guo W, Zhang Y, Wang Q, Zhan Y et al. High-throughput sequencing and degradome analysis reveal neutral evolution of Cercis gigantea microRNAs and their targets. Planta 2016 Jan;243(1):83-95. PMID: 26342708
  • Ross RA, Walton JD, Han D, Guo HF et al. A distinct gene expression signature characterizes human neuroblastoma cancer stem cells. Stem Cell Res 2015 Sep;15(2):419-26. PMID: 26342562
  • Rahmatallah Y, Emmert-Streib F, Glazko G et al. Gene set analysis approaches for RNA-seq data: performance evaluation and application guideline. Brief Bioinform 2016 May;17(3):393-407. PMID: 26342128
  • Foy JP, Pickering CR, Papadimitrakopoulou VA, Jelinek J et al. New DNA methylation markers and global DNA hypomethylation are associated with oral cancer development. Cancer Prev Res (Phila) 2015 Nov;8(11):1027-35. PMID: 26342026
  • Liang HP, Kerschen EJ, Basu S, Hernandez I et al. Coagulation factor V mediates inhibition of tissue factor signaling by activated protein C in mice. Blood 2015 Nov 19;126(21):2415-23. PMID: 26341257
  • Dou Y, Guo X, Yuan L, Holding DR et al. Differential Expression Analysis in RNA-Seq by a Naive Bayes Classifier with Local Normalization. Biomed Res Int 2015;2015:789516. PMID: 26339642
  • Ganegoda GU, Sheng Y, Wang J et al. ProSim: A Method for Prioritizing Disease Genes Based on Protein Proximity and Disease Similarity. Biomed Res Int 2015;2015:213750. PMID: 26339594
  • He C, Gao H, Fan X, Wang M et al. Identification of a novel miRNA-target gene regulatory network in osteosarcoma by integrating transcriptome analysis. Int J Clin Exp Pathol 2015;8(7):8348-57. PMID: 26339404
  • Roy S, Siahpirani AF, Chasman D, Knaack S et al. A predictive modeling approach for cell line-specific long-range regulatory interactions. Nucleic Acids Res 2015 Oct 15;43(18):8694-712. PMID: 26338778
  • Ma L, Hatlen A, Kelly LJ, Becher H et al. Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway. Genome Biol Evol 2015 Sep 2;7(9):2648-62. PMID: 26338185
  • Kim H, Kim JH, Kim SY, Jo D et al. Meta-Analysis of Large-Scale Toxicogenomic Data Finds Neuronal Regeneration Related Protein and Cathepsin D to Be Novel Biomarkers of Drug-Induced Toxicity. PLoS One 2015;10(9):e0136698. PMID: 26335687
  • Robert C, Watson M et al. Errors in RNA-Seq quantification affect genes of relevance to human disease. Genome Biol 2015 Sep 3;16(1):177. PMID: 26335491
  • Ma XY, Wang JH, Wang JL, Ma CX et al. Malat1 as an evolutionarily conserved lncRNA, plays a positive role in regulating proliferation and maintaining undifferentiated status of early-stage hematopoietic cells. BMC Genomics 2015 Sep 3;16(1):676. PMID: 26335021
  • Song L, Yao J, He Z, Xu B et al. Genes related to inflammation and bone loss process in periodontitis suggested by bioinformatics methods. BMC Oral Health 2015 Sep 4;15:105. PMID: 26334995
  • Sundararajan V, Gengenbacher N, Stemmler MP, Kleemann JA et al. The ZEB1/miR-200c feedback loop regulates invasion via actin interacting proteins MYLK and TKS5. Oncotarget 2015 Sep 29;6(29):27083-96. PMID: 26334100
  • Latosinska A, Vougas K, Makridakis M, Klein J et al. Comparative Analysis of Label-Free and 8-Plex iTRAQ Approach for Quantitative Tissue Proteomic Analysis. PLoS One 2015;10(9):e0137048. PMID: 26331617
  • Sun J, Rockowitz S, Chauss D, Wang P et al. Chromatin features, RNA polymerase II and the comparative expression of lens genes encoding crystallins, transcription factors, and autophagy mediators. Mol Vis 2015;21:955-73. PMID: 26330747
  • Lee S, Min H, Yoon S et al. Will solid-state drives accelerate your bioinformatics? In-depth profiling, performance analysis and beyond. Brief Bioinform 2016 Jul;17(4):713-27. PMID: 26330577
  • Kuiper R, van Duin M, van Vliet MH, Broijl A et al. Prediction of high- and low-risk multiple myeloma based on gene expression and the International Staging System. Blood 2015 Oct 22;126(17):1996-2004. PMID: 26330243
  • Wilk E, Pandey AK, Leist SR, Hatesuer B et al. RNAseq expression analysis of resistant and susceptible mice after influenza A virus infection identifies novel genes associated with virus replication and important for host resistance to infection. BMC Genomics 2015 Sep 2;16(1):655. PMID: 26329040
  • Kwon MS, Kim Y, Lee S, Namkung J et al. Integrative analysis of multi-omics data for identifying multi-markers for diagnosing pancreatic cancer. BMC Genomics 2015;16 Suppl 9(Suppl 9):S4. PMID: 26328610
  • Zhuo W, Zhang L, Zhu Y, Xie Q et al. Valproic acid, an inhibitor of class I histone deacetylases, reverses acquired Erlotinib-resistance of lung adenocarcinoma cells: a Connectivity Mapping analysis and an experimental study. Am J Cancer Res 2015;5(7):2202-11. PMID: 26328250
  • Li Y, Rao X, Mattox WW, Amos CI et al. RNA-Seq Analysis of Differential Splice Junction Usage and Intron Retentions by DEXSeq. PLoS One 2015;10(9):e0136653. PMID: 26327458
  • An N, Shi X, Zhang Y, Lv N et al. Discovery of a Novel Immune Gene Signature with Profound Prognostic Value in Colorectal Cancer: A Model of Cooperativity Disorientation Created in the Process from Development to Cancer. PLoS One 2015;10(9):e0137171. PMID: 26325386
  • Wen J, Ladewig E, Shenker S, Mohammed J et al. Analysis of Nearly One Thousand Mammalian Mirtrons Reveals Novel Features of Dicer Substrates. PLoS Comput Biol 2015 Sep;11(9):e1004441. PMID: 26325366
  • Goto Y, Kojima S, Nishikawa R, Kurozumi A et al. MicroRNA expression signature of castration-resistant prostate cancer: the microRNA-221/222 cluster functions as a tumour suppressor and disease progression marker. Br J Cancer 2015 Sep 29;113(7):1055-65. PMID: 26325107
  • Guo L, Song C, Wang P, Dai L et al. A systems biology approach to detect key pathways and interaction networks in gastric cancer on the basis of microarray analysis. Mol Med Rep 2015 Nov;12(5):7139-45. PMID: 26324226
  • Hu W, Lin X, Chen K et al. Integrated analysis of differential gene expression profiles in hippocampi to identify candidate genes involved in Alzheimer's disease. Mol Med Rep 2015 Nov;12(5):6679-87. PMID: 26324066
  • Guo Z, Tzvetkova B, Bassik JM, Bodziak T et al. RNASeqMetaDB: a database and web server for navigating metadata of publicly available mouse RNA-Seq datasets. Bioinformatics 2015 Dec 15;31(24):4038-40. PMID: 26323714
  • Johansson MM, Van Geystelen A, Larmuseau MH, Djurovic S et al. Microarray Analysis of Copy Number Variants on the Human Y Chromosome Reveals Novel and Frequent Duplications Overrepresented in Specific Haplogroups. PLoS One 2015;10(8):e0137223. PMID: 26322892
  • Qiu D, Ye S, Ruiz B, Zhou X et al. Klf2 and Tfcp2l1, Two Wnt/β-Catenin Targets, Act Synergistically to Induce and Maintain Naive Pluripotency. Stem Cell Reports 2015 Sep 8;5(3):314-22. PMID: 26321140
  • Lin X, Deng FY, Lu X, Lei SF et al. Susceptibility Genes for Multiple Sclerosis Identified in a Gene-Based Genome-Wide Association Study. J Clin Neurol 2015 Oct;11(4):311-8. PMID: 26320842
  • Artemov A, Aliper A, Korzinkin M, Lezhnina K et al. A method for predicting target drug efficiency in cancer based on the analysis of signaling pathway activation. Oncotarget 2015 Oct 6;6(30):29347-56. PMID: 26320181
  • Sanford T, Porten S, Meng MV et al. Molecular Analysis of Upper Tract and Bladder Urothelial Carcinoma: Results from a Microarray Comparison. PLoS One 2015;10(8):e0137141. PMID: 26317352
  • Fratelli M, Bolis M, Kurosaki M, Dori M et al. Association of CFHR1 homozygous deletion with acute myelogenous leukemia in the European population. Leuk Lymphoma 2016 May;57(5):1234-7. PMID: 26317246
  • Weinreb C, Raphael BJ et al. Identification of hierarchical chromatin domains. Bioinformatics 2016 Jun 1;32(11):1601-9. PMID: 26315910
  • Yoon JH, Choi WS, Kim O, Choi SS et al. NKX6.3 controls gastric differentiation and tumorigenesis. Oncotarget 2015 Sep 29;6(29):28425-39. PMID: 26314965
  • Rad A, Farshchian M, Forghanifard MM, Matin MM et al. Predicting the molecular role of MEIS1 in esophageal squamous cell carcinoma. Tumour Biol 2016 Feb;37(2):1715-25. PMID: 26314854
  • El Amrani K, Stachelscheid H, Lekschas F, Kurtz A et al. MGFM: a novel tool for detection of tissue and cell specific marker genes from microarray gene expression data. BMC Genomics 2015 Aug 28;16(1):645. PMID: 26314578
  • King ZA, Dräger A, Ebrahim A, Sonnenschein N et al. Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. PLoS Comput Biol 2015 Aug;11(8):e1004321. PMID: 26313928
  • Ung MH, Varn FS, Cheng C et al. IDEA: Integrated Drug Expression Analysis-Integration of Gene Expression and Clinical Data for the Identification of Therapeutic Candidates. CPT Pharmacometrics Syst Pharmacol 2015 Jul;4(7):415-25. PMID: 26312165
  • Stockley J, Markert E, Zhou Y, Robson CN et al. The RNA-binding protein Sam68 regulates expression and transcription function of the androgen receptor splice variant AR-V7. Sci Rep 2015 Aug 27;5:13426. PMID: 26310125
  • Tong R, Feng L, Zhang L, Zhang J et al. Decreased Interferon Alpha/Beta Signature Associated with Human Lung Tumorigenesis. J Interferon Cytokine Res 2015 Dec;35(12):963-8. PMID: 26308599
  • Krakstad C, Tangen IL, Hoivik EA, Halle MK et al. ATAD2 overexpression links to enrichment of B-MYB-translational signatures and development of aggressive endometrial carcinoma. Oncotarget 2015 Sep 29;6(29):28440-52. PMID: 26308378
  • Reynolds LM, Wan M, Ding J, Taylor JR et al. DNA Methylation of the Aryl Hydrocarbon Receptor Repressor Associations With Cigarette Smoking and Subclinical Atherosclerosis. Circ Cardiovasc Genet 2015 Oct;8(5):707-16. PMID: 26307030
  • Marco ASelection Against Maternal microRNA Target Sites in Maternal Transcripts. G3 (Bethesda) 2015 Aug 24;5(10):2199-207. PMID: 26306531
  • Bo V, Tucker A et al. Integrating Gene Regulatory Networks to identify cancer-specific genes. AMIA Jt Summits Transl Sci Proc 2015;2015:21-5. PMID: 26306224
  • Cohen D, Mechold U, Nevenzal H, Yarmiyhu Y et al. Oligoribonuclease is a central feature of cyclic diguanylate signaling in Pseudomonas aeruginosa. Proc Natl Acad Sci U S A 2015 Sep 8;112(36):11359-64. PMID: 26305928
  • Jones MR, Brower MA, Xu N, Cui J et al. Systems Genetics Reveals the Functional Context of PCOS Loci and Identifies Genetic and Molecular Mechanisms of Disease Heterogeneity. PLoS Genet 2015 Aug;11(8):e1005455. PMID: 26305227
  • Ferro D, Lepennetier G, Catania F et al. Cis-acting signals modulate the efficiency of programmed DNA elimination in Paramecium tetraurelia. Nucleic Acids Res 2015 Sep 30;43(17):8157-68. PMID: 26304543
  • Xu J, Li Y, Lu J, Pan T et al. The mRNA related ceRNA-ceRNA landscape and significance across 20 major cancer types. Nucleic Acids Res 2015 Sep 30;43(17):8169-82. PMID: 26304537
  • Dholakia N, Dhandhukia P, Roy N et al. Screening of potential targets in Plasmodium falciparum using stage-specific metabolic network analysis. Mol Divers 2015 Nov;19(4):991-1002. PMID: 26303382
  • Becker M, De Bastiani MA, Parisi MM, Guma FT et al. Integrated Transcriptomics Establish Macrophage Polarization Signatures and have Potential Applications for Clinical Health and Disease. Sci Rep 2015 Aug 25;5:13351. PMID: 26302899
  • Begley DA, Sundberg JP, Krupke DM, Neuhauser SB et al. Finding mouse models of human lymphomas and leukemia's using the Jackson laboratory mouse tumor biology database. Exp Mol Pathol 2015 Dec;99(3):533-6. PMID: 26302176
  • Cheng Z, Guo J, Chen L, Luo N et al. A long noncoding RNA AB073614 promotes tumorigenesis and predicts poor prognosis in ovarian cancer. Oncotarget 2015 Sep 22;6(28):25381-9. PMID: 26299803
  • Danescu A, Mattson M, Dool C, Diewert VM et al. Analysis of human soft palate morphogenesis supports regional regulation of palatal fusion. J Anat 2015 Oct;227(4):474-86. PMID: 26299693
  • Popova EY, Pinzon-Guzman C, Salzberg AC, Zhang SS et al. LSD1-Mediated Demethylation of H3K4me2 Is Required for the Transition from Late Progenitor to Differentiated Mouse Rod Photoreceptor. Mol Neurobiol 2016 Sep;53(7):4563-81. PMID: 26298666
  • Bohler A, Eijssen LM, van Iersel MP, Leemans C et al. Automatically visualise and analyse data on pathways using PathVisioRPC from any programming environment. BMC Bioinformatics 2015 Aug 23;16(1):267. PMID: 26298294
  • Wang L, Gong Y, Chippada-Venkata U, Heck MM et al. A robust blood gene expression-based prognostic model for castration-resistant prostate cancer. BMC Med 2015 Aug 21;13:201. PMID: 26297150
  • Hong J, Tobin NP, Rundqvist H, Li T et al. Role of Tumor Pericytes in the Recruitment of Myeloid-Derived Suppressor Cells. J Natl Cancer Inst 2015 Oct;107(10). PMID: 26296362
  • Wen JH, Wen H, Gibson-Corley KN, Glenn KA et al. FBG1 Is the Final Arbitrator of A1AT-Z Degradation. PLoS One 2015;10(8):e0135591. PMID: 26295339
  • Ding Q, Kang J, Dai J, Tang M et al. AGXT2L1 is down-regulated in heptocellular carcinoma and associated with abnormal lipogenesis. J Clin Pathol 2016 Mar;69(3):215-20. PMID: 26294768
  • Long F, Su JH, Liang B, Su LL et al. Identification of Gene Biomarkers for Distinguishing Small-Cell Lung Cancer from Non-Small-Cell Lung Cancer Using a Network-Based Approach. Biomed Res Int 2015;2015:685303. PMID: 26290870
  • Hasegawa Y, Taylor D, Ovchinnikov DA, Wolvetang EJ et al. Variability of Gene Expression Identifies Transcriptional Regulators of Early Human Embryonic Development. PLoS Genet 2015 Aug;11(8):e1005428. PMID: 26288249
  • Claussnitzer M, Dankel SN, Kim KH, Quon G et al. FTO Obesity Variant Circuitry and Adipocyte Browning in Humans. N Engl J Med 2015 Sep 3;373(10):895-907. PMID: 26287746
  • Ding Z, Jian S, Peng X, Liu Y et al. Loss of MiR-664 Expression Enhances Cutaneous Malignant Melanoma Proliferation by Upregulating PLP2. Medicine (Baltimore) 2015 Aug;94(33):e1327. PMID: 26287415
  • Chiang CY, Pan CC, Chang HY, Lai MD et al. SH3BGRL3 Protein as a Potential Prognostic Biomarker for Urothelial Carcinoma: A Novel Binding Partner of Epidermal Growth Factor Receptor. Clin Cancer Res 2015 Dec 15;21(24):5601-11. PMID: 26286913
  • Gentles AJ, Bratman SV, Lee LJ, Harris JP et al. Integrating Tumor and Stromal Gene Expression Signatures With Clinical Indices for Survival Stratification of Early-Stage Non-Small Cell Lung Cancer. J Natl Cancer Inst 2015 Oct;107(10). PMID: 26286589
  • Bergon A, Belzeaux R, Comte M, Pelletier F et al. CX3CR1 is dysregulated in blood and brain from schizophrenia patients. Schizophr Res 2015 Oct;168(1-2):434-43. PMID: 26285829
  • Grigoryev DN, Cheranova DI, Chaudhary S, Heruth DP et al. Identification of new biomarkers for Acute Respiratory Distress Syndrome by expression-based genome-wide association study. BMC Pulm Med 2015 Aug 19;15:95. PMID: 26285698
  • Zhang J, Wu LS, Fan W, Zhang XL et al. Proteomic analysis and candidate allergenic proteins in Populus deltoides CL. "2KEN8" mature pollen. Front Plant Sci 2015;6:548. PMID: 26284084
  • Brown AS, Patel CJ et al. aRrayLasso: a network-based approach to microarray interconversion. Bioinformatics 2015 Dec 1;31(23):3859-61. PMID: 26283699
  • Dunne PD, Dasgupta S, Blayney JK, McArt DG et al. EphA2 Expression Is a Key Driver of Migration and Invasion and a Poor Prognostic Marker in Colorectal Cancer. Clin Cancer Res 2016 Jan 1;22(1):230-242. PMID: 26283684
  • Lun AT, Smyth GK et al. diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data. BMC Bioinformatics 2015 Aug 19;16:258. PMID: 26283514
  • Serra A, Fratello M, Fortino V, Raiconi G et al. MVDA: a multi-view genomic data integration methodology. BMC Bioinformatics 2015 Aug 19;16:261. PMID: 26283178
  • Torrado E, Fountain JJ, Liao M, Tighe M et al. Interleukin 27R regulates CD4+ T cell phenotype and impacts protective immunity during Mycobacterium tuberculosis infection. J Exp Med 2015 Aug 24;212(9):1449-63. PMID: 26282876
  • Phan LM, Fuentes-Mattei E, Wu W, Velazquez-Torres G et al. Hepatocyte Growth Factor/cMET Pathway Activation Enhances Cancer Hallmarks in Adrenocortical Carcinoma. Cancer Res 2015 Oct 1;75(19):4131-42. PMID: 26282167
  • Klebe S, Swalling A, Jonavicius L, Henderson DW et al. An immunohistochemical comparison of two TTF-1 monoclonal antibodies in atypical squamous lesions and sarcomatoid carcinoma of the lung, and pleural malignant mesothelioma. J Clin Pathol 2016 Feb;69(2):136-41. PMID: 26281863
  • Goh WQ, Ow GS, Kuznetsov VA, Chong S et al. DLAT subunit of the pyruvate dehydrogenase complex is upregulated in gastric cancer-implications in cancer therapy. Am J Transl Res 2015;7(6):1140-51. PMID: 26279757
  • Kutmon M, Coort SL, de Nooijer K, Lemmens C et al. Integrative network-based analysis of mRNA and microRNA expression in 1,25-dihydroxyvitamin D3-treated cancer cells. Genes Nutr 2015 Sep;10(5):35. PMID: 26276506
  • de Almeida L, Khare S, Misharin AV, Patel R et al. The PYRIN Domain-only Protein POP1 Inhibits Inflammasome Assembly and Ameliorates Inflammatory Disease. Immunity 2015 Aug 18;43(2):264-76. PMID: 26275995
  • Zhang S, Wang B, Shi J, Li J et al. Network-Based Association Study of Obesity and Type 2 Diabetes with Gene Expression Profiles. Biomed Res Int 2015;2015:619730. PMID: 26273637
  • Park S, Yu SJ, Cho Y, Balch C et al. Network Comparison of Inflammation in Colorectal Cancer and Alzheimer's Disease. Biomed Res Int 2015;2015:205247. PMID: 26273596
  • Su L, Li N, Huo X et al. Mining featured micro ribonucleic acids associated with lung cancer based on bioinformatics. Thorac Cancer 2015 Jul;6(4):501-7. PMID: 26273407
  • Nygaard V, Rødland EA, Hovig E et al. Methods that remove batch effects while retaining group differences may lead to exaggerated confidence in downstream analyses. Biostatistics 2016 Jan;17(1):29-39. PMID: 26272994
  • Khirade MF, Lal G, Bapat SA et al. Derivation of a fifteen gene prognostic panel for six cancers. Sci Rep 2015 Aug 14;5:13248. PMID: 26272668
  • Huang J, Marco E, Pinello L, Yuan GC et al. Predicting chromatin organization using histone marks. Genome Biol 2015 Aug 14;16(1):162. PMID: 26272203
  • Yue X, Zhao Y, Liu J, Zhang C et al. BAG2 promotes tumorigenesis through enhancing mutant p53 protein levels and function. Elife 2015 Aug 13;4. PMID: 26271008
  • Liu S, Zhang Y, Bian H, Li X et al. Gene expression profiling predicts pathways and genes associated with Parkinson's disease. Neurol Sci 2016 Jan;37(1):73-79. PMID: 26269422
  • Bouffi C, Kartashov AV, Schollaert KL, Chen X et al. Transcription Factor Repertoire of Homeostatic Eosinophilopoiesis. J Immunol 2015 Sep 15;195(6):2683-95. PMID: 26268651
  • Garcia-Fabiani MB, Montanaro MA, Lacunza E, Cattaneo ER et al. Methylation of the Gpat2 promoter regulates transient expression during mouse spermatogenesis. Biochem J 2015 Oct 15;471(2):211-20. PMID: 26268560
  • Fang L, Lu W, Choi HH, Yeung SC et al. ERK2-Dependent Phosphorylation of CSN6 Is Critical in Colorectal Cancer Development. Cancer Cell 2015 Aug 10;28(2):183-97. PMID: 26267535
  • Meng WJ, Yang L, Ma Q, Zhang H et al. MicroRNA Expression Profile Reveals miR-17-92 and miR-143-145 Cluster in Synchronous Colorectal Cancer. Medicine (Baltimore) 2015 Aug;94(32):e1297. PMID: 26266366
  • Seyednasrollah F, Rantanen K, Jaakkola P, Elo LL et al. ROTS: reproducible RNA-seq biomarker detector-prognostic markers for clear cell renal cell cancer. Nucleic Acids Res 2016 Jan 8;44(1):e1. PMID: 26264667
  • Zheng Y, Guo J, Zhou J, Lu J et al. FoxM1 transactivates PTTG1 and promotes colorectal cancer cell migration and invasion. BMC Med Genomics 2015 Aug 12;8:49. PMID: 26264222
  • Zou J, Yin F, Wang Q, Zhang W et al. Analysis of microarray-identified genes and microRNAs associated with drug resistance in ovarian cancer. Int J Clin Exp Pathol 2015;8(6):6847-58. PMID: 26261572
  • Siamakpour-Reihani S, Owzar K, Jiang C, Turner T et al. Prognostic significance of differential expression of angiogenic genes in women with high-grade serous ovarian carcinoma. Gynecol Oncol 2015 Oct;139(1):23-9. PMID: 26260910
  • Adler M, Ramm S, Hafner M, Muhlich JL et al. A Quantitative Approach to Screen for Nephrotoxic Compounds In Vitro. J Am Soc Nephrol 2016 Apr;27(4):1015-28. PMID: 26260164
  • Song Q, Wang H, Bao J, Pullikuth AK et al. Systems biology approach to studying proliferation-dependent prognostic subnetworks in breast cancer. Sci Rep 2015 Aug 10;5:12981. PMID: 26257336
  • Qi L, Chen L, Li Y, Qin Y et al. Critical limitations of prognostic signatures based on risk scores summarized from gene expression levels: a case study for resected stage I non-small-cell lung cancer. Brief Bioinform 2016 Mar;17(2):233-42. PMID: 26254430
  • Hu Y, Morota G, Rosa GJ, Gianola D et al. Prediction of Plant Height in Arabidopsis thaliana Using DNA Methylation Data. Genetics 2015 Oct;201(2):779-93. PMID: 26253546
  • Surinova S, Radová L, Choi M, Srovnal J et al. Non-invasive prognostic protein biomarker signatures associated with colorectal cancer. EMBO Mol Med 2015 Sep;7(9):1153-65. PMID: 26253080
  • Ortega FJ, Mercader JM, Moreno-Navarrete JM, Nonell L et al. Surgery-Induced Weight Loss Is Associated With the Downregulation of Genes Targeted by MicroRNAs in Adipose Tissue. J Clin Endocrinol Metab 2015 Nov;100(11):E1467-76. PMID: 26252355
  • Chandran UR, Luthra S, Santana-Santos L, Mao P et al. Gene expression profiling distinguishes proneural glioma stem cells from mesenchymal glioma stem cells. Genom Data 2015 Sep 1;5:333-336. PMID: 26251826
  • Swindell WR, Remmer HA, Sarkar MK, Xing X et al. Proteogenomic analysis of psoriasis reveals discordant and concordant changes in mRNA and protein abundance. Genome Med 2015;7(1):86. PMID: 26251673
  • Wang M, Luo J, Wan L, Hu T et al. Screening genes associated with myocardial infarction and transverse aortic constriction using a combined analysis of miRNA and mRNA microarray. Gene 2015 Oct 25;571(2):245-8. PMID: 26250077
  • James JL, Hurley DG, Gamage TK, Zhang T et al. Isolation and characterisation of a novel trophoblast side-population from first trimester placentae. Reproduction 2015 Nov;150(5):449-62. PMID: 26248480
  • Kartashov AV, Barski A et al. BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data. Genome Biol 2015 Aug 7;16(1):158. PMID: 26248465
  • Varghese S, Newton R, Ross-Innes CS, Lao-Sirieix P et al. Analysis of dysplasia in patients with Barrett's esophagus based on expression pattern of 90 genes. Gastroenterology 2015 Nov;149(6):1511-1518.e5. PMID: 26248086
  • Chen Y, Guo Y, Yang H, Shi G et al. TRIM66 overexpresssion contributes to osteosarcoma carcinogenesis and indicates poor survival outcome. Oncotarget 2015 Sep 15;6(27):23708-19. PMID: 26247633
  • Ebrahimie E, Nurollah Z, Ebrahimi M, Hemmatzadeh F et al. Unique ability of pandemic influenza to downregulate the genes involved in neuronal disorders. Mol Biol Rep 2015 Sep;42(9):1377-90. PMID: 26246405
  • Yang F, Yu X, Wang L, Liu L et al. Identify asthma genes across three phases based on protein-protein interaction network. IET Syst Biol 2015 Aug;9(4):135-40. PMID: 26243829
  • He J, Quintana MT, Sullivan J, L Parry T et al. MuRF2 regulates PPARγ1 activity to protect against diabetic cardiomyopathy and enhance weight gain induced by a high fat diet. Cardiovasc Diabetol 2015 Aug 5;14:97. PMID: 26242235
  • Shao G, Li T, Zuo W, Wu S et al. A Combinational Clustering Based Method for cDNA Microarray Image Segmentation. PLoS One 2015;10(8):e0133025. PMID: 26241767
  • Mehra M, Gangwar I, Shankar R et al. A Deluge of Complex Repeats: The Solanum Genome. PLoS One 2015;10(8):e0133962. PMID: 26241045
  • Colaprico A, Cava C, Bertoli G, Bontempi G et al. Integrative Analysis with Monte Carlo Cross-Validation Reveals miRNAs Regulating Pathways Cross-Talk in Aggressive Breast Cancer. Biomed Res Int 2015;2015:831314. PMID: 26240829
  • Mignardi M, Mezger A, Qian X, La Fleur L et al. Oligonucleotide gap-fill ligation for mutation detection and sequencing in situ. Nucleic Acids Res 2015 Dec 15;43(22):e151. PMID: 26240388
  • Lauria F, Tebaldi T, Lunelli L, Struffi P et al. RiboAbacus: a model trained on polyribosome images predicts ribosome density and translational efficiency from mammalian transcriptomes. Nucleic Acids Res 2015 Dec 15;43(22):e153. PMID: 26240374
  • González-Loyola A, Fernández-Miranda G, Trakala M, Partida D et al. Aurora B Overexpression Causes Aneuploidy and p21Cip1 Repression during Tumor Development. Mol Cell Biol 2015 Oct;35(20):3566-78. PMID: 26240282
  • An F, Zhang Z, Xia M, Xing L et al. Subpath analysis of each subtype of head and neck cancer based on the regulatory relationship between miRNAs and biological pathways. Oncol Rep 2015 Oct;34(4):1745-54. PMID: 26239836
  • An F, Zhang Z, Xia M et al. Functional analysis of the nasopharyngeal carcinoma primary tumor‑associated gene interaction network. Mol Med Rep 2015 Oct;12(4):4975-80. PMID: 26238040
  • Shin J, Phan L, Chen J, Lu Z et al. CSN6 positively regulates c-Jun in a MEKK1-dependent manner. Cell Cycle 2015;14(19):3079-87. PMID: 26237449
  • Zhao Y, Chen K, Shen X et al. Environmental Enrichment Attenuated Sevoflurane-Induced Neurotoxicity through the PPAR-γ Signaling Pathway. Biomed Res Int 2015;2015:107149. PMID: 26236713
  • Rafique S, Thomas JS, Sproul D, Bickmore WA et al. Estrogen-induced chromatin decondensation and nuclear re-organization linked to regional epigenetic regulation in breast cancer. Genome Biol 2015 Aug 3;16(1):145. PMID: 26235388
  • Galonska C, Ziller MJ, Karnik R, Meissner A et al. Ground State Conditions Induce Rapid Reorganization of Core Pluripotency Factor Binding before Global Epigenetic Reprogramming. Cell Stem Cell 2015 Oct 1;17(4):462-70. PMID: 26235340
  • Wang R, Gurguis CI, Gu W, Ko EA et al. Ion channel gene expression predicts survival in glioma patients. Sci Rep 2015 Aug 3;5:11593. PMID: 26235283
  • Montiel JF, Vasistha NA, Garcia-Moreno F, Molnár Z et al. From sauropsids to mammals and back: New approaches to comparative cortical development. J Comp Neurol 2016 Feb 15;524(3):630-45. PMID: 26234252
  • Gibbings SL, Goyal R, Desch AN, Leach SM et al. Transcriptome analysis highlights the conserved difference between embryonic and postnatal-derived alveolar macrophages. Blood 2015 Sep 10;126(11):1357-66. PMID: 26232173
  • Satpathy R, Konkimalla VB, Ratha J et al. In-silico gene co-expression network analysis in Paracoccidioides brasiliensis with reference to haloacid dehalogenase superfamily hydrolase gene. J Pharm Bioallied Sci 2015 Jul-Sep;7(3):212-7. PMID: 26229356
  • Cserhati MF, Pandey S, Beaudoin JJ, Baccaglini L et al. The National NeuroAIDS Tissue Consortium (NNTC) Database: an integrated database for HIV-related studies. Database (Oxford) 2015;2015:bav074. PMID: 26228431
  • Cai SY, Yang T, Chen Y, Wang JW et al. Gene expression profiling of ovarian carcinomas and prognostic analysis of outcome. J Ovarian Res 2015 Jul 31;8:50. PMID: 26228058
  • Tian SIdentification of Subtype-Specific Prognostic Genes for Early-Stage Lung Adenocarcinoma and Squamous Cell Carcinoma Patients Using an Embedded Feature Selection Algorithm. PLoS One 2015;10(7):e0134630. PMID: 26226392
  • Goswami CP, Cheng L, Alexander PS, Singal A et al. A New Drug Combinatory Effect Prediction Algorithm on the Cancer Cell Based on Gene Expression and Dose-Response Curve. CPT Pharmacometrics Syst Pharmacol 2015 Feb;4(2):e9. PMID: 26225234
  • Sharov AA, Schlessinger D, Ko MS et al. ExAtlas: An interactive online tool for meta-analysis of gene expression data. J Bioinform Comput Biol 2015 Dec;13(6):1550019. PMID: 26223199
  • Yang Z, Lu Y, Xu Q, Zhuang L et al. Correlation of APOBEC3 in tumor tissues with clinico-pathological features and survival from hepatocellular carcinoma after curative hepatectomy. Int J Clin Exp Med 2015;8(5):7762-9. PMID: 26221327
  • Hancock DB, Wang JC, Gaddis NC, Levy JL et al. A multiancestry study identifies novel genetic associations with CHRNA5 methylation in human brain and risk of nicotine dependence. Hum Mol Genet 2015 Oct 15;24(20):5940-54. PMID: 26220977
  • Ueda Y, Siddique S, Frei M et al. A Novel Gene, OZONE-RESPONSIVE APOPLASTIC PROTEIN1, Enhances Cell Death in Ozone Stress in Rice. Plant Physiol 2015 Sep;169(1):873-89. PMID: 26220952
  • El-Shamy A, Eng FJ, Doyle EH, Klepper AL et al. A cell culture system for distinguishing hepatitis C viruses with and without liver cancer-related mutations in the viral core gene. J Hepatol 2015 Dec;63(6):1323-33. PMID: 26220749
  • Bongiorno-Borbone L, Giacobbe A, Compagnone M, Eramo A et al. Anti-tumoral effect of desmethylclomipramine in lung cancer stem cells. Oncotarget 2015 Jul 10;6(19):16926-38. PMID: 26219257
  • Lee YC, Lee JW, Huang CC, Wu MH et al. Data supporting the identification of compound for inhibition of survivin of colorectal cancer by using ingenuity pathway analysis of gene expression profiling of colorectal cancer tissues. Data Brief 2015 Sep;4:235-8. PMID: 26217796
  • Cook DJ, Patra B, Kuttippurathu L, Hoek JB et al. A novel, dynamic pattern-based analysis of NF-κB binding during the priming phase of liver regeneration reveals switch-like functional regulation of target genes. Front Physiol 2015;6:189. PMID: 26217230
  • Oshida K, Vasani N, Thomas RS, Applegate D et al. Screening a mouse liver gene expression compendium identifies modulators of the aryl hydrocarbon receptor (AhR). Toxicology 2015 Oct 2;336:99-112. PMID: 26215100
  • Choi YS, Gullicksrud JA, Xing S, Zeng Z et al. LEF-1 and TCF-1 orchestrate T(FH) differentiation by regulating differentiation circuits upstream of the transcriptional repressor Bcl6. Nat Immunol 2015 Sep;16(9):980-90. PMID: 26214741
  • Sabath E, Báez-Ruiz A, Buijs RM et al. Non-alcoholic fatty liver disease as a consequence of autonomic imbalance and circadian desynchronization. Obes Rev 2015 Oct;16(10):871-82. PMID: 26214605
  • Yang J, Zhao Y, Kalita M, Li X et al. Systematic Determination of Human Cyclin Dependent Kinase (CDK)-9 Interactome Identifies Novel Functions in RNA Splicing Mediated by the DEAD Box (DDX)-5/17 RNA Helicases. Mol Cell Proteomics 2015 Oct;14(10):2701-21. PMID: 26209609
  • Hong CQ, Zhang F, You YJ, Qiu WL et al. Elevated C1orf63 expression is correlated with CDK10 and predicts better outcome for advanced breast cancers: a retrospective study. BMC Cancer 2015 Jul 25;15:548. PMID: 26209438
  • Shen J, Scheffer DI, Kwan KY, Corey DP et al. SHIELD: an integrative gene expression database for inner ear research. Database (Oxford) 2015;2015:bav071. PMID: 26209310
  • Luzina IG, Lockatell V, Todd NW, Kopach P et al. Pharmacological In Vivo Inhibition of S-Nitrosoglutathione Reductase Attenuates Bleomycin-Induced Inflammation and Fibrosis. J Pharmacol Exp Ther 2015 Oct;355(1):13-22. PMID: 26209236
  • Trinh BQ, Barengo N, Kim SB, Lee JS et al. The homeobox gene DLX4 regulates erythro-megakaryocytic differentiation by stimulating IL-1β and NF-κB signaling. J Cell Sci 2015 Aug 15;128(16):3055-67. PMID: 26208636
  • Li X, Shen L, Shang X, Liu W et al. Subpathway Analysis based on Signaling-Pathway Impact Analysis of Signaling Pathway. PLoS One 2015;10(7):e0132813. PMID: 26207919
  • Guardia GD, Pires LF, Vêncio RZ, Malmegrim KC et al. A Methodology for the Development of RESTful Semantic Web Services for Gene Expression Analysis. PLoS One 2015;10(7):e0134011. PMID: 26207740
  • Wang D, Cai F, Ge J, Yin L et al. Brief Exercises Affect Gene Expression in Circulating Monocytes. Scand J Immunol 2015 Nov;82(5):429-35. PMID: 26207425
  • Gao L, Gao Y, Xu E, Xie J et al. Microarray Analysis of the Major Depressive Disorder mRNA Profile Data. Psychiatry Investig 2015 Jul;12(3):388-96. PMID: 26207134
  • Scarzello AJ, Jiang Q, Back T, Dang H et al. LTβR signalling preferentially accelerates oncogenic AKT-initiated liver tumours. Gut 2016 Oct;65(10):1765-75. PMID: 26206664
  • Stintzing S, Zhang W, Heinemann V, Neureiter D et al. Polymorphisms in Genes Involved in EGFR Turnover Are Predictive for Cetuximab Efficacy in Colorectal Cancer. Mol Cancer Ther 2015 Oct;14(10):2374-81. PMID: 26206335
  • Jin Y, Tam OH, Paniagua E, Hammell M et al. TEtranscripts: a package for including transposable elements in differential expression analysis of RNA-seq datasets. Bioinformatics 2015 Nov 15;31(22):3593-9. PMID: 26206304
  • Matsuda A, Chikashige Y, Ding DQ, Ohtsuki C et al. Highly condensed chromatins are formed adjacent to subtelomeric and decondensed silent chromatin in fission yeast. Nat Commun 2015 Jul 24;6:7753. PMID: 26205977
  • Chan LW, Lin X, Yung G, Lui T et al. Novel structural co-expression analysis linking the NPM1-associated ribosomal biogenesis network to chronic myelogenous leukemia. Sci Rep 2015 Jul 24;5:10973. PMID: 26205693
  • Sutani T, Sakata T, Nakato R, Masuda K et al. Condensin targets and reduces unwound DNA structures associated with transcription in mitotic chromosome condensation. Nat Commun 2015 Jul 23;6:7815. PMID: 26204128
  • Leem SH, Li XJ, Park MH, Park BH et al. Genome-wide transcriptome analysis reveals inactivation of Wnt/β-catenin by 3,3'-diindolylmethane inhibiting proliferation of colon cancer cells. Int J Oncol 2015 Sep;47(3):918-26. PMID: 26203047
  • Peixoto L, Risso D, Poplawski SG, Wimmer ME et al. How data analysis affects power, reproducibility and biological insight of RNA-seq studies in complex datasets. Nucleic Acids Res 2015 Sep 18;43(16):7664-74. PMID: 26202970
  • Kim KH, Cho EG, Yu SJ, Kang H et al. ΔNp63 intronic miR-944 is implicated in the ΔNp63-mediated induction of epidermal differentiation. Nucleic Acids Res 2015 Sep 3;43(15):7462-79. PMID: 26202967
  • Fan X, Zhang X, Wu X, Guo H et al. Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos. Genome Biol 2015 Jul 23;16(1):148. PMID: 26201400
  • Yan Z, Qu K, Zhang J, Huang Q et al. CD147 promotes liver fibrosis progression via VEGF-A/VEGFR2 signalling-mediated cross-talk between hepatocytes and sinusoidal endothelial cells. Clin Sci (Lond) 2015 Oct 1;129(8):699-710. PMID: 26201021
  • Shen J, Mao AP, Zhu MM, Zhao P et al. Ulcerative Colitis Database: An Integrated Database and Toolkit for Gene Function and Medication Involved in Ulcerative Colitis. Inflamm Bowel Dis 2015 Aug;21(8):1872-82. PMID: 26199991
  • Ye N, Yin H, Liu J, Dai X et al. GESearch: An Interactive GUI Tool for Identifying Gene Expression Signature. Biomed Res Int 2015;2015:853734. PMID: 26199946
  • Kang J, Lienhard M, Pastor WA, Chawla A et al. Simultaneous deletion of the methylcytosine oxidases Tet1 and Tet3 increases transcriptome variability in early embryogenesis. Proc Natl Acad Sci U S A 2015 Aug 4;112(31):E4236-45. PMID: 26199412
  • Caliò A, Zamò A, Ponzoni M, Zanolin ME et al. Cellular Senescence Markers p16INK4a and p21CIP1/WAF Are Predictors of Hodgkin Lymphoma Outcome. Clin Cancer Res 2015 Nov 15;21(22):5164-72. PMID: 26199387
  • Jansen G, Crummenerl LL, Gilbert F, Mohr T et al. Evolutionary Transition from Pathogenicity to Commensalism: Global Regulator Mutations Mediate Fitness Gains through Virulence Attenuation. Mol Biol Evol 2015 Nov;32(11):2883-96. PMID: 26199376
  • Ziv E, Dean E, Hu D, Martino A et al. Genome-wide association study identifies variants at 16p13 associated with survival in multiple myeloma patients. Nat Commun 2015 Jul 22;6:7539. PMID: 26198393
  • Paredes-Sánchez FA, Sifuentes-Rincón AM, Segura Cabrera A, García Pérez CA et al. Associations of SNPs located at candidate genes to bovine growth traits, prioritized with an interaction networks construction approach. BMC Genet 2015 Jul 22;16:91. PMID: 26198337
  • Jaakkola MK, Elo LL et al. Empirical comparison of structure-based pathway methods. Brief Bioinform 2016 Mar;17(2):336-45. PMID: 26197809
  • Siavelis JC, Bourdakou MM, Athanasiadis EI, Spyrou GM et al. Bioinformatics methods in drug repurposing for Alzheimer's disease. Brief Bioinform 2016 Mar;17(2):322-35. PMID: 26197808
  • Ghorbani S, Lin YC, Parizot B, Fernandez A et al. Expanding the repertoire of secretory peptides controlling root development with comparative genome analysis and functional assays. J Exp Bot 2015 Aug;66(17):5257-69. PMID: 26195730
  • Gentles AJ, Newman AM, Liu CL, Bratman SV et al. The prognostic landscape of genes and infiltrating immune cells across human cancers. Nat Med 2015 Aug;21(8):938-945. PMID: 26193342
  • Zhang G, An H, Fang X et al. MicroRNA-144 regulates proliferation, invasion, and apoptosis of cells in malignant solitary pulmonary nodule via zinc finger E-box-binding homeobox 1. Int J Clin Exp Pathol 2015;8(5):5960-7. PMID: 26191328
  • Ashbrook DG, Williams RW, Lu L, Hager R et al. A cross-species genetic analysis identifies candidate genes for mouse anxiety and human bipolar disorder. Front Behav Neurosci 2015;9:171. PMID: 26190982
  • Levine DM, Dutta NK, Eckels J, Scanga C et al. A tuberculosis ontology for host systems biology. Tuberculosis (Edinb) 2015 Sep;95(5):570-4. PMID: 26190839
  • Ye Q, Lei L, Aili AX et al. Identification of potential targets for ovarian cancer treatment by systematic bioinformatics analysis. Eur J Gynaecol Oncol 2015;36(3):283-9. PMID: 26189254
  • Zhao W, Zhao W, Zhao J, Wang D et al. Screening of potential target genes for cataract by analyzing mRNA expression profile of mouse Hsf4-null lens. BMC Ophthalmol 2015 Jul 18;15:76. PMID: 26187041
  • Wajnberg G, Carvalho BS, Ferreira CG, Passetti F et al. Combined Analysis of SNP Array Data Identifies Novel CNV Candidates and Pathways in Ependymoma and Mesothelioma. Biomed Res Int 2015;2015:902419. PMID: 26185765
  • Barat A, Ruskin HJ et al. Comparative Correlation Structure of Colon Cancer Locus Specific Methylation: Characterisation of Patient Profiles and Potential Markers across 3 Array-Based Datasets. J Cancer 2015;6(8):795-811. PMID: 26185542
  • Wu H, Xu T, Feng H, Chen L et al. Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates. Nucleic Acids Res 2015 Dec 2;43(21):e141. PMID: 26184873
  • Lim YW, Sanz LA, Xu X, Hartono SR et al. Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi-Goutières syndrome. Elife 2015 Jul 16;4. PMID: 26182405
  • Randhawa V, Acharya V et al. Integrated network analysis and logistic regression modeling identify stage-specific genes in Oral Squamous Cell Carcinoma. BMC Med Genomics 2015 Jul 16;8:39. PMID: 26179909
  • Lunavat TR, Cheng L, Kim DK, Bhadury J et al. Small RNA deep sequencing discriminates subsets of extracellular vesicles released by melanoma cells--Evidence of unique microRNA cargos. RNA Biol 2015;12(8):810-23. PMID: 26176991
  • Juel HB, Faber C, Munthe-Fog L, Bastrup-Birk S et al. Systemic and Ocular Long Pentraxin 3 in Patients with Age-Related Macular Degeneration. PLoS One 2015;10(7):e0132800. PMID: 26176960
  • Wang Z, Li X, Jiang Y, Shao Q et al. swDMR: A Sliding Window Approach to Identify Differentially Methylated Regions Based on Whole Genome Bisulfite Sequencing. PLoS One 2015;10(7):e0132866. PMID: 26176536
  • Ben-Yehezkel T, Atar S, Zur H, Diament A et al. Rationally designed, heterologous S. cerevisiae transcripts expose novel expression determinants. RNA Biol 2015;12(9):972-84. PMID: 26176266
  • Chang YH, Yang YL, Chen CM, Chen HY et al. Apoptosis pathway signature for prediction of treatment response and clinical outcome in childhood high risk B-Precursor acute lymphoblastic leukemia. Am J Cancer Res 2015;5(5):1844-53. PMID: 26175952
  • Lee YE, He HL, Chen TJ, Lee SW et al. The prognostic impact of RAP2A expression in patients with early and locoregionally advanced nasopharyngeal carcinoma in an endemic area. Am J Transl Res 2015;7(5):912-21. PMID: 26175852
  • Chakrabarti GMutant KRAS associated malic enzyme 1 expression is a predictive marker for radiation therapy response in non-small cell lung cancer. Radiat Oncol 2015 Jul 16;10:145. PMID: 26173780
  • Ao L, Yan H, Zheng T, Wang H et al. Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments. Sci Rep 2015 Jul 15;5:11895. PMID: 26173481
  • Lazo-Fernandez Y, Aguilera G, Pham TD, Park AY et al. Pendrin localizes to the adrenal medulla and modulates catecholamine release. Am J Physiol Endocrinol Metab 2015 Sep 15;309(6):E534-45. PMID: 26173457
  • Yang J, Wang N et al. Genome-wide expression and methylation profiles reveal candidate genes and biological processes underlying synovial inflammatory tissue of patients with osteoarthritis. Int J Rheum Dis 2015 Sep;18(7):783-90. PMID: 26171692
  • MacNeil SM, Johnson WE, Li DY, Piccolo SR et al. Inferring pathway dysregulation in cancers from multiple types of omic data. Genome Med 2015;7(1):61. PMID: 26170901
  • Niedzielska M, Raffi FA, Tel J, Muench S et al. Selective Expression of the MAPK Phosphatase Dusp9/MKP-4 in Mouse Plasmacytoid Dendritic Cells and Regulation of IFN-β Production. J Immunol 2015 Aug 15;195(4):1753-62. PMID: 26170386
  • Pandolfi A, Stanley RF, Yu Y, Bartholdy B et al. PAK1 is a therapeutic target in acute myeloid leukemia and myelodysplastic syndrome. Blood 2015 Aug 27;126(9):1118-27. PMID: 26170031
  • Hu T, Yeh JE, Pinello L, Jacob J et al. Impact of the N-Terminal Domain of STAT3 in STAT3-Dependent Transcriptional Activity. Mol Cell Biol 2015 Oct;35(19):3284-300. PMID: 26169829
  • Wrzesiński T, Szelag M, Cieślikowski WA, Ida A et al. Expression of pre-selected TMEMs with predicted ER localization as potential classifiers of ccRCC tumors. BMC Cancer 2015 Jul 14;15:518. PMID: 26169495
  • Powers S, DeJongh M, Best AA, Tintle NL et al. Cautions about the reliability of pairwise gene correlations based on expression data. Front Microbiol 2015;6:650. PMID: 26167162
  • Pundhir S, Gorodkin J et al. Differential and coherent processing patterns from small RNAs. Sci Rep 2015 Jul 13;5:12062. PMID: 26166713
  • Mohammadnia A, Yaqubi M, Fallahi H et al. Predicting transcription factors in human alcoholic hepatitis from gene regulatory network. Eur Rev Med Pharmacol Sci 2015 Jun;19(12):2246-53. PMID: 26166650
  • Bi C, Chung TH, Huang G, Zhou J et al. Genome-wide pharmacologic unmasking identifies tumor suppressive microRNAs in multiple myeloma. Oncotarget 2015 Sep 22;6(28):26508-18. PMID: 26164366
  • Brand HK, Ahout IM, de Ridder D, van Diepen A et al. Olfactomedin 4 Serves as a Marker for Disease Severity in Pediatric Respiratory Syncytial Virus (RSV) Infection. PLoS One 2015;10(7):e0131927. PMID: 26162090
  • Kontro H, Cannino G, Rustin P, Dufour E et al. DAPIT Over-Expression Modulates Glucose Metabolism and Cell Behaviour in HEK293T Cells. PLoS One 2015;10(7):e0131990. PMID: 26161955
  • Wolstencroft K, Owen S, Krebs O, Nguyen Q et al. SEEK: a systems biology data and model management platform. BMC Syst Biol 2015 Jul 11;9:33. PMID: 26160520
  • Fei Q, Yang X, Jiang H, Wang Q et al. SETDB1 modulates PRC2 activity at developmental genes independently of H3K9 trimethylation in mouse ES cells. Genome Res 2015 Sep;25(9):1325-35. PMID: 26160163
  • Li F, Tian P, Zhang J, Kou C et al. The clinical and prognostic significance of midkine in breast cancer patients. Tumour Biol 2015 Dec;36(12):9789-94. PMID: 26159850
  • Börnigen D, Moon YS, Rahnavard G, Waldron L et al. A reproducible approach to high-throughput biological data acquisition and integration. PeerJ 2015;3:e791. PMID: 26157642
  • Santos A, Tsafou K, Stolte C, Pletscher-Frankild S et al. Comprehensive comparison of large-scale tissue expression datasets. PeerJ 2015;3:e1054. PMID: 26157623
  • Danielsson A, Nemes S, Tisell M, Lannering B et al. MethPed: a DNA methylation classifier tool for the identification of pediatric brain tumor subtypes. Clin Epigenetics 2015;7(1):62. PMID: 26157508
  • Khosravi P, Gazestani VH, Pirhaji L, Law B et al. Inferring interaction type in gene regulatory networks using co-expression data. Algorithms Mol Biol 2015;10:23. PMID: 26157474
  • Liu R, Wang M, Su L, Li X et al. The Expression Pattern of MicroRNAs and the Associated Pathways Involved in the Development of Porcine Placental Folds That Contribute to the Expansion of the Exchange Surface Area. Biol Reprod 2015 Sep;93(3):62. PMID: 26157073
  • Fu F, Wei X, Liu J, Mi N et al. Bioinformatic analysis of specific genes in diabetic nephropathy. Ren Fail 2015 Aug;37(7):1219-24. PMID: 26156684
  • Craddock TJ, Harvey JM, Nathanson L, Barnes ZM et al. Using gene expression signatures to identify novel treatment strategies in gulf war illness. BMC Med Genomics 2015 Jul 9;8:36. PMID: 26156520
  • Li D, Xie Z, Pape ML, Dye T et al. An evaluation of statistical methods for DNA methylation microarray data analysis. BMC Bioinformatics 2015 Jul 10;16:217. PMID: 26156501
  • Bertucci F, Finetti P, Mamessier E, Pantaleo MA et al. PDL1 expression is an independent prognostic factor in localized GIST. Oncoimmunology 2015 May;4(5):e1002729. PMID: 26155391
  • Venugopal C, Hallett R, Vora P, Manoranjan B et al. Pyrvinium Targets CD133 in Human Glioblastoma Brain Tumor-Initiating Cells. Clin Cancer Res 2015 Dec 1;21(23):5324-37. PMID: 26152745
  • Seifert A, Schofield P, Barton GJ, Hay RT et al. Proteotoxic stress reprograms the chromatin landscape of SUMO modification. Sci Signal 2015 Jul 7;8(384):rs7. PMID: 26152697
  • Mittal K, Ogden A, Reid MD, Rida PC et al. Amplified centrosomes may underlie aggressive disease course in pancreatic ductal adenocarcinoma. Cell Cycle 2015;14(17):2798-809. PMID: 26151406
  • Sun J, Yan B, Yin W, Zhang X et al. Identification of genes associated with osteoarthritis by microarray analysis. Mol Med Rep 2015 Oct;12(4):5211-6. PMID: 26151199
  • Phuchareon J, McCormick F, Eisele DW, Tetsu O et al. EGFR inhibition evokes innate drug resistance in lung cancer cells by preventing Akt activity and thus inactivating Ets-1 function. Proc Natl Acad Sci U S A 2015 Jul 21;112(29):E3855-63. PMID: 26150526
  • James-Zorn C, Ponferrada VG, Burns KA, Fortriede JD et al. Xenbase: Core features, data acquisition, and data processing. Genesis 2015 Aug;53(8):486-97. PMID: 26150211
  • Wagner A, Cohen N, Kelder T, Amit U et al. Drugs that reverse disease transcriptomic signatures are more effective in a mouse model of dyslipidemia. Mol Syst Biol 2015 Mar;11(3):791. PMID: 26148350
  • Park JA, Kim DY, Kim YM, Lee IK et al. Endothelial Snail Regulates Capillary Branching Morphogenesis via Vascular Endothelial Growth Factor Receptor 3 Expression. PLoS Genet 2015 Jul;11(7):e1005324. PMID: 26147525
  • Bouveret R, Waardenberg AJ, Schonrock N, Ramialison M et al. NKX2-5 mutations causative for congenital heart disease retain functionality and are directed to hundreds of targets. Elife 2015 Jul 6;4. PMID: 26146939
  • Chen T, Chen L et al. Prediction of Clinical Outcome for All Stages and Multiple Cell Types of Non-small Cell Lung Cancer in Five Countries Using Lung Cancer Prognostic Index. EBioMedicine 2014 Dec;1(2-3):156-66. PMID: 26137522
  • Cheng Y, Yu P, Duan X, Liu C et al. Genome-wide analysis of androgen receptor binding sites in prostate cancer cells. Exp Ther Med 2015 Jun;9(6):2319-2324. PMID: 26136980
  • Abdala-Valencia H, Bryce PJ, Schleimer RP, Wechsler JB et al. Tetraspanin CD151 Is a Negative Regulator of FcεRI-Mediated Mast Cell Activation. J Immunol 2015 Aug 15;195(4):1377-87. PMID: 26136426
  • Yan X, Yuan F, Chen X, Dong C et al. Bioinformatics analysis to identify the differentially expressed genes of glaucoma. Mol Med Rep 2015 Oct;12(4):4829-36. PMID: 26135629
  • Hu P, Feng B, Wang G, Ning B et al. Microarray based analysis of gene regulation by microRNA in intervertebral disc degeneration. Mol Med Rep 2015 Oct;12(4):4925-30. PMID: 26134418
  • Koumakis L, Potamias G, Tsiknakis M, Zervakis M et al. Integrating Microarray Data and GRNs. Methods Mol Biol 2016;1375:137-53. PMID: 26134183
  • Yang H, Kang K, Cheng C, Mamillapalli R et al. Integrative Analysis Reveals Regulatory Programs in Endometriosis. Reprod Sci 2015 Sep;22(9):1060-72. PMID: 26134036
  • Clarke K, Daubon T, Turan N, Soulet F et al. Inference of Low and High-Grade Glioma Gene Regulatory Networks Delineates the Role of Rnd3 in Establishing Multiple Hallmarks of Cancer. PLoS Genet 2015 Jul;11(7):e1005325. PMID: 26132659
  • Du ZP, Wu BL, Wu X, Lin XH et al. A systematic analysis of human lipocalin family and its expression in esophageal carcinoma. Sci Rep 2015 Jul 1;5:12010. PMID: 26131602
  • Li B, Shi XY, Liao DX, Cao BR et al. Advanced colorectal adenoma related gene expression signature may predict prognostic for colorectal cancer patients with adenoma-carcinoma sequence. Int J Clin Exp Med 2015;8(4):4883-98. PMID: 26131062
  • Wang Z, Xu W, Liu Y et al. Integrating full spectrum of sequence features into predicting functional microRNA-mRNA interactions. Bioinformatics 2015 Nov 1;31(21):3529-36. PMID: 26130578
  • Zeng R, Bscheider M, Lahl K, Lee M et al. Generation and transcriptional programming of intestinal dendritic cells: essential role of retinoic acid. Mucosal Immunol 2016 Jan;9(1):183-93. PMID: 26129652
  • Dancik GMAn online tool for evaluating diagnostic and prognostic gene expression biomarkers in bladder cancer. BMC Urol 2015 Jul 1;15:59. PMID: 26126604
  • Lee YH, Song GG et al. Meta-analysis of differentially expressed genes in ankylosing spondylitis. Genet Mol Res 2015 May 18;14(2):5161-70. PMID: 26125709
  • Shangguan H, Tan SY, Zhang JR et al. Bioinformatics analysis of gene expression profiles in hepatocellular carcinoma. Eur Rev Med Pharmacol Sci 2015;19(11):2054-61. PMID: 26125269
  • Gutiérrez-Avilés D, Rubio-Escudero C et al. MSL: A Measure to Evaluate Three-dimensional Patterns in Gene Expression Data. Evol Bioinform Online 2015;11:121-35. PMID: 26124630
  • Hasan AN, Ahmad MW, Madar IH, Grace BL et al. An in silico analytical study of lung cancer and smokers datasets from gene expression omnibus (GEO) for prediction of differentially expressed genes. Bioinformation 2015;11(5):229-35. PMID: 26124566
  • Liang L, Ai L, Qian J, Fang JY et al. Long noncoding RNA expression profiles in gut tissues constitute molecular signatures that reflect the types of microbes. Sci Rep 2015 Jun 30;5:11763. PMID: 26123364
  • Søkilde R, Newie I, Persson H, Borg Å et al. Passenger strand loading in overexpression experiments using microRNA mimics. RNA Biol 2015;12(8):787-91. PMID: 26121563
  • Chiba T, Hukriede N, de Caestecker MP et al. Kidney Regeneration: Lessons from Development. Curr Pathobiol Rep 2015 Mar;3(1):67-79. PMID: 26120499
  • Nakamura Y, Asano A, Hosaka Y, Takeuchi T et al. Expression and intracellular localization of TBC1D9, a Rab GTPase-accelerating protein, in mouse testes. Exp Anim 2015;64(4):415-24. PMID: 26119791
  • Sumantran VN, Mishra P, Sudhakar N et al. Microarray analysis of differentially expressed genes regulating lipid metabolism during melanoma progression. Indian J Biochem Biophys 2015 Apr;52(2):125-31. PMID: 26118123
  • Long MD, van den Berg PR, Russell JL, Singh PK et al. Integrative genomic analysis in K562 chronic myelogenous leukemia cells reveals that proximal NCOR1 binding positively regulates genes that govern erythroid differentiation and Imatinib sensitivity. Nucleic Acids Res 2015 Sep 3;43(15):7330-48. PMID: 26117541
  • Keilwagen J, Grau J et al. Varying levels of complexity in transcription factor binding motifs. Nucleic Acids Res 2015 Oct 15;43(18):e119. PMID: 26116565
  • Ito D, Nojima S, Nishide M, Okuno T et al. mTOR Complex Signaling through the SEMA4A-Plexin B2 Axis Is Required for Optimal Activation and Differentiation of CD8+ T Cells. J Immunol 2015 Aug 1;195(3):934-43. PMID: 26116513
  • Notas G, Pelekanou V, Kampa M, Alexakis K et al. Tamoxifen induces a pluripotency signature in breast cancer cells and human tumors. Mol Oncol 2015 Nov;9(9):1744-59. PMID: 26115764
  • Le TD, Zhang J, Liu L, Li J et al. Ensemble Methods for MiRNA Target Prediction from Expression Data. PLoS One 2015;10(6):e0131627. PMID: 26114448
  • Caldwell R, Lin YX, Zhang R et al. Comparisons between Arabidopsis thaliana and Drosophila melanogaster in relation to Coding and Noncoding Sequence Length and Gene Expression. Int J Genomics 2015;2015:269127. PMID: 26114098
  • Dvinge H, Bradley RK et al. Widespread intron retention diversifies most cancer transcriptomes. Genome Med 2015;7(1):45. PMID: 26113877
  • Bhawe KM, Aghi MK et al. Microarray Analysis in Glioblastomas. Methods Mol Biol 2016;1375:195-206. PMID: 26113463
  • Charolidi N, Pirianov G, Torsney E, Pearce S et al. Pioglitazone Identifies a New Target for Aneurysm Treatment: Role of Egr1 in an Experimental Murine Model of Aortic Aneurysm. J Vasc Res 2015;52(2):81-93. PMID: 26113112
  • Zhang Z, Wang Y, Li C, Shi Z et al. The Transitional Endoplasmic Reticulum ATPase p97 Regulates the Alternative Nuclear Factor NF-κB Signaling via Partial Degradation of the NF-κB Subunit p100. J Biol Chem 2015 Aug 7;290(32):19558-68. PMID: 26112410
  • Liu Y, Li A, Feng H, Wang M et al. TAFFYS: An Integrated Tool for Comprehensive Analysis of Genomic Aberrations in Tumor Samples. PLoS One 2015;10(6):e0129835. PMID: 26111017
  • Frankish A, Uszczynska B, Ritchie GR, Gonzalez JM et al. Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction. BMC Genomics 2015;16 Suppl 8(Suppl 8):S2. PMID: 26110515
  • Fernández E, Li KW, Rajan N, De Rubeis S et al. FXR2P Exerts a Positive Translational Control and Is Required for the Activity-Dependent Increase of PSD95 Expression. J Neurosci 2015 Jun 24;35(25):9402-8. PMID: 26109663
  • Meng X, Xiao C, Zhao Y, Jia L et al. Meta-analysis of microarrays: diagnostic value of microRNA-21 as a biomarker for lung cancer. Int J Biol Markers 2015 Jul 22;30(3):e282-5. PMID: 26109362
  • Durinck K, Van Loocke W, Van der Meulen J, Van de Walle I et al. Characterization of the genome-wide TLX1 binding profile in T-cell acute lymphoblastic leukemia. Leukemia 2015 Dec;29(12):2317-27. PMID: 26108691
  • Wang X, Wang J, Xing CY, Zang R et al. [Comparative analysis of the role of CD4(+) and CD8(+) T cells in severe asthma development]. Mol Biol (Mosk) 2015 May-Jun;49(3):482-90. PMID: 26107902
  • Lee J, Jeong S, Lee CR, Ku CR et al. GLI1 Transcription Factor Affects Tumor Aggressiveness in Patients With Papillary Thyroid Cancers. Medicine (Baltimore) 2015 Jun;94(25):e998. PMID: 26107686
  • García-Ortega LF, Martínez O et al. How Many Genes Are Expressed in a Transcriptome? Estimation and Results for RNA-Seq. PLoS One 2015;10(6):e0130262. PMID: 26107654
  • Toker L, Pavlidis P et al. Metaanalysis of flawed expression profiling data leading to erroneous Parkinson's biomarker identification. Proc Natl Acad Sci U S A 2015 Jul 14;112(28):E3637. PMID: 26106167
  • Santiago JA, Potashkin JA et al. Reply to Toker and Pavlidis: Blood biomarkers for Parkinson's disease. Proc Natl Acad Sci U S A 2015 Jul 14;112(28):E3638. PMID: 26106166
  • Tanaka H, Ogishima S et al. Network biology approach to epithelial-mesenchymal transition in cancer metastasis: three stage theory. J Mol Cell Biol 2015 Jun;7(3):253-66. PMID: 26103982
  • He J, Yang J, Chen W, Wu H et al. Molecular Features of Triple Negative Breast Cancer: Microarray Evidence and Further Integrated Analysis. PLoS One 2015;10(6):e0129842. PMID: 26103053
  • Klinke OK, Mizani T, Baldwin G, Bancel B et al. KIT Mutation and Loss of 14q May Be Sufficient for the Development of Clinically Symptomatic Very Low-Risk GIST. PLoS One 2015;10(6):e0130149. PMID: 26102504
  • Luo W, Obeidat M, Di Narzo AF, Chen R et al. Airway Epithelial Expression Quantitative Trait Loci Reveal Genes Underlying Asthma and Other Airway Diseases. Am J Respir Cell Mol Biol 2016 Feb;54(2):177-87. PMID: 26102239
  • Majumder K, Rupp LJ, Yang-Iott KS, Koues OI et al. Domain-Specific and Stage-Intrinsic Changes in Tcrb Conformation during Thymocyte Development. J Immunol 2015 Aug 1;195(3):1262-72. PMID: 26101321
  • Chhangawala S, Rudy G, Mason CE, Rosenfeld JA et al. The impact of read length on quantification of differentially expressed genes and splice junction detection. Genome Biol 2015 Jun 23;16(1):131. PMID: 26100517
  • Chiu YC, Wu CT, Hsiao TH, Lai YP et al. Co-modulation analysis of gene regulation in breast cancer reveals complex interplay between ESR1 and ERBB2 genes. BMC Genomics 2015;16 Suppl 7(Suppl 7):S19. PMID: 26100352
  • Yamaguchi J, Liss AS, Sontheimer A, Mino-Kenudson M et al. Pancreatic duct glands (PDGs) are a progenitor compartment responsible for pancreatic ductal epithelial repair. Stem Cell Res 2015 Jul;15(1):190-202. PMID: 26100232
  • Carson C, Raman P, Tullai J, Xu L et al. Englerin A Agonizes the TRPC4/C5 Cation Channels to Inhibit Tumor Cell Line Proliferation. PLoS One 2015;10(6):e0127498. PMID: 26098886
  • Ueno-Yokohata H, Okita H, Nakasato K, Akimoto S et al. Consistent in-frame internal tandem duplications of BCOR characterize clear cell sarcoma of the kidney. Nat Genet 2015 Aug;47(8):861-3. PMID: 26098867
  • Rietkötter E, Bleckmann A, Bayerlová M, Menck K et al. Anti-CSF-1 treatment is effective to prevent carcinoma invasion induced by monocyte-derived cells but scarcely by microglia. Oncotarget 2015 Jun 20;6(17):15482-93. PMID: 26098772
  • Zhang W, Barger CJ, Link PA, Mhawech-Fauceglia P et al. DNA hypomethylation-mediated activation of Cancer/Testis Antigen 45 (CT45) genes is associated with disease progression and reduced survival in epithelial ovarian cancer. Epigenetics 2015;10(8):736-48. PMID: 26098711
  • Budden DM, Hurley DG, Crampin EJ et al. Modelling the conditional regulatory activity of methylated and bivalent promoters. Epigenetics Chromatin 2015;8:21. PMID: 26097508
  • Siernicka M, Winiarska M, Bajor M, Firczuk M et al. Adenanthin, a new inhibitor of thiol-dependent antioxidant enzymes, impairs the effector functions of human natural killer cells. Immunology 2015 Sep;146(1):173-83. PMID: 26094816
  • Yco LP, Geerts D, Mocz G, Koster J et al. Effect of sulfasalazine on human neuroblastoma: analysis of sepiapterin reductase (SPR) as a new therapeutic target. BMC Cancer 2015 Jun 21;15:477. PMID: 26093909
  • Bacolod MD, Das SK, Sokhi UK, Bradley S et al. Examination of Epigenetic and other Molecular Factors Associated with mda-9/Syntenin Dysregulation in Cancer Through Integrated Analyses of Public Genomic Datasets. Adv Cancer Res 2015;127:49-121. PMID: 26093898
  • Harrison PF, Powell DR, Clancy JL, Preiss T et al. PAT-seq: a method to study the integration of 3'-UTR dynamics with gene expression in the eukaryotic transcriptome. RNA 2015 Aug;21(8):1502-10. PMID: 26092945
  • Lu Y, Qu W, Shan G, Zhang C et al. DELTA: A Distal Enhancer Locating Tool Based on AdaBoost Algorithm and Shape Features of Chromatin Modifications. PLoS One 2015;10(6):e0130622. PMID: 26091399
  • Cai X, Luo J, Yang X, Deng H et al. In vivo selection for spine-derived highly metastatic lung cancer cells is associated with increased migration, inflammation and decreased adhesion. Oncotarget 2015 Sep 8;6(26):22905-17. PMID: 26090868
  • Musungu B, Bhatnagar D, Brown RL, Fakhoury AM et al. A predicted protein interactome identifies conserved global networks and disease resistance subnetworks in maize. Front Genet 2015;6:201. PMID: 26089837
  • Weill N, Lisi V, Scott N, Dallaire P et al. MiRBooking simulates the stoichiometric mode of action of microRNAs. Nucleic Acids Res 2015 Aug 18;43(14):6730-8. PMID: 26089388
  • Viggiano A, Cacciola G, Widmer DA, Viggiano D et al. Anxiety as a neurodevelopmental disorder in a neuronal subpopulation: Evidence from gene expression data. Psychiatry Res 2015 Aug 30;228(3):729-40. PMID: 26089015
  • Speake C, Presnell S, Domico K, Zeitner B et al. An interactive web application for the dissemination of human systems immunology data. J Transl Med 2015 Jun 19;13:196. PMID: 26088622
  • Faggi F, Codenotti S, Poliani PL, Cominelli M et al. MURC/cavin-4 Is Co-Expressed with Caveolin-3 in Rhabdomyosarcoma Tumors and Its Silencing Prevents Myogenic Differentiation in the Human Embryonal RD Cell Line. PLoS One 2015;10(6):e0130287. PMID: 26086601
  • Fang K, Grisham MB, Kevil CG et al. Application of Comparative Transcriptional Genomics to Identify Molecular Targets for Pediatric IBD. Front Immunol 2015;6:165. PMID: 26085826
  • Babu M, Durga Devi T, Mäkinen P, Kaikkonen M et al. Differential Promoter Methylation of Macrophage Genes Is Associated With Impaired Vascular Growth in Ischemic Muscles of Hyperlipidemic and Type 2 Diabetic Mice: Genome-Wide Promoter Methylation Study. Circ Res 2015 Jul 17;117(3):289-99. PMID: 26085133
  • Chen BS, Li CW et al. Measuring information flow in cellular networks by the systems biology method through microarray data. Front Plant Sci 2015;6:390. PMID: 26082788
  • Tong Z, Li M, Wang W, Mo P et al. Steroid Receptor Coactivator 1 Promotes Human Hepatocellular Carcinoma Progression by Enhancing Wnt/β-Catenin Signaling. J Biol Chem 2015 Jul 24;290(30):18596-608. PMID: 26082485
  • Zhao Y, Tan W, Sheng W, Li X et al. Identification of Biomarkers Associated With Alzheimer's Disease by Bioinformatics Analysis. Am J Alzheimers Dis Other Demen 2016 Mar;31(2):163-8. PMID: 26082458
  • Guo M, Ruan W, Li C, Huang F et al. Integrative Comparison of the Role of the PHOSPHATE RESPONSE1 Subfamily in Phosphate Signaling and Homeostasis in Rice. Plant Physiol 2015 Aug;168(4):1762-76. PMID: 26082401
  • Poulos RC, Thoms JA, Shah A, Beck D et al. Systematic Screening of Promoter Regions Pinpoints Functional Cis-Regulatory Mutations in a Cutaneous Melanoma Genome. Mol Cancer Res 2015 Aug;13(8):1218-26. PMID: 26082173
  • Masulis IS, Babaeva ZSh, Chernyshov SV, Ozoline ON et al. Visualizing the activity of Escherichia coli divergent promoters and probing their dependence on superhelical density using dual-colour fluorescent reporter vector. Sci Rep 2015 Jun 17;5:11449. PMID: 26081797
  • Li Y, Xiao X, Ji X, Liu B et al. RNA-seq analysis of lung adenocarcinomas reveals different gene expression profiles between smoking and nonsmoking patients. Tumour Biol 2015 Nov;36(11):8993-9003. PMID: 26081616
  • Oren M, Tarrant AM, Alon S, Simon-Blecher N et al. Profiling molecular and behavioral circadian rhythms in the non-symbiotic sea anemone Nematostella vectensis. Sci Rep 2015 Jun 17;5:11418. PMID: 26081482
  • Cottini F, Hideshima T, Suzuki R, Tai YT et al. Synthetic Lethal Approaches Exploiting DNA Damage in Aggressive Myeloma. Cancer Discov 2015 Sep;5(9):972-87. PMID: 26080835
  • Zhao S, Niu F, Xu CY, Ye L et al. Microarray and ChIP-seq data analysis revealed changes in p53-mediated transcriptional regulation in Nutlin-3-treated U2OS cells. Mol Med Rep 2015 Sep;12(3):4284-4290. PMID: 26080812
  • Eisinger-Mathason TS, Mucaj V, Biju KM, Nakazawa MS et al. Deregulation of the Hippo pathway in soft-tissue sarcoma promotes FOXM1 expression and tumorigenesis. Proc Natl Acad Sci U S A 2015 Jun 30;112(26):E3402-11. PMID: 26080399
  • Chowdhury N, Sapru S et al. Association of Protein Translation and Extracellular Matrix Gene Sets with Breast Cancer Metastasis: Findings Uncovered on Analysis of Multiple Publicly Available Datasets Using Individual Patient Data Approach. PLoS One 2015;10(6):e0129610. PMID: 26080057
  • Miller BW, Morton JP, Pinese M, Saturno G et al. Targeting the LOX/hypoxia axis reverses many of the features that make pancreatic cancer deadly: inhibition of LOX abrogates metastasis and enhances drug efficacy. EMBO Mol Med 2015 Aug;7(8):1063-76. PMID: 26077591
  • Miao Y, Liu D, Li G, Li P et al. Genome-wide transcriptomic analysis of a superior biomass-degrading strain of A. fumigatus revealed active lignocellulose-degrading genes. BMC Genomics 2015 Jun 16;16(1):459. PMID: 26076650
  • Lee D, Gorkin DU, Baker M, Strober BJ et al. A method to predict the impact of regulatory variants from DNA sequence. Nat Genet 2015 Aug;47(8):955-61. PMID: 26075791
  • Zhou M, Luo Y, Sun G, Mai G et al. Constraint programming based biomarker optimization. Biomed Res Int 2015;2015:910515. PMID: 26075274
  • Beach SR, Lei MK, Brody GH, Dogan MV et al. Higher levels of protective parenting are associated with better young adult health: exploration of mediation through epigenetic influences on pro-inflammatory processes. Front Psychol 2015;6:676. PMID: 26074840
  • Lou H, Lu Y, Lu D, Fu R et al. A 3.4-kb Copy-Number Deletion near EPAS1 Is Significantly Enriched in High-Altitude Tibetans but Absent from the Denisovan Sequence. Am J Hum Genet 2015 Jul 2;97(1):54-66. PMID: 26073780
  • Bonci D, Coppola V, Patrizii M, Addario A et al. A microRNA code for prostate cancer metastasis. Oncogene 2016 Mar 3;35(9):1180-92. PMID: 26073083
  • Schissler AG, Gardeux V, Li Q, Achour I et al. Dynamic changes of RNA-sequencing expression for precision medicine: N-of-1-pathways Mahalanobis distance within pathways of single subjects predicts breast cancer survival. Bioinformatics 2015 Jun 15;31(12):i293-302. PMID: 26072495
  • Zickmann F, Renard BY et al. MSProGene: integrative proteogenomics beyond six-frames and single nucleotide polymorphisms. Bioinformatics 2015 Jun 15;31(12):i106-15. PMID: 26072472
  • Goh S, Hohmeier A, Stone TC, Offord V et al. Silencing of Essential Genes within a Highly Coordinated Operon in Escherichia coli. Appl Environ Microbiol 2015 Aug 15;81(16):5650-9. PMID: 26070674
  • Tian HP, Lun SM, Huang HJ, He R et al. DNA Methylation Affects the SP1-regulated Transcription of FOXF2 in Breast Cancer Cells. J Biol Chem 2015 Jul 31;290(31):19173-83. PMID: 26070560
  • Lei I, West J, Yan Z, Gao X et al. BAF250a Protein Regulates Nucleosome Occupancy and Histone Modifications in Priming Embryonic Stem Cell Differentiation. J Biol Chem 2015 Jul 31;290(31):19343-52. PMID: 26070559
  • de Rooij JD, Beuling E, van den Heuvel-Eibrink MM, Obulkasim A et al. Recurrent deletions of IKZF1 in pediatric acute myeloid leukemia. Haematologica 2015 Sep;100(9):1151-9. PMID: 26069293
  • Mudduluru G, Abba M, Batliner J, Patil N et al. A Systematic Approach to Defining the microRNA Landscape in Metastasis. Cancer Res 2015 Aug 1;75(15):3010-9. PMID: 26069251
  • Lin J, Myers AL, Wang Z, Nancarrow DJ et al. Osteopontin (OPN/SPP1) isoforms collectively enhance tumor cell invasion and dissemination in esophageal adenocarcinoma. Oncotarget 2015 Sep 8;6(26):22239-57. PMID: 26068949
  • Tsuchiya M, Giuliani A, Hashimoto M, Erenpreisa J et al. Emergent Self-Organized Criticality in Gene Expression Dynamics: Temporal Development of Global Phase Transition Revealed in a Cancer Cell Line. PLoS One 2015;10(6):e0128565. PMID: 26067993
  • Zuckermann M, Hovestadt V, Knobbe-Thomsen CB, Zapatka M et al. Somatic CRISPR/Cas9-mediated tumour suppressor disruption enables versatile brain tumour modelling. Nat Commun 2015 Jun 11;6:7391. PMID: 26067104
  • Han H, Shim H, Shin D, Shim JE et al. TRRUST: a reference database of human transcriptional regulatory interactions. Sci Rep 2015 Jun 12;5:11432. PMID: 26066708
  • Zhu G, He Y, Yang S, Chen B et al. Identification of Gene and MicroRNA Signatures for Oral Cancer Developed from Oral Leukoplakia. Biomed Res Int 2015;2015:841956. PMID: 26064958
  • Ma J, Chen C, Barth AS, Cheadle C et al. Lysosome and Cytoskeleton Pathways Are Robustly Enriched in the Blood of Septic Patients: A Meta-Analysis of Transcriptomic Data. Mediators Inflamm 2015;2015:984825. PMID: 26063982
  • Ayre DC, Elstner M, Smith NC, Moores ES et al. Dynamic regulation of CD24 expression and release of CD24-containing microvesicles in immature B cells in response to CD24 engagement. Immunology 2015 Oct;146(2):217-33. PMID: 26059947
  • Moey C, Hinze SJ, Brueton L, Morton J et al. Xp11.2 microduplications including IQSEC2, TSPYL2 and KDM5C genes in patients with neurodevelopmental disorders. Eur J Hum Genet 2016 Mar;24(3):373-80. PMID: 26059843
  • Chu LH, Vijay CG, Annex BH, Bader JS et al. PADPIN: protein-protein interaction networks of angiogenesis, arteriogenesis, and inflammation in peripheral arterial disease. Physiol Genomics 2015 Aug;47(8):331-43. PMID: 26058837
  • Matsushita R, Seki N, Chiyomaru T, Inoguchi S et al. Tumour-suppressive microRNA-144-5p directly targets CCNE1/2 as potential prognostic markers in bladder cancer. Br J Cancer 2015 Jul 14;113(2):282-9. PMID: 26057453
  • Hu XP, Yang Y, Ma BG et al. Amino Acid Flux from Metabolic Network Benefits Protein Translation: the Role of Resource Availability. Sci Rep 2015 Jun 9;5:11113. PMID: 26056817
  • Sitthi-Amorn J, Herrington B, Megason G, Pullen J et al. Transcriptome Analysis of Minimal Residual Disease in Subtypes of Pediatric B Cell Acute Lymphoblastic Leukemia. Clin Med Insights Oncol 2015;9:51-60. PMID: 26056509
  • Nadiminty N, Tummala R, Liu C, Lou W et al. NF-κB2/p52:c-Myc:hnRNPA1 Pathway Regulates Expression of Androgen Receptor Splice Variants and Enzalutamide Sensitivity in Prostate Cancer. Mol Cancer Ther 2015 Aug;14(8):1884-95. PMID: 26056150
  • Ebert P, Müller F, Nordström K, Lengauer T et al. A general concept for consistent documentation of computational analyses. Database (Oxford) 2015;2015:bav050. PMID: 26055099
  • Kulis M, Merkel A, Heath S, Queirós AC et al. Whole-genome fingerprint of the DNA methylome during human B cell differentiation. Nat Genet 2015 Jul;47(7):746-56. PMID: 26053498
  • Gutiérrez ML, Corchete L, Teodosio C, Sarasquete ME et al. Identification and characterization of the gene expression profiles for protein coding and non-coding RNAs of pancreatic ductal adenocarcinomas. Oncotarget 2015 Aug 7;6(22):19070-86. PMID: 26053098
  • Shimada Y, Kuninaga S, Ariyoshi M, Zhang B et al. E2F8 promotes hepatic steatosis through FABP3 expression in diet-induced obesity in zebrafish. Nutr Metab (Lond) 2015;12:17. PMID: 26052340
  • Wala SJ, Karamchandani JR, Saleeb R, Evans A et al. An integrated genomic analysis of papillary renal cell carcinoma type 1 uncovers the role of focal adhesion and extracellular matrix pathways. Mol Oncol 2015 Oct;9(8):1667-77. PMID: 26051997
  • Patel VR, Ceglia N, Zeller M, Eckel-Mahan K et al. The pervasiveness and plasticity of circadian oscillations: the coupled circadian-oscillators framework. Bioinformatics 2015 Oct 1;31(19):3181-8. PMID: 26049162
  • Lu H, Chandrasekar B, Oeljeklaus J, Misas-Villamil JC et al. Subfamily-Specific Fluorescent Probes for Cysteine Proteases Display Dynamic Protease Activities during Seed Germination. Plant Physiol 2015 Aug;168(4):1462-75. PMID: 26048883
  • Tang WW, Dietmann S, Irie N, Leitch HG et al. A Unique Gene Regulatory Network Resets the Human Germline Epigenome for Development. Cell 2015 Jun 4;161(6):1453-67. PMID: 26046444
  • Liu Y, Wang P, Li S, Yin L et al. Interaction of key pathways in sorafenib-treated hepatocellular carcinoma based on a PCR-array. Int J Clin Exp Pathol 2015;8(3):3027-35. PMID: 26045814
  • Yang Y, Xi P, Xie Y, Zhao C et al. Notoginsenoside R1 reduces blood pressure in spontaneously hypertensive rats through a long non-coding RNA AK094457. Int J Clin Exp Pathol 2015;8(3):2700-9. PMID: 26045775
  • Hu P, Shangguan J, Zhang L et al. Downregulation of NUF2 inhibits tumor growth and induces apoptosis by regulating lncRNA AF339813. Int J Clin Exp Pathol 2015;8(3):2638-48. PMID: 26045769
  • Wu X, Zhang W, Hu Y, Yi X et al. Bioinformatics approach reveals systematic mechanism underlying lung adenocarcinoma. Tumori 2015 May-Jun;101(3):281-6. PMID: 26045113
  • Hur B, Chae H, Kim S et al. Combined analysis of gene regulatory network and SNV information enhances identification of potential gene markers in mouse knockout studies with small number of samples. BMC Med Genomics 2015;8 Suppl 2(Suppl 2):S10. PMID: 26044212
  • Audfray A, Beldjoudi M, Breiman A, Hurbin A et al. A recombinant fungal lectin for labeling truncated glycans on human cancer cells. PLoS One 2015;10(6):e0128190. PMID: 26042789
  • Chang YH, Chen CM, Chen HY, Yang PC et al. Pathway-based gene signatures predicting clinical outcome of lung adenocarcinoma. Sci Rep 2015 Jun 4;5:10979. PMID: 26042604
  • Wang J, Qi M, Liu J, Zhang Y et al. CARMO: a comprehensive annotation platform for functional exploration of rice multi-omics data. Plant J 2015 Jul;83(2):359-74. PMID: 26040787
  • Weirather JL, Afshar PT, Clark TA, Tseng E et al. Characterization of fusion genes and the significantly expressed fusion isoforms in breast cancer by hybrid sequencing. Nucleic Acids Res 2015 Oct 15;43(18):e116. PMID: 26040699
  • Wang JL, Huang SY, Zhang NZ, Chen J et al. Genome-wide expression patterns of calcium-dependent protein kinases in Toxoplasma gondii. Parasit Vectors 2015 Jun 4;8:304. PMID: 26040276
  • Fan J, Campioli E, Midzak A, Culty M et al. Conditional steroidogenic cell-targeted deletion of TSPO unveils a crucial role in viability and hormone-dependent steroid formation. Proc Natl Acad Sci U S A 2015 Jun 9;112(23):7261-6. PMID: 26039990
  • Thomson TM, Lescarbeau RM, Drubin DA, Laifenfeld D et al. Blood-based identification of non-responders to anti-TNF therapy in rheumatoid arthritis. BMC Med Genomics 2015 Jun 3;8:26. PMID: 26036272
  • Teoh WW, Xie M, Vijayaraghavan A, Yaligar J et al. Molecular characterization of hepatocarcinogenesis using mouse models. Dis Model Mech 2015 Jul 1;8(7):743-53. PMID: 26035378
  • Du J, Zhang L et al. Integrated analysis of DNA methylation and microRNA regulation of the lung adenocarcinoma transcriptome. Oncol Rep 2015 Aug;34(2):585-94. PMID: 26035298
  • Turnbull AK, Arthur LM, Renshaw L, Larionov AA et al. Accurate Prediction and Validation of Response to Endocrine Therapy in Breast Cancer. J Clin Oncol 2015 Jul 10;33(20):2270-8. PMID: 26033813
  • Yu Y, Prassas I, Dimitromanolakis A, Diamandis EP et al. Novel Biological Substrates of Human Kallikrein 7 Identified through Degradomics. J Biol Chem 2015 Jul 17;290(29):17762-17775. PMID: 26032414
  • Cheng C, Varn FS, Marsit CJ et al. E2F4 Program Is Predictive of Progression and Intravesical Immunotherapy Efficacy in Bladder Cancer. Mol Cancer Res 2015 Sep;13(9):1316-24. PMID: 26032289
  • Flöttmann R, Wagner J, Kobus K, Curry CJ et al. Microdeletions on 6p22.3 are associated with mesomelic dysplasia Savarirayan type. J Med Genet 2015 Jul;52(7):476-83. PMID: 26032025
  • Gobbi A, Jurman G et al. A null model for Pearson coexpression networks. PLoS One 2015;10(6):e0128115. PMID: 26030917
  • Chen WT, Ebelt ND, Stracker TH, Xhemalce B et al. ATM regulation of IL-8 links oxidative stress to cancer cell migration and invasion. Elife 2015 Jun 1;4. PMID: 26030852
  • Schultz MD, He Y, Whitaker JW, Hariharan M et al. Human body epigenome maps reveal noncanonical DNA methylation variation. Nature 2015 Jul 9;523(7559):212-6. PMID: 26030523
  • Lee EJ, Luo W, Chan EW, Yousaf MN et al. A molecular smart surface for spatio-temporal studies of cell mobility. PLoS One 2015;10(6):e0118126. PMID: 26030281
  • Vizoso M, Ferreira HJ, Lopez-Serra P, Carmona FJ et al. Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR. Nat Med 2015 Jul;21(7):741-50. PMID: 26030178
  • Xing YH, Zhang JL, Lu L, Li DG et al. Identification of specific gene modules in mouse lung tissue exposed to cigarette smoke. Asian Pac J Cancer Prev 2015;16(10):4251-6. PMID: 26028081
  • Hench J, Henriksson J, Abou-Zied AM, Lüppert M et al. The Homeobox Genes of Caenorhabditis elegans and Insights into Their Spatio-Temporal Expression Dynamics during Embryogenesis. PLoS One 2015;10(5):e0126947. PMID: 26024448
  • Kok MG, Halliani A, Moerland PD, Meijers JC et al. Normalization panels for the reliable quantification of circulating microRNAs by RT-qPCR. FASEB J 2015 Sep;29(9):3853-62. PMID: 26023181
  • Liu CH, Finke A, Díaz M, Rozhon W et al. Repair of DNA Damage Induced by the Cytidine Analog Zebularine Requires ATR and ATM in Arabidopsis. Plant Cell 2015 Jun;27(6):1788-800. PMID: 26023162
  • El-Kebir M, Soueidan H, Hume T, Beisser D et al. xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model. Bioinformatics 2015 Oct 1;31(19):3147-55. PMID: 26023104
  • Wang H, Cai H, Ao L, Yan H et al. Individualized identification of disease-associated pathways with disrupted coordination of gene expression. Brief Bioinform 2016 Jan;17(1):78-87. PMID: 26023086
  • Muhie S, Hammamieh R, Cummings C, Yang D et al. Stress-caused anergy of leukocytes towards Staphylococcal enterotoxin B and exposure transcriptome signatures. Genes Immun 2015 Jul-Aug;16(5):330-46. PMID: 26020283
  • Amend SR, Wilson WC, Chu L, Lu L et al. Whole Genome Sequence of Multiple Myeloma-Prone C57BL/KaLwRij Mouse Strain Suggests the Origin of Disease Involves Multiple Cell Types. PLoS One 2015;10(5):e0127828. PMID: 26020268
  • Zhang J, Suh Y, Choi YM, Chen PR et al. Differential Expression of Cell Cycle Regulators During Hyperplastic and Hypertrophic Growth of Broiler Subcutaneous Adipose Tissue. Lipids 2015 Oct;50(10):965-76. PMID: 26017028
  • Ma X, Tang Z, Qin J, Meng Y et al. The use of high-throughput sequencing methods for plant microRNA research. RNA Biol 2015;12(7):709-19. PMID: 26016494
  • Welch JD, Slevin MK, Tatomer DC, Duronio RJ et al. EnD-Seq and AppEnD: sequencing 3' ends to identify nontemplated tails and degradation intermediates. RNA 2015 Jul;21(7):1375-89. PMID: 26015596
  • Kim KY, Lee G, Yoon M, Cho EH et al. Expression Analyses Revealed Thymic Stromal Co-Transporter/Slc46A2 Is in Stem Cell Populations and Is a Putative Tumor Suppressor. Mol Cells 2015 Jun;38(6):548-61. PMID: 26013383
  • Shen W, Wang D, Ye B, Shi M et al. A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle. Biol Res 2015 May 27;48(1):27. PMID: 26013116
  • Hogan J, Dejulius K, Liu X, Coffey JC et al. Transcriptomic profiles differentiate normal rectal epithelium and adenocarcinoma. Int Surg 2015 May;100(5):818-26. PMID: 26011201
  • Ruzo A, Ismailoglu I, Popowski M, Haremaki T et al. Discovery of novel isoforms of huntingtin reveals a new hominid-specific exon. PLoS One 2015;10(5):e0127687. PMID: 26010866
  • Depeille P, Henricks LM, van de Ven RA, Lemmens E et al. RasGRP1 opposes proliferative EGFR-SOS1-Ras signals and restricts intestinal epithelial cell growth. Nat Cell Biol 2015 Jun;17(6):804-15. PMID: 26005835
  • Micale G, Ferro A, Pulvirenti A, Giugno R et al. SPECTRA: An Integrated Knowledge Base for Comparing Tissue and Tumor-Specific PPI Networks in Human. Front Bioeng Biotechnol 2015;3:58. PMID: 26005672
  • Willis S, De P, Dey N, Long B et al. Enriched transcription factor signatures in triple negative breast cancer indicates possible targeted therapies with existing drugs. Meta Gene 2015 Jun;4:129-41. PMID: 26005638
  • Bauer C, Stec K, Glintschert A, Gruden K et al. BioMiner: Paving the Way for Personalized Medicine. Cancer Inform 2015;14:55-63. PMID: 26005322
  • Humphries C, Kohli MA, Whitehead P, Mash DC et al. Alzheimer disease (AD) specific transcription, DNA methylation and splicing in twenty AD associated loci. Mol Cell Neurosci 2015 Jul;67:37-45. PMID: 26004081
  • Zhang C, Liu C, Cao S, Xu Y et al. Elucidation of drivers of high-level production of lactates throughout a cancer development. J Mol Cell Biol 2015 Jun;7(3):267-79. PMID: 26003569
  • Andreatta ME, Levine JA, Foy SG, Guzman LD et al. The Recent De Novo Origin of Protein C-Termini. Genome Biol Evol 2015 May 21;7(6):1686-701. PMID: 26002864
  • Holtman IR, Raj DD, Miller JA, Schaafsma W et al. Induction of a common microglia gene expression signature by aging and neurodegenerative conditions: a co-expression meta-analysis. Acta Neuropathol Commun 2015 May 23;3:31. PMID: 26001565
  • Yin PQ, Sun YY, Chen HP, Li GZ et al. Genome-wide gene expression analysis of peripheral leukocytes in relation to the male predominance of Guillain-Barre syndrome: differential gene expression between male and female patients. Int J Neurosci 2016 Jun;126(6):531-541. PMID: 26000914
  • Scicluna BP, van Lieshout MH, Blok DC, Florquin S et al. Modular Transcriptional Networks of the Host Pulmonary Response during Early and Late Pneumococcal Pneumonia. Mol Med 2015 May 12;21(1):430-41. PMID: 25998510
  • He K, Lv W, Zhang Q, Wang Y et al. Gene set enrichment analysis of pathways and transcription factors associated with diabetic retinopathy using a microarray dataset. Int J Mol Med 2015 Jul;36(1):103-12. PMID: 25997411
  • Schemionek M, Kharabi Masouleh B, Klaile Y, Krug U et al. Identification of the Adapter Molecule MTSS1 as a Potential Oncogene-Specific Tumor Suppressor in Acute Myeloid Leukemia. PLoS One 2015;10(5):e0125783. PMID: 25996952
  • Dorn GW 2ndGreat Expectations: MicroRNA-30d and Cardiac Resynchronization Therapy. Circulation 2015 Jun 23;131(25):2172-5. PMID: 25995319
  • Yao L, Shen H, Laird PW, Farnham PJ et al. Inferring regulatory element landscapes and transcription factor networks from cancer methylomes. Genome Biol 2015 May 21;16(1):105. PMID: 25994056
  • Hallett RM, Cockburn JG, Li B, Dvorkin-Gheva A et al. Identification and evaluation of network modules for the prognosis of basal-like breast cancer. Oncotarget 2015 Jul 10;6(19):17713-24. PMID: 25991675
  • Liu S, Li JH, Wu J, Zhou KR et al. StarScan: a web server for scanning small RNA targets from degradome sequencing data. Nucleic Acids Res 2015 Jul 1;43(W1):W480-6. PMID: 25990732
  • Rockowitz S, Zheng D et al. Significant expansion of the REST/NRSF cistrome in human versus mouse embryonic stem cells: potential implications for neural development. Nucleic Acids Res 2015 Jul 13;43(12):5730-43. PMID: 25990720
  • Meißner T, Fisch KM, Gioia L, Su AI et al. OncoRep: an n-of-1 reporting tool to support genome-guided treatment for breast cancer patients using RNA-sequencing. BMC Med Genomics 2015 May 21;8:24. PMID: 25989980
  • Wang P, Yang Y, Han W, Ma D et al. ImmuSort, a database on gene plasticity and electronic sorting for immune cells. Sci Rep 2015 May 19;5:10370. PMID: 25988315
  • Zollinger A, Davison AC, Goldstein DR et al. Meta-analysis of incomplete microarray studies. Biostatistics 2015 Oct;16(4):686-700. PMID: 25987649
  • Kang G, Yun H, Sun CH, Park I et al. Integrated genomic analyses identify frequent gene fusion events and VHL inactivation in gastrointestinal stromal tumors. Oncotarget 2016 Feb 9;7(6):6538-51. PMID: 25987131
  • Thomson JP, Fawkes A, Ottaviano R, Hunter JM et al. DNA immunoprecipitation semiconductor sequencing (DIP-SC-seq) as a rapid method to generate genome wide epigenetic signatures. Sci Rep 2015 May 14;5:9778. PMID: 25985418
  • Dong X, Yambartsev A, Ramsey SA, Thomas LD et al. Reverse enGENEering of Regulatory Networks from Big Data: A Roadmap for Biologists. Bioinform Biol Insights 2015;9:61-74. PMID: 25983554
  • Yang TL, Guo Y, Zhang JG, Xu C et al. Genome-wide Survey of Runs of Homozygosity Identifies Recessive Loci for Bone Mineral Density in Caucasian and Chinese Populations. J Bone Miner Res 2015 Nov;30(11):2119-26. PMID: 25983029
  • Su YH, Tang WC, Cheng YW, Sia P et al. Targeting of multiple oncogenic signaling pathways by Hsp90 inhibitor alone or in combination with berberine for treatment of colorectal cancer. Biochim Biophys Acta 2015 Oct;1853(10 Pt A):2261-72. PMID: 25982393
  • Maccani JZ, Koestler DC, Houseman EA, Armstrong DA et al. DNA methylation changes in the placenta are associated with fetal manganese exposure. Reprod Toxicol 2015 Nov;57:43-9. PMID: 25982381
  • Luk AC, Gao H, Xiao S, Liao J et al. GermlncRNA: a unique catalogue of long non-coding RNAs and associated regulations in male germ cell development. Database (Oxford) 2015;2015:bav044. PMID: 25982314
  • Samanta S, Sun H, Goel HL, Pursell B et al. IMP3 promotes stem-like properties in triple-negative breast cancer by regulating SLUG. Oncogene 2016 Mar 3;35(9):1111-21. PMID: 25982283
  • Han Y, Zheng G, Yang T, Zhang S et al. Adaptation of peroxisome proliferator-activated receptor alpha to hibernation in bats. BMC Evol Biol 2015 May 17;15:88. PMID: 25980933
  • Vouri M, An Q, Birt M, Pilkington GJ et al. Small molecule inhibition of Axl receptor tyrosine kinase potently suppresses multiple malignant properties of glioma cells. Oncotarget 2015 Jun 30;6(18):16183-97. PMID: 25980499
  • Qiu X, Zhu J, Sun Y, Fan K et al. TR4 nuclear receptor increases prostate cancer invasion via decreasing the miR-373-3p expression to alter TGFβR2/p-Smad3 signals. Oncotarget 2015 Jun 20;6(17):15397-409. PMID: 25980442
  • Junker F, Chabloz A, Koch U, Radtke F et al. Dicer1 imparts essential survival cues in Notch-driven T-ALL via miR-21-mediated tumor suppressor Pdcd4 repression. Blood 2015 Aug 20;126(8):993-1004. PMID: 25979949
  • Gendoo DM, Smirnov P, Lupien M, Haibe-Kains B et al. Personalized diagnosis of medulloblastoma subtypes across patients and model systems. Genomics 2015 Aug;106(2):96-106. PMID: 25979459
  • Wu Y, Zhang JF, Xu T, Xu L et al. Identification of therapeutic targets for childhood severe asthmatics with DNA microarray. Allergol Immunopathol (Madr) 2016 Jan-Feb;44(1):76-82. PMID: 25979195
  • Ascolani G, Occhipinti A, Liò P et al. Modelling circulating tumour cells for personalised survival prediction in metastatic breast cancer. PLoS Comput Biol 2015 May;11(5):e1004199. PMID: 25978366
  • Mohn F, Handler D, Brennecke J et al. Noncoding RNA. piRNA-guided slicing specifies transcripts for Zucchini-dependent, phased piRNA biogenesis. Science 2015 May 15;348(6236):812-817. PMID: 25977553
  • Jung M, Jin SG, Zhang X, Xiong W et al. Longitudinal epigenetic and gene expression profiles analyzed by three-component analysis reveal down-regulation of genes involved in protein translation in human aging. Nucleic Acids Res 2015 Sep 3;43(15):e100. PMID: 25977295
  • Nagashima H, Iwatani S, Cruz M, Jiménez Abreu JA et al. Toll-like Receptor 10 in Helicobacter pylori Infection. J Infect Dis 2015 Nov 15;212(10):1666-76. PMID: 25977263
  • Lee YS, Hwang SG, Kim JK, Park TH et al. Topological network analysis of differentially expressed genes in cancer cells with acquired gefitinib resistance. Cancer Genomics Proteomics 2015 May-Jun;12(3):153-66. PMID: 25977174
  • Li S, Ovcharenko I et al. Human Enhancers Are Fragile and Prone to Deactivating Mutations. Mol Biol Evol 2015 Aug;32(8):2161-80. PMID: 25976354
  • Wang X, Ning Y, Guo X et al. Integrative meta-analysis of differentially expressed genes in osteoarthritis using microarray technology. Mol Med Rep 2015 Sep;12(3):3439-3445. PMID: 25975828
  • Chen J, Yang R, Zhang W, Wang Y et al. Candidate pathways and genes for nasopharyngeal carcinoma based on bioinformatics study. Int J Clin Exp Pathol 2015;8(2):2026-32. PMID: 25973099
  • Chien CH, Chiang-Hsieh YF, Chen YA, Chow CN et al. AtmiRNET: a web-based resource for reconstructing regulatory networks of Arabidopsis microRNAs. Database (Oxford) 2015;2015:bav042. PMID: 25972521
  • Sweeney TE, Shidham A, Wong HR, Khatri P et al. A comprehensive time-course-based multicohort analysis of sepsis and sterile inflammation reveals a robust diagnostic gene set. Sci Transl Med 2015 May 13;7(287):287ra71. PMID: 25972003
  • Gundersen GW, Jones MR, Rouillard AD, Kou Y et al. GEO2Enrichr: browser extension and server app to extract gene sets from GEO and analyze them for biological functions. Bioinformatics 2015 Sep 15;31(18):3060-2. PMID: 25971742
  • Madhavan S, Gusev Y, Singh S, Riggins RB et al. ERRγ target genes are poor prognostic factors in Tamoxifen-treated breast cancer. J Exp Clin Cancer Res 2015 May 15;34(1):45. PMID: 25971350
  • Zhou Y, Zhang X, Gu C, Xia J et al. Diabetes mellitus is associated with breast cancer: systematic review, meta-analysis, and in silico reproduction. Panminerva Med 2015 Sep;57(3):101-8. PMID: 25971328
  • Staal JA, Lau LS, Zhang H, Ingram WJ et al. Proteomic profiling of high risk medulloblastoma reveals functional biology. Oncotarget 2015 Jun 10;6(16):14584-95. PMID: 25970789
  • Sibley CR, Emmett W, Blazquez L, Faro A et al. Recursive splicing in long vertebrate genes. Nature 2015 May 21;521(7552):371-375. PMID: 25970246
  • Wong AK, Krishnan A, Yao V, Tadych A et al. IMP 2.0: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks. Nucleic Acids Res 2015 Jul 1;43(W1):W128-33. PMID: 25969450
  • Larne O, Hagman Z, Lilja H, Bjartell A et al. miR-145 suppress the androgen receptor in prostate cancer cells and correlates to prostate cancer prognosis. Carcinogenesis 2015 Aug;36(8):858-66. PMID: 25969144
  • Horvath SErratum to: DNA methylation age of human tissues and cell types. Genome Biol 2015 May 13;16(1):96. PMID: 25968125
  • Tantai JC, Pan XF, Zhao H et al. Network analysis of differentially expressed genes reveals key genes in small cell lung cancer. Eur Rev Med Pharmacol Sci 2015 Apr;19(8):1364-72. PMID: 25967710
  • Han CY, Lim SW, Koo JH, Kim W et al. PHLDA3 overexpression in hepatocytes by endoplasmic reticulum stress via IRE1-Xbp1s pathway expedites liver injury. Gut 2016 Aug;65(8):1377-88. PMID: 25966993
  • Huang MD, Chen WM, Qi FZ, Xia R et al. Long non-coding RNA ANRIL is upregulated in hepatocellular carcinoma and regulates cell apoptosis by epigenetic silencing of KLF2. J Hematol Oncol 2015 May 14;8:50. PMID: 25966845
  • Ge K, Wu JJ, Qian L, Wu MJ et al. Bioinformatic analysis of the effect of type II diabetes on skin wound healing. Genet Mol Res 2015 May 11;14(2):4802-11. PMID: 25966254
  • Yu D, Zhang G, Huang X, Wu C et al. Relatively Small Contribution of Methylation and Genomic Copy Number Aberration to the Aberrant Expression of Inflammation-Related Genes in HBV-Related Hepatocellular Carcinoma. PLoS One 2015;10(5):e0126836. PMID: 25965583
  • Schildknecht K, Olek S, Dickhaus T et al. Simultaneous statistical inference for epigenetic data. PLoS One 2015;10(5):e0125587. PMID: 25965389
  • Okrah K, Corrada Bravo H et al. Shape analysis of high-throughput transcriptomics experiment data. Biostatistics 2015 Oct;16(4):627-40. PMID: 25964664
  • Walter W, Sánchez-Cabo F, Ricote M et al. GOplot: an R package for visually combining expression data with functional analysis. Bioinformatics 2015 Sep 1;31(17):2912-4. PMID: 25964631
  • Cabanski M, Fields B, Boue S, Boukharov N et al. Transcriptional profiling and targeted proteomics reveals common molecular changes associated with cigarette smoke-induced lung emphysema development in five susceptible mouse strains. Inflamm Res 2015 Jul;64(7):471-86. PMID: 25962837
  • Olcina MM, Leszczynska KB, Senra JM, Isa NF et al. H3K9me3 facilitates hypoxia-induced p53-dependent apoptosis through repression of APAK. Oncogene 2016 Feb 11;35(6):793-9. PMID: 25961932
  • Sinha SReproducibility of parameter learning with missing observations in naive Wnt Bayesian network trained on colorectal cancer samples and doxycycline-treated cell lines. Mol Biosyst 2015 Jul;11(7):1802-19. PMID: 25961654
  • Fisher JN, Terao M, Fratelli M, Kurosaki M et al. MicroRNA networks regulated by all-trans retinoic acid and Lapatinib control the growth, survival and motility of breast cancer cells. Oncotarget 2015 May 30;6(15):13176-200. PMID: 25961594
  • Leszczynska KB, Foskolou IP, Abraham AG, Anbalagan S et al. Hypoxia-induced p53 modulates both apoptosis and radiosensitivity via AKT. J Clin Invest 2015 Jun;125(6):2385-98. PMID: 25961455
  • Iturbide A, Pascual-Reguant L, Fargas L, Cebrià JP et al. LOXL2 Oxidizes Methylated TAF10 and Controls TFIID-Dependent Genes during Neural Progenitor Differentiation. Mol Cell 2015 Jun 4;58(5):755-66. PMID: 25959397
  • Lauria M, Moyseos P, Priami C et al. SCUDO: a tool for signature-based clustering of expression profiles. Nucleic Acids Res 2015 Jul 1;43(W1):W188-92. PMID: 25958391
  • Angelini C, Heller R, Volkinshtein R, Yekutieli D et al. Is this the right normalization? A diagnostic tool for ChIP-seq normalization. BMC Bioinformatics 2015 May 9;16:150. PMID: 25957089
  • Wang H, Yu Y, Chen C, Wang Q et al. Involvement of enhancer of zeste homolog 2 in cisplatin-resistance in ovarian cancer cells by interacting with several genes. Mol Med Rep 2015 Aug;12(2):2503-10. PMID: 25955318
  • Yamamoto N, Nishikawa R, Chiyomaru T, Goto Y et al. The tumor-suppressive microRNA-1/133a cluster targets PDE7A and inhibits cancer cell migration and invasion in endometrial cancer. Int J Oncol 2015 Jul;47(1):325-34. PMID: 25955017
  • Wang J, Zhang Y, Wan H, Dong N et al. Global analyses of subtype- or stage-specific genes on chromosome 7 in patients with lung cancer. Cancer Metastasis Rev 2015 Jun;34(2):333-45. PMID: 25951983
  • Rizwan A, Bulte C, Kalaichelvan A, Cheng M et al. Metastatic breast cancer cells in lymph nodes increase nodal collagen density. Sci Rep 2015 May 7;5:10002. PMID: 25950608
  • Gebert D, Ketting RF, Zischler H, Rosenkranz D et al. piRNAs from Pig Testis Provide Evidence for a Conserved Role of the Piwi Pathway in Post-Transcriptional Gene Regulation in Mammals. PLoS One 2015;10(5):e0124860. PMID: 25950437
  • Fu W, Cheng Y, Zhang Y, Mo X et al. The Secreted Form of Transmembrane Protein 98 Promotes the Differentiation of T Helper 1 Cells. J Interferon Cytokine Res 2015 Sep;35(9):720-33. PMID: 25946230
  • Zhang J, Ahn J, Suh Y, Hwang S et al. Identification of CTLA2A, DEFB29, WFDC15B, SERPINA1F and MUP19 as Novel Tissue-Specific Secretory Factors in Mouse. PLoS One 2015;10(5):e0124962. PMID: 25946105
  • Naval-Sánchez M, Potier D, Hulselmans G, Christiaens V et al. Identification of Lineage-Specific Cis-Regulatory Modules Associated with Variation in Transcription Factor Binding and Chromatin Activity Using Ornstein-Uhlenbeck Models. Mol Biol Evol 2015 Sep;32(9):2441-55. PMID: 25944915
  • Shin J, Yang S, Kim E, Kim CY et al. FlyNet: a versatile network prioritization server for the Drosophila community. Nucleic Acids Res 2015 Jul 1;43(W1):W91-7. PMID: 25943544
  • Morikawa Y, Zhang M, Heallen T, Leach J et al. Actin cytoskeletal remodeling with protrusion formation is essential for heart regeneration in Hippo-deficient mice. Sci Signal 2015 May 5;8(375):ra41. PMID: 25943351
  • Sano N, Ono H, Murata K, Yamada T et al. Accumulation of long-lived mRNAs associated with germination in embryos during seed development of rice. J Exp Bot 2015 Jul;66(13):4035-46. PMID: 25941326
  • Laenen G, Ardeshirdavani A, Moreau Y, Thorrez L et al. Galahad: a web server for drug effect analysis from gene expression. Nucleic Acids Res 2015 Jul 1;43(W1):W208-12. PMID: 25940630
  • Setoain J, Franch M, Martínez M, Tabas-Madrid D et al. NFFinder: an online bioinformatics tool for searching similar transcriptomics experiments in the context of drug repositioning. Nucleic Acids Res 2015 Jul 1;43(W1):W193-9. PMID: 25940629
  • Tan LY, Whitfield P, Llorian M, Monzon-Casanova E et al. Generation of functionally distinct isoforms of PTBP3 by alternative splicing and translation initiation. Nucleic Acids Res 2015 Jun 23;43(11):5586-600. PMID: 25940628
  • Yang Y, Duan JZ, Di Y, Gui DM et al. Bioinformatics analysis of potential essential genes that response to the high intraocular pressure on astrocyte due to glaucoma. Int J Ophthalmol 2015;8(2):395-8. PMID: 25938062
  • Shi K, Bing ZT, Cao GQ, Guo L et al. Identify the signature genes for diagnose of uveal melanoma by weight gene co-expression network analysis. Int J Ophthalmol 2015;8(2):269-74. PMID: 25938039
  • Taminau J, Lazar C, Meganck S, Nowé A et al. Comparison of merging and meta-analysis as alternative approaches for integrative gene expression analysis. ISRN Bioinform 2014;2014:345106. PMID: 25937953
  • Zhang Y, Wang H, Wang J, Bao L et al. Global analysis of chromosome 1 genes among patients with lung adenocarcinoma, squamous carcinoma, large-cell carcinoma, small-cell carcinoma, or non-cancer. Cancer Metastasis Rev 2015 Jun;34(2):249-64. PMID: 25937073
  • Ding J, Huang X, Shao N, Zhou H et al. Tex10 Coordinates Epigenetic Control of Super-Enhancer Activity in Pluripotency and Reprogramming. Cell Stem Cell 2015 Jun 4;16(6):653-68. PMID: 25936917
  • Guan GF, Zheng Y, Wen LJ, Zhang DJ et al. Gene expression profiling via bioinformatics analysis reveals biomarkers in laryngeal squamous cell carcinoma. Mol Med Rep 2015 Aug;12(2):2457-64. PMID: 25936657
  • Li X, Li D, Pang X, Yang G et al. Quantitative analysis of glycans, related genes, and proteins in two human bone marrow stromal cell lines using an integrated strategy. Exp Hematol 2015 Sep;43(9):760-9.e7. PMID: 25936519
  • Mukund K, Subramaniam S et al. Dysregulated mechanisms underlying Duchenne muscular dystrophy from co-expression network preservation analysis. BMC Res Notes 2015 May 3;8:182. PMID: 25935398
  • Ning K, Gettler K, Zhang W, Ng SM et al. Improved integrative framework combining association data with gene expression features to prioritize Crohn's disease genes. Hum Mol Genet 2015 Jul 15;24(14):4147-57. PMID: 25935003
  • Adhikary T, Wortmann A, Schumann T, Finkernagel F et al. The transcriptional PPARβ/δ network in human macrophages defines a unique agonist-induced activation state. Nucleic Acids Res 2015 May 26;43(10):5033-51. PMID: 25934804
  • Reizel Y, Spiro A, Sabag O, Skversky Y et al. Gender-specific postnatal demethylation and establishment of epigenetic memory. Genes Dev 2015 May 1;29(9):923-33. PMID: 25934504
  • Lv J, Zhu B, Zhang L, Xie Q et al. Detection and screening of small molecule agents for overcoming Sorafenib resistance of hepatocellular carcinoma: a bioinformatics study. Int J Clin Exp Med 2015;8(2):2317-25. PMID: 25932168
  • Khosravi P, Gazestani VH, Akbarzadeh M, Mirkhalaf S et al. Comparative Analysis of Prostate Cancer Gene Regulatory Networks via Hub Type Variation. Avicenna J Med Biotechnol 2015 Jan-Mar;7(1):8-15. PMID: 25926947
  • Sechler M, Borowicz S, Van Scoyk M, Avasarala S et al. Novel Role for γ-Catenin in the Regulation of Cancer Cell Migration via the Induction of Hepatocyte Growth Factor Activator Inhibitor Type 1 (HAI-1). J Biol Chem 2015 Jun 19;290(25):15610-15620. PMID: 25925948
  • Swan AL, Stekel DJ, Hodgman C, Allaway D et al. A machine learning heuristic to identify biologically relevant and minimal biomarker panels from omics data. BMC Genomics 2015;16 Suppl 1(Suppl 1):S2. PMID: 25923811
  • Franzini A, Baty F, Macovei II, Dürr O et al. Gene Expression Signatures Predictive of Bevacizumab/Erlotinib Therapeutic Benefit in Advanced Nonsquamous Non-Small Cell Lung Cancer Patients (SAKK 19/05 trial). Clin Cancer Res 2015 Dec 1;21(23):5253-63. PMID: 25922429
  • Cheng P, Phillips E, Kim SH, Taylor D et al. Kinome-wide shRNA screen identifies the receptor tyrosine kinase AXL as a key regulator for mesenchymal glioblastoma stem-like cells. Stem Cell Reports 2015 May 12;4(5):899-913. PMID: 25921812
  • Cotton TB, Nguyen HH, Said JI, Ouyang Z et al. Discerning mechanistically rewired biological pathways by cumulative interaction heterogeneity statistics. Sci Rep 2015 Apr 28;5:9634. PMID: 25921728
  • Zhang W, Zeng T, Liu X, Chen L et al. Diagnosing phenotypes of single-sample individuals by edge biomarkers. J Mol Cell Biol 2015 Jun;7(3):231-41. PMID: 25917597
  • Huang DH, Wang GY, Zhang JW, Li Y et al. MiR-501-5p regulates CYLD expression and promotes cell proliferation in human hepatocellular carcinoma. Jpn J Clin Oncol 2015 Aug;45(8):738-44. PMID: 25917358
  • Cui X, Meng J, Rao MK, Chen Y et al. HEPeak: an HMM-based exome peak-finding package for RNA epigenome sequencing data. BMC Genomics 2015;16 Suppl 4(Suppl 4):S2. PMID: 25917296
  • Greene CS, Krishnan A, Wong AK, Ricciotti E et al. Understanding multicellular function and disease with human tissue-specific networks. Nat Genet 2015 Jun;47(6):569-76. PMID: 25915600
  • Salm F, Dimitrova V, von Bueren AO, Ćwiek P et al. The Phosphoinositide 3-Kinase p110α Isoform Regulates Leukemia Inhibitory Factor Receptor Expression via c-Myc and miR-125b to Promote Cell Proliferation in Medulloblastoma. PLoS One 2015;10(4):e0123958. PMID: 25915540
  • Peng H, Ma J, Bai Y, Lu J et al. MeDiA: Mean Distance Association and Its Applications in Nonlinear Gene Set Analysis. PLoS One 2015;10(4):e0124620. PMID: 25915206
  • Lee HK, Ji S, Park SJ, Choung HW et al. Odontogenic Ameloblast-associated Protein (ODAM) Mediates Junctional Epithelium Attachment to Teeth via Integrin-ODAM-Rho Guanine Nucleotide Exchange Factor 5 (ARHGEF5)-RhoA Signaling. J Biol Chem 2015 Jun 5;290(23):14740-53. PMID: 25911094
  • Overmars L, van Hijum SA, Siezen RJ, Francke C et al. CiVi: circular genome visualization with unique features to analyze sequence elements. Bioinformatics 2015 Sep 1;31(17):2867-9. PMID: 25910699
  • Sudhir PR, Lin ST, Chia-Wen C, Yang SH et al. Loss of PTPRM associates with the pathogenic development of colorectal adenoma-carcinoma sequence. Sci Rep 2015 Apr 24;5:9633. PMID: 25910225
  • Crespo A, Pedraz L, Torrents E et al. Function of the Pseudomonas aeruginosa NrdR Transcription Factor: Global Transcriptomic Analysis and Its Role on Ribonucleotide Reductase Gene Expression. PLoS One 2015;10(4):e0123571. PMID: 25909779
  • Tian FX, Zang JL, Wang T, Xie YL et al. Aldehyde Dehydrogenase Gene Superfamily in Populus: Organization and Expression Divergence between Paralogous Gene Pairs. PLoS One 2015;10(4):e0124669. PMID: 25909656
  • Lourdusamy A, Rahman R, Grundy RG et al. Expression alterations define unique molecular characteristics of spinal ependymomas. Oncotarget 2015 Aug 14;6(23):19780-91. PMID: 25909290
  • Chan SC, Selth LA, Li Y, Nyquist MD et al. Targeting chromatin binding regulation of constitutively active AR variants to overcome prostate cancer resistance to endocrine-based therapies. Nucleic Acids Res 2015 Jul 13;43(12):5880-97. PMID: 25908785
  • Gout JF, Lynch M et al. Maintenance and Loss of Duplicated Genes by Dosage Subfunctionalization. Mol Biol Evol 2015 Aug;32(8):2141-8. PMID: 25908670
  • Cai Y, Dai X, Zhang Q, Dai Z et al. Gene expression of OCT4, SOX2, KLF4 and MYC (OSKM) induced pluripotent stem cells: identification for potential mechanisms. Diagn Pathol 2015 Apr 24;10:35. PMID: 25907774
  • Sowalsky AG, Sager R, Schaefer RJ, Bratslavsky G et al. Loss of Wave1 gene defines a subtype of lethal prostate cancer. Oncotarget 2015 May 20;6(14):12383-91. PMID: 25906751
  • Diehn TA, Pommerrenig B, Bernhardt N, Hartmann A et al. Genome-wide identification of aquaporin encoding genes in Brassica oleracea and their phylogenetic sequence comparison to Brassica crops and Arabidopsis. Front Plant Sci 2015;6:166. PMID: 25904922
  • Speers C, Zhao S, Liu M, Bartelink H et al. Development and Validation of a Novel Radiosensitivity Signature in Human Breast Cancer. Clin Cancer Res 2015 Aug 15;21(16):3667-77. PMID: 25904749
  • Gijs HL, Willemarck N, Vanderhoydonc F, Khan NA et al. Primary cilium suppression by SREBP1c involves distortion of vesicular trafficking by PLA2G3. Mol Biol Cell 2015 Jun 15;26(12):2321-32. PMID: 25904332
  • Yin X, Low HQ, Wang L, Li Y et al. Genome-wide meta-analysis identifies multiple novel associations and ethnic heterogeneity of psoriasis susceptibility. Nat Commun 2015 Apr 23;6:6916. PMID: 25903422
  • Liu S, Tetzlaff MT, Wang T, Yang R et al. miR-200c/Bmi1 axis and epithelial-mesenchymal transition contribute to acquired resistance to BRAF inhibitor treatment. Pigment Cell Melanoma Res 2015 Jul;28(4):431-41. PMID: 25903073
  • Bacolla A, Zhu X, Chen H, Howells K et al. Local DNA dynamics shape mutational patterns of mononucleotide repeats in human genomes. Nucleic Acids Res 2015 May 26;43(10):5065-80. PMID: 25897114
  • Wiese KE, Haikala HM, von Eyss B, Wolf E et al. Repression of SRF target genes is critical for Myc-dependent apoptosis of epithelial cells. EMBO J 2015 Jun 3;34(11):1554-71. PMID: 25896507
  • Kim S, Lahmy R, Riha C, Yang C et al. The basic helix-loop-helix transcription factor E47 reprograms human pancreatic cancer cells to a quiescent acinar state with reduced tumorigenic potential. Pancreas 2015 Jul;44(5):718-27. PMID: 25894862
  • Rettino A, Clarke NM et al. Genome-wide Identification of IRF1 Binding Sites Reveals Extensive Occupancy at Cell Death Associated Genes. J Carcinog Mutagen 2013;(Spec Iss Apoptosis). PMID: 25893139
  • Skrypek N, Vasseur R, Vincent A, Duchêne B et al. The oncogenic receptor ErbB2 modulates gemcitabine and irinotecan/SN-38 chemoresistance of human pancreatic cancer cells via hCNT1 transporter and multidrug-resistance associated protein MRP-2. Oncotarget 2015 May 10;6(13):10853-67. PMID: 25890497
  • Yaqubi M, Mohammadnia A, Fallahi H et al. Predicting involvement of polycomb repressive complex 2 in direct conversion of mouse fibroblasts into induced neural stem cells. Stem Cell Res Ther 2015 Mar 21;6(1):42. PMID: 25890371
  • Li J, Chen H, Ren J, Song J et al. Effects of statin on circulating microRNAome and predicted function regulatory network in patients with unstable angina. BMC Med Genomics 2015 Mar 13;8:12. PMID: 25889164
  • Wang LY, Lee WC et al. One-step extrapolation of the prediction performance of a gene signature derived from a small study. BMJ Open 2015 Apr 17;5(4):e007170. PMID: 25888476
  • Iwanaszko M, Kimmel M et al. NF-κB and IRF pathways: cross-regulation on target genes promoter level. BMC Genomics 2015 Apr 17;16(1):307. PMID: 25888367
  • Kim BY, Choi DW, Woo SR, Park ER et al. Recurrence-associated pathways in hepatitis B virus-positive hepatocellular carcinoma. BMC Genomics 2015 Apr 10;16(1):279. PMID: 25888140
  • Wickramasuriya AM, Dunwell JM et al. Global scale transcriptome analysis of Arabidopsis embryogenesis in vitro. BMC Genomics 2015 Apr 16;16(1):301. PMID: 25887996
  • Tulpan D, Leger S, Tchagang A, Pan Y et al. Enrichment of Triticum aestivum gene annotations using ortholog cliques and gene ontologies in other plants. BMC Genomics 2015 Apr 15;16(1):299. PMID: 25887590
  • Tsuyuzaki K, Morota G, Ishii M, Nakazato T et al. MeSH ORA framework: R/Bioconductor packages to support MeSH over-representation analysis. BMC Bioinformatics 2015 Feb 15;16:45. PMID: 25887539
  • Zhang J, Liu B, Li J, Zhang L et al. Hsf and Hsp gene families in Populus: genome-wide identification, organization and correlated expression during development and in stress responses. BMC Genomics 2015 Mar 14;16(1):181. PMID: 25887520
  • Espinal-Enríquez J, Muñoz-Montero S, Imaz-Rosshandler I, Huerta-Verde A et al. Genome-wide expression analysis suggests a crucial role of dysregulation of matrix metalloproteinases pathway in undifferentiated thyroid carcinoma. BMC Genomics 2015 Mar 18;16(1):207. PMID: 25887408
  • Houseman EA, Kelsey KT, Wiencke JK, Marsit CJ et al. Cell-composition effects in the analysis of DNA methylation array data: a mathematical perspective. BMC Bioinformatics 2015 Mar 21;16:95. PMID: 25887114
  • Tian S, Wang C, An MW et al. Test on existence of histology subtype-specific prognostic signatures among early stage lung adenocarcinoma and squamous cell carcinoma patients using a Cox-model based filter. Biol Direct 2015 Apr 7;10:15. PMID: 25887039
  • Heller G, Rommer A, Steinleitner K, Etzler J et al. EVI1 promotes tumor growth via transcriptional repression of MS4A3. J Hematol Oncol 2015 Mar 21;8:28. PMID: 25886616
  • Duhachek-Muggy S, Zolkiewska A et al. ADAM12-L is a direct target of the miR-29 and miR-200 families in breast cancer. BMC Cancer 2015 Mar 4;15:93. PMID: 25886595
  • Lehmann BD, Ding Y, Viox DJ, Jiang M et al. Evaluation of public cancer datasets and signatures identifies TP53 mutant signatures with robust prognostic and predictive value. BMC Cancer 2015 Mar 26;15:179. PMID: 25886164
  • Teschendorff AE, Li L, Yang Z et al. Denoising perturbation signatures reveal an actionable AKT-signaling gene module underlying a poor clinical outcome in endocrine-treated ER+ breast cancer. Genome Biol 2015 Apr 2;16(1):61. PMID: 25886003
  • Antolín S, Calvo L, Blanco-Calvo M, Santiago MP et al. Circulating miR-200c and miR-141 and outcomes in patients with breast cancer. BMC Cancer 2015 Apr 2;15:297. PMID: 25885099
  • Romero A, García-García F, López-Perolio I, Ruiz de Garibay G et al. BRCA1 Alternative splicing landscape in breast tissue samples. BMC Cancer 2015 Apr 3;15:219. PMID: 25884417
  • Swindell WR, Sarkar MK, Stuart PE, Voorhees JJ et al. Psoriasis drug development and GWAS interpretation through in silico analysis of transcription factor binding sites. Clin Transl Med 2015;4:13. PMID: 25883770
  • Graae L, Paddock S, Belin AC et al. ReMo-SNPs: a new software tool for identification of polymorphisms in regions and motifs genome-wide. Genet Res (Camb) 2015 Apr 17;97:e8. PMID: 25882789
  • Danziger SA, Reiss DJ, Ratushny AV, Smith JJ et al. Bicluster Sampled Coherence Metric (BSCM) provides an accurate environmental context for phenotype predictions. BMC Syst Biol 2015;9 Suppl 2(Suppl 2):S1. PMID: 25881257
  • Falgreen S, Dybkær K, Young KH, Xu-Monette ZY et al. Predicting response to multidrug regimens in cancer patients using cell line experiments and regularised regression models. BMC Cancer 2015 Apr 8;15:235. PMID: 25881228
  • Bornelöv S, Komorowski J, Wadelius C et al. Different distribution of histone modifications in genes with unidirectional and bidirectional transcription and a role of CTCF and cohesin in directing transcription. BMC Genomics 2015 Apr 15;16(1):300. PMID: 25881024
  • Dozmorov MGPolycomb repressive complex 2 epigenomic signature defines age-associated hypermethylation and gene expression changes. Epigenetics 2015;10(6):484-95. PMID: 25880792
  • Weng MT, Tung TH, Lee JH, Wei SC et al. Enhancer of rudimentary homolog regulates DNA damage response in hepatocellular carcinoma. Sci Rep 2015 Apr 9;5:9357. PMID: 25880358
  • Lapierre M, Castet-Nicolas A, Gitenay D, Jalaguier S et al. Expression and role of RIP140/NRIP1 in chronic lymphocytic leukemia. J Hematol Oncol 2015 Mar 4;8:20. PMID: 25879677
  • Miyahara H, Hirose O, Satou K, Yamada Y et al. Factors to preserve CpG-rich sequences in methylated CpG islands. BMC Genomics 2015 Feb 28;16(1):144. PMID: 25879481
  • Russ JB, Borromeo MD, Kollipara RK, Bommareddy PK et al. Misexpression of ptf1a in cortical pyramidal cells in vivo promotes an inhibitory peptidergic identity. J Neurosci 2015 Apr 15;35(15):6028-37. PMID: 25878276
  • De Maeyer D, Weytjens B, Renkens J, De Raedt L et al. PheNetic: network-based interpretation of molecular profiling data. Nucleic Acids Res 2015 Jul 1;43(W1):W244-50. PMID: 25878035
  • Lin DC, Xu L, Chen Y, Yan H et al. Genomic and Functional Analysis of the E3 Ligase PARK2 in Glioma. Cancer Res 2015 May 1;75(9):1815-27. PMID: 25877876
  • Trieu TA, Calo S, Nicolás FE, Vila A et al. A non-canonical RNA silencing pathway promotes mRNA degradation in basal Fungi. PLoS Genet 2015 Apr;11(4):e1005168. PMID: 25875805
  • Che J, Shin M et al. A meta-analysis strategy for gene prioritization using gene expression, SNP genotype, and eQTL data. Biomed Res Int 2015;2015:576349. PMID: 25874220
  • Zhang LL, Mu GG, Ding QS, Li YX et al. Phosphatase and Tensin Homolog (PTEN) Represses Colon Cancer Progression through Inhibiting Paxillin Transcription via PI3K/AKT/NF-κB Pathway. J Biol Chem 2015 Jun 12;290(24):15018-29. PMID: 25873394
  • Giardina C, Nakanishi M, Khan A, Kuratnik A et al. Regulation of VDR Expression in Apc-Mutant Mice, Human Colon Cancers and Adenomas. Cancer Prev Res (Phila) 2015 May;8(5):387-99. PMID: 25873367
  • Chung J, Bauer DE, Ghamari A, Nizzi CP et al. The mTORC1/4E-BP pathway coordinates hemoglobin production with L-leucine availability. Sci Signal 2015 Apr 14;8(372):ra34. PMID: 25872869
  • Shen L, O'Shea JM, Kaadige MR, Cunha S et al. Metabolic reprogramming in triple-negative breast cancer through Myc suppression of TXNIP. Proc Natl Acad Sci U S A 2015 Apr 28;112(17):5425-30. PMID: 25870263
  • Kim PG, Nakano H, Das PP, Chen MJ et al. Flow-induced protein kinase A-CREB pathway acts via BMP signaling to promote HSC emergence. J Exp Med 2015 May 4;212(5):633-48. PMID: 25870201
  • Jing L, Tamplin OJ, Chen MJ, Deng Q et al. Adenosine signaling promotes hematopoietic stem and progenitor cell emergence. J Exp Med 2015 May 4;212(5):649-63. PMID: 25870200
  • Pannu V, Mittal K, Cantuaria G, Reid MD et al. Rampant centrosome amplification underlies more aggressive disease course of triple negative breast cancers. Oncotarget 2015 Apr 30;6(12):10487-97. PMID: 25868856
  • Tian F, Wang T, Xie Y, Zhang J et al. Genome-wide identification, classification, and expression analysis of 14-3-3 gene family in Populus. PLoS One 2015;10(4):e0123225. PMID: 25867623
  • Cimmino L, Dawlaty MM, Ndiaye-Lobry D, Yap YS et al. TET1 is a tumor suppressor of hematopoietic malignancy. Nat Immunol 2015 Jun;16(6):653-62. PMID: 25867473
  • Zhang HJ, Sun ZQ, Qian WQ, Sheng L et al. Abnormal gene expression profile reveals the common key signatures associated with clear cell renal cell carcinoma: a meta-analysis. Genet Mol Res 2015 Mar 27;14(1):2216-24. PMID: 25867368
  • Ning LF, Yu YQ, GuoJi ET, Kou CG et al. Meta-analysis of differentially expressed genes in autism based on gene expression data. Genet Mol Res 2015 Mar 27;14(1):2146-55. PMID: 25867362
  • Huang CH, Peng HS, Ng KL et al. Prediction of cancer proteins by integrating protein interaction, domain frequency, and domain interaction data using machine learning algorithms. Biomed Res Int 2015;2015:312047. PMID: 25866773
  • Shen Y, Katsaros D, Loo LW, Hernandez BY et al. Prognostic and predictive values of long non-coding RNA LINC00472 in breast cancer. Oncotarget 2015 Apr 20;6(11):8579-92. PMID: 25865225
  • Roux J, Rosikiewicz M, Robinson-Rechavi M et al. What to compare and how: Comparative transcriptomics for Evo-Devo. J Exp Zool B Mol Dev Evol 2015 Jun;324(4):372-82. PMID: 25864439
  • Karlebach G, Francks C et al. Lateralization of gene expression in human language cortex. Cortex 2015 Jun;67:30-6. PMID: 25863470
  • Stewart E, Shelat A, Bradley C, Chen X et al. Development and characterization of a human orthotopic neuroblastoma xenograft. Dev Biol 2015 Nov 15;407(2):344-55. PMID: 25863122
  • Desikan RS, Schork AJ, Wang Y, Thompson WK et al. Polygenic Overlap Between C-Reactive Protein, Plasma Lipids, and Alzheimer Disease. Circulation 2015 Jun 9;131(23):2061-2069. PMID: 25862742
  • Sill M, Saadati M, Benner A et al. Applying stability selection to consistently estimate sparse principal components in high-dimensional molecular data. Bioinformatics 2015 Aug 15;31(16):2683-90. PMID: 25861969
  • Stefansson IM, Raeder M, Wik E, Mannelqvist M et al. Increased angiogenesis is associated with a 32-gene expression signature and 6p21 amplification in aggressive endometrial cancer. Oncotarget 2015 Apr 30;6(12):10634-45. PMID: 25860936
  • Mahauad-Fernandez WD, Borcherding NC, Zhang W, Okeoma CM et al. Bone marrow stromal antigen 2 (BST-2) DNA is demethylated in breast tumors and breast cancer cells. PLoS One 2015;10(4):e0123931. PMID: 25860442
  • Tesfay L, Clausen KA, Kim JW, Hegde P et al. Hepcidin regulation in prostate and its disruption in prostate cancer. Cancer Res 2015 Jun 1;75(11):2254-63. PMID: 25858146
  • Zhao Y, Zhang C, Yue X, Li X et al. Pontin, a new mutant p53-binding protein, promotes gain-of-function of mutant p53. Cell Death Differ 2015 Nov;22(11):1824-36. PMID: 25857266
  • Gong R, Chen MH, Peng LS, Wei SL et al. Common genes in coronary artery disease from Europe, Asia and North America regardless of race and lifestyle. Eur Rev Med Pharmacol Sci 2015;19(6):1092-100. PMID: 25855937
  • Pérez-Gómez E, Andradas C, Blasco-Benito S, Caffarel MM et al. Role of cannabinoid receptor CB2 in HER2 pro-oncogenic signaling in breast cancer. J Natl Cancer Inst 2015 Jun;107(6):djv077. PMID: 25855725
  • Wei YN, Hu HY, Xie GC, Fu N et al. Transcript and protein expression decoupling reveals RNA binding proteins and miRNAs as potential modulators of human aging. Genome Biol 2015 Feb 22;16(1):41. PMID: 25853883
  • Angelova M, Charoentong P, Hackl H, Fischer ML et al. Characterization of the immunophenotypes and antigenomes of colorectal cancers reveals distinct tumor escape mechanisms and novel targets for immunotherapy. Genome Biol 2015 Mar 31;16(1):64. PMID: 25853550
  • Scott CC, Vossio S, Vacca F, Snijder B et al. Wnt directs the endosomal flux of LDL-derived cholesterol and lipid droplet homeostasis. EMBO Rep 2015 Jun;16(6):741-52. PMID: 25851648
  • Tapper W, Jones AV, Kralovics R, Harutyunyan AS et al. Genetic variation at MECOM, TERT, JAK2 and HBS1L-MYB predisposes to myeloproliferative neoplasms. Nat Commun 2015 Apr 7;6:6691. PMID: 25849990
  • Soady KJ, Kendrick H, Gao Q, Tutt A et al. Mouse mammary stem cells express prognostic markers for triple-negative breast cancer. Breast Cancer Res 2015 Mar 4;17(1):31. PMID: 25849541
  • Aljedai A, Buckle AM, Hiwarkar P, Syed F et al. Potential role of Notch signalling in CD34+ chronic myeloid leukaemia cells: cross-talk between Notch and BCR-ABL. PLoS One 2015;10(4):e0123016. PMID: 25849484
  • Avila-Pedretti G, Tornero J, Fernández-Nebro A, Blanco F et al. Variation at FCGR2A and functionally related genes is associated with the response to anti-TNF therapy in rheumatoid arthritis. PLoS One 2015;10(4):e0122088. PMID: 25848939
  • Mann MB, Black MA, Jones DJ, Ward JM et al. Transposon mutagenesis identifies genetic drivers of Braf(V600E) melanoma. Nat Genet 2015 May;47(5):486-95. PMID: 25848750
  • Schmid CA, Robinson MD, Scheifinger NA, Müller S et al. DUSP4 deficiency caused by promoter hypermethylation drives JNK signaling and tumor cell survival in diffuse large B cell lymphoma. J Exp Med 2015 May 4;212(5):775-92. PMID: 25847947
  • Westcott JM, Prechtl AM, Maine EA, Dang TT et al. An epigenetically distinct breast cancer cell subpopulation promotes collective invasion. J Clin Invest 2015 May;125(5):1927-43. PMID: 25844900
  • Kim M, Kim T, Johnson RL, Lim DS et al. Transcriptional co-repressor function of the hippo pathway transducers YAP and TAZ. Cell Rep 2015 Apr 14;11(2):270-82. PMID: 25843714
  • Zhang J, Shao J, Wu X, Mao Q et al. Type I interferon related genes are common genes on the early stage after vaccination by meta-analysis of microarray data. Hum Vaccin Immunother 2015;11(3):739-45. PMID: 25839220
  • Han SS, Tompkins VS, Son DJ, Han S et al. CDKN1A and FANCD2 are potential oncotargets in Burkitt lymphoma and multiple myeloma. Exp Hematol Oncol 2015;4:9. PMID: 25838973
  • Zhu J, Yang DR, Sun Y, Qiu X et al. TR4 Nuclear Receptor Alters the Prostate Cancer CD133+ Stem/Progenitor Cell Invasion via Modulating the EZH2-Related Metastasis Gene Expression. Mol Cancer Ther 2015 Jun;14(6):1445-53. PMID: 25833838
  • Ji J, Eggert T, Budhu A, Forgues M et al. Hepatic stellate cell and monocyte interaction contributes to poor prognosis in hepatocellular carcinoma. Hepatology 2015 Aug;62(2):481-95. PMID: 25833323
  • Huang D, Qiu S, Ge R, He L et al. miR-340 suppresses glioblastoma multiforme. Oncotarget 2015 Apr 20;6(11):9257-70. PMID: 25831237
  • Blanco I, Kuchenbaecker K, Cuadras D, Wang X et al. Assessing associations between the AURKA-HMMR-TPX2-TUBG1 functional module and breast cancer risk in BRCA1/2 mutation carriers. PLoS One 2015;10(4):e0120020. PMID: 25830658
  • Qiu B, Ackerman D, Sanchez DJ, Li B et al. HIF2α-Dependent Lipid Storage Promotes Endoplasmic Reticulum Homeostasis in Clear-Cell Renal Cell Carcinoma. Cancer Discov 2015 Jun;5(6):652-67. PMID: 25829424
  • Hughey JJ, Butte AJ et al. Robust meta-analysis of gene expression using the elastic net. Nucleic Acids Res 2015 Jul 13;43(12):e79. PMID: 25829177
  • Jin UH, Kim SB, Safe S et al. Omeprazole Inhibits Pancreatic Cancer Cell Invasion through a Nongenomic Aryl Hydrocarbon Receptor Pathway. Chem Res Toxicol 2015 May 18;28(5):907-18. PMID: 25826687
  • Kishikawa T, Otsuka M, Tan PS, Ohno M et al. Decreased miR122 in hepatocellular carcinoma leads to chemoresistance with increased arginine. Oncotarget 2015 Apr 10;6(10):8339-52. PMID: 25826076
  • Wang Y, Fan X, Cai Y et al. A comparative study of improvements Pre-filter methods bring on feature selection using microarray data. Health Inf Sci Syst 2014;2:7. PMID: 25825671
  • de Cubas AA, Korpershoek E, Inglada-Pérez L, Letouzé E et al. DNA Methylation Profiling in Pheochromocytoma and Paraganglioma Reveals Diagnostic and Prognostic Markers. Clin Cancer Res 2015 Jul 1;21(13):3020-30. PMID: 25825477
  • Wang Y, Li Y et al. Analysis of molecular pathways in pancreatic ductal adenocarcinomas with a bioinformatics approach. Asian Pac J Cancer Prev 2015;16(6):2561-7. PMID: 25824797
  • Newman AM, Liu CL, Green MR, Gentles AJ et al. Robust enumeration of cell subsets from tissue expression profiles. Nat Methods 2015 May;12(5):453-7. PMID: 25822800
  • Xie L, Lang-Mladek C, Richter J, Nigam N et al. UV-B induction of the E3 ligase ARIADNE12 depends on CONSTITUTIVELY PHOTOMORPHOGENIC 1. Plant Physiol Biochem 2015 Aug;93:18-28. PMID: 25817546
  • Mersha TB, Martin LJ, Biagini Myers JM, Kovacic MB et al. Genomic architecture of asthma differs by sex. Genomics 2015 Jul;106(1):15-22. PMID: 25817197
  • Jacobs TB, Lawler NJ, LaFayette PR, Vodkin LO et al. Simple gene silencing using the trans-acting siRNA pathway. Plant Biotechnol J 2016 Jan;14(1):117-27. PMID: 25816689
  • Liu J, Wang B, Wang W, Sun M et al. Computational networks of activating transcription factor 3 gene in Huh7 cell lines and hepatitis C virus-infected Huh7 cell lines. Mol Med Rep 2015 Jul;12(1):1239-46. PMID: 25816118
  • Xiao Y, Lv Y, Zhao H, Gong Y et al. Predicting the functions of long noncoding RNAs using RNA-seq based on Bayesian network. Biomed Res Int 2015;2015:839590. PMID: 25815337
  • Cui J, Zhang Z, Shao Y, Zhang K et al. Genome-wide identification, evolutionary, and expression analyses of histone H3 variants in plants. Biomed Res Int 2015;2015:341598. PMID: 25815311
  • Lee T, Oh T, Yang S, Shin J et al. RiceNet v2: an improved network prioritization server for rice genes. Nucleic Acids Res 2015 Jul 1;43(W1):W122-7. PMID: 25813048
  • Maxwell EK, Campbell JD, Spira A, Baxevanis AD et al. SubmiRine: assessing variants in microRNA targets using clinical genomic data sets. Nucleic Acids Res 2015 Apr 30;43(8):3886-98. PMID: 25813044
  • Boso G, Somia NV et al. Characterization of resistance to rhabdovirus and retrovirus infection in a human myeloid cell line. PLoS One 2015;10(3):e0121455. PMID: 25811758
  • Schinke C, Giricz O, Li W, Shastri A et al. IL8-CXCR2 pathway inhibition as a therapeutic strategy against MDS and AML stem cells. Blood 2015 May 14;125(20):3144-52. PMID: 25810490
  • Song Y, Xia A, Lee HY, Wang R et al. Activity-dependent regulation of prestin expression in mouse outer hair cells. J Neurophysiol 2015 Jun 1;113(10):3531-42. PMID: 25810486
  • Zhang S, Chung WC, Wu G, Egan SE et al. Manic fringe promotes a claudin-low breast cancer phenotype through notch-mediated PIK3CG induction. Cancer Res 2015 May 15;75(10):1936-43. PMID: 25808869
  • Novak M, Leonard MK, Yang XH, Kowluru A et al. Metastasis suppressor NME1 regulates melanoma cell morphology, self-adhesion and motility via induction of fibronectin expression. Exp Dermatol 2015 Jun;24(6):455-61. PMID: 25808322
  • Gavai AK, Supandi F, Hettling H, Murrell P et al. Using bioconductor package BiGGR for metabolic flux estimation based on gene expression changes in brain. PLoS One 2015;10(3):e0119016. PMID: 25806817
  • Lambertz I, Kumps C, Claeys S, Lindner S et al. Upregulation of MAPK Negative Feedback Regulators and RET in Mutant ALK Neuroblastoma: Implications for Targeted Treatment. Clin Cancer Res 2015 Jul 15;21(14):3327-39. PMID: 25805801
  • Wang Q, Yu H, Zhao Z, Jia P et al. EW_dmGWAS: edge-weighted dense module search for genome-wide association studies and gene expression profiles. Bioinformatics 2015 Aug 1;31(15):2591-4. PMID: 25805723
  • Xu C, Su Z et al. Identification of cell types from single-cell transcriptomes using a novel clustering method. Bioinformatics 2015 Jun 15;31(12):1974-80. PMID: 25805722
  • Martens AT, Taylor J, Hilser VJ et al. Ribosome A and P sites revealed by length analysis of ribosome profiling data. Nucleic Acids Res 2015 Apr 20;43(7):3680-7. PMID: 25805170
  • Liang J, Lv J, Liu Z et al. Identification of dysfunctional biological pathways and their synergistic mechanism in hepatocellular carcinoma process. Exp Mol Pathol 2015 Jun;98(3):540-5. PMID: 25805103
  • Albiero M, Poncina N, Ciciliot S, Cappellari R et al. Bone Marrow Macrophages Contribute to Diabetic Stem Cell Mobilopathy by Producing Oncostatin M. Diabetes 2015 Aug;64(8):2957-68. PMID: 25804939
  • Dye BR, Hill DR, Ferguson MA, Tsai YH et al. In vitro generation of human pluripotent stem cell derived lung organoids. Elife 2015 Mar 24;4. PMID: 25803487
  • Laurette P, Strub T, Koludrovic D, Keime C et al. Transcription factor MITF and remodeller BRG1 define chromatin organisation at regulatory elements in melanoma cells. Elife 2015 Mar 24;4. PMID: 25803486
  • Hao Z, Fan C, Cheng T, Su Y et al. Genome-wide identification, characterization and evolutionary analysis of long intergenic noncoding RNAs in cucumber. PLoS One 2015;10(3):e0121800. PMID: 25799544
  • Kim HS, Lee KS, Bae HJ, Eun JW et al. MicroRNA-31 functions as a tumor suppressor by regulating cell cycle and epithelial-mesenchymal transition regulatory proteins in liver cancer. Oncotarget 2015 Apr 10;6(10):8089-102. PMID: 25797269
  • Jiang N, Chen WJ, Zhang JW, Xu C et al. Downregulation of miR-432 activates Wnt/β-catenin signaling and promotes human hepatocellular carcinoma proliferation. Oncotarget 2015 Apr 10;6(10):7866-79. PMID: 25797263
  • Lin CY, Lee TL, Chiu YY, Lin YW et al. Module organization and variance in protein-protein interaction networks. Sci Rep 2015 Mar 23;5:9386. PMID: 25797237
  • Gardeux V, Bosco A, Li J, Halonen MJ et al. Towards a PBMC "virogram assay" for precision medicine: Concordance between ex vivo and in vivo viral infection transcriptomes. J Biomed Inform 2015 Jun;55:94-103. PMID: 25797143
  • Enzo E, Santinon G, Pocaterra A, Aragona M et al. Aerobic glycolysis tunes YAP/TAZ transcriptional activity. EMBO J 2015 May 12;34(10):1349-70. PMID: 25796446
  • Peterson DA, Planer JD, Guruge JL, Xue L et al. Characterizing the interactions between a naturally primed immunoglobulin A and its conserved Bacteroides thetaiotaomicron species-specific epitope in gnotobiotic mice. J Biol Chem 2015 May 15;290(20):12630-49. PMID: 25795776
  • Banerji CR, Severini S, Caldas C, Teschendorff AE et al. Intra-tumour signalling entropy determines clinical outcome in breast and lung cancer. PLoS Comput Biol 2015 Mar;11(3):e1004115. PMID: 25793737
  • Yan R, He L, Li Z, Han X et al. SCF(JFK) is a bona fide E3 ligase for ING4 and a potent promoter of the angiogenesis and metastasis of breast cancer. Genes Dev 2015 Mar 15;29(6):672-85. PMID: 25792601
  • Hu SB, Xiang JF, Li X, Xu Y et al. Protein arginine methyltransferase CARM1 attenuates the paraspeckle-mediated nuclear retention of mRNAs containing IRAlus. Genes Dev 2015 Mar 15;29(6):630-45. PMID: 25792598
  • Sundstrøm T, Espedal H, Harter PN, Fasmer KE et al. Melanoma brain metastasis is independent of lactate dehydrogenase A expression. Neuro Oncol 2015 Oct;17(10):1374-85. PMID: 25791837
  • Galvis LA, Holik AZ, Short KM, Pasquet J et al. Repression of Igf1 expression by Ezh2 prevents basal cell differentiation in the developing lung. Development 2015 Apr 15;142(8):1458-69. PMID: 25790853
  • Shibayama J, Yuzyuk TN, Cox J, Makaju A et al. Metabolic remodeling in moderate synchronous versus dyssynchronous pacing-induced heart failure: integrated metabolomics and proteomics study. PLoS One 2015;10(3):e0118974. PMID: 25790351
  • Haile Y, Nakhaei-Nejad M, Boakye PA, Baker G et al. Reprogramming of HUVECs into induced pluripotent stem cells (HiPSCs), generation and characterization of HiPSC-derived neurons and astrocytes. PLoS One 2015;10(3):e0119617. PMID: 25789622
  • Kafkas Ş, Kim JH, Pi X, McEntyre JR et al. Database citation in supplementary data linked to Europe PubMed Central full text biomedical articles. J Biomed Semantics 2015;6:1. PMID: 25789152
  • Pannu V, Rida PC, Ogden A, Turaga RC et al. HSET overexpression fuels tumor progression via centrosome clustering-independent mechanisms in breast cancer patients. Oncotarget 2015 Mar 20;6(8):6076-91. PMID: 25788277
  • Luo Y, Wu Y, Peng Y, Liu X et al. Systematic analysis to identify a key role of CDK1 in mediating gene interaction networks in cervical cancer development. Ir J Med Sci 2016 Feb;185(1):231-9. PMID: 25786624
  • Xing K, He X et al. Mutation bias, rather than binding preference, underlies the nucleosome-associated G+C% variation in eukaryotes. Genome Biol Evol 2015 Mar 18;7(4):1033-8. PMID: 25786433
  • Faucillion ML, Larsson J et al. Increased expression of X-linked genes in mammals is associated with a higher stability of transcripts and an increased ribosome density. Genome Biol Evol 2015 Mar 18;7(4):1039-52. PMID: 25786432
  • Kedmi M, Ben-Chetrit N, Körner C, Mancini M et al. EGF induces microRNAs that target suppressors of cell migration: miR-15b targets MTSS1 in breast cancer. Sci Signal 2015 Mar 17;8(368):ra29. PMID: 25783158
  • Tang SW, Bilke S, Cao L, Murai J et al. SLFN11 Is a Transcriptional Target of EWS-FLI1 and a Determinant of Drug Response in Ewing Sarcoma. Clin Cancer Res 2015 Sep 15;21(18):4184-93. PMID: 25779942
  • Shi JL, Fu L, Wang WD et al. High expression of inositol 1,4,5-trisphosphate receptor, type 2 (ITPR2) as a novel biomarker for worse prognosis in cytogenetically normal acute myeloid leukemia. Oncotarget 2015 Mar 10;6(7):5299-309. PMID: 25779662
  • Alemdehy MF, Haanstra JR, de Looper HW, van Strien PM et al. ICL-induced miR139-3p and miR199a-3p have opposite roles in hematopoietic cell expansion and leukemic transformation. Blood 2015 Jun 18;125(25):3937-48. PMID: 25778535
  • Zhou T, Zhang Y, Wu P, Sun Q et al. Screening Feature Genes of Venous Thromboembolism with DNA Microarray. Chem Biol Drug Des 2015 Oct;86(4):821-8. PMID: 25777263
  • Shinoda K, Luijten IH, Hasegawa Y, Hong H et al. Genetic and functional characterization of clonally derived adult human brown adipocytes. Nat Med 2015 Apr;21(4):389-94. PMID: 25774848
  • Kim M, Zorraquino V, Tagkopoulos I et al. Microbial forensics: predicting phenotypic characteristics and environmental conditions from large-scale gene expression profiles. PLoS Comput Biol 2015 Mar;11(3):e1004127. PMID: 25774498
  • Asgari Y, Zabihinpour Z, Salehzadeh-Yazdi A, Schreiber F et al. Alterations in cancer cell metabolism: the Warburg effect and metabolic adaptation. Genomics 2015 May;105(5-6):275-81. PMID: 25773945
  • Kim BK, Yoo HI, Kim I, Park J et al. FZD6 expression is negatively regulated by miR-199a-5p in human colorectal cancer. BMB Rep 2015 Jun;48(6):360-6. PMID: 25772759
  • Moullan N, Mouchiroud L, Wang X, Ryu D et al. Tetracyclines Disturb Mitochondrial Function across Eukaryotic Models: A Call for Caution in Biomedical Research. Cell Rep 2015 Mar 17;10(10):1681-1691. PMID: 25772356
  • Cassese A, Guindani M, Antczak P, Falciani F et al. A Bayesian model for the identification of differentially expressed genes in Daphnia magna exposed to munition pollutants. Biometrics 2015 Sep;71(3):803-11. PMID: 25771699
  • Desantis A, Bruno T, Catena V, De Nicola F et al. Che-1-induced inhibition of mTOR pathway enables stress-induced autophagy. EMBO J 2015 May 5;34(9):1214-30. PMID: 25770584
  • Watkins J, Weekes D, Shah V, Gazinska P et al. Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers. Cancer Discov 2015 May;5(5):488-505. PMID: 25770156
  • Maiso P, Huynh D, Moschetta M, Sacco A et al. Metabolic signature identifies novel targets for drug resistance in multiple myeloma. Cancer Res 2015 May 15;75(10):2071-82. PMID: 25769724
  • Borcherding N, Kusner D, Kolb R, Xie Q et al. Paracrine WNT5A Signaling Inhibits Expansion of Tumor-Initiating Cells. Cancer Res 2015 May 15;75(10):1972-82. PMID: 25769722
  • Ma S, Johnson D, Ashby C, Xiong D et al. SPARCoC: a new framework for molecular pattern discovery and cancer gene identification. PLoS One 2015;10(3):e0117135. PMID: 25768286
  • sbv IMPROVER project team (in alphabetical order), Boue S, Fields B, Hoeng J et al. Enhancement of COPD biological networks using a web-based collaboration interface. F1000Res 2015;4:32. PMID: 25767696
  • Homouz D, Chen G, Kudlicki AS et al. Correcting positional correlations in Affymetrix® genome chips. Sci Rep 2015 Mar 13;5:9078. PMID: 25767049
  • Singer M, Kosti I, Pachter L, Mandel-Gutfreund Y et al. A diverse epigenetic landscape at human exons with implication for expression. Nucleic Acids Res 2015 Apr 20;43(7):3498-508. PMID: 25765649
  • Fitzpatrick DJ, Ryan CJ, Shah N, Greene D et al. Genome-wide epistatic expression quantitative trait loci discovery in four human tissues reveals the importance of local chromosomal interactions governing gene expression. BMC Genomics 2015 Feb 21;16(1):109. PMID: 25765234
  • Satproedprai N, Wichukchinda N, Suphankong S, Inunchot W et al. Diagnostic value of blood gene expression signatures in active tuberculosis in Thais: a pilot study. Genes Immun 2015 Jun;16(4):253-60. PMID: 25764116
  • Chan OY, Keng BM, Ling MH et al. Correlation and variation-based method for identifying reference genes from large datasets. Electron Physician 2014 Jan-Mar;6(1):719-27. PMID: 25763136
  • Charlton J, Williams RD, Sebire NJ, Popov S et al. Comparative methylome analysis identifies new tumour subtypes and biomarkers for transformation of nephrogenic rests into Wilms tumour. Genome Med 2015;7(1):11. PMID: 25763109
  • Zhou XL, Wu JH, Wang XJ, Guo FJ et al. Integrated microRNA-mRNA analysis revealing the potential roles of microRNAs in tongue squamous cell cancer. Mol Med Rep 2015 Jul;12(1):885-94. PMID: 25760063
  • Li J, Huang D, Guo M, Liu X et al. A gene-based information gain method for detecting gene-gene interactions in case-control studies. Eur J Hum Genet 2015 Nov;23(11):1566-72. PMID: 25758991
  • Walentin K, Hinze C, Werth M, Haase N et al. A Grhl2-dependent gene network controls trophoblast branching morphogenesis. Development 2015 Mar 15;142(6):1125-36. PMID: 25758223
  • Llanos A, François JM, Parrou JL et al. Tracking the best reference genes for RT-qPCR data normalization in filamentous fungi. BMC Genomics 2015 Feb 14;16(1):71. PMID: 25757610
  • Matsuzaki J, Kawahara Y, Izawa T et al. Punctual transcriptional regulation by the rice circadian clock under fluctuating field conditions. Plant Cell 2015 Mar;27(3):633-48. PMID: 25757473
  • Liu R, Guo CX, Zhou HH et al. Network-based approach to identify prognostic biomarkers for estrogen receptor-positive breast cancer treatment with tamoxifen. Cancer Biol Ther 2015;16(2):317-24. PMID: 25756514
  • Li Y, Cai G, Yuan S, Jun Y et al. The overexpression membrane type 1 matrix metalloproteinase is associated with the progression and prognosis in breast cancer. Am J Transl Res 2015;7(1):120-7. PMID: 25755834
  • Wang J, Yu H, Ye L, Jin L et al. Integrated regulatory mechanisms of miRNAs and targeted genes involved in colorectal cancer. Int J Clin Exp Pathol 2015;8(1):517-29. PMID: 25755742
  • Powell K, Semaan L, Conley-LaComb MK, Asangani I et al. ERG/AKR1C3/AR Constitutes a Feed-Forward Loop for AR Signaling in Prostate Cancer Cells. Clin Cancer Res 2015 Jun 1;21(11):2569-79. PMID: 25754347
  • Jin B, Wang W, Du G, Huang GZ et al. Identifying hub genes and dysregulated pathways in hepatocellular carcinoma. Eur Rev Med Pharmacol Sci 2015 Feb;19(4):592-601. PMID: 25753876
  • Urdinguio RG, Bayón GF, Dmitrijeva M, Toraño EG et al. Aberrant DNA methylation patterns of spermatozoa in men with unexplained infertility. Hum Reprod 2015 May;30(5):1014-28. PMID: 25753583
  • Buchner M, Park E, Geng H, Klemm L et al. Identification of FOXM1 as a therapeutic target in B-cell lineage acute lymphoblastic leukaemia. Nat Commun 2015 Mar 10;6:6471. PMID: 25753524
  • Kim D, Langmead B, Salzberg SL et al. HISAT: a fast spliced aligner with low memory requirements. Nat Methods 2015 Apr;12(4):357-60. PMID: 25751142
  • Kourou K, Exarchos TP, Exarchos KP, Karamouzis MV et al. Machine learning applications in cancer prognosis and prediction. Comput Struct Biotechnol J 2015;13:8-17. PMID: 25750696
  • Ederli L, Dawe A, Pasqualini S, Quaglia M et al. Arabidopsis flower specific defense gene expression patterns affect resistance to pathogens. Front Plant Sci 2015;6:79. PMID: 25750645
  • Sugawa F, Araúzo-Bravo MJ, Yoon J, Kim KP et al. Human primordial germ cell commitment in vitro associates with a unique PRDM14 expression profile. EMBO J 2015 Apr 15;34(8):1009-24. PMID: 25750208
  • Bateman NW, Jaworski E, Ao W, Wang G et al. Elevated AKAP12 in paclitaxel-resistant serous ovarian cancer cells is prognostic and predictive of poor survival in patients. J Proteome Res 2015 Apr 3;14(4):1900-10. PMID: 25748058
  • Bhattacharjee A, Ghangal R, Garg R, Jain M et al. Genome-wide analysis of homeobox gene family in legumes: identification, gene duplication and expression profiling. PLoS One 2015;10(3):e0119198. PMID: 25745864
  • Dugo M, Nicolini G, Tragni G, Bersani I et al. A melanoma subtype with intrinsic resistance to BRAF inhibition identified by receptor tyrosine kinases gene-driven classification. Oncotarget 2015 Mar 10;6(7):5118-33. PMID: 25742786
  • Tompkins RGGenomics of injury: The Glue Grant experience. J Trauma Acute Care Surg 2015 Apr;78(4):671-86. PMID: 25742245
  • Fock V, Plessl K, Fuchs R, Dekan S et al. Trophoblast subtype-specific EGFR/ERBB4 expression correlates with cell cycle progression and hyperplasia in complete hydatidiform moles. Hum Reprod 2015 Apr;30(4):789-99. PMID: 25740878
  • Diaz RJ, Golbourn B, Faria C, Picard D et al. Mechanism of action and therapeutic efficacy of Aurora kinase B inhibition in MYC overexpressing medulloblastoma. Oncotarget 2015 Feb 20;6(5):3359-74. PMID: 25739120
  • Li W, Yu J, Lian B, Sun H et al. Identifying prognostic features by bottom-up approach and correlating to drug repositioning. PLoS One 2015;10(3):e0118672. PMID: 25738841
  • Li P, Ruan X, Yang L, Kiesewetter K et al. A liver-enriched long non-coding RNA, lncLSTR, regulates systemic lipid metabolism in mice. Cell Metab 2015 Mar 3;21(3):455-67. PMID: 25738460
  • Selvanathan SP, Graham GT, Erkizan HV, Dirksen U et al. Oncogenic fusion protein EWS-FLI1 is a network hub that regulates alternative splicing. Proc Natl Acad Sci U S A 2015 Mar 17;112(11):E1307-16. PMID: 25737553
  • Dialsingh I, Austin SR, Altman NS et al. Estimating the proportion of true null hypotheses when the statistics are discrete. Bioinformatics 2015 Jul 15;31(14):2303-9. PMID: 25735771
  • Malki K, Pain O, Tosto MG, Du Rietz E et al. Identification of genes and gene pathways associated with major depressive disorder by integrative brain analysis of rat and human prefrontal cortex transcriptomes. Transl Psychiatry 2015 Mar 3;5(3):e519. PMID: 25734512
  • Lei M, Zhang H, Julian R, Tang K et al. Regulatory link between DNA methylation and active demethylation in Arabidopsis. Proc Natl Acad Sci U S A 2015 Mar 17;112(11):3553-7. PMID: 25733903
  • Qian J, Hassanein M, Hoeksema MD, Harris BK et al. The RNA binding protein FXR1 is a new driver in the 3q26-29 amplicon and predicts poor prognosis in human cancers. Proc Natl Acad Sci U S A 2015 Mar 17;112(11):3469-74. PMID: 25733852
  • Buick JK, Moffat I, Williams A, Swartz CD et al. Integration of metabolic activation with a predictive toxicogenomics signature to classify genotoxic versus nongenotoxic chemicals in human TK6 cells. Environ Mol Mutagen 2015 Jul;56(6):520-34. PMID: 25733247
  • Zacarías-Cabeza J, Belhocine M, Vanhille L, Cauchy P et al. Transcription-dependent generation of a specialized chromatin structure at the TCRβ locus. J Immunol 2015 Apr 1;194(7):3432-43. PMID: 25732733
  • Guo T, Kouvonen P, Koh CC, Gillet LC et al. Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps. Nat Med 2015 Apr;21(4):407-13. PMID: 25730263
  • Chalivendra V, Kanchi KL, Onken MD, Winkler AE et al. Genomic analysis to define molecular basis of aggressiveness in a mouse model of oral cancer. Genom Data 2015 Mar 1;3:61-62. PMID: 25729643
  • Kanu N, Grönroos E, Martinez P, Burrell RA et al. SETD2 loss-of-function promotes renal cancer branched evolution through replication stress and impaired DNA repair. Oncogene 2015 Nov 12;34(46):5699-708. PMID: 25728682
  • Ouma WZ, Mejia-Guerra MK, Yilmaz A, Pareja-Tobes P et al. Important biological information uncovered in previously unaligned reads from chromatin immunoprecipitation experiments (ChIP-Seq). Sci Rep 2015 Mar 2;5:8635. PMID: 25727450
  • Yang Y, Li F, Saha MN, Abdi J et al. miR-137 and miR-197 Induce Apoptosis and Suppress Tumorigenicity by Targeting MCL-1 in Multiple Myeloma. Clin Cancer Res 2015 May 15;21(10):2399-411. PMID: 25724519
  • Xie Z, Jay KA, Smith DL, Zhang Y et al. Early telomerase inactivation accelerates aging independently of telomere length. Cell 2015 Feb 26;160(5):928-939. PMID: 25723167
  • Xu T, Li B, Zhao M, Szulwach KE et al. Base-resolution methylation patterns accurately predict transcription factor bindings in vivo. Nucleic Acids Res 2015 Mar 11;43(5):2757-66. PMID: 25722376
  • Yang L, Liu Y, Zhu L, Xiao M et al. DNMT3A R882 mutation is associated with elevated expression of MAFB and M4/M5 immunophenotype of acute myeloid leukemia blasts. Leuk Lymphoma 2015;56(10):2914-22. PMID: 25721756
  • Ch'ng C, Kwok W, Rogic S, Pavlidis P et al. Meta-Analysis of Gene Expression in Autism Spectrum Disorder. Autism Res 2015 Oct;8(5):593-608. PMID: 25720351
  • Ding B, Zheng L, Zhu Y, Li N et al. Normalization and noise reduction for single cell RNA-seq experiments. Bioinformatics 2015 Jul 1;31(13):2225-7. PMID: 25717193
  • Song J, Li Y, An RF et al. Identification of Early-Onset Preeclampsia-Related Genes and MicroRNAs by Bioinformatics Approaches. Reprod Sci 2015 Aug;22(8):954-63. PMID: 25717061
  • Diefenbacher ME, Chakraborty A, Blake SM, Mitter R et al. Usp28 counteracts Fbw7 in intestinal homeostasis and cancer. Cancer Res 2015 Apr 1;75(7):1181-6. PMID: 25716680
  • Lemire M, Zaidi SH, Ban M, Ge B et al. Long-range epigenetic regulation is conferred by genetic variation located at thousands of independent loci. Nat Commun 2015 Feb 26;6:6326. PMID: 25716334
  • Cui M, Yuan J, Li J, Sun B et al. Gene expression analysis of colorectal cancer by bioinformatics strategy. Hepatogastroenterology 2014 Oct;61(135):1942-5. PMID: 25713892
  • Londin E, Loher P, Telonis AG, Quann K et al. Analysis of 13 cell types reveals evidence for the expression of numerous novel primate- and tissue-specific microRNAs. Proc Natl Acad Sci U S A 2015 Mar 10;112(10):E1106-15. PMID: 25713380
  • Warth SC, Hoefig KP, Hiekel A, Schallenberg S et al. Induced miR-99a expression represses Mtor cooperatively with miR-150 to promote regulatory T-cell differentiation. EMBO J 2015 May 5;34(9):1195-213. PMID: 25712478
  • Xue TC, Zhang BH, Ye SL, Ren ZG et al. Differentially expressed gene profiles of intrahepatic cholangiocarcinoma, hepatocellular carcinoma, and combined hepatocellular-cholangiocarcinoma by integrated microarray analysis. Tumour Biol 2015 Aug;36(8):5891-9. PMID: 25712376
  • Olarerin-George AO, Hogenesch JB et al. Assessing the prevalence of mycoplasma contamination in cell culture via a survey of NCBI's RNA-seq archive. Nucleic Acids Res 2015 Mar 11;43(5):2535-42. PMID: 25712092
  • Yadav A, Radhakrishnan A, Bhanot G, Sinha H et al. Differential regulation of antagonistic pleiotropy in synthetic and natural populations suggests its role in adaptation. G3 (Bethesda) 2015 Feb 23;5(5):699-709. PMID: 25711830
  • Tasnim M, Ma S, Yang EW, Jiang T et al. Accurate inference of isoforms from multiple sample RNA-Seq data. BMC Genomics 2015;16 Suppl 2(Suppl 2):S15. PMID: 25708199
  • Sobue S, Yamai K, Ito M, Ohno K et al. Simultaneous oral and inhalational intake of molecular hydrogen additively suppresses signaling pathways in rodents. Mol Cell Biochem 2015 May;403(1-2):231-41. PMID: 25707580
  • Jiang Q, Ma R, Wang J, Wu X et al. LncRNA2Function: a comprehensive resource for functional investigation of human lncRNAs based on RNA-seq data. BMC Genomics 2015;16 Suppl 3(Suppl 3):S2. PMID: 25707511
  • Tsukagoshi H, Suzuki T, Nishikawa K, Agarie S et al. RNA-seq analysis of the response of the halophyte, Mesembryanthemum crystallinum (ice plant) to high salinity. PLoS One 2015;10(2):e0118339. PMID: 25706745
  • Yin Y, Li X, Sha X, Xi H et al. Early hyperlipidemia promotes endothelial activation via a caspase-1-sirtuin 1 pathway. Arterioscler Thromb Vasc Biol 2015 Apr;35(4):804-16. PMID: 25705917
  • Xu C, Zheng Y, Lian D, Ye S et al. Analysis of microRNA expression profile identifies novel biomarkers for non-small cell lung cancer. Tumori 2015 Jan-Feb;101(1):104-10. PMID: 25702651
  • Wachter J, Masters TL, Wachter S, Mason J et al. pilS loci in Neisseria gonorrhoeae are transcriptionally active. Microbiology (Reading) 2015 May;161(Pt 5):1124-1135. PMID: 25701734
  • Bacalini MG, Boattini A, Gentilini D, Giampieri E et al. A meta-analysis on age-associated changes in blood DNA methylation: results from an original analysis pipeline for Infinium 450k data. Aging (Albany NY) 2015 Feb;7(2):97-109. PMID: 25701668
  • Hendrickx DM, Jennen DG, Briedé JJ, Cavill R et al. Pattern recognition methods to relate time profiles of gene expression with phenotypic data: a comparative study. Bioinformatics 2015 Jul 1;31(13):2115-22. PMID: 25701576
  • Ye G, Qin Y, Lu X, Xu X et al. The association of renin-angiotensin system genes with the progression of hepatocellular carcinoma. Biochem Biophys Res Commun 2015 Mar 27;459(1):18-23. PMID: 25701390
  • Li J, Zhou C, Li J, Su Z et al. Global correlation analysis for microRNA and gene expression profiles in human obesity. Pathol Res Pract 2015 May;211(5):361-8. PMID: 25701361
  • Holly AC, Grellscheid S, van de Walle P, Dolan D et al. Comparison of senescence-associated miRNAs in primary skin and lung fibroblasts. Biogerontology 2015 Aug;16(4):423-34. PMID: 25700689
  • Balboni AL, Cherukuri P, Ung M, DeCastro AJ et al. p53 and ΔNp63α Coregulate the Transcriptional and Cellular Response to TGFβ and BMP Signals. Mol Cancer Res 2015 Apr;13(4):732-42. PMID: 25700283
  • Kshirsagar M, Schleker S, Carbonell J, Klein-Seetharaman J et al. Techniques for transferring host-pathogen protein interactions knowledge to new tasks. Front Microbiol 2015;6:36. PMID: 25699028
  • Becker MA, Haluska P Jr, Bale LK, Oxvig C et al. A novel neutralizing antibody targeting pregnancy-associated plasma protein-a inhibits ovarian cancer growth and ascites accumulation in patient mouse tumorgrafts. Mol Cancer Ther 2015 Apr;14(4):973-81. PMID: 25695953
  • Rettig I, Koeneke E, Trippel F, Mueller WC et al. Selective inhibition of HDAC8 decreases neuroblastoma growth in vitro and in vivo and enhances retinoic acid-mediated differentiation. Cell Death Dis 2015 Feb 19;6(2):e1657. PMID: 25695609
  • Lee YS, Ryu SW, Bae SJ, Park TH et al. Cross-platform meta-analysis of multiple gene expression profiles identifies novel expression signatures in acquired anthracycline-resistant breast cancer. Oncol Rep 2015 Apr;33(4):1985-93. PMID: 25695524
  • Long Q, Johnson BA et al. Variable selection in the presence of missing data: resampling and imputation. Biostatistics 2015 Jul;16(3):596-610. PMID: 25694614
  • Yuan T, Jiao Y, de Jong S, Ophoff RA et al. An integrative multi-scale analysis of the dynamic DNA methylation landscape in aging. PLoS Genet 2015 Feb;11(2):e1004996. PMID: 25692570
  • Liscovitch N, Bazak L, Levanon EY, Chechik G et al. Positive correlation between ADAR expression and its targets suggests a complex regulation mediated by RNA editing in the human brain. RNA Biol 2014;11(11):1447-56. PMID: 25692240
  • Laprairie RB, Bagher AM, Precious SV, Denovan-Wright EM et al. Components of the endocannabinoid and dopamine systems are dysregulated in Huntington's disease: analysis of publicly available microarray datasets. Pharmacol Res Perspect 2015 Feb;3(1):e00104. PMID: 25692022
  • Wu K, Fukuda K, Xing F, Zhang Y et al. Roles of the cyclooxygenase 2 matrix metalloproteinase 1 pathway in brain metastasis of breast cancer. J Biol Chem 2015 Apr 10;290(15):9842-54. PMID: 25691572
  • Khandelwal N, Breinig M, Speck T, Michels T et al. A high-throughput RNAi screen for detection of immune-checkpoint molecules that mediate tumor resistance to cytotoxic T lymphocytes. EMBO Mol Med 2015 Apr;7(4):450-63. PMID: 25691366
  • Amin V, Harris RA, Onuchic V, Jackson AR et al. Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs. Nat Commun 2015 Feb 18;6:6370. PMID: 25691256
  • Lee ST, Muench MO, Fomin ME, Xiao J et al. Epigenetic remodeling in B-cell acute lymphoblastic leukemia occurs in two tracks and employs embryonic stem cell-like signatures. Nucleic Acids Res 2015 Mar 11;43(5):2590-602. PMID: 25690899
  • Pertea M, Pertea GM, Antonescu CM, Chang TC et al. StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol 2015 Mar;33(3):290-5. PMID: 25690850
  • de Sá Rodrigues LC, Holmes KE, Thompson V, Newton MA et al. Tumourigenic canine osteosarcoma cell lines associated with frizzled-6 up-regulation and enhanced side population cell frequency. Vet Comp Oncol 2017 Mar;15(1):78-93. PMID: 25689105
  • Fang F, Pan J, Xu L, Li G et al. Identification of potential transcriptomic markers in developing ankylosing spondylitis: a meta-analysis of gene expression profiles. Biomed Res Int 2015;2015:826316. PMID: 25688367
  • Suneja M, Fox DK, Fink BD, Herlein JA et al. Evidence for metabolic aberrations in asymptomatic persons with type 2 diabetes after initiation of simvastatin therapy. Transl Res 2015 Aug;166(2):176-87. PMID: 25683525
  • Jin Y, Wang L, Qu S, Sheng X et al. STAMP2 increases oxidative stress and is critical for prostate cancer. EMBO Mol Med 2015 Mar;7(3):315-31. PMID: 25680860
  • Seok JEvidence-based translation for the genomic responses of murine models for the study of human immunity. PLoS One 2015;10(2):e0118017. PMID: 25680113
  • Zamani-Ahmadmahmudi M, Najafi A, Nassiri SM et al. Reconstruction of canine diffuse large B-cell lymphoma gene regulatory network: detection of functional modules and hub genes. J Comp Pathol 2015 Feb-Apr;152(2-3):119-30. PMID: 25678421
  • Uchida S, Dimmeler S et al. Long noncoding RNAs in cardiovascular diseases. Circ Res 2015 Feb 13;116(4):737-50. PMID: 25677520
  • Li F, Huynh H, Li X, Ruddy DA et al. FGFR-Mediated Reactivation of MAPK Signaling Attenuates Antitumor Effects of Imatinib in Gastrointestinal Stromal Tumors. Cancer Discov 2015 Apr;5(4):438-51. PMID: 25673643
  • Bhajun R, Guyon L, Pitaval A, Sulpice E et al. A statistically inferred microRNA network identifies breast cancer target miR-940 as an actin cytoskeleton regulator. Sci Rep 2015 Feb 12;5:8336. PMID: 25673565
  • Hassen W, Kassambara A, Reme T, Sahota S et al. Drug metabolism and clearance system in tumor cells of patients with multiple myeloma. Oncotarget 2015 Mar 20;6(8):6431-47. PMID: 25669983
  • Riber W, Müller JT, Visser EJ, Sasidharan R et al. The greening after extended darkness1 is an N-end rule pathway mutant with high tolerance to submergence and starvation. Plant Physiol 2015 Apr;167(4):1616-29. PMID: 25667318
  • Pearce S, Ferguson A, King J, Wilson ZA et al. FlowerNet: a gene expression correlation network for anther and pollen development. Plant Physiol 2015 Apr;167(4):1717-30. PMID: 25667314
  • Xu J, Chen Y, Huo D, Khramtsov A et al. β-catenin regulates c-Myc and CDKN1A expression in breast cancer cells. Mol Carcinog 2016 May;55(5):431-9. PMID: 25663530
  • Peng J, Yoshioka Y, Mandai M, Matsumura N et al. The BMP signaling pathway leads to enhanced proliferation in serous ovarian cancer-A potential therapeutic target. Mol Carcinog 2016 Apr;55(4):335-45. PMID: 25663289
  • Chen R, Zhang Z, Xue Z, Wang L et al. Protein-protein interaction network of gene expression in the hydrocortisone-treated keloid. Int J Dermatol 2015;54(5):549-54. PMID: 25660986
  • Feng N, Wang Z, Zhang Z, He X et al. miR-487b promotes human umbilical vein endothelial cell proliferation, migration, invasion and tube formation through regulating THBS1. Neurosci Lett 2015 Mar 30;591:1-7. PMID: 25660232
  • Hill JJ, Tremblay TL, Fauteux F, Li J et al. Glycoproteomic comparison of clinical triple-negative and luminal breast tumors. J Proteome Res 2015 Mar 6;14(3):1376-88. PMID: 25658377
  • Guo S, Yan F, Xu J, Bao Y et al. Identification and validation of the methylation biomarkers of non-small cell lung cancer (NSCLC). Clin Epigenetics 2015;7(1):3. PMID: 25657825
  • Seiser EL, Innocenti F et al. Hidden Markov Model-Based CNV Detection Algorithms for Illumina Genotyping Microarrays. Cancer Inform 2014;13(Suppl 7):77-83. PMID: 25657572
  • Huang Y, Ng FS, Jackson FR et al. Comparison of larval and adult Drosophila astrocytes reveals stage-specific gene expression profiles. G3 (Bethesda) 2015 Feb 4;5(4):551-8. PMID: 25653313
  • Lunardi A, Varmeh S, Chen M, Taulli R et al. Suppression of CHK1 by ETS Family Members Promotes DNA Damage Response Bypass and Tumorigenesis. Cancer Discov 2015 May;5(5):550-63. PMID: 25653093
  • Yang YC, Di C, Hu B, Zhou M et al. CLIPdb: a CLIP-seq database for protein-RNA interactions. BMC Genomics 2015 Feb 5;16(1):51. PMID: 25652745
  • Mao AP, Shen J, Zuo Z et al. Expression and regulation of long noncoding RNAs in TLR4 signaling in mouse macrophages. BMC Genomics 2015 Feb 5;16(1):45. PMID: 25652569
  • Vaz-Drago R, Pinheiro MT, Martins S, Enguita FJ et al. Transcription-coupled RNA surveillance in human genetic diseases caused by splice site mutations. Hum Mol Genet 2015 May 15;24(10):2784-95. PMID: 25652404
  • Zhou Z, Gao J, Popovic R, Wolniak K et al. Strong expression of EZH2 and accumulation of trimethylated H3K27 in diffuse large B-cell lymphoma independent of cell of origin and EZH2 codon 641 mutation. Leuk Lymphoma 2015;56(10):2895-901. PMID: 25651430
  • Niess H, Camaj P, Mair R, Renner A et al. Overexpression of IFN-induced protein with tetratricopeptide repeats 3 (IFIT3) in pancreatic cancer: cellular "pseudoinflammation" contributing to an aggressive phenotype. Oncotarget 2015 Feb 20;6(5):3306-18. PMID: 25650658
  • Kim H, Shim JE, Shin J, Lee I et al. EcoliNet: a database of cofunctional gene network for Escherichia coli. Database (Oxford) 2015;2015. PMID: 25650278
  • Jiang F, Chen L, Yang YC, Wang XM et al. CYP3A5 Functions as a Tumor Suppressor in Hepatocellular Carcinoma by Regulating mTORC2/Akt Signaling. Cancer Res 2015 Apr 1;75(7):1470-81. PMID: 25649767
  • Liu C, Lou W, Zhu Y, Yang JC et al. Intracrine Androgens and AKR1C3 Activation Confer Resistance to Enzalutamide in Prostate Cancer. Cancer Res 2015 Apr 1;75(7):1413-22. PMID: 25649766
  • Götting M, Nikinmaa M et al. More than hemoglobin - the unexpected diversity of globins in vertebrate red blood cells. Physiol Rep 2015 Feb 1;3(2). PMID: 25649247
  • Casey T, Patel OV, Plaut K et al. Transcriptomes reveal alterations in gravity impact circadian clocks and activate mechanotransduction pathways with adaptation through epigenetic change. Physiol Genomics 2015 Apr;47(4):113-28. PMID: 25649141
  • Zhuo YJ, Xi M, Wan YP, Hua W et al. Enhanced expression of centromere protein F predicts clinical progression and prognosis in patients with prostate cancer. Int J Mol Med 2015 Apr;35(4):966-72. PMID: 25647485
  • Peña-Hernández R, Marques M, Hilmi K, Zhao T et al. Genome-wide targeting of the epigenetic regulatory protein CTCF to gene promoters by the transcription factor TFII-I. Proc Natl Acad Sci U S A 2015 Feb 17;112(7):E677-86. PMID: 25646466
  • Ma G, Yasunaga J, Akari H, Matsuoka M et al. TCF1 and LEF1 act as T-cell intrinsic HTLV-1 antagonists by targeting Tax. Proc Natl Acad Sci U S A 2015 Feb 17;112(7):2216-21. PMID: 25646419
  • Zhang L, Yang S, Chen X, Stauffer S et al. The hippo pathway effector YAP regulates motility, invasion, and castration-resistant growth of prostate cancer cells. Mol Cell Biol 2015 Apr;35(8):1350-62. PMID: 25645929
  • Yu N, Kakunda M, Pham V, Lill JR et al. HSP105 recruits protein phosphatase 2A to dephosphorylate β-catenin. Mol Cell Biol 2015 Apr;35(8):1390-400. PMID: 25645927
  • Haase K, Raffegerst S, Schendel DJ, Frishman D et al. Expitope: a web server for epitope expression. Bioinformatics 2015 Jun 1;31(11):1854-6. PMID: 25644270
  • Weiler S, Ademokun JA, Norton JD et al. ID helix-loop-helix proteins as determinants of cell survival in B-cell chronic lymphocytic leukemia cells in vitro. Mol Cancer 2015 Feb 3;14(1):30. PMID: 25644253
  • Thewes V, Simon R, Schroeter P, Schlotter M et al. Reprogramming of the ERRα and ERα target gene landscape triggers tamoxifen resistance in breast cancer. Cancer Res 2015 Feb 15;75(4):720-31. PMID: 25643697
  • Suarez NM, Bunsow E, Falsey AR, Walsh EE et al. Superiority of transcriptional profiling over procalcitonin for distinguishing bacterial from viral lower respiratory tract infections in hospitalized adults. J Infect Dis 2015 Jul 15;212(2):213-22. PMID: 25637350
  • Lowe R, Slodkowicz G, Goldman N, Rakyan VK et al. The human blood DNA methylome displays a highly distinctive profile compared with other somatic tissues. Epigenetics 2015;10(4):274-81. PMID: 25634226
  • Paczynska P, Grzemski A, Szydlowski M et al. Distribution of miRNA genes in the pig genome. BMC Genet 2015 Jan 30;16(1):6. PMID: 25632794
  • Sriskanthadevan S, Jeyaraju DV, Chung TE, Prabha S et al. AML cells have low spare reserve capacity in their respiratory chain that renders them susceptible to oxidative metabolic stress. Blood 2015 Mar 26;125(13):2120-30. PMID: 25631767
  • Soul J, Hardingham TE, Boot-Handford RP, Schwartz JM et al. PhenomeExpress: a refined network analysis of expression datasets by inclusion of known disease phenotypes. Sci Rep 2015 Jan 29;5:8117. PMID: 25631385
  • Shakhova O, Cheng P, Mishra PJ, Zingg D et al. Antagonistic cross-regulation between Sox9 and Sox10 controls an anti-tumorigenic program in melanoma. PLoS Genet 2015 Jan;11(1):e1004877. PMID: 25629959
  • Baron D, Ramstein G, Chesneau M, Echasseriau Y et al. A common gene signature across multiple studies relate biomarkers and functional regulation in tolerance to renal allograft. Kidney Int 2015 May;87(5):984-95. PMID: 25629549
  • Li L, Liu Y et al. Aging-related gene signature regulated by Nlrp3 predicts glioma progression. Am J Cancer Res 2015;5(1):442-9. PMID: 25628952
  • Khosravi P, Zahiri J, Gazestani VH, Mirkhalaf S et al. Analysis of candidate genes has proposed the role of y chromosome in human prostate cancer. Iran J Cancer Prev 2014 Fall;7(4):204-11. PMID: 25628841
  • Williams GDatabase of Gene Co-Regulation (dGCR): A Web Tool for Analysing Patterns of Gene Co-regulation across Publicly Available Expression Data. J Genomics 2015;3:29-35. PMID: 25628763
  • Tong Y, Niu N, Jenkins G, Batzler A et al. Identification of genetic variants or genes that are associated with Homoharringtonine (HHT) response through a genome-wide association study in human lymphoblastoid cell lines (LCLs). Front Genet 2014;5:465. PMID: 25628645
  • Horstick EJ, Jordan DC, Bergeron SA, Tabor KM et al. Increased functional protein expression using nucleotide sequence features enriched in highly expressed genes in zebrafish. Nucleic Acids Res 2015 Apr 20;43(7):e48. PMID: 25628360
  • Gumienny R, Zavolan M et al. Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G. Nucleic Acids Res 2015 Feb 18;43(3):1380-91. PMID: 25628353
  • Nandal UK, Vlietstra WJ, Byrman C, Jeeninga RE et al. Candidate prioritization for low-abundant differentially expressed proteins in 2D-DIGE datasets. BMC Bioinformatics 2015 Jan 28;16:25. PMID: 25627479
  • Lu Z, Lieber MR, Tsai AG, Pardo CE et al. Human lymphoid translocation fragile zones are hypomethylated and have accessible chromatin. Mol Cell Biol 2015 Apr;35(7):1209-22. PMID: 25624348
  • Boi M, Gaudio E, Bonetti P, Kwee I et al. The BET Bromodomain Inhibitor OTX015 Affects Pathogenetic Pathways in Preclinical B-cell Tumor Models and Synergizes with Targeted Drugs. Clin Cancer Res 2015 Apr 1;21(7):1628-38. PMID: 25623213
  • Ernst A, Frisén J et al. Adult neurogenesis in humans- common and unique traits in mammals. PLoS Biol 2015 Jan;13(1):e1002045. PMID: 25621867
  • Robinette ML, Fuchs A, Cortez VS, Lee JS et al. Transcriptional programs define molecular characteristics of innate lymphoid cell classes and subsets. Nat Immunol 2015 Mar;16(3):306-17. PMID: 25621825
  • Tanabe S, Aoyagi K, Yokozaki H, Sasaki H et al. Regulated genes in mesenchymal stem cells and gastric cancer. World J Stem Cells 2015 Jan 26;7(1):208-22. PMID: 25621121
  • Gu Y, Li P, Peng F, Zhang M et al. Autophagy-related prognostic signature for breast cancer. Mol Carcinog 2016 Mar;55(3):292-9. PMID: 25620657
  • Le Pera L, Mazzapioda M, Tramontano A et al. 3USS: a web server for detecting alternative 3'UTRs from RNA-seq experiments. Bioinformatics 2015 Jun 1;31(11):1845-7. PMID: 25617413
  • Dimova T, Brouwer M, Gosselin F, Tassignon J et al. Effector Vγ9Vδ2 T cells dominate the human fetal γδ T-cell repertoire. Proc Natl Acad Sci U S A 2015 Feb 10;112(6):E556-65. PMID: 25617367
  • Xu X, Tan X, Tampe B, Nyamsuren G et al. Epigenetic balance of aberrant Rasal1 promoter methylation and hydroxymethylation regulates cardiac fibrosis. Cardiovasc Res 2015 Mar 1;105(3):279-91. PMID: 25616414
  • Zhang W, Spector TD, Deloukas P, Bell JT et al. Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements. Genome Biol 2015 Jan 24;16(1):14. PMID: 25616342
  • Teodorczyk M, Kleber S, Wollny D, Sefrin JP et al. CD95 promotes metastatic spread via Sck in pancreatic ductal adenocarcinoma. Cell Death Differ 2015 Jul;22(7):1192-202. PMID: 25613377
  • Ma F, Li B, Liu SY, Iyer SS et al. Positive feedback regulation of type I IFN production by the IFN-inducible DNA sensor cGAS. J Immunol 2015 Feb 15;194(4):1545-54. PMID: 25609843
  • Qin J, Ma X, Yi Z, Tang Z et al. Intronic regions of plant genes potentially encode RDR (RNA-dependent RNA polymerase)-dependent small RNAs. J Exp Bot 2015 Apr;66(7):1763-8. PMID: 25609829
  • Sia D, Losic B, Moeini A, Cabellos L et al. Massive parallel sequencing uncovers actionable FGFR2-PPHLN1 fusion and ARAF mutations in intrahepatic cholangiocarcinoma. Nat Commun 2015 Jan 22;6:6087. PMID: 25608663
  • Zhang Z, Zhang Y, Sun XX, Ma X et al. microRNA-146a inhibits cancer metastasis by downregulating VEGF through dual pathways in hepatocellular carcinoma. Mol Cancer 2015 Jan 21;14:5. PMID: 25608619
  • Carissimi C, Laudadio I, Cipolletta E, Gioiosa S et al. ARGONAUTE2 cooperates with SWI/SNF complex to determine nucleosome occupancy at human Transcription Start Sites. Nucleic Acids Res 2015 Feb 18;43(3):1498-512. PMID: 25605800
  • Zhuo WL, Zhang L, Xie QC, Zhu B et al. Identifying differentially expressed genes and screening small molecule drugs for lapatinib-resistance of breast cancer by a bioinformatics strategy. Asian Pac J Cancer Prev 2014;15(24):10847-53. PMID: 25605188
  • Ernst M, Abu Dawud R, Kurtz A, Schotta G et al. Comparative computational analysis of pluripotency in human and mouse stem cells. Sci Rep 2015 Jan 21;5:7927. PMID: 25604210
  • Lund EG, Duband-Goulet I, Oldenburg A, Buendia B et al. Distinct features of lamin A-interacting chromatin domains mapped by ChIP-sequencing from sonicated or micrococcal nuclease-digested chromatin. Nucleus 2015;6(1):30-9. PMID: 25602132
  • Loo JM, Scherl A, Nguyen A, Man FY et al. Extracellular metabolic energetics can promote cancer progression. Cell 2015 Jan 29;160(3):393-406. PMID: 25601461
  • Kim SH, Joshi K, Ezhilarasan R, Myers TR et al. EZH2 protects glioma stem cells from radiation-induced cell death in a MELK/FOXM1-dependent manner. Stem Cell Reports 2015 Feb 10;4(2):226-38. PMID: 25601206
  • Blazie SM, Babb C, Wilky H, Rawls A et al. Comparative RNA-Seq analysis reveals pervasive tissue-specific alternative polyadenylation in Caenorhabditis elegans intestine and muscles. BMC Biol 2015 Jan 20;13:4. PMID: 25601023
  • Aibar S, Fontanillo C, Droste C, De Las Rivas J et al. Functional Gene Networks: R/Bioc package to generate and analyse gene networks derived from functional enrichment and clustering. Bioinformatics 2015 May 15;31(10):1686-8. PMID: 25600944
  • Cheng SP, Liu CL, Chen MJ, Chien MN et al. CD74 expression and its therapeutic potential in thyroid carcinoma. Endocr Relat Cancer 2015 Apr;22(2):179-90. PMID: 25600560
  • Pers TH, Karjalainen JM, Chan Y, Westra HJ et al. Biological interpretation of genome-wide association studies using predicted gene functions. Nat Commun 2015 Jan 19;6:5890. PMID: 25597830
  • Quinn M, Turula H, Tandon M, Deslouches B et al. Memory T cells specific for murine cytomegalovirus re-emerge after multiple challenges and recapitulate immunity in various adoptive transfer scenarios. J Immunol 2015 Feb 15;194(4):1726-1736. PMID: 25595792
  • Ballinger MN, Newstead MW, Zeng X, Bhan U et al. IRAK-M promotes alternative macrophage activation and fibroproliferation in bleomycin-induced lung injury. J Immunol 2015 Feb 15;194(4):1894-904. PMID: 25595781
  • Zaravinos A, Pieri M, Mourmouras N, Anastasiadou N et al. Altered metabolic pathways in clear cell renal cell carcinoma: A meta-analysis and validation study focused on the deregulated genes and their associated networks. Oncoscience 2014;1(2):117-31. PMID: 25594006
  • Jin W, Wu F et al. Characterization of miRNAs associated with Botrytis cinerea infection of tomato leaves. BMC Plant Biol 2015 Jan 16;15:1. PMID: 25592487
  • West DB, Pasumarthi RK, Baridon B, Djan E et al. A lacZ reporter gene expression atlas for 313 adult KOMP mutant mouse lines. Genome Res 2015 Apr;25(4):598-607. PMID: 25591789
  • Lee J, Seol MY, Jeong S, Lee CR et al. A metabolic phenotype based on mitochondrial ribosomal protein expression as a predictor of lymph node metastasis in papillary thyroid carcinoma. Medicine (Baltimore) 2015 Jan;94(2):e380. PMID: 25590838
  • Arora AMicroRNA targets: potential candidates for indirect regulation by drugs. Pharmacogenet Genomics 2015 Mar;25(3):107-25. PMID: 25590610
  • English JG, Shellhammer JP, Malahe M, McCarter PC et al. MAPK feedback encodes a switch and timer for tunable stress adaptation in yeast. Sci Signal 2015 Jan 13;8(359):ra5. PMID: 25587192
  • Hill R, Kalathur RK, Colaço L, Brandão R et al. TRIB2 as a biomarker for diagnosis and progression of melanoma. Carcinogenesis 2015 Apr;36(4):469-77. PMID: 25586991
  • Zhou J, Wu K, Gao D, Zhu G et al. Reciprocal regulation of hypoxia-inducible factor 2α and GLI1 expression associated with the radioresistance of renal cell carcinoma. Int J Radiat Oncol Biol Phys 2014 Nov 15;90(4):942-51. PMID: 25585786
  • Dong Y, Geng Y, Li L, Li X et al. Blocking follistatin-like 1 attenuates bleomycin-induced pulmonary fibrosis in mice. J Exp Med 2015 Feb 9;212(2):235-52. PMID: 25584011
  • Zhao H, Bauzon F, Bi E, Yu JJ et al. Substituting threonine 187 with alanine in p27Kip1 prevents pituitary tumorigenesis by two-hit loss of Rb1 and enhances humoral immunity in old age. J Biol Chem 2015 Feb 27;290(9):5797-809. PMID: 25583987
  • Logsdon BA, Gentles AJ, Miller CP, Blau CA et al. Sparse expression bases in cancer reveal tumor drivers. Nucleic Acids Res 2015 Feb 18;43(3):1332-44. PMID: 25583238
  • Beuselinck B, Job S, Becht E, Karadimou A et al. Molecular subtypes of clear cell renal cell carcinoma are associated with sunitinib response in the metastatic setting. Clin Cancer Res 2015 Mar 15;21(6):1329-39. PMID: 25583177
  • Ikebata H, Yoshida R et al. Repulsive parallel MCMC algorithm for discovering diverse motifs from large sequence sets. Bioinformatics 2015 May 15;31(10):1561-8. PMID: 25583120
  • Zhu Q, Wong AK, Krishnan A, Aure MR et al. Targeted exploration and analysis of large cross-platform human transcriptomic compendia. Nat Methods 2015 Mar;12(3):211-4, 3 p following 214. PMID: 25581801
  • Menor MS, Baek K, Poisson G et al. Prediction of mature microRNA and piwi-interacting RNA without a genome reference or precursors. Int J Mol Sci 2015 Jan 8;16(1):1466-81. PMID: 25580537
  • Vyas V, Ashby CR Jr, Olgun NS, Sundaram S et al. Inhibition of sphingosine kinase prevents lipopolysaccharide-induced preterm birth and suppresses proinflammatory responses in a murine model. Am J Pathol 2015 Mar;185(3):862-9. PMID: 25579843
  • Zheng S, Qiao G, Min D, Zhang Z et al. Heterogeneous expression and biological function of ubiquitin carboxy-terminal hydrolase-L1 in osteosarcoma. Cancer Lett 2015 Apr 1;359(1):36-46. PMID: 25578779
  • Maimaiti A, Abudoukeremu K, Tie L, Pan Y et al. MicroRNA expression profiling and functional annotation analysis of their targets associated with the malignant transformation of oral leukoplakia. Gene 2015 Mar 10;558(2):271-7. PMID: 25576219
  • Huang Y, Yu X, Sun N, Qiao N et al. Single-cell-level spatial gene expression in the embryonic neural differentiation niche. Genome Res 2015 Apr;25(4):570-81. PMID: 25575549
  • Moon JS, Lee S, Park MA, Siempos II et al. UCP2-induced fatty acid synthase promotes NLRP3 inflammasome activation during sepsis. J Clin Invest 2015 Feb;125(2):665-80. PMID: 25574840
  • Pang H, Zhao H et al. Stratified pathway analysis to identify gene sets associated with oral contraceptive use and breast cancer. Cancer Inform 2014;13(Suppl 4):73-8. PMID: 25574128
  • Houseman EA, Ince TA et al. Normal cell-type epigenetics and breast cancer classification: a case study of cell mixture-adjusted analysis of DNA methylation data from tumors. Cancer Inform 2014;13(Suppl 4):53-64. PMID: 25574126
  • Zhuang DY, Jiang L, He QQ, Zhou P et al. Identification of hub subnetwork based on topological features of genes in breast cancer. Int J Mol Med 2015 Mar;35(3):664-74. PMID: 25573623
  • Ma F, Li B, Yu Y, Iyer SS et al. Positive feedback regulation of type I interferon by the interferon-stimulated gene STING. EMBO Rep 2015 Feb;16(2):202-12. PMID: 25572843
  • Nasser MW, Wani NA, Ahirwar DK, Powell CA et al. RAGE mediates S100A7-induced breast cancer growth and metastasis by modulating the tumor microenvironment. Cancer Res 2015 Mar 15;75(6):974-85. PMID: 25572331
  • Luo XC, Sun MH, Xu RR, Shu HR et al. Genomewide identification and expression analysis of the ARF gene family in apple. J Genet 2014 Dec;93(3):785-97. PMID: 25572237
  • Baker EK, Taylor S, Gupte A, Chalk AM et al. Wnt inhibitory factor 1 (WIF1) is a marker of osteoblastic differentiation stage and is not silenced by DNA methylation in osteosarcoma. Bone 2015 Apr;73:223-32. PMID: 25571841
  • Chen KY, Liu X, Bu P, Lin CS et al. A metabolic signature of colon cancer initiating cells. Annu Int Conf IEEE Eng Med Biol Soc 2014;2014:4759-62. PMID: 25571056
  • Vijai J, Wang Z, Berndt SI, Skibola CF et al. A genome-wide association study of marginal zone lymphoma shows association to the HLA region. Nat Commun 2015 Jan 8;6:5751. PMID: 25569183
  • Tsujimura T, Klein FA, Langenfeld K, Glaser J et al. A discrete transition zone organizes the topological and regulatory autonomy of the adjacent tfap2c and bmp7 genes. PLoS Genet 2015 Jan;11(1):e1004897. PMID: 25569170
  • Haycocks JR, Sharma P, Stringer AM, Wade JT et al. The molecular basis for control of ETEC enterotoxin expression in response to environment and host. PLoS Pathog 2015 Jan;11(1):e1004605. PMID: 25569153
  • Ramasamy A, Trabzuni D, Forabosco P, Smith C et al. Genetic evidence for a pathogenic role for the vitamin D3 metabolizing enzyme CYP24A1 in multiple sclerosis. Mult Scler Relat Disord 2014 Mar;3(2):211-219. PMID: 25568836
  • Ertaylan G, Okawa S, Schwamborn JC, Del Sol A et al. Gene regulatory network analysis reveals differences in site-specific cell fate determination in mammalian brain. Front Cell Neurosci 2014;8:437. PMID: 25565969
  • Zhou L, Park SY, Xu L, Xia X et al. Insulin resistance and white adipose tissue inflammation are uncoupled in energetically challenged Fsp27-deficient mice. Nat Commun 2015 Jan 7;6:5949. PMID: 25565658
  • Feng Q, Snider L, Jagannathan S, Tawil R et al. A feedback loop between nonsense-mediated decay and the retrogene DUX4 in facioscapulohumeral muscular dystrophy. Elife 2015 Jan 7;4. PMID: 25564732
  • Madsen JG, Schmidt SF, Larsen BD, Loft A et al. iRNA-seq: computational method for genome-wide assessment of acute transcriptional regulation from total RNA-seq data. Nucleic Acids Res 2015 Mar 31;43(6):e40. PMID: 25564527
  • Newman EA, Lu F, Bashllari D, Wang L et al. Alternative NHEJ Pathway Components Are Therapeutic Targets in High-Risk Neuroblastoma. Mol Cancer Res 2015 Mar;13(3):470-82. PMID: 25563294
  • Israel E, Lasky-Su J, Markezich A, Damask A et al. Genome-wide association study of short-acting β2-agonists. A novel genome-wide significant locus on chromosome 2 near ASB3. Am J Respir Crit Care Med 2015 Mar 1;191(5):530-7. PMID: 25562107
  • Massie CE, Spiteri I, Ross-Adams H, Luxton H et al. HES5 silencing is an early and recurrent change in prostate tumourigenesis. Endocr Relat Cancer 2015 Apr;22(2):131-44. PMID: 25560400
  • Ingemarsdotter CK, Tookman LA, Browne A, Pirlo K et al. Paclitaxel resistance increases oncolytic adenovirus efficacy via upregulated CAR expression and dysfunctional cell cycle control. Mol Oncol 2015 Apr;9(4):791-805. PMID: 25560085
  • Harr JC, Luperchio TR, Wong X, Cohen E et al. Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins. J Cell Biol 2015 Jan 5;208(1):33-52. PMID: 25559185
  • Sitras V, Fenton C, Acharya G et al. Gene expression profile in cardiovascular disease and preeclampsia: a meta-analysis of the transcriptome based on raw data from human studies deposited in Gene Expression Omnibus. Placenta 2015 Feb;36(2):170-8. PMID: 25555499
  • Sawatzke AB, Norris AW, Spyropoulos F, Walsh SA et al. PET/CT imaging reveals unrivaled placental avidity for glucose compared to other tissues. Placenta 2015 Feb;36(2):115-20. PMID: 25555498
  • Both J, Krijgsman O, Bras J, Schaap GR et al. Focal chromosomal copy number aberrations identify CMTM8 and GPR177 as new candidate driver genes in osteosarcoma. PLoS One 2014;9(12):e115835. PMID: 25551557
  • Leavenworth JW, Verbinnen B, Wang Q, Shen E et al. Intracellular osteopontin regulates homeostasis and function of natural killer cells. Proc Natl Acad Sci U S A 2015 Jan 13;112(2):494-9. PMID: 25550515
  • Wang B, Song N, Yu T, Zhou L et al. Expression of tumor necrosis factor-alpha-mediated genes predicts recurrence-free survival in lung cancer. PLoS One 2014;9(12):e115945. PMID: 25548907
  • Kowalewski DJ, Schuster H, Backert L, Berlin C et al. HLA ligandome analysis identifies the underlying specificities of spontaneous antileukemia immune responses in chronic lymphocytic leukemia (CLL). Proc Natl Acad Sci U S A 2015 Jan 13;112(2):E166-75. PMID: 25548167
  • Wang K, Liang C, Liu J, Xiao H et al. Prediction of piRNAs using transposon interaction and a support vector machine. BMC Bioinformatics 2014 Dec 30;15(1):419. PMID: 25547961
  • Joshi AMammalian transcriptional hotspots are enriched for tissue specific enhancers near cell type specific highly expressed genes and are predicted to act as transcriptional activator hubs. BMC Bioinformatics 2014 Dec 30;15(1):412. PMID: 25547756
  • Euring D, Bai H, Janz D, Polle A et al. Nitrogen-driven stem elongation in poplar is linked with wood modification and gene clusters for stress, photosynthesis and cell wall formation. BMC Plant Biol 2014 Dec 30;14:391. PMID: 25547614
  • Rye IH, Lundin P, Månér S, Fjelldal R et al. Quantitative multigene FISH on breast carcinomas identifies der(1;16)(q10;p10) as an early event in luminal A tumors. Genes Chromosomes Cancer 2015 Apr;54(4):235-48. PMID: 25546585
  • Wen J, Duan H, Bejarano F, Okamura K et al. Adaptive regulation of testis gene expression and control of male fertility by the Drosophila hairpin RNA pathway. [Corrected]. Mol Cell 2015 Jan 8;57(1):165-78. PMID: 25544562
  • Chae HD, Mitton B, Lacayo NJ, Sakamoto KM et al. Replication factor C3 is a CREB target gene that regulates cell cycle progression through the modulation of chromatin loading of PCNA. Leukemia 2015 Jun;29(6):1379-89. PMID: 25541153
  • Yi YW, Oh S et al. Comparative analysis of NRF2-responsive gene expression in AcPC-1 pancreatic cancer cell line. Genes Genomics 2015;37(1):97-109. PMID: 25540678
  • Yang JR, Zhang J et al. Human long noncoding RNAs are substantially less folded than messenger RNAs. Mol Biol Evol 2015 Apr;32(4):970-7. PMID: 25540450
  • Killian JK, Miettinen M, Walker RL, Wang Y et al. Recurrent epimutation of SDHC in gastrointestinal stromal tumors. Sci Transl Med 2014 Dec 24;6(268):268ra177. PMID: 25540324
  • Forrester SJ, Kawata K, Lee H, Kim JS et al. Bioinformatic identification of connective tissue growth factor as an osteogenic protein within skeletal muscle. Physiol Rep 2014 Dec 1;2(12). PMID: 25539834
  • da Silva SR, Perrone GC, Dinis JM, de Almeida RM et al. Reproducibility enhancement and differential expression of non predefined functional gene sets in human genome. BMC Genomics 2014 Dec 24;15(1):1181. PMID: 25539829
  • Wang J, Fan C et al. A neutrality test for detecting selection on DNA methylation using single methylation polymorphism frequency spectrum. Genome Biol Evol 2014 Dec 23;7(1):154-71. PMID: 25539727
  • van de Lagemaat LN, Nijhof B, Bosch DG, Kohansal-Nodehi M et al. Age-related decreased inhibitory vs. excitatory gene expression in the adult autistic brain. Front Neurosci 2014;8:394. PMID: 25538548
  • Commo F, Ferté C, Soria JC, Friend SH et al. Impact of centralization on aCGH-based genomic profiles for precision medicine in oncology. Ann Oncol 2015 Mar;26(3):582-8. PMID: 25538175
  • Martz CA, Ottina KA, Singleton KR, Jasper JS et al. Systematic identification of signaling pathways with potential to confer anticancer drug resistance. Sci Signal 2014 Dec 23;7(357):ra121. PMID: 25538079
  • Liu L, Kimball S, Liu H, Holowatyj A et al. Genetic alterations of histone lysine methyltransferases and their significance in breast cancer. Oncotarget 2015 Feb 10;6(4):2466-82. PMID: 25537518
  • Zhang X, Cheng SL, Bian K, Wang L et al. MicroRNA-26a promotes anoikis in human hepatocellular carcinoma cells by targeting alpha5 integrin. Oncotarget 2015 Feb 10;6(4):2277-89. PMID: 25537511
  • Jeong E, He N, Park H, Song M et al. MACE: mutation-oriented profiling of chemical response and gene expression in cancers. Bioinformatics 2015 May 1;31(9):1508-14. PMID: 25536965
  • Dmitrenko VV, Ershov AV, Stetsiuk PI, Likhovid AP et al. [Determination of molecular glioblastoma subclasses on the basis of analysis of gene expression]. Tsitol Genet 2014 Nov-Dec;48(6):45-55. PMID: 25536822
  • Kim JH, Sohn BH, Lee HS, Kim SB et al. Genomic predictors for recurrence patterns of hepatocellular carcinoma: model derivation and validation. PLoS Med 2014 Dec;11(12):e1001770. PMID: 25536056
  • Kuan PFPropensity score method for partially matched omics studies. Cancer Inform 2014;13(Suppl 7):1-10. PMID: 25535453
  • Chen W, Hong YQ, Meng ZL et al. Bioinformatics analysis of molecular mechanisms of chronic obstructive pulmonary disease. Eur Rev Med Pharmacol Sci 2014;18(23):3557-63. PMID: 25535123
  • Xu X, Lan W, Jin X, Wang B et al. Regulated expression of PTPRJ by COX-2/PGE2 axis in endothelial cells. PLoS One 2014;9(12):e114996. PMID: 25532119
  • Nguyen LP, Pan J, Dinh TT, Hadeiba H et al. Role and species-specific expression of colon T cell homing receptor GPR15 in colitis. Nat Immunol 2015 Feb;16(2):207-213. PMID: 25531831
  • Imajo M, Ebisuya M, Nishida E et al. Dual role of YAP and TAZ in renewal of the intestinal epithelium. Nat Cell Biol 2015 Jan;17(1):7-19. PMID: 25531778
  • Okada T, Sinha S, Esposito I, Schiavon G et al. The Rho GTPase Rnd1 suppresses mammary tumorigenesis and EMT by restraining Ras-MAPK signalling. Nat Cell Biol 2015 Jan;17(1):81-94. PMID: 25531777
  • Chang J, Gilman SR, Chiang AH, Sanders SJ et al. Genotype to phenotype relationships in autism spectrum disorders. Nat Neurosci 2015 Feb;18(2):191-8. PMID: 25531569
  • Zeng L, Morinibu A, Kobayashi M, Zhu Y et al. Aberrant IDH3α expression promotes malignant tumor growth by inducing HIF-1-mediated metabolic reprogramming and angiogenesis. Oncogene 2015 Sep 3;34(36):4758-66. PMID: 25531325
  • Gong X, Yi J, Carmon KS, Crumbley CA et al. Aberrant RSPO3-LGR4 signaling in Keap1-deficient lung adenocarcinomas promotes tumor aggressiveness. Oncogene 2015 Sep 3;34(36):4692-701. PMID: 25531322
  • Alaba S, Piszczalka P, Pietrykowska H, Pacak AM et al. The liverwort Pellia endiviifolia shares microtranscriptomic traits that are common to green algae and land plants. New Phytol 2015 Apr;206(1):352-367. PMID: 25530158
  • Li Q, Eichten SR, Hermanson PJ, Zaunbrecher VM et al. Genetic perturbation of the maize methylome. Plant Cell 2014 Dec;26(12):4602-16. PMID: 25527708
  • Duan CG, Zhang H, Tang K, Zhu X et al. Specific but interdependent functions for Arabidopsis AGO4 and AGO6 in RNA-directed DNA methylation. EMBO J 2015 Mar 4;34(5):581-92. PMID: 25527293
  • Cattaneo P, Kunderfranco P, Greco C, Guffanti A et al. DOT1L-mediated H3K79me2 modification critically regulates gene expression during cardiomyocyte differentiation. Cell Death Differ 2016 Apr;23(4):555-64. PMID: 25526092
  • Vadrot N, Duband-Goulet I, Cabet E, Attanda W et al. The p.R482W substitution in A-type lamins deregulates SREBP1 activity in Dunnigan-type familial partial lipodystrophy. Hum Mol Genet 2015 Apr 1;24(7):2096-109. PMID: 25524705
  • Li YI, Sanchez-Pulido L, Haerty W, Ponting CP et al. RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts. Genome Res 2015 Jan;25(1):1-13. PMID: 25524026
  • Mataki H, Seki N, Chiyomaru T, Enokida H et al. Tumor-suppressive microRNA-206 as a dual inhibitor of MET and EGFR oncogenic signaling in lung squamous cell carcinoma. Int J Oncol 2015 Mar;46(3):1039-50. PMID: 25522678
  • Srihari S, Madhamshettiwar PB, Song S, Liu C et al. Complex-based analysis of dysregulated cellular processes in cancer. BMC Syst Biol 2014;8 Suppl 4(Suppl 4):S1. PMID: 25521701
  • Song R, Liu Q, Hutvagner G, Nguyen H et al. Rule discovery and distance separation to detect reliable miRNA biomarkers for the diagnosis of lung squamous cell carcinoma. BMC Genomics 2014;15 Suppl 9(Suppl 9):S16. PMID: 25521201
  • Barter RL, Schramm SJ, Mann GJ, Yang YH et al. Network-based biomarkers enhance classical approaches to prognostic gene expression signatures. BMC Syst Biol 2014;8 Suppl 4(Suppl 4):S5. PMID: 25521200
  • Goswami CP, Nakshatri H et al. PROGgeneV2: enhancements on the existing database. BMC Cancer 2014 Dec 17;14:970. PMID: 25518851
  • Griner EM, Dancik GM, Costello JC, Owens C et al. RhoC Is an Unexpected Target of RhoGDI2 in Prevention of Lung Colonization of Bladder Cancer. Mol Cancer Res 2015 Mar;13(3):483-92. PMID: 25516960
  • Chang YT, Yao CT, Su SL, Chou YC et al. Verification of gene expression profiles for colorectal cancer using 12 internet public microarray datasets. World J Gastroenterol 2014 Dec 14;20(46):17476-82. PMID: 25516661
  • Lv M, Wang L et al. Comprehensive analysis of genes, pathways, and TFs in nonsmoking Taiwan females with lung cancer. Exp Lung Res 2015 Mar;41(2):74-83. PMID: 25514196
  • Ballarino M, Cazzella V, D'Andrea D, Grassi L et al. Novel long noncoding RNAs (lncRNAs) in myogenesis: a miR-31 overlapping lncRNA transcript controls myoblast differentiation. Mol Cell Biol 2015 Feb;35(4):728-36. PMID: 25512605
  • Kulic I, Robertson G, Chang L, Baker JH et al. Loss of the Notch effector RBPJ promotes tumorigenesis. J Exp Med 2015 Jan 12;212(1):37-52. PMID: 25512468
  • Cho YA, Jue SS, Bae WJ, Heo SH et al. PIN1 inhibition suppresses osteoclast differentiation and inflammatory responses. J Dent Res 2015 Feb;94(2):371-80. PMID: 25512367
  • Zhao XM, Liu KQ, Zhu G, He F et al. Identifying cancer-related microRNAs based on gene expression data. Bioinformatics 2015 Apr 15;31(8):1226-34. PMID: 25505085
  • Forte E, Raja AN, Shamulailatpam P, Manzano M et al. MicroRNA-mediated transformation by the Kaposi's sarcoma-associated herpesvirus Kaposin locus. J Virol 2015 Feb;89(4):2333-41. PMID: 25505059
  • Pfenning AR, Hara E, Whitney O, Rivas MV et al. Convergent transcriptional specializations in the brains of humans and song-learning birds. Science 2014 Dec 12;346(6215):1256846. PMID: 25504733
  • Suryani S, Bracken LS, Harvey RC, Sia KC et al. Evaluation of the in vitro and in vivo efficacy of the JAK inhibitor AZD1480 against JAK-mutated acute lymphoblastic leukemia. Mol Cancer Ther 2015 Feb;14(2):364-74. PMID: 25504635
  • Baida G, Bhalla P, Kirsanov K, Lesovaya E et al. REDD1 functions at the crossroads between the therapeutic and adverse effects of topical glucocorticoids. EMBO Mol Med 2015 Jan;7(1):42-58. PMID: 25504525
  • Shen X, De Jonge J, Forsberg SK, Pettersson ME et al. Natural CMT2 variation is associated with genome-wide methylation changes and temperature seasonality. PLoS Genet 2014 Dec;10(12):e1004842. PMID: 25503602
  • Zhang Z, Qi S, Tang N, Zhang X et al. Discovery of replicating circular RNAs by RNA-seq and computational algorithms. PLoS Pathog 2014 Dec;10(12):e1004553. PMID: 25503469
  • Hughes ALEvolutionary diversification of insect innexins. J Insect Sci 2014;14. PMID: 25502029
  • Wang HJ, Gao Y, Chen L, Li YL et al. RAB34 was a progression- and prognosis-associated biomarker in gliomas. Tumour Biol 2015 Mar;36(3):1573-8. PMID: 25501506
  • Chen DB, Yang HJ et al. Comparison of gene regulatory networks of benign and malignant breast cancer samples with normal samples. Genet Mol Res 2014 Nov 11;13(4):9453-62. PMID: 25501155
  • Wu Y, Zang WD, Jiang W et al. Functional analysis of differentially expressed genes associated with glaucoma from DNA microarray data. Genet Mol Res 2014 Nov 11;13(4):9421-8. PMID: 25501152
  • Zhu YC, Deng BY, Zhang LG, Xu P et al. Protein-protein interaction network analysis of osteoarthritis-related differentially expressed genes. Genet Mol Res 2014 Nov 11;13(4):9343-51. PMID: 25501146
  • Phuchareon J, Overdevest JB, McCormick F, Eisele DW et al. Fatty Acid binding protein 7 is a molecular marker in adenoid cystic carcinoma of the salivary glands: implications for clinical significance. Transl Oncol 2014 Dec;7(6):780-7. PMID: 25500088
  • Mahauad-Fernandez WD, DeMali KA, Olivier AK, Okeoma CM et al. Bone marrow stromal antigen 2 expressed in cancer cells promotes mammary tumor growth and metastasis. Breast Cancer Res 2014 Dec 13;16(6):493. PMID: 25499888
  • McMullen JR, Boey EJ, Ooi JY, Seymour JF et al. Ibrutinib increases the risk of atrial fibrillation, potentially through inhibition of cardiac PI3K-Akt signaling. Blood 2014 Dec 11;124(25):3829-30. PMID: 25498454
  • Wang J, Cai Z, Liu J et al. Microarray analysis for differentially expressed genes of patients undergoing total knee arthroplasty with ischemia preconditioning. J Orthop Surg Res 2014;9(1):133. PMID: 25496472
  • Haskins JW, Nguyen DX, Stern DF et al. Neuregulin 1-activated ERBB4 interacts with YAP to induce Hippo pathway target genes and promote cell migration. Sci Signal 2014 Dec 9;7(355):ra116. PMID: 25492965
  • Berens AJ, Hunt JH, Toth AL et al. Comparative transcriptomics of convergent evolution: different genes but conserved pathways underlie caste phenotypes across lineages of eusocial insects. Mol Biol Evol 2015 Mar;32(3):690-703. PMID: 25492498
  • Ost M, Keipert S, van Schothorst EM, Donner V et al. Muscle mitohormesis promotes cellular survival via serine/glycine pathway flux. FASEB J 2015 Apr;29(4):1314-28. PMID: 25491309
  • Fitzpatrick MA, McGrath CM, Young SP et al. Pathomx: an interactive workflow-based tool for the analysis of metabolomic data. BMC Bioinformatics 2014 Dec 10;15(1):396. PMID: 25490956
  • He B, Lanz RB, Fiskus W, Geng C et al. GATA2 facilitates steroid receptor coactivator recruitment to the androgen receptor complex. Proc Natl Acad Sci U S A 2014 Dec 23;111(51):18261-6. PMID: 25489091
  • Boufraqech M, Nilubol N, Zhang L, Gara SK et al. miR30a inhibits LOX expression and anaplastic thyroid cancer progression. Cancer Res 2015 Jan 15;75(2):367-77. PMID: 25488748
  • Castonguay E, White SA, Kagansky A, St-Cyr DJ et al. Panspecies small-molecule disruptors of heterochromatin-mediated transcriptional gene silencing. Mol Cell Biol 2015 Feb;35(4):662-74. PMID: 25487573
  • Hattori H, Janky R, Nietfeld W, Aerts S et al. p53 shapes genome-wide and cell type-specific changes in microRNA expression during the human DNA damage response. Cell Cycle 2014;13(16):2572-86. PMID: 25486198
  • Salem K, McCormick ML, Wendlandt E, Zhan F et al. Copper-zinc superoxide dismutase-mediated redox regulation of bortezomib resistance in multiple myeloma. Redox Biol 2015;4:23-33. PMID: 25485927
  • Klijn C, Durinck S, Stawiski EW, Haverty PM et al. A comprehensive transcriptional portrait of human cancer cell lines. Nat Biotechnol 2015 Mar;33(3):306-12. PMID: 25485619
  • Cadenas C, van de Sandt L, Edlund K, Lohr M et al. Loss of circadian clock gene expression is associated with tumor progression in breast cancer. Cell Cycle 2014;13(20):3282-91. PMID: 25485508
  • Yu Y, Li S, Wang H, Bi L et al. Comprehensive network analysis of genes expressed in human oropharyngeal cancer. Am J Otolaryngol 2015 Mar-Apr;36(2):235-41. PMID: 25484365
  • Guo X, Wang Y, Wang C, Chen J et al. Identification of several hub-genes associated with periodontitis using integrated microarray analysis. Mol Med Rep 2015 Apr;11(4):2541-7. PMID: 25483140
  • Lipka DB, Wang Q, Cabezas-Wallscheid N, Klimmeck D et al. Identification of DNA methylation changes at cis-regulatory elements during early steps of HSC differentiation using tagmentation-based whole genome bisulfite sequencing. Cell Cycle 2014;13(22):3476-87. PMID: 25483069
  • Watanabe T, Cheng EC, Zhong M, Lin H et al. Retrotransposons and pseudogenes regulate mRNAs and lncRNAs via the piRNA pathway in the germline. Genome Res 2015 Mar;25(3):368-80. PMID: 25480952
  • Chmielewski S, Olejnik A, Sikorski K, Pelisek J et al. STAT1-dependent signal integration between IFNγ and TLR4 in vascular cells reflect pro-atherogenic responses in human atherosclerosis. PLoS One 2014;9(12):e113318. PMID: 25478796
  • Manthey AL, Terrell AM, Lachke SA, Polson SW et al. Development of novel filtering criteria to analyze RNA-sequencing data obtained from the murine ocular lens during embryogenesis. Genom Data 2014 Dec 1;2:369-374. PMID: 25478318
  • Chong TW, Goh FY, Sim MY, Huang HH et al. CD1d expression in renal cell carcinoma is associated with higher relapse rates, poorer cancer-specific and overall survival. J Clin Pathol 2015 Mar;68(3):200-5. PMID: 25477528
  • Griffon A, Barbier Q, Dalino J, van Helden J et al. Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape. Nucleic Acids Res 2015 Feb 27;43(4):e27. PMID: 25477382
  • Ma Y, Smith CE, Lai CQ, Irvin MR et al. Genetic variants modify the effect of age on APOE methylation in the Genetics of Lipid Lowering Drugs and Diet Network study. Aging Cell 2015 Feb;14(1):49-59. PMID: 25476875
  • Wang F, Tian Z, Wei H et al. Genomic expression profiling of NK cells in health and disease. Eur J Immunol 2015 Mar;45(3):661-78. PMID: 25476835
  • Pelleri MC, Piovesan A, Caracausi M, Berardi AC et al. Integrated differential transcriptome maps of Acute Megakaryoblastic Leukemia (AMKL) in children with or without Down Syndrome (DS). BMC Med Genomics 2014 Dec 5;7:63. PMID: 25476127
  • Hao C, Yang Z, Gao B, Lu M et al. Database screening of herbal monomers regulating autophagy by constructing a "disease-gene-drug" network. BMC Complement Altern Med 2014 Dec 4;14:466. PMID: 25475428
  • Fontana MF, Baccarella A, Pancholi N, Pufall MA et al. JUNB is a key transcriptional modulator of macrophage activation. J Immunol 2015 Jan 1;194(1):177-86. PMID: 25472994
  • Fan X, Kurgan L et al. Comprehensive overview and assessment of computational prediction of microRNA targets in animals. Brief Bioinform 2015 Sep;16(5):780-94. PMID: 25471818
  • Cano I, Tényi Á, Schueller C, Wolff M et al. The COPD Knowledge Base: enabling data analysis and computational simulation in translational COPD research. J Transl Med 2014 Nov 28;12 Suppl 2(Suppl 2):S6. PMID: 25471253
  • Kurtova AV, Xiao J, Mo Q, Pazhanisamy S et al. Blocking PGE2-induced tumour repopulation abrogates bladder cancer chemoresistance. Nature 2015 Jan 8;517(7533):209-13. PMID: 25470039
  • Kelder T, Summer G, Caspers M, van Schothorst EM et al. White adipose tissue reference network: a knowledge resource for exploring health-relevant relations. Genes Nutr 2015 Jan;10(1):439. PMID: 25466819
  • Fu LM, Fu KA et al. Analysis of Parkinson's disease pathophysiology using an integrated genomics-bioinformatics approach. Pathophysiology 2015 Mar;22(1):15-29. PMID: 25466606
  • Toro-Domínguez D, Carmona-Sáez P, Alarcón-Riquelme ME et al. Shared signatures between rheumatoid arthritis, systemic lupus erythematosus and Sjögren's syndrome uncovered through gene expression meta-analysis. Arthritis Res Ther 2014 Dec 3;16(6):489. PMID: 25466291
  • Parveen Z, Bibi Z, Bibi N, Neesen J et al. Disruption of murine Tcte3-3 induces tissue specific apoptosis via co-expression of Anxa5 and Pebp1. Comput Biol Chem 2014 Dec;53PB:214-225. PMID: 25462330
  • Mosca E, Alfieri R, Milanesi L et al. Diffusion of information throughout the host interactome reveals gene expression variations in network proximity to target proteins of hepatitis C virus. PLoS One 2014;9(12):e113660. PMID: 25461596
  • Monterisi S, D'Ario G, Dama E, Rotmensz N et al. Mining cancer gene expression databases for latent information on intronic microRNAs. Mol Oncol 2015 Feb;9(2):473-87. PMID: 25459350
  • Ichikawa H, Yoshida A, Kanda T, Kosugi S et al. Prognostic significance of promyelocytic leukemia expression in gastrointestinal stromal tumor; integrated proteomic and transcriptomic analysis. Cancer Sci 2015 Jan;106(1):115-24. PMID: 25457157
  • Percio S, Coltella N, Grisanti S, Bernardi R et al. A HIF-1 network reveals characteristics of epithelial-mesenchymal transition in acute promyelocytic leukemia. Genome Med 2014;6(12):84. PMID: 25452766
  • Dombkowski AA, Batista CE, Cukovic D, Carruthers NJ et al. Cortical Tubers: Windows into Dysregulation of Epilepsy Risk and Synaptic Signaling Genes by MicroRNAs. Cereb Cortex 2016 Mar;26(3):1059-71. PMID: 25452577
  • Moulos P, Hatzis P et al. Systematic integration of RNA-Seq statistical algorithms for accurate detection of differential gene expression patterns. Nucleic Acids Res 2015 Feb 27;43(4):e25. PMID: 25452340
  • Rodriguez SN, Jiang M, Bujo H, Allen PM et al. Self-pMHCII complexes are variably expressed in the thymus and periphery independent of mRNA expression but dependent on the activation state of the APCs. Mol Immunol 2015 Feb;63(2):428-36. PMID: 25451972
  • Carter AT, Peck MW et al. Genomes, neurotoxins and biology of Clostridium botulinum Group I and Group II. Res Microbiol 2015 May;166(4):303-17. PMID: 25445012
  • Sardu A, Treu L, Campanaro S et al. Transcriptome structure variability in Saccharomyces cerevisiae strains determined with a newly developed assembly software. BMC Genomics 2014 Dec 1;15(1):1045. PMID: 25441755
  • Khaleel SS, Andrews EH, Ung M, DiRenzo J et al. E2F4 regulatory program predicts patient survival prognosis in breast cancer. Breast Cancer Res 2014 Dec 2;16(6):486. PMID: 25440089
  • Gusev A, Lee SH, Trynka G, Finucane H et al. Partitioning heritability of regulatory and cell-type-specific variants across 11 common diseases. Am J Hum Genet 2014 Nov 6;95(5):535-52. PMID: 25439723
  • Metsalu T, Viltrop T, Tiirats A, Rajashekar B et al. Using RNA sequencing for identifying gene imprinting and random monoallelic expression in human placenta. Epigenetics 2014 Oct;9(10):1397-409. PMID: 25437054
  • Quintero A, Ramírez J, Leal LG, López-Kleine L et al. Algorithm for the Construction of a Global Enzymatic Network to be Used for Gene Network Reconstruction. Curr Genomics 2014 Oct;15(5):400-7. PMID: 25435802
  • Murcha MW, Narsai R, Devenish J, Kubiszewski-Jakubiak S et al. MPIC: a mitochondrial protein import components database for plant and non-plant species. Plant Cell Physiol 2015 Jan;56(1):e10. PMID: 25435547
  • Wang S, Pandis I, Wu C, He S et al. High dimensional biological data retrieval optimization with NoSQL technology. BMC Genomics 2014;15 Suppl 8(Suppl 8):S3. PMID: 25435347
  • Al Seesi S, Tiagueu YT, Zelikovsky A, Măndoiu II et al. Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates. BMC Genomics 2014;15 Suppl 8(Suppl 8):S2. PMID: 25435284
  • Williams JL, Greer PA, Squire JA et al. Recurrent copy number alterations in prostate cancer: an in silico meta-analysis of publicly available genomic data. Cancer Genet 2014 Oct-Dec;207(10-12):474-88. PMID: 25434580
  • Wang H, Wang C, Zhang L, Lu Y et al. Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism. Mol Med Rep 2015 Apr;11(4):2527-33. PMID: 25434468
  • Park CY, Krishnan A, Zhu Q, Wong AK et al. Tissue-aware data integration approach for the inference of pathway interactions in metazoan organisms. Bioinformatics 2015 Apr 1;31(7):1093-101. PMID: 25431329
  • Roedder S, Li L, Alonso MN, Hsieh SC et al. A Three-Gene Assay for Monitoring Immune Quiescence in Kidney Transplantation. J Am Soc Nephrol 2015 Aug;26(8):2042-53. PMID: 25429124
  • Anekal PV, Yong J, Manser E et al. Arg kinase-binding protein 2 (ArgBP2) interaction with α-actinin and actin stress fibers inhibits cell migration. J Biol Chem 2015 Jan 23;290(4):2112-25. PMID: 25429109
  • Keane P, Ceredig R, Seoighe C et al. Promiscuous mRNA splicing under the control of AIRE in medullary thymic epithelial cells. Bioinformatics 2015 Apr 1;31(7):986-90. PMID: 25429061
  • Ono M, Tanaka RJ, Kano M et al. Visualisation of the T cell differentiation programme by Canonical Correspondence Analysis of transcriptomes. BMC Genomics 2014 Nov 27;15(1):1028. PMID: 25428805
  • Wang M, Zhang P, Shu Y, Yuan F et al. Alternative splicing at GYNNGY 5' splice sites: more noise, less regulation. Nucleic Acids Res 2014 Dec 16;42(22):13969-80. PMID: 25428370
  • Ng FS, Schütte J, Ruau D, Diamanti E et al. Constrained transcription factor spacing is prevalent and important for transcriptional control of mouse blood cells. Nucleic Acids Res 2014 Dec 16;42(22):13513-24. PMID: 25428352
  • Faisal A, Peltonen J, Georgii E, Rung J et al. Toward computational cumulative biology by combining models of biological datasets. PLoS One 2014;9(11):e113053. PMID: 25427176
  • Piriyapongsa J, Bootchai C, Ngamphiw C, Tongsima S et al. microPIR2: a comprehensive database for human-mouse comparative study of microRNA-promoter interactions. Database (Oxford) 2014;2014:bau115. PMID: 25425035
  • Zhang P, Si X, Skogerbø G, Wang J et al. piRBase: a web resource assisting piRNA functional study. Database (Oxford) 2014;2014:bau110. PMID: 25425034
  • Dou A, Wang Z, Zhao J, Liu J et al. Identification of therapeutic target genes with DNA microarray in multiple myeloma cell line treated by IKKβ/NF-κB inhibitor. Acta Cir Bras 2014 Nov;29(11):696-702. PMID: 25424288
  • Li J, Li D, Wei X, Su Y et al. In silico comparative genomic analysis of two non-small cell lung cancer subtypes and their potentials for cancer classification. Cancer Genomics Proteomics 2014 Nov-Dec;11(6):303-10. PMID: 25422361
  • Rabaglino MB, Post Uiterweer ED, Jeyabalan A, Hogge WA et al. Bioinformatics approach reveals evidence for impaired endometrial maturation before and during early pregnancy in women who developed preeclampsia. Hypertension 2015 Feb;65(2):421-9. PMID: 25421975
  • Lowdon RF, Zhang B, Bilenky M, Mauro T et al. Regulatory network decoded from epigenomes of surface ectoderm-derived cell types. Nat Commun 2014 Nov 25;5:5442. PMID: 25421844
  • Davis H, Irshad S, Bansal M, Rafferty H et al. Aberrant epithelial GREM1 expression initiates colonic tumorigenesis from cells outside the stem cell niche. Nat Med 2015 Jan;21(1):62-70. PMID: 25419707
  • Alistar A, Chou JW, Nagalla S, Black MA et al. Dual roles for immune metagenes in breast cancer prognosis and therapy prediction. Genome Med 2014;6(10):80. PMID: 25419236
  • Kumaraswamy E, Wendt KL, Augustine LA, Stecklein SR et al. BRCA1 regulation of epidermal growth factor receptor (EGFR) expression in human breast cancer cells involves microRNA-146a and is critical for its tumor suppressor function. Oncogene 2015 Aug 13;34(33):4333-46. PMID: 25417703
  • Borisov NM, Terekhanova NV, Aliper AM, Venkova LS et al. Signaling pathways activation profiles make better markers of cancer than expression of individual genes. Oncotarget 2014 Oct 30;5(20):10198-205. PMID: 25415353
  • Berlin A, Lalonde E, Sykes J, Zafarana G et al. NBN gain is predictive for adverse outcome following image-guided radiotherapy for localized prostate cancer. Oncotarget 2014 Nov 30;5(22):11081-90. PMID: 25415046
  • Tieri P, Zhou X, Zhu L, Nardini C et al. Multi-omic landscape of rheumatoid arthritis: re-evaluation of drug adverse effects. Front Cell Dev Biol 2014;2:59. PMID: 25414848
  • Liu G, Zhang R, Xu J, Wu CI et al. Functional conservation of both CDS- and 3'-UTR-located microRNA binding sites between species. Mol Biol Evol 2015 Mar;32(3):623-8. PMID: 25414126
  • Kou Y, Qiao L, Wang Q et al. Identification of core miRNA based on small RNA-seq and RNA-seq for colorectal cancer by bioinformatics. Tumour Biol 2015 Apr;36(4):2249-55. PMID: 25412953
  • Strong MJ, Xu G, Morici L, Splinter Bon-Durant S et al. Microbial contamination in next generation sequencing: implications for sequence-based analysis of clinical samples. PLoS Pathog 2014 Nov;10(11):e1004437. PMID: 25412476
  • Paone A, Marani M, Fiascarelli A, Rinaldo S et al. SHMT1 knockdown induces apoptosis in lung cancer cells by causing uracil misincorporation. Cell Death Dis 2014 Nov 20;5(11):e1525. PMID: 25412303
  • Engelmann F, Josset L, Girke T, Park B et al. Pathophysiologic and transcriptomic analyses of viscerotropic yellow fever in a rhesus macaque model. PLoS Negl Trop Dis 2014;8(11):e3295. PMID: 25412185
  • Wang HQ, Zheng CH, Zhao XM et al. jNMFMA: a joint non-negative matrix factorization meta-analysis of transcriptomics data. Bioinformatics 2015 Feb 15;31(4):572-80. PMID: 25411328
  • Zhang S, Cui B, Lai H, Liu G et al. Ovarian cancer stem cells express ROR1, which can be targeted for anti-cancer-stem-cell therapy. Proc Natl Acad Sci U S A 2014 Dec 2;111(48):17266-71. PMID: 25411317
  • Edqvist PH, Fagerberg L, Hallström BM, Danielsson A et al. Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling. J Histochem Cytochem 2015 Feb;63(2):129-41. PMID: 25411189
  • Cohen H, Ben-Hamo R, Gidoni M, Yitzhaki I et al. Shift in GATA3 functions, and GATA3 mutations, control progression and clinical presentation in breast cancer. Breast Cancer Res 2014 Nov 20;16(6):464. PMID: 25410484
  • Chang HR, Nam S, Kook MC, Kim KT et al. HNF4α is a therapeutic target that links AMPK to WNT signalling in early-stage gastric cancer. Gut 2016 Jan;65(1):19-32. PMID: 25410163
  • Correia C, Oliveira G, Vicente AM et al. Protein interaction networks reveal novel autism risk genes within GWAS statistical noise. PLoS One 2014;9(11):e112399. PMID: 25409314
  • Yuan P, Liu D, Deng M, Liu J et al. Identification of differently expressed genes with specific SNP Loci for breast cancer by the integration of SNP and gene expression profiling analyses. Pathol Oncol Res 2015 Apr;21(2):469-75. PMID: 25408372
  • Deng S, Yan T, Jendrny C, Nemecek A et al. Dexrazoxane may prevent doxorubicin-induced DNA damage via depleting both topoisomerase II isoforms. BMC Cancer 2014 Nov 18;14:842. PMID: 25406834
  • Innocenti P, Flis I, Morrow EH et al. Female responses to experimental removal of sexual selection components in Drosophila melanogaster. BMC Evol Biol 2014 Nov 19;14:239. PMID: 25406540
  • Shenker S, Miura P, Sanfilippo P, Lai EC et al. IsoSCM: improved and alternative 3' UTR annotation using multiple change-point inference. RNA 2015 Jan;21(1):14-27. PMID: 25406361
  • Chiyomaru T, Seki N, Inoguchi S, Ishihara T et al. Dual regulation of receptor tyrosine kinase genes EGFR and c-Met by the tumor-suppressive microRNA-23b/27b cluster in bladder cancer. Int J Oncol 2015 Feb;46(2):487-96. PMID: 25405368
  • Kravchenko-Balasha N, Simon S, Levine RD, Remacle F et al. Computational surprisal analysis speeds-up genomic characterization of cancer processes. PLoS One 2014;9(11):e108549. PMID: 25405334
  • Teixeira A, Yen B, Gusella GL, Thomas AG et al. Prothymosin α variants isolated from CD8+ T cells and cervicovaginal fluid suppress HIV-1 replication through type I interferon induction. J Infect Dis 2015 May 1;211(9):1467-75. PMID: 25404520
  • Montague E, Janko I, Stanberry L, Lee E et al. Beyond protein expression, MOPED goes multi-omics. Nucleic Acids Res 2015 Jan;43(Database issue):D1145-51. PMID: 25404128
  • Prabakaran S, Hemberg M, Chauhan R, Winter D et al. Quantitative profiling of peptides from RNAs classified as noncoding. Nat Commun 2014 Nov 18;5:5429. PMID: 25403355
  • Gascon E, Lynch K, Ruan H, Almeida S et al. Alterations in microRNA-124 and AMPA receptors contribute to social behavioral deficits in frontotemporal dementia. Nat Med 2014 Dec;20(12):1444-51. PMID: 25401692
  • Marques Howarth M, Simpson D, Ngok SP, Nieves B et al. Long noncoding RNA EWSAT1-mediated gene repression facilitates Ewing sarcoma oncogenesis. J Clin Invest 2014 Dec;124(12):5275-90. PMID: 25401475
  • Durinck S, Stawiski EW, Pavía-Jiménez A, Modrusan Z et al. Spectrum of diverse genomic alterations define non-clear cell renal carcinoma subtypes. Nat Genet 2015 Jan;47(1):13-21. PMID: 25401301
  • Yi X, Zhang Z, Ling Y, Xu W et al. PNRD: a plant non-coding RNA database. Nucleic Acids Res 2015 Jan;43(Database issue):D982-9. PMID: 25398903
  • Bin Raies A, Mansour H, Incitti R, Bajic VB et al. DDMGD: the database of text-mined associations between genes methylated in diseases from different species. Nucleic Acids Res 2015 Jan;43(Database issue):D879-86. PMID: 25398897
  • Cai P, Wang B, Ji J, Jiang Y et al. The putative cellodextrin transporter-like protein CLP1 is involved in cellulase induction in Neurospora crassa. J Biol Chem 2015 Jan 9;290(2):788-96. PMID: 25398875
  • Mayo TR, Schweikert G, Sanguinetti G et al. M3D: a kernel-based test for spatially correlated changes in methylation profiles. Bioinformatics 2015 Mar 15;31(6):809-16. PMID: 25398611
  • Ito-Kureha T, Koshikawa N, Yamamoto M, Semba K et al. Tropomodulin 1 expression driven by NF-κB enhances breast cancer growth. Cancer Res 2015 Jan 1;75(1):62-72. PMID: 25398440
  • Chen J, Shin JH, Zhao R, Phan L et al. CSN6 drives carcinogenesis by positively regulating Myc stability. Nat Commun 2014 Nov 14;5:5384. PMID: 25395170
  • Plaisier CL, Lo FY, Ashworth J, Brooks AN et al. Evolution of context dependent regulation by expansion of feast/famine regulatory proteins. BMC Syst Biol 2014 Nov 14;8:122. PMID: 25394904
  • Iranmanesh SM, Guo NL et al. Integrated DNA Copy Number and Gene Expression Regulatory Network Analysis of Non-small Cell Lung Cancer Metastasis. Cancer Inform 2014;13(Suppl 5):13-23. PMID: 25392690
  • Li P, Liu Y, Wang H, He Y et al. PubAngioGen: a database and knowledge for angiogenesis and related diseases. Nucleic Acids Res 2015 Jan;43(Database issue):D963-7. PMID: 25392416
  • Rao ZT, Wang SQ, Wang JQ et al. Exploring the osteoarthritis-related genes by gene expression analysis. Eur Rev Med Pharmacol Sci 2014 Oct;18(20):3056-62. PMID: 25392105
  • Sammons MA, Zhu J, Drake AM, Berger SL et al. TP53 engagement with the genome occurs in distinct local chromatin environments via pioneer factor activity. Genome Res 2015 Feb;25(2):179-88. PMID: 25391375
  • Wang L, Wang Y, Hu Q, Li S et al. Systematic analysis of new drug indications by drug-gene-disease coherent subnetworks. CPT Pharmacometrics Syst Pharmacol 2014 Nov 12;3(11):e146. PMID: 25390685
  • Ghotra VP, He S, van der Horst G, Nijhoff S et al. SYK is a candidate kinase target for the treatment of advanced prostate cancer. Cancer Res 2015 Jan 1;75(1):230-40. PMID: 25388286
  • Lee KW, Lee SS, Kim SB, Sohn BH et al. Significant association of oncogene YAP1 with poor prognosis and cetuximab resistance in colorectal cancer patients. Clin Cancer Res 2015 Jan 15;21(2):357-64. PMID: 25388162
  • Araújo ES, Vasques LR, Stabellini R, Krepischi AC et al. Stability of XIST repression in relation to genomic imprinting following global genome demethylation in a human cell line. Braz J Med Biol Res 2014 Dec;47(12):1029-35. PMID: 25387668
  • Company N, Nadal A, Ruiz C, Pla M et al. Production of phytotoxic cationic α-helical antimicrobial peptides in plant cells using inducible promoters. PLoS One 2014;9(11):e109990. PMID: 25387106
  • Guiu J, Bergen DJ, De Pater E, Islam AB et al. Identification of Cdca7 as a novel Notch transcriptional target involved in hematopoietic stem cell emergence. J Exp Med 2014 Nov 17;211(12):2411-23. PMID: 25385755
  • Tosolini M, Pont F, Bétous D, Ravet E et al. Human monocyte recognition of adenosine-based cyclic dinucleotides unveils the A2a Gαs protein-coupled receptor tonic inhibition of mitochondrially induced cell death. Mol Cell Biol 2015 Jan;35(2):479-95. PMID: 25384972
  • Li CF, Fang FM, Lan J, Wang JW et al. AMACR amplification in myxofibrosarcomas: a mechanism of overexpression that promotes cell proliferation with therapeutic relevance. Clin Cancer Res 2014 Dec 1;20(23):6141-52. PMID: 25384383
  • Fairfax KA, Gantier MP, Mackay F, Williams BR et al. IL-10 regulates Aicda expression through miR-155. J Leukoc Biol 2015 Jan;97(1):71-8. PMID: 25381386
  • Cotton AM, Price EM, Jones MJ, Balaton BP et al. Landscape of DNA methylation on the X chromosome reflects CpG density, functional chromatin state and X-chromosome inactivation. Hum Mol Genet 2015 Mar 15;24(6):1528-39. PMID: 25381334
  • Cer RZ, Herrera-Galeano JE, Anderson JJ, Bishop-Lilly KA et al. miRNA Temporal Analyzer (mirnaTA): a bioinformatics tool for identifying differentially expressed microRNAs in temporal studies using normal quantile transformation. Gigascience 2014;3:20. PMID: 25379175
  • Scheiber MN, Watson PM, Rumboldt T, Stanley C et al. FLI1 expression is correlated with breast cancer cellular growth, migration, and invasion and altered gene expression. Neoplasia 2014 Oct;16(10):801-13. PMID: 25379017
  • Lewis MW, Brant JO, Kramer JM, Moss JI et al. Angelman syndrome imprinting center encodes a transcriptional promoter. Proc Natl Acad Sci U S A 2015 Jun 2;112(22):6871-5. PMID: 25378697
  • Liu H, Flores MA, Meng J, Zhang L et al. MeT-DB: a database of transcriptome methylation in mammalian cells. Nucleic Acids Res 2015 Jan;43(Database issue):D197-203. PMID: 25378335
  • Wang L, Huang H, Dougherty G, Zhao Y et al. Epidaurus: aggregation and integration analysis of prostate cancer epigenome. Nucleic Acids Res 2015 Jan;43(2):e7. PMID: 25378314
  • Hormozdiari F, Penn O, Borenstein E, Eichler EE et al. The discovery of integrated gene networks for autism and related disorders. Genome Res 2015 Jan;25(1):142-54. PMID: 25378250
  • Bahn JH, Zhang Q, Li F, Chan TM et al. The landscape of microRNA, Piwi-interacting RNA, and circular RNA in human saliva. Clin Chem 2015 Jan;61(1):221-30. PMID: 25376581
  • Tasseff R, Bheda-Malge A, DiColandrea T, Bascom CC et al. Mouse hair cycle expression dynamics modeled as coupled mesenchymal and epithelial oscillators. PLoS Comput Biol 2014 Nov;10(11):e1003914. PMID: 25375120
  • Liu X, Wang X, Du W, Chen L et al. Suppressor of fused (Sufu) represses Gli1 transcription and nuclear accumulation, inhibits glioma cell proliferation, invasion and vasculogenic mimicry, improving glioma chemo-sensitivity and prognosis. Oncotarget 2014 Nov 30;5(22):11681-94. PMID: 25373737
  • Chen CR, Shu WY, Chang CW, Hsu IC et al. Identification of under-detected periodicity in time-series microarray data by using empirical mode decomposition. PLoS One 2014;9(11):e111719. PMID: 25372711
  • Teixeira PJ, Thomazella DP, Reis O, do Prado PF et al. High-resolution transcript profiling of the atypical biotrophic interaction between Theobroma cacao and the fungal pathogen Moniliophthora perniciosa. Plant Cell 2014 Nov;26(11):4245-69. PMID: 25371547
  • Forn-Cuní G, Varela M, Fernández-Rodríguez CM, Figueras A et al. Liver immune responses to inflammatory stimuli in a diet-induced obesity model of zebrafish. J Endocrinol 2015 Feb;224(2):159-70. PMID: 25371540
  • Allhoff M, Seré K, Chauvistré H, Lin Q et al. Detecting differential peaks in ChIP-seq signals with ODIN. Bioinformatics 2014 Dec 15;30(24):3467-75. PMID: 25371479
  • Miller PC, Clarke J, Koru-Sengul T, Brinkman J et al. A novel MAPK-microRNA signature is predictive of hormone-therapy resistance and poor outcome in ER-positive breast cancer. Clin Cancer Res 2015 Jan 15;21(2):373-85. PMID: 25370469
  • Shi X, Zhang Z, Zhan X, Cao M et al. An epigenetic switch induced by Shh signalling regulates gene activation during development and medulloblastoma growth. Nat Commun 2014 Nov 5;5:5425. PMID: 25370275
  • Pavlopoulou A, Spandidos DA, Michalopoulos I et al. Human cancer databases (review). Oncol Rep 2015 Jan;33(1):3-18. PMID: 25369839
  • Paul E, Zhu ZI, Landsman D, Morse RH et al. Genome-wide association of mediator and RNA polymerase II in wild-type and mediator mutant yeast. Mol Cell Biol 2015 Jan;35(1):331-42. PMID: 25368384
  • Ding Y, Liu X, Chen F, Di H et al. Metabolic sensor governing bacterial virulence in Staphylococcus aureus. Proc Natl Acad Sci U S A 2014 Nov 18;111(46):E4981-90. PMID: 25368190
  • Maretty L, Sibbesen JA, Krogh A et al. Bayesian transcriptome assembly. Genome Biol 2014;15(10):501. PMID: 25367074
  • Wang XW, Wu Y, Wang D, Qin ZF et al. MicroRNA network analysis identifies key microRNAs and genes associated with precancerous lesions of gastric cancer. Genet Mol Res 2014 Oct 27;13(4):8695-703. PMID: 25366760
  • Salehzadeh-Yazdi A, Asgari Y, Saboury AA, Masoudi-Nejad A et al. Computational analysis of reciprocal association of metabolism and epigenetics in the budding yeast: a genome-scale metabolic model (GSMM) approach. PLoS One 2014;9(11):e111686. PMID: 25365344
  • Farh KK, Marson A, Zhu J, Kleinewietfeld M et al. Genetic and epigenetic fine mapping of causal autoimmune disease variants. Nature 2015 Feb 19;518(7539):337-43. PMID: 25363779
  • Vera DL, Madzima TF, Labonne JD, Alam MP et al. Differential nuclease sensitivity profiling of chromatin reveals biochemical footprints coupled to gene expression and functional DNA elements in maize. Plant Cell 2014 Oct;26(10):3883-93. PMID: 25361955
  • Heyndrickx KS, Van de Velde J, Wang C, Weigel D et al. A functional and evolutionary perspective on transcription factor binding in Arabidopsis thaliana. Plant Cell 2014 Oct;26(10):3894-910. PMID: 25361952
  • Zorniak M, Clark PA, Kuo JS et al. Myelin-forming cell-specific cadherin-19 is a marker for minimally infiltrative glioblastoma stem-like cells. J Neurosurg 2015 Jan;122(1):69-77. PMID: 25361488
  • Tian Y, Voineagu I, Paşca SP, Won H et al. Alteration in basal and depolarization induced transcriptional network in iPSC derived neurons from Timothy syndrome. Genome Med 2014;6(10):75. PMID: 25360157
  • Verbovšek U, Motaln H, Rotter A, Atai NA et al. Expression analysis of all protease genes reveals cathepsin K to be overexpressed in glioblastoma. PLoS One 2014;9(10):e111819. PMID: 25356585
  • Jiang N, Wang L, Chen J, Wang L et al. Conserved and divergent patterns of DNA methylation in higher vertebrates. Genome Biol Evol 2014 Oct 28;6(11):2998-3014. PMID: 25355807
  • Lee T, Yang S, Kim E, Ko Y et al. AraNet v2: an improved database of co-functional gene networks for the study of Arabidopsis thaliana and 27 other nonmodel plant species. Nucleic Acids Res 2015 Jan;43(Database issue):D996-1002. PMID: 25355510
  • Smith AK, Kilaru V, Klengel T, Mercer KB et al. DNA extracted from saliva for methylation studies of psychiatric traits: evidence tissue specificity and relatedness to brain. Am J Med Genet B Neuropsychiatr Genet 2015 Jan;168B(1):36-44. PMID: 25355443
  • Coira IF, Rufino-Palomares EE, Romero OA, Peinado P et al. Expression inactivation of SMARCA4 by microRNAs in lung tumors. Hum Mol Genet 2015 Mar 1;24(5):1400-9. PMID: 25355421
  • Tang X, Baheti S, Shameer K, Thompson KJ et al. The eSNV-detect: a computational system to identify expressed single nucleotide variants from transcriptome sequencing data. Nucleic Acids Res 2014 Dec 16;42(22):e172. PMID: 25352556
  • Szklarczyk D, Franceschini A, Wyder S, Forslund K et al. STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Res 2015 Jan;43(Database issue):D447-52. PMID: 25352553
  • Kaikkonen MU, Niskanen H, Romanoski CE, Kansanen E et al. Control of VEGF-A transcriptional programs by pausing and genomic compartmentalization. Nucleic Acids Res 2014 Nov 10;42(20):12570-84. PMID: 25352550
  • Shiah SG, Hsiao JR, Chang WM, Chen YW et al. Downregulated miR329 and miR410 promote the proliferation and invasion of oral squamous cell carcinoma by targeting Wnt-7b. Cancer Res 2014 Dec 15;74(24):7560-72. PMID: 25351956
  • Quigley D, Silwal-Pandit L, Dannenfelser R, Langerød A et al. Lymphocyte Invasion in IC10/Basal-Like Breast Tumors Is Associated with Wild-Type TP53. Mol Cancer Res 2015 Mar;13(3):493-501. PMID: 25351767
  • Tabata S, Ikeda R, Yamamoto M, Shimaoka S et al. Thymidine phosphorylase activates NFκB and stimulates the expression of angiogenic and metastatic factors in human cancer cells. Oncotarget 2014 Nov 15;5(21):10473-85. PMID: 25350954
  • Vo NS, Phan V et al. Exploiting dependencies of pairwise comparison outcomes to predict patterns of gene response. BMC Bioinformatics 2014;15 Suppl 11(Suppl 11):S2. PMID: 25350806
  • Maze I, Shen L, Zhang B, Garcia BA et al. Analytical tools and current challenges in the modern era of neuroepigenomics. Nat Neurosci 2014 Nov;17(11):1476-90. PMID: 25349914
  • San Lucas FA, Fowler J, Chang K, Kopetz S et al. Cancer in silico drug discovery: a systems biology tool for identifying candidate drugs to target specific molecular tumor subtypes. Mol Cancer Ther 2014 Dec;13(12):3230-40. PMID: 25349306
  • Mainali HR, Chapman P, Dhaubhadel S et al. Genome-wide analysis of Cyclophilin gene family in soybean (Glycine max). BMC Plant Biol 2014 Oct 29;14:282. PMID: 25348509
  • Yang X, Wang T, Lin X, Yue X et al. Genetic deletion of Rnd3/RhoE results in mouse heart calcium leakage through upregulation of protein kinase A signaling. Circ Res 2015 Jan 2;116(1):e1-e10. PMID: 25348166
  • Wang J, Yang J, Mao S, Chai X et al. MitProNet: A knowledgebase and analysis platform of proteome, interactome and diseases for mammalian mitochondria. PLoS One 2014;9(10):e111187. PMID: 25347823
  • Li C, Zhang E, Sun Y, Lee PS et al. Rapamycin-insensitive up-regulation of adipocyte phospholipase A2 in tuberous sclerosis and lymphangioleiomyomatosis. PLoS One 2014;9(10):e104809. PMID: 25347447
  • Mitra AP, Lam LL, Ghadessi M, Erho N et al. Discovery and validation of novel expression signature for postcystectomy recurrence in high-risk bladder cancer. J Natl Cancer Inst 2014 Nov;106(11). PMID: 25344601
  • Sebastian-Leon P, Vidal E, Minguez P, Conesa A et al. Understanding disease mechanisms with models of signaling pathway activities. BMC Syst Biol 2014 Oct 25;8:121. PMID: 25344409
  • Moni MA, Liò P et al. Network-based analysis of comorbidities risk during an infection: SARS and HIV case studies. BMC Bioinformatics 2014 Oct 24;15(1):333. PMID: 25344230
  • Zhang Z, Wang Q, Chen F, Liu J et al. Elevated expression of HMGA1 correlates with the malignant status and prognosis of non-small cell lung cancer. Tumour Biol 2015 Feb;36(2):1213-9. PMID: 25344216
  • Cornelis MC, Fornage M, Foy M, Xun P et al. Genome-wide association study of selenium concentrations. Hum Mol Genet 2015 Mar 1;24(5):1469-77. PMID: 25343990
  • Dong Y, Yu J, Ng SS et al. MicroRNA dysregulation as a prognostic biomarker in colorectal cancer. Cancer Manag Res 2014;6:405-22. PMID: 25342918
  • Morgan DJ, DeAngelis MM et al. Differential Gene Expression in Age-Related Macular Degeneration. Cold Spring Harb Perspect Med 2014 Oct 23;5(8):a017210. PMID: 25342062
  • Galindo CL, Kasasbeh E, Murphy A, Ryzhov S et al. Anti-remodeling and anti-fibrotic effects of the neuregulin-1β glial growth factor 2 in a large animal model of heart failure. J Am Heart Assoc 2014 Oct 23;3(5):e000773. PMID: 25341890
  • Yang D, Chen W, Xiong J, Sherrod CJ et al. Interleukin 1 receptor-associated kinase 1 (IRAK1) mutation is a common, essential driver for Kaposi sarcoma herpesvirus lymphoma. Proc Natl Acad Sci U S A 2014 Nov 4;111(44):E4762-8. PMID: 25341731
  • Wang HQ, Gu B, Yi Y, Dong BY et al. Study of regulatory pathway of related molecules in hemolytic uremic syndrome. Eur Rev Med Pharmacol Sci 2014 Oct;18(19):2886-94. PMID: 25339483
  • Sun EH, Zhou Q, Liu KS, Wei W et al. Screening miRNAs related to different subtypes of breast cancer with miRNAs microarray. Eur Rev Med Pharmacol Sci 2014 Oct;18(19):2783-8. PMID: 25339470
  • Meng F, You Y, Liu Z, Liu J et al. Neuronal calcium signaling pathways are associated with the development of epilepsy. Mol Med Rep 2015 Jan;11(1):196-202. PMID: 25339366
  • Wang L, Hu J, Xing H, Sun M et al. Construction of microRNA and transcription factor regulatory network based on gene expression data in cardiomyopathy. Eur J Med Res 2014 Oct 24;19(1):57. PMID: 25338953
  • Tian L, Cao J, Deng X, Zhang C et al. Unveiling transcription factor regulation and differential co-expression genes in Duchenne muscular dystrophy. Diagn Pathol 2014 Oct 23;9:210. PMID: 25338682
  • Dai X, Chen A, Bai Z et al. Integrative investigation on breast cancer in ER, PR and HER2-defined subgroups using mRNA and miRNA expression profiling. Sci Rep 2014 Oct 23;4:6566. PMID: 25338681
  • Römer M, Backert L, Eichner J, Zell A et al. ToxDBScan: Large-scale similarity screening of toxicological databases for drug candidates. Int J Mol Sci 2014 Oct 21;15(10):19037-55. PMID: 25338045
  • Parameswaran S, Xia X, Hegde G, Ahmad I et al. Hmga2 regulates self-renewal of retinal progenitors. Development 2014 Nov;141(21):4087-97. PMID: 25336737
  • Quan Z, Quan Y, Wei B, Fang D et al. Protein-protein interaction network and mechanism analysis in ischemic stroke. Mol Med Rep 2015 Jan;11(1):29-36. PMID: 25333814
  • Liu Y, Hu H, Wang K, Zhang C et al. Multidimensional analysis of gene expression reveals TGFB1I1-induced EMT contributes to malignant progression of astrocytomas. Oncotarget 2014 Dec 30;5(24):12593-606. PMID: 25333259
  • Parker HS, Corrada Bravo H, Leek JT et al. Removing batch effects for prediction problems with frozen surrogate variable analysis. PeerJ 2014;2:e561. PMID: 25332844
  • Bult CJ, Krupke DM, Begley DA, Richardson JE et al. Mouse Tumor Biology (MTB): a database of mouse models for human cancer. Nucleic Acids Res 2015 Jan;43(Database issue):D818-24. PMID: 25332399
  • Song WY, Yamaki T, Yamaji N, Ko D et al. A rice ABC transporter, OsABCC1, reduces arsenic accumulation in the grain. Proc Natl Acad Sci U S A 2014 Nov 4;111(44):15699-704. PMID: 25331872
  • Zhang W, Wang YE, Zhang Y, Leleu X et al. Global epigenetic regulation of microRNAs in multiple myeloma. PLoS One 2014;9(10):e110973. PMID: 25330074
  • Primiani CT, Ryan VH, Rao JS, Cam MC et al. Coordinated gene expression of neuroinflammatory and cell signaling markers in dorsolateral prefrontal cortex during human brain development and aging. PLoS One 2014;9(10):e110972. PMID: 25329999
  • Ferri G, Huichalaf CH, Caccia R, Gabellini D et al. Direct interplay between two candidate genes in FSHD muscular dystrophy. Hum Mol Genet 2015 Mar 1;24(5):1256-66. PMID: 25326393
  • Wang P, Qi H, Song S, Li S et al. ImmuCo: a database of gene co-expression in immune cells. Nucleic Acids Res 2015 Jan;43(Database issue):D1133-9. PMID: 25326331
  • Thaben PF, Westermark PO et al. Detecting rhythms in time series with RAIN. J Biol Rhythms 2014 Dec;29(6):391-400. PMID: 25326247
  • Du X, Lin BC, Wang QR, Li H et al. MMP-1 and Pro-MMP-10 as potential urinary pharmacodynamic biomarkers of FGFR3-targeted therapy in patients with bladder cancer. Clin Cancer Res 2014 Dec 15;20(24):6324-35. PMID: 25326231
  • Kawasaki K, Kondoh E, Chigusa Y, Ujita M et al. Reliable pre-eclampsia pathways based on multiple independent microarray data sets. Mol Hum Reprod 2015 Feb;21(2):217-24. PMID: 25323968
  • Wang J, Cao J et al. Gene expression analysis in tubule interstitial compartments reveals candidate agents for IgA nephropathy. Kidney Blood Press Res 2014;39(4):361-8. PMID: 25322921
  • Ma S, Jiang T, Jiang R et al. Differential regulation enrichment analysis via the integration of transcriptional regulatory network and gene expression data. Bioinformatics 2015 Feb 15;31(4):563-71. PMID: 25322838
  • Leal LG, López C, López-Kleine L et al. Construction and comparison of gene co-expression networks shows complex plant immune responses. PeerJ 2014;2:e610. PMID: 25320678
  • Tripathi MK, Deane NG, Zhu J, An H et al. Nuclear factor of activated T-cell activity is associated with metastatic capacity in colon cancer. Cancer Res 2014 Dec 1;74(23):6947-57. PMID: 25320007
  • Holmes ML, Huntington ND, Thong RP, Brady J et al. Peripheral natural killer cell maturation depends on the transcription factor Aiolos. EMBO J 2014 Nov 18;33(22):2721-34. PMID: 25319415
  • You J, Zong W, Hu H, Li X et al. A STRESS-RESPONSIVE NAC1-regulated protein phosphatase gene rice protein phosphatase18 modulates drought and oxidative stress tolerance through abscisic acid-independent reactive oxygen species scavenging in rice. Plant Physiol 2014 Dec;166(4):2100-14. PMID: 25318938
  • Lin M, Zhao L, Zhao W, Weng J et al. Dissecting the mechanism of carotid atherosclerosis from the perspective of regulation. Int J Mol Med 2014 Dec;34(6):1458-66. PMID: 25318463
  • Wang J, Xie G, Singh M, Ghanbarian AT et al. Primate-specific endogenous retrovirus-driven transcription defines naive-like stem cells. Nature 2014 Dec 18;516(7531):405-9. PMID: 25317556
  • Kim K, Bolotin E, Theusch E, Huang H et al. Prediction of LDL cholesterol response to statin using transcriptomic and genetic variation. Genome Biol 2014 Sep 30;15(9):460. PMID: 25316374
  • Lund K, Cole JJ, VanderKraats ND, McBryan T et al. DNMT inhibitors reverse a specific signature of aberrant promoter DNA methylation and associated gene silencing in AML. Genome Biol 2014 Aug 30;15(8):406. PMID: 25315154
  • Mayba O, Gilbert HN, Liu J, Haverty PM et al. MBASED: allele-specific expression detection in cancer tissues and cell lines. Genome Biol 2014 Aug 7;15(8):405. PMID: 25315065
  • Jiang ZS, Jia HX, Xing WJ, Han CD et al. Investigation of several biomarkers associated with diabetic nephropathy. Exp Clin Endocrinol Diabetes 2015 Jan;123(1):1-6. PMID: 25314649
  • Zhao L, Lin M, Wang S et al. Identification of human prolactinoma related genes by DNA microarray. J Cancer Res Ther 2014 Jul-Sep;10(3):544-8. PMID: 25313736
  • Hamabe A, Konno M, Tanuma N, Shima H et al. Role of pyruvate kinase M2 in transcriptional regulation leading to epithelial-mesenchymal transition. Proc Natl Acad Sci U S A 2014 Oct 28;111(43):15526-31. PMID: 25313085
  • Horvath S, Erhart W, Brosch M, Ammerpohl O et al. Obesity accelerates epigenetic aging of human liver. Proc Natl Acad Sci U S A 2014 Oct 28;111(43):15538-43. PMID: 25313081
  • Capasso M, Diskin S, Cimmino F, Acierno G et al. Common genetic variants in NEFL influence gene expression and neuroblastoma risk. Cancer Res 2014 Dec 1;74(23):6913-24. PMID: 25312269
  • Wang J, Marowsky NC, Fan C et al. Divergence of gene body DNA methylation and evolution of plant duplicate genes. PLoS One 2014;9(10):e110357. PMID: 25310342
  • Volinia S, Nuovo G, Drusco A, Costinean S et al. Pluripotent stem cell miRNAs and metastasis in invasive breast cancer. J Natl Cancer Inst 2014 Dec;106(12). PMID: 25306216
  • Veldman-Jones MH, Lai Z, Wappett M, Harbron CG et al. Reproducible, Quantitative, and Flexible Molecular Subtyping of Clinical DLBCL Samples Using the NanoString nCounter System. Clin Cancer Res 2015 May 15;21(10):2367-78. PMID: 25301847
  • Liu J, Wang X, Li J, Wang H et al. Reconstruction of the gene regulatory network involved in the sonic hedgehog pathway with a potential role in early development of the mouse brain. PLoS Comput Biol 2014 Oct;10(10):e1003884. PMID: 25299227
  • Nishikawa S, Arai S, Masamoto Y, Kagoya Y et al. Thrombopoietin/MPL signaling confers growth and survival capacity to CD41-positive cells in a mouse model of Evi1 leukemia. Blood 2014 Dec 4;124(24):3587-96. PMID: 25298035
  • Liu H, Yan ZQ, Li B, Yin SY et al. Reduced expression of SOX7 in ovarian cancer: a novel tumor suppressor through the Wnt/β-catenin signaling pathway. J Ovarian Res 2014 Sep 5;7:87. PMID: 25297608
  • Skourti-Stathaki K, Kamieniarz-Gdula K, Proudfoot NJ et al. R-loops induce repressive chromatin marks over mammalian gene terminators. Nature 2014 Dec 18;516(7531):436-9. PMID: 25296254
  • Qin J, Lee HJ, Wu SP, Lin SC et al. Androgen deprivation-induced NCoA2 promotes metastatic and castration-resistant prostate cancer. J Clin Invest 2014 Nov;124(11):5013-26. PMID: 25295534
  • Ellwanger DC, Leonhardt JF, Mewes HW et al. Large-scale modeling of condition-specific gene regulatory networks by information integration and inference. Nucleic Acids Res 2014 Dec 1;42(21):e166. PMID: 25294834
  • Yardımcı GG, Frank CL, Crawford GE, Ohler U et al. Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection. Nucleic Acids Res 2014 Oct 29;42(19):11865-78. PMID: 25294828
  • Plotnik JP, Budka JA, Ferris MW, Hollenhorst PC et al. ETS1 is a genome-wide effector of RAS/ERK signaling in epithelial cells. Nucleic Acids Res 2014 Oct 29;42(19):11928-40. PMID: 25294825
  • Artieri CG, Fraser HB et al. Accounting for biases in riboprofiling data indicates a major role for proline in stalling translation. Genome Res 2014 Dec;24(12):2011-21. PMID: 25294246
  • Wysocki K, Conley Y, Wenzel S et al. Epigenome variation in severe asthma. Biol Res Nurs 2015 May;17(3):263-9. PMID: 25288825
  • Traini M, Quinn CM, Sandoval C, Johansson E et al. Sphingomyelin phosphodiesterase acid-like 3A (SMPDL3A) is a novel nucleotide phosphodiesterase regulated by cholesterol in human macrophages. J Biol Chem 2014 Nov 21;289(47):32895-913. PMID: 25288789
  • Wang YX, Waterman MS, Huang H et al. Gene coexpression measures in large heterogeneous samples using count statistics. Proc Natl Acad Sci U S A 2014 Nov 18;111(46):16371-6. PMID: 25288767
  • Hinske LC, França GS, Torres HA, Ohara DT et al. miRIAD-integrating microRNA inter- and intragenic data. Database (Oxford) 2014;2014. PMID: 25288656
  • Meng J, Li P, Zhang Q, Yang Z et al. A four-long non-coding RNA signature in predicting breast cancer survival. J Exp Clin Cancer Res 2014 Oct 6;33(1):84. PMID: 25288503
  • Benaich N, Woodhouse S, Goldie SJ, Mishra A et al. Rewiring of an epithelial differentiation factor, miR-203, to inhibit human squamous cell carcinoma metastasis. Cell Rep 2014 Oct 9;9(1):104-117. PMID: 25284788
  • Wong SW, Cercone N, Jurisica I et al. Comparative network analysis via differential graphlet communities. Proteomics 2015 Jan;15(2-3):608-17. PMID: 25283527
  • Luijk R, Goeman JJ, Slagboom EP, Heijmans BT et al. An alternative approach to multiple testing for methylation QTL mapping reduces the proportion of falsely identified CpGs. Bioinformatics 2015 Feb 1;31(3):340-5. PMID: 25282645
  • Roder K, Werdich AA, Li W, Liu M et al. RING finger protein RNF207, a novel regulator of cardiac excitation. J Biol Chem 2014 Dec 5;289(49):33730-40. PMID: 25281747
  • Nguyen DH, Ouyang H, Mao JH, Hlatky L et al. Distinct luminal-type mammary carcinomas arise from orthotopic Trp53-null mammary transplantation of juvenile versus adult mice. Cancer Res 2014 Dec 1;74(23):7149-58. PMID: 25281718
  • Mishra RC, Grover A et al. Intergenic sequence between Arabidopsis caseinolytic protease B-cytoplasmic/heat shock protein100 and choline kinase genes functions as a heat-inducible bidirectional promoter. Plant Physiol 2014 Nov;166(3):1646-58. PMID: 25281707
  • Muangsub T, Samsuwan J, Tongyoo P, Kitkumthorn N et al. Analysis of methylation microarray for tissue specific detection. Gene 2014 Dec 10;553(1):31-41. PMID: 25281015
  • Walzer KA, Wier GM, Dam RA, Srinivasan AR et al. Hammondia hammondi harbors functional orthologs of the host-modulating effectors GRA15 and ROP16 but is distinguished from Toxoplasma gondii by a unique transcriptional profile. Eukaryot Cell 2014 Dec;13(12):1507-18. PMID: 25280815
  • Artico S, Ribeiro-Alves M, Oliveira-Neto OB, de Macedo LL et al. Transcriptome analysis of Gossypium hirsutum flower buds infested by cotton boll weevil (Anthonomus grandis) larvae. BMC Genomics 2014 Oct 4;15(1):854. PMID: 25280771
  • Shen G, Rong X, Zhao J, Yang X et al. MicroRNA-105 suppresses cell proliferation and inhibits PI3K/AKT signaling in human hepatocellular carcinoma. Carcinogenesis 2014 Dec;35(12):2748-55. PMID: 25280563
  • Tchurikov NA, Fedoseeva DM, Sosin DV, Snezhkina AV et al. Hot spots of DNA double-strand breaks and genomic contacts of human rDNA units are involved in epigenetic regulation. J Mol Cell Biol 2015 Aug;7(4):366-82. PMID: 25280477
  • Skibola CF, Berndt SI, Vijai J, Conde L et al. Genome-wide association study identifies five susceptibility loci for follicular lymphoma outside the HLA region. Am J Hum Genet 2014 Oct 2;95(4):462-71. PMID: 25279986
  • Karlsson A, Jönsson M, Lauss M, Brunnström H et al. Genome-wide DNA methylation analysis of lung carcinoma reveals one neuroendocrine and four adenocarcinoma epitypes associated with patient outcome. Clin Cancer Res 2014 Dec 1;20(23):6127-40. PMID: 25278450
  • Lee A, Khiabanian H, Kugelman J, Elliott O et al. Transcriptome reconstruction and annotation of cynomolgus and African green monkey. BMC Genomics 2014 Oct 3;15(1):846. PMID: 25277458
  • Liu SM, Lu J, Lee HC, Chung FH et al. miR-524-5p suppresses the growth of oncogenic BRAF melanoma by targeting BRAF and ERK2. Oncotarget 2014 Oct 15;5(19):9444-59. PMID: 25275294
  • Sun AG, Wang J, Shan YZ, Yu WJ et al. Identifying distinct candidate genes for early Parkinson's disease by analysis of gene expression in whole blood. Neuro Endocrinol Lett 2014;35(5):398-404. PMID: 25275262
  • Győrffy B, Karn T, Sztupinszki Z, Weltz B et al. Dynamic classification using case-specific training cohorts outperforms static gene expression signatures in breast cancer. Int J Cancer 2015 May 1;136(9):2091-8. PMID: 25274406
  • Hajingabo LJ, Daakour S, Martin M, Grausenburger R et al. Predicting interactome network perturbations in human cancer: application to gene fusions in acute lymphoblastic leukemia. Mol Biol Cell 2014 Dec 1;25(24):3973-85. PMID: 25273558
  • Fernández AF, Bayón GF, Urdinguio RG, Toraño EG et al. H3K4me1 marks DNA regions hypomethylated during aging in human stem and differentiated cells. Genome Res 2015 Jan;25(1):27-40. PMID: 25271306
  • Li CF, He HL, Wang JY, Huang HY et al. Fibroblast growth factor receptor 2 overexpression is predictive of poor prognosis in rectal cancer patients receiving neoadjuvant chemoradiotherapy. J Clin Pathol 2014 Dec;67(12):1056-61. PMID: 25271212
  • Kumar P, Anaya J, Mudunuri SB, Dutta A et al. Meta-analysis of tRNA derived RNA fragments reveals that they are evolutionarily conserved and associate with AGO proteins to recognize specific RNA targets. BMC Biol 2014 Oct 1;12:78. PMID: 25270025
  • Abu-Jamous B, Fa R, Roberts DJ, Nandi AK et al. Comprehensive analysis of forty yeast microarray datasets reveals a novel subset of genes (APha-RiB) consistently negatively associated with ribosome biogenesis. BMC Bioinformatics 2014 Sep 29;15(1):322. PMID: 25267386
  • Li Q, Wang Z, Lian J, Schiøtt M et al. Caste-specific RNA editomes in the leaf-cutting ant Acromyrmex echinatior. Nat Commun 2014 Sep 30;5:4943. PMID: 25266559
  • Badgeley MA, Sealfon SC, Chikina MD et al. Hybrid Bayesian-rank integration approach improves the predictive power of genomic dataset aggregation. Bioinformatics 2015 Jan 15;31(2):209-15. PMID: 25266226
  • Lee H, McManus CJ, Cho DY, Eaton M et al. DNA copy number evolution in Drosophila cell lines. Genome Biol 2014 Aug 28;15(8):R70. PMID: 25262759
  • Cornaz-Buros S, Riggi N, DeVito C, Sarre A et al. Targeting cancer stem-like cells as an approach to defeating cellular heterogeneity in Ewing sarcoma. Cancer Res 2014 Nov 15;74(22):6610-22. PMID: 25261238
  • Chojnowski K, Goryca K, Rubel T, Mikula M et al. jChIP: a graphical environment for exploratory ChIP-Seq data analysis. BMC Res Notes 2014 Sep 26;7:676. PMID: 25260876
  • Melboucy-Belkhir S, Pradère P, Tadbiri S, Habib S et al. Forkhead Box F1 represses cell growth and inhibits COL1 and ARPC2 expression in lung fibroblasts in vitro. Am J Physiol Lung Cell Mol Physiol 2014 Dec 1;307(11):L838-47. PMID: 25260753
  • Singh K, Zouhar M, Mazakova J, Rysanek P et al. Genome wide identification of the immunophilin gene family in Leptosphaeria maculans: a causal agent of Blackleg disease in Oilseed Rape (Brassica napus). OMICS 2014 Oct;18(10):645-57. PMID: 25259854
  • Hori M, Nakamachi T, Shibato J, Rakwal R et al. PACAP38 differentially effects genes and CRMP2 protein expression in ischemic core and penumbra regions of permanent middle cerebral artery occlusion model mice brain. Int J Mol Sci 2014 Sep 23;15(9):17014-34. PMID: 25257527
  • Zhao H, Cai W, Su S, Zhi D et al. Screening genes crucial for pediatric pilocytic astrocytoma using weighted gene coexpression network analysis combined with methylation data analysis. Cancer Gene Ther 2014 Oct;21(10):448-55. PMID: 25257306
  • Wen J, Li R, Wen X, Chou G et al. Dysregulation of cell cycle related genes and microRNAs distinguish the low- from high-risk of prostate cancer. Diagn Pathol 2014 Sep 26;9:156. PMID: 25257132
  • Cheng XH, Black M, Ustiyan V, Le T et al. SPDEF inhibits prostate carcinogenesis by disrupting a positive feedback loop in regulation of the Foxm1 oncogene. PLoS Genet 2014 Sep;10(9):e1004656. PMID: 25254494
  • Montojo J, Zuberi K, Rodriguez H, Bader GD et al. GeneMANIA: Fast gene network construction and function prediction for Cytoscape. F1000Res 2014;3:153. PMID: 25254104
  • Chtarbanova S, Lamiable O, Lee KZ, Galiana D et al. Drosophila C virus systemic infection leads to intestinal obstruction. J Virol 2014 Dec;88(24):14057-69. PMID: 25253354
  • McGann JC, Oyer JA, Garg S, Yao H et al. Polycomb- and REST-associated histone deacetylases are independent pathways toward a mature neuronal phenotype. Elife 2014 Sep 24;3:e04235. PMID: 25250711
  • Andrikopoulos SThe proliferative gene cyclin D1 and gluconeogenesis--could suppressing glucose production also promote cancer? Diabetes 2014 Oct;63(10):3177-9. PMID: 25249644
  • Wang L, Chen J, Wang C, Uusküla-Reimand L et al. MACE: model based analysis of ChIP-exo. Nucleic Acids Res 2014 Nov 10;42(20):e156. PMID: 25249628
  • Zhang T, Murphy MW, Gearhart MD, Bardwell VJ et al. The mammalian Doublesex homolog DMRT6 coordinates the transition between mitotic and meiotic developmental programs during spermatogenesis. Development 2014 Oct;141(19):3662-71. PMID: 25249458
  • Ou Yang TH, Cheng WY, Zheng T, Maurer MA et al. Breast cancer prognostic biomarker using attractor metagenes and the FGD3-SUSD3 metagene. Cancer Epidemiol Biomarkers Prev 2014 Dec;23(12):2850-6. PMID: 25249324
  • Barrio-Real L, Benedetti LG, Engel N, Tu Y et al. Subtype-specific overexpression of the Rac-GEF P-REX1 in breast cancer is associated with promoter hypomethylation. Breast Cancer Res 2014 Sep 24;16(5):441. PMID: 25248717
  • Ching T, Huang S, Garmire LX et al. Power analysis and sample size estimation for RNA-Seq differential expression. RNA 2014 Nov;20(11):1684-96. PMID: 25246651
  • Eng KH, Ruggeri C et al. Connecting prognostic ligand receptor signaling loops in advanced ovarian cancer. PLoS One 2014;9(9):e107193. PMID: 25244152
  • Yin J, Liu H, Liu Z, Wang LE et al. Genetic variants in fanconi anemia pathway genes BRCA2 and FANCA predict melanoma survival. J Invest Dermatol 2015 Feb;135(2):542-550. PMID: 25243787
  • Hong G, Chen B, Li H, Zhang W et al. Similar source of differential blood mRNAs in lung cancer and pulmonary inflammatory diseases: calls for improved strategy for identifying cancer-specific biomarkers. PLoS One 2014;9(9):e108104. PMID: 25243474
  • Jin N, Wu D, Gong Y, Bi X et al. Integration strategy is a key step in network-based analysis and dramatically affects network topological properties and inferring outcomes. Biomed Res Int 2014;2014:296349. PMID: 25243127
  • Miller GE, Murphy ML, Cashman R, Ma R et al. Greater inflammatory activity and blunted glucocorticoid signaling in monocytes of chronically stressed caregivers. Brain Behav Immun 2014 Oct;41:191-9. PMID: 25242587
  • Chen H, Fang Y, Zhu H, Li S et al. Protein-protein interaction analysis of distinct molecular pathways in two subtypes of colorectal carcinoma. Mol Med Rep 2014 Dec;10(6):2868-74. PMID: 25242495
  • Ashwal-Fluss R, Meyer M, Pamudurti NR, Ivanov A et al. circRNA biogenesis competes with pre-mRNA splicing. Mol Cell 2014 Oct 2;56(1):55-66. PMID: 25242144
  • Okayama H, Schetter AJ, Ishigame T, Robles AI et al. The expression of four genes as a prognostic classifier for stage I lung adenocarcinoma in 12 independent cohorts. Cancer Epidemiol Biomarkers Prev 2014 Dec;23(12):2884-94. PMID: 25242053
  • Aravinthan A, Shannon N, Heaney J, Hoare M et al. The senescent hepatocyte gene signature in chronic liver disease. Exp Gerontol 2014 Dec;60:37-45. PMID: 25240687
  • Du M, Liu S, Gu D, Wang Q et al. Clinical potential role of circulating microRNAs in early diagnosis of colorectal cancer patients. Carcinogenesis 2014 Dec;35(12):2723-30. PMID: 25239640
  • Zaramela LS, Vêncio RZ, ten-Caten F, Baliga NS et al. Transcription start site associated RNAs (TSSaRNAs) are ubiquitous in all domains of life. PLoS One 2014;9(9):e107680. PMID: 25238539
  • Cheng YS, Lin C, Cheng YP, Yu YL et al. Epithelial cell transformation sequence 2 is a potential biomarker of unfavorable survival in human gliomas. Neurol India 2014 Jul-Aug;62(4):406-9. PMID: 25237947
  • Saadatian Z, Masotti A, Nariman Saleh Fam Z, Alipoor B et al. Single-Nucleotide Polymorphisms Within MicroRNAs Sequences and Their 3' UTR Target Sites May Regulate Gene Expression in Gastrointestinal Tract Cancers. Iran Red Crescent Med J 2014 Jul;16(7):e16659. PMID: 25237569
  • Onishi C, Mori-Kimachi S, Hirade T, Abe M et al. Internal tandem duplication mutations in FLT3 gene augment chemotaxis to Cxcl12 protein by blocking the down-regulation of the Rho-associated kinase via the Cxcl12/Cxcr4 signaling axis. J Biol Chem 2014 Nov 7;289(45):31053-65. PMID: 25237195
  • Wu DD, Wang X, Li Y, Zeng L et al. "Out of pollen" hypothesis for origin of new genes in flowering plants: study from Arabidopsis thaliana. Genome Biol Evol 2014 Sep 17;6(10):2822-9. PMID: 25237051
  • Scheinin I, Sie D, Bengtsson H, van de Wiel MA et al. DNA copy number analysis of fresh and formalin-fixed specimens by shallow whole-genome sequencing with identification and exclusion of problematic regions in the genome assembly. Genome Res 2014 Dec;24(12):2022-32. PMID: 25236618
  • Itzel T, Scholz P, Maass T, Krupp M et al. Translating bioinformatics in oncology: guilt-by-profiling analysis and identification of KIF18B and CDCA3 as novel driver genes in carcinogenesis. Bioinformatics 2015 Jan 15;31(2):216-24. PMID: 25236463
  • Ghosh S, Gu F, Wang CM, Lin CL et al. Genome-wide DNA methylation profiling reveals parity-associated hypermethylation of FOXA1. Breast Cancer Res Treat 2014 Oct;147(3):653-9. PMID: 25234841
  • Ruiz-Orera J, Messeguer X, Subirana JA, Alba MM et al. Long non-coding RNAs as a source of new peptides. Elife 2014 Sep 16;3:e03523. PMID: 25233276
  • Budden DM, Hurley DG, Crampin EJ et al. Predictive modelling of gene expression from transcriptional regulatory elements. Brief Bioinform 2015 Jul;16(4):616-28. PMID: 25231769
  • Weiser M, Mukherjee S, Furey TS et al. Novel distal eQTL analysis demonstrates effect of population genetic architecture on detecting and interpreting associations. Genetics 2014 Nov;198(3):879-93. PMID: 25230953
  • Yilmaz-Ozcan S, Sade A, Kucukkaraduman B, Kaygusuz Y et al. Epigenetic mechanisms underlying the dynamic expression of cancer-testis genes, PAGE2, -2B and SPANX-B, during mesenchymal-to-epithelial transition. PLoS One 2014;9(9):e107905. PMID: 25229454
  • Lee KH, Lo HL, Tang WC, Hsiao HH et al. A gene expression signature-based approach reveals the mechanisms of action of the Chinese herbal medicine berberine. Sci Rep 2014 Sep 17;4:6394. PMID: 25227736
  • Baldwin DA, Feldman M, Alwine JC, Robertson ES et al. Metagenomic assay for identification of microbial pathogens in tumor tissues. mBio 2014 Sep 16;5(5):e01714-14. PMID: 25227467
  • Chen WY, Wu F, You ZY, Zhang ZM et al. Analyzing the differentially expressed genes and pathway cross-talk in aggressive breast cancer. J Obstet Gynaecol Res 2015 Jan;41(1):132-40. PMID: 25227254
  • Tawa GJ, AbdulHameed MD, Yu X, Kumar K et al. Characterization of chemically induced liver injuries using gene co-expression modules. PLoS One 2014;9(9):e107230. PMID: 25226513
  • Cao Y, Slaney CY, Bidwell BN, Parker BS et al. BMP4 inhibits breast cancer metastasis by blocking myeloid-derived suppressor cell activity. Cancer Res 2014 Sep 15;74(18):5091-102. PMID: 25224959
  • Lu F, Liu Y, Jiang L, Yamaguchi S et al. Role of Tet proteins in enhancer activity and telomere elongation. Genes Dev 2014 Oct 1;28(19):2103-19. PMID: 25223896
  • Kang MJ, Park YJ, You S, Yoo SA et al. Urinary proteome profile predictive of disease activity in rheumatoid arthritis. J Proteome Res 2014 Nov 7;13(11):5206-17. PMID: 25222917
  • Dong K, Zhang F, Zhu W, Wang Z et al. Partial least squares based gene expression analysis in posttraumatic stress disorder. Eur Rev Med Pharmacol Sci 2014 Aug;18(16):2306-10. PMID: 25219830
  • Wang J, Zhao YC, Lu YD, Ma CP et al. Integrated bioinformatics analyses identify dysregulated miRNAs in lung cancer. Eur Rev Med Pharmacol Sci 2014 Aug;18(16):2270-4. PMID: 25219825
  • Al Olama AA, Kote-Jarai Z, Berndt SI, Conti DV et al. A meta-analysis of 87,040 individuals identifies 23 new susceptibility loci for prostate cancer. Nat Genet 2014 Oct;46(10):1103-9. PMID: 25217961
  • Zhang Y, Moschetta M, Huynh D, Tai YT et al. Pyk2 promotes tumor progression in multiple myeloma. Blood 2014 Oct 23;124(17):2675-86. PMID: 25217697
  • Kagoya Y, Yoshimi A, Tsuruta-Kishino T, Arai S et al. JAK2V617F+ myeloproliferative neoplasm clones evoke paracrine DNA damage to adjacent normal cells through secretion of lipocalin-2. Blood 2014 Nov 6;124(19):2996-3006. PMID: 25217696
  • Ma S, Kemmeren P, Gresham D, Statnikov A et al. De-novo learning of genome-scale regulatory networks in S. cerevisiae. PLoS One 2014;9(9):e106479. PMID: 25215507
  • Zhang R, Abou-Samra AB et al. A dual role of lipasin (betatrophin) in lipid metabolism and glucose homeostasis: consensus and controversy. Cardiovasc Diabetol 2014 Sep 13;13:133. PMID: 25212743
  • Huang CH, Chang PM, Lin YJ, Wang CH et al. Drug repositioning discovery for early- and late-stage non-small-cell lung cancer. Biomed Res Int 2014;2014:193817. PMID: 25210704
  • Satoh J, Yamamoto Y, Kitano S, Takitani M et al. Molecular network analysis suggests a logical hypothesis for the pathological role of c9orf72 in amyotrophic lateral sclerosis/frontotemporal dementia. J Cent Nerv Syst Dis 2014;6:69-78. PMID: 25210488
  • Alpern D, Langer D, Ballester B, Le Gras S et al. TAF4, a subunit of transcription factor II D, directs promoter occupancy of nuclear receptor HNF4A during post-natal hepatocyte differentiation. Elife 2014 Sep 10;3:e03613. PMID: 25209997
  • Lin F, Jiang L, Liu Y, Lv Y et al. Genome-wide identification of housekeeping genes in maize. Plant Mol Biol 2014 Nov;86(4-5):543-54. PMID: 25209110
  • Xu P, Kong Y, Song D, Huang C et al. Conservation and functional influence of alternative splicing in wood formation of Populus and Eucalyptus. BMC Genomics 2014 Sep 10;15(1):780. PMID: 25209012
  • Li Z, Du B, Li S, Lv X et al. Cloning and characterization of an apolipoprotein C2 promoter in the mouse central nervous system. Neural Regen Res 2013 Jan 15;8(2):156-61. PMID: 25206486
  • Donnelly N, Passerini V, Dürrbaum M, Stingele S et al. HSF1 deficiency and impaired HSP90-dependent protein folding are hallmarks of aneuploid human cells. EMBO J 2014 Oct 16;33(20):2374-87. PMID: 25205676
  • Yang Z, Zheng R, Gao Y, Zhang Q et al. Gene expression profiles on predicting protein interaction network and exploring of new treatments for lung cancer. Mol Biol Rep 2014 Dec;41(12):8203-10. PMID: 25205123
  • Bleckmann A, Leha A, Artmann S, Menck K et al. Integrated miRNA and mRNA profiling of tumor-educated macrophages identifies prognostic subgroups in estrogen receptor-positive breast cancer. Mol Oncol 2015 Jan;9(1):155-66. PMID: 25205039
  • Lee CH, Chang JS, Syu SH, Wong TS et al. IL-1β promotes malignant transformation and tumor aggressiveness in oral cancer. J Cell Physiol 2015 Apr;230(4):875-84. PMID: 25204733
  • Tao J, Jiang MM, Jiang L, Salvo JS et al. Notch activation as a driver of osteogenic sarcoma. Cancer Cell 2014 Sep 8;26(3):390-401. PMID: 25203324
  • Chang YL, Gao HW, Chiang CP, Wang WM et al. Human mitochondrial NAD(P)(+)-dependent malic enzyme participates in cutaneous melanoma progression and invasion. J Invest Dermatol 2015 Mar;135(3):807-815. PMID: 25202825
  • Pierre-Jean M, Rigaill G, Neuvial P et al. Performance evaluation of DNA copy number segmentation methods. Brief Bioinform 2015 Jul;16(4):600-15. PMID: 25202135
  • McGovern N, Schlitzer A, Gunawan M, Jardine L et al. Human dermal CD14⁺ cells are a transient population of monocyte-derived macrophages. Immunity 2014 Sep 18;41(3):465-477. PMID: 25200712
  • Vento-Tormo R, Rodríguez-Ubreva J, Lisio LD, Islam AB et al. NF-κB directly mediates epigenetic deregulation of common microRNAs in Epstein-Barr virus-mediated transformation of B-cells and in lymphomas. Nucleic Acids Res 2014;42(17):11025-39. PMID: 25200074
  • Jiang SY, Vanitha J, Bai Y, Ramachandran S et al. A novel binary T-vector with the GFP reporter gene for promoter characterization. PLoS One 2014;9(9):e107328. PMID: 25197968
  • Sikorski K, Wesoly J, Bluyssen HA et al. Data mining of atherosclerotic plaque transcriptomes predicts STAT1-dependent inflammatory signal integration in vascular disease. Int J Mol Sci 2014 Aug 18;15(8):14313-31. PMID: 25196434
  • Oestreich KJ, Read KA, Gilbertson SE, Hough KP et al. Bcl-6 directly represses the gene program of the glycolysis pathway. Nat Immunol 2014 Oct;15(10):957-64. PMID: 25194422
  • Nagai T, Niikura H, Okamoto S, Nakabayashi K et al. A new diagnostic method for rapid detection of lymph node metastases using a one-step nucleic acid amplification (OSNA) assay in endometrial cancer. Ann Surg Oncol 2015 Mar;22(3):980-6. PMID: 25190122
  • Lu TP, Hsu YY, Lai LC, Tsai MH et al. Identification of gene expression biomarkers for predicting radiation exposure. Sci Rep 2014 Sep 5;4:6293. PMID: 25189756
  • Sowalsky AG, Xia Z, Wang L, Zhao H et al. Whole transcriptome sequencing reveals extensive unspliced mRNA in metastatic castration-resistant prostate cancer. Mol Cancer Res 2015 Jan;13(1):98-106. PMID: 25189356
  • Li MD, Burns TC, Morgan AA, Khatri P et al. Integrated multi-cohort transcriptional meta-analysis of neurodegenerative diseases. Acta Neuropathol Commun 2014 Sep 4;2:93. PMID: 25187168
  • Ye J, Fan J, Venneti S, Wan YW et al. Serine catabolism regulates mitochondrial redox control during hypoxia. Cancer Discov 2014 Dec;4(12):1406-17. PMID: 25186948
  • Bayraktar S, Royce M, Stork-Sloots L, de Snoo F et al. Molecular subtyping predicts pathologic tumor response in early-stage breast cancer treated with neoadjuvant docetaxel plus capecitabine with or without trastuzumab chemotherapy. Med Oncol 2014 Oct;31(10):163. PMID: 25186065
  • Osmanbeyoglu HU, Pelossof R, Bromberg JF, Leslie CS et al. Linking signaling pathways to transcriptional programs in breast cancer. Genome Res 2014 Nov;24(11):1869-80. PMID: 25183703
  • Zhang Y, Huang Z, Zhu Z, Liu J et al. Network analysis of ChIP-Seq data reveals key genes in prostate cancer. Eur J Med Res 2014 Sep 3;19(1):47. PMID: 25183411
  • Sinclair SH, Rennoll-Bankert KE, Dumler JS et al. Effector bottleneck: microbial reprogramming of parasitized host cell transcription by epigenetic remodeling of chromatin structure. Front Genet 2014;5:274. PMID: 25177343
  • Herz HM, Morgan M, Gao X, Jackson J et al. Histone H3 lysine-to-methionine mutants as a paradigm to study chromatin signaling. Science 2014 Aug 29;345(6200):1065-70. PMID: 25170156
  • Brown CW, Brodsky AS, Freiman RN et al. Notch3 overexpression promotes anoikis resistance in epithelial ovarian cancer via upregulation of COL4A2. Mol Cancer Res 2015 Jan;13(1):78-85. PMID: 25169943
  • Swamynathan S, Swamynathan SK et al. SLURP-1 modulates corneal homeostasis by serving as a soluble scavenger of urokinase-type plasminogen activator. Invest Ophthalmol Vis Sci 2014 Aug 28;55(10):6251-61. PMID: 25168896
  • Kaul A, Schuster E, Jennings BH et al. The Groucho co-repressor is primarily recruited to local target sites in active chromatin to attenuate transcription. PLoS Genet 2014 Aug;10(8):e1004595. PMID: 25165826
  • Ruffel S, Gojon A, Lejay L et al. Signal interactions in the regulation of root nitrate uptake. J Exp Bot 2014 Oct;65(19):5509-17. PMID: 25165146
  • Wang H, Sun Q, Zhao W, Qi L et al. Individual-level analysis of differential expression of genes and pathways for personalized medicine. Bioinformatics 2015 Jan 1;31(1):62-8. PMID: 25165092
  • Wang Z, Da Silva TG, Jin K, Han X et al. Notch signaling drives stemness and tumorigenicity of esophageal adenocarcinoma. Cancer Res 2014 Nov 1;74(21):6364-74. PMID: 25164006
  • Wellman TL, Eckenstein M, Wong C, Rincon M et al. Threonyl-tRNA synthetase overexpression correlates with angiogenic markers and progression of human ovarian cancer. BMC Cancer 2014 Aug 27;14:620. PMID: 25163878
  • Hasegawa T, Yamaguchi R, Nagasaki M, Miyano S et al. Inference of gene regulatory networks incorporating multi-source biological knowledge via a state space model with L1 regularization. PLoS One 2014;9(8):e105942. PMID: 25162401
  • Kim Y, Jang JH, Choi S, Hwang D et al. TEMPI: probabilistic modeling time-evolving differential PPI networks with multiPle information. Bioinformatics 2014 Sep 1;30(17):i453-60. PMID: 25161233
  • Ahn T, Lee E, Huh N, Park T et al. Personalized identification of altered pathways in cancer using accumulated normal tissue data. Bioinformatics 2014 Sep 1;30(17):i422-9. PMID: 25161229
  • Rowell J, Koitabashi N, Kass DA, Barth AS et al. Dynamic gene expression patterns in animal models of early and late heart failure reveal biphasic-bidirectional transcriptional activation of signaling pathways. Physiol Genomics 2014 Oct 15;46(20):779-87. PMID: 25159852
  • Wang JQuality versus accuracy: result of a reanalysis of protein-binding microarrays from the DREAM5 challenge by using BayesPI2 including dinucleotide interdependence. BMC Bioinformatics 2014 Aug 27;15(1):289. PMID: 25158938
  • Cook MB, Wood SN, Cash BD, Young P et al. Association between circulating levels of sex steroid hormones and Barrett's esophagus in men: a case-control analysis. Clin Gastroenterol Hepatol 2015 Apr;13(4):673-82. PMID: 25158929
  • Wang G, Lovato A, Polverari A, Wang M et al. Genome-wide identification and analysis of mitogen activated protein kinase kinase kinase gene family in grapevine (Vitis vinifera). BMC Plant Biol 2014 Aug 27;14:219. PMID: 25158790
  • Porath HT, Carmi S, Levanon EY et al. A genome-wide map of hyper-edited RNA reveals numerous new sites. Nat Commun 2014 Aug 27;5:4726. PMID: 25158696
  • Cope LM, Fackler MJ, Lopez-Bujanda Z, Wolff AC et al. Do breast cancer cell lines provide a relevant model of the patient tumor methylome? PLoS One 2014;9(8):e105545. PMID: 25157401
  • Brown NJ, MacDonald DA, Samanta MP, Friedman HL et al. A critical reanalysis of the relationship between genomics and well-being. Proc Natl Acad Sci U S A 2014 Sep 2;111(35):12705-9. PMID: 25157145
  • Zadran S, Arumugam R, Herschman H, Phelps ME et al. Surprisal analysis characterizes the free energy time course of cancer cells undergoing epithelial-to-mesenchymal transition. Proc Natl Acad Sci U S A 2014 Sep 9;111(36):13235-40. PMID: 25157127
  • Guefrachi I, Nagymihaly M, Pislariu CI, Van de Velde W et al. Extreme specificity of NCR gene expression in Medicago truncatula. BMC Genomics 2014 Aug 25;15(1):712. PMID: 25156206
  • Sikora D, Rocheleau L, Brown EG, Pelchat M et al. Deep sequencing reveals the eight facets of the influenza A/HongKong/1/1968 (H3N2) virus cap-snatching process. Sci Rep 2014 Aug 26;4:6181. PMID: 25154590
  • Davis BK, Philipson C, Hontecillas R, Eden K et al. Emerging significance of NLRs in inflammatory bowel disease. Inflamm Bowel Dis 2014 Dec;20(12):2412-32. PMID: 25153506
  • López Y, Vandenbon A, Nakai K et al. A set of structural features defines the cis-regulatory modules of antenna-expressed genes in Drosophila melanogaster. PLoS One 2014;9(8):e104342. PMID: 25153327
  • Ni M, Ye F, Zhu J, Li Z et al. ExpTreeDB: web-based query and visualization of manually annotated gene expression profiling experiments of human and mouse from GEO. Bioinformatics 2014 Dec 1;30(23):3379-86. PMID: 25152233
  • Li R, Dong X, Ma C, Liu L et al. Computational identification of surrogate genes for prostate cancer phases using machine learning and molecular network analysis. Theor Biol Med Model 2014 Aug 23;11:37. PMID: 25151146
  • Shimoda M, Principe S, Jackson HW, Luga V et al. Loss of the Timp gene family is sufficient for the acquisition of the CAF-like cell state. Nat Cell Biol 2014 Sep;16(9):889-901. PMID: 25150980
  • Risso D, Ngai J, Speed TP, Dudoit S et al. Normalization of RNA-seq data using factor analysis of control genes or samples. Nat Biotechnol 2014 Sep;32(9):896-902. PMID: 25150836
  • Rajasundaram D, Selbig J, Persson S, Klie S et al. Co-ordination and divergence of cell-specific transcription and translation of genes in arabidopsis root cells. Ann Bot 2014 Oct;114(6):1109-23. PMID: 25149544
  • Ounzain S, Pezzuto I, Micheletti R, Burdet F et al. Functional importance of cardiac enhancer-associated noncoding RNAs in heart development and disease. J Mol Cell Cardiol 2014 Nov;76:55-70. PMID: 25149110
  • Eigsti RL, Sudan B, Wilson ME, Graff JW et al. Regulation of activation-associated microRNA accumulation rates during monocyte-to-macrophage differentiation. J Biol Chem 2014 Oct 10;289(41):28433-47. PMID: 25148686
  • Pacheco-Arjona JR, Ramirez-Prado JH et al. Large-scale phylogenetic classification of fungal chitin synthases and identification of a putative cell-wall metabolism gene cluster in Aspergillus genomes. PLoS One 2014;9(8):e104920. PMID: 25148134
  • Poleshko A, Kossenkov AV, Shalginskikh N, Pecherskaya A et al. Human factors and pathways essential for mediating epigenetic gene silencing. Epigenetics 2014 Sep;9(9):1280-9. PMID: 25147916
  • Zupanic A, Meplan C, Grellscheid SN, Mathers JC et al. Detecting translational regulation by change point analysis of ribosome profiling data sets. RNA 2014 Oct;20(10):1507-18. PMID: 25147239
  • Goel G, Conway KL, Jaeger M, Netea MG et al. Multivariate inference of pathway activity in host immunity and response to therapeutics. Nucleic Acids Res 2014;42(16):10288-306. PMID: 25147207
  • Zhou T, Wang T, Garcia JG et al. Expression of nicotinamide phosphoribosyltransferase-influenced genes predicts recurrence-free survival in lung and breast cancers. Sci Rep 2014 Aug 22;4:6107. PMID: 25146220
  • Gambarotta G, Ronchi G, Friard O, Galletta P et al. Identification and validation of suitable housekeeping genes for normalizing quantitative real-time PCR assays in injured peripheral nerves. PLoS One 2014;9(8):e105601. PMID: 25144298
  • Dhal PK, Barman RK, Saha S, Das S et al. Dynamic modularity of host protein interaction networks in Salmonella Typhi infection. PLoS One 2014;9(8):e104911. PMID: 25144185
  • Gutiérrez-Avilés D, Rubio-Escudero C et al. Mining 3D patterns from gene expression temporal data: a new tricluster evaluation measure. ScientificWorldJournal 2014;2014:624371. PMID: 25143987
  • Bernardo TJ, Dubrovskaya VA, Xie X, Dubrovsky EB et al. A view through a chromatin loop: insights into the ecdysone activation of early genes in Drosophila. Nucleic Acids Res 2014;42(16):10409-24. PMID: 25143532
  • Yuen BT, Bush KM, Barrilleaux BL, Cotterman R et al. Histone H3.3 regulates dynamic chromatin states during spermatogenesis. Development 2014 Sep;141(18):3483-94. PMID: 25142466
  • Huang YH, Al-Aidaroos AQ, Yuen HF, Zhang SD et al. A role of autophagy in PTP4A3-driven cancer progression. Autophagy 2014 Oct 1;10(10):1787-800. PMID: 25136802
  • Bhatnagar S, Zhu X, Ou J, Lin L et al. Genetic and pharmacological reactivation of the mammalian inactive X chromosome. Proc Natl Acad Sci U S A 2014 Sep 2;111(35):12591-8. PMID: 25136103
  • Fluman N, Navon S, Bibi E, Pilpel Y et al. mRNA-programmed translation pauses in the targeting of E. coli membrane proteins. Elife 2014 Aug 18;3. PMID: 25135940
  • Anandasabapathy N, Feder R, Mollah S, Tse SW et al. Classical Flt3L-dependent dendritic cells control immunity to protein vaccine. J Exp Med 2014 Aug 25;211(9):1875-91. PMID: 25135299
  • Aloisio GM, Nakada Y, Saatcioglu HD, Peña CG et al. PAX7 expression defines germline stem cells in the adult testis. J Clin Invest 2014 Sep;124(9):3929-44. PMID: 25133429
  • Jia X, Li W, Miao Z, Feng C et al. Identification of modules related to programmed cell death in CHD based on EHEN. Biomed Res Int 2014;2014:475379. PMID: 25133163
  • Gauson EJ, Windle B, Donaldson MM, Caffarel MM et al. Regulation of human genome expression and RNA splicing by human papillomavirus 16 E2 protein. Virology 2014 Nov;468-470:10-18. PMID: 25129434
  • Yan H, Evans J, Kalmbach M, Moore R et al. HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data. BMC Bioinformatics 2014 Aug 15;15(1):280. PMID: 25128017
  • He L, Wang Y, Yang Y, Huang L et al. Identifying the gene signatures from gene-pathway bipartite network guarantees the robust model performance on predicting the cancer prognosis. Biomed Res Int 2014;2014:424509. PMID: 25126556
  • Schmitt BM, Rudolph KL, Karagianni P, Fonseca NA et al. High-resolution mapping of transcriptional dynamics across tissue development reveals a stable mRNA-tRNA interface. Genome Res 2014 Nov;24(11):1797-807. PMID: 25122613
  • He N, Kim N, Song M, Park C et al. Integrated analysis of transcriptomes of cancer cell lines and patient samples reveals STK11/LKB1-driven regulation of cAMP phosphodiesterase-4D. Mol Cancer Ther 2014 Oct;13(10):2463-73. PMID: 25122068
  • Li H, Qu D, McDonald A, Isaac SM et al. Trophoblast-specific reduction of VEGFA alters placental gene expression and maternal cardiovascular function in mice. Biol Reprod 2014 Oct;91(4):87. PMID: 25122061
  • Zhu X, Tao L, Yao J, Sun P et al. Identification of collaboration patterns of dysfunctional pathways in breast cancer. Int J Clin Exp Pathol 2014;7(7):3853-64. PMID: 25120762
  • Ghosal S, Das S, Sen R, Chakrabarti J et al. HumanViCe: host ceRNA network in virus infected cells in human. Front Genet 2014;5:249. PMID: 25120561
  • Kakrana A, Hammond R, Patel P, Nakano M et al. sPARTA: a parallelized pipeline for integrated analysis of plant miRNA and cleaved mRNA data sets, including new miRNA target-identification software. Nucleic Acids Res 2014 Oct;42(18):e139. PMID: 25120269
  • Ye J, Wen L, Liu DL, Lai GX et al. ATF3 and extracellular matrix-related genes associated with the process of chronic obstructive pulmonary. Lung 2014 Dec;192(6):881-8. PMID: 25119290
  • Kong XD, Liu N, Xu XJ et al. Bioinformatics analysis of biomarkers and transcriptional factor motifs in Down syndrome. Braz J Med Biol Res 2014 Oct;47(10):834-41. PMID: 25118625
  • Radhakrishnan P, Dabelsteen S, Madsen FB, Francavilla C et al. Immature truncated O-glycophenotype of cancer directly induces oncogenic features. Proc Natl Acad Sci U S A 2014 Sep 30;111(39):E4066-75. PMID: 25118277
  • Abdelsamad A, Pecinka A et al. Pollen-specific activation of Arabidopsis retrogenes is associated with global transcriptional reprogramming. Plant Cell 2014 Aug;26(8):3299-313. PMID: 25118244
  • Noll JE, Hewett DR, Williams SA, Vandyke K et al. SAMSN1 is a tumor suppressor gene in multiple myeloma. Neoplasia 2014 Jul;16(7):572-85. PMID: 25117979
  • Wu AM, Yang M, Dalvi P, Turinsky AL et al. Role of STAT5 and epigenetics in lactation-associated upregulation of multidrug transporter ABCG2 in the mammary gland. Am J Physiol Endocrinol Metab 2014 Oct 1;307(7):E596-610. PMID: 25117410
  • White NM, Cabanski CR, Silva-Fisher JM, Dang HX et al. Transcriptome sequencing reveals altered long intergenic non-coding RNAs in lung cancer. Genome Biol 2014 Aug 13;15(8):429. PMID: 25116943
  • Chen R, Zhang G, Zhou Y, Li N et al. A time course-dependent metastatic gene expression signature predicts outcome in human metastatic melanomas. Diagn Pathol 2014 Aug 13;9:155. PMID: 25116415
  • Liao B, Jiang Y, Yuan G, Zhu W et al. Learning a weighted meta-sample based parameter free sparse representation classification for microarray data. PLoS One 2014;9(8):e104314. PMID: 25115965
  • Rye MB, Bertilsson H, Drabløs F, Angelsen A et al. Gene signatures ESC, MYC and ERG-fusion are early markers of a potentially dangerous subtype of prostate cancer. BMC Med Genomics 2014 Aug 12;7:50. PMID: 25115192
  • Paulsen J, Rødland EA, Holden L, Holden M et al. A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions. Nucleic Acids Res 2014 Oct;42(18):e143. PMID: 25114054
  • Mahmoud O, Harrison A, Perperoglou A, Gul A et al. A feature selection method for classification within functional genomics experiments based on the proportional overlapping score. BMC Bioinformatics 2014 Aug 11;15(1):274. PMID: 25113817
  • Kim N, Jeong E, Wang X, Yoon S et al. Dissecting the global variation of gene expression for the functional interpretation of transcriptome data. Genomics 2014 Oct;104(4):279-86. PMID: 25111883
  • Inkeles MS, Scumpia PO, Swindell WR, Lopez D et al. Comparison of molecular signatures from multiple skin diseases identifies mechanisms of immunopathogenesis. J Invest Dermatol 2015 Jan;135(1):151-159. PMID: 25111617
  • Zhong DIdentification of Differentially Expressed Gene after Femoral Fracture via Microarray Profiling. Int J Genomics 2014;2014:208751. PMID: 25110652
  • Sveen A, Johannessen B, Teixeira MR, Lothe RA et al. Transcriptome instability as a molecular pan-cancer characteristic of carcinomas. BMC Genomics 2014 Aug 10;15(1):672. PMID: 25109687
  • Kweon KH, Lee CR, Jung SJ, Ban EJ et al. Sirt1 induction confers resistance to etoposide-induced genotoxic apoptosis in thyroid cancers. Int J Oncol 2014 Nov;45(5):2065-75. PMID: 25109285
  • Zhao Y, Lin J, Xu B, Hu S et al. MicroRNA-mediated repression of nonsense mRNAs. Elife 2014 Aug 8;3:e03032. PMID: 25107276
  • Carmona FJ, Davalos V, Vidal E, Gomez A et al. A comprehensive DNA methylation profile of epithelial-to-mesenchymal transition. Cancer Res 2014 Oct 1;74(19):5608-19. PMID: 25106427
  • Rosani U, Domeneghetti S, Pallavicini A, Venier P et al. Target capture and massive sequencing of genes transcribed in Mytilus galloprovincialis. Biomed Res Int 2014;2014:538549. PMID: 25101286
  • Yan J, Bradley MD, Friedman J, Welch RD et al. Phenotypic profiling of ABC transporter coding genes in Myxococcus xanthus. Front Microbiol 2014;5:352. PMID: 25101061
  • Miles WO, Korenjak M, Griffiths LM, Dyer MA et al. Post-transcriptional gene expression control by NANOS is up-regulated and functionally important in pRb-deficient cells. EMBO J 2014 Oct 1;33(19):2201-15. PMID: 25100735
  • Arthur LM, Turnbull AK, Webber VL, Larionov AA et al. Molecular changes in lobular breast cancers in response to endocrine therapy. Cancer Res 2014 Oct 1;74(19):5371-6. PMID: 25100562
  • Agnihotri S, Burrell K, Buczkowicz P, Remke M et al. ATM regulates 3-methylpurine-DNA glycosylase and promotes therapeutic resistance to alkylating agents. Cancer Discov 2014 Oct;4(10):1198-213. PMID: 25100205
  • Player A, Oguamanam T, Okanmelu J, Burrell K et al. Preliminary characterization of IL32 in basal-like/triple negative compared to other types of breast cell lines and tissues. BMC Res Notes 2014 Aug 7;7:501. PMID: 25100201
  • Beck TN, Chikwem AJ, Solanki NR, Golemis EA et al. Bioinformatic approaches to augment study of epithelial-to-mesenchymal transition in lung cancer. Physiol Genomics 2014 Oct 1;46(19):699-724. PMID: 25096367
  • Lin L, Yao Z, Bhuvaneshwar K, Gusev Y et al. Transcriptional regulation of STAT3 by SPTBN1 and SMAD3 in HCC through cAMP-response element-binding proteins ATF3 and CREB2. Carcinogenesis 2014 Nov;35(11):2393-403. PMID: 25096061
  • Vensko SP 2nd, Stone EA et al. No evidence for a global male-specific lethal complex-mediated dosage compensation contribution to the demasculinization of the Drosophila melanogaster X chromosome. PLoS One 2014;9(8):e103659. PMID: 25093841
  • Rezola A, Pey J, Rubio Á, Planes FJ et al. In-silico prediction of key metabolic differences between two non-small cell lung cancer subtypes. PLoS One 2014;9(8):e103998. PMID: 25093336
  • Takao K, Miyakawa T et al. Genomic responses in mouse models greatly mimic human inflammatory diseases. Proc Natl Acad Sci U S A 2015 Jan 27;112(4):1167-72. PMID: 25092317
  • Madissoon E, Töhönen V, Vesterlund L, Katayama S et al. Differences in gene expression between mouse and human for dynamically regulated genes in early embryo. PLoS One 2014;9(8):e102949. PMID: 25089626
  • Hause RJ, Stark AL, Antao NN, Gorsic LK et al. Identification and validation of genetic variants that influence transcription factor and cell signaling protein levels. Am J Hum Genet 2014 Aug 7;95(2):194-208. PMID: 25087611
  • Ding Y, Tang S, Liao SG, Jia J et al. Bias correction for selecting the minimal-error classifier from many machine learning models. Bioinformatics 2014 Nov 15;30(22):3152-8. PMID: 25086004
  • Saraconi G, Severi F, Sala C, Mattiuz G et al. The RNA editing enzyme APOBEC1 induces somatic mutations and a compatible mutational signature is present in esophageal adenocarcinomas. Genome Biol 2014 Jul 31;15(7):417. PMID: 25085003
  • Rodriguez MC, Conti G, Zavallo D, Manacorda CA et al. TMV-Cg Coat Protein stabilizes DELLA proteins and in turn negatively modulates salicylic acid-mediated defense pathway during Arabidopsis thaliana viral infection. BMC Plant Biol 2014 Aug 3;14:210. PMID: 25084837
  • Shin EM, Hay HS, Lee MH, Goh JN et al. DEAD-box helicase DP103 defines metastatic potential of human breast cancers. J Clin Invest 2014 Sep;124(9):3807-24. PMID: 25083991
  • Benayoun BA, Pollina EA, Ucar D, Mahmoudi S et al. H3K4me3 breadth is linked to cell identity and transcriptional consistency. Cell 2014 Jul 31;158(3):673-88. PMID: 25083876
  • Sangaletti S, Tripodo C, Portararo P, Dugo M et al. Stromal niche communalities underscore the contribution of the matricellular protein SPARC to B-cell development and lymphoid malignancies. Oncoimmunology 2014;3:e28989. PMID: 25083326
  • Julià A, Domènech E, Chaparro M, García-Sánchez V et al. A genome-wide association study identifies a novel locus at 6q22.1 associated with ulcerative colitis. Hum Mol Genet 2014 Dec 20;23(25):6927-34. PMID: 25082827
  • Mangul S, Caciula A, Al Seesi S, Brinza D et al. Transcriptome assembly and quantification from Ion Torrent RNA-Seq data. BMC Genomics 2014;15 Suppl 5(Suppl 5):S7. PMID: 25082147
  • Narayanan M, Huynh JL, Wang K, Yang X et al. Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases. Mol Syst Biol 2014 Jul 30;10(7):743. PMID: 25080494
  • Lin W, Cerny D, Chua E, Duan K et al. Human regulatory B cells combine phenotypic and genetic hallmarks with a distinct differentiation fate. J Immunol 2014 Sep 1;193(5):2258-66. PMID: 25080484
  • Garamszegi S, Yen JY, Honko AN, Geisbert JB et al. Transcriptional correlates of disease outcome in anticoagulant-treated non-human primates infected with ebolavirus. PLoS Negl Trop Dis 2014;8(7):e3061. PMID: 25079789
  • Emmert-Streib F, de Matos Simoes R, Glazko G, McDade S et al. Functional and genetic analysis of the colon cancer network. BMC Bioinformatics 2014;15 Suppl 6(Suppl 6):S6. PMID: 25079297
  • Zhang X, Martinez D, Koledova Z, Qiao G et al. FGF ligands of the postnatal mammary stroma regulate distinct aspects of epithelial morphogenesis. Development 2014 Sep;141(17):3352-62. PMID: 25078648
  • Isserlin R, Merico D, Voisin V, Bader GD et al. Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results. F1000Res 2014;3:141. PMID: 25075306
  • Dimitriadou E, Van der Aa N, Cheng J, Voet T et al. Single cell segmental aneuploidy detection is compromised by S phase. Mol Cytogenet 2014;7:46. PMID: 25075223
  • Dephoure N, Hwang S, O'Sullivan C, Dodgson SE et al. Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast. Elife 2014 Jul 29;3:e03023. PMID: 25073701
  • Muti P, Sacconi A, Hossain A, Donzelli S et al. Downregulation of microRNAs 145-3p and 145-5p is a long-term predictor of postmenopausal breast cancer risk: The ORDET prospective study. Cancer Epidemiol Biomarkers Prev 2014 Nov;23(11):2471-81. PMID: 25073626
  • Braun NA, Celada LJ, Herazo-Maya JD, Abraham S et al. Blockade of the programmed death-1 pathway restores sarcoidosis CD4(+) T-cell proliferative capacity. Am J Respir Crit Care Med 2014 Sep 1;190(5):560-71. PMID: 25073001
  • El Ashkar S, De Rijck J, Demeulemeester J, Vets S et al. BET-independent MLV-based Vectors Target Away From Promoters and Regulatory Elements. Mol Ther Nucleic Acids 2014 Jul 29;3(7):e179. PMID: 25072693
  • Hernández-Prieto MA, Semeniuk TA, Futschik ME et al. Toward a systems-level understanding of gene regulatory, protein interaction, and metabolic networks in cyanobacteria. Front Genet 2014;5:191. PMID: 25071821
  • Amelio AL, Fallahi M, Schaub FX, Zhang M et al. CRTC1/MAML2 gain-of-function interactions with MYC create a gene signature predictive of cancers with CREB-MYC involvement. Proc Natl Acad Sci U S A 2014 Aug 12;111(32):E3260-8. PMID: 25071166
  • Yang YK, Lu XB, Wang YH, Yang MM et al. Identification crucial genes in peripheral neuropathic pain induced by spared nerve injury. Eur Rev Med Pharmacol Sci 2014;18(15):2152-9. PMID: 25070821
  • Jiang HB, Yang TJ, Lu P, Ma YJ et al. Gene expression profiling of gastric cancer. Eur Rev Med Pharmacol Sci 2014;18(15):2109-15. PMID: 25070814
  • Wang T, Gu J, Li Y et al. Inferring the perturbed microRNA regulatory networks from gene expression data using a network propagation based method. BMC Bioinformatics 2014 Jul 29;15(1):255. PMID: 25069957
  • Yang T, Gu J, Kong B, Kuang Y et al. Gene expression profiles of patients with cerebral hematoma following spontaneous intracerebral hemorrhage. Mol Med Rep 2014 Oct;10(4):1671-8. PMID: 25069764
  • Artieri CG, Fraser HB et al. Transcript length mediates developmental timing of gene expression across Drosophila. Mol Biol Evol 2014 Nov;31(11):2879-89. PMID: 25069653
  • Ou S, Liu GD, Tan Y, Zhou LS et al. A time course study about gene expression of post-thermal injury with DNA microarray. Int J Dermatol 2015 Jul;54(7):757-64. PMID: 25069606
  • Le Bras GF, Loomans HA, Taylor CJ, Revetta FL et al. Activin A balance regulates epithelial invasiveness and tumorigenesis. Lab Invest 2014 Oct;94(10):1134-46. PMID: 25068654
  • Geddes RD, Wang X, Yomano LP, Miller EN et al. Polyamine transporters and polyamines increase furfural tolerance during xylose fermentation with ethanologenic Escherichia coli strain LY180. Appl Environ Microbiol 2014 Oct;80(19):5955-64. PMID: 25063650
  • Dale RK, Matzat LH, Lei EP et al. metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA. Nucleic Acids Res 2014 Aug;42(14):9158-70. PMID: 25063299
  • Zhang J, Le TD, Liu L, Liu B et al. Inferring condition-specific miRNA activity from matched miRNA and mRNA expression data. Bioinformatics 2014 Nov 1;30(21):3070-7. PMID: 25061069
  • Isogaya K, Koinuma D, Tsutsumi S, Saito RA et al. A Smad3 and TTF-1/NKX2-1 complex regulates Smad4-independent gene expression. Cell Res 2014 Aug;24(8):994-1008. PMID: 25060702
  • Lin CY, Chen HJ, Huang CC, Lai LC et al. ADAM9 promotes lung cancer metastases to brain by a plasminogen activator-based pathway. Cancer Res 2014 Sep 15;74(18):5229-43. PMID: 25060522
  • Chen H, Fang X, Zhu H, Li S et al. Gene expression profile analysis for different idiopathic interstitial pneumonias subtypes. Exp Lung Res 2014 Oct;40(8):367-79. PMID: 25058599
  • Ye Q, Zheng Y, Fan S, Qin Z et al. Lactoferrin deficiency promotes colitis-associated colorectal dysplasia in mice. PLoS One 2014;9(7):e103298. PMID: 25057912
  • Hicks C, Koganti T, Giri S, Tekere M et al. Integrative genomic analysis for the discovery of biomarkers in prostate cancer. Biomark Insights 2014;9:39-51. PMID: 25057237
  • Katsumura KR, Yang C, Boyer ME, Li L et al. Molecular basis of crosstalk between oncogenic Ras and the master regulator of hematopoiesis GATA-2. EMBO Rep 2014 Sep;15(9):938-47. PMID: 25056917
  • Baranello L, Kouzine F, Wojtowicz D, Cui K et al. DNA break mapping reveals topoisomerase II activity genome-wide. Int J Mol Sci 2014 Jul 23;15(7):13111-22. PMID: 25056547
  • Dana A, Tuller T et al. The effect of tRNA levels on decoding times of mRNA codons. Nucleic Acids Res 2014 Aug;42(14):9171-81. PMID: 25056313
  • Towner RA, Wren JD et al. Prioritizing uncharacterized genes in the search for glioma biomarkers. CNS Oncol 2014 Mar;3(2):93-5. PMID: 25055012
  • Lauria MRank-based miRNA signatures for early cancer detection. Biomed Res Int 2014;2014:192646. PMID: 25054131
  • Yang JR, Chen X, Zhang J et al. Codon-by-codon modulation of translational speed and accuracy via mRNA folding. PLoS Biol 2014 Jul;12(7):e1001910. PMID: 25051069
  • Shanahan HP, Owen AM, Harrison AP et al. Bioinformatics on the cloud computing platform Azure. PLoS One 2014;9(7):e102642. PMID: 25050811
  • Shen Y, Wang X, Jin Y, Lu J et al. Differentially expressed genes and interacting pathways in bladder cancer revealed by bioinformatic analysis. Mol Med Rep 2014 Oct;10(4):1746-52. PMID: 25050631
  • Frittoli E, Palamidessi A, Marighetti P, Confalonieri S et al. A RAB5/RAB4 recycling circuitry induces a proteolytic invasive program and promotes tumor dissemination. J Cell Biol 2014 Jul 21;206(2):307-28. PMID: 25049275
  • McCorkle JR, Leonard MK, Kraner SD, Blalock EM et al. The metastasis suppressor NME1 regulates expression of genes linked to metastasis and patient outcome in melanoma and breast carcinoma. Cancer Genomics Proteomics 2014 Jul-Aug;11(4):175-94. PMID: 25048347
  • Kim JH, Jeon M, Song JS, Lee JH et al. Distinctive genetic activity pattern of the human dental pulp between deciduous and permanent teeth. PLoS One 2014;9(7):e102893. PMID: 25047033
  • Moni MA, Liò P et al. comoR: a software for disease comorbidity risk assessment. J Clin Bioinforma 2014;4:8. PMID: 25045465
  • Voce DJ, Schmitt AM, Uppal A, McNerney ME et al. Nfkb1 is a haploinsufficient DNA damage-specific tumor suppressor. Oncogene 2015 May 21;34(21):2807-13. PMID: 25043302
  • Belew AT, Meskauskas A, Musalgaonkar S, Advani VM et al. Ribosomal frameshifting in the CCR5 mRNA is regulated by miRNAs and the NMD pathway. Nature 2014 Aug 21;512(7514):265-9. PMID: 25043019
  • Xie S, Chen Z, Wang Q, Song X et al. Comparisons of gene expression in normal, lesional, and non-lesional psoriatic skin using DNA microarray techniques. Int J Dermatol 2014 Oct;53(10):1213-20. PMID: 25041445
  • Baker GJ, Chockley P, Yadav VN, Doherty R et al. Natural killer cells eradicate galectin-1-deficient glioma in the absence of adaptive immunity. Cancer Res 2014 Sep 15;74(18):5079-90. PMID: 25038230
  • Butler T, Dick C, Carlson ML, Whittall JB et al. Transcriptome analysis of a petal anthocyanin polymorphism in the arctic mustard, Parrya nudicaulis. PLoS One 2014;9(7):e101338. PMID: 25033465
  • Söderström LÅ, Gertow K, Folkersen L, Sabater-Lleal M et al. Human genetic evidence for involvement of CD137 in atherosclerosis. Mol Med 2014 Oct 14;20(1):456-65. PMID: 25032953
  • Szafranski K, Fritsch C, Schumann F, Siebel L et al. Physiological state co-regulates thousands of mammalian mRNA splicing events at tandem splice sites and alternative exons. Nucleic Acids Res 2014 Aug;42(14):8895-904. PMID: 25030907
  • Gruber AJ, Grandy WA, Balwierz PJ, Dimitrova YA et al. Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways. Nucleic Acids Res 2014 Aug;42(14):9313-26. PMID: 25030899
  • Zheng Y, Gery S, Sun H, Shacham S et al. KPT-330 inhibitor of XPO1-mediated nuclear export has anti-proliferative activity in hepatocellular carcinoma. Cancer Chemother Pharmacol 2014 Sep;74(3):487-95. PMID: 25030088
  • Bundela S, Sharma A, Bisen PS et al. Potential therapeutic targets for oral cancer: ADM, TP53, EGFR, LYN, CTLA4, SKIL, CTGF, CD70. PLoS One 2014;9(7):e102610. PMID: 25029526
  • Nicolazzi EL, Iamartino D, Williams JL et al. AffyPipe: an open-source pipeline for Affymetrix Axiom genotyping workflow. Bioinformatics 2014 Nov 1;30(21):3118-9. PMID: 25028724
  • Qiao W, Wang W, Laurenti E, Turinsky AL et al. Intercellular network structure and regulatory motifs in the human hematopoietic system. Mol Syst Biol 2014 Jul 15;10(7):741. PMID: 25028490
  • Oosterkamp HM, Hijmans EM, Brummelkamp TR, Canisius S et al. USP9X downregulation renders breast cancer cells resistant to tamoxifen. Cancer Res 2014 Jul 15;74(14):3810-20. PMID: 25028367
  • Bodor DL, Mata JF, Sergeev M, David AF et al. The quantitative architecture of centromeric chromatin. Elife 2014 Jul 15;3:e02137. PMID: 25027692
  • Chen JJ, Bozza WP, Di X, Zhang Y et al. H-Ras regulation of TRAIL death receptor mediated apoptosis. Oncotarget 2014 Jul 15;5(13):5125-37. PMID: 25026275
  • Mitra R, Edmonds MD, Sun J, Zhao M et al. Reproducible combinatorial regulatory networks elucidate novel oncogenic microRNAs in non-small cell lung cancer. RNA 2014 Sep;20(9):1356-68. PMID: 25024357
  • Wanichthanarak K, Nookaew I, Petranovic D et al. yStreX: yeast stress expression database. Database (Oxford) 2014;2014. PMID: 25024351
  • Orr M, Liu P, Nettleton D et al. An improved method for computing q-values when the distribution of effect sizes is asymmetric. Bioinformatics 2014 Nov 1;30(21):3044-53. PMID: 25024290
  • Rack PG, Ni J, Payumo AY, Nguyen V et al. Arhgap36-dependent activation of Gli transcription factors. Proc Natl Acad Sci U S A 2014 Jul 29;111(30):11061-6. PMID: 25024229
  • Fowler KR, Sasaki M, Milman N, Keeney S et al. Evolutionarily diverse determinants of meiotic DNA break and recombination landscapes across the genome. Genome Res 2014 Oct;24(10):1650-64. PMID: 25024163
  • Wong DC, Sweetman C, Ford CM et al. Annotation of gene function in citrus using gene expression information and co-expression networks. BMC Plant Biol 2014 Jul 15;14:186. PMID: 25023870
  • Hong SE, Song HK, Kim DH et al. Identification of tissue-enriched novel transcripts and novel exons in mice. BMC Genomics 2014 Jul 13;15(1):592. PMID: 25017872
  • He K, Xiao W, Lv W et al. Comprehensive identification of essential pathways and transcription factors related to epilepsy by gene set enrichment analysis on microarray datasets. Int J Mol Med 2014 Sep;34(3):715-24. PMID: 25016997
  • Le TD, Liu L, Zhang J, Liu B et al. From miRNA regulation to miRNA-TF co-regulation: computational approaches and challenges. Brief Bioinform 2015 May;16(3):475-96. PMID: 25016381
  • Liu HY, Liu JQ, Mai ZX, Zeng YT et al. A subpathway-based method of drug reposition for polycystic ovary syndrome. Reprod Sci 2015 Apr;22(4):423-30. PMID: 25015903
  • Grishkevich V, Yanai I et al. Gene length and expression level shape genomic novelties. Genome Res 2014 Sep;24(9):1497-503. PMID: 25015383
  • Arboleda-Velasquez JF, Primo V, Graham M, James A et al. Notch signaling functions in retinal pericyte survival. Invest Ophthalmol Vis Sci 2014 Jul 11;55(8):5191-9. PMID: 25015359
  • Martin F, Sewer A, Talikka M, Xiang Y et al. Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models. BMC Bioinformatics 2014 Jul 11;15:238. PMID: 25015298
  • Sinha A, Langnick C, Sommer RJ, Dieterich C et al. Genome-wide analysis of trans-splicing in the nematode Pristionchus pacificus unravels conserved gene functions for germline and dauer development in divergent operons. RNA 2014 Sep;20(9):1386-97. PMID: 25015138
  • Efanov A, Zanesi N, Coppola V, Nuovo G et al. Human HMGA2 protein overexpressed in mice induces precursor T-cell lymphoblastic leukemia. Blood Cancer J 2014 Jul 11;4(7):e227. PMID: 25014774
  • Lu Y, Qu W, Min B, Liu Z et al. Modelling epigenetic regulation of gene expression in 12 human cell types reveals combinatorial patterns of cell-type-specific genes. IET Syst Biol 2014 Jun;8(3):104-15. PMID: 25014377
  • Zhou X, Liu J, Wang W et al. Construction and investigation of breast-cancer-specific ceRNA network based on the mRNA and miRNA expression data. IET Syst Biol 2014 Jun;8(3):96-103. PMID: 25014376
  • Su N, Dai D, Deng C, Qian M et al. Using graphical adaptive lasso approach to construct transcription factor and microRNA's combinatorial regulatory network in breast cancer. IET Syst Biol 2014 Jun;8(3):87-95. PMID: 25014375
  • Wang X, Qian H, Zhang S et al. Discovery of significant pathways in breast cancer metastasis via module extraction and comparison. IET Syst Biol 2014 Apr;8(2):47-55. PMID: 25014225
  • Zhi H, Ning S, Li X, Li Y et al. A novel reannotation strategy for dissecting DNA methylation patterns of human long intergenic non-coding RNAs in cancers. Nucleic Acids Res 2014 Jul;42(13):8258-70. PMID: 25013169
  • Champa D, Russo MA, Liao XH, Refetoff S et al. Obatoclax overcomes resistance to cell death in aggressive thyroid carcinomas by countering Bcl2a1 and Mcl1 overexpression. Endocr Relat Cancer 2014 Oct;21(5):755-67. PMID: 25012986
  • Criscione SW, Zhang Y, Thompson W, Sedivy JM et al. Transcriptional landscape of repetitive elements in normal and cancer human cells. BMC Genomics 2014 Jul 11;15:583. PMID: 25012247
  • Teschendorff AE, Liu X, Caren H, Pollard SM et al. The dynamics of DNA methylation covariation patterns in carcinogenesis. PLoS Comput Biol 2014 Jul;10(7):e1003709. PMID: 25010556
  • Olsen C, Bontempi G, Emmert-Streib F, Quackenbush J et al. Relevance of different prior knowledge sources for inferring gene interaction networks. Front Genet 2014;5:177. PMID: 25009552
  • Liu Z, Zhang J, Gao Y, Pei L et al. Large-scale characterization of DNA methylation changes in human gastric carcinomas with and without metastasis. Clin Cancer Res 2014 Sep 1;20(17):4598-612. PMID: 25009298
  • Faure LM, Garvis S, de Bentzmann S, Bigot S et al. Characterization of a novel two-partner secretion system implicated in the virulence of Pseudomonas aeruginosa. Microbiology (Reading) 2014 Sep;160(Pt 9):1940-1952. PMID: 25009238
  • Thota S, Viny AD, Makishima H, Spitzer B et al. Genetic alterations of the cohesin complex genes in myeloid malignancies. Blood 2014 Sep 11;124(11):1790-8. PMID: 25006131
  • Bassett CL, Baldo AM, Moore JT, Jenkins RM et al. Genes responding to water deficit in apple (Malus × domestica Borkh.) roots. BMC Plant Biol 2014 Jul 8;14:182. PMID: 25004790
  • Wei K, Chen Y, Lin Y, Pan Y et al. Genetic dynamic analysis of the influenza A H5N1 NS1 gene in China. PLoS One 2014;9(7):e101384. PMID: 25003973
  • Wu T, Li Q, Wu T, Liu HY et al. Identification of biological targets of therapeutic intervention for diabetic nephropathy with bioinformatics approach. Exp Clin Endocrinol Diabetes 2014 Nov;122(10):587-91. PMID: 25003364
  • Iglesias Gómez JC, Mosquera Orgueira A et al. An integrative analysis of meningioma tumors reveals the determinant genes and pathways of malignant transformation. Front Oncol 2014;4:147. PMID: 25003081
  • Diwadkar VA, Bustamante A, Rai H, Uddin M et al. Epigenetics, stress, and their potential impact on brain network function: a focus on the schizophrenia diatheses. Front Psychiatry 2014;5:71. PMID: 25002852
  • Pereira MJ, Palming J, Svensson MK, Rizell M et al. FKBP5 expression in human adipose tissue increases following dexamethasone exposure and is associated with insulin resistance. Metabolism 2014 Sep;63(9):1198-208. PMID: 24997500
  • Lo KS, Vadlamudi S, Fogarty MP, Mohlke KL et al. Strategies to fine-map genetic associations with lipid levels by combining epigenomic annotations and liver-specific transcription profiles. Genomics 2014 Aug;104(2):105-12. PMID: 24997396
  • Jha P, Pia Patric IR, Shukla S, Pathak P et al. Genome-wide methylation profiling identifies an essential role of reactive oxygen species in pediatric glioblastoma multiforme and validates a methylome specific for H3 histone family 3A with absence of G-CIMP/isocitrate dehydrogenase 1 mutation. Neuro Oncol 2014 Dec;16(12):1607-17. PMID: 24997139
  • Pignatta D, Erdmann RM, Scheer E, Picard CL et al. Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting. Elife 2014 Jul 3;3:e03198. PMID: 24994762
  • Takano N, Sarfraz Y, Gilkes DM, Chaturvedi P et al. Decreased expression of cystathionine β-synthase promotes glioma tumorigenesis. Mol Cancer Res 2014 Oct;12(10):1398-406. PMID: 24994751
  • Wahl S, Fenske N, Zeilinger S, Suhre K et al. On the potential of models for location and scale for genome-wide DNA methylation data. BMC Bioinformatics 2014 Jul 3;15:232. PMID: 24994026
  • Lv Q, Cheng R, Shi T et al. Regulatory network rewiring for secondary metabolism in Arabidopsis thaliana under various conditions. BMC Plant Biol 2014 Jul 4;14:180. PMID: 24993737
  • Chen J, Wang L, Shen Y, Yu J et al. Key genes associated with osteoporosis revealed by genome wide gene expression analysis. Mol Biol Rep 2014 Sep;41(9):5971-7. PMID: 24993113
  • Latham JA, Chen D, Allen KN, Dunaway-Mariano D et al. Divergence of substrate specificity and function in the Escherichia coli hotdog-fold thioesterase paralogs YdiI and YbdB. Biochemistry 2014 Jul 29;53(29):4775-87. PMID: 24992697
  • Herai RR, Stefanacci L, Hrvoj-Mihic B, Chailangkarn T et al. Micro RNA detection in long-term fixed tissue of cortical glutamatergic pyramidal neurons after targeted laser-capture neuroanatomical microdissection. J Neurosci Methods 2014 Sep 30;235:76-82. PMID: 24992573
  • Kernohan KD, Vernimmen D, Gloor GB, Bérubé NG et al. Analysis of neonatal brain lacking ATRX or MeCP2 reveals changes in nucleosome density, CTCF binding and chromatin looping. Nucleic Acids Res 2014 Jul;42(13):8356-68. PMID: 24990380
  • Van de Velde J, Heyndrickx KS, Vandepoele K et al. Inference of transcriptional networks in Arabidopsis through conserved noncoding sequence analysis. Plant Cell 2014 Jul;26(7):2729-45. PMID: 24989046
  • Liu F, Feng Y, Li Z, Pan C et al. Clinic-genomic association mining for colorectal cancer using publicly available datasets. Biomed Res Int 2014;2014:170289. PMID: 24987669
  • Hart T, Brown KR, Sircoulomb F, Rottapel R et al. Measuring error rates in genomic perturbation screens: gold standards for human functional genomics. Mol Syst Biol 2014 Jul 1;10(7):733. PMID: 24987113
  • Sun T, Du W, Xiong H, Yu Y et al. TMEFF2 deregulation contributes to gastric carcinogenesis and indicates poor survival outcome. Clin Cancer Res 2014 Sep 1;20(17):4689-704. PMID: 24987055
  • Wen J, Mohammed J, Bortolamiol-Becet D, Tsai H et al. Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines. Genome Res 2014 Jul;24(7):1236-50. PMID: 24985917
  • Arthur RK, Ma L, Slattery M, Spokony RF et al. Evolution of H3K27me3-marked chromatin is linked to gene expression evolution and to patterns of gene duplication and diversification. Genome Res 2014 Jul;24(7):1115-24. PMID: 24985914
  • Lubelsky Y, Prinz JA, DeNapoli L, Li Y et al. DNA replication and transcription programs respond to the same chromatin cues. Genome Res 2014 Jul;24(7):1102-14. PMID: 24985913
  • Joy A, Ramesh A, Smirnov I, Reiser M et al. AKT pathway genes define 5 prognostic subgroups in glioblastoma. PLoS One 2014;9(7):e100827. PMID: 24984002
  • Su B, Gao L, Baranowski C, Gillard B et al. A genome-wide RNAi screen identifies FOXO4 as a metastasis-suppressor through counteracting PI3K/AKT signal pathway in prostate cancer. PLoS One 2014;9(7):e101411. PMID: 24983969
  • Hamidi O, Tapak L, Jafarzadeh Kohneloo A, Sadeghifar M et al. High-dimensional additive hazards regression for oral squamous cell carcinoma using microarray data: a comparative study. Biomed Res Int 2014;2014:393280. PMID: 24982876
  • Kang HS, Jang SG, Kwon SY, Park YS et al. MicroRNA signature for HER2-positive breast and gastric cancer. Anticancer Res 2014 Jul;34(7):3807-10. PMID: 24982406
  • Li S, Hsu DD, Li B, Luo X et al. Cytoplasmic tyrosine phosphatase Shp2 coordinates hepatic regulation of bile acid and FGF15/19 signaling to repress bile acid synthesis. Cell Metab 2014 Aug 5;20(2):320-32. PMID: 24981838
  • Jeet V, Tevz G, Lehman M, Hollier B et al. Elevated YKL40 is associated with advanced prostate cancer (PCa) and positively regulates invasion and migration of PCa cells. Endocr Relat Cancer 2014 Oct;21(5):723-37. PMID: 24981110
  • Zhang Z, Hailat Z, Falk MJ, Chen XW et al. Integrative analysis of independent transcriptome data for rare diseases. Methods 2014 Oct 1;69(3):315-25. PMID: 24981076
  • Hailer A, Grunewald TG, Orth M, Reiss C et al. Loss of tumor suppressor mir-203 mediates overexpression of LIM and SH3 Protein 1 (LASP1) in high-risk prostate cancer thereby increasing cell proliferation and migration. Oncotarget 2014 Jun 30;5(12):4144-4153. PMID: 24980827
  • Chahar S, Gandhi V, Yu S, Desai K et al. Chromatin profiling reveals regulatory network shifts and a protective role for hepatocyte nuclear factor 4α during colitis. Mol Cell Biol 2014 Sep;34(17):3291-304. PMID: 24980432
  • Bhadury J, Nilsson LM, Muralidharan SV, Green LC et al. BET and HDAC inhibitors induce similar genes and biological effects and synergize to kill in Myc-induced murine lymphoma. Proc Natl Acad Sci U S A 2014 Jul 1;111(26):E2721-30. PMID: 24979794
  • Ho SR, Mahanic CS, Lee YJ, Lin WC et al. RNF144A, an E3 ubiquitin ligase for DNA-PKcs, promotes apoptosis during DNA damage. Proc Natl Acad Sci U S A 2014 Jul 1;111(26):E2646-55. PMID: 24979766
  • Xie L, Ritz O, Leithäuser F, Guan H et al. FOXO1 downregulation contributes to the oncogenic program of primary mediastinal B-cell lymphoma. Oncotarget 2014 Jul 30;5(14):5392-402. PMID: 24977668
  • Weichhaus M, Segaran P, Renaud A, Geerts D et al. Osteoprotegerin expression in triple-negative breast cancer cells promotes metastasis. Cancer Med 2014 Oct;3(5):1112-25. PMID: 24976340
  • Ichinose J, Watanabe K, Sano A, Nagase T et al. Alternative polyadenylation is associated with lower expression of PABPN1 and poor prognosis in non-small cell lung cancer. Cancer Sci 2014 Sep;105(9):1135-41. PMID: 24975429
  • Yang Z, Wang Y, Gao Y, Zhou Y et al. Adaptive evolution and divergent expression of heat stress transcription factors in grasses. BMC Evol Biol 2014 Jun 30;14:147. PMID: 24974883
  • Städler N, Mukherjee S et al. Multivariate gene-set testing based on graphical models. Biostatistics 2015 Jan;16(1):47-59. PMID: 24974316
  • Noreen F, Röösli M, Gaj P, Pietrzak J et al. Modulation of age- and cancer-associated DNA methylation change in the healthy colon by aspirin and lifestyle. J Natl Cancer Inst 2014 Jul;106(7). PMID: 24973978
  • Vacaru AM, Di Narzo AF, Howarth DL, Tsedensodnom O et al. Molecularly defined unfolded protein response subclasses have distinct correlations with fatty liver disease in zebrafish. Dis Model Mech 2014 Jul;7(7):823-35. PMID: 24973751
  • Huang KC, Alshalalfa M, Hegazy SA, Dolph M et al. The prognostic significance of combined ERG and androgen receptor expression in patients with prostate cancer managed by androgen deprivation therapy. Cancer Biol Ther 2014 Sep;15(9):1120-8. PMID: 24972028
  • Boehler CJ, Raines AM, Sunde RA et al. Toxic-selenium and low-selenium transcriptomes in Caenorhabditis elegans: toxic selenium up-regulates oxidoreductase and down-regulates cuticle-associated genes. PLoS One 2014;9(6):e101408. PMID: 24971995
  • Cui X, Geffers L, Eichele G, Yan J et al. A computational approach to estimate interorgan metabolic transport in a mammal. PLoS One 2014;9(6):e100963. PMID: 24971892
  • Meng J, Li P, Zhang Q, Yang Z et al. A radiosensitivity gene signature in predicting glioma prognostic via EMT pathway. Oncotarget 2014 Jul 15;5(13):4683-93. PMID: 24970813
  • Yin J, Liu YN, Tillman H, Barrett B et al. AR-regulated TWEAK-FN14 pathway promotes prostate cancer bone metastasis. Cancer Res 2014 Aug 15;74(16):4306-17. PMID: 24970477
  • Deng J, Tan L, Lin X, Lu Y et al. Exploring the optimal strategy to predict essential genes in microbes. Biomolecules 2011 Dec 27;2(1):1-22. PMID: 24970124
  • Zhang X, Cheng X, Liu H, Zheng C et al. Identification of key genes and crucial modules associated with coronary artery disease by bioinformatics analysis. Int J Mol Med 2014 Sep;34(3):863-9. PMID: 24969630
  • Reese TA, Wakeman BS, Choi HS, Hufford MM et al. Helminth infection reactivates latent γ-herpesvirus via cytokine competition at a viral promoter. Science 2014 Aug 1;345(6196):573-7. PMID: 24968940
  • Li J, Zhang Y, Gao Y, Cui Y et al. Downregulation of HNF1 homeobox B is associated with drug resistance in ovarian cancer. Oncol Rep 2014 Sep;32(3):979-88. PMID: 24968817
  • Marzese DM, Scolyer RA, Roqué M, Vargas-Roig LM et al. DNA methylation and gene deletion analysis of brain metastases in melanoma patients identifies mutually exclusive molecular alterations. Neuro Oncol 2014 Nov;16(11):1499-509. PMID: 24968695
  • Zhang D, Shi Z, Li M, Mi J et al. Hypoxia-induced miR-424 decreases tumor sensitivity to chemotherapy by inhibiting apoptosis. Cell Death Dis 2014 Jun 26;5(6):e1301. PMID: 24967963
  • Wen SY, Li CH, Zhang YL, Bian YH et al. Rictor is an independent prognostic factor for endometrial carcinoma. Int J Clin Exp Pathol 2014;7(5):2068-78. PMID: 24966915
  • Marek LA, Hinz TK, von Mässenhausen A, Olszewski KA et al. Nonamplified FGFR1 is a growth driver in malignant pleural mesothelioma. Mol Cancer Res 2014 Oct;12(10):1460-9. PMID: 24966347
  • Prendergast JG, Chambers EV, Semple CA et al. Sequence-level mechanisms of human epigenome evolution. Genome Biol Evol 2014 Jun 24;6(7):1758-71. PMID: 24966180
  • De León H, Boué S, Schlage WK, Boukharov N et al. A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability. J Transl Med 2014 Jun 26;12:185. PMID: 24965703
  • Feng B, Hu P, Chen J, Liu Q et al. Analysis of Differentially Expressed Genes Associated With Alzheimer's Disease Based on Bioinformatics Methods. Am J Alzheimers Dis Other Demen 2015 Dec;30(8):746-51. PMID: 24965283
  • Orgaz JL, Pandya P, Dalmeida R, Karagiannis P et al. Diverse matrix metalloproteinase functions regulate cancer amoeboid migration. Nat Commun 2014 Jun 25;5:4255. PMID: 24963846
  • Li H, Zheng T, Chen B, Hong G et al. Similar blood-borne DNA methylation alterations in cancer and inflammatory diseases determined by subpopulation shifts in peripheral leukocytes. Br J Cancer 2014 Jul 29;111(3):525-31. PMID: 24960404
  • Qi L, Li B, Dong Y, Xu H et al. Deconvolution of the gene expression profiles of valuable banked blood specimens for studying the prognostic values of altered peripheral immune cell proportions in cancer patients. PLoS One 2014;9(6):e100934. PMID: 24959668
  • Wang D, Song X, Wang Y, Li X et al. Gene expression profile analysis in epilepsy by using the partial least squares method. ScientificWorldJournal 2014;2014:731091. PMID: 24959624
  • Cui J, Li D, Zhang W, Shen L et al. Bioinformatics analyses combined microarray identify the deregulated microRNAs in oral cancer. Oncol Lett 2014 Jul;8(1):218-222. PMID: 24959249
  • Chu CM, Yao CT, Chang YT, Chou HL et al. Gene expression profiling of colorectal tumors and normal mucosa by microarrays meta-analysis using prediction analysis of microarray, artificial neural network, classification, and regression trees. Dis Markers 2014;2014:634123. PMID: 24959000
  • Collins C, Wang J, Miao H, Bronstein J et al. C/EBPα is an essential collaborator in Hoxa9/Meis1-mediated leukemogenesis. Proc Natl Acad Sci U S A 2014 Jul 8;111(27):9899-904. PMID: 24958854
  • Gazit R, Mandal PK, Ebina W, Ben-Zvi A et al. Fgd5 identifies hematopoietic stem cells in the murine bone marrow. J Exp Med 2014 Jun 30;211(7):1315-31. PMID: 24958848
  • Fuentes-Mattei E, Velazquez-Torres G, Phan L, Zhang F et al. Effects of obesity on transcriptomic changes and cancer hallmarks in estrogen receptor-positive breast cancer. J Natl Cancer Inst 2014 Jul;106(7). PMID: 24957076
  • Zhao H, Cao F, Gong Y, Xu H et al. Stratification of gene coexpression patterns and GO function mining for a RNA-Seq data series. Biomed Res Int 2014;2014:969768. PMID: 24955372
  • Chen H, Xu J, Hong J, Tang R et al. Long noncoding RNA profiles identify five distinct molecular subtypes of colorectal cancer with clinical relevance. Mol Oncol 2014 Dec;8(8):1393-403. PMID: 24954858
  • Maumus F, Quesneville H et al. Ancestral repeats have shaped epigenome and genome composition for millions of years in Arabidopsis thaliana. Nat Commun 2014 Jun 23;5:4104. PMID: 24954583
  • Li L, Wang D, Xue M, Mi X et al. 3'UTR shortening identifies high-risk cancers with targeted dysregulation of the ceRNA network. Sci Rep 2014 Jun 23;4:5406. PMID: 24953077
  • Wang S, Linde MH, Munde M, Carvalho VD et al. Mechanistic heterogeneity in site recognition by the structurally homologous DNA-binding domains of the ETS family transcription factors Ets-1 and PU.1. J Biol Chem 2014 Aug 1;289(31):21605-16. PMID: 24952944
  • Noguchi S, Saito A, Horie M, Mikami Y et al. An integrative analysis of the tumorigenic role of TAZ in human non-small cell lung cancer. Clin Cancer Res 2014 Sep 1;20(17):4660-72. PMID: 24951773
  • Spinler JK, Sontakke A, Hollister EB, Venable SF et al. From prediction to function using evolutionary genomics: human-specific ecotypes of Lactobacillus reuteri have diverse probiotic functions. Genome Biol Evol 2014 Jun 19;6(7):1772-89. PMID: 24951561
  • Saini A, Hou J, Zhou W et al. Breast cancer prognosis risk estimation using integrated gene expression and clinical data. Biomed Res Int 2014;2014:459203. PMID: 24949450
  • Zhuang L, Wu Y, Han J, Ling X et al. A network biology approach to discover the molecular biomarker associated with hepatocellular carcinoma. Biomed Res Int 2014;2014:278956. PMID: 24949431
  • Cheng YP, Lin C, Lin PY, Cheng CY et al. Midkine expression in high grade gliomas: Correlation of this novel marker with proliferation and survival in human gliomas. Surg Neurol Int 2014;5:78. PMID: 24949221
  • Woditschka S, Evans L, Duchnowska R, Reed LT et al. DNA double-strand break repair genes and oxidative damage in brain metastasis of breast cancer. J Natl Cancer Inst 2014 Jul;106(7). PMID: 24948741
  • Shi M, Cui J, Du J, Wei D et al. A novel KLF4/LDHA signaling pathway regulates aerobic glycolysis in and progression of pancreatic cancer. Clin Cancer Res 2014 Aug 15;20(16):4370-80. PMID: 24947925
  • Bhalla K, Liu WJ, Thompson K, Anders L et al. Cyclin D1 represses gluconeogenesis via inhibition of the transcriptional coactivator PGC1α. Diabetes 2014 Oct;63(10):3266-78. PMID: 24947365
  • Tiong KL, Chang KC, Yeh KT, Liu TY et al. CSNK1E/CTNNB1 are synthetic lethal to TP53 in colorectal cancer and are markers for prognosis. Neoplasia 2014 May;16(5):441-50. PMID: 24947187
  • Xing SM, Wang J, He X, Lai J et al. Identification of disease-related miRNAs based on co-expression network in spinal cord injury. Int J Neurosci 2015 Apr;125(4):270-6. PMID: 24946205
  • Wang X, Laird PW, Hinoue T, Groshen S et al. Non-specific filtering of beta-distributed data. BMC Bioinformatics 2014 Jun 19;15:199. PMID: 24943962
  • Zhang X, Moen EL, Liu C, Mu W et al. Linking the genetic architecture of cytosine modifications with human complex traits. Hum Mol Genet 2014 Nov 15;23(22):5893-905. PMID: 24943591
  • Lee SM, Lee YG, Bae JB, Choi JK et al. HBx induces hypomethylation of distal intragenic CpG islands required for active expression of developmental regulators. Proc Natl Acad Sci U S A 2014 Jul 1;111(26):9555-60. PMID: 24941955
  • Kohn KW, Zeeberg BM, Reinhold WC, Pommier Y et al. Gene expression correlations in human cancer cell lines define molecular interaction networks for epithelial phenotype. PLoS One 2014;9(6):e99269. PMID: 24940735
  • Wilhelm TPhenotype prediction based on genome-wide DNA methylation data. BMC Bioinformatics 2014 Jun 17;15:193. PMID: 24934728
  • Hollern DP, Honeysett J, Cardiff RD, Andrechek ER et al. The E2F transcription factors regulate tumor development and metastasis in a mouse model of metastatic breast cancer. Mol Cell Biol 2014 Sep;34(17):3229-43. PMID: 24934442
  • Zarringhalam K, Enayetallah A, Reddy P, Ziemek D et al. Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks. Bioinformatics 2014 Jun 15;30(12):i69-77. PMID: 24932007
  • Studham ME, Tjärnberg A, Nordling TE, Nelander S et al. Functional association networks as priors for gene regulatory network inference. Bioinformatics 2014 Jun 15;30(12):i130-8. PMID: 24931976
  • Dikicioglu D, Wood V, Rutherford KM, McDowall MD et al. Improving functional annotation for industrial microbes: a case study with Pichia pastoris. Trends Biotechnol 2014 Aug;32(8):396-9. PMID: 24929579
  • Janghorban M, Farrell AS, Allen-Petersen BL, Pelz C et al. Targeting c-MYC by antagonizing PP2A inhibitors in breast cancer. Proc Natl Acad Sci U S A 2014 Jun 24;111(25):9157-62. PMID: 24927563
  • Wang J, Bai Y, Li N, Ye W et al. Pitx2-microRNA pathway that delimits sinoatrial node development and inhibits predisposition to atrial fibrillation. Proc Natl Acad Sci U S A 2014 Jun 24;111(25):9181-6. PMID: 24927531
  • Himes BE, Jiang X, Wagner P, Hu R et al. RNA-Seq transcriptome profiling identifies CRISPLD2 as a glucocorticoid responsive gene that modulates cytokine function in airway smooth muscle cells. PLoS One 2014;9(6):e99625. PMID: 24926665
  • Perkins J, Boland P, Cohen SJ, Olszanski AJ et al. Successful imatinib therapy for neuroendocrine carcinoma with activating Kit mutation: a case study. J Natl Compr Canc Netw 2014 Jun;12(6):847-52. PMID: 24925195
  • Josset L, Tchitchek N, Gralinski LE, Ferris MT et al. Annotation of long non-coding RNAs expressed in collaborative cross founder mice in response to respiratory virus infection reveals a new class of interferon-stimulated transcripts. RNA Biol 2014;11(7):875-90. PMID: 24922324
  • Chen G, Cairelli MJ, Kilicoglu H, Shin D et al. Augmenting microarray data with literature-based knowledge to enhance gene regulatory network inference. PLoS Comput Biol 2014 Jun;10(6):e1003666. PMID: 24921649
  • Rasche A, Lienhard M, Yaspo ML, Lehrach H et al. ARH-seq: identification of differential splicing in RNA-seq data. Nucleic Acids Res 2014 Aug;42(14):e110. PMID: 24920826
  • Chen LM, Chang M, Dai Y, Chai KX et al. External validation of a multiplex urinary protein panel for the detection of bladder cancer in a multicenter cohort. Cancer Epidemiol Biomarkers Prev 2014 Sep;23(9):1804-12. PMID: 24920641
  • Duquet A, Melotti A, Mishra S, Malerba M et al. A novel genome-wide in vivo screen for metastatic suppressors in human colon cancer identifies the positive WNT-TCF pathway modulators TMED3 and SOX12. EMBO Mol Med 2014 Jul;6(7):882-901. PMID: 24920608
  • Cozen W, Timofeeva MN, Li D, Diepstra A et al. A meta-analysis of Hodgkin lymphoma reveals 19p13.3 TCF3 as a novel susceptibility locus. Nat Commun 2014 Jun 12;5:3856. PMID: 24920014
  • Wang Z, Curry E, Montana G et al. Network-guided regression for detecting associations between DNA methylation and gene expression. Bioinformatics 2014 Oct;30(19):2693-701. PMID: 24919878
  • Zhou L, Zheng W, Luo M, Feng J et al. dbCerEx: a web-based database for the analysis of cervical cancer transcriptomes. PLoS One 2014;9(6):e99834. PMID: 24918550
  • Kalamohan K, Periasamy J, Bhaskar Rao D, Barnabas GD et al. Transcriptional coexpression network reveals the involvement of varying stem cell features with different dysregulations in different gastric cancer subtypes. Mol Oncol 2014 Oct;8(7):1306-25. PMID: 24917244
  • Hu CY, Mohtat D, Yu Y, Ko YA et al. Kidney cancer is characterized by aberrant methylation of tissue-specific enhancers that are prognostic for overall survival. Clin Cancer Res 2014 Aug 15;20(16):4349-60. PMID: 24916699
  • Wang YT, Missiakas D, Schneewind O et al. GneZ, a UDP-GlcNAc 2-epimerase, is required for S-layer assembly and vegetative growth of Bacillus anthracis. J Bacteriol 2014 Aug 15;196(16):2969-78. PMID: 24914184
  • Cui B, Chen L, Zhang S, Mraz M et al. MicroRNA-155 influences B-cell receptor signaling and associates with aggressive disease in chronic lymphocytic leukemia. Blood 2014 Jul 24;124(4):546-54. PMID: 24914134
  • Salama ME, Du S, Efimova O, Heikal NM et al. Neoplastic plasma cell aberrant antigen expression patterns and their association with genetic abnormalities. Leuk Lymphoma 2015 Feb;56(2):426-33. PMID: 24913506
  • De Antonellis P, Carotenuto M, Vandenbussche J, De Vita G et al. Early targets of miR-34a in neuroblastoma. Mol Cell Proteomics 2014 Aug;13(8):2114-31. PMID: 24912852
  • Li P, Wang J, Chu M, Zhang K et al. Zeb1 promotes androgen independence of prostate cancer via induction of stem cell-like properties. Exp Biol Med (Maywood) 2014 Jul;239(7):813-822. PMID: 24912507
  • Chi SM, Seo YK, Park YK, Yoon S et al. REGNET: mining context-specific human transcription networks using composite genomic information. BMC Genomics 2014 Jun 9;15(1):450. PMID: 24912499
  • Lavigne AC, Castells M, Mermet J, Kocanova S et al. Increased macroH2A1.1 expression correlates with poor survival of triple-negative breast cancer patients. PLoS One 2014;9(6):e98930. PMID: 24911873
  • Tanaka M, Yamazaki Y, Kanno Y, Igarashi K et al. Ewing's sarcoma precursors are highly enriched in embryonic osteochondrogenic progenitors. J Clin Invest 2014 Jul;124(7):3061-74. PMID: 24911143
  • Cheng CP, DeBoever C, Frazer KA, Liu YC et al. MiningABs: mining associated biomarkers across multi-connected gene expression datasets. BMC Bioinformatics 2014 Jun 8;15:173. PMID: 24909518
  • Duan Q, Flynn C, Niepel M, Hafner M et al. LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures. Nucleic Acids Res 2014 Jul;42(Web Server issue):W449-60. PMID: 24906883
  • Yang J, Lin J, Liu T, Chen T et al. Analysis of lncRNA expression profiles in non-small cell lung cancers (NSCLC) and their clinical subtypes. Lung Cancer 2014 Aug;85(2):110-5. PMID: 24906504
  • Mannelqvist M, Wik E, Stefansson IM, Akslen LA et al. An 18-gene signature for vascular invasion is associated with aggressive features and reduced survival in breast cancer. PLoS One 2014;9(6):e98787. PMID: 24905342
  • Wang G, Zhu X, Gu J, Ao P et al. Quantitative implementation of the endogenous molecular-cellular network hypothesis in hepatocellular carcinoma. Interface Focus 2014 Jun 6;4(3):20130064. PMID: 24904733
  • Paszkiewicz KH, Farbos A, O'Neill P, Moore K et al. Quality control on the frontier. Front Genet 2014;5:157. PMID: 24904650
  • Raju HB, Englander Z, Capobianco E, Tsinoremas NF et al. Identification of potential therapeutic targets in a model of neuropathic pain. Front Genet 2014;5:131. PMID: 24904634
  • Montojo J, Zuberi K, Shao Q, Bader GD et al. Network Assessor: an automated method for quantitative assessment of a network's potential for gene function prediction. Front Genet 2014;5:123. PMID: 24904632
  • Arima C, Kajino T, Tamada Y, Imoto S et al. Lung adenocarcinoma subtypes definable by lung development-related miRNA expression profiles in association with clinicopathologic features. Carcinogenesis 2014 Oct;35(10):2224-31. PMID: 24903339
  • Yan Q, Sharma-Kuinkel BK, Deshmukh H, Tsalik EL et al. Dusp3 and Psme3 are associated with murine susceptibility to Staphylococcus aureus infection and human sepsis. PLoS Pathog 2014 Jun;10(6):e1004149. PMID: 24901344
  • Guan B, Rahmanto YS, Wu RC, Wang Y et al. Roles of deletion of Arid1a, a tumor suppressor, in mouse ovarian tumorigenesis. J Natl Cancer Inst 2014 Jul;106(7). PMID: 24899687
  • Sha Y, Xu YQ, Zhao WQ, Tang H et al. Protective effect of ischaemic preconditioning in total knee arthroplasty. Eur Rev Med Pharmacol Sci 2014;18(10):1559-66. PMID: 24899618
  • Salamon H, Bruiners N, Lakehal K, Shi L et al. Cutting edge: Vitamin D regulates lipid metabolism in Mycobacterium tuberculosis infection. J Immunol 2014 Jul 1;193(1):30-34. PMID: 24899504
  • Vanharanta S, Marney CB, Shu W, Valiente M et al. Loss of the multifunctional RNA-binding protein RBM47 as a source of selectable metastatic traits in breast cancer. Elife 2014 Jun 4;3. PMID: 24898756
  • Ravens S, Fournier M, Ye T, Stierle M et al. Mof-associated complexes have overlapping and unique roles in regulating pluripotency in embryonic stem cells and during differentiation. Elife 2014 Jun 4;3. PMID: 24898753
  • Xu E, Brosché M et al. Salicylic acid signaling inhibits apoplastic reactive oxygen species signaling. BMC Plant Biol 2014 Jun 4;14:155. PMID: 24898702
  • Adijanto J, Du J, Moffat C, Seifert EL et al. The retinal pigment epithelium utilizes fatty acids for ketogenesis. J Biol Chem 2014 Jul 25;289(30):20570-82. PMID: 24898254
  • Li L, Lian B, Li C, Li W et al. Integrative analysis of transcriptional regulatory network and copy number variation in intrahepatic cholangiocarcinoma. PLoS One 2014;9(6):e98653. PMID: 24897108
  • Liu CC, Tseng YT, Li W, Wu CY et al. DiseaseConnect: a comprehensive web server for mechanism-based disease-disease connections. Nucleic Acids Res 2014 Jul;42(Web Server issue):W137-46. PMID: 24895436
  • Yun H, Damm F, Yap D, Schwarzer A et al. Impact of MLL5 expression on decitabine efficacy and DNA methylation in acute myeloid leukemia. Haematologica 2014 Sep;99(9):1456-64. PMID: 24895338
  • Nueda MJ, Tarazona S, Conesa A et al. Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series. Bioinformatics 2014 Sep 15;30(18):2598-602. PMID: 24894503
  • Zhang Y, Lin YH, Johnson TD, Rozek LS et al. PePr: a peak-calling prioritization pipeline to identify consistent or differential peaks from replicated ChIP-Seq data. Bioinformatics 2014 Sep 15;30(18):2568-75. PMID: 24894502
  • Lakshmanan M, Mohanty B, Lim SH, Ha SH et al. Metabolic and transcriptional regulatory mechanisms underlying the anoxic adaptation of rice coleoptile. AoB Plants 2014 Jun 3;6. PMID: 24894389
  • Zhang W, Han Z, Guo Q, Liu Y et al. Identification of maize long non-coding RNAs responsive to drought stress. PLoS One 2014;9(6):e98958. PMID: 24892290
  • Keerthivasan G, Mei Y, Zhao B, Zhang L et al. Aberrant overexpression of CD14 on granulocytes sensitizes the innate immune response in mDia1 heterozygous del(5q) MDS. Blood 2014 Jul 31;124(5):780-90. PMID: 24891322
  • Nagai K, Nakahata S, Shimosaki S, Tamura T et al. Development of a complete human anti-human transferrin receptor C antibody as a novel marker of oral dysplasia and oral cancer. Cancer Med 2014 Aug;3(4):1085-99. PMID: 24890018
  • Wu L, Zhou N, Sun R, Chen XD et al. Network-based identification of key proteins involved in apoptosis and cell cycle regulation. Cell Prolif 2014 Aug;47(4):356-68. PMID: 24889965
  • Sussman DA, Santaolalla R, Bejarano PA, Garcia-Buitrago MT et al. In silico and Ex vivo approaches identify a role for toll-like receptor 4 in colorectal cancer. J Exp Clin Cancer Res 2014 May 22;33(1):45. PMID: 24887394
  • Stevens A, Meyer S, Hanson D, Clayton P et al. Network analysis identifies protein clusters of functional importance in juvenile idiopathic arthritis. Arthritis Res Ther 2014 May 8;16(3):R109. PMID: 24886659
  • Wani N, Nasser MW, Ahirwar DK, Zhao H et al. C-X-C motif chemokine 12/C-X-C chemokine receptor type 7 signaling regulates breast cancer growth and metastasis by modulating the tumor microenvironment. Breast Cancer Res 2014 May 29;16(3):R54. PMID: 24886617
  • Piro RM, Wiesberg S, Schramm G, Rebel N et al. Network topology-based detection of differential gene regulation and regulatory switches in cell metabolism and signaling. BMC Syst Biol 2014 May 16;8:56. PMID: 24886210
  • Uchida K, Veeramachaneni R, Huey B, Bhattacharya A et al. Investigation of HOXA9 promoter methylation as a biomarker to distinguish oral cancer patients at low risk of neck metastasis. BMC Cancer 2014 May 21;14:353. PMID: 24886209
  • Sun F, Guo G, Du J, Guo W et al. Whole-genome discovery of miRNAs and their targets in wheat (Triticum aestivum L.). BMC Plant Biol 2014 May 22;14:142. PMID: 24885911
  • Swindell WR, Stuart PE, Sarkar MK, Voorhees JJ et al. Cellular dissection of psoriasis for transcriptome analyses and the post-GWAS era. BMC Med Genomics 2014 May 22;7:27. PMID: 24885462
  • Moslehi R, Ambroggio X, Nagarajan V, Kumar A et al. Nucleotide excision repair/transcription gene defects in the fetus and impaired TFIIH-mediated function in transcription in placenta leading to preeclampsia. BMC Genomics 2014 May 15;15:373. PMID: 24885447
  • Wang JJ, Cui DY, Xiao T, Sun X et al. The influences of PRG-1 on the expression of small RNAs and mRNAs. BMC Genomics 2014 Apr 30;15(1):321. PMID: 24884413
  • Abdel-Fatah TM, Russell R, Albarakati N, Maloney DJ et al. Genomic and protein expression analysis reveals flap endonuclease 1 (FEN1) as a key biomarker in breast and ovarian cancer. Mol Oncol 2014 Oct;8(7):1326-38. PMID: 24880630
  • Tannour-Louet M, Han S, Louet JF, Zhang B et al. Increased gene copy number of VAMP7 disrupts human male urogenital development through altered estrogen action. Nat Med 2014 Jul;20(7):715-24. PMID: 24880616
  • Costello JC, Heiser LM, Georgii E, Gönen M et al. A community effort to assess and improve drug sensitivity prediction algorithms. Nat Biotechnol 2014 Dec;32(12):1202-12. PMID: 24880487
  • Manzano C, Pallero-Baena M, Casimiro I, De Rybel B et al. The Emerging Role of Reactive Oxygen Species Signaling during Lateral Root Development. Plant Physiol 2014 Jul;165(3):1105-1119. PMID: 24879433
  • Rouquier S, Pillaire MJ, Cazaux C, Giorgi D et al. Expression of the microtubule-associated protein MAP9/ASAP and its partners AURKA and PLK1 in colorectal and breast cancers. Dis Markers 2014;2014:798170. PMID: 24876664
  • Care MA, Cocco M, Laye JP, Barnes N et al. SPIB and BATF provide alternate determinants of IRF4 occupancy in diffuse large B-cell lymphoma linked to disease heterogeneity. Nucleic Acids Res 2014 Jul;42(12):7591-610. PMID: 24875472
  • Guan D, Shao J, Zhao Z, Wang P et al. PTHGRN: unraveling post-translational hierarchical gene regulatory networks using PPI, ChIP-seq and gene expression data. Nucleic Acids Res 2014 Jul;42(Web Server issue):W130-6. PMID: 24875471
  • Langdon WBMycoplasma contamination in the 1000 Genomes Project. BioData Min 2014;7:3. PMID: 24872843
  • Han TS, Hur K, Xu G, Choi B et al. MicroRNA-29c mediates initiation of gastric carcinogenesis by directly targeting ITGB1. Gut 2015 Feb;64(2):203-14. PMID: 24870620
  • Kim H, Abd Elmageed ZY, Davis C, El-Bahrawy AH et al. Correlation between PDZK1, Cdc37, Akt and breast cancer malignancy: the role of PDZK1 in cell growth through Akt stabilization by increasing and interacting with Cdc37. Mol Med 2014 Jul 14;20(1):270-9. PMID: 24869908
  • Wang D, Qu Z, Adelson DL, Zhu JK et al. Transcription of nuclear organellar DNA in a model plant system. Genome Biol Evol 2014 May 27;6(6):1327-34. PMID: 24868015
  • Morales M, Arenas EJ, Urosevic J, Guiu M et al. RARRES3 suppresses breast cancer lung metastasis by regulating adhesion and differentiation. EMBO Mol Med 2014 Jul;6(7):865-81. PMID: 24867881
  • Sullivan DA, Liu Y, Kam WR, Ding J et al. Serum-induced differentiation of human meibomian gland epithelial cells. Invest Ophthalmol Vis Sci 2014 May 27;55(6):3866-77. PMID: 24867579
  • Buckberry S, Bianco-Miotto T, Bent SJ, Dekker GA et al. Integrative transcriptome meta-analysis reveals widespread sex-biased gene expression at the human fetal-maternal interface. Mol Hum Reprod 2014 Aug;20(8):810-9. PMID: 24867328
  • Campbell MJVitamin D and the RNA transcriptome: more than mRNA regulation. Front Physiol 2014;5:181. PMID: 24860511
  • Silva IT, Rosales RA, Holanda AJ, Nussenzweig MC et al. Identification of chromosomal translocation hotspots via scan statistics. Bioinformatics 2014 Sep 15;30(18):2551-8. PMID: 24860160
  • Gupta V, Warner JR et al. Ribosome-omics of the human ribosome. RNA 2014 Jul;20(7):1004-13. PMID: 24860015
  • Liang H, Gu Y, Li T, Zhang Y et al. Integrated analyses identify the involvement of microRNA-26a in epithelial-mesenchymal transition during idiopathic pulmonary fibrosis. Cell Death Dis 2014 May 22;5(5):e1238. PMID: 24853416
  • Litterman AJ, Zellmer DM, LaRue RS, Jameson SC et al. Antigen-specific culture of memory-like CD8 T cells for adoptive immunotherapy. Cancer Immunol Res 2014 Sep;2(9):839-45. PMID: 24852944
  • Lun AT, Smyth GK et al. De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly. Nucleic Acids Res 2014 Jun;42(11):e95. PMID: 24852250
  • Velicky P, Haider S, Otti GR, Fiala C et al. Notch-dependent RBPJκ inhibits proliferation of human cytotrophoblasts and their differentiation into extravillous trophoblasts. Mol Hum Reprod 2014 Aug;20(8):756-66. PMID: 24850908
  • Verweij N, Mateo Leach I, van den Boogaard M, van Veldhuisen DJ et al. Genetic determinants of P wave duration and PR segment. Circ Cardiovasc Genet 2014 Aug;7(4):475-81. PMID: 24850809
  • de Yébenes VG, Bartolomé-Izquierdo N, Nogales-Cadenas R, Pérez-Durán P et al. miR-217 is an oncogene that enhances the germinal center reaction. Blood 2014 Jul 10;124(2):229-39. PMID: 24850757
  • Bosquet JG, Marchion DC, Chon H, Lancaster JM et al. Analysis of chemotherapeutic response in ovarian cancers using publicly available high-throughput data. Cancer Res 2014 Jul 15;74(14):3902-12. PMID: 24848511
  • Li L, Chang W, Yang G, Ren C et al. Targeting poly(ADP-ribose) polymerase and the c-Myb-regulated DNA damage response pathway in castration-resistant prostate cancer. Sci Signal 2014 May 20;7(326):ra47. PMID: 24847116
  • Menachery VD, Eisfeld AJ, Schäfer A, Josset L et al. Pathogenic influenza viruses and coronaviruses utilize similar and contrasting approaches to control interferon-stimulated gene responses. mBio 2014 May 20;5(3):e01174-14. PMID: 24846384
  • Berdiel-Acer M, Sanz-Pamplona R, Calon A, Cuadras D et al. Differences between CAFs and their paired NCF from adjacent colonic mucosa reveal functional heterogeneity of CAFs, providing prognostic information. Mol Oncol 2014 Oct;8(7):1290-305. PMID: 24839936
  • Balakrishna S, Song W, Achanta S, Doran SF et al. TRPV4 inhibition counteracts edema and inflammation and improves pulmonary function and oxygen saturation in chemically induced acute lung injury. Am J Physiol Lung Cell Mol Physiol 2014 Jul 15;307(2):L158-72. PMID: 24838754
  • Liu H, Xu R, Liu X, Sun R et al. Bioinformatics analysis of gene expression in peripheral blood mononuclear cells from children with type 1 diabetes in 3 periods. Exp Clin Endocrinol Diabetes 2014 Sep;122(8):477-83. PMID: 24838153
  • Wang C, Li S, Ng S, Zhang B et al. Mutation in xyloglucan 6-xylosytransferase results in abnormal root hair development in Oryza sativa. J Exp Bot 2014 Aug;65(15):4149-57. PMID: 24834920
  • Rahrmann EP, Moriarity BS, Otto GM, Watson AL et al. Trp53 haploinsufficiency modifies EGFR-driven peripheral nerve sheath tumorigenesis. Am J Pathol 2014 Jul;184(7):2082-98. PMID: 24832557
  • Tsuchiya M, Hashimoto M, Takenaka Y, Motoike IN et al. Global genetic response in a cancer cell: self-organized coherent expression dynamics. PLoS One 2014;9(5):e97411. PMID: 24831017
  • Zhao C, Qiao Y, Jonsson P, Wang J et al. Genome-wide profiling of AP-1-regulated transcription provides insights into the invasiveness of triple-negative breast cancer. Cancer Res 2014 Jul 15;74(14):3983-94. PMID: 24830720
  • Eraly SAStriking differences between knockout and wild-type mice in global gene expression variability. PLoS One 2014;9(5):e97734. PMID: 24830645
  • Bazak L, Levanon EY, Eisenberg E et al. Genome-wide analysis of Alu editability. Nucleic Acids Res 2014 Jun;42(11):6876-84. PMID: 24829451
  • Berdiel-Acer M, Cuadras D, Díaz-Maroto NG, Sanjuan X et al. A monotonic and prognostic genomic signature from fibroblasts for colorectal cancer initiation, progression, and metastasis. Mol Cancer Res 2014 Sep;12(9):1254-66. PMID: 24829396
  • Thiru P, Kern DM, McKinley KL, Monda JK et al. Kinetochore genes are coordinately up-regulated in human tumors as part of a FoxM1-related cell division program. Mol Biol Cell 2014 Jul 1;25(13):1983-94. PMID: 24829384
  • Duan L, Wang Z, Shen J, Shan Z et al. Comparison of reprogramming genes in induced pluripotent stem cells and nuclear transfer cloned embryos. Stem Cell Rev Rep 2014 Aug;10(4):548-60. PMID: 24828831
  • Hollender CA, Kang C, Darwish O, Geretz A et al. Floral Transcriptomes in Woodland Strawberry Uncover Developing Receptacle and Anther Gene Networks. Plant Physiol 2014 Jul;165(3):1062-1075. PMID: 24828307
  • Azim HA Jr, Brohée S, Peccatori FA, Desmedt C et al. Biology of breast cancer during pregnancy using genomic profiling. Endocr Relat Cancer 2014 Aug;21(4):545-54. PMID: 24825746
  • Curtis EA, Liu DR et al. A naturally occurring, noncanonical GTP aptamer made of simple tandem repeats. RNA Biol 2014;11(6):682-92. PMID: 24824832
  • Chai G, Wang Z, Tang X, Yu L et al. R2R3-MYB gene pairs in Populus: evolution and contribution to secondary wall formation and flowering time. J Exp Bot 2014 Aug;65(15):4255-69. PMID: 24821954
  • Kharabi Masouleh B, Geng H, Hurtz C, Chan LN et al. Mechanistic rationale for targeting the unfolded protein response in pre-B acute lymphoblastic leukemia. Proc Natl Acad Sci U S A 2014 May 27;111(21):E2219-28. PMID: 24821775
  • Emura T, Chen YH et al. Gene selection for survival data under dependent censoring: A copula-based approach. Stat Methods Med Res 2016 Dec;25(6):2840-2857. PMID: 24821000
  • Ivanova A, Law SR, Narsai R, Duncan O et al. A Functional Antagonistic Relationship between Auxin and Mitochondrial Retrograde Signaling Regulates Alternative Oxidase1a Expression in Arabidopsis. Plant Physiol 2014 Jul;165(3):1233-1254. PMID: 24820025
  • Danaher P, Wang P, Witten DM et al. The joint graphical lasso for inverse covariance estimation across multiple classes. J R Stat Soc Series B Stat Methodol 2014 Mar;76(2):373-397. PMID: 24817823
  • Zhang ZL, Wu WC, Liu JQ, Yao YB et al. Screening of differentially expressed genes related to ischemic stroke and functional analysis with DNA microarray. Eur Rev Med Pharmacol Sci 2014;18(8):1181-8. PMID: 24817293
  • López-Corral L, Corchete LA, Sarasquete ME, Mateos MV et al. Transcriptome analysis reveals molecular profiles associated with evolving steps of monoclonal gammopathies. Haematologica 2014 Aug;99(8):1365-72. PMID: 24816239
  • Hebly M, de Ridder D, de Hulster EA, de la Torre Cortes P et al. Physiological and transcriptional responses of anaerobic chemostat cultures of Saccharomyces cerevisiae subjected to diurnal temperature cycles. Appl Environ Microbiol 2014 Jul;80(14):4433-49. PMID: 24814792
  • Shortt J, Hsu AK, Martin BP, Doggett K et al. The drug vehicle and solvent N-methylpyrrolidone is an immunomodulator and antimyeloma compound. Cell Rep 2014 May 22;7(4):1009-19. PMID: 24813887
  • Cho A, Shin J, Hwang S, Kim C et al. WormNet v3: a network-assisted hypothesis-generating server for Caenorhabditis elegans. Nucleic Acids Res 2014 Jul;42(Web Server issue):W76-82. PMID: 24813450
  • Park C, Yu N, Choi I, Kim W et al. lncRNAtor: a comprehensive resource for functional investigation of long non-coding RNAs. Bioinformatics 2014 Sep 1;30(17):2480-5. PMID: 24813212
  • Ben-Hamo R, Gidoni M, Efroni S et al. PhenoNet: identification of key networks associated with disease phenotype. Bioinformatics 2014 Sep 1;30(17):2399-405. PMID: 24812342
  • Teif VB, Beshnova DA, Vainshtein Y, Marth C et al. Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development. Genome Res 2014 Aug;24(8):1285-95. PMID: 24812327
  • Franklin RA, Liao W, Sarkar A, Kim MV et al. The cellular and molecular origin of tumor-associated macrophages. Science 2014 May 23;344(6186):921-5. PMID: 24812208
  • Chauvistré H, Küstermann C, Rehage N, Klisch T et al. Dendritic cell development requires histone deacetylase activity. Eur J Immunol 2014 Aug;44(8):2478-88. PMID: 24810486
  • Cominelli A, Gaide Chevronnay HP, Lemoine P, Courtoy PJ et al. Matrix metalloproteinase-27 is expressed in CD163+/CD206+ M2 macrophages in the cycling human endometrium and in superficial endometriotic lesions. Mol Hum Reprod 2014 Aug;20(8):767-75. PMID: 24810263
  • Hu Y, Chen HY, Yu CY, Xu J et al. A long non-coding RNA signature to improve prognosis prediction of colorectal cancer. Oncotarget 2014 Apr 30;5(8):2230-42. PMID: 24809982
  • Pandi NS, Manimuthu M, Harunipriya P, Murugesan M et al. In silico analysis of expression pattern of a Wnt/β-catenin responsive gene ANLN in gastric cancer. Gene 2014 Jul 15;545(1):23-9. PMID: 24809965
  • Zhang C, Li C, Li J, Han J et al. Identification of miRNA-mediated core gene module for glioma patient prediction by integrating high-throughput miRNA, mRNA expression and pathway structure. PLoS One 2014;9(5):e96908. PMID: 24809850
  • Turato C, Vitale A, Fasolato S, Ruvoletto M et al. SERPINB3 is associated with TGF-β1 and cytoplasmic β-catenin expression in hepatocellular carcinomas with poor prognosis. Br J Cancer 2014 May 27;110(11):2708-15. PMID: 24809782
  • Barrenas F, Palermo RE, Agricola B, Agy MB et al. Deep transcriptional sequencing of mucosal challenge compartment from rhesus macaques acutely infected with simian immunodeficiency virus implicates loss of cell adhesion preceding immune activation. J Virol 2014 Jul;88(14):7962-72. PMID: 24807713
  • Pellicano F, Scott MT, Helgason GV, Hopcroft LE et al. The antiproliferative activity of kinase inhibitors in chronic myeloid leukemia cells is mediated by FOXO transcription factors. Stem Cells 2014 Sep;32(9):2324-37. PMID: 24806995
  • Choi YE, Battelli C, Watson J, Liu J et al. Sublethal concentrations of 17-AAG suppress homologous recombination DNA repair and enhance sensitivity to carboplatin and olaparib in HR proficient ovarian cancer cells. Oncotarget 2014 May 15;5(9):2678-87. PMID: 24798692
  • Dusonchet J, Li H, Guillily M, Liu M et al. A Parkinson's disease gene regulatory network identifies the signaling protein RGS2 as a modulator of LRRK2 activity and neuronal toxicity. Hum Mol Genet 2014 Sep 15;23(18):4887-905. PMID: 24794857
  • Albritton SE, Kranz AL, Rao P, Kramer M et al. Sex-biased gene expression and evolution of the x chromosome in nematodes. Genetics 2014 Jul;197(3):865-83. PMID: 24793291
  • Garcia-Albornoz M, Thankaswamy-Kosalai S, Nilsson A, Väremo L et al. BioMet Toolbox 2.0: genome-wide analysis of metabolism and omics data. Nucleic Acids Res 2014 Jul;42(Web Server issue):W175-81. PMID: 24792167
  • Hasegawa M, Inohara N et al. Regulation of the gut microbiota by the mucosal immune system in mice. Int Immunol 2014 Sep;26(9):481-7. PMID: 24792038
  • Czajkowski M, Kretowski M et al. Evolutionary approach for relative gene expression algorithms. ScientificWorldJournal 2014;2014:593503. PMID: 24790574
  • Glastad KM, Hunt BG, Yi SV, Goodisman MA et al. Epigenetic inheritance and genome regulation: is DNA methylation linked to ploidy in haplodiploid insects? Proc Biol Sci 2014 Jun 22;281(1785):20140411. PMID: 24789901
  • Cardinale CJ, Wei Z, Li J, Zhu J et al. Transcriptome profiling of human ulcerative colitis mucosa reveals altered expression of pathways enriched in genetic susceptibility loci. PLoS One 2014;9(5):e96153. PMID: 24788701
  • Adler AS, McCleland ML, Yee S, Yaylaoglu M et al. An integrative analysis of colon cancer identifies an essential function for PRPF6 in tumor growth. Genes Dev 2014 May 15;28(10):1068-84. PMID: 24788092
  • Paul A, Gunewardena S, Stecklein SR, Saha B et al. PKCλ/ι signaling promotes triple-negative breast cancer growth and metastasis. Cell Death Differ 2014 Sep;21(9):1469-81. PMID: 24786829
  • Hahn MA, Li AX, Wu X, Yang R et al. Loss of the polycomb mark from bivalent promoters leads to activation of cancer-promoting genes in colorectal tumors. Cancer Res 2014 Jul 1;74(13):3617-3629. PMID: 24786786
  • Madzima TF, Huang J, McGinnis KM et al. Chromatin structure and gene expression changes associated with loss of MOP1 activity in Zea mays. Epigenetics 2014 Jul;9(7):1047-59. PMID: 24786611
  • Zhang Z, Kim K, Li X, Moreno M et al. MicroRNA-26b represses colon cancer cell proliferation by inhibiting lymphoid enhancer factor 1 expression. Mol Cancer Ther 2014 Jul;13(7):1942-51. PMID: 24785257
  • Seefried WF, Willmann MR, Clausen RL, Jenik PD et al. Global Regulation of Embryonic Patterning in Arabidopsis by MicroRNAs. Plant Physiol 2014 Jun;165(2):670-687. PMID: 24784759
  • Singel SM, Cornelius C, Zaganjor E, Batten K et al. KIF14 promotes AKT phosphorylation and contributes to chemoresistance in triple-negative breast cancer. Neoplasia 2014 Mar;16(3):247-56, 256.e2. PMID: 24784001
  • Ullius A, Lüscher-Firzlaff J, Costa IG, Walsemann G et al. The interaction of MYC with the trithorax protein ASH2L promotes gene transcription by regulating H3K27 modification. Nucleic Acids Res 2014 Jun;42(11):6901-20. PMID: 24782528
  • Lund E, Oldenburg AR, Collas P et al. Enriched domain detector: a program for detection of wide genomic enrichment domains robust against local variations. Nucleic Acids Res 2014 Jun;42(11):e92. PMID: 24782521
  • He C, Wang X, Zhang MQ et al. Nucleosome eviction and multiple co-factor binding predict estrogen-receptor-alpha-associated long-range interactions. Nucleic Acids Res 2014 Jun;42(11):6935-44. PMID: 24782518
  • Yasunaga M, Matsumura Y et al. Role of SLC6A6 in promoting the survival and multidrug resistance of colorectal cancer. Sci Rep 2014 Apr 30;4:4852. PMID: 24781822
  • Ercan-Sencicek AG, Jambi S, Franjic D, Nishimura S et al. Homozygous loss of DIAPH1 is a novel cause of microcephaly in humans. Eur J Hum Genet 2015 Feb;23(2):165-72. PMID: 24781755
  • Di Narzo AF, Kozlenkov A, Roussos P, Hao K et al. A unique gene expression signature associated with serotonin 2C receptor RNA editing in the prefrontal cortex and altered in suicide. Hum Mol Genet 2014 Sep 15;23(18):4801-13. PMID: 24781207
  • Skeffington AW, Graf A, Duxbury Z, Gruissem W et al. Glucan, Water Dikinase Exerts Little Control over Starch Degradation in Arabidopsis Leaves at Night. Plant Physiol 2014 Jun;165(2):866-879. PMID: 24781197
  • Yang HC, Lin CW, Chen CW, Chen JJ et al. Applying genome-wide gene-based expression quantitative trait locus mapping to study population ancestry and pharmacogenetics. BMC Genomics 2014 Apr 29;15:319. PMID: 24779372
  • Kessler SM, Laggai S, Barghash A, Helms V et al. Lipid metabolism signatures in NASH-associated HCC.--letter. Cancer Res 2014 May 15;74(10):2903-4. PMID: 24778416
  • Choi SG, Wang Q, Jia J, Pincas H et al. Growth differentiation factor 9 (GDF9) forms an incoherent feed-forward loop modulating follicle-stimulating hormone β-subunit (FSHβ) gene expression. J Biol Chem 2014 Jun 6;289(23):16164-75. PMID: 24778184
  • Imaoka T, Okutani T, Daino K, Iizuka D et al. Overexpression of NOTCH-regulated ankyrin repeat protein is associated with breast cancer cell proliferation. Anticancer Res 2014 May;34(5):2165-71. PMID: 24778018
  • Huang KY, Wu HY, Chen YJ, Lu CT et al. RegPhos 2.0: an updated resource to explore protein kinase-substrate phosphorylation networks in mammals. Database (Oxford) 2014;2014(0):bau034. PMID: 24771658
  • da Rocha RF, De Bastiani MA, Klamt F et al. Bioinformatics approach to evaluate differential gene expression of M1/M2 macrophage phenotypes and antioxidant genes in atherosclerosis. Cell Biochem Biophys 2014 Nov;70(2):831-9. PMID: 24771407
  • Wang Y, Thilmony R, Gu YQ et al. NetVenn: an integrated network analysis web platform for gene lists. Nucleic Acids Res 2014 Jul;42(Web Server issue):W161-6. PMID: 24771340
  • Cousminer DL, Stergiakouli E, Berry DJ, Ang W et al. Genome-wide association study of sexual maturation in males and females highlights a role for body mass and menarche loci in male puberty. Hum Mol Genet 2014 Aug 15;23(16):4452-64. PMID: 24770850
  • Liu YX, Wang M, Wang XJ et al. Endogenous small RNA clusters in plants. Genomics Proteomics Bioinformatics 2014 Apr;12(2):64-71. PMID: 24769055
  • Riddell J, Gazit R, Garrison BS, Guo G et al. Reprogramming committed murine blood cells to induced hematopoietic stem cells with defined factors. Cell 2014 Apr 24;157(3):549-64. PMID: 24766805
  • Yao J, Caballero OL, Yung WK, Weinstein JN et al. Tumor subtype-specific cancer-testis antigens as potential biomarkers and immunotherapeutic targets for cancers. Cancer Immunol Res 2014 Apr;2(4):371-9. PMID: 24764584
  • Cheng Y, Hong M, Cheng B et al. Identified differently expressed genes in renal cell carcinoma by using multiple microarray datasets running head: differently expressed genes in renal cell carcinoma. Eur Rev Med Pharmacol Sci 2014;18(7):1033-40. PMID: 24763884
  • Calero-Nieto FJ, Ng FS, Wilson NK, Hannah R et al. Key regulators control distinct transcriptional programmes in blood progenitor and mast cells. EMBO J 2014 Jun 2;33(11):1212-26. PMID: 24760698
  • Holstege H, Pfeiffer W, Sie D, Hulsman M et al. Somatic mutations found in the healthy blood compartment of a 115-yr-old woman demonstrate oligoclonal hematopoiesis. Genome Res 2014 May;24(5):733-42. PMID: 24760347
  • Parikh K, Zhou L, Somasundaram R, Fuhler GM et al. Suppression of p21Rac signaling and increased innate immunity mediate remission in Crohn's disease. Sci Transl Med 2014 Apr 23;6(233):233ra53. PMID: 24760188
  • Moldovan L, Anghelina M, Kantor T, Jones D et al. A module of human peripheral blood mononuclear cell transcriptional network containing primitive and differentiation markers is related to specific cardiovascular health variables. PLoS One 2014;9(4):e95124. PMID: 24759906
  • Selcen D, Shen XM, Brengman J, Li Y et al. DPAGT1 myasthenia and myopathy: genetic, phenotypic, and expression studies. Neurology 2014 May 20;82(20):1822-30. PMID: 24759841
  • Kajitani R, Toshimoto K, Noguchi H, Toyoda A et al. Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads. Genome Res 2014 Aug;24(8):1384-95. PMID: 24755901
  • Ogawa T, Shibato J, Rakwal R, Saito T et al. Seeking genes responsible for developmental origins of health and disease from the fetal mouse liver following maternal food restriction. Congenit Anom (Kyoto) 2014 Nov;54(4):195-219. PMID: 24754856
  • Sharma NL, Massie CE, Butter F, Mann M et al. The ETS family member GABPα modulates androgen receptor signalling and mediates an aggressive phenotype in prostate cancer. Nucleic Acids Res 2014 Jun;42(10):6256-69. PMID: 24753418
  • Hsu TI, Hsu CH, Lee KH, Lin JT et al. MicroRNA-18a is elevated in prostate cancer and promotes tumorigenesis through suppressing STK4 in vitro and in vivo. Oncogenesis 2014 Apr 21;3(4):e99. PMID: 24752237
  • Tsiliki G, Vlachakis D, Kossida S et al. On integrating multi-experiment microarray data. Philos Trans A Math Phys Eng Sci 2014 May 28;372(2016):20130136. PMID: 24751870
  • Ji Z, Mohammed H, Webber A, Ridsdale J et al. The forkhead transcription factor FOXK2 acts as a chromatin targeting factor for the BAP1-containing histone deubiquitinase complex. Nucleic Acids Res 2014 Jun;42(10):6232-42. PMID: 24748658
  • Beaulieu AM, Zawislak CL, Nakayama T, Sun JC et al. The transcription factor Zbtb32 controls the proliferative burst of virus-specific natural killer cells responding to infection. Nat Immunol 2014 Jun;15(6):546-53. PMID: 24747678
  • Xiao CL, Mai ZB, Lian XL, Zhong JY et al. FANSe2: a robust and cost-efficient alignment tool for quantitative next-generation sequencing applications. PLoS One 2014;9(4):e94250. PMID: 24743329
  • Turkieh A, Caubère C, Barutaut M, Desmoulin F et al. Apolipoprotein O is mitochondrial and promotes lipotoxicity in heart. J Clin Invest 2014 May;124(5):2277-86. PMID: 24743151
  • Kulkarni RM, Stuart WD, Gurusamy D, Waltz SE et al. Ron receptor signaling is protective against DSS-induced colitis in mice. Am J Physiol Gastrointest Liver Physiol 2014 Jun 15;306(12):G1065-74. PMID: 24742989
  • Yang J, Wang Z, Leng D, Dai H et al. G protein-coupled receptor 56 regulates matrix production and motility of lung fibroblasts. Exp Biol Med (Maywood) 2014 Jun;239(6):686-96. PMID: 24742924
  • Belmont PJ, Budinska E, Jiang P, Sinnamon MJ et al. Cross-species analysis of genetically engineered mouse models of MAPK-driven colorectal cancer identifies hallmarks of the human disease. Dis Model Mech 2014 Jun;7(6):613-23. PMID: 24742783
  • Odeh HM, Kleinguetl C, Ge R, Zirkin BR et al. Regulation of the proliferation and differentiation of Leydig stem cells in the adult testis. Biol Reprod 2014 Jun;90(6):123. PMID: 24740597
  • Hodson DJ, Mitchell RK, Marselli L, Pullen TJ et al. ADCY5 couples glucose to insulin secretion in human islets. Diabetes 2014 Sep;63(9):3009-21. PMID: 24740569
  • Zhang J, Suh Y, Choi YM, Ahn J et al. Differential expression of cyclin G2, cyclin-dependent kinase inhibitor 2C and peripheral myelin protein 22 genes during adipogenesis. Animal 2014 May;8(5):800-9. PMID: 24739352
  • Kristensen H, Haldrup C, Strand S, Mundbjerg K et al. Hypermethylation of the GABRE~miR-452~miR-224 promoter in prostate cancer predicts biochemical recurrence after radical prostatectomy. Clin Cancer Res 2014 Apr 15;20(8):2169-81. PMID: 24737792
  • Milde-Langosch K, Karn T, Schmidt M, zu Eulenburg C et al. Prognostic relevance of glycosylation-associated genes in breast cancer. Breast Cancer Res Treat 2014 Jun;145(2):295-305. PMID: 24737166
  • Rezaeian I, Rueda L et al. CMT: a constrained multi-level thresholding approach for ChIP-Seq data analysis. PLoS One 2014;9(4):e93873. PMID: 24736605
  • Cebrián C, Zucca FA, Mauri P, Steinbeck JA et al. MHC-I expression renders catecholaminergic neurons susceptible to T-cell-mediated degeneration. Nat Commun 2014 Apr 16;5:3633. PMID: 24736453
  • Tang M, Cheng L, Jia R, Qiu L et al. Identification of transcription factors and single nucleotide polymorphisms of Lrh1 and its homologous genes in Lrh1-knockout pancreas of mice. BMC Med Genet 2014 Apr 15;15:43. PMID: 24735206
  • Scott IM, Ward JL, Miller SJ, Beale MH et al. Opposite variations in fumarate and malate dominate metabolic phenotypes of Arabidopsis salicylate mutants with abnormal biomass under chilling. Physiol Plant 2014 Dec;152(4):660-74. PMID: 24735077
  • Cook DE, Bayless AM, Wang K, Guo X et al. Distinct Copy Number, Coding Sequence, and Locus Methylation Patterns Underlie Rhg1-Mediated Soybean Resistance to Soybean Cyst Nematode. Plant Physiol 2014 Jun;165(2):630-647. PMID: 24733883
  • Rafehi H, Balcerczyk A, Lunke S, Kaspi A et al. Vascular histone deacetylation by pharmacological HDAC inhibition. Genome Res 2014 Aug;24(8):1271-84. PMID: 24732587
  • Urbach A, Yermalovich A, Zhang J, Spina CS et al. Lin28 sustains early renal progenitors and induces Wilms tumor. Genes Dev 2014 May 1;28(9):971-82. PMID: 24732380
  • Goldstein J, Fletcher S, Roth E, Wu C et al. Calcineurin/Nfatc1 signaling links skin stem cell quiescence to hormonal signaling during pregnancy and lactation. Genes Dev 2014 May 1;28(9):983-94. PMID: 24732379
  • Brodsky AS, Fischer A, Miller DH, Vang S et al. Expression profiling of primary and metastatic ovarian tumors reveals differences indicative of aggressive disease. PLoS One 2014;9(4):e94476. PMID: 24732363
  • Tosar JP, Rovira C, Naya H, Cayota A et al. Mining of public sequencing databases supports a non-dietary origin for putative foreign miRNAs: underestimated effects of contamination in NGS. RNA 2014 Jun;20(6):754-7. PMID: 24729469
  • Wang W, Wei Z, Li H et al. A change-point model for identifying 3'UTR switching by next-generation RNA sequencing. Bioinformatics 2014 Aug 1;30(15):2162-70. PMID: 24728858
  • Henry IM, Nagalakshmi U, Lieberman MC, Ngo KJ et al. Efficient Genome-Wide Detection and Cataloging of EMS-Induced Mutations Using Exome Capture and Next-Generation Sequencing. Plant Cell 2014 Apr;26(4):1382-1397. PMID: 24728647
  • Zhao LL, Zhang T, Zhuang LW, Yan BZ et al. Uncovering the pathogenesis and identifying novel targets of pancreatic cancer using bioinformatics approach. Mol Biol Rep 2014 Jul;41(7):4697-704. PMID: 24728565
  • Weissmueller S, Manchado E, Saborowski M, Morris JP 4th et al. Mutant p53 drives pancreatic cancer metastasis through cell-autonomous PDGF receptor β signaling. Cell 2014 Apr 10;157(2):382-394. PMID: 24725405
  • Hutchins JRWhat's that gene (or protein)? Online resources for exploring functions of genes, transcripts, and proteins. Mol Biol Cell 2014 Apr;25(8):1187-201. PMID: 24723265
  • Fujita Y, Koinuma S, De Velasco MA, Bolz J et al. Melanoma transition is frequently accompanied by a loss of cytoglobin expression in melanocytes: a novel expression site of cytoglobin. PLoS One 2014;9(4):e94772. PMID: 24722418
  • Zong FY, Fu X, Wei WJ, Luo YG et al. The RNA-binding protein QKI suppresses cancer-associated aberrant splicing. PLoS Genet 2014 Apr;10(4):e1004289. PMID: 24722255
  • de Jong J, Akhtar W, Badhai J, Rust AG et al. Chromatin landscapes of retroviral and transposon integration profiles. PLoS Genet 2014 Apr;10(4):e1004250. PMID: 24721906
  • Jia ZY, Xia Y, Tong D, Yao J et al. Module-based functional pathway enrichment analysis of a protein-protein interaction network to study the effects of intestinal microbiota depletion in mice. Mol Med Rep 2014 Jun;9(6):2205-12. PMID: 24718810
  • Olszak T, Neves JF, Dowds CM, Baker K et al. Protective mucosal immunity mediated by epithelial CD1d and IL-10. Nature 2014 May 22;509(7501):497-502. PMID: 24717441
  • Ma X, Shao C, Jin Y, Wang H et al. Long non-coding RNAs: a novel endogenous source for the generation of Dicer-like 1-dependent small RNAs in Arabidopsis thaliana. RNA Biol 2014;11(4):373-90. PMID: 24717238
  • Jiang Q, Yu YC, Ding XJ, Luo Y et al. Bioinformatics analysis reveals significant genes and pathways to target for oral squamous cell carcinoma. Asian Pac J Cancer Prev 2014;15(5):2273-8. PMID: 24716969
  • Kim SK, Roh YG, Park K, Kang TH et al. Expression signature defined by FOXM1-CCNB1 activation predicts disease recurrence in non-muscle-invasive bladder cancer. Clin Cancer Res 2014 Jun 15;20(12):3233-43. PMID: 24714775
  • Joo JE, Novakovic B, Cruickshank M, Doyle LW et al. Human active X-specific DNA methylation events showing stability across time and tissues. Eur J Hum Genet 2014 Dec;22(12):1376-81. PMID: 24713664
  • Zhang Y, Sun Y, Rao E, Yan F et al. Fatty acid-binding protein E-FABP restricts tumor growth by promoting IFN-β responses in tumor-associated macrophages. Cancer Res 2014 Jun 1;74(11):2986-98. PMID: 24713431
  • Yu J, Zhang Z, Wei J, Ling Y et al. SFGD: a comprehensive platform for mining functional information from soybean transcriptome data and its use in identifying acyl-lipid metabolism pathways. BMC Genomics 2014 Apr 8;15:271. PMID: 24712981
  • Ng AP, Kauppi M, Metcalf D, Hyland CD et al. Mpl expression on megakaryocytes and platelets is dispensable for thrombopoiesis but essential to prevent myeloproliferation. Proc Natl Acad Sci U S A 2014 Apr 22;111(16):5884-9. PMID: 24711413
  • Nagarajan RP, Zhang B, Bell RJ, Johnson BE et al. Recurrent epimutations activate gene body promoters in primary glioblastoma. Genome Res 2014 May;24(5):761-74. PMID: 24709822
  • Friedländer MR, Lizano E, Houben AJ, Bezdan D et al. Evidence for the biogenesis of more than 1,000 novel human microRNAs. Genome Biol 2014 Apr 7;15(4):R57. PMID: 24708865
  • Zhang H, Cohen AL, Krishnakumar S, Wapnir IL et al. Patient-derived xenografts of triple-negative breast cancer reproduce molecular features of patient tumors and respond to mTOR inhibition. Breast Cancer Res 2014 Apr 7;16(2):R36. PMID: 24708766
  • Lee E, de Ridder J, Kool J, Wessels LF et al. Identifying regulatory mechanisms underlying tumorigenesis using locus expression signature analysis. Proc Natl Acad Sci U S A 2014 Apr 15;111(15):5747-52. PMID: 24706889
  • Ng CKY, Weigelt B, A'Hern R, Bidard FC et al. Predictive performance of microarray gene signatures: impact of tumor heterogeneity and multiple mechanisms of drug resistance. Cancer Res 2014 Jun 1;74(11):2946-2961. PMID: 24706696
  • Feng YX, Sokol ES, Del Vecchio CA, Sanduja S et al. Epithelial-to-mesenchymal transition activates PERK-eIF2α and sensitizes cells to endoplasmic reticulum stress. Cancer Discov 2014 Jun;4(6):702-15. PMID: 24705811
  • Wang M, Zhang W, Ding W, Dai D et al. Parallel clustering algorithm for large-scale biological data sets. PLoS One 2014;9(4):e91315. PMID: 24705246
  • Zhang T, Zhao LL, Cao X, Qi LC et al. Bioinformatics analysis of time series gene expression in left ventricle (LV) with acute myocardial infarction (AMI). Gene 2014 Jun 15;543(2):259-67. PMID: 24704022
  • Dosanjh AActivation of eosinophil CCR3 signaling and eotaxin using a bioinformatics analysis of a mouse model of obliterative airway disease. J Interferon Cytokine Res 2014 Jul;34(7):543-6. PMID: 24702154
  • Guin S, Pollard C, Ru Y, Ritterson Lew C et al. Role in tumor growth of a glycogen debranching enzyme lost in glycogen storage disease. J Natl Cancer Inst 2014 Apr 3;106(5). PMID: 24700805
  • Riester M, Wei W, Waldron L, Culhane AC et al. Risk prediction for late-stage ovarian cancer by meta-analysis of 1525 patient samples. J Natl Cancer Inst 2014 Apr 3;106(5). PMID: 24700803
  • Waldron L, Haibe-Kains B, Culhane AC, Riester M et al. Comparative meta-analysis of prognostic gene signatures for late-stage ovarian cancer. J Natl Cancer Inst 2014 Apr 3;106(5). PMID: 24700801
  • Weng L, Ziliak D, Lacroix B, Geeleher P et al. Integrative "omic" analysis for tamoxifen sensitivity through cell based models. PLoS One 2014;9(4):e93420. PMID: 24699530
  • Chavez-Alvarez R, Chavoya A, Mendez-Vazquez A et al. Discovery of possible gene relationships through the application of self-organizing maps to DNA microarray databases. PLoS One 2014;9(4):e93233. PMID: 24699245
  • Izzo A, Manco R, Bonfiglio F, Calì G et al. NRIP1/RIP140 siRNA-mediated attenuation counteracts mitochondrial dysfunction in Down syndrome. Hum Mol Genet 2014 Aug 15;23(16):4406-19. PMID: 24698981
  • Takahashi M, Hayashida T, Okazaki H, Miyao K et al. Loss of B-cell translocation gene 2 expression in estrogen receptor-positive breast cancer predicts tamoxifen resistance. Cancer Sci 2014 Jun;105(6):675-82. PMID: 24698107
  • Shao Y, Liang Y, Leng D et al. [Meta-analysis of oral squamous cell carcinoma on gene expression level]. Zhonghua Kou Qiang Yi Xue Za Zhi 2014 Jan;49(1):42-4. PMID: 24697887
  • Poo YS, Nakaya H, Gardner J, Larcher T et al. CCR2 deficiency promotes exacerbated chronic erosive neutrophil-dominated chikungunya virus arthritis. J Virol 2014 Jun;88(12):6862-72. PMID: 24696480
  • Wu D, Kang J, Huang Y, Li X et al. Deciphering global signal features of high-throughput array data from cancers. Mol Biosyst 2014 Jun;10(6):1549-56. PMID: 24695970
  • Gu X, Hu Z, Ebrahem Q, Crabb JS et al. Runx1 regulation of Pu.1 corepressor/coactivator exchange identifies specific molecular targets for leukemia differentiation therapy. J Biol Chem 2014 May 23;289(21):14881-95. PMID: 24695740
  • Biadasiewicz K, Fock V, Dekan S, Proestling K et al. Extravillous trophoblast-associated ADAM12 exerts pro-invasive properties, including induction of integrin beta 1-mediated cellular spreading. Biol Reprod 2014 May;90(5):101. PMID: 24695627
  • Verhaegh W, van Ooijen H, Inda MA, Hatzis P et al. Selection of personalized patient therapy through the use of knowledge-based computational models that identify tumor-driving signal transduction pathways. Cancer Res 2014 Jun 1;74(11):2936-45. PMID: 24695361
  • Huang LY, Chang CC, Lee YS, Chang JM et al. Activity of a novel Hec1-targeted anticancer compound against breast cancer cell lines in vitro and in vivo. Mol Cancer Ther 2014 Jun;13(6):1419-30. PMID: 24694948
  • Mirza Z, Schulten HJ, Farsi HM, Al-Maghrabi JA et al. Impact of S100A8 expression on kidney cancer progression and molecular docking studies for kidney cancer therapeutics. Anticancer Res 2014 Apr;34(4):1873-84. PMID: 24692722
  • Assefnia S, Kang K, Groeneveld S, Yamaji D et al. Trp63 is regulated by STAT5 in mammary tissue and subject to differentiation in cancer. Endocr Relat Cancer 2014 Jun;21(3):443-57. PMID: 24692510
  • Olsen C, Fleming K, Prendergast N, Rubio R et al. Inference and validation of predictive gene networks from biomedical literature and gene expression data. Genomics 2014 May-Jun;103(5-6):329-36. PMID: 24691108
  • Jafari Koshki T, Hajizadeh E, Karimi M et al. A comparison of selective classification methods in DNA microarray data of cancer: some recommendations for application in health promotion. Health Promot Perspect 2013;3(1):129-34. PMID: 24688961
  • Li JJ, Bickel PJ, Biggin MD et al. System wide analyses have underestimated protein abundances and the importance of transcription in mammals. PeerJ 2014;2:e270. PMID: 24688849
  • Yang Y, Fear J, Hu J, Haecker I et al. Leveraging biological replicates to improve analysis in ChIP-seq experiments. Comput Struct Biotechnol J 2014;9:e201401002. PMID: 24688750
  • Yin T, Lallena MJ, Kreklau EL, Fales KR et al. A novel CDK9 inhibitor shows potent antitumor efficacy in preclinical hematologic tumor models. Mol Cancer Ther 2014 Jun;13(6):1442-56. PMID: 24688048
  • Jin R, Yi Y, Yull FE, Blackwell TS et al. NF-κB gene signature predicts prostate cancer progression. Cancer Res 2014 May 15;74(10):2763-72. PMID: 24686169
  • George NI, Chang CW et al. DAFS: a data-adaptive flag method for RNA-sequencing data to differentiate genes with low and high expression. BMC Bioinformatics 2014 Mar 31;15:92. PMID: 24685233
  • Sun P, Speicher NK, Röttger R, Guo J et al. Bi-Force: large-scale bicluster editing and its application to gene expression data biclustering. Nucleic Acids Res 2014 May;42(9):e78. PMID: 24682815
  • Saccone V, Consalvi S, Giordani L, Mozzetta C et al. HDAC-regulated myomiRs control BAF60 variant exchange and direct the functional phenotype of fibro-adipogenic progenitors in dystrophic muscles. Genes Dev 2014 Apr 15;28(8):841-57. PMID: 24682306
  • Zhang J, Jima D, Moffitt AB, Liu Q et al. The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. Blood 2014 May 8;123(19):2988-96. PMID: 24682267
  • Ersahin T, Carkacioglu L, Can T, Konu O et al. Identification of novel reference genes based on MeSH categories. PLoS One 2014;9(3):e93341. PMID: 24682035
  • Boucheron N, Tschismarov R, Goeschl L, Moser MA et al. CD4(+) T cell lineage integrity is controlled by the histone deacetylases HDAC1 and HDAC2. Nat Immunol 2014 May;15(5):439-448. PMID: 24681565
  • Satpathy AT, Briseño CG, Cai X, Michael DG et al. Runx1 and Cbfβ regulate the development of Flt3+ dendritic cell progenitors and restrict myeloproliferative disorder. Blood 2014 May 8;123(19):2968-77. PMID: 24677539
  • Sperber H, Beem A, Shannon S, Jones R et al. miRNA sensitivity to Drosha levels correlates with pre-miRNA secondary structure. RNA 2014 May;20(5):621-31. PMID: 24677349
  • Guerreiro AC, Benevento M, Lehmann R, van Breukelen B et al. Daily rhythms in the cyanobacterium synechococcus elongatus probed by high-resolution mass spectrometry-based proteomics reveals a small defined set of cyclic proteins. Mol Cell Proteomics 2014 Aug;13(8):2042-55. PMID: 24677030
  • Stong N, Deng Z, Gupta R, Hu S et al. Subtelomeric CTCF and cohesin binding site organization using improved subtelomere assemblies and a novel annotation pipeline. Genome Res 2014 Jun;24(6):1039-50. PMID: 24676094
  • Yan J, Xu Y, Hu B, Alnajm S et al. TIBS: a web database to browse gene expression in irritable bowel syndrome. J Theor Biol 2014 Aug 7;354:48-53. PMID: 24675620
  • Marín IThe ubiquilin gene family: evolutionary patterns and functional insights. BMC Evol Biol 2014 Mar 28;14:63. PMID: 24674348
  • Romeu A, Arola L et al. Classical dynamin DNM1 and DNM3 genes attain maximum expression in the normal human central nervous system. BMC Res Notes 2014 Mar 28;7:188. PMID: 24673776
  • Khalil HB, Brunetti SC, Pham UM, Maret D et al. Characterization of the caleosin gene family in the Triticeae. BMC Genomics 2014 Mar 27;15(1):239. PMID: 24673767
  • Liang XH, Zhang GX, Zeng YB, Yang HF et al. LIM protein JUB promotes epithelial-mesenchymal transition in colorectal cancer. Cancer Sci 2014 Jun;105(6):660-6. PMID: 24673742
  • E ZG, Wang L, Qin R, Shen H et al. Genome-wide characterisation of gene expression in rice leaf blades at 25 °C and 30 °C. ScientificWorldJournal 2014;2014:917292. PMID: 24672392
  • Langevin SM, Houseman EA, Accomando WP, Koestler DC et al. Leukocyte-adjusted epigenome-wide association studies of blood from solid tumor patients. Epigenetics 2014 Jun;9(6):884-95. PMID: 24671036
  • Pitroda SP, Pashtan IM, Logan HL, Budke B et al. DNA repair pathway gene expression score correlates with repair proficiency and tumor sensitivity to chemotherapy. Sci Transl Med 2014 Mar 26;6(229):229ra42. PMID: 24670686
  • Erhard F, Haas J, Lieber D, Malterer G et al. Widespread context dependency of microRNA-mediated regulation. Genome Res 2014 Jun;24(6):906-19. PMID: 24668909
  • Shen ZG, Guo JL, Li DS et al. Screening of differentially expressed genes related to severe sepsis induced by multiple trauma with DNA microarray. Eur Rev Med Pharmacol Sci 2014;18(5):734-9. PMID: 24668717
  • Ji SC, Pan YT, Lu QY, Sun ZY et al. Screening of differentially expressed genes between multiple trauma patients with and without sepsis. Genet Mol Res 2014 Mar 17;13(1):1855-64. PMID: 24668673
  • Liu L, Lin C, Liang W, Wu S et al. TBL1XR1 promotes lymphangiogenesis and lymphatic metastasis in esophageal squamous cell carcinoma. Gut 2015 Jan;64(1):26-36. PMID: 24667177
  • Wang X, Tang H, Teng M, Li Z et al. Mapping of hepatic expression quantitative trait loci (eQTLs) in a Han Chinese population. J Med Genet 2014 May;51(5):319-26. PMID: 24665059
  • Pan J, Chen Y, Mo C, Wang D et al. Association of DSC3 mRNA down-regulation in prostate cancer with promoter hypermethylation and poor prognosis. PLoS One 2014;9(3):e92815. PMID: 24664224
  • Holembowski L, Kramer D, Riedel D, Sordella R et al. TAp73 is essential for germ cell adhesion and maturation in testis. J Cell Biol 2014 Mar 31;204(7):1173-90. PMID: 24662569
  • Garcia AJ, Ruscetti M, Arenzana TL, Tran LM et al. Pten null prostate epithelium promotes localized myeloid-derived suppressor cell expansion and immune suppression during tumor initiation and progression. Mol Cell Biol 2014 Jun;34(11):2017-28. PMID: 24662052
  • House MA, Griswold CK, Lukens LN et al. Evidence for selection on gene expression in cultivated rice (Oryza sativa). Mol Biol Evol 2014 Jun;31(6):1514-25. PMID: 24659814
  • Dussiot M, Maciel TT, Fricot A, Chartier C et al. An activin receptor IIA ligand trap corrects ineffective erythropoiesis in β-thalassemia. Nat Med 2014 Apr;20(4):398-407. PMID: 24658077
  • Lichter JG, Carruth E, Mitchell C, Barth AS et al. Remodeling of the sarcomeric cytoskeleton in cardiac ventricular myocytes during heart failure and after cardiac resynchronization therapy. J Mol Cell Cardiol 2014 Jul;72:186-95. PMID: 24657727
  • Massart R, Suderman M, Provencal N, Yi C et al. Hydroxymethylation and DNA methylation profiles in the prefrontal cortex of the non-human primate rhesus macaque and the impact of maternal deprivation on hydroxymethylation. Neuroscience 2014 May 30;268:139-48. PMID: 24657458
  • Grigoryev DN, Dalal J, Becker ML, Ye SQ et al. Combined meta-analysis of systemic effects of allogeneic stem cell transplantation and systemic sclerosis. BMC Hematol 2014 Mar 22;14(1):7. PMID: 24656173
  • Gorlov IP, Yang JY, Byun J, Logothetis C et al. How to get the most from microarray data: advice from reverse genomics. BMC Genomics 2014 Mar 21;15:223. PMID: 24656147
  • Li GL, Xu XH, Wang BA, Yao YM et al. Analysis of protein-protein interaction network and functional modules on primary osteoporosis. Eur J Med Res 2014 Mar 21;19(1):15. PMID: 24656062
  • Corcoran C, Rani S, Breslin S, Gogarty M et al. miR-630 targets IGF1R to regulate response to HER-targeting drugs and overall cancer cell progression in HER2 over-expressing breast cancer. Mol Cancer 2014 Mar 24;13:71. PMID: 24655723
  • Nilubol N, Boufraqech M, Zhang L, Kebebew E et al. Loss of CPSF2 expression is associated with increased thyroid cancer cellular invasion and cancer stem cell population, and more aggressive disease. J Clin Endocrinol Metab 2014 Jul;99(7):E1173-82. PMID: 24654752
  • Li J, Chen X, McClusky R, Ruiz-Sundstrom M et al. The number of X chromosomes influences protection from cardiac ischaemia/reperfusion injury in mice: one X is better than two. Cardiovasc Res 2014 Jun 1;102(3):375-84. PMID: 24654234
  • Chen R, Khatri P, Mazur PK, Polin M et al. A meta-analysis of lung cancer gene expression identifies PTK7 as a survival gene in lung adenocarcinoma. Cancer Res 2014 May 15;74(10):2892-902. PMID: 24654231
  • Madhamshettiwar PB, Maetschke SR, Davis MJ, Reverter A et al. INsPeCT: INtegrative Platform for Cancer Transcriptomics. Cancer Inform 2014;13:59-66. PMID: 24653643
  • Mugford JW, Starmer J, Williams RL Jr, Calabrese JM et al. Evidence for local regulatory control of escape from imprinted X chromosome inactivation. Genetics 2014 Jun;197(2):715-23. PMID: 24653000
  • Oghabian A, Kilpinen S, Hautaniemi S, Czeizler E et al. Biclustering methods: biological relevance and application in gene expression analysis. PLoS One 2014;9(3):e90801. PMID: 24651574
  • Clark NR, Hu KS, Feldmann AS, Kou Y et al. The characteristic direction: a geometrical approach to identify differentially expressed genes. BMC Bioinformatics 2014 Mar 21;15:79. PMID: 24650281
  • Nance T, Smith KS, Anaya V, Richardson R et al. Transcriptome analysis reveals differential splicing events in IPF lung tissue. PLoS One 2014;9(3):e92111. PMID: 24647608
  • Carrega P, Bonaccorsi I, Di Carlo E, Morandi B et al. CD56(bright)perforin(low) noncytotoxic human NK cells are abundant in both healthy and neoplastic solid tissues and recirculate to secondary lymphoid organs via afferent lymph. J Immunol 2014 Apr 15;192(8):3805-15. PMID: 24646734
  • Chao J, Jin J, Wang D, Han R et al. Cytological and transcriptional dynamics analysis of host plant revealed stage-specific biological processes related to compatible rice-Ustilaginoidea virens interaction. PLoS One 2014;9(3):e91391. PMID: 24646527
  • Jia X, Miao Z, Li W, Zhang L et al. Cancer-risk module identification and module-based disease risk evaluation: a case study on lung cancer. PLoS One 2014;9(3):e92395. PMID: 24643254
  • Diao CY, Guo HB, Ouyang YR, Zhang HC et al. Screening for metastatic osteosarcoma biomarkers with a DNA microarray. Asian Pac J Cancer Prev 2014;15(4):1817-22. PMID: 24641415
  • Tian E, Sawyer JR, Heuck CJ, Zhang Q et al. In multiple myeloma, 14q32 translocations are nonrandom chromosomal fusions driving high expression levels of the respective partner genes. Genes Chromosomes Cancer 2014 Jul;53(7):549-57. PMID: 24638926
  • Zhou X, Liu J et al. Inferring gene dependency network specific to phenotypic alteration based on gene expression data and clinical information of breast cancer. PLoS One 2014;9(3):e92023. PMID: 24637666
  • Paoloni M, Webb C, Mazcko C, Cherba D et al. Prospective molecular profiling of canine cancers provides a clinically relevant comparative model for evaluating personalized medicine (PMed) trials. PLoS One 2014;9(3):e90028. PMID: 24637659
  • An X, Schulz VP, Li J, Wu K et al. Global transcriptome analyses of human and murine terminal erythroid differentiation. Blood 2014 May 29;123(22):3466-77. PMID: 24637361
  • Boley N, Wan KH, Bickel PJ, Celniker SE et al. Navigating and mining modENCODE data. Methods 2014 Jun 15;68(1):38-47. PMID: 24636835
  • Han SJ, O'Malley BW et al. The dynamics of nuclear receptors and nuclear receptor coregulators in the pathogenesis of endometriosis. Hum Reprod Update 2014 Jul-Aug;20(4):467-84. PMID: 24634322
  • Iqbal J, Wright G, Wang C, Rosenwald A et al. Gene expression signatures delineate biological and prognostic subgroups in peripheral T-cell lymphoma. Blood 2014 May 8;123(19):2915-23. PMID: 24632715
  • Gasparini P, Cascione L, Fassan M, Lovat F et al. microRNA expression profiling identifies a four microRNA signature as a novel diagnostic and prognostic biomarker in triple negative breast cancers. Oncotarget 2014 Mar 15;5(5):1174-84. PMID: 24632568
  • Tan YD, Xu H et al. A general method for accurate estimation of false discovery rates in identification of differentially expressed genes. Bioinformatics 2014 Jul 15;30(14):2018-25. PMID: 24632499
  • Talwar P, Silla Y, Grover S, Gupta M et al. Genomic convergence and network analysis approach to identify candidate genes in Alzheimer's disease. BMC Genomics 2014 Mar 15;15(1):199. PMID: 24628925
  • Sen SK, Barb JJ, Cherukuri PF, Accame DS et al. Identification of candidate genes involved in coronary artery calcification by transcriptome sequencing of cell lines. BMC Genomics 2014 Mar 14;15:198. PMID: 24628908
  • Yamakawa N, Okuyama K, Ogata J, Kanai A et al. Novel functional small RNAs are selectively loaded onto mammalian Ago1. Nucleic Acids Res 2014 Apr;42(8):5289-301. PMID: 24627180
  • Colbert LE, Petrova AV, Fisher SB, Pantazides BG et al. CHD7 expression predicts survival outcomes in patients with resected pancreatic cancer. Cancer Res 2014 May 15;74(10):2677-87. PMID: 24626090
  • Georgi B, Craig D, Kember RL, Liu W et al. Genomic view of bipolar disorder revealed by whole genome sequencing in a genetic isolate. PLoS Genet 2014 Mar;10(3):e1004229. PMID: 24625924
  • Lim D, Kim NK, Lee SH, Park HS et al. Characterization of genes for beef marbling based on applying gene coexpression network. Int J Genomics 2014;2014:708562. PMID: 24624372
  • Ware CB, Nelson AM, Mecham B, Hesson J et al. Derivation of naive human embryonic stem cells. Proc Natl Acad Sci U S A 2014 Mar 25;111(12):4484-9. PMID: 24623855
  • Van Damme P, Gawron D, Van Criekinge W, Menschaert G et al. N-terminal proteomics and ribosome profiling provide a comprehensive view of the alternative translation initiation landscape in mice and men. Mol Cell Proteomics 2014 May;13(5):1245-61. PMID: 24623590
  • Shahaf G, Shweiki D et al. Nonsense-mediated mRNA decay immunity can help identify human polycistronic transcripts. PLoS One 2014;9(3):e91535. PMID: 24621851
  • Gan Z, Wang J, Salomonis N, Stowe JC et al. MAAMD: a workflow to standardize meta-analyses and comparison of affymetrix microarray data. BMC Bioinformatics 2014 Mar 12;15:69. PMID: 24621103
  • Busch M, Schwindt H, Brandt A, Beier M et al. Classification of a frameshift/extended and a stop mutation in WT1 as gain-of-function mutations that activate cell cycle genes and promote Wilms tumour cell proliferation. Hum Mol Genet 2014 Aug 1;23(15):3958-74. PMID: 24619359
  • Wang B, Sun S, Liu Z et al. Analysis of dysregulation of immune system in pancreatic cancer based on gene expression profile. Mol Biol Rep 2014 Jul;41(7):4361-7. PMID: 24619357
  • Jahid MJ, Huang TH, Ruan J et al. A personalized committee classification approach to improving prediction of breast cancer metastasis. Bioinformatics 2014 Jul 1;30(13):1858-66. PMID: 24618465
  • Ooi AT, Gower AC, Zhang KX, Vick JL et al. Molecular profiling of premalignant lesions in lung squamous cell carcinomas identifies mechanisms involved in stepwise carcinogenesis. Cancer Prev Res (Phila) 2014 May;7(5):487-95. PMID: 24618292
  • Rodemoyer A, Kibiryeva N, Bair A, Marshall J et al. A tissue-specific gene expression template portrays heart development and pathology. Hum Genomics 2014 Mar 11;8(1):6. PMID: 24618031
  • Zhang L, Chen X, Sharma P, Moon M et al. HACE1-dependent protein degradation provides cardiac protection in response to haemodynamic stress. Nat Commun 2014 Mar 11;5:3430. PMID: 24614889
  • Bou-Torrent J, Galstyan A, Gallemí M, Cifuentes-Esquivel N et al. Plant proximity perception dynamically modulates hormone levels and sensitivity in Arabidopsis. J Exp Bot 2014 Jun;65(11):2937-47. PMID: 24609653
  • Li Y, Liang C, Wong KC, Jin K et al. Inferring probabilistic miRNA-mRNA interaction signatures in cancers: a role-switch approach. Nucleic Acids Res 2014 May;42(9):e76. PMID: 24609385
  • Canuel V, Rance B, Avillach P, Degoulet P et al. Translational research platforms integrating clinical and omics data: a review of publicly available solutions. Brief Bioinform 2015 Mar;16(2):280-90. PMID: 24608524
  • An O, Pendino V, D'Antonio M, Ratti E et al. NCG 4.0: the network of cancer genes in the era of massive mutational screenings of cancer genomes. Database (Oxford) 2014;2014:bau015. PMID: 24608173
  • Wu H, Ji H et al. PolyaPeak: detecting transcription factor binding sites from ChIP-seq using peak shape information. PLoS One 2014;9(3):e89694. PMID: 24608116
  • Castelletti S, Tuberosa R, Pindo M, Salvi S et al. A MITE transposon insertion is associated with differential methylation at the maize flowering time QTL Vgt1. G3 (Bethesda) 2014 Mar 7;4(5):805-12. PMID: 24607887
  • Chen C, Lodish HF et al. Global analysis of induced transcription factors and cofactors identifies Tfdp2 as an essential coregulator during terminal erythropoiesis. Exp Hematol 2014 Jun;42(6):464-76.e5. PMID: 24607859
  • Li G, Liu S, Wang J, He J et al. ISWI proteins participate in the genome-wide nucleosome distribution in Arabidopsis. Plant J 2014 May;78(4):706-14. PMID: 24606212
  • Baker CL, Walker M, Kajita S, Petkov PM et al. PRDM9 binding organizes hotspot nucleosomes and limits Holliday junction migration. Genome Res 2014 May;24(5):724-32. PMID: 24604780
  • Fang Y, Xie K, Xiong L et al. Conserved miR164-targeted NAC genes negatively regulate drought resistance in rice. J Exp Bot 2014 May;65(8):2119-35. PMID: 24604734
  • Villa-Morales M, Cobos MA, González-Gugel E, Álvarez-Iglesias V et al. FAS system deregulation in T-cell lymphoblastic lymphoma. Cell Death Dis 2014 Mar 6;5(3):e1110. PMID: 24603338
  • Tsai CY, Wang CS, Tsai MM, Chi HC et al. Interleukin-32 increases human gastric cancer cell invasion associated with tumor progression and metastasis. Clin Cancer Res 2014 May 1;20(9):2276-88. PMID: 24602839
  • Liu L, Lei J, Sanders SJ, Willsey AJ et al. DAWN: a framework to identify autism genes and subnetworks using gene expression and genetics. Mol Autism 2014 Mar 6;5(1):22. PMID: 24602502
  • Aktas B, Sun H, Yao H, Shi W et al. Global gene expression changes induced by prolonged cold ischemic stress and preservation method of breast cancer tissue. Mol Oncol 2014 May;8(3):717-27. PMID: 24602449
  • Fahrenbach JP, Andrade J, McNally EM et al. The CO-Regulation Database (CORD): a tool to identify coordinately expressed genes. PLoS One 2014;9(3):e90408. PMID: 24599084
  • Shi SH, Cai YP, Cai XJ, Zheng XY et al. A network pharmacology approach to understanding the mechanisms of action of traditional medicine: Bushenhuoxue formula for treatment of chronic kidney disease. PLoS One 2014;9(3):e89123. PMID: 24598793
  • Jung YL, Luquette LJ, Ho JW, Ferrari F et al. Impact of sequencing depth in ChIP-seq experiments. Nucleic Acids Res 2014 May;42(9):e74. PMID: 24598259
  • Xu X, Park JG, So JS, Hur KY et al. Transcriptional regulation of apolipoprotein A-IV by the transcription factor CREBH. J Lipid Res 2014 May;55(5):850-9. PMID: 24598141
  • Nakamura S, Igarashi M, Kinoshita M, Okano HJ et al. Proposing a new RNA quadruplex structure: j-motif, with possible links to neural development. J Biochem 2014 Jun;155(6):385-92. PMID: 24596122
  • Lee YH, Bae SC, Song GG et al. Meta-analysis of gene expression profiles to predict response to biologic agents in rheumatoid arthritis. Clin Rheumatol 2014 Jun;33(6):775-82. PMID: 24595895
  • Sun Y, Li X, Jiang C, Xiao M et al. Data mining and bioinformatics of the expression data of esophageal squamous cell carcinoma. Cell Biochem Biophys 2014 Jul;69(3):481-5. PMID: 24595844
  • Torrado M, Franco D, Hernández-Torres F, Crespo-Leiro MG et al. Pitx2c is reactivated in the failing myocardium and stimulates myf5 expression in cultured cardiomyocytes. PLoS One 2014;9(3):e90561. PMID: 24595098
  • Wang M, Wang W, Zhang P, Xiao J et al. Discrimination of the expression of paralogous microRNA precursors that share the same major mature form. PLoS One 2014;9(3):e90591. PMID: 24594692
  • Bedogni F, Rossi RL, Galli F, Cobolli Gigli C et al. Rett syndrome and the urge of novel approaches to study MeCP2 functions and mechanisms of action. Neurosci Biobehav Rev 2014 Oct;46 Pt 2:187-201. PMID: 24594195
  • Pishesha N, Thiru P, Shi J, Eng JC et al. Transcriptional divergence and conservation of human and mouse erythropoiesis. Proc Natl Acad Sci U S A 2014 Mar 18;111(11):4103-8. PMID: 24591581
  • Santamaría R, Therón R, Quintales L et al. BicOverlapper 2.0: visual analysis for gene expression. Bioinformatics 2014 Jun 15;30(12):1785-6. PMID: 24590442
  • Muthukumar R, Alexandar V, Thangam B, Ahmed SS et al. A systems biological approach reveals multiple crosstalk mechanism between gram-positive and negative bacterial infections: an insight into core mechanism and unique molecular signatures. PLoS One 2014;9(2):e89993. PMID: 24587173
  • Dawany N, Showe LC, Kossenkov AV, Chang C et al. Identification of a 251 gene expression signature that can accurately detect M. tuberculosis in patients with and without HIV co-infection. PLoS One 2014;9(2):e89925. PMID: 24587128
  • Filosi M, Visintainer R, Riccadonna S, Jurman G et al. Stability indicators in network reconstruction. PLoS One 2014;9(2):e89815. PMID: 24587057
  • Jung K, LePendu P, Chen WS, Iyer SV et al. Automated detection of off-label drug use. PLoS One 2014;9(2):e89324. PMID: 24586689
  • Marsan M, Van den Eynden G, Limame R, Neven P et al. A core invasiveness gene signature reflects epithelial-to-mesenchymal transition but not metastatic potential in breast cancer cell lines and tissue samples. PLoS One 2014;9(2):e89262. PMID: 24586640
  • Ascolani G, Liò P et al. Modeling TGF-β in early stages of cancer tissue dynamics. PLoS One 2014;9(2):e88533. PMID: 24586338
  • Andersen EC, Bloom JS, Gerke JP, Kruglyak L et al. A variant in the neuropeptide receptor npr-1 is a major determinant of Caenorhabditis elegans growth and physiology. PLoS Genet 2014 Feb;10(2):e1004156. PMID: 24586193
  • Ilmjärv S, Hundahl CA, Reimets R, Niitsoo M et al. Estimating differential expression from multiple indicators. Nucleic Acids Res 2014 Apr;42(8):e72. PMID: 24586062
  • Zhao W, Chang C, Cui Y, Zhao X et al. Steroid receptor coactivator-3 regulates glucose metabolism in bladder cancer cells through coactivation of hypoxia inducible factor 1α. J Biol Chem 2014 Apr 18;289(16):11219-11229. PMID: 24584933
  • Salazar R, Tabernero J et al. New approaches but the same flaws in the search for prognostic signatures. Clin Cancer Res 2014 Apr 15;20(8):2019-22. PMID: 24583802
  • Ok CY, Li L, Xu-Monette ZY, Visco C et al. Prevalence and clinical implications of epstein-barr virus infection in de novo diffuse large B-cell lymphoma in Western countries. Clin Cancer Res 2014 May 1;20(9):2338-49. PMID: 24583797
  • Jacquemont S, Coe BP, Hersch M, Duyzend MH et al. A higher mutational burden in females supports a "female protective model" in neurodevelopmental disorders. Am J Hum Genet 2014 Mar 6;94(3):415-25. PMID: 24581740
  • Li J, Lin L, Li H, Tian C et al. Transcriptional comparison of the filamentous fungus Neurospora crassa growing on three major monosaccharides D-glucose, D-xylose and L-arabinose. Biotechnol Biofuels 2014 Feb 28;7(1):31. PMID: 24581151
  • Geeleher P, Cox NJ, Huang RS et al. Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines. Genome Biol 2014 Mar 3;15(3):R47. PMID: 24580837
  • Sidaway-Lee K, Costa MJ, Rand DA, Finkenstadt B et al. Direct measurement of transcription rates reveals multiple mechanisms for configuration of the Arabidopsis ambient temperature response. Genome Biol 2014 Mar 3;15(3):R45. PMID: 24580780
  • Chang TH, Wu SL, Wang WJ, Horng JT et al. A novel approach for discovering condition-specific correlations of gene expressions within biological pathways by using cloud computing technology. Biomed Res Int 2014;2014:763237. PMID: 24579087
  • Zhang Y, Wang Y, Lu M, Qiao X et al. Modular analysis of bioinformatics demonstrates a critical role for NF-κB in macrophage activation. Inflammation 2014 Aug;37(4):1240-53. PMID: 24577727
  • Hegde SR, Pal K, Mande SC et al. Differential enrichment of regulatory motifs in the composite network of protein-protein and gene regulatory interactions. BMC Syst Biol 2014 Feb 27;8:26. PMID: 24576339
  • Kobayashi CI, Takubo K, Kobayashi H, Nakamura-Ishizu A et al. The IL-2/CD25 axis maintains distinct subsets of chronic myeloid leukemia-initiating cells. Blood 2014 Apr 17;123(16):2540-9. PMID: 24574458
  • Huerta M, Munyi M, Expósito D, Querol E et al. MGDB: crossing the marker genes of a user microarray with a database of public-microarrays marker genes. Bioinformatics 2014 Jun 15;30(12):1780-1. PMID: 24574116
  • Butti MD, Chanfreau H, Martinez D, García D et al. BioPlat: a software for human cancer biomarker discovery. Bioinformatics 2014 Jun 15;30(12):1782-4. PMID: 24574115
  • Qi M, Huang X, Zhou L, Zhang J et al. Identification of differentially expressed microRNAs in metastatic melanoma using next-generation sequencing technology. Int J Mol Med 2014 May;33(5):1117-21. PMID: 24573402
  • Gupta S, Kim SM, Wang Y, Dinasarapu AR et al. Statistical insights into major human muscular diseases. Hum Mol Genet 2014 Jul 15;23(14):3772-8. PMID: 24569163
  • Gorrini C, Gang BP, Bassi C, Wakeham A et al. Estrogen controls the survival of BRCA1-deficient cells via a PI3K-NRF2-regulated pathway. Proc Natl Acad Sci U S A 2014 Mar 25;111(12):4472-7. PMID: 24567396
  • Yang YI, Ahn JH, Lee KT, Shih IeM et al. RSF1 is a positive regulator of NF-κB-induced gene expression required for ovarian cancer chemoresistance. Cancer Res 2014 Apr 15;74(8):2258-69. PMID: 24566868
  • Liu H, Wang T, Liu H, Wei Y et al. Detection of type 2 diabetes related modules and genes based on epigenetic networks. BMC Syst Biol 2014;8 Suppl 1(Suppl 1):S5. PMID: 24565181
  • Balov NA categorical network approach for discovering differentially expressed regulations in cancer. BMC Med Genomics 2013;6 Suppl 3(Suppl 3):S1. PMID: 24565081
  • Qureshi R, Sacan A et al. Weighted set enrichment of gene expression data. BMC Syst Biol 2013;7 Suppl 4(Suppl 4):S10. PMID: 24565001
  • Bei Y, Hong P et al. A novel approach to minimize false discovery rate in genome-wide data analysis. BMC Syst Biol 2013;7 Suppl 4(Suppl 4):S1. PMID: 24564975
  • Ma C, Chen HI, Flores M, Huang Y et al. BRCA-Monet: a breast cancer specific drug treatment mode-of-action network for treatment effective prediction using large scale microarray database. BMC Syst Biol 2013;7 Suppl 5(Suppl 5):S5. PMID: 24564956
  • Udyavar AR, Hoeksema MD, Clark JE, Zou Y et al. Co-expression network analysis identifies Spleen Tyrosine Kinase (SYK) as a candidate oncogenic driver in a subset of small-cell lung cancer. BMC Syst Biol 2013;7 Suppl 5(Suppl 5):S1. PMID: 24564859
  • Tang X, Hou M, Ding Y, Li Z et al. Systematically profiling and annotating long intergenic non-coding RNAs in human embryonic stem cell. BMC Genomics 2013;14 Suppl 5(Suppl 5):S3. PMID: 24564552
  • Bhavsar-Jog YP, Van Dornshuld E, Brooks TA, Tschumper GS et al. Epigenetic modification, dehydration, and molecular crowding effects on the thermodynamics of i-motif structure formation from C-rich DNA. Biochemistry 2014 Mar 18;53(10):1586-94. PMID: 24564458
  • Wu PY, Phan JH, Wang MD et al. Assessing the impact of human genome annotation choice on RNA-seq expression estimates. BMC Bioinformatics 2013;14 Suppl 11(Suppl 11):S8. PMID: 24564364
  • Craig P, Cannon A, Kukla R, Kennedy J et al. MaTSE: the gene expression time-series explorer. BMC Bioinformatics 2013;14 Suppl 19(Suppl 19):S1. PMID: 24564291
  • Cheng CY, Chu CH, Hsu HW, Hsu FR et al. An improved ChIP-seq peak detection system for simultaneously identifying post-translational modified transcription factors by combinatorial fusion, using SUMOylation as an example. BMC Genomics 2014;15 Suppl 1(Suppl 1):S1. PMID: 24564277
  • Saini A, Hou J, Zhou W et al. RRHGE: a novel approach to classify the estrogen receptor based breast cancer subtypes. ScientificWorldJournal 2014;2014:362141. PMID: 24563630
  • Kadara H, Fujimoto J, Yoo SY, Maki Y et al. Transcriptomic architecture of the adjacent airway field cancerization in non-small cell lung cancer. J Natl Cancer Inst 2014 Mar;106(3):dju004. PMID: 24563515
  • Ma CH, Lv Q, Cao Y, Wang Q et al. Genes relevant with osteoarthritis by comparison gene expression profiles of synovial membrane of osteoarthritis patients at different stages. Eur Rev Med Pharmacol Sci 2014;18(3):431-9. PMID: 24563447
  • Feng H, Conneely KN, Wu H et al. A Bayesian hierarchical model to detect differentially methylated loci from single nucleotide resolution sequencing data. Nucleic Acids Res 2014 Apr;42(8):e69. PMID: 24561809
  • Lin Y, Jin Y, Lin LJ, Cao Y et al. Candidate agents for pancreatic ductal adenocarcinoma identified by a sub-pathway based method. Gene 2014 May 1;540(2):232-7. PMID: 24561286
  • Kim TH, Choi SJ, Lee YH, Song GG et al. Gene expression profile predicting the response to anti-TNF treatment in patients with rheumatoid arthritis; analysis of GEO datasets. Joint Bone Spine 2014 Jul;81(4):325-30. PMID: 24561023
  • de Ronde JJ, Bonder MJ, Lips EH, Rodenhuis S et al. Breast cancer subtype specific classifiers of response to neoadjuvant chemotherapy do not outperform classifiers trained on all subtypes. PLoS One 2014;9(2):e88551. PMID: 24558399
  • Naseem M, Kunz M, Dandekar T et al. Probing the unknowns in cytokinin-mediated immune defense in Arabidopsis with systems biology approaches. Bioinform Biol Insights 2014;8:35-44. PMID: 24558299
  • Ding B, Xi Y, Gao M, Li Z et al. Gene expression profiles of entorhinal cortex in Alzheimer's disease. Am J Alzheimers Dis Other Demen 2014 Sep;29(6):526-32. PMID: 24558171
  • Meng W, Wu Y, He X, Liu C et al. A systems biology approach identifies effective tumor-stroma common targets for oral squamous cell carcinoma. Cancer Res 2014 Apr 15;74(8):2306-15. PMID: 24556718
  • Tang Y, Yan W, Chen J, Luo C et al. Identification of novel microRNA regulatory pathways associated with heterogeneous prostate cancer. BMC Syst Biol 2013 Oct 16;7 Suppl 3(Suppl 3):S6. PMID: 24555436
  • Fontenille L, Rouquier S, Lutfalla G, Giorgi D et al. Microtubule-associated protein 9 (Map9/Asap) is required for the early steps of zebrafish development. Cell Cycle 2014;13(7):1101-14. PMID: 24553125
  • Rienth M, Torregrosa L, Kelly MT, Luchaire N et al. Is transcriptomic regulation of berry development more important at night than during the day? PLoS One 2014;9(2):e88844. PMID: 24551177
  • Gerasch A, Faber D, Küntzer J, Niermann P et al. BiNA: a visual analytics tool for biological network data. PLoS One 2014;9(2):e87397. PMID: 24551056
  • Brosché M, Blomster T, Salojärvi J, Cui F et al. Transcriptomics and functional genomics of ROS-induced cell death regulation by RADICAL-INDUCED CELL DEATH1. PLoS Genet 2014 Feb;10(2):e1004112. PMID: 24550736
  • Farren MR, Carlson LM, Netherby CS, Lindner I et al. Tumor-induced STAT3 signaling in myeloid cells impairs dendritic cell generation by decreasing PKCβII abundance. Sci Signal 2014 Feb 18;7(313):ra16. PMID: 24550541
  • Sun Y, Zhang W, Chen D, Lv Y et al. A glioma classification scheme based on coexpression modules of EGFR and PDGFRA. Proc Natl Acad Sci U S A 2014 Mar 4;111(9):3538-43. PMID: 24550449
  • Forloni M, Dogra SK, Dong Y, Conte D Jr et al. miR-146a promotes the initiation and progression of melanoma by activating Notch signaling. Elife 2014 Feb 18;3:e01460. PMID: 24550252
  • Rosell M, Kaforou M, Frontini A, Okolo A et al. Brown and white adipose tissues: intrinsic differences in gene expression and response to cold exposure in mice. Am J Physiol Endocrinol Metab 2014 Apr 15;306(8):E945-64. PMID: 24549398
  • Xu B, Geerts D, Bu Z, Ai J et al. Regulation of endometrial receptivity by the highly expressed HOXA9, HOXA11 and HOXD10 HOX-class homeobox genes. Hum Reprod 2014 Apr;29(4):781-90. PMID: 24549215
  • Dürrbaum M, Kuznetsova AY, Passerini V, Stingele S et al. Unique features of the transcriptional response to model aneuploidy in human cells. BMC Genomics 2014 Feb 18;15:139. PMID: 24548329
  • Domingues PH, Sousa P, Otero Á, Gonçalves JM et al. Proposal for a new risk stratification classification for meningioma based on patient age, WHO tumor grade, size, localization, and karyotype. Neuro Oncol 2014 May;16(5):735-47. PMID: 24536048
  • Khushi M, Liddle C, Clarke CL, Graham JD et al. Binding sites analyser (BiSA): software for genomic binding sites archiving and overlap analysis. PLoS One 2014;9(2):e87301. PMID: 24533055
  • He H, Li S, Chen H, Li L et al. 12-O-tetradecanoylphorbol-13-acetate promotes breast cancer cell motility by increasing S100A14 level in a Kruppel-like transcription factor 4 (KLF4)-dependent manner. J Biol Chem 2014 Mar 28;289(13):9089-99. PMID: 24532790
  • Lehnertz B, Pabst C, Su L, Miller M et al. The methyltransferase G9a regulates HoxA9-dependent transcription in AML. Genes Dev 2014 Feb 15;28(4):317-27. PMID: 24532712
  • Lin SY, Chen PW, Chuang MH, Juntawong P et al. Profiling of translatomes of in vivo-grown pollen tubes reveals genes with roles in micropylar guidance during pollination in Arabidopsis. Plant Cell 2014 Feb;26(2):602-18. PMID: 24532595
  • Young DJ, Stoddart A, Nakitandwe J, Chen SC et al. Knockdown of Hnrnpa0, a del(5q) gene, alters myeloid cell fate in murine cells through regulation of AU-rich transcripts. Haematologica 2014 Jun;99(6):1032-40. PMID: 24532040
  • Liu Y, Carlsson R, Comabella M, Wang J et al. FoxA1 directs the lineage and immunosuppressive properties of a novel regulatory T cell population in EAE and MS. Nat Med 2014 Mar;20(3):272-82. PMID: 24531377
  • Moutselos K, Maglogiannis I, Chatziioannou A et al. Integration of high-volume molecular and imaging data for composite biomarker discovery in the study of melanoma. Biomed Res Int 2014;2014:145243. PMID: 24527435
  • Readhead B, Dudley J et al. Translational Bioinformatics Approaches to Drug Development. Adv Wound Care (New Rochelle) 2013 Nov;2(9):470-489. PMID: 24527359
  • Puissant A, Fenouille N, Alexe G, Pikman Y et al. SYK is a critical regulator of FLT3 in acute myeloid leukemia. Cancer Cell 2014 Feb 10;25(2):226-42. PMID: 24525236
  • Choi W, Porten S, Kim S, Willis D et al. Identification of distinct basal and luminal subtypes of muscle-invasive bladder cancer with different sensitivities to frontline chemotherapy. Cancer Cell 2014 Feb 10;25(2):152-65. PMID: 24525232
  • Anthérieu S, Le Guillou D, Coulouarn C, Begriche K et al. Chronic exposure to low doses of pharmaceuticals disturbs the hepatic expression of circadian genes in lean and obese mice. Toxicol Appl Pharmacol 2014 Apr 1;276(1):63-72. PMID: 24525044
  • Gheorghe M, Snoeck M, Emmerich M, Bäck T et al. Major aging-associated RNA expressions change at two distinct age-positions. BMC Genomics 2014 Feb 14;15:132. PMID: 24524210
  • Mu J, Tai X, Iyer SS, Weissman JD et al. Regulation of MHC class I expression by Foxp3 and its effect on regulatory T cell function. J Immunol 2014 Mar 15;192(6):2892-903. PMID: 24523508
  • Perera GK, Ainali C, Semenova E, Hundhausen C et al. Integrative biology approach identifies cytokine targeting strategies for psoriasis. Sci Transl Med 2014 Feb 12;6(223):223ra22. PMID: 24523322
  • Sivendran S, Chang R, Pham L, Phelps RG et al. Dissection of immune gene networks in primary melanoma tumors critical for antitumor surveillance of patients with stage II-III resectable disease. J Invest Dermatol 2014 Aug;134(8):2202-2211. PMID: 24522433
  • Itesako T, Seki N, Yoshino H, Chiyomaru T et al. The microRNA expression signature of bladder cancer by deep sequencing: the functional significance of the miR-195/497 cluster. PLoS One 2014;9(2):e84311. PMID: 24520312
  • Liu Y, Olanrewaju YO, Zheng Y, Hashimoto H et al. Structural basis for Klf4 recognition of methylated DNA. Nucleic Acids Res 2014 Apr;42(8):4859-67. PMID: 24520114
  • Liu R, Yu X, Liu X, Xu D et al. Identifying critical transitions of complex diseases based on a single sample. Bioinformatics 2014 Jun 1;30(11):1579-86. PMID: 24519381
  • Jain M, Ngoy S, Sheth SA, Swanson RA et al. A systematic survey of lipids across mouse tissues. Am J Physiol Endocrinol Metab 2014 Apr 15;306(8):E854-68. PMID: 24518676
  • Choi Y, Kim JK, Yoo JY et al. NFκB and STAT3 synergistically activate the expression of FAT10, a gene counteracting the tumor suppressor p53. Mol Oncol 2014 May;8(3):642-55. PMID: 24518302
  • Karczewski KJ, Snyder M, Altman RB, Tatonetti NP et al. Coherent functional modules improve transcription factor target identification, cooperativity prediction, and disease association. PLoS Genet 2014 Feb;10(2):e1004122. PMID: 24516403
  • Balwierz PJ, Pachkov M, Arnold P, Gruber AJ et al. ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs. Genome Res 2014 May;24(5):869-84. PMID: 24515121
  • McManus CJ, Coolon JD, Eipper-Mains J, Wittkopp PJ et al. Evolution of splicing regulatory networks in Drosophila. Genome Res 2014 May;24(5):786-96. PMID: 24515119
  • Desrivières S, Lourdusamy A, Tao C, Toro R et al. Single nucleotide polymorphism in the neuroplastin locus associates with cortical thickness and intellectual ability in adolescents. Mol Psychiatry 2015 Feb;20(2):263-74. PMID: 24514566
  • Wang CC, Chang PC, Ng KL, Chang CM et al. A model comparison study of the flowering time regulatory network in Arabidopsis. BMC Syst Biol 2014 Feb 11;8:15. PMID: 24513114
  • Yang Y, Wang Y, Zhou K, Hong A et al. Constructing regulatory networks to identify biomarkers for insulin resistance. Gene 2014 Apr 10;539(1):68-74. PMID: 24512691
  • Hoffmann S, Otto C, Doose G, Tanzer A et al. A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection. Genome Biol 2014 Feb 10;15(2):R34. PMID: 24512684
  • Jang IS, Margolin A, Califano A et al. hARACNe: improving the accuracy of regulatory model reverse engineering via higher-order data processing inequality tests. Interface Focus 2013 Aug 6;3(4):20130011. PMID: 24511376
  • Jeong W, Kim SB, Sohn BH, Park YY et al. Activation of YAP1 is associated with poor prognosis and response to taxanes in ovarian cancer. Anticancer Res 2014 Feb;34(2):811-817. PMID: 24511017
  • Wissing ML, Kristensen SG, Andersen CY, Mikkelsen AL et al. Identification of new ovulation-related genes in humans by comparing the transcriptome of granulosa cells before and after ovulation triggering in the same controlled ovarian stimulation cycle. Hum Reprod 2014 May;29(5):997-1010. PMID: 24510971
  • Ramireddy E, Chang L, Schmülling T et al. Cytokinin as a mediator for regulating root system architecture in response to environmental cues. Plant Signal Behav 2014;9(1):e27771. PMID: 24509549
  • Han J, Fang J, Wang C, Yin Y et al. Grapevine microRNAs responsive to exogenous gibberellin. BMC Genomics 2014 Feb 8;15:111. PMID: 24507455
  • Schulz EG, Meisig J, Nakamura T, Okamoto I et al. The two active X chromosomes in female ESCs block exit from the pluripotent state by modulating the ESC signaling network. Cell Stem Cell 2014 Feb 6;14(2):203-16. PMID: 24506884
  • Li BQ, You J, Huang T, Cai YD et al. Classification of non-small cell lung cancer based on copy number alterations. PLoS One 2014;9(2):e88300. PMID: 24505469
  • Arai E, Sakamoto H, Ichikawa H, Totsuka H et al. Multilayer-omics analysis of renal cell carcinoma, including the whole exome, methylome and transcriptome. Int J Cancer 2014 Sep 15;135(6):1330-42. PMID: 24504440
  • Wheelwright M, Kim EW, Inkeles MS, De Leon A et al. All-trans retinoic acid-triggered antimicrobial activity against Mycobacterium tuberculosis is dependent on NPC2. J Immunol 2014 Mar 1;192(5):2280-2290. PMID: 24501203
  • Beste MT, Pfäffle-Doyle N, Prentice EA, Morris SN et al. Molecular network analysis of endometriosis reveals a role for c-Jun-regulated macrophage activation. Sci Transl Med 2014 Feb 5;6(222):222ra16. PMID: 24500404
  • Li A, Liu Y, Zhao Q, Feng H et al. Genome-wide identification of somatic aberrations from paired normal-tumor samples. PLoS One 2014;9(1):e87212. PMID: 24498045
  • Lee WJ, Kim SC, Lee SJ, Lee J et al. Investigating the different mechanisms of genotoxic and non-genotoxic carcinogens by a gene set analysis. PLoS One 2014;9(1):e86700. PMID: 24497971
  • Park C, Ahn J, Kim H, Park S et al. Integrative gene network construction to analyze cancer recurrence using semi-supervised learning. PLoS One 2014;9(1):e86309. PMID: 24497942
  • Adomako-Ankomah Y, Wier GM, Borges AL, Wand HE et al. Differential locus expansion distinguishes Toxoplasmatinae species and closely related strains of Toxoplasma gondii. mBio 2014 Feb 4;5(1):e01003-13. PMID: 24496792
  • Huang D, Ovcharenko I et al. Genome-wide analysis of functional and evolutionary features of tele-enhancers. G3 (Bethesda) 2014 Apr 16;4(4):579-93. PMID: 24496725
  • Naseem M, Kaltdorf M, Hussain A, Dandekar T et al. The impact of cytokinin on jasmonate-salicylate antagonism in Arabidopsis immunity against infection with Pst DC3000. Plant Signal Behav 2013 Oct;8(10):doi: 10.4161/psb.26791. PMID: 24494231
  • Tiwari M, Sharma D, Singh M, Tripathi RD et al. Expression of OsMATE1 and OsMATE2 alters development, stress responses and pathogen susceptibility in Arabidopsis. Sci Rep 2014 Feb 4;4:3964. PMID: 24492654
  • Funes JM, Henderson S, Kaufman R, Flanagan JM et al. Oncogenic transformation of mesenchymal stem cells decreases Nrf2 expression favoring in vivo tumor growth and poorer survival. Mol Cancer 2014 Feb 3;13:20. PMID: 24491031
  • Ashlock BM, Ma Q, Issac B, Mesri EA et al. Productively infected murine Kaposi's sarcoma-like tumors define new animal models for studying and targeting KSHV oncogenesis and replication. PLoS One 2014;9(1):e87324. PMID: 24489895
  • Hu J, Tzeng JY et al. Integrative gene set analysis of multi-platform data with sample heterogeneity. Bioinformatics 2014 Jun 1;30(11):1501-7. PMID: 24489370
  • Shi WY, Liu KD, Xu SG, Zhang JT et al. Gene expression analysis of lung cancer. Eur Rev Med Pharmacol Sci 2014;18(2):217-28. PMID: 24488911
  • Ma W, Zhang TF, Lu P, Lu SH et al. Partial least squares based gene expression analysis in estrogen receptor positive and negative breast tumors. Eur Rev Med Pharmacol Sci 2014;18(2):212-6. PMID: 24488910
  • Bartholdy B, Christopeit M, Will B, Mo Y et al. HSC commitment-associated epigenetic signature is prognostic in acute myeloid leukemia. J Clin Invest 2014 Mar;124(3):1158-67. PMID: 24487588
  • Arjonen A, Kaukonen R, Mattila E, Rouhi P et al. Mutant p53-associated myosin-X upregulation promotes breast cancer invasion and metastasis. J Clin Invest 2014 Mar;124(3):1069-82. PMID: 24487586
  • Dekervel J, Hompes D, van Malenstein H, Popovic D et al. Hypoxia-driven gene expression is an independent prognostic factor in stage II and III colon cancer patients. Clin Cancer Res 2014 Apr 15;20(8):2159-68. PMID: 24486594
  • Riester M, Werner L, Bellmunt J, Selvarajah S et al. Integrative analysis of 1q23.3 copy-number gain in metastatic urothelial carcinoma. Clin Cancer Res 2014 Apr 1;20(7):1873-83. PMID: 24486590
  • Siddle KJ, Deschamps M, Tailleux L, Nédélec Y et al. A genomic portrait of the genetic architecture and regulatory impact of microRNA expression in response to infection. Genome Res 2014 May;24(5):850-9. PMID: 24482540
  • Barth J, Bergner SV, Jaeger D, Niehues A et al. The interplay of light and oxygen in the reactive oxygen stress response of Chlamydomonas reinhardtii dissected by quantitative mass spectrometry. Mol Cell Proteomics 2014 Apr;13(4):969-89. PMID: 24482124
  • Guo M, Jiang Z, Zhang X, Lu D et al. miR-656 inhibits glioma tumorigenesis through repression of BMPR1A. Carcinogenesis 2014 Aug;35(8):1698-706. PMID: 24480809
  • Qazi S, Ma H, Uckun FM et al. Absence of Genomic Ikaros/IKZF1 Deletions in Pediatric B-Precursor Acute Lymphoblastic Leukemia. Int J Mol Med Sci 2013 Jul 29;3(9):72-82. PMID: 24478816
  • Menachery VD, Yount BL Jr, Josset L, Gralinski LE et al. Attenuation and restoration of severe acute respiratory syndrome coronavirus mutant lacking 2'-o-methyltransferase activity. J Virol 2014 Apr;88(8):4251-64. PMID: 24478444
  • Aryee MJ, Jaffe AE, Corrada-Bravo H, Ladd-Acosta C et al. Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics 2014 May 15;30(10):1363-9. PMID: 24478339
  • Amaro A, Esposito AI, Gallina A, Nees M et al. Validation of proposed prostate cancer biomarkers with gene expression data: a long road to travel. Cancer Metastasis Rev 2014 Sep;33(2-3):657-71. PMID: 24477410
  • Cai H, Kumar N, Bagheri HC, von Mering C et al. Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens. BMC Genomics 2014 Jan 29;15:82. PMID: 24476156
  • Raddatz BB, Hansmann F, Spitzbarth I, Kalkuhl A et al. Transcriptomic meta-analysis of multiple sclerosis and its experimental models. PLoS One 2014;9(1):e86643. PMID: 24475162
  • Chung FH, Chiang YR, Tseng AL, Sung YC et al. Functional Module Connectivity Map (FMCM): a framework for searching repurposed drug compounds for systems treatment of cancer and an application to colorectal adenocarcinoma. PLoS One 2014;9(1):e86299. PMID: 24475102
  • Rao SA, Srinivasan S, Patric IR, Hegde AS et al. A 16-gene signature distinguishes anaplastic astrocytoma from glioblastoma. PLoS One 2014;9(1):e85200. PMID: 24475040
  • Kim H, Lee K, Hwang H, Bhatnagar N et al. Overexpression of PYL5 in rice enhances drought tolerance, inhibits growth, and modulates gene expression. J Exp Bot 2014 Feb;65(2):453-64. PMID: 24474809
  • Toth AL, Tooker JF, Radhakrishnan S, Minard R et al. Shared genes related to aggression, rather than chemical communication, are associated with reproductive dominance in paper wasps (Polistes metricus). BMC Genomics 2014 Jan 28;15:75. PMID: 24472515
  • van Vuurden DG, Aronica E, Hulleman E, Wedekind LE et al. Pre-B-cell leukemia homeobox interacting protein 1 is overexpressed in astrocytoma and promotes tumor cell growth and migration. Neuro Oncol 2014 Jul;16(7):946-59. PMID: 24470547
  • Gardner JC, Noel JG, Nikolaidis NM, Karns R et al. G-CSF drives a posttraumatic immune program that protects the host from infection. J Immunol 2014 Mar 1;192(5):2405-17. PMID: 24470495
  • Marstrand TT, Storey JD et al. Identifying and mapping cell-type-specific chromatin programming of gene expression. Proc Natl Acad Sci U S A 2014 Feb 11;111(6):E645-54. PMID: 24469817
  • Cyr AR, Kulak MV, Park JM, Bogachek MV et al. TFAP2C governs the luminal epithelial phenotype in mammary development and carcinogenesis. Oncogene 2015 Jan 22;34(4):436-44. PMID: 24469049
  • Herbst A, Jurinovic V, Krebs S, Thieme SE et al. Comprehensive analysis of β-catenin target genes in colorectal carcinoma cell lines with deregulated Wnt/β-catenin signaling. BMC Genomics 2014 Jan 28;15:74. PMID: 24467841
  • Zhou H, Ge Y, Sun L, Ma W et al. Growth arrest specific 2 is up-regulated in chronic myeloid leukemia cells and required for their growth. PLoS One 2014;9(1):e86195. PMID: 24465953
  • Sun Y, Yang Y, Zeng S, Tan Y et al. Identification of proteins related to epigenetic regulation in the malignant transformation of aberrant karyotypic human embryonic stem cells by quantitative proteomics. PLoS One 2014;9(1):e85823. PMID: 24465727
  • Dancik GM, Theodorescu D et al. Robust prognostic gene expression signatures in bladder cancer and lung adenocarcinoma depend on cell cycle related genes. PLoS One 2014;9(1):e85249. PMID: 24465512
  • Wang L, Jiang N, Wang L, Fang O et al. 3' Untranslated regions mediate transcriptional interference between convergent genes both locally and ectopically in Saccharomyces cerevisiae. PLoS Genet 2014 Jan;10(1):e1004021. PMID: 24465217
  • Comoglio F, Paro R et al. Combinatorial modeling of chromatin features quantitatively predicts DNA replication timing in Drosophila. PLoS Comput Biol 2014 Jan;10(1):e1003419. PMID: 24465194
  • Liu X, Chen X, Zhong B, Wang A et al. Transcription factor achaete-scute homologue 2 initiates follicular T-helper-cell development. Nature 2014 Mar 27;507(7493):513-8. PMID: 24463518
  • Santagata S, Thakkar A, Ergonul A, Wang B et al. Taxonomy of breast cancer based on normal cell phenotype predicts outcome. J Clin Invest 2014 Feb;124(2):859-70. PMID: 24463450
  • Abdel-Fatah TM, Russell R, Agarwal D, Moseley P et al. DNA polymerase β deficiency is linked to aggressive breast cancer: a comprehensive analysis of gene copy number, mRNA and protein expression in multiple cohorts. Mol Oncol 2014 May;8(3):520-32. PMID: 24462520
  • Rerksiri W, Zhang X, Xiong H, Chen X et al. Expression and promoter analysis of six heat stress-inducible genes in rice. ScientificWorldJournal 2013;2013:397401. PMID: 24459431
  • Wollen EJ, Kwinta P, Bik-Multanowski M, Madetko-Talowska A et al. Hypoxia-reoxygenation affects whole-genome expression in the newborn eye. Invest Ophthalmol Vis Sci 2014 Mar 10;55(3):1393-401. PMID: 24458145
  • Choi B, Lee EJ, Song DH, Yoon SC et al. Elevated Pentraxin 3 in bone metastatic breast cancer is correlated with osteolytic function. Oncotarget 2014 Jan 30;5(2):481-92. PMID: 24457902
  • Cao Q, Wang X, Zhao M, Yang R et al. The central role of EED in the orchestration of polycomb group complexes. Nat Commun 2014;5:3127. PMID: 24457600
  • Cava C, Zoppis I, Gariboldi M, Castiglioni I et al. Combined analysis of chromosomal instabilities and gene expression for colon cancer progression inference. J Clin Bioinforma 2014 Jan 24;4(1):2. PMID: 24456927
  • Xu X, Wells AB, O'Brien DR, Nehorai A et al. Cell type-specific expression analysis to identify putative cellular mechanisms for neurogenetic disorders. J Neurosci 2014 Jan 22;34(4):1420-31. PMID: 24453331
  • Kwong LN, Chin L et al. Chromosome 10, frequently lost in human melanoma, encodes multiple tumor-suppressive functions. Cancer Res 2014 Mar 15;74(6):1814-21. PMID: 24453001
  • Liao Q, Sun XY, Guo H, Li C et al. Exploring the potential mechanism and screening small molecule drugs for glaucoma by using bioinformatics approach. Eur Rev Med Pharmacol Sci 2014;18(1):132-40. PMID: 24452954
  • Shangguan WJ, Tang LM, Li H et al. Screening of genes related to acute coronary syndrome and identification of functional modules in the PPI network. Eur Rev Med Pharmacol Sci 2014;18(1):52-7. PMID: 24452942
  • Zhang ZK, Yang Y, Bai SR, Zhang GZ et al. Screening for key genes associated with atopic dermatitis with DNA microarrays. Mol Med Rep 2014 Mar;9(3):1049-55. PMID: 24452877
  • Nilsson R, Jain M, Madhusudhan N, Sheppard NG et al. Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer. Nat Commun 2014;5:3128. PMID: 24451681
  • Rosikiewicz M, Robinson-Rechavi M et al. IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics. Bioinformatics 2014 May 15;30(10):1392-9. PMID: 24451627
  • Bollen S, Leddin M, Andrade-Navarro MA, Mah N et al. CAFE: an R package for the detection of gross chromosomal abnormalities from gene expression microarray data. Bioinformatics 2014 May 15;30(10):1484-5. PMID: 24451624
  • Houseman EA, Molitor J, Marsit CJ et al. Reference-free cell mixture adjustments in analysis of DNA methylation data. Bioinformatics 2014 May 15;30(10):1431-9. PMID: 24451622
  • Bogenberger JM, Kornblau SM, Pierceall WE, Lena R et al. BCL-2 family proteins as 5-Azacytidine-sensitizing targets and determinants of response in myeloid malignancies. Leukemia 2014 Aug;28(8):1657-65. PMID: 24451410
  • Soria PS, McGary KL, Rokas A et al. Functional divergence for every paralog. Mol Biol Evol 2014 Apr;31(4):984-92. PMID: 24451325
  • Mustroph A, Barding GA Jr, Kaiser KA, Larive CK et al. Characterization of distinct root and shoot responses to low-oxygen stress in Arabidopsis with a focus on primary C- and N-metabolism. Plant Cell Environ 2014 Oct;37(10):2366-80. PMID: 24450922
  • Yang D, Lutter D, Burtscher I, Uetzmann L et al. miR-335 promotes mesendodermal lineage segregation and shapes a transcription factor gradient in the endoderm. Development 2014 Feb;141(3):514-25. PMID: 24449834
  • Elias S, Yamin R, Golomb L, Tsukerman P et al. Immune evasion by oncogenic proteins of acute myeloid leukemia. Blood 2014 Mar 6;123(10):1535-43. PMID: 24449212
  • Zhao M, Austin ED, Hemnes AR, Loyd JE et al. An evidence-based knowledgebase of pulmonary arterial hypertension to identify genes and pathways relevant to pathogenesis. Mol Biosyst 2014 Apr;10(4):732-40. PMID: 24448676
  • Chiang YT, Wang K, Fazli L, Qi RZ et al. GATA2 as a potential metastasis-driving gene in prostate cancer. Oncotarget 2014 Jan 30;5(2):451-61. PMID: 24448395
  • Noh JH, Bae HJ, Eun JW, Shen Q et al. HDAC2 provides a critical support to malignant progression of hepatocellular carcinoma through feedback control of mTORC1 and AKT. Cancer Res 2014 Mar 15;74(6):1728-38. PMID: 24448241
  • Luraghi P, Reato G, Cipriano E, Sassi F et al. MET signaling in colon cancer stem-like cells blunts the therapeutic response to EGFR inhibitors. Cancer Res 2014 Mar 15;74(6):1857-69. PMID: 24448239
  • Naeem H, Wong NC, Chatterton Z, Hong MK et al. Reducing the risk of false discovery enabling identification of biologically significant genome-wide methylation status using the HumanMethylation450 array. BMC Genomics 2014 Jan 22;15(1):51. PMID: 24447442
  • Jin S, Li Y, Pan R, Zou X et al. Characterizing and controlling the inflammatory network during influenza A virus infection. Sci Rep 2014 Jan 21;4:3799. PMID: 24445954
  • Zhou J, Wu J, Li B, Liu D et al. PU.1 is essential for MLL leukemia partially via crosstalk with the MEIS/HOX pathway. Leukemia 2014 Jul;28(7):1436-48. PMID: 24445817
  • Ma B, Wilker EH, Willis-Owen SA, Byun HM et al. Predicting DNA methylation level across human tissues. Nucleic Acids Res 2014 Apr;42(6):3515-28. PMID: 24445802
  • Smith BJ, Mezhir JJ et al. An interactive Bayesian model for prediction of lymph node ratio and survival in pancreatic cancer patients. J Am Med Inform Assoc 2014 Oct;21(e2):e203-11. PMID: 24444460
  • Ying H, Lyu J, Ying T, Li J et al. Risk miRNA screening of ovarian cancer based on miRNA functional synergistic network. J Ovarian Res 2014 Jan 21;7:9. PMID: 24444095
  • de Reyniès A, Jaurand MC, Renier A, Couchy G et al. Molecular classification of malignant pleural mesothelioma: identification of a poor prognosis subgroup linked to the epithelial-to-mesenchymal transition. Clin Cancer Res 2014 Mar 1;20(5):1323-34. PMID: 24443521
  • Abbas S, Sanders MA, Zeilemaker A, Geertsma-Kleinekoort WM et al. Integrated genome-wide genotyping and gene expression profiling reveals BCL11B as a putative oncogene in acute myeloid leukemia with 14q32 aberrations. Haematologica 2014 May;99(5):848-57. PMID: 24441149
  • Zhou B, Damrauer JS, Bailey ST, Hadzic T et al. Erythropoietin promotes breast tumorigenesis through tumor-initiating cell self-renewal. J Clin Invest 2014 Feb;124(2):553-63. PMID: 24435044
  • Giraud M, Jmari N, Du L, Carallis F et al. An RNAi screen for Aire cofactors reveals a role for Hnrnpl in polymerase release and Aire-activated ectopic transcription. Proc Natl Acad Sci U S A 2014 Jan 28;111(4):1491-6. PMID: 24434558
  • Yang KC, Yamada KA, Patel AY, Topkara VK et al. Deep RNA sequencing reveals dynamic regulation of myocardial noncoding RNAs in failing human heart and remodeling with mechanical circulatory support. Circulation 2014 Mar 4;129(9):1009-21. PMID: 24429688
  • Zhang C, Yin C, Wang L, Zhang S et al. HSPC111 governs breast cancer growth by regulating ribosomal biogenesis. Mol Cancer Res 2014 Apr;12(4):583-94. PMID: 24425784
  • Raymond JR Jr, Appleton KM, Pierce JY, Peterson YK et al. Suppression of GNAI2 message in ovarian cancer. J Ovarian Res 2014 Jan 14;7:6. PMID: 24423449
  • Dembélé D, Kastner P et al. Fold change rank ordering statistics: a new method for detecting differentially expressed genes. BMC Bioinformatics 2014 Jan 15;15:14. PMID: 24423217
  • Ocho M, Togayachi A, Iio E, Kaji H et al. Application of a glycoproteomics-based biomarker development method: alteration in glycan structure on colony stimulating factor 1 receptor as a possible glycobiomarker candidate for evaluation of liver cirrhosis. J Proteome Res 2014 Mar 7;13(3):1428-37. PMID: 24422531
  • Yudkin D, Hayward BE, Aladjem MI, Kumari D et al. Chromosome fragility and the abnormal replication of the FMR1 locus in fragile X syndrome. Hum Mol Genet 2014 Jun 1;23(11):2940-52. PMID: 24419320
  • Grabauskiene S, Bergeron EJ, Chen G, Thomas DG et al. Checkpoint kinase 1 protein expression indicates sensitization to therapy by checkpoint kinase 1 inhibition in non-small cell lung cancer. J Surg Res 2014 Mar;187(1):6-13. PMID: 24418519
  • Lu JW, Liao CY, Yang WY, Lin YM et al. Overexpression of endothelin 1 triggers hepatocarcinogenesis in zebrafish and promotes cell proliferation and migration through the AKT pathway. PLoS One 2014;9(1):e85318. PMID: 24416389
  • Tian Y, Huang Z, Wang Z, Yin C et al. Identification of novel molecular markers for prognosis estimation of acute myeloid leukemia: over-expression of PDCD7, FIS1 and Ang2 may indicate poor prognosis in pretreatment patients with acute myeloid leukemia. PLoS One 2014;9(1):e84150. PMID: 24416201
  • Minagawa K, Wakahashi K, Kawano H, Nishikawa S et al. Posttranscriptional modulation of cytokine production in T cells for the regulation of excessive inflammation by TFL. J Immunol 2014 Feb 15;192(4):1512-24. PMID: 24415781
  • Park D, Morris AR, Battenhouse A, Iyer VR et al. Simultaneous mapping of transcript ends at single-nucleotide resolution and identification of widespread promoter-associated non-coding RNA governed by TATA elements. Nucleic Acids Res 2014 Apr;42(6):3736-49. PMID: 24413663
  • Kang HJ, Lee MH, Kang HL, Kim SH et al. Differential regulation of estrogen receptor α expression in breast cancer cells by metastasis-associated protein 1. Cancer Res 2014 Mar 1;74(5):1484-94. PMID: 24413532
  • Kaur C, Mustafiz A, Sarkar AK, Ariyadasa TU et al. Expression of abiotic stress inducible ETHE1-like protein from rice is higher in roots and is regulated by calcium. Physiol Plant 2014 Sep;152(1):1-16. PMID: 24410953
  • Meng J, Li Y, Camarillo C, Yao Y et al. The anti-tumor histone deacetylase inhibitor SAHA and the natural flavonoid curcumin exhibit synergistic neuroprotection against amyloid-beta toxicity. PLoS One 2014;9(1):e85570. PMID: 24409332
  • Phipps-Yonas H, Cui H, Sebastiao N, Brunhoeber PS et al. Low GILT Expression is Associated with Poor Patient Survival in Diffuse Large B-Cell Lymphoma. Front Immunol 2013;4:425. PMID: 24409177
  • Liu H, Zhu R, Lv J, He H et al. DevMouse, the mouse developmental methylome database and analysis tools. Database (Oxford) 2014;2014:bat084. PMID: 24408217
  • Kaddi CD, Parry RM, Wang MD et al. Multivariate hypergeometric similarity measure. IEEE/ACM Trans Comput Biol Bioinform 2013 Nov-Dec;10(6):1505-16. PMID: 24407308
  • Gao F, Ji G, Gao Z, Han X et al. Direct ChIP-bisulfite sequencing reveals a role of H3K27me3 mediating aberrant hypermethylation of promoter CpG islands in cancer cells. Genomics 2014 Feb-Mar;103(2-3):204-10. PMID: 24407023
  • Yang S, Liu Y, Jiang N, Chen J et al. Genome-wide eQTLs and heritability for gene expression traits in unrelated individuals. BMC Genomics 2014 Jan 9;15(1):13. PMID: 24405759
  • Klein HU, Schäfer M, Porse BT, Hasemann MS et al. Integrative analysis of histone ChIP-seq and transcription data using Bayesian mixture models. Bioinformatics 2014 Apr 15;30(8):1154-1162. PMID: 24403540
  • Court F, Tayama C, Romanelli V, Martin-Trujillo A et al. Genome-wide parent-of-origin DNA methylation analysis reveals the intricacies of human imprinting and suggests a germline methylation-independent mechanism of establishment. Genome Res 2014 Apr;24(4):554-69. PMID: 24402520
  • Wang H, Chung PJ, Liu J, Jang IC et al. Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis. Genome Res 2014 Mar;24(3):444-53. PMID: 24402519
  • McGuigan K, Collet JM, McGraw EA, Ye YH et al. The nature and extent of mutational pleiotropy in gene expression of male Drosophila serrata. Genetics 2014 Mar;196(3):911-21. PMID: 24402375
  • Mayr A, Schmid M et al. Boosting the concordance index for survival data--a unified framework to derive and evaluate biomarker combinations. PLoS One 2014;9(1):e84483. PMID: 24400093
  • Wang G, Yang E, Mandhan I, Brinkmeyer-Langford CL et al. Population-level expression variability of mitochondrial DNA-encoded genes in humans. Eur J Hum Genet 2014 Sep;22(9):1093-9. PMID: 24398800
  • Sharma M, Singh A, Shankar A, Pandey A et al. Comprehensive expression analysis of rice Armadillo gene family during abiotic stress and development. DNA Res 2014 Jun;21(3):267-83. PMID: 24398598
  • Tung CW, Wu MT, Chen YK, Wu CC et al. Identification of biomarkers for esophageal squamous cell carcinoma using feature selection and decision tree methods. ScientificWorldJournal 2013;2013:782031. PMID: 24396308
  • Tao Y, Zhang M, Li L, Bai Y et al. Pitx2, an atrial fibrillation predisposition gene, directly regulates ion transport and intercalated disc genes. Circ Cardiovasc Genet 2014 Feb;7(1):23-32. PMID: 24395921
  • Li C, Lee PS, Sun Y, Gu X et al. Estradiol and mTORC2 cooperate to enhance prostaglandin biosynthesis and tumorigenesis in TSC2-deficient LAM cells. J Exp Med 2014 Jan 13;211(1):15-28. PMID: 24395886
  • Abe M, Naqvi A, Hendriks GJ, Feltzin V et al. Impact of age-associated increase in 2'-O-methylation of miRNAs on aging and neurodegeneration in Drosophila. Genes Dev 2014 Jan 1;28(1):44-57. PMID: 24395246
  • Cerulo L, Tagliaferri D, Marotta P, Zoppoli P et al. Identification of a novel gene signature of ES cells self-renewal fluctuation through system-wide analysis. PLoS One 2014;9(1):e83235. PMID: 24392082
  • Alshalalfa M, Bader GD, Bismar TA, Alhajj R et al. Coordinate microRNA-mediated regulation of protein complexes in prostate cancer. PLoS One 2013;8(12):e84261. PMID: 24391925
  • Staiger C, Cadot S, Györffy B, Wessels LF et al. Current composite-feature classification methods do not outperform simple single-genes classifiers in breast cancer prognosis. Front Genet 2013;4:289. PMID: 24391662
  • Zou JX, Duan Z, Wang J, Sokolov A et al. Kinesin family deregulation coordinated by bromodomain protein ANCCA and histone methyltransferase MLL for breast cancer cell growth, survival, and tamoxifen resistance. Mol Cancer Res 2014 Apr;12(4):539-49. PMID: 24391143
  • Huang Q, Whitington T, Gao P, Lindberg JF et al. A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding. Nat Genet 2014 Feb;46(2):126-35. PMID: 24390282
  • Abid SN, Richardson TE, Powell HM, Jaichander P et al. A-single spermatogonia heterogeneity and cell cycles synchronize with rat seminiferous epithelium stages VIII-IX. Biol Reprod 2014 Feb;90(2):32. PMID: 24389876
  • Ahn EH, Kim Y, Kshitiz, An SS et al. Spatial control of adult stem cell fate using nanotopographic cues. Biomaterials 2014 Mar;35(8):2401-2410. PMID: 24388388
  • Quigley DA, Fiorito E, Nord S, Van Loo P et al. The 5p12 breast cancer susceptibility locus affects MRPS30 expression in estrogen-receptor positive tumors. Mol Oncol 2014 Mar;8(2):273-84. PMID: 24388359
  • Wiles ET, Bell R, Thomas D, Beckerle M et al. ZEB2 Represses the Epithelial Phenotype and Facilitates Metastasis in Ewing Sarcoma. Genes Cancer 2013 Nov;4(11-12):486-500. PMID: 24386509
  • van Gurp TP, McIntyre LM, Verhoeven KJ et al. Consistent errors in first strand cDNA due to random hexamer mispriming. PLoS One 2013;8(12):e85583. PMID: 24386481
  • Moehler TM, Seckinger A, Hose D, Andrulis M et al. The glycome of normal and malignant plasma cells. PLoS One 2013;8(12):e83719. PMID: 24386263
  • Xiao Y, Fan H, Zhang Y, Xing W et al. Systematic identification of core transcription factors mediating dysregulated links bridging inflammatory bowel diseases and colorectal cancer. PLoS One 2013;8(12):e83495. PMID: 24386215
  • Shimbo T, Du Y, Grimm SA, Dhasarathy A et al. MBD3 localizes at promoters, gene bodies and enhancers of active genes. PLoS Genet 2013;9(12):e1004028. PMID: 24385926
  • Li X, Peng S et al. Identification of metastasis-associated genes in colorectal cancer through an integrated genomic and transcriptomic analysis. Chin J Cancer Res 2013 Dec;25(6):623-36. PMID: 24385689
  • Frigyesi I, Adolfsson J, Ali M, Christophersen MK et al. Robust isolation of malignant plasma cells in multiple myeloma. Blood 2014 Feb 27;123(9):1336-40. PMID: 24385542
  • Hansen AG, Arnold SA, Jiang M, Palmer TD et al. ALCAM/CD166 is a TGF-β-responsive marker and functional regulator of prostate cancer metastasis to bone. Cancer Res 2014 Mar 1;74(5):1404-15. PMID: 24385212
  • Cao S, Han J, Wu J, Li Q et al. Specific gene-regulation networks during the pre-implantation development of the pig embryo as revealed by deep sequencing. BMC Genomics 2014 Jan 3;15(1):4. PMID: 24383959
  • Yamaguchi K, Huang Z, Matsumura N, Mandai M et al. Epigenetic determinants of ovarian clear cell carcinoma biology. Int J Cancer 2014 Aug 1;135(3):585-97. PMID: 24382740
  • Kagoya Y, Yoshimi A, Kataoka K, Nakagawa M et al. Positive feedback between NF-κB and TNF-α promotes leukemia-initiating cell capacity. J Clin Invest 2014 Feb;124(2):528-42. PMID: 24382349
  • Hou L, Chen M, Zhang CK, Cho J et al. Guilt by rewiring: gene prioritization through network rewiring in genome wide association studies. Hum Mol Genet 2014 May 15;23(10):2780-90. PMID: 24381306
  • Hancock ML, Preitner N, Quan J, Flanagan JG et al. MicroRNA-132 is enriched in developing axons, locally regulates Rasa1 mRNA, and promotes axon extension. J Neurosci 2014 Jan 1;34(1):66-78. PMID: 24381269
  • Lin H, Zhang T, Wu Y, Wang Y et al. Related genes and potential biomarkers for early diagnosis of Alzheimer's disease: a preliminary study based on DNA microarray. Am J Alzheimers Dis Other Demen 2014 Feb;29(1):90-5. PMID: 24381135
  • Choi D, Choi J, Kang B, Lee S et al. iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis. Mol Plant 2014 May;7(5):792-813. PMID: 24380880
  • de Matos Simoes R, Dehmer M, Emmert-Streib F et al. B-cell lymphoma gene regulatory networks: biological consistency among inference methods. Front Genet 2013;4:281. PMID: 24379827
  • Zhang S, Xu R, Gao Z, Chen C et al. A genome-wide analysis of the expansin genes in Malus × Domestica. Mol Genet Genomics 2014 Apr;289(2):225-36. PMID: 24378555
  • Bøgsted M, Bilgrau AE, Wardell CP, Bertsch U et al. Proof of the concept to use a malignant B cell line drug screen strategy for identification and weight of melphalan resistance genes in multiple myeloma. PLoS One 2013;8(12):e83252. PMID: 24376673
  • Chiang AW, Shaw GT, Hwang MJ et al. Partitioning the human transcriptome using HKera, a novel classifier of housekeeping and tissue-specific genes. PLoS One 2013;8(12):e83040. PMID: 24376628
  • Qin XY, Wei F, Tanokura M, Ishibashi N et al. The effect of acyclic retinoid on the metabolomic profiles of hepatocytes and hepatocellular carcinoma cells. PLoS One 2013;8(12):e82860. PMID: 24376596
  • Kaneko S, Bonasio R, Saldaña-Meyer R, Yoshida T et al. Interactions between JARID2 and noncoding RNAs regulate PRC2 recruitment to chromatin. Mol Cell 2014 Jan 23;53(2):290-300. PMID: 24374312
  • Prilutsky D, Palmer NP, Smedemark-Margulies N, Schlaeger TM et al. iPSC-derived neurons as a higher-throughput readout for autism: promises and pitfalls. Trends Mol Med 2014 Feb;20(2):91-104. PMID: 24374161
  • Chitturi N, Balagannavar G, Chandrashekar DS, Abinaya S et al. TIPMaP: a web server to establish transcript isoform profiles from reliable microarray probes. BMC Genomics 2013 Dec 27;14:922. PMID: 24373374
  • Zhang F, Deng Y, Drabier R et al. Multiple biomarker panels for early detection of breast cancer in peripheral blood. Biomed Res Int 2013;2013:781618. PMID: 24371830
  • Dose M, Emmanuel AO, Chaumeil J, Zhang J et al. β-Catenin induces T-cell transformation by promoting genomic instability. Proc Natl Acad Sci U S A 2014 Jan 7;111(1):391-6. PMID: 24371308
  • Gustems M, Woellmer A, Rothbauer U, Eck SH et al. c-Jun/c-Fos heterodimers regulate cellular genes via a newly identified class of methylated DNA sequence motifs. Nucleic Acids Res 2014 Mar;42(5):3059-72. PMID: 24371273
  • Wu DD, Zhang F, Hao F, Chun J et al. Matricellular protein Cyr61 bridges lysophosphatidic acid and integrin pathways leading to cell migration. J Biol Chem 2014 Feb 28;289(9):5774-83. PMID: 24371135
  • Dunican DS, Cruickshanks HA, Suzuki M, Semple CA et al. Lsh regulates LTR retrotransposon repression independently of Dnmt3b function. Genome Biol 2013 Dec 24;14(12):R146. PMID: 24367978
  • Bethke G, Grundman RE, Sreekanta S, Truman W et al. Arabidopsis PECTIN METHYLESTERASEs contribute to immunity against Pseudomonas syringae. Plant Physiol 2014 Feb;164(2):1093-107. PMID: 24367018
  • Ohlsson E, Hasemann MS, Willer A, Lauridsen FK et al. Initiation of MLL-rearranged AML is dependent on C/EBPα. J Exp Med 2014 Jan 13;211(1):5-13. PMID: 24367003
  • Huang H, Chen J, Liu H, Sun X et al. The nucleosome regulates the usage of polyadenylation sites in the human genome. BMC Genomics 2013 Dec 23;14:912. PMID: 24365105
  • Hu Y, Liu Y, Mao X, Jia C et al. PennSeq: accurate isoform-specific gene expression quantification in RNA-Seq by modeling non-uniform read distribution. Nucleic Acids Res 2014 Feb;42(3):e20. PMID: 24362841
  • Verbeke TJ, Spicer V, Krokhin OV, Zhang X et al. Thermoanaerobacter thermohydrosulfuricus WC1 shows protein complement stability during fermentation of key lignocellulose-derived substrates. Appl Environ Microbiol 2014 Mar;80(5):1602-15. PMID: 24362431
  • Romero OA, Torres-Diz M, Pros E, Savola S et al. MAX inactivation in small cell lung cancer disrupts MYC-SWI/SNF programs and is synthetic lethal with BRG1. Cancer Discov 2014 Mar;4(3):292-303. PMID: 24362264
  • Li Q, Eichten SR, Hermanson PJ, Springer NM et al. Inheritance patterns and stability of DNA methylation variation in maize near-isogenic lines. Genetics 2014 Mar;196(3):667-76. PMID: 24361940
  • Chalmey C, Giton F, Chalmel F, Fiet J et al. Systemic compensatory response to neonatal estradiol exposure does not prevent depletion of the oocyte pool in the rat. PLoS One 2013;8(12):e82175. PMID: 24358151
  • Chen D, Fu LY, Zhang Z, Li G et al. Dissecting the chromatin interactome of microRNA genes. Nucleic Acids Res 2014 Mar;42(5):3028-43. PMID: 24357409
  • Sota Y, Naoi Y, Tsunashima R, Kagara N et al. Construction of novel immune-related signature for prediction of pathological complete response to neoadjuvant chemotherapy in human breast cancer. Ann Oncol 2014 Jan;25(1):100-6. PMID: 24356621
  • Williams JW, Tjota MY, Clay BS, Vander Lugt B et al. Transcription factor IRF4 drives dendritic cells to promote Th2 differentiation. Nat Commun 2013;4:2990. PMID: 24356538
  • Meng F, Dai E, Yu X, Zhang Y et al. Constructing and characterizing a bioactive small molecule and microRNA association network for Alzheimer's disease. J R Soc Interface 2014 Mar 6;11(92):20131057. PMID: 24352679
  • Hong G, Zhang W, Li H, Shen X et al. Separate enrichment analysis of pathways for up- and downregulated genes. J R Soc Interface 2014 Mar 6;11(92):20130950. PMID: 24352673
  • Maver A, Hristovski D, Rindflesch TC, Peterlin B et al. Integration of data from omic studies with the literature-based discovery towards identification of novel treatments for neovascularization in diabetic retinopathy. Biomed Res Int 2013;2013:848952. PMID: 24350292
  • Abu-Asab MS, Salazar J, Tuo J, Chan CC et al. Systems Biology Profiling of AMD on the Basis of Gene Expression. J Ophthalmol 2013;2013:453934. PMID: 24349763
  • Elo LL, Schwikowski B et al. Analysis of time-resolved gene expression measurements across individuals. PLoS One 2013;8(12):e82340. PMID: 24349258
  • Lee U, Frankenberger C, Yun J, Bevilacqua E et al. A prognostic gene signature for metastasis-free survival of triple negative breast cancer patients. PLoS One 2013;8(12):e82125. PMID: 24349199
  • Kikuchi M, Ogishima S, Miyamoto T, Miyashita A et al. Identification of unstable network modules reveals disease modules associated with the progression of Alzheimer's disease. PLoS One 2013;8(11):e76162. PMID: 24348898
  • Marinov GK, Kundaje A, Park PJ, Wold BJ et al. Large-scale quality analysis of published ChIP-seq data. G3 (Bethesda) 2014 Feb 19;4(2):209-23. PMID: 24347632
  • Bazak L, Haviv A, Barak M, Jacob-Hirsch J et al. A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes. Genome Res 2014 Mar;24(3):365-76. PMID: 24347612
  • Santiago JA, Potashkin JA et al. A network approach to diagnostic biomarkers in progressive supranuclear palsy. Mov Disord 2014 Apr;29(4):550-5. PMID: 24347522
  • Shibata Y, Sawa H, Nishiwaki K et al. HTZ-1/H2A.z and MYS-1/MYST HAT act redundantly to maintain cell fates in somatic gonadal cells through repression of ceh-22 in C. elegans. Development 2014 Jan;141(1):209-18. PMID: 24346701
  • Christgen M, Geffers R, Kreipe H, Lehmann U et al. IPH-926 lobular breast cancer cells are triple-negative but their microarray profile uncovers a luminal subtype. Cancer Sci 2013 Dec;104(12):1726-30. PMID: 24344720
  • Miyazaki FA, Guardia GD, Vêncio RZ, de Farias CR et al. Semantic integration of gene expression analysis tools and data sources using software connectors. BMC Genomics 2013 Oct 25;14 Suppl 6(Suppl 6):S2. PMID: 24341380
  • Jiang K, Li Y, Cao GY, Liu D et al. Screening of genes related with intervertebral disc disease by dynamic differential interaction network analysis. Eur Rev Med Pharmacol Sci 2013 Dec;17(23):3186-91. PMID: 24338460
  • Kuang ZM, Huang ZJ, Li Y, Yang GP et al. Revealing the contribution of Cytochrome P450 to salt-sensitive hypertension using DNA microarray. Eur Rev Med Pharmacol Sci 2013 Dec;17(23):3148-56. PMID: 24338455
  • Huck B, Duss S, Hausser A, Olayioye MA et al. Elevated protein kinase D3 (PKD3) expression supports proliferation of triple-negative breast cancer cells and contributes to mTORC1-S6K1 pathway activation. J Biol Chem 2014 Feb 7;289(6):3138-47. PMID: 24337579
  • Krämer A, Green J, Pollard J Jr, Tugendreich S et al. Causal analysis approaches in Ingenuity Pathway Analysis. Bioinformatics 2014 Feb 15;30(4):523-30. PMID: 24336805
  • Harding SA, Xue LJ, Du L, Nyamdari B et al. Condensed tannin biosynthesis and polymerization synergistically condition carbon use, defense, sink strength and growth in Populus. Tree Physiol 2014 Nov;34(11):1240-51. PMID: 24336515
  • Li A, Jiao Y, Yong KJ, Wang F et al. SALL4 is a new target in endometrial cancer. Oncogene 2015 Jan 2;34(1):63-72. PMID: 24336327
  • Li S, Rouphael N, Duraisingham S, Romero-Steiner S et al. Molecular signatures of antibody responses derived from a systems biology study of five human vaccines. Nat Immunol 2014 Feb;15(2):195-204. PMID: 24336226
  • Cruchaga C, Karch CM, Jin SC, Benitez BA et al. Rare coding variants in the phospholipase D3 gene confer risk for Alzheimer's disease. Nature 2014 Jan 23;505(7484):550-554. PMID: 24336208
  • Barbieri E, De Preter K, Capasso M, Chen Z et al. Histone chaperone CHAF1A inhibits differentiation and promotes aggressive neuroblastoma. Cancer Res 2014 Feb 1;74(3):765-74. PMID: 24335960
  • Okashita N, Kumaki Y, Ebi K, Nishi M et al. PRDM14 promotes active DNA demethylation through the ten-eleven translocation (TET)-mediated base excision repair pathway in embryonic stem cells. Development 2014 Jan;141(2):269-80. PMID: 24335252
  • Loizeau K, Qu Y, Depp S, Fiechter V et al. Small RNAs reveal two target sites of the RNA-maturation factor Mbb1 in the chloroplast of Chlamydomonas. Nucleic Acids Res 2014 Mar;42(5):3286-97. PMID: 24335082
  • Iorio F, Saez-Rodriguez J, di Bernardo D et al. Network based elucidation of drug response: from modulators to targets. BMC Syst Biol 2013 Dec 13;7:139. PMID: 24330611
  • Jaffe AE, Storey JD, Ji H, Leek JT et al. Gene set bagging for estimating the probability a statistically significant result will replicate. BMC Bioinformatics 2013 Dec 12;14:360. PMID: 24330332
  • Lowe R, Rakyan VK et al. Marmal-aid--a database for Infinium HumanMethylation450. BMC Bioinformatics 2013 Dec 12;14:359. PMID: 24330312
  • Li J, Wei H, Zhao PX et al. DeGNServer: deciphering genome-scale gene networks through high performance reverse engineering analysis. Biomed Res Int 2013;2013:856325. PMID: 24328032
  • Chen F, Fasoli M, Tornielli GB, Dal Santo S et al. The evolutionary history and diverse physiological roles of the grapevine calcium-dependent protein kinase gene family. PLoS One 2013;8(12):e80818. PMID: 24324631
  • Wang J, Liang Y, Wang Y, Cui J et al. Computational prediction of human salivary proteins from blood circulation and application to diagnostic biomarker identification. PLoS One 2013;8(11):e80211. PMID: 24324552
  • Chen Y, Yang J, Wang Z, Zhang H et al. Gene structures, classification, and expression models of the DREB transcription factor subfamily in Populus trichocarpa. ScientificWorldJournal 2013;2013:954640. PMID: 24324388
  • Qazi S, Uckun FM et al. Incidence and biological significance of IKZF1/Ikaros gene deletions in pediatric Philadelphia chromosome negative and Philadelphia chromosome positive B-cell precursor acute lymphoblastic leukemia. Haematologica 2013 Dec;98(12):e151-2. PMID: 24323986
  • Lecourieux F, Kappel C, Lecourieux D, Serrano A et al. An update on sugar transport and signalling in grapevine. J Exp Bot 2014 Mar;65(3):821-32. PMID: 24323501
  • Faraji F, Hu Y, Wu G, Goldberger NE et al. An integrated systems genetics screen reveals the transcriptional structure of inherited predisposition to metastatic disease. Genome Res 2014 Feb;24(2):227-40. PMID: 24322557
  • Peng CH, Jiang YZ, Tai AS, Liu CB et al. Causal inference of gene regulation with subnetwork assembly from genetical genomics data. Nucleic Acids Res 2014 Mar;42(5):2803-19. PMID: 24322297
  • Ding J, Hu H, Li X et al. SIOMICS: a novel approach for systematic identification of motifs in ChIP-seq data. Nucleic Acids Res 2014 Mar;42(5):e35. PMID: 24322294
  • Zhang C, Zhang S, Zhang Z, He J et al. ROCK has a crucial role in regulating prostate tumor growth through interaction with c-Myc. Oncogene 2014 Dec 4;33(49):5582-91. PMID: 24317511
  • Sulahian R, Casey F, Shen J, Qian ZR et al. An integrative analysis reveals functional targets of GATA6 transcriptional regulation in gastric cancer. Oncogene 2014 Dec 4;33(49):5637-48. PMID: 24317510
  • Milunovic B, diCenzo GC, Morton RA, Finan TM et al. Cell growth inhibition upon deletion of four toxin-antitoxin loci from the megaplasmids of Sinorhizobium meliloti. J Bacteriol 2014 Feb;196(4):811-24. PMID: 24317400
  • Bard-Chapeau EA, Nguyen AT, Rust AG, Sayadi A et al. Transposon mutagenesis identifies genes driving hepatocellular carcinoma in a chronic hepatitis B mouse model. Nat Genet 2014 Jan;46(1):24-32. PMID: 24316982
  • Brignull LM, Czimmerer Z, Saidi H, Daniel B et al. Reprogramming of lysosomal gene expression by interleukin-4 and Stat6. BMC Genomics 2013 Dec 5;14:853. PMID: 24314139
  • Bastani M, Vos L, Asgarian N, Deschenes J et al. A machine learned classifier that uses gene expression data to accurately predict estrogen receptor status. PLoS One 2013;8(12):e82144. PMID: 24312637
  • Farris SP, Miles MF et al. Fyn-dependent gene networks in acute ethanol sensitivity. PLoS One 2013;8(11):e82435. PMID: 24312422
  • Lim X, Tan SH, Koh WL, Chau RM et al. Interfollicular epidermal stem cells self-renew via autocrine Wnt signaling. Science 2013 Dec 6;342(6163):1226-30. PMID: 24311688
  • Ludewig AH, Klapper M, Döring F et al. Identifying evolutionarily conserved genes in the dietary restriction response using bioinformatics and subsequent testing in Caenorhabditis elegans. Genes Nutr 2014 Jan;9(1):363. PMID: 24311442
  • Ghosh S, Baloni P, Mukherjee S, Anand P et al. A multi-level multi-scale approach to study essential genes in Mycobacterium tuberculosis. BMC Syst Biol 2013 Dec 5;7:132. PMID: 24308365
  • Suresh S, McCallum L, Crawford LJ, Lu WH et al. The matricellular protein CCN3 regulates NOTCH1 signalling in chronic myeloid leukaemia. J Pathol 2013 Nov;231(3):378-87. PMID: 24308033
  • Suo C, Calza S, Salim A, Pawitan Y et al. Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data. Bioinformatics 2014 Feb 15;30(4):506-13. PMID: 24307704
  • Eveland AL, Goldshmidt A, Pautler M, Morohashi K et al. Regulatory modules controlling maize inflorescence architecture. Genome Res 2014 Mar;24(3):431-43. PMID: 24307553
  • Chukkapalli S, Amessou M, Dekhil H, Dilly AK et al. Ehd3, a regulator of vesicular trafficking, is silenced in gliomas and functions as a tumor suppressor by controlling cell cycle arrest and apoptosis. Carcinogenesis 2014 Apr;35(4):877-85. PMID: 24306026
  • Kegelman TP, Das SK, Hu B, Bacolod MD et al. MDA-9/syntenin is a key regulator of glioma pathogenesis. Neuro Oncol 2014 Jan;16(1):50-61. PMID: 24305713
  • Gao L, Zhao G, Fang JS, Yuan TY et al. Discovery of the neuroprotective effects of alvespimycin by computational prioritization of potential anti-Parkinson agents. FEBS J 2014 Feb;281(4):1110-22. PMID: 24304935
  • Stachelscheid H, Seltmann S, Lekschas F, Fontaine JF et al. CellFinder: a cell data repository. Nucleic Acids Res 2014 Jan;42(Database issue):D950-8. PMID: 24304896
  • Hsu SD, Tseng YT, Shrestha S, Lin YL et al. miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. Nucleic Acids Res 2014 Jan;42(Database issue):D78-85. PMID: 24304892
  • Allison KA, Kaikkonen MU, Gaasterland T, Glass CK et al. Vespucci: a system for building annotated databases of nascent transcripts. Nucleic Acids Res 2014 Feb;42(4):2433-47. PMID: 24304890
  • Planey CR, Butte AJ et al. Database integration of 4923 publicly-available samples of breast cancer molecular and clinical data. AMIA Jt Summits Transl Sci Proc 2013;2013:138-42. PMID: 24303324
  • Tzeng DT, Tseng YT, Ung M, Liao IE et al. DPRP: a database of phenotype-specific regulatory programs derived from transcription factor binding data. Nucleic Acids Res 2014 Jan;42(Database issue):D178-83. PMID: 24302579
  • Ni T, Wang N, Mao ZG, Yao M et al. Identification of marker genes in diabetic wounds by DNA microarray study. Genet Mol Res 2013 Nov 7;12(4):5348-55. PMID: 24301906
  • Erdreich-Epstein A, Robison N, Ren X, Zhou H et al. PID1 (NYGGF4), a new growth-inhibitory gene in embryonal brain tumors and gliomas. Clin Cancer Res 2014 Feb 15;20(4):827-36. PMID: 24300787
  • Bandopadhayay P, Bergthold G, Nguyen B, Schubert S et al. BET bromodomain inhibition of MYC-amplified medulloblastoma. Clin Cancer Res 2014 Feb 15;20(4):912-25. PMID: 24297863
  • Mimoso C, Lee DD, Zavadil J, Tomic-Canic M et al. Analysis and meta-analysis of transcriptional profiling in human epidermis. Methods Mol Biol 2014;1195:61-97. PMID: 24297317
  • Li JH, Liu S, Zhou H, Qu LH et al. starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data. Nucleic Acids Res 2014 Jan;42(Database issue):D92-7. PMID: 24297251
  • Chavez-Macgregor M, Liu S, De Melo-Gagliato D, Chen H et al. Differences in gene and protein expression and the effects of race/ethnicity on breast cancer subtypes. Cancer Epidemiol Biomarkers Prev 2014 Feb;23(2):316-23. PMID: 24296856
  • Bonifaci N, Colas E, Serra-Musach J, Karbalai N et al. Integrating gene expression and epidemiological data for the discovery of genetic interactions associated with cancer risk. Carcinogenesis 2014 Mar;35(3):578-85. PMID: 24296589
  • Kurtenbach S, Kurtenbach S, Zoidl G et al. Array data extractor (ADE): a LabVIEW program to extract and merge gene array data. BMC Res Notes 2013 Dec 1;6:496. PMID: 24289243
  • Rube HT, Song JS et al. Quantifying the role of steric constraints in nucleosome positioning. Nucleic Acids Res 2014 Feb;42(4):2147-58. PMID: 24288372
  • Engel BE, Welsh E, Emmons MF, Santiago-Cardona PG et al. Expression of integrin alpha 10 is transcriptionally activated by pRb in mouse osteoblasts and is downregulated in multiple solid tumors. Cell Death Dis 2013 Nov 28;4(11):e938. PMID: 24287699
  • Yu Z, Wang L, Wang C, Ju X et al. Cyclin D1 induction of Dicer governs microRNA processing and expression in breast cancer. Nat Commun 2013;4:2812. PMID: 24287487
  • Xu Z, Taylor JA et al. Genome-wide age-related DNA methylation changes in blood and other tissues relate to histone modification, expression and cancer. Carcinogenesis 2014 Feb;35(2):356-64. PMID: 24287154
  • Wang W, Deng Z, Hatcher H, Miller LD et al. IRP2 regulates breast tumor growth. Cancer Res 2014 Jan 15;74(2):497-507. PMID: 24285726
  • Yalamanchili HK, Yan B, Li MJ, Qin J et al. DDGni: dynamic delay gene-network inference from high-temporal data using gapped local alignment. Bioinformatics 2014 Feb 1;30(3):377-83. PMID: 24285602
  • Xu C, Chen H, Wang X, Gao J et al. S100A14, a member of the EF-hand calcium-binding proteins, is overexpressed in breast cancer and acts as a modulator of HER2 signaling. J Biol Chem 2014 Jan 10;289(2):827-37. PMID: 24285542
  • Hu JC, Sherlock G, Siegele DA, Aleksander SA et al. PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools. Nucleic Acids Res 2014 Jan;42(Database issue):D677-84. PMID: 24285306
  • Chen L, Qu X, Cao M, Zhou Y et al. Identification of breast cancer patients based on human signaling network motifs. Sci Rep 2013 Nov 28;3:3368. PMID: 24284521
  • Kojima S, Enokida H, Yoshino H, Itesako T et al. The tumor-suppressive microRNA-143/145 cluster inhibits cell migration and invasion by targeting GOLM1 in prostate cancer. J Hum Genet 2014 Feb;59(2):78-87. PMID: 24284362
  • Wang F, Guo Y, Chen Q, Yang Z et al. Stem cell factor SALL4, a potential prognostic marker for myelodysplastic syndromes. J Hematol Oncol 2013 Sep 26;6(1):73. PMID: 24283704
  • Slee RB, Grimes BR, Bansal R, Gore J et al. Selective inhibition of pancreatic ductal adenocarcinoma cell growth by the mitotic MPS1 kinase inhibitor NMS-P715. Mol Cancer Ther 2014 Feb;13(2):307-315. PMID: 24282275
  • Tabuchi TM, Rechtsteiner A, Strome S, Hagstrom KA et al. Opposing activities of DRM and MES-4 tune gene expression and X-chromosome repression in Caenorhabditis elegans germ cells. G3 (Bethesda) 2014 Jan 10;4(1):143-53. PMID: 24281426
  • Meng Y, Shao C, Ma X, Wang H et al. Introns targeted by plant microRNAs: a possible novel mechanism of gene regulation. Rice (N Y) 2013 Apr 15;6(1):8. PMID: 24280590
  • Jung KH, Gho HJ, Giong HK, Chandran AK et al. Genome-wide identification and analysis of Japonica and Indica cultivar-preferred transcripts in rice using 983 Affymetrix array data. Rice (N Y) 2013 Aug 10;6(1):19. PMID: 24280533
  • Huang YC, Huang WL, Hong CY, Lur HS et al. Comprehensive analysis of differentially expressed rice actin depolymerizing factor gene family and heterologous overexpression of OsADF3 confers Arabidopsis Thaliana drought tolerance. Rice (N Y) 2012 Nov 27;5(1):33. PMID: 24279948
  • Cao P, Jung KH, Choi D, Hwang D et al. The Rice Oligonucleotide Array Database: an atlas of rice gene expression. Rice (N Y) 2012 Jul 19;5(1):17. PMID: 24279809
  • Uckun FM, Ma H, Ishkhanian R, Arellano M et al. Constitutive function of the Ikaros transcription factor in primary leukemia cells from pediatric newly diagnosed high-risk and relapsed B-precursor ALL patients. PLoS One 2013;8(11):e80732. PMID: 24278314
  • Kang K, Yamaji D, Yoo KH, Robinson GW et al. Mammary-specific gene activation is defined by progressive recruitment of STAT5 during pregnancy and the establishment of H3K4me3 marks. Mol Cell Biol 2014 Feb;34(3):464-73. PMID: 24277936
  • Kozomara A, Griffiths-Jones S et al. miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res 2014 Jan;42(Database issue):D68-73. PMID: 24275495
  • Zhao H, Anand AR, Ganju RK et al. Slit2-Robo4 pathway modulates lipopolysaccharide-induced endothelial inflammation and its expression is dysregulated during endotoxemia. J Immunol 2014 Jan 1;192(1):385-93. PMID: 24272999
  • Simon M, Chang RC, Bali DS, Wong LJ et al. Abnormalities in glycogen metabolism in a patient with alpers' syndrome presenting with hypoglycemia. JIMD Rep 2014;14:29-35. PMID: 24272679
  • Font-Burgada J, Reina O, Rossell D, Azorín F et al. chroGPS, a global chromatin positioning system for the functional analysis and visualization of the epigenome. Nucleic Acids Res 2014 Feb;42(4):2126-37. PMID: 24271395
  • McCall MN, Jaffee HA, Zelisko SJ, Sinha N et al. The Gene Expression Barcode 3.0: improved data processing and mining tools. Nucleic Acids Res 2014 Jan;42(Database issue):D938-43. PMID: 24271388
  • Musiek ES, Lim MM, Yang G, Bauer AQ et al. Circadian clock proteins regulate neuronal redox homeostasis and neurodegeneration. J Clin Invest 2013 Dec;123(12):5389-400. PMID: 24270424
  • Caberlotto L, Lauria M, Nguyen TP, Scotti M et al. The central role of AMP-kinase and energy homeostasis impairment in Alzheimer's disease: a multifactor network analysis. PLoS One 2013;8(11):e78919. PMID: 24265728
  • Jones A, Teschendorff AE, Li Q, Hayward JD et al. Role of DNA methylation and epigenetic silencing of HAND2 in endometrial cancer development. PLoS Med 2013 Nov;10(11):e1001551. PMID: 24265601
  • Yang H, Lin S, Cui J et al. Identifying arsenic trioxide (ATO) functions in leukemia cells by using time series gene expression profiles. Gene 2014 Feb 10;535(2):312-7. PMID: 24262935
  • Tian S, Suárez-Fariñas M et al. Multi-TGDR: a regularization method for multi-class classification in microarray experiments. PLoS One 2013;8(11):e78302. PMID: 24260109
  • Kerr GE, Young JC, Horvay K, Abud HE et al. Regulated Wnt/beta-catenin signaling sustains adult spermatogenesis in mice. Biol Reprod 2014 Jan;90(1):3. PMID: 24258210
  • Gao L, Gao H, Zhou H, Xu Y et al. Gene expression profiling analysis of the putamen for the investigation of compensatory mechanisms in Parkinson's disease. BMC Neurol 2013 Nov 20;13:181. PMID: 24256571
  • Rubin AF, Green P et al. Expression-based segmentation of the Drosophila genome. BMC Genomics 2013 Nov 20;14:812. PMID: 24256206
  • Wang Y, Yao X, Li SN, Suo AL et al. Detection of prostate cancer related copy number variations with SNP genotyping array. Eur Rev Med Pharmacol Sci 2013 Nov;17(21):2916-22. PMID: 24254561
  • Xu HZ, Wang MT, Mei B, Wang JL et al. Comparative gene expression profiling reveals key pathways in septic skeletal muscle. Eur Rev Med Pharmacol Sci 2013 Nov;17(21):2867-73. PMID: 24254554
  • Wang Q, Huang J, Sun H, Liu J et al. CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. Nucleic Acids Res 2014 Jan;42(Database issue):D450-8. PMID: 24253304
  • Gökmen MR, Dong R, Kanhere A, Powell N et al. Genome-wide regulatory analysis reveals that T-bet controls Th17 lineage differentiation through direct suppression of IRF4. J Immunol 2013 Dec 15;191(12):5925-32. PMID: 24249732
  • Song C, Chiasson MA, Nursimulu N, Hung SS et al. Metabolic reconstruction identifies strain-specific regulation of virulence in Toxoplasma gondii. Mol Syst Biol 2013 Nov 19;9:708. PMID: 24247825
  • Koritzinsky M, Levitin F, van den Beucken T, Rumantir RA et al. Two phases of disulfide bond formation have differing requirements for oxygen. J Cell Biol 2013 Nov 25;203(4):615-27. PMID: 24247433
  • Nikas JBInflammation and immune system activation in aging: a mathematical approach. Sci Rep 2013 Nov 19;3:3254. PMID: 24247109
  • Csaszar E, Wang W, Usenko T, Qiao W et al. Blood stem cell fate regulation by Delta-1-mediated rewiring of IL-6 paracrine signaling. Blood 2014 Jan 30;123(5):650-8. PMID: 24243972
  • Gruber AR, Martin G, Keller W, Zavolan M et al. Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Wiley Interdiscip Rev RNA 2014 Mar-Apr;5(2):183-96. PMID: 24243805
  • Blum JM, Añó L, Li Z, Van Mater D et al. Distinct and overlapping sarcoma subtypes initiated from muscle stem and progenitor cells. Cell Rep 2013 Nov 27;5(4):933-40. PMID: 24239359
  • Kong B, Yang T, Chen L, Kuang YQ et al. Protein-protein interaction network analysis and gene set enrichment analysis in epilepsy patients with brain cancer. J Clin Neurosci 2014 Feb;21(2):316-9. PMID: 24239228
  • Zhong S, He X, Bar-Joseph Z et al. Predicting tissue specific transcription factor binding sites. BMC Genomics 2013 Nov 15;14:796. PMID: 24238150
  • Patel N, Varghese J, Masaratana P, Latunde-Dada GO et al. The transcription factor ATOH8 is regulated by erythropoietic activity and regulates HAMP transcription and cellular pSMAD1,5,8 levels. Br J Haematol 2014 Feb;164(4):586-96. PMID: 24236640
  • Dehmer M, Mueller LA, Emmert-Streib F et al. Quantitative network measures as biomarkers for classifying prostate cancer disease states: a systems approach to diagnostic biomarkers. PLoS One 2013;8(11):e77602. PMID: 24236006
  • Spengler RM, Oakley CK, Davidson BL et al. Functional microRNAs and target sites are created by lineage-specific transposition. Hum Mol Genet 2014 Apr 1;23(7):1783-93. PMID: 24234653
  • Ngondo RP, Carbon P et al. Transcription factor abundance controlled by an auto-regulatory mechanism involving a transcription start site switch. Nucleic Acids Res 2014 Feb;42(4):2171-84. PMID: 24234445
  • Lai X, Blazer-Yost BL, Clack JW, Fears SL et al. Protein expression profiles of intestinal epithelial co-cultures: effect of functionalised carbon nanotube exposure. Int J Biomed Nanosci Nanotechnol 2013;3(1-2). PMID: 24228069
  • van Boerdonk RA, Daniels JM, Snijders PJ, Grünberg K et al. DNA copy number aberrations in endobronchial lesions: a validated predictor for cancer. Thorax 2014 May;69(5):451-7. PMID: 24227199
  • Cai H, Kumar N, Ai N, Gupta S et al. Progenetix: 12 years of oncogenomic data curation. Nucleic Acids Res 2014 Jan;42(Database issue):D1055-62. PMID: 24225322
  • Al-Mulla F, Bitar MS, Thiery JP, Zea TT et al. Clinical implications for loss or diminution of expression of Raf-1 kinase inhibitory protein and its phosphorylated form in ductal breast cancer. Am J Cancer Res 2013;3(5):446-64. PMID: 24224123
  • Nelson RM, Pettersson ME, Li X, Carlborg Ö et al. Variance heterogeneity in Saccharomyces cerevisiae expression data: trans-regulation and epistasis. PLoS One 2013;8(11):e79507. PMID: 24223957
  • Hao R, Bondesson M, Singh AV, Riu A et al. Identification of estrogen target genes during zebrafish embryonic development through transcriptomic analysis. PLoS One 2013;8(11):e79020. PMID: 24223173
  • Benso A, Cornale P, Di Carlo S, Politano G et al. Reducing the complexity of complex gene coexpression networks by coupling multiweighted labeling with topological analysis. Biomed Res Int 2013;2013:676328. PMID: 24222912
  • Palmer TD, Martínez CH, Vasquez C, Hebron KE et al. Integrin-free tetraspanin CD151 can inhibit tumor cell motility upon clustering and is a clinical indicator of prostate cancer progression. Cancer Res 2014 Jan 1;74(1):173-87. PMID: 24220242
  • Tejera E, Bernardes J, Rebelo I et al. Co-expression network analysis and genetic algorithms for gene prioritization in preeclampsia. BMC Med Genomics 2013 Nov 12;6:51. PMID: 24219996
  • Ingram WJ, Crowther LM, Little EB, Freeman R et al. ABC transporter activity linked to radiation resistance and molecular subtype in pediatric medulloblastoma. Exp Hematol Oncol 2013 Oct 4;2(1):26. PMID: 24219920
  • Wan SM, Peng P, Guan T et al. Ets-1 regulates its target genes mainly by DNA methylation in human ovarian cancer. J Obstet Gynaecol 2013 Nov;33(8):877-81. PMID: 24219734
  • Burke RM, Norman TA, Haydar TF, Slack BE et al. BMP9 ameliorates amyloidosis and the cholinergic defect in a mouse model of Alzheimer's disease. Proc Natl Acad Sci U S A 2013 Nov 26;110(48):19567-72. PMID: 24218590
  • Cheon DJ, Tong Y, Sim MS, Dering J et al. A collagen-remodeling gene signature regulated by TGF-β signaling is associated with metastasis and poor survival in serous ovarian cancer. Clin Cancer Res 2014 Feb 1;20(3):711-23. PMID: 24218511
  • Marzec M, Halasa K, Liu X, Wang HY et al. Malignant transformation of CD4+ T lymphocytes mediated by oncogenic kinase NPM/ALK recapitulates IL-2-induced cell signaling and gene expression reprogramming. J Immunol 2013 Dec 15;191(12):6200-7. PMID: 24218456
  • Kanzleiter T, Rath M, Penkov D, Puchkov D et al. Pknox1/Prep1 regulates mitochondrial oxidative phosphorylation components in skeletal muscle. Mol Cell Biol 2014 Jan;34(2):290-8. PMID: 24216763
  • Hart T, Komori HK, LaMere S, Podshivalova K et al. Finding the active genes in deep RNA-seq gene expression studies. BMC Genomics 2013 Nov 11;14:778. PMID: 24215113
  • Isci S, Dogan H, Ozturk C, Otu HH et al. Bayesian network prior: network analysis of biological data using external knowledge. Bioinformatics 2014 Mar 15;30(6):860-7. PMID: 24215027
  • Rogé X, Zhang X et al. RNAseqViewer: visualization tool for RNA-Seq data. Bioinformatics 2014 Mar 15;30(6):891-2. PMID: 24215023
  • Thomson JP, Hunter JM, Nestor CE, Dunican DS et al. Comparative analysis of affinity-based 5-hydroxymethylation enrichment techniques. Nucleic Acids Res 2013 Dec;41(22):e206. PMID: 24214958
  • Siatkowski M, Liebscher V, Fuellen G et al. CellFateScout - a bioinformatics tool for elucidating small molecule signaling pathways that drive cells in a specific direction. Cell Commun Signal 2013 Nov 8;11:85. PMID: 24206562
  • Peng C, Wang M, Shen Y, Feng H et al. Reconstruction and analysis of transcription factor-miRNA co-regulatory feed-forward loops in human cancers using filter-wrapper feature selection. PLoS One 2013;8(10):e78197. PMID: 24205155
  • Brown CE, Warden CD, Starr R, Deng X et al. Glioma IL13Rα2 is associated with mesenchymal signature gene expression and poor patient prognosis. PLoS One 2013;8(10):e77769. PMID: 24204956
  • Li ZH, Xu H, Zheng W, Lam SH et al. RNA-sequencing analysis of TCDD-induced responses in zebrafish liver reveals high relatedness to in vivo mammalian models and conserved biological pathways. PLoS One 2013;8(10):e77292. PMID: 24204792
  • Zhang JX, Han L, Bao ZS, Wang YY et al. HOTAIR, a cell cycle-associated long noncoding RNA and a strong predictor of survival, is preferentially expressed in classical and mesenchymal glioma. Neuro Oncol 2013 Dec;15(12):1595-603. PMID: 24203894
  • Montagner A, Delgado MB, Tallichet-Blanc C, Chan JS et al. Src is activated by the nuclear receptor peroxisome proliferator-activated receptor β/δ in ultraviolet radiation-induced skin cancer. EMBO Mol Med 2014 Jan;6(1):80-98. PMID: 24203162
  • Williams GSPIEDw: a searchable platform-independent expression database web tool. BMC Genomics 2013 Nov 7;14(1):765. PMID: 24199845
  • Johnson KC, Koestler DC, Cheng C, Christensen BC et al. Age-related DNA methylation in normal breast tissue and its relationship with invasive breast tumor methylation. Epigenetics 2014 Feb;9(2):268-75. PMID: 24196486
  • Liu LY, Yang T, Ji J, Wen Q et al. Integrating multiple 'omics' analyses identifies serological protein biomarkers for preeclampsia. BMC Med 2013 Nov 6;11:236. PMID: 24195779
  • Korrodi-Gregório L, Abrantes J, Muller T, Melo-Ferreira J et al. Not so pseudo: the evolutionary history of protein phosphatase 1 regulatory subunit 2 and related pseudogenes. BMC Evol Biol 2013 Nov 6;13:242. PMID: 24195737
  • Liu AY, Cai Y, Mao Y, Lin Y et al. Twist2 promotes self-renewal of liver cancer stem-like cells by regulating CD24. Carcinogenesis 2014 Mar;35(3):537-45. PMID: 24193512
  • Hu P, Shen Z, Tu H, Zhang L et al. Integrating multiple resources to identify specific transcriptional cooperativity with a Bayesian approach. Bioinformatics 2014 Mar 15;30(6):823-30. PMID: 24192543
  • An HB, Zheng HC, Zhang L, Ma L et al. Partial least squares based identification of Duchenne muscular dystrophy specific genes. J Zhejiang Univ Sci B 2013 Nov;14(11):973-82. PMID: 24190443
  • Shen Q, Bae HJ, Eun JW, Kim HS et al. MiR-101 functions as a tumor suppressor by directly targeting nemo-like kinase in liver cancer. Cancer Lett 2014 Mar 28;344(2):204-11. PMID: 24189458
  • Choy CT, Kim H, Lee JY, Williams DM et al. Anosmin-1 contributes to brain tumor malignancy through integrin signal pathways. Endocr Relat Cancer 2014 Feb;21(1):85-99. PMID: 24189182
  • Sangaletti S, Tripodo C, Vitali C, Portararo P et al. Defective stromal remodeling and neutrophil extracellular traps in lymphoid tissues favor the transition from autoimmunity to lymphoma. Cancer Discov 2014 Jan;4(1):110-29. PMID: 24189145
  • Kho AT, Sharma S, Qiu W, Gaedigk R et al. Vitamin D related genes in lung development and asthma pathogenesis. BMC Med Genomics 2013 Nov 5;6:47. PMID: 24188128
  • Hu WCHuman immune responses to Plasmodium falciparum infection: molecular evidence for a suboptimal THαβ and TH17 bias over ideal and effective traditional TH1 immune response. Malar J 2013 Nov 5;12:392. PMID: 24188121
  • Taskesen E, Hoogeboezem R, Delwel R, Reinders MJ et al. Hypergeometric analysis of tiling-array and sequence data: detection and interpretation of peaks. Adv Appl Bioinform Chem 2013;6:55-62. PMID: 24187504
  • Danziger SA, Ratushny AV, Smith JJ, Saleem RA et al. Molecular mechanisms of system responses to novel stimuli are predictable from public data. Nucleic Acids Res 2014 Feb;42(3):1442-60. PMID: 24185701
  • Chacon D, Beck D, Perera D, Wong JW et al. BloodChIP: a database of comparative genome-wide transcription factor binding profiles in human blood cells. Nucleic Acids Res 2014 Jan;42(Database issue):D172-7. PMID: 24185696
  • De Rijck J, de Kogel C, Demeulemeester J, Vets S et al. The BET family of proteins targets moloney murine leukemia virus integration near transcription start sites. Cell Rep 2013 Nov 27;5(4):886-94. PMID: 24183673
  • Ferrari F, Plachetka A, Alekseyenko AA, Jung YL et al. "Jump start and gain" model for dosage compensation in Drosophila based on direct sequencing of nascent transcripts. Cell Rep 2013 Nov 14;5(3):629-36. PMID: 24183666
  • Khurana P, Sugadev R, Jain J, Singh SB et al. HypoxiaDB: a database of hypoxia-regulated proteins. Database (Oxford) 2013;2013:bat074. PMID: 24178989
  • Leshchenko VV, Kuo PY, Jiang Z, Thirukonda VK et al. Integrative genomic analysis of temozolomide resistance in diffuse large B-cell lymphoma. Clin Cancer Res 2014 Jan 15;20(2):382-92. PMID: 24178621
  • Li J, Wei H, Liu T, Zhao PX et al. GPLEXUS: enabling genome-scale gene association network reconstruction and analysis for very large-scale expression data. Nucleic Acids Res 2014 Mar;42(5):e32. PMID: 24178033
  • Xia J, Zhang W et al. A meta-analysis revealed insights into the sources, conservation and impact of microRNA 5'-isoforms in four model species. Nucleic Acids Res 2014 Feb;42(3):1427-41. PMID: 24178030
  • Yu X, Li G, Chen L et al. Prediction and early diagnosis of complex diseases by edge-network. Bioinformatics 2014 Mar 15;30(6):852-9. PMID: 24177717
  • Tanaka-Nakanishi A, Yasunaga J, Takai K, Matsuoka M et al. HTLV-1 bZIP factor suppresses apoptosis by attenuating the function of FoxO3a and altering its localization. Cancer Res 2014 Jan 1;74(1):188-200. PMID: 24177179
  • Sun LY, Spong A, Swindell WR, Fang Y et al. Growth hormone-releasing hormone disruption extends lifespan and regulates response to caloric restriction in mice. Elife 2013 Oct 29;2:e01098. PMID: 24175087
  • Barthold JS, Wang Y, Robbins A, Pike J et al. Transcriptome analysis of the dihydrotestosterone-exposed fetal rat gubernaculum identifies common androgen and insulin-like 3 targets. Biol Reprod 2013 Dec;89(6):143. PMID: 24174575
  • Wang F, Zhang S, Wen Y, Wei Y et al. Revealing the architecture of genetic and epigenetic regulation: a maximum likelihood model. Brief Bioinform 2014 Nov;15(6):1028-43. PMID: 24174551
  • Ma H, Ye B, Wei Q, Zhu XD et al. Genome wide gene expression analysis of macrophages from ankylosing spondylitis patients under interferon-gamma treatment. Eur Rev Med Pharmacol Sci 2013 Oct;17(20):2798-803. PMID: 24174363
  • Min F, Gao F, Liu Z et al. Screening and further analyzing differentially expressed genes in acute idiopathic pulmonary fibrosis with DNA microarray. Eur Rev Med Pharmacol Sci 2013 Oct;17(20):2784-90. PMID: 24174361
  • Chang W, Gao X, Han Y, Du Y et al. Gene expression profiling-derived immunohistochemistry signature with high prognostic value in colorectal carcinoma. Gut 2014 Sep;63(9):1457-67. PMID: 24173294
  • Teytelman L, Thurtle DM, Rine J, van Oudenaarden A et al. Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins. Proc Natl Acad Sci U S A 2013 Nov 12;110(46):18602-7. PMID: 24173036
  • Dunne PD, McArt DG, Blayney JK, Kalimutho M et al. AXL is a key regulator of inherent and chemotherapy-induced invasion and predicts a poor clinical outcome in early-stage colon cancer. Clin Cancer Res 2014 Jan 1;20(1):164-75. PMID: 24170546
  • Guinney J, Ferté C, Dry J, McEwen R et al. Modeling RAS phenotype in colorectal cancer uncovers novel molecular traits of RAS dependency and improves prediction of response to targeted agents in patients. Clin Cancer Res 2014 Jan 1;20(1):265-272. PMID: 24170544
  • Psathas JN, Doonan PJ, Raman P, Freedman BD et al. The Myc-miR-17-92 axis amplifies B-cell receptor signaling via inhibition of ITIM proteins: a novel lymphomagenic feed-forward loop. Blood 2013 Dec 19;122(26):4220-9. PMID: 24169826
  • Nakazato T, Ohta T, Bono H et al. Experimental design-based functional mining and characterization of high-throughput sequencing data in the sequence read archive. PLoS One 2013;8(10):e77910. PMID: 24167589
  • Genovesi LA, Ng CG, Davis MJ, Remke M et al. Sleeping Beauty mutagenesis in a mouse medulloblastoma model defines networks that discriminate between human molecular subgroups. Proc Natl Acad Sci U S A 2013 Nov 12;110(46):E4325-34. PMID: 24167280
  • Blumenschein GR Jr, Saintigny P, Liu S, Kim ES et al. Comprehensive biomarker analysis and final efficacy results of sorafenib in the BATTLE trial. Clin Cancer Res 2013 Dec 15;19(24):6967-75. PMID: 24166906
  • Dai Y, Cros MP, Pontoizeau C, Elena-Hermann B et al. Downregulation of transcription factor E4F1 in hepatocarcinoma cells: HBV-dependent effects on autophagy, proliferation and metabolism. Carcinogenesis 2014 Mar;35(3):635-50. PMID: 24163401
  • Nabilsi NH, Ryder DJ, Peraza-Penton AC, Poudyal R et al. Local depletion of DNA methylation identifies a repressive p53 regulatory region in the NEK2 promoter. J Biol Chem 2013 Dec 13;288(50):35940-51. PMID: 24163369
  • Svensson C, Ceder J, Iglesias-Gato D, Chuan YC et al. REST mediates androgen receptor actions on gene repression and predicts early recurrence of prostate cancer. Nucleic Acids Res 2014 Jan;42(2):999-1015. PMID: 24163104
  • Lukic S, Nicolas JC, Levine AJ et al. The diversity of zinc-finger genes on human chromosome 19 provides an evolutionary mechanism for defense against inherited endogenous retroviruses. Cell Death Differ 2014 Mar;21(3):381-7. PMID: 24162661
  • Mao Y, Fu A, Leaderer D, Zheng T et al. Potential cancer-related role of circadian gene TIMELESS suggested by expression profiling and in vitro analyses. BMC Cancer 2013 Oct 25;13:498. PMID: 24161199
  • Wang HW, Hsieh TH, Huang SY, Chau GY et al. Forfeited hepatogenesis program and increased embryonic stem cell traits in young hepatocellular carcinoma (HCC) comparing to elderly HCC. BMC Genomics 2013 Oct 26;14:736. PMID: 24160375
  • Ajay AK, Kim TM, Ramirez-Gonzalez V, Park PJ et al. A bioinformatics approach identifies signal transducer and activator of transcription-3 and checkpoint kinase 1 as upstream regulators of kidney injury molecule-1 after kidney injury. J Am Soc Nephrol 2014 Jan;25(1):105-18. PMID: 24158981
  • Towner RA, Jensen RL, Vaillant B, Colman H et al. Experimental validation of 5 in-silico predicted glioma biomarkers. Neuro Oncol 2013 Dec;15(12):1625-34. PMID: 24158112
  • Zhen Y, Liu Z, Yang H, Yu X et al. Tumor suppressor PDCD4 modulates miR-184-mediated direct suppression of C-MYC and BCL2 blocking cell growth and survival in nasopharyngeal carcinoma. Cell Death Dis 2013 Oct 24;4(10):e872. PMID: 24157866
  • Liu Y, Song H, Pan J, Zhao J et al. Comprehensive gene expression analysis reveals multiple signal pathways associated with prostate cancer. J Appl Genet 2014 Feb;55(1):117-24. PMID: 24154878
  • Miri K, Latham K, Panning B, Zhong Z et al. The imprinted polycomb group gene Sfmbt2 is required for trophoblast maintenance and placenta development. Development 2013 Nov;140(22):4480-9. PMID: 24154523
  • Wormald S, Milla L, O'Connor L et al. Association of candidate single nucleotide polymorphisms with somatic mutation of the epidermal growth factor receptor pathway. BMC Med Genomics 2013 Oct 23;6:43. PMID: 24152305
  • Geraci J, Dharsee M, Nuin P, Haslehurst A et al. Exploring high dimensional data with Butterfly: a novel classification algorithm based on discrete dynamical systems. Bioinformatics 2014 Mar 1;30(5):712-8. PMID: 24149051
  • Holzinger ER, Dudek SM, Frase AT, Pendergrass SA et al. ATHENA: the analysis tool for heritable and environmental network associations. Bioinformatics 2014 Mar 1;30(5):698-705. PMID: 24149050
  • Leivonen SK, Sahlberg KK, Mäkelä R, Due EU et al. High-throughput screens identify microRNAs essential for HER2 positive breast cancer cell growth. Mol Oncol 2014 Feb;8(1):93-104. PMID: 24148764
  • Narsai R, Devenish J, Castleden I, Narsai K et al. Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis. Plant J 2013 Dec;76(6):1057-73. PMID: 24147765
  • Pong WW, Walker J, Wylie T, Magrini V et al. F11R is a novel monocyte prognostic biomarker for malignant glioma. PLoS One 2013;8(10):e77571. PMID: 24147027
  • Wang C, Funk CC, Eddy JA, Price ND et al. Transcriptional analysis of aggressiveness and heterogeneity across grades of astrocytomas. PLoS One 2013;8(10):e76694. PMID: 24146911
  • Dey N, Young B, Abramovitz M, Bouzyk M et al. Differential activation of Wnt-β-catenin pathway in triple negative breast cancer increases MMP7 in a PTEN dependent manner. PLoS One 2013;8(10):e77425. PMID: 24143235
  • Yamamoto N, Kinoshita T, Nohata N, Yoshino H et al. Tumor-suppressive microRNA-29a inhibits cancer cell migration and invasion via targeting HSP47 in cervical squamous cell carcinoma. Int J Oncol 2013 Dec;43(6):1855-63. PMID: 24141696
  • Liu N, Parisien M, Dai Q, Zheng G et al. Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA. RNA 2013 Dec;19(12):1848-56. PMID: 24141618
  • Perez-Andreu V, Roberts KG, Harvey RC, Yang W et al. Inherited GATA3 variants are associated with Ph-like childhood acute lymphoblastic leukemia and risk of relapse. Nat Genet 2013 Dec;45(12):1494-8. PMID: 24141364
  • Ohashi T, Idogawa M, Sasaki Y, Suzuki H et al. AKR1B10, a transcriptional target of p53, is downregulated in colorectal cancers associated with poor prognosis. Mol Cancer Res 2013 Dec;11(12):1554-63. PMID: 24140838
  • Horvath SDNA methylation age of human tissues and cell types. Genome Biol 2013;14(10):R115. PMID: 24138928
  • Diez D, Hutchins AP, Miranda-Saavedra D et al. Systematic identification of transcriptional regulatory modules from protein-protein interaction networks. Nucleic Acids Res 2014 Jan;42(1):e6. PMID: 24137002
  • Tan Y, Tamayo P, Nakaya H, Pulendran B et al. Gene signatures related to B-cell proliferation predict influenza vaccine-induced antibody response. Eur J Immunol 2014 Jan;44(1):285-95. PMID: 24136404
  • McVicker G, van de Geijn B, Degner JF, Cain CE et al. Identification of genetic variants that affect histone modifications in human cells. Science 2013 Nov 8;342(6159):747-9. PMID: 24136359
  • Madden MH, Anic GM, Thompson RC, Nabors LB et al. Circadian pathway genes in relation to glioma risk and outcome. Cancer Causes Control 2014 Jan;25(1):25-32. PMID: 24135790
  • Pulakanti K, Pinello L, Stelloh C, Blinka S et al. Enhancer transcribed RNAs arise from hypomethylated, Tet-occupied genomic regions. Epigenetics 2013 Dec;8(12):1303-20. PMID: 24135681
  • Wu CS, Yu CY, Chuang CY, Hsiao M et al. Integrative transcriptome sequencing identifies trans-splicing events with important roles in human embryonic stem cell pluripotency. Genome Res 2014 Jan;24(1):25-36. PMID: 24131564
  • Pritykin Y, Singh M et al. Simple topological features reflect dynamics and modularity in protein interaction networks. PLoS Comput Biol 2013;9(10):e1003243. PMID: 24130468
  • Chen K, Wu D, Zhu X, Ni H et al. Gene expression profile analysis of human intervertebral disc degeneration. Genet Mol Biol 2013 Sep;36(3):448-54. PMID: 24130454
  • Quan S, Yang P, Cassin-Ross G, Kaur N et al. Proteome analysis of peroxisomes from etiolated Arabidopsis seedlings identifies a peroxisomal protease involved in β-oxidation and development. Plant Physiol 2013 Dec;163(4):1518-38. PMID: 24130194
  • Becker MA, Farzan T, Harrington SC, Krempski JW et al. Dual HER/VEGF receptor targeting inhibits in vivo ovarian cancer tumor growth. Mol Cancer Ther 2013 Dec;12(12):2909-16. PMID: 24130056
  • Stavrum AK, Heiland I, Schuster S, Puntervoll P et al. Model of tryptophan metabolism, readily scalable using tissue-specific gene expression data. J Biol Chem 2013 Nov 29;288(48):34555-66. PMID: 24129579
  • Piccolo SR, Withers MR, Francis OE, Bild AH et al. Multiplatform single-sample estimates of transcriptional activation. Proc Natl Acad Sci U S A 2013 Oct 29;110(44):17778-83. PMID: 24128763
  • Petrochilos D, Shojaie A, Gennari J, Abernethy N et al. Using random walks to identify cancer-associated modules in expression data. BioData Min 2013 Oct 15;6(1):17. PMID: 24128261
  • Khatri P, Roedder S, Kimura N, De Vusser K et al. A common rejection module (CRM) for acute rejection across multiple organs identifies novel therapeutics for organ transplantation. J Exp Med 2013 Oct 21;210(11):2205-21. PMID: 24127489
  • Keune WJ, Sims AH, Jones DR, Bultsma Y et al. Low PIP4K2B expression in human breast tumors correlates with reduced patient survival: A role for PIP4K2B in the regulation of E-cadherin expression. Cancer Res 2013 Dec 1;73(23):6913-25. PMID: 24127122
  • Hemarajata P, Gao C, Pflughoeft KJ, Thomas CM et al. Lactobacillus reuteri-specific immunoregulatory gene rsiR modulates histamine production and immunomodulation by Lactobacillus reuteri. J Bacteriol 2013 Dec;195(24):5567-76. PMID: 24123819
  • Deshwar AG, Morris Q et al. PLIDA: cross-platform gene expression normalization using perturbed topic models. Bioinformatics 2014 Apr 1;30(7):956-61. PMID: 24123674
  • Wu J, Zhang W, Huang S, He Z et al. SOAPfusion: a robust and effective computational fusion discovery tool for RNA-seq reads. Bioinformatics 2013 Dec 1;29(23):2971-8. PMID: 24123671
  • Al-Mulla F, Marafie M, Zea Tan T, Paul Thiery J et al. Raf kinase inhibitory protein role in the molecular subtyping of breast cancer. J Cell Biochem 2014 Mar;115(3):488-97. PMID: 24123286
  • Fan Y, Ge N, Wang X, Sun W et al. Amplification and over-expression of MAP3K3 gene in human breast cancer promotes formation and survival of breast cancer cells. J Pathol 2014 Jan;232(1):75-86. PMID: 24122835
  • Kebschull M, Guarnieri P, Demmer RT, Boulesteix AL et al. Molecular differences between chronic and aggressive periodontitis. J Dent Res 2013 Dec;92(12):1081-8. PMID: 24122488
  • Heinz S, Romanoski CE, Benner C, Allison KA et al. Effect of natural genetic variation on enhancer selection and function. Nature 2013 Nov 28;503(7477):487-92. PMID: 24121437
  • Lei Y, Zhu X, Xie W, Wu Q et al. Midgut transcriptome response to a Cry toxin in the diamondback moth, Plutella xylostella (Lepidoptera: Plutellidae). Gene 2014 Jan 1;533(1):180-7. PMID: 24120626
  • O'Neill PK, Or M, Erill I et al. scnRCA: a novel method to detect consistent patterns of translational selection in mutationally-biased genomes. PLoS One 2013;8(10):e76177. PMID: 24116094
  • Qian L, Luo Q, Zhao X, Huang J et al. Pathways enrichment analysis for differentially expressed genes in squamous lung cancer. Pathol Oncol Res 2014 Jan;20(1):197-202. PMID: 24114512
  • Yoshihara K, Shahmoradgoli M, Martínez E, Vegesna R et al. Inferring tumour purity and stromal and immune cell admixture from expression data. Nat Commun 2013;4:2612. PMID: 24113773
  • Hong SH, Goh SH, Lee SJ, Hwang JA et al. Upregulation of adenylate cyclase 3 (ADCY3) increases the tumorigenic potential of cells by activating the CREB pathway. Oncotarget 2013 Oct;4(10):1791-803. PMID: 24113161
  • Griffith OL, Pepin F, Enache OM, Heiser LM et al. A robust prognostic signature for hormone-positive node-negative breast cancer. Genome Med 2013;5(10):92. PMID: 24112773
  • Fellner L, Bechtel N, Witting MA, Simon S et al. Phenotype of htgA (mbiA), a recently evolved orphan gene of Escherichia coli and Shigella, completely overlapping in antisense to yaaW. FEMS Microbiol Lett 2014 Jan;350(1):57-64. PMID: 24111745
  • Chandramohan R, Wu PY, Phan JH, Wang MD et al. Benchmarking RNA-Seq quantification tools. Annu Int Conf IEEE Eng Med Biol Soc 2013;2013:647-50. PMID: 24109770
  • Pavlicek A, Lira ME, Lee NV, Ching KA et al. Molecular predictors of sensitivity to the insulin-like growth factor 1 receptor inhibitor Figitumumab (CP-751,871). Mol Cancer Ther 2013 Dec;12(12):2929-39. PMID: 24107449
  • Kong X, Qian J, Chen LS, Wang YC et al. Synbindin in extracellular signal-regulated protein kinase spatial regulation and gastric cancer aggressiveness. J Natl Cancer Inst 2013 Nov 20;105(22):1738-49. PMID: 24104608
  • Csaderova L, Debreova M, Radvak P, Stano M et al. The effect of carbonic anhydrase IX on focal contacts during cell spreading and migration. Front Physiol 2013;4:271. PMID: 24101905
  • Reguera M, Peleg Z, Abdel-Tawab YM, Tumimbang EB et al. Stress-induced cytokinin synthesis increases drought tolerance through the coordinated regulation of carbon and nitrogen assimilation in rice. Plant Physiol 2013 Dec;163(4):1609-22. PMID: 24101772
  • Scheller M, Schönheit J, Zimmermann K, Leser U et al. Cross talk between Wnt/β-catenin and Irf8 in leukemia progression and drug resistance. J Exp Med 2013 Oct 21;210(11):2239-56. PMID: 24101380
  • Kidder BL, Hu G, Yu ZX, Liu C et al. Extended self-renewal and accelerated reprogramming in the absence of Kdm5b. Mol Cell Biol 2013 Dec;33(24):4793-810. PMID: 24100015
  • Kidane YH, Lawrence C, Murali TM et al. Computational approaches for discovery of common immunomodulators in fungal infections: towards broad-spectrum immunotherapeutic interventions. BMC Microbiol 2013 Oct 7;13:224. PMID: 24099000
  • Sehhati MR, Dehnavi AM, Rabbani H, Javanmard SH et al. Using protein interaction database and support vector machines to improve gene signatures for prediction of breast cancer recurrence. J Med Signals Sens 2013 Apr;3(2):87-93. PMID: 24098862
  • Huang CC, Tu SH, Lien HH, Jeng JY et al. Concurrent gene signatures for han chinese breast cancers. PLoS One 2013;8(10):e76421. PMID: 24098497
  • Wang C, Qiu W, Zheng Y, Li H et al. Extraneuronal monoamine transporter mediates the permissive action of cortisol in the Guinea pig trachea: possible involvement of tracheal chondrocytes. PLoS One 2013;8(10):e76193. PMID: 24098439
  • Leiszter K, Galamb O, Sipos F, Krenács T et al. Sporadic colorectal cancer development shows rejuvenescence regarding epithelial proliferation and apoptosis. PLoS One 2013;8(10):e74140. PMID: 24098334
  • Mezlini AM, Wang B, Deshwar A, Morris Q et al. Identifying cancer specific functionally relevant miRNAs from gene expression and miRNA-to-gene networks using regularized regression. PLoS One 2013;8(10):e73168. PMID: 24098326
  • Hampel KJ, LaBauve AE, Meadows JA, Fitzsimmons LF et al. Characterization of the GbdR regulon in Pseudomonas aeruginosa. J Bacteriol 2014 Jan;196(1):7-15. PMID: 24097953
  • Hernando H, Islam AB, Rodríguez-Ubreva J, Forné I et al. Epstein-Barr virus-mediated transformation of B cells induces global chromatin changes independent to the acquisition of proliferation. Nucleic Acids Res 2014 Jan;42(1):249-63. PMID: 24097438
  • Girardot M, Hirasawa R, Kacem S, Fritsch L et al. PRMT5-mediated histone H4 arginine-3 symmetrical dimethylation marks chromatin at G + C-rich regions of the mouse genome. Nucleic Acids Res 2014 Jan;42(1):235-48. PMID: 24097435
  • Ciriello G, Sinha R, Hoadley KA, Jacobsen AS et al. The molecular diversity of Luminal A breast tumors. Breast Cancer Res Treat 2013 Oct;141(3):409-20. PMID: 24096568
  • Wilson IM, Vucic EA, Enfield KS, Thu KL et al. EYA4 is inactivated biallelically at a high frequency in sporadic lung cancer and is associated with familial lung cancer risk. Oncogene 2014 Sep 4;33(36):4464-73. PMID: 24096489
  • Jacobsen A, Silber J, Harinath G, Huse JT et al. Analysis of microRNA-target interactions across diverse cancer types. Nat Struct Mol Biol 2013 Nov;20(11):1325-32. PMID: 24096364
  • Ronkainen VP, Tuomainen T, Huusko J, Laidinen S et al. Hypoxia-inducible factor 1-induced G protein-coupled receptor 35 expression is an early marker of progressive cardiac remodelling. Cardiovasc Res 2014 Jan 1;101(1):69-77. PMID: 24095869
  • Lucá R, Averna M, Zalfa F, Vecchi M et al. The fragile X protein binds mRNAs involved in cancer progression and modulates metastasis formation. EMBO Mol Med 2013 Oct;5(10):1523-36. PMID: 24092663
  • Song GG, Kim JH, Seo YH, Choi SJ et al. Meta-analysis of differentially expressed genes in primary Sjogren's syndrome by using microarray. Hum Immunol 2014 Jan;75(1):98-104. PMID: 24090683
  • Neven B, Mamessier E, Bruneau J, Kaltenbach S et al. A Mendelian predisposition to B-cell lymphoma caused by IL-10R deficiency. Blood 2013 Nov 28;122(23):3713-22. PMID: 24089328
  • Kim M, Park YK, Kang TW, Lee SH et al. Dynamic changes in DNA methylation and hydroxymethylation when hES cells undergo differentiation toward a neuronal lineage. Hum Mol Genet 2014 Feb 1;23(3):657-67. PMID: 24087792
  • Chow KT, Schulz D, McWhirter SM, Schlissel MS et al. Gfi1 and gfi1b repress rag transcription in plasmacytoid dendritic cells in vitro. PLoS One 2013;8(9):e75891. PMID: 24086657
  • Smith SB, Magid-Slav M, Brown JR et al. Host response to respiratory bacterial pathogens as identified by integrated analysis of human gene expression data. PLoS One 2013;8(9):e75607. PMID: 24086587
  • Rossello FJ, Tothill RW, Britt K, Marini KD et al. Next-generation sequence analysis of cancer xenograft models. PLoS One 2013;8(9):e74432. PMID: 24086345
  • Liebner DA, Huang K, Parvin JD et al. MMAD: microarray microdissection with analysis of differences is a computational tool for deconvoluting cell type-specific contributions from tissue samples. Bioinformatics 2014 Mar 1;30(5):682-9. PMID: 24085566
  • Wang J, Carvajal-Carmona LG, Chu JH, Zauber AG et al. Germline variants and advanced colorectal adenomas: adenoma prevention with celecoxib trial genome-wide association study. Clin Cancer Res 2013 Dec 1;19(23):6430-7. PMID: 24084763
  • Zhang L, Guo Y, Li B, Qu J et al. Identification of biomarkers for hepatocellular carcinoma using network-based bioinformatics methods. Eur J Med Res 2013 Oct 1;18(1):35. PMID: 24083576
  • Ma LJ, Lee SW, Lin LC, Chen TJ et al. Fibronectin overexpression is associated with latent membrane protein 1 expression and has independent prognostic value for nasopharyngeal carcinoma. Tumour Biol 2014 Feb;35(2):1703-12. PMID: 24081675
  • Hu D, Gao X, Morgan MA, Herz HM et al. The MLL3/MLL4 branches of the COMPASS family function as major histone H3K4 monomethylases at enhancers. Mol Cell Biol 2013 Dec;33(23):4745-54. PMID: 24081332
  • Cohen AL, Piccolo SR, Cheng L, Soldi R et al. Genomic pathway analysis reveals that EZH2 and HDAC4 represent mutually exclusive epigenetic pathways across human cancers. BMC Med Genomics 2013 Sep 30;6:35. PMID: 24079712
  • Akdemir KC, Jain AK, Allton K, Aronow B et al. Genome-wide profiling reveals stimulus-specific functions of p53 during differentiation and DNA damage of human embryonic stem cells. Nucleic Acids Res 2014 Jan;42(1):205-23. PMID: 24078252
  • Billoud B, Nehr Z, Le Bail A, Charrier B et al. Computational prediction and experimental validation of microRNAs in the brown alga Ectocarpus siliculosus. Nucleic Acids Res 2014 Jan;42(1):417-29. PMID: 24078085
  • Charneski CA, Hurst LD et al. Positive charge loading at protein termini is due to membrane protein topology, not a translational ramp. Mol Biol Evol 2014 Jan;31(1):70-84. PMID: 24077849
  • Covington KR, Brusco L, Barone I, Tsimelzon A et al. Metastasis tumor-associated protein 2 enhances metastatic behavior and is associated with poor outcomes in estrogen receptor-negative breast cancer. Breast Cancer Res Treat 2013 Oct;141(3):375-384. PMID: 24077732
  • Xu J, Zhang R, Shen Y, Liu G et al. The evolution of evolvability in microRNA target sites in vertebrates. Genome Res 2013 Nov;23(11):1810-6. PMID: 24077390
  • Rogers HA, Mayne C, Chapman RJ, Kilday JP et al. PI3K pathway activation provides a novel therapeutic target for pediatric ependymoma and is an independent marker of progression-free survival. Clin Cancer Res 2013 Dec 1;19(23):6450-60. PMID: 24077346
  • Zinman GE, Naiman S, Kanfi Y, Cohen H et al. ExpressionBlast: mining large, unstructured expression databases. Nat Methods 2013 Oct;10(10):925-6. PMID: 24076985
  • Prensner JR, Iyer MK, Sahu A, Asangani IA et al. The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Nat Genet 2013 Nov;45(11):1392-8. PMID: 24076601
  • Gertz J, Savic D, Varley KE, Partridge EC et al. Distinct properties of cell-type-specific and shared transcription factor binding sites. Mol Cell 2013 Oct 10;52(1):25-36. PMID: 24076218
  • Piskol R, Ramaswami G, Li JB et al. Reliable identification of genomic variants from RNA-seq data. Am J Hum Genet 2013 Oct 3;93(4):641-51. PMID: 24075185
  • Moruz L, Hoopmann MR, Rosenlund M, Granholm V et al. Mass fingerprinting of complex mixtures: protein inference from high-resolution peptide masses and predicted retention times. J Proteome Res 2013 Dec 6;12(12):5730-41. PMID: 24074221
  • Yang B, Zhang J, Yin Y, Zhang Y et al. Network-based inference framework for identifying cancer genes from gene expression data. Biomed Res Int 2013;2013:401649. PMID: 24073403
  • Omberg L, Ellrott K, Yuan Y, Kandoth C et al. Enabling transparent and collaborative computational analysis of 12 tumor types within The Cancer Genome Atlas. Nat Genet 2013 Oct;45(10):1121-6. PMID: 24071850
  • Merelli I, Liò P, Milanesi L et al. NuChart: an R package to study gene spatial neighbourhoods with multi-omics annotations. PLoS One 2013;8(9):e75146. PMID: 24069388
  • Yan B, Li H, Yang X, Shao J et al. Unraveling regulatory programs for NF-kappaB, p53 and microRNAs in head and neck squamous cell carcinoma. PLoS One 2013;8(9):e73656. PMID: 24069219
  • Wang J, Bai Y, Li H, Greene SB et al. MicroRNA-17-92, a direct Ap-2α transcriptional target, modulates T-box factor activity in orofacial clefting. PLoS Genet 2013;9(9):e1003785. PMID: 24068957
  • Hansen KD, Sabunciyan S, Langmead B, Nagy N et al. Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization. Genome Res 2014 Feb;24(2):177-84. PMID: 24068705
  • Lu Y, You M, Ghazoui Z, Liu P et al. Concordant effects of aromatase inhibitors on gene expression in ER+ Rat and human mammary cancers and modulation of the proteins coded by these genes. Cancer Prev Res (Phila) 2013 Nov;6(11):1151-61. PMID: 24067424
  • Wu Z, Wang Y, Chen L et al. Drug repositioning framework by incorporating functional information. IET Syst Biol 2013 Oct;7(5):188-94. PMID: 24067419
  • Lalonde ME, Avvakumov N, Glass KC, Joncas FH et al. Exchange of associated factors directs a switch in HBO1 acetyltransferase histone tail specificity. Genes Dev 2013 Sep 15;27(18):2009-24. PMID: 24065767
  • Asano H, Kanamori Y, Higurashi S, Nara T et al. Induction of beige-like adipocytes in 3T3-L1 cells. J Vet Med Sci 2014 Jan;76(1):57-64. PMID: 24065084
  • Bogdanović O, Gómez-Skarmeta JL et al. Embryonic DNA methylation: insights from the genomics era. Brief Funct Genomics 2014 Mar;13(2):121-30. PMID: 24064195
  • Civenni G, Malek A, Albino D, Garcia-Escudero R et al. RNAi-mediated silencing of Myc transcription inhibits stem-like cell maintenance and tumorigenicity in prostate cancer. Cancer Res 2013 Nov 15;73(22):6816-27. PMID: 24063893
  • Chavali S, Bruhn S, Tiemann K, Saetrom P et al. MicroRNAs act complementarily to regulate disease-related mRNA modules in human diseases. RNA 2013 Nov;19(11):1552-62. PMID: 24062574
  • Powell ND, Sloan EK, Bailey MT, Arevalo JM et al. Social stress up-regulates inflammatory gene expression in the leukocyte transcriptome via β-adrenergic induction of myelopoiesis. Proc Natl Acad Sci U S A 2013 Oct 8;110(41):16574-9. PMID: 24062448
  • de Ronde JJ, Rigaill G, Rottenberg S, Rodenhuis S et al. Identifying subgroup markers in heterogeneous populations. Nucleic Acids Res 2013 Nov;41(21):e200. PMID: 24062158
  • Thøgersen JC, Mørup M, Damkiær S, Molin S et al. Archetypal analysis of diverse Pseudomonas aeruginosa transcriptomes reveals adaptation in cystic fibrosis airways. BMC Bioinformatics 2013 Sep 23;14:279. PMID: 24059747
  • Warden CD, Kanaya N, Chen S, Yuan YC et al. BD-Func: a streamlined algorithm for predicting activation and inhibition of pathways. PeerJ 2013;1:e159. PMID: 24058887
  • Obeidat M, Miller S, Probert K, Billington CK et al. GSTCD and INTS12 regulation and expression in the human lung. PLoS One 2013;8(9):e74630. PMID: 24058608
  • Pandey V, Varun P, Turm H, Hagit T et al. A new in vivo model of pantothenate kinase-associated neurodegeneration reveals a surprising role for transcriptional regulation in pathogenesis. Front Cell Neurosci 2013;7:146. PMID: 24058333
  • Deckard A, Anafi RC, Hogenesch JB, Haase SB et al. Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data. Bioinformatics 2013 Dec 15;29(24):3174-80. PMID: 24058056
  • Kozlenkov A, Roussos P, Timashpolsky A, Barbu M et al. Differences in DNA methylation between human neuronal and glial cells are concentrated in enhancers and non-CpG sites. Nucleic Acids Res 2014 Jan;42(1):109-27. PMID: 24057217
  • Yang L, Liu B, Qiu F, Huang B et al. The effect of functional MAPKAPK2 copy number variation CNV-30450 on elevating nasopharyngeal carcinoma risk is modulated by EBV infection. Carcinogenesis 2014 Jan;35(1):46-52. PMID: 24056810
  • Leitch HG, Nichols J, Humphreys P, Mulas C et al. Rebuilding pluripotency from primordial germ cells. Stem Cell Reports 2013;1(1):66-78. PMID: 24052943
  • Kocabaş F, Can T, Baykal N et al. Metadata management and semantics in microarray repositories. Balkan J Med Genet 2011 Dec;14(2):49-64. PMID: 24052712
  • Wang Q, Tiffen J, Bailey CG, Lehman ML et al. Targeting amino acid transport in metastatic castration-resistant prostate cancer: effects on cell cycle, cell growth, and tumor development. J Natl Cancer Inst 2013 Oct 2;105(19):1463-73. PMID: 24052624
  • Herrera M, Islam AB, Herrera A, Martín P et al. Functional heterogeneity of cancer-associated fibroblasts from human colon tumors shows specific prognostic gene expression signature. Clin Cancer Res 2013 Nov 1;19(21):5914-26. PMID: 24052018
  • Georges A, Auguste A, Bessière L, Vanet A et al. FOXL2: a central transcription factor of the ovary. J Mol Endocrinol 2014 Feb;52(1):R17-33. PMID: 24049064
  • Olshen AB, Hsieh AC, Stumpf CR, Olshen RA et al. Assessing gene-level translational control from ribosome profiling. Bioinformatics 2013 Dec 1;29(23):2995-3002. PMID: 24048356
  • Wistuba II, Behrens C, Lombardi F, Wagner S et al. Validation of a proliferation-based expression signature as prognostic marker in early stage lung adenocarcinoma. Clin Cancer Res 2013 Nov 15;19(22):6261-71. PMID: 24048333
  • Khondoker M, Dobson R, Skirrow C, Simmons A et al. A comparison of machine learning methods for classification using simulation with multiple real data examples from mental health studies. Stat Methods Med Res 2016 Oct;25(5):1804-1823. PMID: 24047600
  • Zhang L, Zhang L et al. Use of autocorrelation scanning in DNA copy number analysis. Bioinformatics 2013 Nov 1;29(21):2678-82. PMID: 24045776
  • Lewis DR, Olex AL, Lundy SR, Turkett WH et al. A kinetic analysis of the auxin transcriptome reveals cell wall remodeling proteins that modulate lateral root development in Arabidopsis. Plant Cell 2013 Sep;25(9):3329-46. PMID: 24045021
  • Laurent G, de Boer VC, Finley LW, Sweeney M et al. SIRT4 represses peroxisome proliferator-activated receptor α activity to suppress hepatic fat oxidation. Mol Cell Biol 2013 Nov;33(22):4552-61. PMID: 24043310
  • Di Giorgio E, Clocchiatti A, Piccinin S, Sgorbissa A et al. MEF2 is a converging hub for histone deacetylase 4 and phosphatidylinositol 3-kinase/Akt-induced transformation. Mol Cell Biol 2013 Nov;33(22):4473-91. PMID: 24043307
  • Galli GG, Carrara M, Francavilla C, de Lichtenberg KH et al. Genomic and proteomic analyses of Prdm5 reveal interactions with insulator binding proteins in embryonic stem cells. Mol Cell Biol 2013 Nov;33(22):4504-16. PMID: 24043305
  • Sheltzer JMA transcriptional and metabolic signature of primary aneuploidy is present in chromosomally unstable cancer cells and informs clinical prognosis. Cancer Res 2013 Nov 1;73(21):6401-12. PMID: 24041940
  • Li J, Liu Y, Liu M, Han JD et al. Functional dissection of regulatory models using gene expression data of deletion mutants. PLoS Genet 2013;9(9):e1003757. PMID: 24039601
  • Lv J, Liu H, Huang Z, Su J et al. Long non-coding RNA identification over mouse brain development by integrative modeling of chromatin and genomic features. Nucleic Acids Res 2013 Dec;41(22):10044-61. PMID: 24038472
  • Mendoza-Parra MA, Van Gool W, Mohamed Saleem MA, Ceschin DG et al. A quality control system for profiles obtained by ChIP sequencing. Nucleic Acids Res 2013 Nov;41(21):e196. PMID: 24038469
  • Wolf L, Harrison W, Huang J, Xie Q et al. Histone posttranslational modifications and cell fate determination: lens induction requires the lysine acetyltransferases CBP and p300. Nucleic Acids Res 2013 Dec;41(22):10199-214. PMID: 24038357
  • Martovetsky G, Tee JB, Nigam SK et al. Hepatocyte nuclear factors 4α and 1α regulate kidney developmental expression of drug-metabolizing enzymes and drug transporters. Mol Pharmacol 2013 Dec;84(6):808-23. PMID: 24038112
  • Lee YS, Krishnan A, Zhu Q, Troyanskaya OG et al. Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies. Bioinformatics 2013 Dec 1;29(23):3036-44. PMID: 24037214
  • Schmid M, Kestler HA, Potapov S et al. On the validity of time-dependent AUC estimators. Brief Bioinform 2015 Jan;16(1):153-68. PMID: 24036698
  • Zhang Y, Zhang XO, Chen T, Xiang JF et al. Circular intronic long noncoding RNAs. Mol Cell 2013 Sep 26;51(6):792-806. PMID: 24035497
  • Krumm N, O'Roak BJ, Karakoc E, Mohajeri K et al. Transmission disequilibrium of small CNVs in simplex autism. Am J Hum Genet 2013 Oct 3;93(4):595-606. PMID: 24035194
  • Kim H, Ahn J, Park C, Yoon Y et al. ICP: A novel approach to predict prognosis of prostate cancer with inner-class clustering of gene expression data. Comput Biol Med 2013 Oct;43(10):1363-73. PMID: 24034727
  • Yoshino H, Enokida H, Itesako T, Kojima S et al. Tumor-suppressive microRNA-143/145 cluster targets hexokinase-2 in renal cell carcinoma. Cancer Sci 2013 Dec;104(12):1567-74. PMID: 24033605
  • Mabbott NA, Gray D et al. Identification of co-expressed gene signatures in mouse B1, marginal zone and B2 B-cell populations. Immunology 2014 Jan;141(1):79-95. PMID: 24032749
  • Homa NJ, Salinas R, Forte E, Robinson TJ et al. Epstein-Barr virus induces global changes in cellular mRNA isoform usage that are important for the maintenance of latency. J Virol 2013 Nov;87(22):12291-301. PMID: 24027308
  • Giles KM, Kalinowski FC, Candy PA, Epis MR et al. Axl mediates acquired resistance of head and neck cancer cells to the epidermal growth factor receptor inhibitor erlotinib. Mol Cancer Ther 2013 Nov;12(11):2541-58. PMID: 24026012
  • Rani S, Gately K, Crown J, O'Byrne K et al. Global analysis of serum microRNAs as potential biomarkers for lung adenocarcinoma. Cancer Biol Ther 2013 Dec;14(12):1104-12. PMID: 24025412
  • Morata J, Béjar S, Talavera D, Riera C et al. The relationship between gene isoform multiplicity, number of exons and protein divergence. PLoS One 2013;8(8):e72742. PMID: 24023641
  • Zhang Y, Castillo-Morales A, Jiang M, Zhu Y et al. Genes that escape X-inactivation in humans have high intraspecific variability in expression, are associated with mental impairment but are not slow evolving. Mol Biol Evol 2013 Dec;30(12):2588-601. PMID: 24023392
  • Yuan XW, Wang DM, Hu Y, Tang YN et al. Hepatocyte nuclear factor 6 suppresses the migration and invasive growth of lung cancer cells through p53 and the inhibition of epithelial-mesenchymal transition. J Biol Chem 2013 Oct 25;288(43):31206-16. PMID: 24022481
  • Hoffmann BR, Wagner JR, Prisco AR, Janiak A et al. Vascular endothelial growth factor-A signaling in bone marrow-derived endothelial progenitor cells exposed to hypoxic stress. Physiol Genomics 2013 Nov 1;45(21):1021-34. PMID: 24022223
  • Bao H, Kommadath A, Sun X, Meng Y et al. Expansion of ruminant-specific microRNAs shapes target gene expression divergence between ruminant and non-ruminant species. BMC Genomics 2013 Sep 10;14:609. PMID: 24020371
  • Bonfert T, Csaba G, Zimmer R, Friedel CC et al. Mining RNA-seq data for infections and contaminations. PLoS One 2013;8(9):e73071. PMID: 24019895
  • Lermontova I, Kuhlmann M, Friedel S, Rutten T et al. Arabidopsis kinetochore null2 is an upstream component for centromeric histone H3 variant cenH3 deposition at centromeres. Plant Cell 2013 Sep;25(9):3389-404. PMID: 24014547
  • Jakubzick C, Gautier EL, Gibbings SL, Sojka DK et al. Minimal differentiation of classical monocytes as they survey steady-state tissues and transport antigen to lymph nodes. Immunity 2013 Sep 19;39(3):599-610. PMID: 24012416
  • Fernald GH, Altman RB et al. Using molecular features of xenobiotics to predict hepatic gene expression response. J Chem Inf Model 2013 Oct 28;53(10):2765-73. PMID: 24010729
  • Wang J, Marowsky NC, Fan C et al. Divergent evolutionary and expression patterns between lineage specific new duplicate genes and their parental paralogs in Arabidopsis thaliana. PLoS One 2013;8(8):e72362. PMID: 24009676
  • Tang X, Jin R, Qu G, Wang X et al. GPR116, an adhesion G-protein-coupled receptor, promotes breast cancer metastasis via the Gαq-p63RhoGEF-Rho GTPase pathway. Cancer Res 2013 Oct 15;73(20):6206-18. PMID: 24008316
  • Karlebach GInferring Boolean network states from partial information. EURASIP J Bioinform Syst Biol 2013 Sep 5;2013(1):11. PMID: 24006954
  • Paul S, Maji P et al. μHEM for identification of differentially expressed miRNAs using hypercuboid equivalence partition matrix. BMC Bioinformatics 2013 Sep 4;14:266. PMID: 24006840
  • Albrechtsen R, Kveiborg M, Stautz D, Vikeså J et al. ADAM12 redistributes and activates MMP-14, resulting in gelatin degradation, reduced apoptosis and increased tumor growth. J Cell Sci 2013 Oct 15;126(Pt 20):4707-20. PMID: 24006261
  • Chen F, Guan Q, Nie ZY, Jin LJ et al. Gene expression profile and functional analysis of Alzheimer's disease. Am J Alzheimers Dis Other Demen 2013 Nov;28(7):693-701. PMID: 24005853
  • Meehan TF, Vasilevsky NA, Mungall CJ, Dougall DS et al. Ontology based molecular signatures for immune cell types via gene expression analysis. BMC Bioinformatics 2013 Aug 30;14:263. PMID: 24004649
  • Lu Y, Zhou Y, Tian W et al. Combining Hi-C data with phylogenetic correlation to predict the target genes of distal regulatory elements in human genome. Nucleic Acids Res 2013 Dec;41(22):10391-402. PMID: 24003029
  • Wu D, Pang Y, Wilkerson MD, Wang D et al. Gene-expression data integration to squamous cell lung cancer subtypes reveals drug sensitivity. Br J Cancer 2013 Sep 17;109(6):1599-608. PMID: 24002593
  • Pellagatti A, Benner A, Mills KI, Cazzola M et al. Identification of gene expression-based prognostic markers in the hematopoietic stem cells of patients with myelodysplastic syndromes. J Clin Oncol 2013 Oct 1;31(28):3557-64. PMID: 24002510
  • Chen P, Edelman JD, Gharib SA et al. Comparative evaluation of miRNA expression between in vitro and in vivo airway epithelium demonstrates widespread differences. Am J Pathol 2013 Nov;183(5):1405-1410. PMID: 24001474
  • Yang X, Song JH, Cheng Y, Wu W et al. Long non-coding RNA HNF1A-AS1 regulates proliferation and migration in oesophageal adenocarcinoma cells. Gut 2014 Jun;63(6):881-90. PMID: 24000294
  • Liu H, Chen Y, Lv J, Liu H et al. Quantitative epigenetic co-variation in CpG islands and co-regulation of developmental genes. Sci Rep 2013;3:2576. PMID: 23999385
  • Kho AT, Liu K, Visner G, Martin T et al. Identification of dedifferentiation and redevelopment phases during postpneumonectomy lung growth. Am J Physiol Lung Cell Mol Physiol 2013 Oct 15;305(8):L542-54. PMID: 23997171
  • Mehra R, Serebriiskii IG, Burtness B, Astsaturov I et al. Aurora kinases in head and neck cancer. Lancet Oncol 2013 Sep;14(10):e425-35. PMID: 23993387
  • Syed Khaja AS, Dizeyi N, Kopparapu PK, Anagnostaki L et al. Cyclin A1 modulates the expression of vascular endothelial growth factor and promotes hormone-dependent growth and angiogenesis of breast cancer. PLoS One 2013;8(8):e72210. PMID: 23991063
  • Zhao W, Qi L, Qin Y, Wang H et al. Functional comparison between genes dysregulated in ulcerative colitis and colorectal carcinoma. PLoS One 2013;8(8):e71989. PMID: 23991021
  • Zuckerman NS, Noam Y, Goldsmith AJ, Lee PP et al. A self-directed method for cell-type identification and separation of gene expression microarrays. PLoS Comput Biol 2013;9(8):e1003189. PMID: 23990767
  • Taylor GC, Eskeland R, Hekimoglu-Balkan B, Pradeepa MM et al. H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction. Genome Res 2013 Dec;23(12):2053-65. PMID: 23990607
  • Jiang W, Zhang Y, Meng F, Lian B et al. Identification of active transcription factor and miRNA regulatory pathways in Alzheimer's disease. Bioinformatics 2013 Oct 15;29(20):2596-602. PMID: 23990414
  • Moslehi R, Mills JL, Signore C, Kumar A et al. Integrative transcriptome analysis reveals dysregulation of canonical cancer molecular pathways in placenta leading to preeclampsia. Sci Rep 2013;3:2407. PMID: 23989136
  • Sharma R, Cao P, Jung KH, Sharma MK et al. Construction of a rice glycoside hydrolase phylogenomic database and identification of targets for biofuel research. Front Plant Sci 2013;4:330. PMID: 23986771
  • Antonini D, Sibilio A, Dentice M, Missero C et al. An Intimate Relationship between Thyroid Hormone and Skin: Regulation of Gene Expression. Front Endocrinol (Lausanne) 2013;4:104. PMID: 23986743
  • Fong ON, Chan KY, Leung KT, Lam HS et al. Expression profile of cord blood neutrophils and dysregulation of HSPA1A and OLR1 upon challenge by bacterial peptidoglycan. J Leukoc Biol 2014 Jan;95(1):169-78. PMID: 23986550
  • Xiong Q, Zhang Z, Chang KH, Qu H et al. Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human Krüppel-like factors. BMC Genomics 2013 Aug 28;14:587. PMID: 23985037
  • Shoaie S, Karlsson F, Mardinoglu A, Nookaew I et al. Understanding the interactions between bacteria in the human gut through metabolic modeling. Sci Rep 2013;3:2532. PMID: 23982459
  • Gordon EA, Whisenant TC, Zeller M, Kaake RM et al. Combining docking site and phosphosite predictions to find new substrates: identification of smoothelin-like-2 (SMTNL2) as a c-Jun N-terminal kinase (JNK) substrate. Cell Signal 2013 Dec;25(12):2518-29. PMID: 23981301
  • Malinge S, Chlon T, Doré LC, Ketterling RP et al. Development of acute megakaryoblastic leukemia in Down syndrome is associated with sequential epigenetic changes. Blood 2013 Oct 3;122(14):e33-43. PMID: 23980066
  • Bardet AF, Steinmann J, Bafna S, Knoblich JA et al. Identification of transcription factor binding sites from ChIP-seq data at high resolution. Bioinformatics 2013 Nov 1;29(21):2705-13. PMID: 23980024
  • Lin YF, Lai TC, Chang CK, Chen CL et al. Targeting the XIAP/caspase-7 complex selectively kills caspase-3-deficient malignancies. J Clin Invest 2013 Sep;123(9):3861-75. PMID: 23979166
  • Huan J, Wang L, Xing L, Qin X et al. Insights into significant pathways and gene interaction networks underlying breast cancer cell line MCF-7 treated with 17β-estradiol (E2). Gene 2014 Jan 1;533(1):346-55. PMID: 23978611
  • Dhruv HD, Whitsett TG, Jameson NM, Patel F et al. Tumor necrosis factor-like weak inducer of apoptosis (TWEAK) promotes glioblastoma cell chemotaxis via Lyn activation. Carcinogenesis 2014 Jan;35(1):218-26. PMID: 23975833
  • Brümmer A, Kishore S, Subasic D, Hengartner M et al. Modeling the binding specificity of the RNA-binding protein GLD-1 suggests a function of coding region-located sites in translational repression. RNA 2013 Oct;19(10):1317-26. PMID: 23974436
  • Coenen EA, Zwaan CM, Reinhardt D, Harrison CJ et al. Pediatric acute myeloid leukemia with t(8;16)(p11;p13), a distinct clinical and biological entity: a collaborative study by the International-Berlin-Frankfurt-Munster AML-study group. Blood 2013 Oct 10;122(15):2704-13. PMID: 23974201
  • Gautier EL, Ivanov S, Lesnik P, Randolph GJ et al. Local apoptosis mediates clearance of macrophages from resolving inflammation in mice. Blood 2013 Oct 10;122(15):2714-22. PMID: 23974197
  • van der Veer A, Waanders E, Pieters R, Willemse ME et al. Independent prognostic value of BCR-ABL1-like signature and IKZF1 deletion, but not high CRLF2 expression, in children with B-cell precursor ALL. Blood 2013 Oct 10;122(15):2622-9. PMID: 23974192
  • Nikitenko LL, Leek R, Henderson S, Pillay N et al. The G-protein-coupled receptor CLR is upregulated in an autocrine loop with adrenomedullin in clear cell renal cell carcinoma and associated with poor prognosis. Clin Cancer Res 2013 Oct 15;19(20):5740-8. PMID: 23969937
  • Zhang X, Ma Y, Liu X, Zhou Q et al. Evolutionary and functional analysis of the key pluripotency factor Oct4 and its family proteins. J Genet Genomics 2013 Aug 20;40(8):399-412. PMID: 23969249
  • Colasante G, Simonet JC, Calogero R, Crispi S et al. ARX regulates cortical intermediate progenitor cell expansion and upper layer neuron formation through repression of Cdkn1c. Cereb Cortex 2015 Feb;25(2):322-35. PMID: 23968833
  • Lv J, Cui W, Liu H, He H et al. Identification and characterization of long non-coding RNAs related to mouse embryonic brain development from available transcriptomic data. PLoS One 2013;8(8):e71152. PMID: 23967161
  • Leng D, Huan C, Xie T, Liang J et al. Meta-analysis of genetic programs between idiopathic pulmonary fibrosis and sarcoidosis. PLoS One 2013;8(8):e71059. PMID: 23967151
  • Schmid C, Bauer S, Müller B, Bartelheimer M et al. Belowground neighbor perception in Arabidopsis thaliana studied by transcriptome analysis: roots of Hieracium pilosella cause biotic stress. Front Plant Sci 2013;4:296. PMID: 23967000
  • Li Z, Park Y, Marcotte EM et al. A Bacteriophage tailspike domain promotes self-cleavage of a human membrane-bound transcription factor, the myelin regulatory factor MYRF. PLoS Biol 2013;11(8):e1001624. PMID: 23966832
  • Whittle CA, Johannesson H et al. Evolutionary dynamics of sex-biased genes in a hermaphrodite fungus. Mol Biol Evol 2013 Nov;30(11):2435-46. PMID: 23966547
  • Dai W, Zeller C, Masrour N, Siddiqui N et al. Promoter CpG island methylation of genes in key cancer pathways associates with clinical outcome in high-grade serous ovarian cancer. Clin Cancer Res 2013 Oct 15;19(20):5788-5797. PMID: 23965899
  • Wang W, Baggerly KA, Knudsen S, Askaa J et al. Independent validation of a model using cell line chemosensitivity to predict response to therapy. J Natl Cancer Inst 2013 Sep 4;105(17):1284-91. PMID: 23964133
  • Martynoga B, Mateo JL, Zhou B, Andersen J et al. Epigenomic enhancer annotation reveals a key role for NFIX in neural stem cell quiescence. Genes Dev 2013 Aug 15;27(16):1769-86. PMID: 23964093
  • Sheppard S, Lawson ND, Zhu LJ et al. Accurate identification of polyadenylation sites from 3' end deep sequencing using a naive Bayes classifier. Bioinformatics 2013 Oct 15;29(20):2564-71. PMID: 23962617
  • de Siqueira Santos S, Takahashi DY, Nakata A, Fujita A et al. A comparative study of statistical methods used to identify dependencies between gene expression signals. Brief Bioinform 2014 Nov;15(6):906-18. PMID: 23962479
  • Saenz SA, Siracusa MC, Monticelli LA, Ziegler CG et al. IL-25 simultaneously elicits distinct populations of innate lymphoid cells and multipotent progenitor type 2 (MPPtype2) cells. J Exp Med 2013 Aug 26;210(9):1823-37. PMID: 23960191
  • Gavin DP, Chase KA, Sharma RP et al. Active DNA demethylation in post-mitotic neurons: a reason for optimism. Neuropharmacology 2013 Dec;75:233-45. PMID: 23958448
  • Taha K, Homouz D, Al Muhairi H, Al Mahmoud Z et al. GRank: a middleware search engine for ranking genes by relevance to given genes. BMC Bioinformatics 2013 Aug 19;14:251. PMID: 23957362
  • Maiorov EG, Keskin O, Ng OH, Ozbek U et al. Identification of interconnected markers for T-cell acute lymphoblastic leukemia. Biomed Res Int 2013;2013:210253. PMID: 23956970
  • Gawroński P, Górecka M, Bederska M, Rusaczonek A et al. Isochorismate synthase 1 is required for thylakoid organization, optimal plastoquinone redox status, and state transitions in Arabidopsis thaliana. J Exp Bot 2013 Sep;64(12):3669-79. PMID: 23956412
  • Wang M, Yuan D, Gao W, Li Y et al. A comparative genome analysis of PME and PMEI families reveals the evolution of pectin metabolism in plant cell walls. PLoS One 2013;8(8):e72082. PMID: 23951288
  • Guo J, Hammar M, Oberg L, Padmanabhuni SS et al. Combining evidence of preferential gene-tissue relationships from multiple sources. PLoS One 2013;8(8):e70568. PMID: 23950964
  • Honeywell DR, Cabrita MA, Zhao H, Dimitroulakos J et al. miR-105 inhibits prostate tumour growth by suppressing CDK6 levels. PLoS One 2013;8(8):e70515. PMID: 23950948
  • Leichsenring M, Maes J, Mössner R, Driever W et al. Pou5f1 transcription factor controls zygotic gene activation in vertebrates. Science 2013 Aug 30;341(6149):1005-9. PMID: 23950494
  • Masuda H, Baggerly KA, Wang Y, Zhang Y et al. Differential response to neoadjuvant chemotherapy among 7 triple-negative breast cancer molecular subtypes. Clin Cancer Res 2013 Oct 1;19(19):5533-40. PMID: 23948975
  • Kellner WA, Van Bortle K, Li L, Ramos E et al. Distinct isoforms of the Drosophila Brd4 homologue are present at enhancers, promoters and insulator sites. Nucleic Acids Res 2013 Nov;41(20):9274-83. PMID: 23945939
  • Bockmayr M, Klauschen F, Györffy B, Denkert C et al. New network topology approaches reveal differential correlation patterns in breast cancer. BMC Syst Biol 2013 Aug 15;7:78. PMID: 23945349
  • Seifuddin F, Pirooznia M, Judy JT, Goes FS et al. Systematic review of genome-wide gene expression studies of bipolar disorder. BMC Psychiatry 2013 Aug 15;13:213. PMID: 23945090
  • Liu YP, Liao WC, Ger LP, Chen JC et al. Carboxyl-terminal modulator protein positively regulates Akt phosphorylation and acts as an oncogenic driver in breast cancer. Cancer Res 2013 Oct 15;73(20):6194-205. PMID: 23943800
  • Huang H, Tang Y, He W, Huang Q et al. Key pathways and genes controlling the development and progression of clear cell renal cell carcinoma (ccRCC) based on gene set enrichment analysis. Int Urol Nephrol 2014 Mar;46(3):539-53. PMID: 23943374
  • Stevens A, Hanson D, Whatmore A, Destenaves B et al. Human growth is associated with distinct patterns of gene expression in evolutionarily conserved networks. BMC Genomics 2013 Aug 13;14:547. PMID: 23941278
  • Siltanen S, Fischer D, Rantapero T, Laitinen V et al. ARLTS1 and prostate cancer risk--analysis of expression and regulation. PLoS One 2013;8(8):e72040. PMID: 23940804
  • Zhang S, Xu R, Luo X, Jiang Z et al. Genome-wide identification and expression analysis of MAPK and MAPKK gene family in Malus domestica. Gene 2013 Dec 1;531(2):377-87. PMID: 23939467
  • Wallström SV, Florez-Sarasa I, Araújo WL, Aidemark M et al. Suppression of the external mitochondrial NADPH dehydrogenase, NDB1, in Arabidopsis thaliana affects central metabolism and vegetative growth. Mol Plant 2014 Feb;7(2):356-68. PMID: 23939432
  • Planck M, Isaksson S, Veerla S, Staaf J et al. Identification of transcriptional subgroups in EGFR-mutated and EGFR/KRAS wild-type lung adenocarcinoma reveals gene signatures associated with patient outcome. Clin Cancer Res 2013 Sep 15;19(18):5116-26. PMID: 23938291
  • Lian IA, Langaas M, Moses E, Johansson Å et al. Differential gene expression at the maternal-fetal interface in preeclampsia is influenced by gestational age. PLoS One 2013;8(7):e69848. PMID: 23936112
  • Kim BY, Lee J, Park SJ, Bang OS et al. Gene Expression Profile of the A549 Human Non-Small Cell Lung Carcinoma Cell Line following Treatment with the Seeds of Descurainia sophia, a Potential Anticancer Drug. Evid Based Complement Alternat Med 2013;2013:584604. PMID: 23935669
  • Romero-Campero FJ, Lucas-Reina E, Said FE, Romero JM et al. A contribution to the study of plant development evolution based on gene co-expression networks. Front Plant Sci 2013;4:291. PMID: 23935602
  • Brown CD, Mangravite LM, Engelhardt BE et al. Integrative modeling of eQTLs and cis-regulatory elements suggests mechanisms underlying cell type specificity of eQTLs. PLoS Genet 2013;9(8):e1003649. PMID: 23935528
  • Sung J, Kim PJ, Ma S, Funk CC et al. Multi-study integration of brain cancer transcriptomes reveals organ-level molecular signatures. PLoS Comput Biol 2013;9(7):e1003148. PMID: 23935471
  • Nikolaou C, Bermúdez I, Manichanh C, García-Martinez J et al. Topoisomerase II regulates yeast genes with singular chromatin architectures. Nucleic Acids Res 2013 Nov;41(20):9243-56. PMID: 23935120
  • Higashimoto M, Sakai Y, Takamura M, Usui S et al. Adipose tissue derived stromal stem cell therapy in murine ConA-derived hepatitis is dependent on myeloid-lineage and CD4+ T-cell suppression. Eur J Immunol 2013 Nov;43(11):2956-68. PMID: 23934743
  • Dvorkin D, Biehs B, Kechris K et al. A graphical model method for integrating multiple sources of genome-scale data. Stat Appl Genet Mol Biol 2013 Aug;12(4):469-87. PMID: 23934610
  • Wang BS, Liu Z, Sun SL, Zhao Y et al. Identification of genes and candidate agents associated with pancreatic cancer. Tumour Biol 2014 Jan;35(1):81-8. PMID: 23934415
  • Liao JG, McMurry T, Berg A et al. Prior robust empirical Bayes inference for large-scale data by conditioning on rank with application to microarray data. Biostatistics 2014 Jan;15(1):60-73. PMID: 23934072
  • Ergun A, Doran G, Costello JC, Paik HH et al. Differential splicing across immune system lineages. Proc Natl Acad Sci U S A 2013 Aug 27;110(35):14324-9. PMID: 23934048
  • Chiang CH, Huo TI, Sun CC, Hsieh JH et al. Induced pluripotent stem cells and hepatic differentiation. J Chin Med Assoc 2013 Nov;76(11):599-605. PMID: 23933345
  • Xu C, Ye B, Han Z, Huang M et al. Comparison of transcriptional profiles between CD4+ and CD8+ T cells in HIV type 1-infected patients. AIDS Res Hum Retroviruses 2014 Feb;30(2):134-41. PMID: 23931628
  • Górnikiewicz B, Ronowicz A, Podolak J, Madanecki P et al. Epigenetic basis of regeneration: analysis of genomic DNA methylation profiles in the MRL/MpJ mouse. DNA Res 2013 Dec;20(6):605-21. PMID: 23929942
  • Nayar S, Sharma R, Tyagi AK, Kapoor S et al. Functional delineation of rice MADS29 reveals its role in embryo and endosperm development by affecting hormone homeostasis. J Exp Bot 2013 Nov;64(14):4239-53. PMID: 23929654
  • Park JE, Yuen HF, Zhou JB, Al-Aidaroos AQ et al. Oncogenic roles of PRL-3 in FLT3-ITD induced acute myeloid leukaemia. EMBO Mol Med 2013 Sep;5(9):1351-66. PMID: 23929599
  • Jia F, Wu B, Li H, Huang J et al. Genome-wide identification and characterisation of F-box family in maize. Mol Genet Genomics 2013 Nov;288(11):559-77. PMID: 23928825
  • Anania MC, Miranda C, Vizioli MG, Mazzoni M et al. S100A11 overexpression contributes to the malignant phenotype of papillary thyroid carcinoma. J Clin Endocrinol Metab 2013 Oct;98(10):E1591-600. PMID: 23928665
  • Tang M, Shen H, Jin Y, Lin T et al. The malignant brain tumor (MBT) domain protein SFMBT1 is an integral histone reader subunit of the LSD1 demethylase complex for chromatin association and epithelial-to-mesenchymal transition. J Biol Chem 2013 Sep 20;288(38):27680-27691. PMID: 23928305
  • Orsini M, Travaglione A, Capobianco E et al. Cancer markers: integratively annotated classification. Gene 2013 Nov 10;530(2):257-65. PMID: 23928109
  • Bonetti P, Testoni M, Scandurra M, Ponzoni M et al. Deregulation of ETS1 and FLI1 contributes to the pathogenesis of diffuse large B-cell lymphoma. Blood 2013 Sep 26;122(13):2233-41. PMID: 23926301
  • Palpant NJ, Pabon L, Rabinowitz JS, Hadland BK et al. Transmembrane protein 88: a Wnt regulatory protein that specifies cardiomyocyte development. Development 2013 Sep;140(18):3799-808. PMID: 23924634
  • Jiang SY, Ramachandran S et al. Genome-wide survey and comparative analysis of LTR retrotransposons and their captured genes in rice and sorghum. PLoS One 2013;8(7):e71118. PMID: 23923055
  • Afanasiev OK, Yelistratova L, Miller N, Nagase K et al. Merkel polyomavirus-specific T cells fluctuate with merkel cell carcinoma burden and express therapeutically targetable PD-1 and Tim-3 exhaustion markers. Clin Cancer Res 2013 Oct 1;19(19):5351-60. PMID: 23922299
  • Rosenwasser S, Fluhr R, Joshi JR, Leviatan N et al. ROSMETER: a bioinformatic tool for the identification of transcriptomic imprints related to reactive oxygen species type and origin provides new insights into stress responses. Plant Physiol 2013 Oct;163(2):1071-83. PMID: 23922270
  • Gauthier M, Marteyn A, Denis JA, Cailleret M et al. A defective Krab-domain zinc-finger transcription factor contributes to altered myogenesis in myotonic dystrophy type 1. Hum Mol Genet 2013 Dec 20;22(25):5188-98. PMID: 23922231
  • Yaari G, Bolen CR, Thakar J, Kleinstein SH et al. Quantitative set analysis for gene expression: a method to quantify gene set differential expression including gene-gene correlations. Nucleic Acids Res 2013 Oct;41(18):e170. PMID: 23921631
  • Singareddy R, Semaan L, Conley-Lacomb MK, St John J et al. Transcriptional regulation of CXCR4 in prostate cancer: significance of TMPRSS2-ERG fusions. Mol Cancer Res 2013 Nov;11(11):1349-61. PMID: 23918819
  • Ma Y, Wang B, Jiang F, Wang D et al. A feedback loop consisting of microRNA 23a/27a and the β-like globin suppressors KLF3 and SP1 regulates globin gene expression. Mol Cell Biol 2013 Oct;33(20):3994-4007. PMID: 23918807
  • Jene-Sanz A, Váraljai R, Vilkova AV, Khramtsova GF et al. Expression of polycomb targets predicts breast cancer prognosis. Mol Cell Biol 2013 Oct;33(19):3951-61. PMID: 23918806
  • Yun J, Pannuti A, Espinoza I, Zhu H et al. Crosstalk between PKCα and Notch-4 in endocrine-resistant breast cancer cells. Oncogenesis 2013 Aug 5;2(8):e60. PMID: 23917222
  • Zhang J, Li J, Liu B, Zhang L et al. Genome-wide analysis of the Populus Hsp90 gene family reveals differential expression patterns, localization, and heat stress responses. BMC Genomics 2013 Aug 5;14:532. PMID: 23915275
  • Outten FW, Munson GP et al. Lability and liability of endogenous copper pools. J Bacteriol 2013 Oct;195(20):4553-5. PMID: 23913325
  • Fam HK, Walton C, Mitra SA, Chowdhury M et al. TDP1 and PARP1 deficiency are cytotoxic to rhabdomyosarcoma cells. Mol Cancer Res 2013 Oct;11(10):1179-92. PMID: 23913164
  • Wieland A, Trageser D, Gogolok S, Reinartz R et al. Anticancer effects of niclosamide in human glioblastoma. Clin Cancer Res 2013 Aug 1;19(15):4124-36. PMID: 23908450
  • Heyn H, Moran S, Hernando-Herraez I, Sayols S et al. DNA methylation contributes to natural human variation. Genome Res 2013 Sep;23(9):1363-72. PMID: 23908385
  • Wang J, Qian J, Hoeksema MD, Zou Y et al. Integrative genomics analysis identifies candidate drivers at 3q26-29 amplicon in squamous cell carcinoma of the lung. Clin Cancer Res 2013 Oct 15;19(20):5580-90. PMID: 23908357
  • Sintupisut N, Liu PL, Yeang CH et al. An integrative characterization of recurrent molecular aberrations in glioblastoma genomes. Nucleic Acids Res 2013 Oct;41(19):8803-21. PMID: 23907387
  • Koestler DC, Christensen B, Karagas MR, Marsit CJ et al. Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis. Epigenetics 2013 Aug;8(8):816-26. PMID: 23903776
  • Chien YH, Werner ME, Stubbs J, Joens MS et al. Bbof1 is required to maintain cilia orientation. Development 2013 Aug;140(16):3468-77. PMID: 23900544
  • Fagerholm R, Sprott K, Heikkinen T, Bartkova J et al. Overabundant FANCD2, alone and combined with NQO1, is a sensitive marker of adverse prognosis in breast cancer. Ann Oncol 2013 Nov;24(11):2780-5. PMID: 23897704
  • Lasher CD, Rajagopalan P, Murali TM et al. Summarizing cellular responses as biological process networks. BMC Syst Biol 2013 Jul 29;7:68. PMID: 23895181
  • Erhard F, Dölken L, Jaskiewicz L, Zimmer R et al. PARma: identification of microRNA target sites in AGO-PAR-CLIP data. Genome Biol 2013 Jul 29;14(7):R79. PMID: 23895117
  • Harvey R, Schuster E, Jennings BH et al. Pleiohomeotic interacts with the core transcription elongation factor Spt5 to regulate gene expression in Drosophila. PLoS One 2013;8(7):e70184. PMID: 23894613
  • Camilo E, Bovolenta LA, Acencio ML, Rybarczyk-Filho JL et al. GALANT: a Cytoscape plugin for visualizing data as functional landscapes projected onto biological networks. Bioinformatics 2013 Oct 1;29(19):2505-6. PMID: 23894138
  • Sambarey A, Prashanthi K, Chandra N et al. Mining large-scale response networks reveals 'topmost activities' in Mycobacterium tuberculosis infection. Sci Rep 2013;3:2302. PMID: 23892477
  • Sun L, Luo H, Bu D, Zhao G et al. Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts. Nucleic Acids Res 2013 Sep;41(17):e166. PMID: 23892401
  • Ivanova MM, Radde BN, Son J, Mehta FF et al. Estradiol and tamoxifen regulate NRF-1 and mitochondrial function in mouse mammary gland and uterus. J Mol Endocrinol 2013 Oct;51(2):233-46. PMID: 23892277
  • Hodge E, Nelson CP, Miller S, Billington CK et al. HTR4 gene structure and altered expression in the developing lung. Respir Res 2013 Jul 26;14(1):77. PMID: 23890215
  • Glass D, Viñuela A, Davies MN, Ramasamy A et al. Gene expression changes with age in skin, adipose tissue, blood and brain. Genome Biol 2013 Jul 26;14(7):R75. PMID: 23889843
  • Ma X, Shao C, Wang H, Jin Y et al. Construction of small RNA-mediated gene regulatory networks in the roots of rice (Oryza sativa). BMC Genomics 2013 Jul 27;14:510. PMID: 23889819
  • Yamasaki T, Seki N, Yoshino H, Itesako T et al. Tumor-suppressive microRNA-1291 directly regulates glucose transporter 1 in renal cell carcinoma. Cancer Sci 2013 Nov;104(11):1411-9. PMID: 23889809
  • Henriquez NV, Forshew T, Tatevossian R, Ellis M et al. Comparative expression analysis reveals lineage relationships between human and murine gliomas and a dominance of glial signatures during tumor propagation in vitro. Cancer Res 2013 Sep 15;73(18):5834-44. PMID: 23887970
  • Xiao J, Yiqing Q et al. Bioinformatics analysis of the gene expression profile in Bladder carcinoma. Genet Mol Biol 2013 Jul;36(2):287-91. PMID: 23885213
  • Xia Y, Fang H, Zhang J, Du Y et al. Endoplasmic reticulum stress-mediated apoptosis in imatinib-resistant leukemic K562-r cells triggered by AMN107 combined with arsenic trioxide. Exp Biol Med (Maywood) 2013 Aug 1;238(8):932-42. PMID: 23883479
  • Sun SY, Liu ZP, Zeng T, Wang Y et al. Spatio-temporal analysis of type 2 diabetes mellitus based on differential expression networks. Sci Rep 2013;3:2268. PMID: 23881262
  • Valdes-Quezada C, Arriaga-Canon C, Fonseca-Guzmán Y, Guerrero G et al. CTCF demarcates chicken embryonic α-globin gene autonomous silencing and contributes to adult stage-specific gene expression. Epigenetics 2013 Aug;8(8):827-38. PMID: 23880533
  • Vital-Lopez FG, Wallqvist A, Reifman J et al. Bridging the gap between gene expression and metabolic phenotype via kinetic models. BMC Syst Biol 2013 Jul 22;7:63. PMID: 23875723
  • Trevarton AJ, Mann MB, Knapp C, Araki H et al. MelanomaDB: A Web Tool for Integrative Analysis of Melanoma Genomic Information to Identify Disease-Associated Molecular Pathways. Front Oncol 2013;3:184. PMID: 23875173
  • Witten DMPenalized unsupervised learning with outliers. Stat Interface 2013;6(2):211-221. PMID: 23875057
  • Kleinrouweler CE, van Uitert M, Moerland PD, Ris-Stalpers C et al. Differentially expressed genes in the pre-eclamptic placenta: a systematic review and meta-analysis. PLoS One 2013;8(7):e68991. PMID: 23874842
  • Ficklin SP, Feltus FA et al. A systems-genetics approach and data mining tool to assist in the discovery of genes underlying complex traits in Oryza sativa. PLoS One 2013;8(7):e68551. PMID: 23874666
  • Kong L, Tuomela S, Hahne L, Ahlfors H et al. NanoMiner - integrative human transcriptomics data resource for nanoparticle research. PLoS One 2013;8(7):e68414. PMID: 23874618
  • Li CM, Chen G, Dayton TL, Kim-Kiselak C et al. Differential Tks5 isoform expression contributes to metastatic invasion of lung adenocarcinoma. Genes Dev 2013 Jul 15;27(14):1557-67. PMID: 23873940
  • Carbotti G, Barisione G, Orengo AM, Brizzolara A et al. The IL-18 antagonist IL-18-binding protein is produced in the human ovarian cancer microenvironment. Clin Cancer Res 2013 Sep 1;19(17):4611-20. PMID: 23873689
  • Saleh SM, Parhar RS, Al-Hejailan RS, Bakheet RH et al. Identification of the tetraspanin CD82 as a new barrier to xenotransplantation. J Immunol 2013 Sep 1;191(5):2796-805. PMID: 23872050
  • Masiero M, Simões FC, Han HD, Snell C et al. A core human primary tumor angiogenesis signature identifies the endothelial orphan receptor ELTD1 as a key regulator of angiogenesis. Cancer Cell 2013 Aug 12;24(2):229-41. PMID: 23871637
  • Liu YC, Cheng CP, Tseng VS et al. Mining differential top-k co-expression patterns from time course comparative gene expression datasets. BMC Bioinformatics 2013 Jul 21;14:230. PMID: 23870110
  • Song W, Zhu H, Li M, Li N et al. Promyelocytic leukaemia zinc finger maintains self-renewal of male germline stem cells (mGSCs) and its expression pattern in dairy goat testis. Cell Prolif 2013 Aug;46(4):457-68. PMID: 23869766
  • Hu CW, Tseng CW, Chien CW, Huang HC et al. Quantitative proteomics reveals diverse roles of miR-148a from gastric cancer progression to neurological development. J Proteome Res 2013 Sep 6;12(9):3993-4004. PMID: 23869555
  • Nogai H, Wenzel SS, Hailfinger S, Grau M et al. IκB-ζ controls the constitutive NF-κB target gene network and survival of ABC DLBCL. Blood 2013 Sep 26;122(13):2242-50. PMID: 23869088
  • Bhattacharya I, Drägert K, Albert V, Contassot E et al. Rictor in perivascular adipose tissue controls vascular function by regulating inflammatory molecule expression. Arterioscler Thromb Vasc Biol 2013 Sep;33(9):2105-11. PMID: 23868942
  • Soreq L, Bergman H, Israel Z, Soreq H et al. Deep brain stimulation modulates nonsense-mediated RNA decay in Parkinson's patients leukocytes. BMC Genomics 2013 Jul 16;14:478. PMID: 23865419
  • Lund E, Oldenburg AR, Delbarre E, Freberg CT et al. Lamin A/C-promoter interactions specify chromatin state-dependent transcription outcomes. Genome Res 2013 Oct;23(10):1580-9. PMID: 23861385
  • Bard-Chapeau EA, Gunaratne J, Kumar P, Chua BQ et al. EVI1 oncoprotein interacts with a large and complex network of proteins and integrates signals through protein phosphorylation. Proc Natl Acad Sci U S A 2013 Jul 30;110(31):E2885-94. PMID: 23858473
  • Mansour MR, Sanda T, Lawton LN, Li X et al. The TAL1 complex targets the FBXW7 tumor suppressor by activating miR-223 in human T cell acute lymphoblastic leukemia. J Exp Med 2013 Jul 29;210(8):1545-57. PMID: 23857984
  • Piccaluga PP, Fuligni F, De Leo A, Bertuzzi C et al. Molecular profiling improves classification and prognostication of nodal peripheral T-cell lymphomas: results of a phase III diagnostic accuracy study. J Clin Oncol 2013 Aug 20;31(24):3019-25. PMID: 23857971
  • Shaykhiev R, Wang R, Zwick RK, Hackett NR et al. Airway basal cells of healthy smokers express an embryonic stem cell signature relevant to lung cancer. Stem Cells 2013 Sep;31(9):1992-2002. PMID: 23857717
  • Wang C, Liu X, Liu Y, Zhang Q et al. Zinc finger protein 64 promotes Toll-like receptor-triggered proinflammatory and type I interferon production in macrophages by enhancing p65 subunit activation. J Biol Chem 2013 Aug 23;288(34):24600-8. PMID: 23857586
  • Zhang C, Li G, Wang J, Zhu S et al. Cascading cis-cleavage on transcript from trans-acting siRNA-producing locus 3. Int J Mol Sci 2013 Jul 12;14(7):14689-99. PMID: 23857062
  • Rosenfeld GE, Mercer EJ, Mason CE, Evans T et al. Small heat shock proteins Hspb7 and Hspb12 regulate early steps of cardiac morphogenesis. Dev Biol 2013 Sep 15;381(2):389-400. PMID: 23850773
  • Shao C, Wu Q, Qiu J, Jin S et al. Identification of novel microRNA-like-coding sites on the long-stem microRNA precursors in Arabidopsis. Gene 2013 Sep 25;527(2):477-83. PMID: 23850578
  • Som A, Wen S, Tu SM et al. Stem cell origin of testicular seminoma. Clin Genitourin Cancer 2013 Dec;11(4):489-94. PMID: 23850550
  • Yang Z, Yang J, Liu W, Wu L et al. T2D@ZJU: a knowledgebase integrating heterogeneous connections associated with type 2 diabetes mellitus. Database (Oxford) 2013;2013:bat052. PMID: 23846596
  • Yoon JH, Choi YJ, Choi WS, Ashktorab H et al. GKN1-miR-185-DNMT1 axis suppresses gastric carcinogenesis through regulation of epigenetic alteration and cell cycle. Clin Cancer Res 2013 Sep 1;19(17):4599-610. PMID: 23846337
  • Park SM, Park SJ, Kim HJ, Kwon OH et al. A known expressed sequence tag, BM742401, is a potent lincRNA inhibiting cancer metastasis. Exp Mol Med 2013 Jul 12;45(7):e31. PMID: 23846333
  • Chandrasekharan S, Kandasamy KK, Dayalan P, Ramamurthy V et al. Estrogen induced concentration dependent differential gene expression in human breast cancer (MCF7) cells: role of transcription factors. Biochem Biophys Res Commun 2013 Aug 2;437(3):475-81. PMID: 23845903
  • Lu J, Bushel PR et al. Dynamic expression of 3' UTRs revealed by Poisson hidden Markov modeling of RNA-Seq: implications in gene expression profiling. Gene 2013 Sep 25;527(2):616-23. PMID: 23845781
  • Alonso A, Marsal S, Tortosa R, Canela-Xandri O et al. GStream: improving SNP and CNV coverage on genome-wide association studies. PLoS One 2013;8(7):e68822. PMID: 23844243
  • Diao H, Xiao S, Howerth EW, Zhao F et al. Broad gap junction blocker carbenoxolone disrupts uterine preparation for embryo implantation in mice. Biol Reprod 2013 Aug;89(2):31. PMID: 23843229
  • Liu W, Li C, Xu Y, Yang H et al. Topologically inferring risk-active pathways toward precise cancer classification by directed random walk. Bioinformatics 2013 Sep 1;29(17):2169-77. PMID: 23842813
  • Bianchi V, Colantoni A, Calderone A, Ausiello G et al. DBATE: database of alternative transcripts expression. Database (Oxford) 2013;2013:bat050. PMID: 23842462
  • Chen J, Zhang D, Zhang W, Tang Y et al. Clear cell renal cell carcinoma associated microRNA expression signatures identified by an integrated bioinformatics analysis. J Transl Med 2013 Jul 10;11:169. PMID: 23841900
  • McArt DG, Dunne PD, Blayney JK, Salto-Tellez M et al. Connectivity Mapping for Candidate Therapeutics Identification Using Next Generation Sequencing RNA-Seq Data. PLoS One 2013;8(6):e66902. PMID: 23840550
  • Sugathan A, Waxman DJ et al. Genome-wide analysis of chromatin states reveals distinct mechanisms of sex-dependent gene regulation in male and female mouse liver. Mol Cell Biol 2013 Sep;33(18):3594-610. PMID: 23836885
  • Chen G, Sullivan PF, Kosorok MR et al. Biclustering with heterogeneous variance. Proc Natl Acad Sci U S A 2013 Jul 23;110(30):12253-8. PMID: 23836637
  • Rizwan A, Serganova I, Khanin R, Karabeber H et al. Relationships between LDH-A, lactate, and metastases in 4T1 breast tumors. Clin Cancer Res 2013 Sep 15;19(18):5158-69. PMID: 23833310
  • Chuang HN, van Rossum D, Sieger D, Siam L et al. Carcinoma cells misuse the host tissue damage response to invade the brain. Glia 2013 Aug;61(8):1331-46. PMID: 23832647
  • van Munster JM, Nitsche BM, Krijgsheld P, van Wijk A et al. Chitinases CtcB and CfcI modify the cell wall in sporulating aerial mycelium of Aspergillus niger. Microbiology (Reading) 2013 Sep;159(Pt 9):1853-1867. PMID: 23832003
  • Terao C, Yoshifuji H, Kimura A, Matsumura T et al. Two susceptibility loci to Takayasu arteritis reveal a synergistic role of the IL12B and HLA-B regions in a Japanese population. Am J Hum Genet 2013 Aug 8;93(2):289-97. PMID: 23830516
  • Lin CC, Lee CH, Fuh CS, Juan HF et al. Link clustering reveals structural characteristics and biological contexts in signed molecular networks. PLoS One 2013;8(6):e67089. PMID: 23826198
  • Zhu S, Wang G, Liu B, Wang Y et al. Modeling exon expression using histone modifications. PLoS One 2013;8(6):e67448. PMID: 23825663
  • Zhong X, Zhang H, Zhao Y, Sun Q et al. The rice NAD(+)-dependent histone deacetylase OsSRT1 targets preferentially to stress- and metabolism-related genes and transposable elements. PLoS One 2013;8(6):e66807. PMID: 23825566
  • Cagnetta A, Cea M, Calimeri T, Acharya C et al. Intracellular NAD⁺ depletion enhances bortezomib-induced anti-myeloma activity. Blood 2013 Aug 15;122(7):1243-55. PMID: 23823317
  • Werner T, Dombrowski SM, Zgheib C, Zouein FA et al. Elucidating functional context within microarray data by integrated transcription factor-focused gene-interaction and regulatory network analysis. Eur Cytokine Netw 2013 Jun;24(2):75-90. PMID: 23822978
  • Hwang TH, Atluri G, Kuang R, Kumar V et al. Large-scale integrative network-based analysis identifies common pathways disrupted by copy number alterations across cancers. BMC Genomics 2013 Jul 3;14:440. PMID: 23822816
  • Osmanbeyoglu HU, Lu KN, Oesterreich S, Day RS et al. Estrogen represses gene expression through reconfiguring chromatin structures. Nucleic Acids Res 2013 Sep;41(17):8061-71. PMID: 23821662
  • Kim H, Abd Elmageed ZY, Ju J, Naura AS et al. PDZK1 is a novel factor in breast cancer that is indirectly regulated by estrogen through IGF-1R and promotes estrogen-mediated growth. Mol Med 2013 Aug 28;19(1):253-62. PMID: 23821363
  • Madden SF, Clarke C, Gaule P, Aherne ST et al. BreastMark: an integrated approach to mining publicly available transcriptomic datasets relating to breast cancer outcome. Breast Cancer Res 2013;15(4):R52. PMID: 23820017
  • Zhernakova DV, de Klerk E, Westra HJ, Mastrokolias A et al. DeepSAGE reveals genetic variants associated with alternative polyadenylation and expression of coding and non-coding transcripts. PLoS Genet 2013 Jun;9(6):e1003594. PMID: 23818875
  • Huang H, Jiang X, Li Z, Li Y et al. TET1 plays an essential oncogenic role in MLL-rearranged leukemia. Proc Natl Acad Sci U S A 2013 Jul 16;110(29):11994-9. PMID: 23818607
  • Lu J, Zavorotinskaya T, Dai Y, Niu XH et al. Pim2 is required for maintaining multiple myeloma cell growth through modulating TSC2 phosphorylation. Blood 2013 Aug 29;122(9):1610-20. PMID: 23818547
  • Tsai WC, Chen Y, Huang LC, Lee HS et al. EMMPRIN expression positively correlates with WHO grades of astrocytomas and meningiomas. J Neurooncol 2013 Sep;114(3):281-90. PMID: 23817808
  • Skerget S, Rosenow M, Polpitiya A, Petritis K et al. The Rhesus macaque (Macaca mulatta) sperm proteome. Mol Cell Proteomics 2013 Nov;12(11):3052-67. PMID: 23816990
  • Dinu I, Wang X, Kelemen LE, Vatanpour S et al. Linear combination test for gene set analysis of a continuous phenotype. BMC Bioinformatics 2013 Jul 1;14:212. PMID: 23815123
  • Griffin RM, Dean R, Grace JL, Rydén P et al. The shared genome is a pervasive constraint on the evolution of sex-biased gene expression. Mol Biol Evol 2013 Sep;30(9):2168-76. PMID: 23813981
  • Bonzanni N, Garg A, Feenstra KA, Schütte J et al. Hard-wired heterogeneity in blood stem cells revealed using a dynamic regulatory network model. Bioinformatics 2013 Jul 1;29(13):i80-8. PMID: 23813012
  • Kshirsagar M, Carbonell J, Klein-Seetharaman J et al. Multitask learning for host-pathogen protein interactions. Bioinformatics 2013 Jul 1;29(13):i217-26. PMID: 23812987
  • Schnerch D, Schmidts A, Follo M, Udi J et al. BubR1 is frequently repressed in acute myeloid leukemia and its re-expression sensitizes cells to antimitotic therapy. Haematologica 2013 Dec;98(12):1886-95. PMID: 23812934
  • Wei R, Huang GL, Zhang MY, Li BK et al. Clinical significance and prognostic value of microRNA expression signatures in hepatocellular carcinoma. Clin Cancer Res 2013 Sep 1;19(17):4780-91. PMID: 23812667
  • Smalling RV, Delker DA, Zhang Y, Nieto N et al. Genome-wide transcriptome analysis identifies novel gene signatures implicated in human chronic liver disease. Am J Physiol Gastrointest Liver Physiol 2013 Sep 1;305(5):G364-74. PMID: 23812039
  • Du W, Jiang P, Mancuso A, Stonestrom A et al. TAp73 enhances the pentose phosphate pathway and supports cell proliferation. Nat Cell Biol 2013 Aug;15(8):991-1000. PMID: 23811687
  • Schlesinger F, Smith AD, Gingeras TR, Hannon GJ et al. De novo DNA demethylation and noncoding transcription define active intergenic regulatory elements. Genome Res 2013 Oct;23(10):1601-14. PMID: 23811145
  • Takahashi Y, Sawada G, Kurashige J, Uchi R et al. Paired related homoeobox 1, a new EMT inducer, is involved in metastasis and poor prognosis in colorectal cancer. Br J Cancer 2013 Jul 23;109(2):307-11. PMID: 23807160
  • Jha A, Shankar R et al. miReader: Discovering Novel miRNAs in Species without Sequenced Genome. PLoS One 2013;8(6):e66857. PMID: 23805282
  • Chen JL, Espinosa I, Lin AY, Liao OY et al. Stromal responses among common carcinomas correlated with clinicopathologic features. Clin Cancer Res 2013 Sep 15;19(18):5127-35. PMID: 23804424
  • Zhang B, Zhou Y, Lin N, Lowdon RF et al. Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm. Genome Res 2013 Sep;23(9):1522-40. PMID: 23804400
  • Cao WJ, Wu HL, He BS, Zhang YS et al. Analysis of long non-coding RNA expression profiles in gastric cancer. World J Gastroenterol 2013 Jun 21;19(23):3658-64. PMID: 23801869
  • Oehme I, Linke JP, Böck BC, Milde T et al. Histone deacetylase 10 promotes autophagy-mediated cell survival. Proc Natl Acad Sci U S A 2013 Jul 9;110(28):E2592-601. PMID: 23801752
  • Case LK, Wall EH, Dragon JA, Saligrama N et al. The Y chromosome as a regulatory element shaping immune cell transcriptomes and susceptibility to autoimmune disease. Genome Res 2013 Sep;23(9):1474-85. PMID: 23800453
  • Wei SC, Tsao PN, Weng MT, Cao Z et al. Flt-1 in colorectal cancer cells is required for the tumor invasive effect of placental growth factor through a p38-MMP9 pathway. J Biomed Sci 2013 Jun 21;20(1):39. PMID: 23799978
  • Schep AN, Adryan B et al. A comparative analysis of transcription factor expression during metazoan embryonic development. PLoS One 2013;8(6):e66826. PMID: 23799133
  • Chen P, Price C, Li Z, Li Y et al. miR-9 is an essential oncogenic microRNA specifically overexpressed in mixed lineage leukemia-rearranged leukemia. Proc Natl Acad Sci U S A 2013 Jul 9;110(28):11511-6. PMID: 23798388
  • Hyduke DR, Laiakis EC, Li HH, Fornace AJ Jr et al. Identifying radiation exposure biomarkers from mouse blood transcriptome. Int J Bioinform Res Appl 2013;9(4):365-85. PMID: 23797995
  • Zuberi K, Franz M, Rodriguez H, Montojo J et al. GeneMANIA prediction server 2013 update. Nucleic Acids Res 2013 Jul;41(Web Server issue):W115-22. PMID: 23794635
  • Malik AI, Rowan-Carroll A, Williams A, Lemieux CL et al. Hepatic genotoxicity and toxicogenomic responses in Muta™Mouse males treated with dibenz[a,h]anthracene. Mutagenesis 2013 Sep;28(5):543-54. PMID: 23793610
  • Moen EL, Zhang X, Mu W, Delaney SM et al. Genome-wide variation of cytosine modifications between European and African populations and the implications for complex traits. Genetics 2013 Aug;194(4):987-96. PMID: 23792949
  • Liu Y, Hu W, Murakawa Y, Yin J et al. Cold-induced RNA-binding proteins regulate circadian gene expression by controlling alternative polyadenylation. Sci Rep 2013;3:2054. PMID: 23792593
  • Wen DY, Geng J, Li W, Guo CC et al. A computational bioinformatics analysis of gene expression identifies candidate agents for prostate cancer. Andrologia 2014 Aug;46(6):625-32. PMID: 23790256
  • Shi X, Shen S, Liu J, Huang J et al. Similarity of markers identified from cancer gene expression studies: observations from GEO. Brief Bioinform 2014 Sep;15(5):671-84. PMID: 23788798
  • Vagin VV, Yu Y, Jankowska A, Luo Y et al. Minotaur is critical for primary piRNA biogenesis. RNA 2013 Aug;19(8):1064-77. PMID: 23788724
  • Kan Z, Zheng H, Liu X, Li S et al. Whole-genome sequencing identifies recurrent mutations in hepatocellular carcinoma. Genome Res 2013 Sep;23(9):1422-33. PMID: 23788652
  • Leventhal JR, Mathew JM, Salomon DR, Kurian SM et al. Genomic biomarkers correlate with HLA-identical renal transplant tolerance. J Am Soc Nephrol 2013 Sep;24(9):1376-85. PMID: 23787913
  • Hightower CM, Zhang K, Miramontes-González JP, Rao F et al. Genetic variation at the delta-sarcoglycan (SGCD) locus elevates heritable sympathetic nerve activity in human twin pairs. J Neurochem 2013 Dec;127(6):750-61. PMID: 23786442
  • Vaiman D, Calicchio R, Miralles F et al. Landscape of transcriptional deregulations in the preeclamptic placenta. PLoS One 2013;8(6):e65498. PMID: 23785430
  • Smits BM, Haag JD, Rissman AI, Sharma D et al. The gene desert mammary carcinoma susceptibility locus Mcs1a regulates Nr2f1 modifying mammary epithelial cell differentiation and proliferation. PLoS Genet 2013 Jun;9(6):e1003549. PMID: 23785296
  • Valor LM, Guiretti D, Lopez-Atalaya JP, Barco A et al. Genomic landscape of transcriptional and epigenetic dysregulation in early onset polyglutamine disease. J Neurosci 2013 Jun 19;33(25):10471-82. PMID: 23785159
  • Weghorn D, Lässig M et al. Fitness landscape for nucleosome positioning. Proc Natl Acad Sci U S A 2013 Jul 2;110(27):10988-93. PMID: 23784778
  • Lee ST, Feng M, Wei Y, Li Z et al. Protein tyrosine phosphatase UBASH3B is overexpressed in triple-negative breast cancer and promotes invasion and metastasis. Proc Natl Acad Sci U S A 2013 Jul 2;110(27):11121-6. PMID: 23784775
  • García I, Rosas T, Bejarano ER, Gotor C et al. Transient transcriptional regulation of the CYS-C1 gene and cyanide accumulation upon pathogen infection in the plant immune response. Plant Physiol 2013 Aug;162(4):2015-27. PMID: 23784464
  • Richards KL, Motsinger-Reif AA, Chen HW, Fedoriw Y et al. Gene profiling of canine B-cell lymphoma reveals germinal center and postgerminal center subtypes with different survival times, modeling human DLBCL. Cancer Res 2013 Aug 15;73(16):5029-39. PMID: 23783577
  • Yang IV, Coldren CD, Leach SM, Seibold MA et al. Expression of cilium-associated genes defines novel molecular subtypes of idiopathic pulmonary fibrosis. Thorax 2013 Dec;68(12):1114-21. PMID: 23783374
  • Wu H, Qin ZS et al. Exploring the cooccurrence patterns of multiple sets of genomic intervals. Biomed Res Int 2013;2013:617545. PMID: 23781505
  • Usary J, Zhao W, Darr D, Roberts PJ et al. Predicting drug responsiveness in human cancers using genetically engineered mice. Clin Cancer Res 2013 Sep 1;19(17):4889-99. PMID: 23780888
  • Behura SK, Severson DW et al. Overlapping genes of Aedes aegypti: evolutionary implications from comparison with orthologs of Anopheles gambiae and other insects. BMC Evol Biol 2013 Jun 18;13:124. PMID: 23777277
  • Vilchez Larrea SC, Schlesinger M, Kevorkian ML, Flawiá MM et al. Host cell poly(ADP-ribose) glycohydrolase is crucial for Trypanosoma cruzi infection cycle. PLoS One 2013;8(6):e67356. PMID: 23776710
  • Hwang MS, Yu N, Stinson SY, Yue P et al. miR-221/222 targets adiponectin receptor 1 to promote the epithelial-to-mesenchymal transition in breast cancer. PLoS One 2013;8(6):e66502. PMID: 23776679
  • Bianchi M, Crinelli R, Giacomini E, Carloni E et al. Yin Yang 1 intronic binding sequences and splicing elicit intron-mediated enhancement of ubiquitin C gene expression. PLoS One 2013;8(6):e65932. PMID: 23776572
  • Loi S, Pommey S, Haibe-Kains B, Beavis PA et al. CD73 promotes anthracycline resistance and poor prognosis in triple negative breast cancer. Proc Natl Acad Sci U S A 2013 Jul 2;110(27):11091-6. PMID: 23776241
  • Cepeda D, Ng HF, Sharifi HR, Mahmoudi S et al. CDK-mediated activation of the SCF(FBXO) (28) ubiquitin ligase promotes MYC-driven transcription and tumourigenesis and predicts poor survival in breast cancer. EMBO Mol Med 2013 Jul;5(7):1067-86. PMID: 23776131
  • Kiaii S, Clear AJ, Ramsay AG, Davies D et al. Follicular lymphoma cells induce changes in T-cell gene expression and function: potential impact on survival and risk of transformation. J Clin Oncol 2013 Jul 20;31(21):2654-61. PMID: 23775959
  • Menendez D, Nguyen TA, Freudenberg JM, Mathew VJ et al. Diverse stresses dramatically alter genome-wide p53 binding and transactivation landscape in human cancer cells. Nucleic Acids Res 2013 Aug;41(15):7286-301. PMID: 23775793
  • Woo CJ, Kharchenko PV, Daheron L, Park PJ et al. Variable requirements for DNA-binding proteins at polycomb-dependent repressive regions in human HOX clusters. Mol Cell Biol 2013 Aug;33(16):3274-85. PMID: 23775117
  • Fortin Ensign SP, Mathews IT, Eschbacher JM, Loftus JC et al. The Src homology 3 domain-containing guanine nucleotide exchange factor is overexpressed in high-grade gliomas and promotes tumor necrosis factor-like weak inducer of apoptosis-fibroblast growth factor-inducible 14-induced cell migration and invasion via tumor necrosis factor receptor-associated factor 2. J Biol Chem 2013 Jul 26;288(30):21887-97. PMID: 23775076
  • D'Alfonso TM, van Laar RK, Vahdat LT, Hussain W et al. BreastPRS is a gene expression assay that stratifies intermediate-risk Oncotype DX patients into high- or low-risk for disease recurrence. Breast Cancer Res Treat 2013 Jun;139(3):705-15. PMID: 23774991
  • Madak-Erdogan Z, Charn TH, Jiang Y, Liu ET et al. Integrative genomics of gene and metabolic regulation by estrogen receptors α and β, and their coregulators. Mol Syst Biol 2013 Jun 18;9:676. PMID: 23774759
  • Cui B, Zhang S, Chen L, Yu J et al. Targeting ROR1 inhibits epithelial-mesenchymal transition and metastasis. Cancer Res 2013 Jun 15;73(12):3649-60. PMID: 23771907
  • Li H, Duhachek-Muggy S, Dubnicka S, Zolkiewska A et al. Metalloproteinase-disintegrin ADAM12 is associated with a breast tumor-initiating cell phenotype. Breast Cancer Res Treat 2013 Jun;139(3):691-703. PMID: 23771733
  • Guo WG, Zhang Y, Ge D, Zhang YX et al. Bioinformatics analyses combined microarray identify the desregulated microRNAs in lung cancer. Eur Rev Med Pharmacol Sci 2013 Jun;17(11):1509-16. PMID: 23771539
  • van Iterson M, Bervoets S, de Meijer EJ, Buermans HP et al. Integrated analysis of microRNA and mRNA expression: adding biological significance to microRNA target predictions. Nucleic Acids Res 2013 Aug;41(15):e146. PMID: 23771142
  • Ramos-Silva P, Kaandorp J, Huisman L, Marie B et al. The skeletal proteome of the coral Acropora millepora: the evolution of calcification by co-option and domain shuffling. Mol Biol Evol 2013 Sep;30(9):2099-112. PMID: 23765379
  • Bakker ER, Das AM, Helvensteijn W, Franken PF et al. Wnt5a promotes human colon cancer cell migration and invasion but does not augment intestinal tumorigenesis in Apc1638N mice. Carcinogenesis 2013 Nov;34(11):2629-38. PMID: 23764752
  • Buchwalter G, Hickey MM, Cromer A, Selfors LM et al. PDEF promotes luminal differentiation and acts as a survival factor for ER-positive breast cancer cells. Cancer Cell 2013 Jun 10;23(6):753-67. PMID: 23764000
  • Ren X, Wang Y, Zhang XS, Jin Q et al. iPcc: a novel feature extraction method for accurate disease class discovery and prediction. Nucleic Acids Res 2013 Aug;41(14):e143. PMID: 23761440
  • Jung AC, Job S, Ledrappier S, Macabre C et al. A poor prognosis subtype of HNSCC is consistently observed across methylome, transcriptome, and miRNome analysis. Clin Cancer Res 2013 Aug 1;19(15):4174-84. PMID: 23757353
  • Kapatai G, Brundler MA, Jenkinson H, Kearns P et al. Gene expression profiling identifies different sub-types of retinoblastoma. Br J Cancer 2013 Jul 23;109(2):512-25. PMID: 23756868
  • Baniwal SK, Chimge NO, Jordan VC, Tripathy D et al. Prolactin-induced protein (PIP) regulates proliferation of luminal A type breast cancer cells in an estrogen-independent manner. PLoS One 2014;8(6):e62361. PMID: 23755096
  • Marescalco MS, Capizzi C, Condorelli DF, Barresi V et al. Genome-wide analysis of recurrent copy-number alterations and copy-neutral loss of heterozygosity in head and neck squamous cell carcinoma. J Oral Pathol Med 2014 Jan;43(1):20-7. PMID: 23750501
  • Sebastián-León P, Carbonell J, Salavert F, Sanchez R et al. Inferring the functional effect of gene expression changes in signaling pathways. Nucleic Acids Res 2013 Jul;41(Web Server issue):W213-7. PMID: 23748960
  • Vanderkraats ND, Hiken JF, Decker KF, Edwards JR et al. Discovering high-resolution patterns of differential DNA methylation that correlate with gene expression changes. Nucleic Acids Res 2013 Aug;41(14):6816-27. PMID: 23748561
  • Nickles D, Chen HP, Li MM, Khankhanian P et al. Blood RNA profiling in a large cohort of multiple sclerosis patients and healthy controls. Hum Mol Genet 2013 Oct 15;22(20):4194-205. PMID: 23748426
  • Powers NR, Eicher JD, Butter F, Kong Y et al. Alleles of a polymorphic ETV6 binding site in DCDC2 confer risk of reading and language impairment. Am J Hum Genet 2013 Jul 11;93(1):19-28. PMID: 23746548
  • Krasnitz A, Sun G, Andrews P, Wigler M et al. Target inference from collections of genomic intervals. Proc Natl Acad Sci U S A 2013 Jun 18;110(25):E2271-8. PMID: 23744040
  • Stahl O, Duvergey H, Guille A, Blondin F et al. Djeen (Database for Joomla!'s Extensible Engine): a research information management system for flexible multi-technology project administration. BMC Res Notes 2013 Jun 6;6:223. PMID: 23742665
  • Song Y, Ahn J, Suh Y, Davis ME et al. Identification of novel tissue-specific genes by analysis of microarray databases: a human and mouse model. PLoS One 2013;8(5):e64483. PMID: 23741331
  • McClements L, Yakkundi A, Papaspyropoulos A, Harrison H et al. Targeting treatment-resistant breast cancer stem cells with FKBPL and its peptide derivative, AD-01, via the CD44 pathway. Clin Cancer Res 2013 Jul 15;19(14):3881-93. PMID: 23741069
  • Li HP, Zeng XC, Zhang B, Long JT et al. miR-451 inhibits cell proliferation in human hepatocellular carcinoma through direct suppression of IKK-β. Carcinogenesis 2013 Nov;34(11):2443-51. PMID: 23740840
  • Chen L, Wan JQ, Zhou JP, Fan YL et al. Gene expression analysis of ruptured and un-ruptured saccular intracranial aneurysm. Eur Rev Med Pharmacol Sci 2013 May;17(10):1374-81. PMID: 23740452
  • Poirier JT, Dobromilskaya I, Moriarty WF, Peacock CD et al. Selective tropism of Seneca Valley virus for variant subtype small cell lung cancer. J Natl Cancer Inst 2013 Jul 17;105(14):1059-65. PMID: 23739064
  • Ying H, Lv J, Ying T, Li J et al. Screening of feature genes of the ovarian cancer epithelia with DNA microarray. J Ovarian Res 2013 Jun 5;6(1):39. PMID: 23738901
  • Thomas R, Thomas RS, Auerbach SS, Portier CJ et al. Biological networks for predicting chemical hepatocarcinogenicity using gene expression data from treated mice and relevance across human and rat species. PLoS One 2013;8(5):e63308. PMID: 23737943
  • Chen KC, Blalock EM, Curran-Rauhut MA, Kadish I et al. Glucocorticoid-dependent hippocampal transcriptome in male rats: pathway-specific alterations with aging. Endocrinology 2013 Aug;154(8):2807-20. PMID: 23736296
  • Yuan Y, Yang L, Shi M, Lu D et al. Identification of well-differentiated gene expressions between Han Chinese and Japanese using genome-wide microarray data analysis. J Med Genet 2013 Aug;50(8):534-42. PMID: 23735306
  • Clarke EL, Loguercio S, Good BM, Su AI et al. A task-based approach for Gene Ontology evaluation. J Biomed Semantics 2013 Apr 15;4 Suppl 1(Suppl 1):S4. PMID: 23734599
  • Liu J, Chen J, Ehrlich S, Walton E et al. Methylation patterns in whole blood correlate with symptoms in schizophrenia patients. Schizophr Bull 2014 Jul;40(4):769-76. PMID: 23734059
  • Phillips LK, Gould EA, Babu H, Krams SM et al. Natural killer cell-activating receptor NKG2D mediates innate immune targeting of allogeneic neural progenitor cell grafts. Stem Cells 2013 Sep;31(9):1829-39. PMID: 23733329
  • Upadhyay SK, Eckel-Mahan KL, Mirbolooki MR, Tjong I et al. Selective Kv1.3 channel blocker as therapeutic for obesity and insulin resistance. Proc Natl Acad Sci U S A 2013 Jun 11;110(24):E2239-48. PMID: 23729813
  • Ihnen M, zu Eulenburg C, Kolarova T, Qi JW et al. Therapeutic potential of the poly(ADP-ribose) polymerase inhibitor rucaparib for the treatment of sporadic human ovarian cancer. Mol Cancer Ther 2013 Jun;12(6):1002-15. PMID: 23729402
  • Giricz O, Calvo V, Peterson EA, Abouzeid CM et al. TACE-dependent TGFα shedding drives triple-negative breast cancer cell invasion. Int J Cancer 2013 Dec 1;133(11):2587-95. PMID: 23729230
  • Lotlikar SR, Hnatusko S, Dickenson NE, Choudhari SP et al. Three functional β-carbonic anhydrases in Pseudomonas aeruginosa PAO1: role in survival in ambient air. Microbiology (Reading) 2013 Aug;159(Pt 8):1748-1759. PMID: 23728627
  • Zhang XQ, Sun S, Lam KF, Kiang KM et al. A long non-coding RNA signature in glioblastoma multiforme predicts survival. Neurobiol Dis 2013 Oct;58:123-31. PMID: 23726844
  • Sun X, Dong B, Yin L, Zhang R et al. PMTED: a plant microRNA target expression database. BMC Bioinformatics 2013 Jun 3;14:174. PMID: 23725466
  • Rafidi H, Mercado F 3rd, Astudillo M, Fry WH et al. Leucine-rich repeat and immunoglobulin domain-containing protein-1 (Lrig1) negative regulatory action toward ErbB receptor tyrosine kinases is opposed by leucine-rich repeat and immunoglobulin domain-containing protein 3 (Lrig3). J Biol Chem 2013 Jul 26;288(30):21593-605. PMID: 23723069
  • Galarneau G, Coady S, Garrett ME, Jeffries N et al. Gene-centric association study of acute chest syndrome and painful crisis in sickle cell disease patients. Blood 2013 Jul 18;122(3):434-42. PMID: 23719301
  • Chowanadisai W, Graham DM, Keen CL, Rucker RB et al. Neurulation and neurite extension require the zinc transporter ZIP12 (slc39a12). Proc Natl Acad Sci U S A 2013 Jun 11;110(24):9903-8. PMID: 23716681
  • Farrell AS, Pelz C, Wang X, Daniel CJ et al. Pin1 regulates the dynamics of c-Myc DNA binding to facilitate target gene regulation and oncogenesis. Mol Cell Biol 2013 Aug;33(15):2930-49. PMID: 23716601
  • Jordan NV, Prat A, Abell AN, Zawistowski JS et al. SWI/SNF chromatin-remodeling factor Smarcd3/Baf60c controls epithelial-mesenchymal transition by inducing Wnt5a signaling. Mol Cell Biol 2013 Aug;33(15):3011-25. PMID: 23716599
  • Pérez C, Pascual M, Martín-Subero JI, Bellosillo B et al. Aberrant DNA methylation profile of chronic and transformed classic Philadelphia-negative myeloproliferative neoplasms. Haematologica 2013 Sep;98(9):1414-20. PMID: 23716560
  • Geahlen JH, Lapid C, Thorell K, Nikolskiy I et al. Evolution of the human gastrokine locus and confounding factors regarding the pseudogenicity of GKN3. Physiol Genomics 2013 Aug 1;45(15):667-83. PMID: 23715263
  • Ahn J, Yuan Y, Parmigiani G, Suraokar MB et al. DeMix: deconvolution for mixed cancer transcriptomes using raw measured data. Bioinformatics 2013 Aug 1;29(15):1865-71. PMID: 23712657
  • Roberts EW, Deonarine A, Jones JO, Denton AE et al. Depletion of stromal cells expressing fibroblast activation protein-α from skeletal muscle and bone marrow results in cachexia and anemia. J Exp Med 2013 Jun 3;210(6):1137-51. PMID: 23712428
  • Myhre O, Utkilen H, Duale N, Brunborg G et al. Metal dyshomeostasis and inflammation in Alzheimer's and Parkinson's diseases: possible impact of environmental exposures. Oxid Med Cell Longev 2013;2013:726954. PMID: 23710288
  • Pacurari M, Addison JB, Bondalapati N, Wan YW et al. The microRNA-200 family targets multiple non-small cell lung cancer prognostic markers in H1299 cells and BEAS-2B cells. Int J Oncol 2013 Aug;43(2):548-60. PMID: 23708087
  • Rheinbay E, Suvà ML, Gillespie SM, Wakimoto H et al. An aberrant transcription factor network essential for Wnt signaling and stem cell maintenance in glioblastoma. Cell Rep 2013 May 30;3(5):1567-79. PMID: 23707066
  • Chitwood JL, Rincon G, Kaiser GG, Medrano JF et al. RNA-seq analysis of single bovine blastocysts. BMC Genomics 2013 May 25;14:350. PMID: 23705625
  • Siewert E, Kechris KJ et al. Modeling considerations for using expression data from multiple species. Stat Med 2013 Oct 15;32(23):4057-70. PMID: 23703923
  • Liu C, Mallick B, Long D, Rennie WA et al. CLIP-based prediction of mammalian microRNA binding sites. Nucleic Acids Res 2013 Aug;41(14):e138. PMID: 23703212
  • Malin J, Aniba MR, Hannenhalli S et al. Enhancer networks revealed by correlated DNAse hypersensitivity states of enhancers. Nucleic Acids Res 2013 Aug;41(14):6828-38. PMID: 23700312
  • Kaiser MF, Johnson DC, Wu P, Walker BA et al. Global methylation analysis identifies prognostically important epigenetically inactivated tumor suppressor genes in multiple myeloma. Blood 2013 Jul 11;122(2):219-26. PMID: 23699600
  • Noble LM, Andrianopoulos A et al. Fungal genes in context: genome architecture reflects regulatory complexity and function. Genome Biol Evol 2013;5(7):1336-52. PMID: 23699226
  • Chew GL, Pauli A, Rinn JL, Regev A et al. Ribosome profiling reveals resemblance between long non-coding RNAs and 5' leaders of coding RNAs. Development 2013 Jul;140(13):2828-34. PMID: 23698349
  • Gong J, Hsu L, Harrison T, King IB et al. Genome-wide association study of serum selenium concentrations. Nutrients 2013 May 21;5(5):1706-18. PMID: 23698163
  • Rinck A, Preusse M, Laggerbauer B, Lickert H et al. The human transcriptome is enriched for miRNA-binding sites located in cooperativity-permitting distance. RNA Biol 2013 Jul;10(7):1125-35. PMID: 23696004
  • Su BH, Tseng YL, Shieh GS, Chen YC et al. Prothymosin α overexpression contributes to the development of pulmonary emphysema. Nat Commun 2013;4:1906. PMID: 23695700
  • Carmona FJ, Azuara D, Berenguer-Llergo A, Fernández AF et al. DNA methylation biomarkers for noninvasive diagnosis of colorectal cancer. Cancer Prev Res (Phila) 2013 Jul;6(7):656-65. PMID: 23694962
  • Mori K, Oura T, Noma H, Matsui S et al. Cancer outlier analysis based on mixture modeling of gene expression data. Comput Math Methods Med 2013;2013:693901. PMID: 23690879
  • Linta L, Stockmann M, Lin Q, Lechel A et al. Microarray-Based Comparisons of Ion Channel Expression Patterns: Human Keratinocytes to Reprogrammed hiPSCs to Differentiated Neuronal and Cardiac Progeny. Stem Cells Int 2013;2013:784629. PMID: 23690787
  • Cao Y, Hoeppner LH, Bach S, E G et al. Neuropilin-2 promotes extravasation and metastasis by interacting with endothelial α5 integrin. Cancer Res 2013 Jul 15;73(14):4579-4590. PMID: 23689123
  • Castaño Z, Marsh T, Tadipatri R, Kuznetsov HS et al. Stromal EGF and igf-I together modulate plasticity of disseminated triple-negative breast tumors. Cancer Discov 2013 Aug;3(8):922-35. PMID: 23689072
  • Yim WC, Yu Y, Song K, Jang CS et al. PLANEX: the plant co-expression database. BMC Plant Biol 2013 May 20;13:83. PMID: 23688397
  • Lança T, Costa MF, Gonçalves-Sousa N, Rei M et al. Protective role of the inflammatory CCR2/CCL2 chemokine pathway through recruitment of type 1 cytotoxic γδ T lymphocytes to tumor beds. J Immunol 2013 Jun 15;190(12):6673-80. PMID: 23686489
  • Rawal S, Chu F, Zhang M, Park HJ et al. Cross talk between follicular Th cells and tumor cells in human follicular lymphoma promotes immune evasion in the tumor microenvironment. J Immunol 2013 Jun 15;190(12):6681-93. PMID: 23686488
  • Rahrmann EP, Watson AL, Keng VW, Choi K et al. Forward genetic screen for malignant peripheral nerve sheath tumor formation identifies new genes and pathways driving tumorigenesis. Nat Genet 2013 Jul;45(7):756-66. PMID: 23685747
  • Broussard EK, Kim R, Wiley JC, Marquez JP et al. Identification of putative immunologic targets for colon cancer prevention based on conserved gene upregulation from preinvasive to malignant lesions. Cancer Prev Res (Phila) 2013 Jul;6(7):666-74. PMID: 23682078
  • Liu YJ, Zhang S, Hou K, Li YT et al. Analysis of key genes and pathways associated with colorectal cancer with microarray technology. Asian Pac J Cancer Prev 2013;14(3):1819-23. PMID: 23679280
  • Zhang ZX, Shen CF, Zou WH, Shou LH et al. Exploration of molecular mechanisms of diffuse large B-cell lymphoma development using a microarray. Asian Pac J Cancer Prev 2013;14(3):1731-5. PMID: 23679265
  • Deng FY, Lei SF, Zhu H, Zhang YH et al. Integrative analyses for functional mechanisms underlying associations for rheumatoid arthritis. J Rheumatol 2013 Jul;40(7):1063-8. PMID: 23678157
  • Dawson HD, Loveland JE, Pascal G, Gilbert JG et al. Structural and functional annotation of the porcine immunome. BMC Genomics 2013 May 15;14:332. PMID: 23676093
  • Antosh M, Fox D, Cooper LN, Neretti N et al. CORaL: comparison of ranked lists for analysis of gene expression data. J Comput Biol 2013 Jun;20(6):433-43. PMID: 23675929
  • Friese RS, Altshuler AE, Zhang K, Miramontes-Gonzalez JP et al. MicroRNA-22 and promoter motif polymorphisms at the Chga locus in genetic hypertension: functional and therapeutic implications for gene expression and the pathogenesis of hypertension. Hum Mol Genet 2013 Sep 15;22(18):3624-40. PMID: 23674521
  • Thai P, Statt S, Chen CH, Liang E et al. Characterization of a novel long noncoding RNA, SCAL1, induced by cigarette smoke and elevated in lung cancer cell lines. Am J Respir Cell Mol Biol 2013 Aug;49(2):204-11. PMID: 23672216
  • Kurahashi I, Fujita Y, Arao T, Kurata T et al. A microarray-based gene expression analysis to identify diagnostic biomarkers for unknown primary cancer. PLoS One 2013;8(5):e63249. PMID: 23671674
  • McDowell SC, Akmakjian G, Sladek C, Mendoza-Cozatl D et al. Elemental concentrations in the seed of mutants and natural variants of Arabidopsis thaliana grown under varying soil conditions. PLoS One 2013;8(5):e63014. PMID: 23671651
  • Behnke M, Reimers M, Fisher R et al. The expression of embryonic liver development genes in hepatitis C induced cirrhosis and hepatocellular carcinoma. Cancers (Basel) 2012 Sep 1;4(3):945-68. PMID: 23667740
  • Hashimoto Y, Akiyama Y, Yuasa Y et al. Multiple-to-multiple relationships between microRNAs and target genes in gastric cancer. PLoS One 2013;8(5):e62589. PMID: 23667495
  • Fu R, Wassif CA, Yanjanin NM, Watkins-Chow DE et al. Efficacy of N-acetylcysteine in phenotypic suppression of mouse models of Niemann-Pick disease, type C1. Hum Mol Genet 2013 Sep 1;22(17):3508-23. PMID: 23666527
  • Lee MS, Kim B, Lee SM, Cho WC et al. Genome-wide profiling of in vivo LPS-responsive genes in splenic myeloid cells. Mol Cells 2013 Jun;35(6):498-513. PMID: 23666259
  • Zuo C, Keleş S et al. A statistical framework for power calculations in ChIP-seq experiments. Bioinformatics 2014 Mar 15;30(6):753-60. PMID: 23665773
  • Chen Y, Shi JX, Pan XF, Feng J et al. DNA microarray-based screening of differentially expressed genes related to acute lung injury and functional analysis. Eur Rev Med Pharmacol Sci 2013 Apr;17(8):1044-50. PMID: 23661517
  • Li Y, Vonholdt BM, Reynolds A, Boyko AR et al. Artificial selection on brain-expressed genes during the domestication of dog. Mol Biol Evol 2013 Aug;30(8):1867-76. PMID: 23660689
  • Haddad BR, Gu L, Mirtti T, Dagvadorj A et al. STAT5A/B gene locus undergoes amplification during human prostate cancer progression. Am J Pathol 2013 Jun;182(6):2264-75. PMID: 23660011
  • Li BQ, Huang T, Zhang J, Zhang N et al. An ensemble prognostic model for colorectal cancer. PLoS One 2013;8(5):e63494. PMID: 23658834
  • Abd Elmageed ZY, Moroz K, Srivastav SK, Fang Z et al. High circulating estrogens and selective expression of ERβ in prostate tumors of Americans: implications for racial disparity of prostate cancer. Carcinogenesis 2013 Sep;34(9):2017-23. PMID: 23658372
  • Winter DR, Song L, Mukherjee S, Furey TS et al. DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types. Genome Res 2013 Jul;23(7):1118-29. PMID: 23657885
  • Lippert C, Quon G, Kang EY, Kadie CM et al. The benefits of selecting phenotype-specific variants for applications of mixed models in genomics. Sci Rep 2013;3:1815. PMID: 23657357
  • Gulati J, Kim SG, Baldwin IT, Gaquerel E et al. Deciphering herbivory-induced gene-to-metabolite dynamics in Nicotiana attenuata tissues using a multifactorial approach. Plant Physiol 2013 Jun;162(2):1042-59. PMID: 23656894
  • Prykhozhij SV, Marsico A, Meijsing SH et al. Zebrafish Expression Ontology of Gene Sets (ZEOGS): a tool to analyze enrichment of zebrafish anatomical terms in large gene sets. Zebrafish 2013 Sep;10(3):303-15. PMID: 23656298
  • Balanis N, Wendt MK, Schiemann BJ, Wang Z et al. Epithelial to mesenchymal transition promotes breast cancer progression via a fibronectin-dependent STAT3 signaling pathway. J Biol Chem 2013 Jun 21;288(25):17954-67. PMID: 23653350
  • Hsu CH, Ovcharenko I et al. Effects of gene regulatory reprogramming on gene expression in human and mouse developing hearts. Philos Trans R Soc Lond B Biol Sci 2013;368(1620):20120366. PMID: 23650638
  • Rørvig S, Østergaard O, Heegaard NH, Borregaard N et al. Proteome profiling of human neutrophil granule subsets, secretory vesicles, and cell membrane: correlation with transcriptome profiling of neutrophil precursors. J Leukoc Biol 2013 Oct;94(4):711-21. PMID: 23650620
  • Summermatter S, Santos G, Pérez-Schindler J, Handschin C et al. Skeletal muscle PGC-1α controls whole-body lactate homeostasis through estrogen-related receptor α-dependent activation of LDH B and repression of LDH A. Proc Natl Acad Sci U S A 2013 May 21;110(21):8738-43. PMID: 23650363
  • Welsh EA, Eschrich SA, Berglund AE, Fenstermacher DA et al. Iterative rank-order normalization of gene expression microarray data. BMC Bioinformatics 2013 May 7;14:153. PMID: 23647742
  • Kassambara A, Schoenhals M, Moreaux J, Veyrune JL et al. Inhibition of DEPDC1A, a bad prognostic marker in multiple myeloma, delays growth and induces mature plasma cell markers in malignant plasma cells. PLoS One 2013;8(4):e62752. PMID: 23646139
  • Satoh J, Tabunoki H et al. A Comprehensive Profile of ChIP-Seq-Based STAT1 Target Genes Suggests the Complexity of STAT1-Mediated Gene Regulatory Mechanisms. Gene Regul Syst Bio 2013;7:41-56. PMID: 23645984
  • Takahashi Y, Sawada G, Kurashige J, Matsumura T et al. Tumor-derived tenascin-C promotes the epithelial-mesenchymal transition in colorectal cancer cells. Anticancer Res 2013 May;33(5):1927-34. PMID: 23645740
  • Abascal F, Corpet A, Gurard-Levin ZA, Juan D et al. Subfunctionalization via adaptive evolution influenced by genomic context: the case of histone chaperones ASF1a and ASF1b. Mol Biol Evol 2013 Aug;30(8):1853-66. PMID: 23645555
  • Moss AC, Doran PP, Macmathuna P et al. In Silico Promoter Analysis can Predict Genes of Functional Relevance in Cell Proliferation: Validation in a Colon Cancer Model. Transl Oncogenomics 2007;2:1-16. PMID: 23641142
  • Navarro A, Clot G, Prieto M, Royo C et al. microRNA expression profiles identify subtypes of mantle cell lymphoma with different clinicobiological characteristics. Clin Cancer Res 2013 Jun 15;19(12):3121-9. PMID: 23640973
  • Chen HB, Wang L, Jiang JF et al. Re-analysis of expression profiles for revealing new potential candidate genes of heart failure. Eur Rev Med Pharmacol Sci 2013 Apr;17(7):903-11. PMID: 23640436
  • Akagi I, Okayama H, Schetter AJ, Robles AI et al. Combination of protein coding and noncoding gene expression as a robust prognostic classifier in stage I lung adenocarcinoma. Cancer Res 2013 Jul 1;73(13):3821-32. PMID: 23639940
  • Fan CM, Wang X, Wang YW, Hu RB et al. Genome-wide expression analysis of soybean MADS genes showing potential function in the seed development. PLoS One 2013;8(4):e62288. PMID: 23638026
  • Wong JAltered expression of RNA splicing proteins in Alzheimer's disease patients: evidence from two microarray studies. Dement Geriatr Cogn Dis Extra 2013 Jan;3(1):74-85. PMID: 23637700
  • Piasecka B, Lichocki P, Moretti S, Bergmann S et al. The hourglass and the early conservation models--co-existing patterns of developmental constraints in vertebrates. PLoS Genet 2013 Apr;9(4):e1003476. PMID: 23637639
  • Giacomini CP, Sun S, Varma S, Shain AH et al. Breakpoint analysis of transcriptional and genomic profiles uncovers novel gene fusions spanning multiple human cancer types. PLoS Genet 2013 Apr;9(4):e1003464. PMID: 23637631
  • You JS, De Carvalho DD, Dai C, Liu M et al. SNF5 is an essential executor of epigenetic regulation during differentiation. PLoS Genet 2013 Apr;9(4):e1003459. PMID: 23637628
  • Termglinchan V, Wanichnopparat W, Suwanwongse K, Teeyapant C et al. Candidate cancer-targeting agents identified by expression-profiling arrays. Onco Targets Ther 2013;6:447-58. PMID: 23637543
  • Allende ML, Sipe LM, Tuymetova G, Wilson-Henjum KL et al. Sphingosine-1-phosphate phosphatase 1 regulates keratinocyte differentiation and epidermal homeostasis. J Biol Chem 2013 Jun 21;288(25):18381-91. PMID: 23637227
  • Zhang R, Yan C, Zhou X, Qian B et al. Association of Rev-erbα in adipose tissues with Type 2 diabetes mellitus amelioration after gastric bypass surgery in Goto-Kakizaki rats. Am J Physiol Regul Integr Comp Physiol 2013 Jul 15;305(2):R134-46. PMID: 23637135
  • Shieh A, Ward AF, Donlan KL, Harding-Theobald ER et al. Defective K-Ras oncoproteins overcome impaired effector activation to initiate leukemia in vivo. Blood 2013 Jun 13;121(24):4884-93. PMID: 23637129
  • Simola DF, Wissler L, Donahue G, Waterhouse RM et al. Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality. Genome Res 2013 Aug;23(8):1235-47. PMID: 23636946
  • Hopewell EL, Zhao W, Fulp WJ, Bronk CC et al. Lung tumor NF-κB signaling promotes T cell-mediated immune surveillance. J Clin Invest 2013 Jun;123(6):2509-22. PMID: 23635779
  • Hartman ZC, Poage GM, den Hollander P, Tsimelzon A et al. Growth of triple-negative breast cancer cells relies upon coordinate autocrine expression of the proinflammatory cytokines IL-6 and IL-8. Cancer Res 2013 Jun 1;73(11):3470-80. PMID: 23633491
  • Qu C, Liu Y, Kunkalla K, Singh RR et al. Trimeric G protein-CARMA1 axis links smoothened, the hedgehog receptor transducer, to NF-κB activation in diffuse large B-cell lymphoma. Blood 2013 Jun 6;121(23):4718-28. PMID: 23632891
  • Iskar M, Zeller G, Blattmann P, Campillos M et al. Characterization of drug-induced transcriptional modules: towards drug repositioning and functional understanding. Mol Syst Biol 2013;9:662. PMID: 23632384
  • Josset L, Menachery VD, Gralinski LE, Agnihothram S et al. Cell host response to infection with novel human coronavirus EMC predicts potential antivirals and important differences with SARS coronavirus. mBio 2013 Apr 30;4(3):e00165-13. PMID: 23631916
  • Zhang L, Zhang J, Yang G, Wu D et al. Investigating the concordance of Gene Ontology terms reveals the intra- and inter-platform reproducibility of enrichment analysis. BMC Bioinformatics 2013 Apr 29;14:143. PMID: 23627640
  • Park YY, Lee SS, Lim JY, Kim SC et al. Comparison of prognostic genomic predictors in colorectal cancer. PLoS One 2013;8(4):e60778. PMID: 23626670
  • Stöckel D, Müller O, Kehl T, Gerasch A et al. NetworkTrail--a web service for identifying and visualizing deregulated subnetworks. Bioinformatics 2013 Jul 1;29(13):1702-3. PMID: 23625999
  • Lambrou GI, Adamaki M, Delakas D, Spandidos DA et al. Gene expression is highly correlated on the chromosome level in urinary bladder cancer. Cell Cycle 2013 May 15;12(10):1544-59. PMID: 23624844
  • Jojic V, Shay T, Sylvia K, Zuk O et al. Identification of transcriptional regulators in the mouse immune system. Nat Immunol 2013 Jun;14(6):633-43. PMID: 23624555
  • Coit P, Jeffries M, Altorok N, Dozmorov MG et al. Genome-wide DNA methylation study suggests epigenetic accessibility and transcriptional poising of interferon-regulated genes in naïve CD4+ T cells from lupus patients. J Autoimmun 2013 Jun;43:78-84. PMID: 23623029
  • Barann M, Esser D, Klostermeier UC, Lappalainen T et al. Janus--a comprehensive tool investigating the two faces of transcription. Bioinformatics 2013 Jul 1;29(13):1600-6. PMID: 23620359
  • Eijssen LM, Jaillard M, Adriaens ME, Gaj S et al. User-friendly solutions for microarray quality control and pre-processing on ArrayAnalysis.org. Nucleic Acids Res 2013 Jul;41(Web Server issue):W71-6. PMID: 23620278
  • Li M, Zeng T, Liu R, Chen L et al. Detecting tissue-specific early warning signals for complex diseases based on dynamical network biomarkers: study of type 2 diabetes by cross-tissue analysis. Brief Bioinform 2014 Mar;15(2):229-43. PMID: 23620135
  • Kim D, Pertea G, Trapnell C, Pimentel H et al. TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol 2013 Apr 25;14(4):R36. PMID: 23618408
  • Hsu WC, Denq C, Chen SS et al. A diagnostic methodology for Alzheimer's disease. J Clin Bioinforma 2013 Apr 25;3(1):9. PMID: 23618403
  • Sher N, Von Stetina JR, Bell GW, Matsuura S et al. Fundamental differences in endoreplication in mammals and Drosophila revealed by analysis of endocycling and endomitotic cells. Proc Natl Acad Sci U S A 2013 Jun 4;110(23):9368-73. PMID: 23613587
  • Srihari S, Ragan MA et al. Systematic tracking of dysregulated modules identifies novel genes in cancer. Bioinformatics 2013 Jun 15;29(12):1553-61. PMID: 23613489
  • Lionetti M, Musto P, Di Martino MT, Fabris S et al. Biological and clinical relevance of miRNA expression signatures in primary plasma cell leukemia. Clin Cancer Res 2013 Jun 15;19(12):3130-42. PMID: 23613318
  • Cui H, Kong Y, Xu M, Zhang H et al. Notch3 functions as a tumor suppressor by controlling cellular senescence. Cancer Res 2013 Jun 1;73(11):3451-9. PMID: 23610446
  • Li Y, Zhang P, Wang C, Han C et al. Immune responsive gene 1 (IRG1) promotes endotoxin tolerance by increasing A20 expression in macrophages through reactive oxygen species. J Biol Chem 2013 Jun 7;288(23):16225-16234. PMID: 23609450
  • Zhang BH, Liu J, Zhou QX, Zuo D et al. Analysis of differentially expressed genes in ductal carcinoma with DNA microarray. Eur Rev Med Pharmacol Sci 2013 Mar;17(6):758-66. PMID: 23609359
  • Lai X, Agarwal M, Lvov YM, Pachpande C et al. Proteomic profiling of halloysite clay nanotube exposure in intestinal cell co-culture. J Appl Toxicol 2013 Nov;33(11):1316-29. PMID: 23606564
  • Hu J, Locasale JW, Bielas JH, O'Sullivan J et al. Heterogeneity of tumor-induced gene expression changes in the human metabolic network. Nat Biotechnol 2013 Jun;31(6):522-9. PMID: 23604282
  • Todoerti K, Agnelli L, Fabris S, Lionetti M et al. Transcriptional characterization of a prospective series of primary plasma cell leukemia revealed signatures associated with tumor progression and poorer outcome. Clin Cancer Res 2013 Jun 15;19(12):3247-58. PMID: 23599371
  • Lim JH, Iggo RD, Barker D et al. Models incorporating chromatin modification data identify functionally important p53 binding sites. Nucleic Acids Res 2013 Jun;41(11):5582-93. PMID: 23599002
  • Kharma B, Baba T, Mandai M, Matsumura N et al. Utilization of genomic signatures to identify high-efficacy candidate drugs for chemorefractory endometrial cancers. Int J Cancer 2013 Nov;133(9):2234-44. PMID: 23595697
  • Yang B, Cao L, Liu B, McCaig CD et al. The transition from proliferation to differentiation in colorectal cancer is regulated by the calcium activated chloride channel A1. PLoS One 2013;8(4):e60861. PMID: 23593331
  • Emig D, Ivliev A, Pustovalova O, Lancashire L et al. Drug target prediction and repositioning using an integrated network-based approach. PLoS One 2013;8(4):e60618. PMID: 23593264
  • Loraine AE, McCormick S, Estrada A, Patel K et al. RNA-seq of Arabidopsis pollen uncovers novel transcription and alternative splicing. Plant Physiol 2013 Jun;162(2):1092-109. PMID: 23590974
  • Volinia S, Croce CM et al. Prognostic microRNA/mRNA signature from the integrated analysis of patients with invasive breast cancer. Proc Natl Acad Sci U S A 2013 Apr 30;110(18):7413-7. PMID: 23589849
  • Varsano T, Lau E, Feng Y, Garrido M et al. Inhibition of melanoma growth by small molecules that promote the mitochondrial localization of ATF2. Clin Cancer Res 2013 May 15;19(10):2710-22. PMID: 23589174
  • Jiang Y, Huang T, Chen L, Gao YF et al. Signal propagation in protein interaction network during colorectal cancer progression. Biomed Res Int 2013;2013:287019. PMID: 23586028
  • Secrier M, Schneider R et al. Visualizing time-related data in biology, a review. Brief Bioinform 2014 Sep;15(5):771-82. PMID: 23585583
  • Schoenhals M, Kassambara A, Veyrune JL, Moreaux J et al. Krüppel-like factor 4 blocks tumor cell proliferation and promotes drug resistance in multiple myeloma. Haematologica 2013 Sep;98(9):1442-9. PMID: 23585530
  • Wang C, Pécot T, Zynger DL, Machiraju R et al. Identifying survival associated morphological features of triple negative breast cancer using multiple datasets. J Am Med Inform Assoc 2013 Jul-Aug;20(4):680-7. PMID: 23585272
  • Pushparaj PN, Li D, Komai-Koma M, Guabiraba R et al. Interleukin-33 exacerbates acute colitis via interleukin-4 in mice. Immunology 2013 Sep;140(1):70-7. PMID: 23582173
  • Sagardoy A, Martinez-Ferrandis JI, Roa S, Bunting KL et al. Downregulation of FOXP1 is required during germinal center B-cell function. Blood 2013 May 23;121(21):4311-20. PMID: 23580662
  • Källman T, Chen J, Gyllenstrand N, Lagercrantz U et al. A significant fraction of 21-nucleotide small RNA originates from phased degradation of resistance genes in several perennial species. Plant Physiol 2013 Jun;162(2):741-54. PMID: 23580593
  • Pakala SB, Rayala SK, Wang RA, Ohshiro K et al. MTA1 promotes STAT3 transcription and pulmonary metastasis in breast cancer. Cancer Res 2013 Jun 15;73(12):3761-70. PMID: 23580571
  • Lehner A, Magdolen V, Schuster T, Kotzsch M et al. Downregulation of serine protease HTRA1 is associated with poor survival in breast cancer. PLoS One 2013;8(4):e60359. PMID: 23580433
  • Meierhofer D, Weidner C, Hartmann L, Mayr JA et al. Protein sets define disease states and predict in vivo effects of drug treatment. Mol Cell Proteomics 2013 Jul;12(7):1965-79. PMID: 23579186
  • Peng Q, Zhao L, Hou Y, Sun Y et al. Biological characteristics and genetic heterogeneity between carcinoma-associated fibroblasts and their paired normal fibroblasts in human breast cancer. PLoS One 2013;8(4):e60321. PMID: 23577100
  • Lewitus E, Kalinka AT et al. Neocortical development as an evolutionary platform for intragenomic conflict. Front Neuroanat 2013;7:2. PMID: 23576960
  • Goyal MS, Raichle ME et al. Gene expression-based modeling of human cortical synaptic density. Proc Natl Acad Sci U S A 2013 Apr 16;110(16):6571-6. PMID: 23576754
  • Wang H, Ru Y, Sanchez-Carbayo M, Wang X et al. Translation initiation factor eIF3b expression in human cancer and its role in tumor growth and lung colonization. Clin Cancer Res 2013 Jun 1;19(11):2850-60. PMID: 23575475
  • Cheng Y, Quinn JF, Weiss LA et al. An eQTL mapping approach reveals that rare variants in the SEMA5A regulatory network impact autism risk. Hum Mol Genet 2013 Jul 15;22(14):2960-72. PMID: 23575222
  • Giacobbe A, Bongiorno-Borbone L, Bernassola F, Terrinoni A et al. p63 regulates glutaminase 2 expression. Cell Cycle 2013 May 1;12(9):1395-405. PMID: 23574722
  • Azuaje F, Zhang L, Jeanty C, Puhl SL et al. Analysis of a gene co-expression network establishes robust association between Col5a2 and ischemic heart disease. BMC Med Genomics 2013 Apr 10;6:13. PMID: 23574622
  • Serhal P, Lemieux S et al. Correction of spatial bias in oligonucleotide array data. Adv Bioinformatics 2013;2013:167915. PMID: 23573083
  • Radke JB, Lucas O, De Silva EK, Ma Y et al. ApiAP2 transcription factor restricts development of the Toxoplasma tissue cyst. Proc Natl Acad Sci U S A 2013 Apr 23;110(17):6871-6. PMID: 23572590
  • Fincher JA, Vera DL, Hughes DD, McGinnis KM et al. Genome-wide prediction of nucleosome occupancy in maize reveals plant chromatin structural features at genes and other elements at multiple scales. Plant Physiol 2013 Jun;162(2):1127-41. PMID: 23572549
  • Lim SD, Hwang JG, Jung CG, Hwang SG et al. Comprehensive analysis of the rice RING E3 ligase family reveals their functional diversity in response to abiotic stress. DNA Res 2013 Jun;20(3):299-314. PMID: 23571674
  • Mistry BV, Zhao Y, Chang TC, Yasue H et al. Differential expression of PRAMEL1, a cancer/testis antigen, during spermatogenesis in the mouse. PLoS One 2013;8(4):e60611. PMID: 23565261
  • Peng R, Sridhar S, Tyagi G, Phillips JE et al. Bleomycin induces molecular changes directly relevant to idiopathic pulmonary fibrosis: a model for "active" disease. PLoS One 2013;8(4):e59348. PMID: 23565148
  • Al-Ejeh F, Shi W, Miranda M, Simpson PT et al. Treatment of triple-negative breast cancer using anti-EGFR-directed radioimmunotherapy combined with radiosensitizing chemotherapy and PARP inhibitor. J Nucl Med 2013 Jun;54(6):913-21. PMID: 23564760
  • Yoshida S, Tsutsumi S, Muhlebach G, Sourbier C et al. Molecular chaperone TRAP1 regulates a metabolic switch between mitochondrial respiration and aerobic glycolysis. Proc Natl Acad Sci U S A 2013 Apr 23;110(17):E1604-12. PMID: 23564345
  • Mustafi D, Kevany BM, Bai X, Maeda T et al. Evolutionarily conserved long intergenic non-coding RNAs in the eye. Hum Mol Genet 2013 Aug 1;22(15):2992-3002. PMID: 23562822
  • Waddell A, Ahrens R, Tsai YT, Sherrill JD et al. Intestinal CCL11 and eosinophilic inflammation is regulated by myeloid cell-specific RelA/p65 in mice. J Immunol 2013 May 1;190(9):4773-85. PMID: 23562811
  • Zhong Y, Chen EY, Liu R, Chuang PY et al. Renoprotective effect of combined inhibition of angiotensin-converting enzyme and histone deacetylase. J Am Soc Nephrol 2013 Apr;24(5):801-11. PMID: 23559582
  • Nohata N, Hanazawa T, Kinoshita T, Inamine A et al. Tumour-suppressive microRNA-874 contributes to cell proliferation through targeting of histone deacetylase 1 in head and neck squamous cell carcinoma. Br J Cancer 2013 Apr 30;108(8):1648-58. PMID: 23558898
  • Christensen J, Bentz S, Sengstag T, Shastri VP et al. FOXQ1, a novel target of the Wnt pathway and a new marker for activation of Wnt signaling in solid tumors. PLoS One 2013;8(3):e60051. PMID: 23555880
  • Chiyomaru T, Yamamura S, Fukuhara S, Hidaka H et al. Genistein up-regulates tumor suppressor microRNA-574-3p in prostate cancer. PLoS One 2013;8(3):e58929. PMID: 23554959
  • Osborne JK, Larsen JE, Shields MD, Gonzales JX et al. NeuroD1 regulates survival and migration of neuroendocrine lung carcinomas via signaling molecules TrkB and NCAM. Proc Natl Acad Sci U S A 2013 Apr 16;110(16):6524-9. PMID: 23553831
  • Jung HM, Patel RS, Phillips BL, Wang H et al. Tumor suppressor miR-375 regulates MYC expression via repression of CIP2A coding sequence through multiple miRNA-mRNA interactions. Mol Biol Cell 2013 Jun;24(11):1638-48, S1-7. PMID: 23552692
  • Kim JY, Valencia T, Abu-Baker S, Linares J et al. c-Myc phosphorylation by PKCζ represses prostate tumorigenesis. Proc Natl Acad Sci U S A 2013 Apr 16;110(16):6418-23. PMID: 23550155
  • Ganzfried BF, Riester M, Haibe-Kains B, Risch T et al. curatedOvarianData: clinically annotated data for the ovarian cancer transcriptome. Database (Oxford) 2013;2013:bat013. PMID: 23550061
  • Liu Q, Halvey PJ, Shyr Y, Slebos RJ et al. Integrative omics analysis reveals the importance and scope of translational repression in microRNA-mediated regulation. Mol Cell Proteomics 2013 Jul;12(7):1900-11. PMID: 23550052
  • Yu KD, Zhu R, Zhan M, Rodriguez AA et al. Identification of prognosis-relevant subgroups in patients with chemoresistant triple-negative breast cancer. Clin Cancer Res 2013 May 15;19(10):2723-33. PMID: 23549873
  • Huang HY, Wu WR, Wang YH, Wang JW et al. ASS1 as a novel tumor suppressor gene in myxofibrosarcomas: aberrant loss via epigenetic DNA methylation confers aggressive phenotypes, negative prognostic impact, and therapeutic relevance. Clin Cancer Res 2013 Jun 1;19(11):2861-72. PMID: 23549872
  • Kron K, Trudel D, Pethe V, Briollais L et al. Altered DNA methylation landscapes of polycomb-repressed loci are associated with prostate cancer progression and ERG oncogene expression in prostate cancer. Clin Cancer Res 2013 Jul 1;19(13):3450-61. PMID: 23549870
  • Zhang M, Song F, Liang L, Nan H et al. Genome-wide association studies identify several new loci associated with pigmentation traits and skin cancer risk in European Americans. Hum Mol Genet 2013 Jul 15;22(14):2948-59. PMID: 23548203
  • Xu P, Kong Y, Li X, Li L et al. Identification of molecular processes needed for vascular formation through transcriptome analysis of different vascular systems. BMC Genomics 2013 Apr 2;14:217. PMID: 23548001
  • Mitsakakis N, Razak Z, Escobar M, Westwood JT et al. Prediction of Drosophila melanogaster gene function using Support Vector Machines. BioData Min 2013 Apr 2;6(1):8. PMID: 23547736
  • Devaux Y, Vausort M, McCann GP, Zangrando J et al. MicroRNA-150: a novel marker of left ventricular remodeling after acute myocardial infarction. Circ Cardiovasc Genet 2013 Jun;6(3):290-8. PMID: 23547171
  • Welner RS, Bararia D, Amabile G, Czibere A et al. C/EBPα is required for development of dendritic cell progenitors. Blood 2013 May 16;121(20):4073-81. PMID: 23547051
  • Watanabe-Okochi N, Yoshimi A, Sato T, Ikeda T et al. The shortest isoform of C/EBPβ, liver inhibitory protein (LIP), collaborates with Evi1 to induce AML in a mouse BMT model. Blood 2013 May 16;121(20):4142-55. PMID: 23547050
  • Jensen KD, Hu K, Whitmarsh RJ, Hassan MA et al. Toxoplasma gondii rhoptry 16 kinase promotes host resistance to oral infection and intestinal inflammation only in the context of the dense granule protein GRA15. Infect Immun 2013 Jun;81(6):2156-67. PMID: 23545295
  • Liang PI, Wang YH, Wu TF, Wu WR et al. IGFBP-5 overexpression as a poor prognostic factor in patients with urothelial carcinomas of upper urinary tracts and urinary bladder. J Clin Pathol 2013 Jul;66(7):573-82. PMID: 23539739
  • Dickson GJ, Liberante FG, Kettyle LM, O'Hagan KA et al. HOXA/PBX3 knockdown impairs growth and sensitizes cytogenetically normal acute myeloid leukemia cells to chemotherapy. Haematologica 2013 Aug;98(8):1216-25. PMID: 23539541
  • Hansen AG, Freeman TJ, Arnold SA, Starchenko A et al. Elevated ALCAM shedding in colorectal cancer correlates with poor patient outcome. Cancer Res 2013 May 15;73(10):2955-64. PMID: 23539446
  • Gilkes DM, Chaturvedi P, Bajpai S, Wong CC et al. Collagen prolyl hydroxylases are essential for breast cancer metastasis. Cancer Res 2013 Jun 1;73(11):3285-96. PMID: 23539444
  • Bjerke L, Mackay A, Nandhabalan M, Burford A et al. Histone H3.3. mutations drive pediatric glioblastoma through upregulation of MYCN. Cancer Discov 2013 May;3(5):512-9. PMID: 23539269
  • Ueno K, Hirata H, Shahryari V, Deng G et al. microRNA-183 is an oncogene targeting Dkk-3 and SMAD4 in prostate cancer. Br J Cancer 2013 Apr 30;108(8):1659-67. PMID: 23538390
  • Gamazon ER, Lamba JK, Pounds S, Stark AL et al. Comprehensive genetic analysis of cytarabine sensitivity in a cell-based model identifies polymorphisms associated with outcome in AML patients. Blood 2013 May 23;121(21):4366-76. PMID: 23538338
  • Wu XL, Zheng PS et al. Undifferentiated embryonic cell transcription factor-1 (UTF1) inhibits the growth of cervical cancer cells by transactivating p27Kip1. Carcinogenesis 2013 Jul;34(7):1660-8. PMID: 23536577
  • Ala U, Karreth FA, Bosia C, Pagnani A et al. Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments. Proc Natl Acad Sci U S A 2013 Apr 30;110(18):7154-9. PMID: 23536298
  • Okamura K, Ladewig E, Zhou L, Lai EC et al. Functional small RNAs are generated from select miRNA hairpin loops in flies and mammals. Genes Dev 2013 Apr 1;27(7):778-92. PMID: 23535236
  • Ong CC, Jubb AM, Jakubiak D, Zhou W et al. P21-activated kinase 1 (PAK1) as a therapeutic target in BRAF wild-type melanoma. J Natl Cancer Inst 2013 May 1;105(9):606-7. PMID: 23535073
  • Khunlertgit N, Yoon BJ et al. Identification of Robust Pathway Markers for Cancer through Rank-Based Pathway Activity Inference. Adv Bioinformatics 2013;2013:618461. PMID: 23533400
  • Toledo RA, Qin Y, Srikantan S, Morales NP et al. In vivo and in vitro oncogenic effects of HIF2A mutations in pheochromocytomas and paragangliomas. Endocr Relat Cancer 2013 Jun;20(3):349-59. PMID: 23533246
  • Wang LComparison of hepatocellular carcinoma (HCC), cholangiocarcinoma (CC), and combined HCC-CC (CHC) with each other based on microarray dataset. Tumour Biol 2013 Jun;34(3):1679-84. PMID: 23532688
  • Sugita S, Kawazoe Y, Imai A, Usui Y et al. Mature dendritic cell suppression by IL-1 receptor antagonist on retinal pigment epithelium cells. Invest Ophthalmol Vis Sci 2013 May 7;54(5):3240-9. PMID: 23532521
  • Anand M, Prasad BV et al. The computational analysis of human testis transcriptome reveals closer ties to pluripotency. J Hum Reprod Sci 2012 Sep;5(3):266-73. PMID: 23531778
  • Wanichnopparat W, Suwanwongse K, Pin-On P, Aporntewan C et al. Genes associated with the cis-regulatory functions of intragenic LINE-1 elements. BMC Genomics 2013 Mar 27;14:205. PMID: 23530910
  • Lui JC, Baron J et al. Evidence that Igf2 down-regulation in postnatal tissues and up-regulation in malignancies is driven by transcription factor E2f3. Proc Natl Acad Sci U S A 2013 Apr 9;110(15):6181-6. PMID: 23530192
  • Schroeder DI, Blair JD, Lott P, Yu HO et al. The human placenta methylome. Proc Natl Acad Sci U S A 2013 Apr 9;110(15):6037-42. PMID: 23530188
  • Yan J, Ng SB, Tay JL, Lin B et al. EZH2 overexpression in natural killer/T-cell lymphoma confers growth advantage independently of histone methyltransferase activity. Blood 2013 May 30;121(22):4512-20. PMID: 23529930
  • Desai BM, Villanueva J, Nguyen TT, Lioni M et al. The anti-melanoma activity of dinaciclib, a cyclin-dependent kinase inhibitor, is dependent on p53 signaling. PLoS One 2013;8(3):e59588. PMID: 23527225
  • Li Z, Tian T, Lv F, Chang Y et al. Six1 promotes proliferation of pancreatic cancer cells via upregulation of cyclin D1 expression. PLoS One 2013;8(3):e59203. PMID: 23527134
  • Hwang YC, Zheng Q, Gregory BD, Wang LS et al. High-throughput identification of long-range regulatory elements and their target promoters in the human genome. Nucleic Acids Res 2013 May;41(9):4835-46. PMID: 23525463
  • Bhargava A, Clabaugh I, To JP, Maxwell BB et al. Identification of cytokinin-responsive genes using microarray meta-analysis and RNA-Seq in Arabidopsis. Plant Physiol 2013 May;162(1):272-94. PMID: 23524861
  • Li S, Yu X, Beattie GA et al. Glycine betaine catabolism contributes to Pseudomonas syringae tolerance to hyperosmotic stress by relieving betaine-mediated suppression of compatible solute synthesis. J Bacteriol 2013 May;195(10):2415-23. PMID: 23524610
  • Bhar A, Haubrock M, Mukhopadhyay A, Maulik U et al. Coexpression and coregulation analysis of time-series gene expression data in estrogen-induced breast cancer cell. Algorithms Mol Biol 2013 Mar 23;8(1):9. PMID: 23521829
  • Papadopoulos GL, Karkoulia E, Tsamardinos I, Porcher C et al. GATA-1 genome-wide occupancy associates with distinct epigenetic profiles in mouse fetal liver erythropoiesis. Nucleic Acids Res 2013 May;41(9):4938-48. PMID: 23519611
  • Ziemann M, Kaspi A, Lazarus R, El-Osta A et al. Motif analysis in DNAse hypersensitivity regions uncovers distal cis elements associated with gene expression. Bioinformation 2013;9(4):212-5. PMID: 23519433
  • Innocenti P, Chenoweth SF et al. Interspecific divergence of transcription networks along lines of genetic variance in Drosophila: dimensionality, evolvability, and constraint. Mol Biol Evol 2013 Jun;30(6):1358-67. PMID: 23519314
  • Siggers J, Ostergaard MV, Siggers RH, Skovgaard K et al. Postnatal amniotic fluid intake reduces gut inflammatory responses and necrotizing enterocolitis in preterm neonates. Am J Physiol Gastrointest Liver Physiol 2013 May 15;304(10):G864-75. PMID: 23518680
  • Bellis MEstimating the similarity of alternative Affymetrix probe sets using transcriptional networks. BMC Res Notes 2013 Mar 21;6:107. PMID: 23517579
  • Johnen H, González-Silva L, Carramolino L, Flores JM et al. Gadd45g is essential for primary sex determination, male fertility and testis development. PLoS One 2013;8(3):e58751. PMID: 23516551
  • Kidane YH, Lawrence C, Murali TM et al. The landscape of host transcriptional response programs commonly perturbed by bacterial pathogens: towards host-oriented broad-spectrum drug targets. PLoS One 2013;8(3):e58553. PMID: 23516507
  • Billi AC, Freeberg MA, Day AM, Chun SY et al. A conserved upstream motif orchestrates autonomous, germline-enriched expression of Caenorhabditis elegans piRNAs. PLoS Genet 2013;9(3):e1003392. PMID: 23516384
  • Huang X, Gong R, Li X, Virtue A et al. Identification of novel pretranslational regulatory mechanisms for NF-κB activation. J Biol Chem 2013 May 31;288(22):15628-40. PMID: 23515310
  • Lan L, Djuric N, Guo Y, Vucetic S et al. MS-kNN: protein function prediction by integrating multiple data sources. BMC Bioinformatics 2013;14 Suppl 3(Suppl 3):S8. PMID: 23514608
  • Lackey DE, Lynch CJ, Olson KC, Mostaedi R et al. Regulation of adipose branched-chain amino acid catabolism enzyme expression and cross-adipose amino acid flux in human obesity. Am J Physiol Endocrinol Metab 2013 Jun 1;304(11):E1175-87. PMID: 23512805
  • Wong CE, Yu JS, Quigley DA, To MD et al. Inflammation and Hras signaling control epithelial-mesenchymal transition during skin tumor progression. Genes Dev 2013 Mar 15;27(6):670-82. PMID: 23512660
  • Pera J, Korostynski M, Golda S, Piechota M et al. Gene expression profiling of blood in ruptured intracranial aneurysms: in search of biomarkers. J Cereb Blood Flow Metab 2013 Jul;33(7):1025-31. PMID: 23512133
  • Feala JD, Abdulhameed MD, Yu C, Dutta B et al. Systems biology approaches for discovering biomarkers for traumatic brain injury. J Neurotrauma 2013 Jul 1;30(13):1101-16. PMID: 23510232
  • Mishiba K, Nagashima Y, Suzuki E, Hayashi N et al. Defects in IRE1 enhance cell death and fail to degrade mRNAs encoding secretory pathway proteins in the Arabidopsis unfolded protein response. Proc Natl Acad Sci U S A 2013 Apr 2;110(14):5713-8. PMID: 23509268
  • Wagner AH, Taylor KR, DeLuca AP, Casavant TL et al. Prioritization of retinal disease genes: an integrative approach. Hum Mutat 2013 Jun;34(6):853-9. PMID: 23508994
  • Kwon SM, Kim DS, Won NH, Park SJ et al. Genomic copy number alterations with transcriptional deregulation at 6p identify an aggressive HCC phenotype. Carcinogenesis 2013 Jul;34(7):1543-50. PMID: 23508637
  • Franz MC, Anderle P, Bürzle M, Suzuki Y et al. Zinc transporters in prostate cancer. Mol Aspects Med 2013 Apr-Jun;34(2-3):735-41. PMID: 23506906
  • Chou HL, Yao CT, Su SL, Lee CY et al. Gene expression profiling of breast cancer survivability by pooled cDNA microarray analysis using logistic regression, artificial neural networks and decision trees. BMC Bioinformatics 2013 Mar 19;14:100. PMID: 23506640
  • Resch G, François P, Morisset D, Stojanov M et al. Human-to-bovine jump of Staphylococcus aureus CC8 is associated with the loss of a β-hemolysin converting prophage and the acquisition of a new staphylococcal cassette chromosome. PLoS One 2013;8(3):e58187. PMID: 23505465
  • Amar D, Safer H, Shamir R et al. Dissection of regulatory networks that are altered in disease via differential co-expression. PLoS Comput Biol 2013;9(3):e1002955. PMID: 23505361
  • Noh JH, Chang YG, Kim MG, Jung KH et al. MiR-145 functions as a tumor suppressor by directly targeting histone deacetylase 2 in liver cancer. Cancer Lett 2013 Jul 28;335(2):455-62. PMID: 23499894
  • Ohira K, Kobayashi K, Toyama K, Nakamura HK et al. Synaptosomal-associated protein 25 mutation induces immaturity of the dentate granule cells of adult mice. Mol Brain 2013 Mar 12;6:12. PMID: 23497716
  • Yin H, Liang Y, Yan Z, Liu B et al. Mutation spectrum in human colorectal cancers and potential functional relevance. BMC Med Genet 2013 Mar 8;14:32. PMID: 23497483
  • Huang H, Chen Z, Huang X et al. Age-adjusted nonparametric detection of differential DNA methylation with case-control designs. BMC Bioinformatics 2013 Mar 6;14:86. PMID: 23497201
  • Jue NK, Murphy MB, Kasowitz SD, Qureshi SM et al. Determination of dosage compensation of the mammalian X chromosome by RNA-seq is dependent on analytical approach. BMC Genomics 2013 Mar 6;14:150. PMID: 23497106
  • Francis WR, Christianson LM, Kiko R, Powers ML et al. A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly. BMC Genomics 2013 Mar 12;14:167. PMID: 23496952
  • Yates PD, Mukhopadhyay ND et al. An inferential framework for biological network hypothesis tests. BMC Bioinformatics 2013 Mar 14;14:94. PMID: 23496778
  • Xing F, Kobayashi A, Okuda H, Watabe M et al. Reactive astrocytes promote the metastatic growth of breast cancer stem-like cells by activating Notch signalling in brain. EMBO Mol Med 2013 Mar;5(3):384-96. PMID: 23495140
  • Dunbier AK, Ghazoui Z, Anderson H, Salter J et al. Molecular profiling of aromatase inhibitor-treated postmenopausal breast tumors identifies immune-related correlates of resistance. Clin Cancer Res 2013 May 15;19(10):2775-86. PMID: 23493347
  • Templeton JP, Freeman NE, Nickerson JM, Jablonski MM et al. Innate immune network in the retina activated by optic nerve crush. Invest Ophthalmol Vis Sci 2013 Apr 9;54(4):2599-606. PMID: 23493296
  • Finkemeier I, König AC, Heard W, Nunes-Nesi A et al. Transcriptomic analysis of the role of carboxylic acids in metabolite signaling in Arabidopsis leaves. Plant Physiol 2013 May;162(1):239-53. PMID: 23487434
  • Ali S, Hirschfeld AF, Mayer ML, Fortuno ES 3rd et al. Functional genetic variation in NFKBIA and susceptibility to childhood asthma, bronchiolitis, and bronchopulmonary dysplasia. J Immunol 2013 Apr 15;190(8):3949-58. PMID: 23487427
  • Choi YS, Yang JA, Yusuf I, Johnston RJ et al. Bcl6 expressing follicular helper CD4 T cells are fate committed early and have the capacity to form memory. J Immunol 2013 Apr 15;190(8):4014-26. PMID: 23487426
  • Rosikiewicz M, Comte A, Niknejad A, Robinson-Rechavi M et al. Uncovering hidden duplicated content in public transcriptomics data. Database (Oxford) 2013;2013:bat010. PMID: 23487185
  • Ruan MZ, Erez A, Guse K, Dawson B et al. Proteoglycan 4 expression protects against the development of osteoarthritis. Sci Transl Med 2013 Mar 13;5(176):176ra34. PMID: 23486780
  • Yamamoto N, Kinoshita T, Nohata N, Itesako T et al. Tumor suppressive microRNA-218 inhibits cancer cell migration and invasion by targeting focal adhesion pathways in cervical squamous cell carcinoma. Int J Oncol 2013 May;42(5):1523-32. PMID: 23483249
  • Mueller S, Bhargava S, Molinaro AM, Yang X et al. Poly (ADP-Ribose) polymerase inhibitor MK-4827 together with radiation as a novel therapy for metastatic neuroblastoma. Anticancer Res 2013 Mar;33(3):755-62. PMID: 23482742
  • Sheffield NC, Thurman RE, Song L, Safi A et al. Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions. Genome Res 2013 May;23(5):777-88. PMID: 23482648
  • Bondell HD, Reich BJ et al. Consistent high-dimensional Bayesian variable selection via penalized credible regions. J Am Stat Assoc 2012 Dec 21;107(500):1610-1624. PMID: 23482517
  • Li C, Han J, Yao Q, Zou C et al. Subpathway-GM: identification of metabolic subpathways via joint power of interesting genes and metabolites and their topologies within pathways. Nucleic Acids Res 2013 May;41(9):e101. PMID: 23482392
  • Singel SM, Cornelius C, Batten K, Fasciani G et al. A targeted RNAi screen of the breast cancer genome identifies KIF14 and TLN1 as genes that modulate docetaxel chemosensitivity in triple-negative breast cancer. Clin Cancer Res 2013 Apr 15;19(8):2061-70. PMID: 23479679
  • Triche TJ Jr, Weisenberger DJ, Van Den Berg D, Laird PW et al. Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucleic Acids Res 2013 Apr;41(7):e90. PMID: 23476028
  • Lin R, Charlesworth J, Stankovich J, Perreau VM et al. Identity-by-descent mapping to detect rare variants conferring susceptibility to multiple sclerosis. PLoS One 2013;8(3):e56379. PMID: 23472070
  • de Oliveira JE, Druyan S, Uni Z, Ashwell CM et al. Metabolic profiling of late-term turkey embryos by microarrays. Poult Sci 2013 Apr;92(4):1011-28. PMID: 23472025
  • Soni K, Choudhary A, Patowary A, Singh AR et al. miR-34 is maternally inherited in Drosophila melanogaster and Danio rerio. Nucleic Acids Res 2013 Apr;41(8):4470-80. PMID: 23470996
  • Gusev Y, Riggins RB, Bhuvaneshwar K, Gauba R et al. In silico discovery of mitosis regulation networks associated with early distant metastases in estrogen receptor positive breast cancers. Cancer Inform 2013;12:31-51. PMID: 23470717
  • Feldman DE, Chen C, Punj V, Machida K et al. The TBC1D15 oncoprotein controls stem cell self-renewal through destabilization of the Numb-p53 complex. PLoS One 2013;8(2):e57312. PMID: 23468968
  • Granlund Av, Flatberg A, Østvik AE, Drozdov I et al. Whole genome gene expression meta-analysis of inflammatory bowel disease colon mucosa demonstrates lack of major differences between Crohn's disease and ulcerative colitis. PLoS One 2013;8(2):e56818. PMID: 23468882
  • Van Nostrand EL, Sánchez-Blanco A, Wu B, Nguyen A et al. Roles of the developmental regulator unc-62/Homothorax in limiting longevity in Caenorhabditis elegans. PLoS Genet 2013;9(2):e1003325. PMID: 23468654
  • Yuen HF, Gunasekharan VK, Chan KK, Zhang SD et al. RanGTPase: a candidate for Myc-mediated cancer progression. J Natl Cancer Inst 2013 Apr 3;105(7):475-88. PMID: 23468463
  • Long HK, Sims D, Heger A, Blackledge NP et al. Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates. Elife 2013 Feb 26;2:e00348. PMID: 23467541
  • Jeong YT, Cermak L, Guijarro MV, Hernando E et al. FBH1 protects melanocytes from transformation and is deregulated in melanomas. Cell Cycle 2013 Apr 1;12(7):1128-32. PMID: 23466708
  • Desai PT, Porwollik S, Long F, Cheng P et al. Evolutionary Genomics of Salmonella enterica Subspecies. mBio 2013 Mar 5;4(2). PMID: 23462113
  • Abegaz F, Wit E et al. Sparse time series chain graphical models for reconstructing genetic networks. Biostatistics 2013 Jul;14(3):586-99. PMID: 23462022
  • Moll S, Ebeling M, Weibel F, Farina A et al. Epithelial cells as active player in fibrosis: findings from an in vitro model. PLoS One 2013;8(2):e56575. PMID: 23457584
  • Zheng Q, Zheng Y, Perry SE et al. AGAMOUS-Like15 promotes somatic embryogenesis in Arabidopsis and soybean in part by the control of ethylene biosynthesis and response. Plant Physiol 2013 Apr;161(4):2113-27. PMID: 23457229
  • Zhan S, Lukens L et al. Protein-coding cis-natural antisense transcripts have high and broad expression in Arabidopsis. Plant Physiol 2013 Apr;161(4):2171-80. PMID: 23457227
  • Wu G, Yustein JT, McCall MN, Zilliox M et al. ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data. Bioinformatics 2013 May 1;29(9):1182-9. PMID: 23457041
  • Liu M, Hou X, Zhang P, Hao Y et al. Microarray gene expression profiling analysis combined with bioinformatics in multiple sclerosis. Mol Biol Rep 2013 May;40(5):3731-7. PMID: 23456643
  • Li Y, Zhao DY, Greenblatt JF, Zhang Z et al. RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments. Nucleic Acids Res 2013 Apr;41(8):e94. PMID: 23455476
  • Yamasaki T, Seki N, Yoshino H, Itesako T et al. MicroRNA-218 inhibits cell migration and invasion in renal cell carcinoma through targeting caveolin-2 involved in focal adhesion pathway. J Urol 2013 Sep;190(3):1059-68. PMID: 23454155
  • Heider A, Alt R et al. virtualArray: a R/bioconductor package to merge raw data from different microarray platforms. BMC Bioinformatics 2013 Mar 2;14:75. PMID: 23452776
  • Yang J, Yang Z, Lv H, Lou Y et al. Bridging HIV-1 cellular latency and clinical long-term non-progressor: an interactomic view. PLoS One 2013;8(2):e55791. PMID: 23451031
  • Teles RM, Graeber TG, Krutzik SR, Montoya D et al. Type I interferon suppresses type II interferon-triggered human anti-mycobacterial responses. Science 2013 Mar 22;339(6126):1448-53. PMID: 23449998
  • O'Leary EE, Mazurkiewicz-Muñoz AM, Argetsinger LS, Maures TJ et al. Identification of steroid-sensitive gene-1/Ccdc80 as a JAK2-binding protein. Mol Endocrinol 2013 Apr;27(4):619-34. PMID: 23449887
  • Hu S, Xu-Monette ZY, Tzankov A, Green T et al. MYC/BCL2 protein coexpression contributes to the inferior survival of activated B-cell subtype of diffuse large B-cell lymphoma and demonstrates high-risk gene expression signatures: a report from The International DLBCL Rituximab-CHOP Consortium Program. Blood 2013 May 16;121(20):4021-31; quiz 4250. PMID: 23449635
  • Park J, Lee J, Kang W, Chang S et al. TGF-β1 and hypoxia-dependent expression of MKP-1 leads tumor resistance to death receptor-mediated cell death. Cell Death Dis 2013 Feb 28;4(2):e521. PMID: 23449457
  • Pelham CJ, Keen HL, Lentz SR, Sigmund CD et al. Dominant negative PPARγ promotes atherosclerosis, vascular dysfunction, and hypertension through distinct effects in endothelium and vascular muscle. Am J Physiol Regul Integr Comp Physiol 2013 May 1;304(9):R690-701. PMID: 23447133
  • Tsuyuzaki K, Tominaga D, Kwon Y, Miyazaki S et al. Two-way AIC: detection of differentially expressed genes from large scale microarray meta-dataset. BMC Genomics 2013;14 Suppl 2(Suppl 2):S9. PMID: 23445621
  • Tretyakov K, Laur S, Smant G, Vilo J et al. Fast probabilistic file fingerprinting for big data. BMC Genomics 2013;14 Suppl 2(Suppl 2):S8. PMID: 23445565
  • Zhao Q, Caballero OL, Davis ID, Jonasch E et al. Tumor-specific isoform switch of the fibroblast growth factor receptor 2 underlies the mesenchymal and malignant phenotypes of clear cell renal cell carcinomas. Clin Cancer Res 2013 May 1;19(9):2460-72. PMID: 23444225
  • Mathelier A, Carbone A et al. Large scale chromosomal mapping of human microRNA structural clusters. Nucleic Acids Res 2013 Apr;41(8):4392-408. PMID: 23444140
  • Sepúlveda N, Campino SG, Assefa SA, Sutherland CJ et al. A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data. BMC Genomics 2013 Feb 26;14:128. PMID: 23442253
  • Nilsen G, Liestøl K, Van Loo P, Moen Vollan HK et al. Copynumber: Efficient algorithms for single- and multi-track copy number segmentation. BMC Genomics 2012 Nov 4;13:591. PMID: 23442169
  • Feng S, Dakhova O, Creighton CJ, Ittmann M et al. Endocrine fibroblast growth factor FGF19 promotes prostate cancer progression. Cancer Res 2013 Apr 15;73(8):2551-62. PMID: 23440425
  • Malasarn D, Kropat J, Hsieh SI, Finazzi G et al. Zinc deficiency impacts CO2 assimilation and disrupts copper homeostasis in Chlamydomonas reinhardtii. J Biol Chem 2013 Apr 12;288(15):10672-83. PMID: 23439652
  • Roedder S, Kimura N, Okamura H, Hsieh SC et al. Significance and suppression of redundant IL17 responses in acute allograft rejection by bioinformatics based drug repositioning of fenofibrate. PLoS One 2013;8(2):e56657. PMID: 23437201
  • Akalay I, Janji B, Hasmim M, Noman MZ et al. Epithelial-to-mesenchymal transition and autophagy induction in breast carcinoma promote escape from T-cell-mediated lysis. Cancer Res 2013 Apr 15;73(8):2418-27. PMID: 23436798
  • Lichtenstein I, Charleston MA, Caetano TS, Gamble JR et al. Active subnetwork recovery with a mechanism-dependent scoring function; with application to angiogenesis and organogenesis studies. BMC Bioinformatics 2013 Feb 21;14:59. PMID: 23432934
  • Hansen ME, Kulathinal RJ et al. Sex-biased networks and nodes of sexually antagonistic conflict in Drosophila. Int J Evol Biol 2013;2013:545392. PMID: 23431497
  • Dalal J, Roh JH, Maloney SE, Akuffo A et al. Translational profiling of hypocretin neurons identifies candidate molecules for sleep regulation. Genes Dev 2013 Mar 1;27(5):565-78. PMID: 23431030
  • Menschaert G, Van Criekinge W, Notelaers T, Koch A et al. Deep proteome coverage based on ribosome profiling aids mass spectrometry-based protein and peptide discovery and provides evidence of alternative translation products and near-cognate translation initiation events. Mol Cell Proteomics 2013 Jul;12(7):1780-90. PMID: 23429522
  • Aare S, Radell P, Eriksson LI, Akkad H et al. Effects of corticosteroids in the development of limb muscle weakness in a porcine intensive care unit model. Physiol Genomics 2013 Apr 16;45(8):312-20. PMID: 23429211
  • Qi L, Wang L, Huang J, Jiang M et al. Activated amelogenin Y-linked (AMELY) regulation and angiogenesis in human hepatocellular carcinoma by biocomputation. Oncol Lett 2013 Mar;5(3):1075-1079. PMID: 23426651
  • Yang D, Zhu Z, Wang W, Shen P et al. Expression profiles analysis of pancreatic cancer. Eur Rev Med Pharmacol Sci 2013 Feb;17(3):311-7. PMID: 23426533
  • Care MA, Barrans S, Worrillow L, Jack A et al. A microarray platform-independent classification tool for cell of origin class allows comparative analysis of gene expression in diffuse large B-cell lymphoma. PLoS One 2013;8(2):e55895. PMID: 23424639
  • Perez-Rathke A, Li H, Lussier YA et al. Interpreting personal transcriptomes: personalized mechanism-scale profiling of RNA-seq data. Pac Symp Biocomput 2013;:159-70. PMID: 23424121
  • Hicks C, Kumar R, Pannuti A, Backus K et al. An Integrative Genomics Approach for Associating GWAS Information with Triple-Negative Breast Cancer. Cancer Inform 2013;12:1-20. PMID: 23423317
  • Liu L, De S, Michor F et al. DNA replication timing and higher-order nuclear organization determine single-nucleotide substitution patterns in cancer genomes. Nat Commun 2013;4:1502. PMID: 23422670
  • Yang C, Wang L, Zhang S, Zhao H et al. Accounting for non-genetic factors by low-rank representation and sparse regression for eQTL mapping. Bioinformatics 2013 Apr 15;29(8):1026-34. PMID: 23419377
  • Samusik N, Krukovskaya L, Meln I, Shilov E et al. PBOV1 is a human de novo gene with tumor-specific expression that is associated with a positive clinical outcome of cancer. PLoS One 2013;8(2):e56162. PMID: 23418531
  • Comino-Méndez I, de Cubas AA, Bernal C, Álvarez-Escolá C et al. Tumoral EPAS1 (HIF2A) mutations explain sporadic pheochromocytoma and paraganglioma in the absence of erythrocytosis. Hum Mol Genet 2013 Jun 1;22(11):2169-76. PMID: 23418310
  • Nolte SM, Venugopal C, McFarlane N, Morozova O et al. A cancer stem cell model for studying brain metastases from primary lung cancer. J Natl Cancer Inst 2013 Apr 17;105(8):551-62. PMID: 23418195
  • Beerman I, Bock C, Garrison BS, Smith ZD et al. Proliferation-dependent alterations of the DNA methylation landscape underlie hematopoietic stem cell aging. Cell Stem Cell 2013 Apr 4;12(4):413-25. PMID: 23415915
  • Guo AM, Sun K, Su X, Wang H et al. YY1TargetDB: an integral information resource for Yin Yang 1 target loci. Database (Oxford) 2013;2013:bat007. PMID: 23411719
  • Khandanpour C, Phelan JD, Vassen L, Schütte J et al. Growth factor independence 1 antagonizes a p53-induced DNA damage response pathway in lymphoblastic leukemia. Cancer Cell 2013 Feb 11;23(2):200-14. PMID: 23410974
  • Sarwar M, Sandberg S, Abrahamsson PA, Persson JL et al. Protein kinase A (PKA) pathway is functionally linked to androgen receptor (AR) in the progression of prostate cancer. Urol Oncol 2014 Jan;32(1):25.e1-12. PMID: 23410945
  • Plovanich M, Bogorad RL, Sancak Y, Kamer KJ et al. MICU2, a paralog of MICU1, resides within the mitochondrial uniporter complex to regulate calcium handling. PLoS One 2013;8(2):e55785. PMID: 23409044
  • Wang X, Weigel D, Smith LM et al. Transposon variants and their effects on gene expression in Arabidopsis. PLoS Genet 2013;9(2):e1003255. PMID: 23408902
  • Tan L, Xiong L, Xu W, Wu F et al. Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by a new comparative hMeDIP-seq method. Nucleic Acids Res 2013 Apr;41(7):e84. PMID: 23408859
  • Steigedal TS, Prestvik WS, Selvik LK, Fjeldbo CS et al. Gastrin-induced proliferation involves MEK partner 1 (MP1). In Vitro Cell Dev Biol Anim 2013 Mar;49(3):162-9. PMID: 23408059
  • Flegel C, Manteniotis S, Osthold S, Hatt H et al. Expression profile of ectopic olfactory receptors determined by deep sequencing. PLoS One 2013;8(2):e55368. PMID: 23405139
  • Prat A, Adamo B, Cheang MC, Anders CK et al. Molecular characterization of basal-like and non-basal-like triple-negative breast cancer. Oncologist 2013;18(2):123-33. PMID: 23404817
  • Imberg-Kazdan K, Ha S, Greenfield A, Poultney CS et al. A genome-wide RNA interference screen identifies new regulators of androgen receptor function in prostate cancer cells. Genome Res 2013 Apr;23(4):581-91. PMID: 23403032
  • Loss-Morais G, Waterhouse PM, Margis R et al. Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets. Biol Direct 2013 Feb 12;8:6. PMID: 23402430
  • Seok J, Warren HS, Cuenca AG, Mindrinos MN et al. Genomic responses in mouse models poorly mimic human inflammatory diseases. Proc Natl Acad Sci U S A 2013 Feb 26;110(9):3507-12. PMID: 23401516
  • Choi SM, McAleer JP, Zheng M, Pociask DA et al. Innate Stat3-mediated induction of the antimicrobial protein Reg3γ is required for host defense against MRSA pneumonia. J Exp Med 2013 Mar 11;210(3):551-61. PMID: 23401489
  • Satoh J, Tabunoki H et al. Molecular network of chromatin immunoprecipitation followed by deep sequencing-based vitamin D receptor target genes. Mult Scler 2013 Jul;19(8):1035-45. PMID: 23401126
  • Narsai R, Wang C, Chen J, Wu J et al. Antagonistic, overlapping and distinct responses to biotic stress in rice (Oryza sativa) and interactions with abiotic stress. BMC Genomics 2013 Feb 12;14:93. PMID: 23398910
  • Hoffman AE, Demanelis K, Fu A, Zheng T et al. Association of AMP-activated protein kinase with risk and progression of non-Hodgkin lymphoma. Cancer Epidemiol Biomarkers Prev 2013 Apr;22(4):736-44. PMID: 23396962
  • Chan WL, Yang WK, Huang HD, Chang JG et al. pseudoMap: an innovative and comprehensive resource for identification of siRNA-mediated mechanisms in human transcribed pseudogenes. Database (Oxford) 2013;2013:bat001. PMID: 23396300
  • Cohen D, Bogeat-Triboulot MB, Vialet-Chabrand S, Merret R et al. Developmental and environmental regulation of Aquaporin gene expression across Populus species: divergence or redundancy? PLoS One 2013;8(2):e55506. PMID: 23393587
  • Taylor DM, Moser R, Régulier E, Breuillaud L et al. MAP kinase phosphatase 1 (MKP-1/DUSP1) is neuroprotective in Huntington's disease via additive effects of JNK and p38 inhibition. J Neurosci 2013 Feb 6;33(6):2313-25. PMID: 23392662
  • Blumenberg MProfiling and metaanalysis of epidermal keratinocytes responses to epidermal growth factor. BMC Genomics 2013 Feb 8;14:85. PMID: 23391100
  • Singh H, Farouk M, Bose BB, Singh P et al. Novel genes underlying beta cell survival in metabolic stress. Bioinformation 2013;9(1):37-41. PMID: 23390342
  • Zheng D, Decker KF, Zhou T, Chen J et al. Role of WNT7B-induced noncanonical pathway in advanced prostate cancer. Mol Cancer Res 2013 May;11(5):482-93. PMID: 23386686
  • Wang Y, Radhakrishnan D, He X, Peehl DM et al. Transcription factor KLLN inhibits tumor growth by AR suppression, induces apoptosis by TP53/TP73 stimulation in prostate carcinomas, and correlates with cellular differentiation. J Clin Endocrinol Metab 2013 Mar;98(3):E586-94. PMID: 23386643
  • Desai S, Liu Z, Yao J, Patel N et al. Heat shock factor 1 (HSF1) controls chemoresistance and autophagy through transcriptional regulation of autophagy-related protein 7 (ATG7). J Biol Chem 2013 Mar 29;288(13):9165-76. PMID: 23386620
  • Walker CG, Littlejohn MD, Meier S, Roche JR et al. DNA methylation is correlated with gene expression during early pregnancy in Bos taurus. Physiol Genomics 2013 Apr 1;45(7):276-86. PMID: 23386203
  • Okuda H, Xing F, Pandey PR, Sharma S et al. miR-7 suppresses brain metastasis of breast cancer stem-like cells by modulating KLF4. Cancer Res 2013 Feb 15;73(4):1434-44. PMID: 23384942
  • Vaquero-Sedas MI, Vega-Palas MA et al. Differential association of Arabidopsis telomeres and centromeres with histone H3 variants. Sci Rep 2013;3:1202. PMID: 23383372
  • Ewald JA, Downs TM, Cetnar JP, Ricke WA et al. Expression microarray meta-analysis identifies genes associated with Ras/MAPK and related pathways in progression of muscle-invasive bladder transition cell carcinoma. PLoS One 2013;8(2):e55414. PMID: 23383328
  • Qiu Q, Lu P, Xiang Y, Shyr Y et al. A data similarity-based strategy for meta-analysis of transcriptional profiles in cancer. PLoS One 2013;8(1):e54979. PMID: 23383020
  • Koh GC, Schreiber MF, Bautista R, Maude RR et al. Host responses to melioidosis and tuberculosis are both dominated by interferon-mediated signaling. PLoS One 2013;8(1):e54961. PMID: 23383015
  • Hui W, Yuntao L, Lun L, WenSheng L et al. MicroRNA-195 inhibits the proliferation of human glioma cells by directly targeting cyclin D1 and cyclin E1. PLoS One 2013;8(1):e54932. PMID: 23383003
  • Homouz D, Kudlicki AS et al. The 3D organization of the yeast genome correlates with co-expression and reflects functional relations between genes. PLoS One 2013;8(1):e54699. PMID: 23382942
  • Nasu A, Ikeya M, Yamamoto T, Watanabe A et al. Genetically matched human iPS cells reveal that propensity for cartilage and bone differentiation differs with clones, not cell type of origin. PLoS One 2013;8(1):e53771. PMID: 23382851
  • Li Z, Herold T, He C, Valk PJ et al. Identification of a 24-gene prognostic signature that improves the European LeukemiaNet risk classification of acute myeloid leukemia: an international collaborative study. J Clin Oncol 2013 Mar 20;31(9):1172-81. PMID: 23382473
  • Park C, Chen X, Yang JR, Zhang J et al. Differential requirements for mRNA folding partially explain why highly expressed proteins evolve slowly. Proc Natl Acad Sci U S A 2013 Feb 19;110(8):E678-86. PMID: 23382244
  • Yin CC, Cho OH, Sylvia KE, Narayan K et al. The Tec kinase ITK regulates thymic expansion, emigration, and maturation of γδ NKT cells. J Immunol 2013 Mar 15;190(6):2659-69. PMID: 23378428
  • Salamon H, Qiao Y, Cheng JC, Yamaguchi KD et al. Evidence for postinitiation regulation of mRNA biogenesis in tuberculosis. J Immunol 2013 Mar 15;190(6):2747-55. PMID: 23378427
  • Yokobori T, Iinuma H, Shimamura T, Imoto S et al. Plastin3 is a novel marker for circulating tumor cells undergoing the epithelial-mesenchymal transition and is associated with colorectal cancer prognosis. Cancer Res 2013 Apr 1;73(7):2059-69. PMID: 23378342
  • Johnston A, Xing X, Swindell WR, Kochkodan J et al. Susceptibility-associated genetic variation at IL12B enhances Th1 polarization in psoriasis. Hum Mol Genet 2013 May 1;22(9):1807-15. PMID: 23376980
  • Dassi E, Zuccotti P, Leo S, Provenzani A et al. Hyper conserved elements in vertebrate mRNA 3'-UTRs reveal a translational network of RNA-binding proteins controlled by HuR. Nucleic Acids Res 2013 Mar 1;41(5):3201-16. PMID: 23376935
  • Chan WL, Yuo CY, Yang WK, Hung SY et al. Transcribed pseudogene ψPPM1K generates endogenous siRNA to suppress oncogenic cell growth in hepatocellular carcinoma. Nucleic Acids Res 2013 Apr 1;41(6):3734-47. PMID: 23376929
  • Shahzad K, Loor JJ et al. Application of Top-Down and Bottom-up Systems Approaches in Ruminant Physiology and Metabolism. Curr Genomics 2012 Aug;13(5):379-94. PMID: 23372424
  • Okano H, Nakamura M, Yoshida K, Okada Y et al. Steps toward safe cell therapy using induced pluripotent stem cells. Circ Res 2013 Feb 1;112(3):523-33. PMID: 23371901
  • Ma H, Zhao H et al. Drug target inference through pathway analysis of genomics data. Adv Drug Deliv Rev 2013 Jun 30;65(7):966-72. PMID: 23369829
  • Chen Z, Huang H, Liu J, Tony Ng HK et al. Detecting differentially methylated loci for Illumina Array methylation data based on human ovarian cancer data. BMC Med Genomics 2013;6 Suppl 1(Suppl 1):S9. PMID: 23369576
  • Qureshi R, Sacan A et al. A novel method for the normalization of microRNA RT-PCR data. BMC Med Genomics 2013;6 Suppl 1(Suppl 1):S14. PMID: 23369279
  • Zeng J, Hannenhalli S et al. Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation. BMC Genomics 2013;14 Suppl 1(Suppl 1):S15. PMID: 23368094
  • Gaire RK, Smith L, Humbert P, Bailey J et al. Discovery and analysis of consistent active sub-networks in cancers. BMC Bioinformatics 2013;14 Suppl 2(Suppl 2):S7. PMID: 23368093
  • Le TD, Liu L, Tsykin A, Goodall GJ et al. Inferring microRNA-mRNA causal regulatory relationships from expression data. Bioinformatics 2013 Mar 15;29(6):765-71. PMID: 23365408
  • Körner C, Keklikoglou I, Bender C, Wörner A et al. MicroRNA-31 sensitizes human breast cells to apoptosis by direct targeting of protein kinase C epsilon (PKCepsilon). J Biol Chem 2013 Mar 22;288(12):8750-8761. PMID: 23364795
  • Reichmann J, Reddington JP, Best D, Read D et al. The genome-defence gene Tex19.1 suppresses LINE-1 retrotransposons in the placenta and prevents intra-uterine growth retardation in mice. Hum Mol Genet 2013 May 1;22(9):1791-806. PMID: 23364048
  • Günther K, Rust M, Leers J, Boettger T et al. Differential roles for MBD2 and MBD3 at methylated CpG islands, active promoters and binding to exon sequences. Nucleic Acids Res 2013 Mar 1;41(5):3010-21. PMID: 23361464
  • Garipov A, Li H, Bitler BG, Thapa RJ et al. NF-YA underlies EZH2 upregulation and is essential for proliferation of human epithelial ovarian cancer cells. Mol Cancer Res 2013 Apr;11(4):360-9. PMID: 23360797
  • Lobry C, Ntziachristos P, Ndiaye-Lobry D, Oh P et al. Notch pathway activation targets AML-initiating cell homeostasis and differentiation. J Exp Med 2013 Feb 11;210(2):301-19. PMID: 23359070
  • Kannan S, Sutphin RM, Hall MG, Golfman LS et al. Notch activation inhibits AML growth and survival: a potential therapeutic approach. J Exp Med 2013 Feb 11;210(2):321-37. PMID: 23359069
  • Coppotelli G, Mughal N, Callegari S, Sompallae R et al. The Epstein-Barr virus nuclear antigen-1 reprograms transcription by mimicry of high mobility group A proteins. Nucleic Acids Res 2013 Mar 1;41(5):2950-62. PMID: 23358825
  • Witwer KWData submission and quality in microarray-based microRNA profiling. Clin Chem 2013 Feb;59(2):392-400. PMID: 23358751
  • Tang H, Xiao G, Behrens C, Schiller J et al. A 12-gene set predicts survival benefits from adjuvant chemotherapy in non-small cell lung cancer patients. Clin Cancer Res 2013 Mar 15;19(6):1577-86. PMID: 23357979
  • Grafodatskaya D, Chung BH, Butcher DT, Turinsky AL et al. Multilocus loss of DNA methylation in individuals with mutations in the histone H3 lysine 4 demethylase KDM5C. BMC Med Genomics 2013 Jan 28;6:1. PMID: 23356856
  • de las Casas-Engel M, Domínguez-Soto A, Sierra-Filardi E, Bragado R et al. Serotonin skews human macrophage polarization through HTR2B and HTR7. J Immunol 2013 Mar 1;190(5):2301-10. PMID: 23355731
  • Rueda BR, Davis JS et al. No REST for fibroids. Proc Natl Acad Sci U S A 2013 Feb 5;110(6):1980-1. PMID: 23355686
  • Collings CK, Waddell PJ, Anderson JN et al. Effects of DNA methylation on nucleosome stability. Nucleic Acids Res 2013 Mar 1;41(5):2918-31. PMID: 23355616
  • Du Z, Li H, Wei Q, Zhao X et al. Genome-wide analysis of histone modifications: H3K4me2, H3K4me3, H3K9ac, and H3K27ac in Oryza sativa L. Japonica. Mol Plant 2013 Sep;6(5):1463-72. PMID: 23355544
  • Li X, Wu Z, Wang Y, Mei Q et al. Characterization of adult α- and β-globin elevated by hydrogen peroxide in cervical cancer cells that play a cytoprotective role against oxidative insults. PLoS One 2013;8(1):e54342. PMID: 23349856
  • Liu S, Li W, Wu Y, Chen C et al. De novo transcriptome assembly in chili pepper (Capsicum frutescens) to identify genes involved in the biosynthesis of capsaicinoids. PLoS One 2013;8(1):e48156. PMID: 23349661
  • Szabó PM, Butz H, Igaz P, Rácz K et al. Minireview: miRomics in endocrinology: a novel approach for modeling endocrine diseases. Mol Endocrinol 2013 Apr;27(4):573-85. PMID: 23349525
  • Díaz-García CV, Agudo-López A, Pérez C, López-Martín JA et al. DICER1, DROSHA and miRNAs in patients with non-small cell lung cancer: implications for outcomes and histologic classification. Carcinogenesis 2013 May;34(5):1031-8. PMID: 23349018
  • Yoshioka T, Otero J, Chen Y, Kim YM et al. β4 Integrin signaling induces expansion of prostate tumor progenitors. J Clin Invest 2013 Feb;123(2):682-99. PMID: 23348745
  • Wissler L, Gadau J, Simola DF, Helmkampf M et al. Mechanisms and dynamics of orphan gene emergence in insect genomes. Genome Biol Evol 2013;5(2):439-55. PMID: 23348040
  • Kudron M, Niu W, Lu Z, Wang G et al. Tissue-specific direct targets of Caenorhabditis elegans Rb/E2F dictate distinct somatic and germline programs. Genome Biol 2013 Jan 23;14(1):R5. PMID: 23347407
  • Wang J, Sun Y, Zheng S, Zhang XS et al. APG: an Active Protein-Gene network model to quantify regulatory signals in complex biological systems. Sci Rep 2013;3:1097. PMID: 23346354
  • Han S, Lee J, Kim S et al. Understanding Disease Susceptibility through Population Genomics. Genomics Inform 2012 Dec;10(4):234-8. PMID: 23346035
  • Ottesen EA, Young CR, Eppley JM, Ryan JP et al. Pattern and synchrony of gene expression among sympatric marine microbial populations. Proc Natl Acad Sci U S A 2013 Feb 5;110(6):E488-97. PMID: 23345438
  • Terrier O, Textoris J, Carron C, Marcel V et al. Host microRNA molecular signatures associated with human H1N1 and H3N2 influenza A viruses reveal an unanticipated antiviral activity for miR-146a. J Gen Virol 2013 May;94(Pt 5):985-995. PMID: 23343627
  • Eckalbar WL, Hutchins ED, Markov GJ, Allen AN et al. Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes. BMC Genomics 2013 Jan 23;14:49. PMID: 23343042
  • Deng FY, Lei SF, Zhang YH, Zhang ZL et al. Functional relevance for associations between genetic variants and systemic lupus erythematosus. PLoS One 2013;8(1):e53037. PMID: 23341919
  • Thieme S, Groth P et al. Genome Fusion Detection: a novel method to detect fusion genes from SNP-array data. Bioinformatics 2013 Mar 15;29(6):671-7. PMID: 23341502
  • Bockhorn J, Dalton R, Nwachukwu C, Huang S et al. MicroRNA-30c inhibits human breast tumour chemotherapy resistance by regulating TWF1 and IL-11. Nat Commun 2013;4:1393. PMID: 23340433
  • Abiko K, Mandai M, Hamanishi J, Yoshioka Y et al. PD-L1 on tumor cells is induced in ascites and promotes peritoneal dissemination of ovarian cancer through CTL dysfunction. Clin Cancer Res 2013 Mar 15;19(6):1363-74. PMID: 23340297
  • Darlington Y, Jeong JW, Lee KY, Franco HL et al. Research resource: the Endometrium Database Resource (EDR). Mol Endocrinol 2013 Mar;27(3):548-54. PMID: 23340253
  • Nguyen DH, Fredlund E, Zhao W, Perou CM et al. Murine microenvironment metaprofiles associate with human cancer etiology and intrinsic subtypes. Clin Cancer Res 2013 Mar 15;19(6):1353-62. PMID: 23339125
  • Jin L, Wessely O, Marcusson EG, Ivan C et al. Prooncogenic factors miR-23b and miR-27b are regulated by Her2/Neu, EGF, and TNF-α in breast cancer. Cancer Res 2013 May 1;73(9):2884-96. PMID: 23338610
  • Daley SR, Hu DY, Goodnow CC et al. Helios marks strongly autoreactive CD4+ T cells in two major waves of thymic deletion distinguished by induction of PD-1 or NF-κB. J Exp Med 2013 Feb 11;210(2):269-85. PMID: 23337809
  • Hui JH, Marco A, Hunt S, Melling J et al. Structure, evolution and function of the bi-directionally transcribed iab-4/iab-8 microRNA locus in arthropods. Nucleic Acids Res 2013 Mar 1;41(5):3352-61. PMID: 23335784
  • Hausser J, Syed AP, Bilen B, Zavolan M et al. Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation. Genome Res 2013 Apr;23(4):604-15. PMID: 23335364
  • Italiano A, Lagarde P, Brulard C, Terrier P et al. Genetic profiling identifies two classes of soft-tissue leiomyosarcomas with distinct clinical characteristics. Clin Cancer Res 2013 Mar 1;19(5):1190-6. PMID: 23329812
  • Goretti E, Rolland-Turner M, Léonard F, Zhang L et al. MicroRNA-16 affects key functions of human endothelial progenitor cells. J Leukoc Biol 2013 May;93(5):645-55. PMID: 23325924
  • Castellano L, Stebbing J et al. Deep sequencing of small RNAs identifies canonical and non-canonical miRNA and endogenous siRNAs in mammalian somatic tissues. Nucleic Acids Res 2013 Mar 1;41(5):3339-51. PMID: 23325850
  • Gan H, Cai T, Lin X, Wu Y et al. Integrative proteomic and transcriptomic analyses reveal multiple post-transcriptional regulatory mechanisms of mouse spermatogenesis. Mol Cell Proteomics 2013 May;12(5):1144-57. PMID: 23325766
  • Jézéquel P, Frénel JS, Campion L, Guérin-Charbonnel C et al. bc-GenExMiner 3.0: new mining module computes breast cancer gene expression correlation analyses. Database (Oxford) 2013;2013:bas060. PMID: 23325629
  • Varley KE, Gertz J, Bowling KM, Parker SL et al. Dynamic DNA methylation across diverse human cell lines and tissues. Genome Res 2013 Mar;23(3):555-67. PMID: 23325432
  • Wang X, Falkner B, Zhu H, Shi H et al. A genome-wide methylation study on essential hypertension in young African American males. PLoS One 2013;8(1):e53938. PMID: 23325143
  • Kang K, Robinson GW, Hennighausen L et al. Comprehensive meta-analysis of Signal Transducers and Activators of Transcription (STAT) genomic binding patterns discerns cell-specific cis-regulatory modules. BMC Genomics 2013 Jan 16;14:4. PMID: 23324445
  • Hänzelmann S, Castelo R, Guinney J et al. GSVA: gene set variation analysis for microarray and RNA-seq data. BMC Bioinformatics 2013 Jan 16;14:7. PMID: 23323831
  • Gong H, Song L, Lin C, Liu A et al. Downregulation of miR-138 sustains NF-κB activation and promotes lipid raft formation in esophageal squamous cell carcinoma. Clin Cancer Res 2013 Mar 1;19(5):1083-93. PMID: 23319823
  • Camps J, Pitt JJ, Emons G, Hummon AB et al. Genetic amplification of the NOTCH modulator LNX2 upregulates the WNT/β-catenin pathway in colorectal cancer. Cancer Res 2013 Mar 15;73(6):2003-13. PMID: 23319804
  • Belmonte MF, Kirkbride RC, Stone SL, Pelletier JM et al. Comprehensive developmental profiles of gene activity in regions and subregions of the Arabidopsis seed. Proc Natl Acad Sci U S A 2013 Jan 29;110(5):E435-44. PMID: 23319655
  • Farber CRSystems-level analysis of genome-wide association data. G3 (Bethesda) 2013 Jan;3(1):119-29. PMID: 23316444
  • Zemans RL, McClendon J, Aschner Y, Briones N et al. Role of β-catenin-regulated CCN matricellular proteins in epithelial repair after inflammatory lung injury. Am J Physiol Lung Cell Mol Physiol 2013 Mar 15;304(6):L415-27. PMID: 23316072
  • Sackton TB, Hartl DL et al. Meta-analysis reveals that genes regulated by the Y chromosome in Drosophila melanogaster are preferentially localized to repressive chromatin. Genome Biol Evol 2013;5(1):255-66. PMID: 23315381
  • Kumps C, Fieuw A, Mestdagh P, Menten B et al. Focal DNA copy number changes in neuroblastoma target MYCN regulated genes. PLoS One 2013;8(1):e52321. PMID: 23308108
  • Xie G, Yang B, Xu Z, Li F et al. Global identification of multiple OsGH9 family members and their involvement in cellulose crystallinity modification in rice. PLoS One 2013;8(1):e50171. PMID: 23308094
  • Mangialardi G, Katare R, Oikawa A, Meloni M et al. Diabetes causes bone marrow endothelial barrier dysfunction by activation of the RhoA-Rho-associated kinase signaling pathway. Arterioscler Thromb Vasc Biol 2013 Mar;33(3):555-64. PMID: 23307872
  • Aklujkar M, Coppi MV, Leang C, Kim BC et al. Proteins involved in electron transfer to Fe(III) and Mn(IV) oxides by Geobacter sulfurreducens and Geobacter uraniireducens. Microbiology (Reading) 2013 Mar;159(Pt 3):515-535. PMID: 23306674
  • Wang H, He L, Ma F, Regan MM et al. SOX9 regulates low density lipoprotein receptor-related protein 6 (LRP6) and T-cell factor 4 (TCF4) expression and Wnt/β-catenin activation in breast cancer. J Biol Chem 2013 Mar 1;288(9):6478-87. PMID: 23306204
  • Jiang X, Kim J, Wu Y, Wang S et al. Selecting cases for whom additional tests can improve prognostication. AMIA Annu Symp Proc 2012;2012:1260-8. PMID: 23304404
  • Burton M, Thomassen M, Tan Q, Kruse TA et al. Prediction of breast cancer metastasis by gene expression profiles: a comparison of metagenes and single genes. Cancer Inform 2012;11:193-217. PMID: 23304070
  • Chen DH, Chang AY, Liao BY, Yeang CH et al. Functional characterization of motif sequences under purifying selection. Nucleic Acids Res 2013 Feb 1;41(4):2105-20. PMID: 23303791
  • Mandal AK, Pandey R, Jha V, Mukerji M et al. Transcriptome-wide expansion of non-coding regulatory switches: evidence from co-occurrence of Alu exonization, antisense and editing. Nucleic Acids Res 2013 Feb 1;41(4):2121-37. PMID: 23303787
  • Quon G, Lippert C, Heckerman D, Listgarten J et al. Patterns of methylation heritability in a genome-wide analysis of four brain regions. Nucleic Acids Res 2013 Feb 1;41(4):2095-104. PMID: 23303775
  • Cappallo-Obermann H, Feig C, Schulze W, Spiess AN et al. Fold-change correction values for testicular somatic transcripts in gene expression studies of human spermatogenesis. Hum Reprod 2013 Mar;28(3):590-8. PMID: 23303554
  • Malta TM, Silva IT, Pinheiro DG, Santos AR et al. Altered expression of degranulation-related genes in CD8+ T cells in human T lymphotropic virus type I infection. AIDS Res Hum Retroviruses 2013 May;29(5):826-36. PMID: 23301858
  • Ono M, Tanaka RJ, Kano M, Sugiman T et al. Visualising the cross-level relationships between pathological and physiological processes and gene expression: analyses of haematological diseases. PLoS One 2013;8(1):e53544. PMID: 23301083
  • Han Y, Huang H, Xiao Z, Zhang W et al. Integrated analysis of gene expression profiles associated with response of platinum/paclitaxel-based treatment in epithelial ovarian cancer. PLoS One 2012;7(12):e52745. PMID: 23300757
  • Wishart DSChapter 3: Small molecules and disease. PLoS Comput Biol 2012;8(12):e1002805. PMID: 23300405
  • Walsh K, McKinney MS, Love C, Liu Q et al. PAK1 mediates resistance to PI3K inhibition in lymphomas. Clin Cancer Res 2013 Mar 1;19(5):1106-15. PMID: 23300274
  • Ramachandran P, Palidwor GA, Porter CJ, Perkins TJ et al. MaSC: mappability-sensitive cross-correlation for estimating mean fragment length of single-end short-read sequencing data. Bioinformatics 2013 Feb 15;29(4):444-50. PMID: 23300135
  • Yasuda K, Cline C, Vogel P, Onciu M et al. Drug transporters on arachnoid barrier cells contribute to the blood-cerebrospinal fluid barrier. Drug Metab Dispos 2013 Apr;41(4):923-31. PMID: 23298861
  • Brock GN, Mukhopadhyay P, Pihur V, Webb C et al. MmPalateMiRNA, an R package compendium illustrating analysis of miRNA microarray data. Source Code Biol Med 2013 Jan 8;8(1):1. PMID: 23298515
  • Becker J, Yau C, Hancock JM, Holmes CC et al. NucleoFinder: a statistical approach for the detection of nucleosome positions. Bioinformatics 2013 Mar 15;29(6):711-6. PMID: 23297036
  • Romeo JS, Torres-Avilés F, López-Kleine L et al. Detection of influent virulence and resistance genes in microarray data through quasi likelihood modeling. Mol Genet Genomics 2013 Feb;288(1-2):49-61. PMID: 23296985
  • De Jager N, Hudson NJ, Reverter A, Barnard R et al. Gene expression phenotypes for lipid metabolism and intramuscular fat in skeletal muscle of cattle. J Anim Sci 2013 Mar;91(3):1112-28. PMID: 23296809
  • Van der Aa N, Cheng J, Mateiu L, Zamani Esteki M et al. Genome-wide copy number profiling of single cells in S-phase reveals DNA-replication domains. Nucleic Acids Res 2013 Apr 1;41(6):e66. PMID: 23295674
  • Iglesias-Platas I, Court F, Camprubi C, Sparago A et al. Imprinting at the PLAGL1 domain is contained within a 70-kb CTCF/cohesin-mediated non-allelic chromatin loop. Nucleic Acids Res 2013 Feb 1;41(4):2171-9. PMID: 23295672
  • Hutchins AP, Diez D, Takahashi Y, Ahmad S et al. Distinct transcriptional regulatory modules underlie STAT3's cell type-independent and cell type-specific functions. Nucleic Acids Res 2013 Feb 1;41(4):2155-70. PMID: 23295670
  • Friedel S, Usadel B, von Wirén N, Sreenivasulu N et al. Reverse engineering: a key component of systems biology to unravel global abiotic stress cross-talk. Front Plant Sci 2012;3:294. PMID: 23293646
  • Martinez FO, Helming L, Milde R, Varin A et al. Genetic programs expressed in resting and IL-4 alternatively activated mouse and human macrophages: similarities and differences. Blood 2013 Feb 28;121(9):e57-69. PMID: 23293084
  • Zhang J, Grubor V, Love CL, Banerjee A et al. Genetic heterogeneity of diffuse large B-cell lymphoma. Proc Natl Acad Sci U S A 2013 Jan 22;110(4):1398-403. PMID: 23292937
  • Mahlendorf DE, Staege MS et al. Characterization of Ewing sarcoma associated cancer/testis antigens. Cancer Biol Ther 2013 Mar;14(3):254-61. PMID: 23291981
  • Kirino Y, Bertsias G, Ishigatsubo Y, Mizuki N et al. Genome-wide association analysis identifies new susceptibility loci for Behçet's disease and epistasis between HLA-B*51 and ERAP1. Nat Genet 2013 Feb;45(2):202-7. PMID: 23291587
  • Liu H, Wang LE, Liu Z, Chen WV et al. Association between functional polymorphisms in genes involved in the MAPK signaling pathways and cutaneous melanoma risk. Carcinogenesis 2013 Apr;34(4):885-92. PMID: 23291271
  • Shen SP, Aleksic J, Russell S et al. Identifying targets of the Sox domain protein Dichaete in the Drosophila CNS via targeted expression of dominant negative proteins. BMC Dev Biol 2013 Jan 5;13:1. PMID: 23289785
  • Su Y, Nielsen D, Zhu L, Richards K et al. Gene selection and cancer type classification of diffuse large-B-cell lymphoma using a bivariate mixture model for two-species data. Hum Genomics 2013 Jan 5;7(1):2. PMID: 23289441
  • Svrcek M, El-Murr N, Wanherdrick K, Dumont S et al. Overexpression of microRNAs-155 and 21 targeting mismatch repair proteins in inflammatory bowel diseases. Carcinogenesis 2013 Apr;34(4):828-34. PMID: 23288924
  • González-Gugel E, Villa-Morales M, Santos J, Bueno MJ et al. Down-regulation of specific miRNAs enhances the expression of the gene Smoothened and contributes to T-cell lymphoblastic lymphoma development. Carcinogenesis 2013 Apr;34(4):902-8. PMID: 23288923
  • Berkovits BD, Wolgemuth DJ et al. The role of the double bromodomain-containing BET genes during mammalian spermatogenesis. Curr Top Dev Biol 2013;102:293-326. PMID: 23287038
  • Bhattacharya A, Chen CY, Ho S, Mitchell JA et al. Upstream distal regulatory elements contact the Lmo2 promoter in mouse erythroid cells. PLoS One 2012;7(12):e52880. PMID: 23285212
  • Baitaluk M, Kozhenkov S, Ponomarenko J et al. An integrative approach to inferring gene regulatory module networks. PLoS One 2012;7(12):e52836. PMID: 23285197
  • Diao H, Li X, Hu S, Liu Y et al. Gene expression profiling combined with bioinformatics analysis identify biomarkers for Parkinson disease. PLoS One 2012;7(12):e52319. PMID: 23284986
  • Tegge AN, Caldwell CW, Xu D et al. Pathway correlation profile of gene-gene co-expression for identifying pathway perturbation. PLoS One 2012;7(12):e52127. PMID: 23284898
  • Godsey B, Heiser D, Civin C et al. Inferring microRNA regulation of mRNA with partially ordered samples of paired expression data and exogenous prediction algorithms. PLoS One 2012;7(12):e51480. PMID: 23284698
  • Xiang X, Deng Z, Zhuang X, Ju S et al. Grhl2 determines the epithelial phenotype of breast cancers and promotes tumor progression. PLoS One 2012;7(12):e50781. PMID: 23284647
  • Qiao W, Quon G, Csaszar E, Yu M et al. PERT: a method for expression deconvolution of human blood samples from varied microenvironmental and developmental conditions. PLoS Comput Biol 2012;8(12):e1002838. PMID: 23284283
  • Varghese BV, Koohestani F, McWilliams M, Colvin A et al. Loss of the repressor REST in uterine fibroids promotes aberrant G protein-coupled receptor 10 expression and activates mammalian target of rapamycin pathway. Proc Natl Acad Sci U S A 2013 Feb 5;110(6):2187-92. PMID: 23284171
  • Fu Y, Jiang X, Zhang H, Xing J et al. A strategy to study pathway cross-talks of cells under repetitive exposure to stimuli. BMC Syst Biol 2012;6 Suppl 3(Suppl 3):S6. PMID: 23282371
  • Jia P, Liu Y, Zhao Z et al. Integrative pathway analysis of genome-wide association studies and gene expression data in prostate cancer. BMC Syst Biol 2012;6 Suppl 3(Suppl 3):S13. PMID: 23281744
  • Zhang J, Parvin J, Huang K et al. Redistribution of H3K4me2 on neural tissue specific genes during mouse brain development. BMC Genomics 2012;13 Suppl 8(Suppl 8):S5. PMID: 23281639
  • Yang Z, Dong D, Zhang Z, Crabbe MJ et al. Preferential regulation of stably expressed genes in the human genome suggests a widespread expression buffering role of microRNAs. BMC Genomics 2012;13 Suppl 7(Suppl 7):S14. PMID: 23281599
  • Heidel FH, Bullinger L, Arreba-Tutusaus P, Wang Z et al. The cell fate determinant Llgl1 influences HSC fitness and prognosis in AML. J Exp Med 2013 Jan 14;210(1):15-22. PMID: 23277453
  • Suzuki HI, Mihira H, Watabe T, Sugimoto K et al. Widespread inference of weighted microRNA-mediated gene regulation in cancer transcriptome analysis. Nucleic Acids Res 2013 Mar 1;41(5):e62. PMID: 23275554
  • Holmes DE, Giloteaux L, Barlett M, Chavan MA et al. Molecular analysis of the in situ growth rates of subsurface Geobacter species. Appl Environ Microbiol 2013 Mar;79(5):1646-53. PMID: 23275510
  • Colmsee C, Mascher M, Czauderna T, Hartmann A et al. OPTIMAS-DW: a comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize. BMC Plant Biol 2012 Dec 29;12:245. PMID: 23272737
  • Goswami CP, Nakshatri H et al. PROGmiR: a tool for identifying prognostic miRNA biomarkers in multiple cancers using publicly available data. J Clin Bioinforma 2012 Dec 28;2(1):23. PMID: 23272654
  • Zhang X, Ung CY, Lam SH, Ma J et al. Toxicogenomic analysis suggests chemical-induced sexual dimorphism in the expression of metabolic genes in zebrafish liver. PLoS One 2012;7(12):e51971. PMID: 23272195
  • Van Aken O, Whelan J et al. Comparison of transcriptional changes to chloroplast and mitochondrial perturbations reveals common and specific responses in Arabidopsis. Front Plant Sci 2012;3:281. PMID: 23269925
  • Järvstråt L, Johansson M, Gullberg U, Nilsson B et al. Ultranet: efficient solver for the sparse inverse covariance selection problem in gene network modeling. Bioinformatics 2013 Feb 15;29(4):511-2. PMID: 23267175
  • Kim HJ, Prasad V, Hyung SW, Lee ZH et al. Plasma membrane calcium ATPase regulates bone mass by fine-tuning osteoclast differentiation and survival. J Cell Biol 2012 Dec 24;199(7):1145-58. PMID: 23266958
  • Kopke K, Hoff B, Bloemendal S, Katschorowski A et al. Members of the Penicillium chrysogenum velvet complex play functionally opposing roles in the regulation of penicillin biosynthesis and conidiation. Eukaryot Cell 2013 Feb;12(2):299-310. PMID: 23264641
  • Li Z, Zhang Z, Li Y, Arnovitz S et al. PBX3 is an important cofactor of HOXA9 in leukemogenesis. Blood 2013 Feb 21;121(8):1422-31. PMID: 23264595
  • Bertolini E, Verelst W, Horner DS, Gianfranceschi L et al. Addressing the role of microRNAs in reprogramming leaf growth during drought stress in Brachypodium distachyon. Mol Plant 2013 Mar;6(2):423-43. PMID: 23264558
  • Nookaew I, Svensson PA, Jacobson P, Jernås M et al. Adipose tissue resting energy expenditure and expression of genes involved in mitochondrial function are higher in women than in men. J Clin Endocrinol Metab 2013 Feb;98(2):E370-8. PMID: 23264395
  • Browne CM, Samir P, Fites JS, Villarreal SA et al. The yeast eukaryotic translation initiation factor 2B translation initiation complex interacts with the fatty acid synthesis enzyme YBR159W and endoplasmic reticulum membranes. Mol Cell Biol 2013 Mar;33(5):1041-56. PMID: 23263984
  • Ren X, Wang Y, Chen L, Zhang XS et al. ellipsoidFN: a tool for identifying a heterogeneous set of cancer biomarkers based on gene expressions. Nucleic Acids Res 2013 Feb 1;41(4):e53. PMID: 23262226
  • Li Z, Gadue P, Chen K, Jiao Y et al. Foxa2 and H2A.Z mediate nucleosome depletion during embryonic stem cell differentiation. Cell 2012 Dec 21;151(7):1608-16. PMID: 23260146
  • Zupanska AK, Denison FC, Ferl RJ, Paul AL et al. Spaceflight engages heat shock protein and other molecular chaperone genes in tissue culture cells of Arabidopsis thaliana. Am J Bot 2013 Jan;100(1):235-48. PMID: 23258370
  • Wooten EC, Hebl VB, Wolf MJ, Greytak SR et al. Formin homology 2 domain containing 3 variants associated with hypertrophic cardiomyopathy. Circ Cardiovasc Genet 2013 Feb;6(1):10-8. PMID: 23255317
  • Budczies J, Klauschen F, Sinn BV, Győrffy B et al. Cutoff Finder: a comprehensive and straightforward Web application enabling rapid biomarker cutoff optimization. PLoS One 2012;7(12):e51862. PMID: 23251644
  • Seidl MF, Wang RP, Van den Ackerveken G, Govers F et al. Bioinformatic inference of specific and general transcription factor binding sites in the plant pathogen Phytophthora infestans. PLoS One 2012;7(12):e51295. PMID: 23251489
  • Gröger CJ, Grubinger M, Waldhör T, Vierlinger K et al. Meta-analysis of gene expression signatures defining the epithelial to mesenchymal transition during cancer progression. PLoS One 2012;7(12):e51136. PMID: 23251436
  • Venet D, Detours V, Bersini H et al. A measure of the signal-to-noise ratio of microarray samples and studies using gene correlations. PLoS One 2012;7(12):e51013. PMID: 23251415
  • Krämer B, Kebschull M, Nowak M, Demmer RT et al. Role of the NK cell-activating receptor CRACC in periodontitis. Infect Immun 2013 Mar;81(3):690-6. PMID: 23250953
  • Morales LO, Brosché M, Vainonen J, Jenkins GI et al. Multiple roles for UV RESISTANCE LOCUS8 in regulating gene expression and metabolite accumulation in Arabidopsis under solar ultraviolet radiation. Plant Physiol 2013 Feb;161(2):744-59. PMID: 23250626
  • Pan K, Chen Y, Roth M, Wang W et al. HBP1-mediated transcriptional regulation of DNA methyltransferase 1 and its impact on cell senescence. Mol Cell Biol 2013 Mar;33(5):887-903. PMID: 23249948
  • Sin HS, Barski A, Zhang F, Kartashov AV et al. RNF8 regulates active epigenetic modifications and escape gene activation from inactive sex chromosomes in post-meiotic spermatids. Genes Dev 2012 Dec 15;26(24):2737-48. PMID: 23249736
  • Nilsson CL, Berven F, Selheim F, Liu H et al. Chromosome 19 annotations with disease speciation: a first report from the Global Research Consortium. J Proteome Res 2013 Jan 4;12(1):135-50. PMID: 23249167
  • Andersen MR, Nielsen JB, Klitgaard A, Petersen LM et al. Accurate prediction of secondary metabolite gene clusters in filamentous fungi. Proc Natl Acad Sci U S A 2013 Jan 2;110(1):E99-107. PMID: 23248299
  • Zhao X, Song H, Zuo Z, Zhu Y et al. Identification of miRNA-miRNA synergistic relationships in colorectal cancer. Int J Biol Macromol 2013 Apr;55:98-103. PMID: 23246904
  • Tang W, Gao Y, Li Y, Shi G et al. Gene networks implicated in diabetic kidney disease. Eur Rev Med Pharmacol Sci 2012 Dec;16(14):1967-73. PMID: 23242724
  • Albanese D, Filosi M, Visintainer R, Riccadonna S et al. Minerva and minepy: a C engine for the MINE suite and its R, Python and MATLAB wrappers. Bioinformatics 2013 Feb 1;29(3):407-8. PMID: 23242262
  • Scolz M, Widlund PO, Piazza S, Bublik DR et al. GTSE1 is a microtubule plus-end tracking protein that regulates EB1-dependent cell migration. PLoS One 2012;7(12):e51259. PMID: 23236459
  • Brauer HA, Makowski L, Hoadley KA, Casbas-Hernandez P et al. Impact of tumor microenvironment and epithelial phenotypes on metabolism in breast cancer. Clin Cancer Res 2013 Feb 1;19(3):571-85. PMID: 23236214
  • Weng MT, Lee JH, Wei SC, Li Q et al. Evolutionarily conserved protein ERH controls CENP-E mRNA splicing and is required for the survival of KRAS mutant cancer cells. Proc Natl Acad Sci U S A 2012 Dec 26;109(52):E3659-67. PMID: 23236152
  • León AJ, Banner D, Xu L, Ran L et al. Sequencing, annotation, and characterization of the influenza ferret infectome. J Virol 2013 Feb;87(4):1957-66. PMID: 23236062
  • Wang Y, Eddy JA, Price ND et al. Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE. BMC Syst Biol 2012 Dec 13;6:153. PMID: 23234303
  • Broyl A, Kuiper R, van Duin M, van der Holt B et al. High cereblon expression is associated with better survival in patients with newly diagnosed multiple myeloma treated with thalidomide maintenance. Blood 2013 Jan 24;121(4):624-7. PMID: 23233657
  • Straub T, Zabel A, Gilfillan GD, Feller C et al. Different chromatin interfaces of the Drosophila dosage compensation complex revealed by high-shear ChIP-seq. Genome Res 2013 Mar;23(3):473-85. PMID: 23233545
  • Darabad RR, Suzuki T, Richards SM, Jensen RV et al. Influence of aromatase absence on the gene expression and histology of the mouse meibomian gland. Invest Ophthalmol Vis Sci 2013 Feb 5;54(2):987-98. PMID: 23233261
  • Liu R, Li M, Liu ZP, Wu J et al. Identifying critical transitions and their leading biomolecular networks in complex diseases. Sci Rep 2012;2:813. PMID: 23230504
  • Rehe K, Wilson K, Bomken S, Williamson D et al. Acute B lymphoblastic leukaemia-propagating cells are present at high frequency in diverse lymphoblast populations. EMBO Mol Med 2013 Jan;5(1):38-51. PMID: 23229821
  • Fan S, Geng Q, Pan Z, Li X et al. Clarifying off-target effects for torcetrapib using network pharmacology and reverse docking approach. BMC Syst Biol 2012 Dec 10;6:152. PMID: 23228038
  • Wang N, Yang C, Xie F, Sun L et al. Gadd45α: a novel diabetes-associated gene potentially linking diabetic cardiomyopathy and baroreflex dysfunction. PLoS One 2012;7(12):e49077. PMID: 23227140
  • Zhang Q, Rahim MM, Allan DS, Tu MM et al. Mouse Nkrp1-Clr gene cluster sequence and expression analyses reveal conservation of tissue-specific MHC-independent immunosurveillance. PLoS One 2012;7(12):e50561. PMID: 23226525
  • Meng Y, Shao C, Ma X, Wang H et al. Expression-based functional investigation of the organ-specific microRNAs in Arabidopsis. PLoS One 2012;7(11):e50870. PMID: 23226412
  • Bleckmann A, Siam L, Klemm F, Rietkötter E et al. Nuclear LEF1/TCF4 correlate with poor prognosis but not with nuclear β-catenin in cerebral metastasis of lung adenocarcinomas. Clin Exp Metastasis 2013 Apr;30(4):471-82. PMID: 23224985
  • McCleland ML, Adler AS, Deming L, Cosino E et al. Lactate dehydrogenase B is required for the growth of KRAS-dependent lung adenocarcinomas. Clin Cancer Res 2013 Feb 15;19(4):773-84. PMID: 23224736
  • Qatanani M, Tan Y, Dobrin R, Greenawalt DM et al. Inverse regulation of inflammation and mitochondrial function in adipose tissue defines extreme insulin sensitivity in morbidly obese patients. Diabetes 2013 Mar;62(3):855-63. PMID: 23223024
  • Giles ED, Wellberg EA, Astling DP, Anderson SM et al. Obesity and overfeeding affecting both tumor and systemic metabolism activates the progesterone receptor to contribute to postmenopausal breast cancer. Cancer Res 2012 Dec 15;72(24):6490-501. PMID: 23222299
  • Salih DA, Rashid AJ, Colas D, de la Torre-Ubieta L et al. FoxO6 regulates memory consolidation and synaptic function. Genes Dev 2012 Dec 15;26(24):2780-801. PMID: 23222102
  • Lewandowski NM, Bordelon Y, Brickman AM, Angulo S et al. Regional vulnerability in Huntington's disease: fMRI-guided molecular analysis in patients and a mouse model of disease. Neurobiol Dis 2013 Apr;52:84-93. PMID: 23220414
  • Baek SJ, Yang S, Kang TW, Park SM et al. MENT: methylation and expression database of normal and tumor tissues. Gene 2013 Apr 10;518(1):194-200. PMID: 23219992
  • Wang C, Taciroglu A, Maetschke SR, Nelson CC et al. mCOPA: analysis of heterogeneous features in cancer expression data. J Clin Bioinforma 2012 Dec 10;2(1):22. PMID: 23216803
  • Feng C, Chen L, Li W, Wang H et al. Identifying grade/stage-related active modules in human co-regulatory networks: a case study for breast cancer. OMICS 2012 Dec;16(12):681-9. PMID: 23215806
  • Loh ML, Zhang J, Harvey RC, Roberts K et al. Tyrosine kinome sequencing of pediatric acute lymphoblastic leukemia: a report from the Children's Oncology Group TARGET Project. Blood 2013 Jan 17;121(3):485-8. PMID: 23212523
  • Yu J, Cai X, He J, Zhao W et al. Microarray-based analysis of gene regulation by transcription factors and microRNAs in glioma. Neurol Sci 2013 Aug;34(8):1283-9. PMID: 23212403
  • Ouedraogo M, Bettembourg C, Bretaudeau A, Sallou O et al. The duplicated genes database: identification and functional annotation of co-localised duplicated genes across genomes. PLoS One 2012;7(11):e50653. PMID: 23209799
  • Lange CP, Campan M, Hinoue T, Schmitz RF et al. Genome-scale discovery of DNA-methylation biomarkers for blood-based detection of colorectal cancer. PLoS One 2012;7(11):e50266. PMID: 23209692
  • Zhang C, Shen L et al. Functional modules analysis based on protein-protein network analysis in ankylosing spondylitis. Eur Rev Med Pharmacol Sci 2012 Nov;16(13):1821-7. PMID: 23208966
  • Pandey PR, Xing F, Sharma S, Watabe M et al. Elevated lipogenesis in epithelial stem-like cell confers survival advantage in ductal carcinoma in situ of breast cancer. Oncogene 2013 Oct 17;32(42):5111-22. PMID: 23208501
  • Radivoyevitch T, Saunthararajah Y, Pink J, Ferris G et al. dNTP Supply Gene Expression Patterns after P53 Loss. Cancers (Basel) 2012 Nov 20;4(4):1212-24. PMID: 23205301
  • Saintigny P, Massarelli E, Lin S, Ahn YH et al. CXCR2 expression in tumor cells is a poor prognostic factor and promotes invasion and metastasis in lung adenocarcinoma. Cancer Res 2013 Jan 15;73(2):571-82. PMID: 23204236
  • Ying Z, Li Y, Wu J, Zhu X et al. Loss of miR-204 expression enhances glioma migration and stem cell-like phenotype. Cancer Res 2013 Jan 15;73(2):990-9. PMID: 23204229
  • Pan B, Sheng J, Sun W, Zhao Y et al. OrysPSSP: a comparative platform for small secreted proteins from rice and other plants. Nucleic Acids Res 2013 Jan;41(Database issue):D1192-8. PMID: 23203890
  • Cheng WC, Chung IF, Huang TS, Chang ST et al. YM500: a small RNA sequencing (smRNA-seq) database for microRNA research. Nucleic Acids Res 2013 Jan;41(Database issue):D285-94. PMID: 23203880
  • Angulo L, Perreau C, Lakhdari N, Uzbekov R et al. Breast-cancer anti-estrogen resistance 4 (BCAR4) encodes a novel maternal-effect protein in bovine and is expressed in the oocyte of humans and other non-rodent mammals. Hum Reprod 2013 Feb;28(2):430-41. PMID: 23202989
  • Sausen M, Leary RJ, Jones S, Wu J et al. Integrated genomic analyses identify ARID1A and ARID1B alterations in the childhood cancer neuroblastoma. Nat Genet 2013 Jan;45(1):12-7. PMID: 23202128
  • Stäehler CF, Keller A, Leidinger P, Backes C et al. Whole miRNome-wide differential co-expression of microRNAs. Genomics Proteomics Bioinformatics 2012 Oct;10(5):285-94. PMID: 23200138
  • Yang S, Pounds S, Zhang K, Fang Z et al. PAIR: paired allelic log-intensity-ratio-based normalization method for SNP-CGH arrays. Bioinformatics 2013 Feb 1;29(3):299-307. PMID: 23196989
  • Papadodima O, Sirsjö A, Kolisis FN, Chatziioannou A et al. Application of an integrative computational framework in trancriptomic data of atherosclerotic mice suggests numerous molecular players. Adv Bioinformatics 2012;2012:453513. PMID: 23193398
  • Cho S, Jang I, Jun Y, Yoon S et al. MiRGator v3.0: a microRNA portal for deep sequencing, expression profiling and mRNA targeting. Nucleic Acids Res 2013 Jan;41(Database issue):D252-7. PMID: 23193297
  • Rustici G, Kolesnikov N, Brandizi M, Burdett T et al. ArrayExpress update--trends in database growth and links to data analysis tools. Nucleic Acids Res 2013 Jan;41(Database issue):D987-90. PMID: 23193272
  • Fingerman IM, Zhang X, Ratzat W, Husain N et al. NCBI Epigenomics: what's new for 2013. Nucleic Acids Res 2013 Jan;41(Database issue):D221-5. PMID: 23193265
  • Barrett T, Wilhite SE, Ledoux P, Evangelista C et al. NCBI GEO: archive for functional genomics data sets--update. Nucleic Acids Res 2013 Jan;41(Database issue):D991-5. PMID: 23193258
  • Chen K, Xi Y, Pan X, Li Z et al. DANPOS: dynamic analysis of nucleosome position and occupancy by sequencing. Genome Res 2013 Feb;23(2):341-51. PMID: 23193179
  • Wu SF, Qian WY, Zhang JW, Yang YB et al. Network motifs in the transcriptional regulation network of cervical carcinoma cells respond to EGF. Arch Gynecol Obstet 2013 Apr;287(4):771-7. PMID: 23188118
  • Taguchi YHInference of Target Gene Regulation via miRNAs during Cell Senescence by Using the MiRaGE Server. Aging Dis 2012 Aug;3(4):301-6. PMID: 23185711
  • Shen K, Song N, Kim Y, Tian C et al. A systematic evaluation of multi-gene predictors for the pathological response of breast cancer patients to chemotherapy. PLoS One 2012;7(11):e49529. PMID: 23185353
  • De Cegli R, Iacobacci S, Flore G, Gambardella G et al. Reverse engineering a mouse embryonic stem cell-specific transcriptional network reveals a new modulator of neuronal differentiation. Nucleic Acids Res 2013 Jan;41(2):711-26. PMID: 23180766
  • Diao H, Li X, Hu S et al. The identification of dysfunctional crosstalk of pathways in Parkinson disease. Gene 2013 Feb 15;515(1):159-62. PMID: 23178242
  • Yamada Y, Hidaka H, Seki N, Yoshino H et al. Tumor-suppressive microRNA-135a inhibits cancer cell proliferation by targeting the c-MYC oncogene in renal cell carcinoma. Cancer Sci 2013 Mar;104(3):304-12. PMID: 23176581
  • Teschendorff AE, Marabita F, Lechner M, Bartlett T et al. A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. Bioinformatics 2013 Jan 15;29(2):189-96. PMID: 23175756
  • Wu C, Macleod I, Su AI et al. BioGPS and MyGene.info: organizing online, gene-centric information. Nucleic Acids Res 2013 Jan;41(Database issue):D561-5. PMID: 23175613
  • Kim JK, Noh JH, Eun JW, Jung KH et al. Targeted inactivation of HDAC2 restores p16INK4a activity and exerts antitumor effects on human gastric cancer. Mol Cancer Res 2013 Jan;11(1):62-73. PMID: 23175521
  • Xia J, Joyce CE, Bowcock AM, Zhang W et al. Noncanonical microRNAs and endogenous siRNAs in normal and psoriatic human skin. Hum Mol Genet 2013 Feb 15;22(4):737-48. PMID: 23175445
  • Oikawa T, Kamiya A, Zeniya M, Chikada H et al. Sal-like protein 4 (SALL4), a stem cell biomarker in liver cancers. Hepatology 2013 Apr;57(4):1469-83. PMID: 23175232
  • Antonov AV, Knight RA, Melino G, Barlev NA et al. MIRUMIR: an online tool to test microRNAs as biomarkers to predict survival in cancer using multiple clinical data sets. Cell Death Differ 2013 Feb;20(2):367. PMID: 23175189
  • Rio-Machin A, Ferreira BI, Henry T, Gómez-López G et al. Downregulation of specific miRNAs in hyperdiploid multiple myeloma mimics the oncogenic effect of IgH translocations occurring in the non-hyperdiploid subtype. Leukemia 2013 Apr;27(4):925-31. PMID: 23174883
  • Huang YH, Rice JP, Saccone SF, Ambite JL et al. A ν-support vector regression based approach for predicting imputation quality. BMC Proc 2012 Nov 13;6 Suppl 7(Suppl 7):S3. PMID: 23173775
  • Erten S, Chowdhury SA, Guan X, Nibbe RK et al. Identifying stage-specific protein subnetworks for colorectal cancer. BMC Proc 2012 Nov 13;6 Suppl 7(Suppl 7):S1. PMID: 23173715
  • del Campillo E, Gaddam S, Mettle-Amuah D, Heneks J et al. A tale of two tissues: AtGH9C1 is an endo-β-1,4-glucanase involved in root hair and endosperm development in Arabidopsis. PLoS One 2012;7(11):e49363. PMID: 23173056
  • Waki H, Hendy EB, Hindmarch CC, Gouraud S et al. Excessive leukotriene B4 in nucleus tractus solitarii is prohypertensive in spontaneously hypertensive rats. Hypertension 2013 Jan;61(1):194-201. PMID: 23172924
  • Kim J, Park JH, Lim CJ, Lim JY et al. Small RNA and transcriptome deep sequencing proffers insight into floral gene regulation in Rosa cultivars. BMC Genomics 2012 Nov 21;13:657. PMID: 23171001
  • Chen IB, Rathi VK, DeAndrade DS, Jay PY et al. Association of genes with physiological functions by comparative analysis of pooled expression microarray data. Physiol Genomics 2013 Jan 15;45(2):69-78. PMID: 23170034
  • Gruber M, Bellemare J, Hoermann G, Gleiss A et al. Overexpression of uridine diphospho glucuronosyltransferase 2B17 in high-risk chronic lymphocytic leukemia. Blood 2013 Feb 14;121(7):1175-83. PMID: 23169782
  • Sandhu SK, Volinia S, Costinean S, Galasso M et al. miR-155 targets histone deacetylase 4 (HDAC4) and impairs transcriptional activity of B-cell lymphoma 6 (BCL6) in the Eμ-miR-155 transgenic mouse model. Proc Natl Acad Sci U S A 2012 Dec 4;109(49):20047-52. PMID: 23169640
  • Hutchins AP, Choo SH, Mistri TK, Rahmani M et al. Co-motif discovery identifies an Esrrb-Sox2-DNA ternary complex as a mediator of transcriptional differences between mouse embryonic and epiblast stem cells. Stem Cells 2013 Feb;31(2):269-81. PMID: 23169531
  • Shah SN, Kerr C, Cope L, Zambidis E et al. HMGA1 reprograms somatic cells into pluripotent stem cells by inducing stem cell transcriptional networks. PLoS One 2012;7(11):e48533. PMID: 23166588
  • Medina MW, Theusch E, Naidoo D, Bauzon F et al. RHOA is a modulator of the cholesterol-lowering effects of statin. PLoS Genet 2012;8(11):e1003058. PMID: 23166513
  • Wang J, Shi J, Liu W, Sun Y et al. [Bioinformatic screening of key genes controlling the development and progression of lung cancer]. Zhongguo Fei Ai Za Zhi 2012 Nov;15(11):642-5. PMID: 23164350
  • Bae HJ, Chang YG, Noh JH, Kim JK et al. DBC1 does not function as a negative regulator of SIRT1 in liver cancer. Oncol Lett 2012 Nov;4(5):873-877. PMID: 23162614
  • Ho CY, Bar E, Giannini C, Marchionni L et al. MicroRNA profiling in pediatric pilocytic astrocytoma reveals biologically relevant targets, including PBX3, NFIB, and METAP2. Neuro Oncol 2013 Jan;15(1):69-82. PMID: 23161775
  • Yang JH, Li JH, Jiang S, Zhou H et al. ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data. Nucleic Acids Res 2013 Jan;41(Database issue):D177-87. PMID: 23161675
  • Liu ZW, Yue F, Gao FY, Qian YB et al. Research on the molecular mechanism of Seretide treatment to asthma disease. Eur Rev Med Pharmacol Sci 2012 Nov;16(12):1701-6. PMID: 23161043
  • Cieri N, Camisa B, Cocchiarella F, Forcato M et al. IL-7 and IL-15 instruct the generation of human memory stem T cells from naive precursors. Blood 2013 Jan 24;121(4):573-84. PMID: 23160470
  • Hong F, Kahl BS, Gray R et al. Incremental value in outcome prediction with gene expression-based signatures in diffuse large B-cell lymphoma. Blood 2013 Jan 3;121(1):156-8. PMID: 23160463
  • Coletta A, Molter C, Duqué R, Steenhoff D et al. InSilico DB genomic datasets hub: an efficient starting point for analyzing genome-wide studies in GenePattern, Integrative Genomics Viewer, and R/Bioconductor. Genome Biol 2012 Nov 18;13(11):R104. PMID: 23158523
  • Liang G, He H, Yu D et al. Identification of nitrogen starvation-responsive microRNAs in Arabidopsis thaliana. PLoS One 2012;7(11):e48951. PMID: 23155433
  • Galamb O, Wichmann B, Sipos F, Spisák S et al. Dysplasia-carcinoma transition specific transcripts in colonic biopsy samples. PLoS One 2012;7(11):e48547. PMID: 23155391
  • Munné-Bosch S, Queval G, Foyer CH et al. The impact of global change factors on redox signaling underpinning stress tolerance. Plant Physiol 2013 Jan;161(1):5-19. PMID: 23151347
  • Stempor PA, Cauchi M, Wilson P et al. MMpred: functional miRNA--mRNA interaction analyses by miRNA expression prediction. BMC Genomics 2012 Nov 14;13:620. PMID: 23151045
  • Hulse AM, Cai JJ et al. Genetic variants contribute to gene expression variability in humans. Genetics 2013 Jan;193(1):95-108. PMID: 23150607
  • Yu W, He LR, Zhao YC, Chan MH et al. Dynamic protein-protein interaction subnetworks of lung cancer in cases with smoking history. Chin J Cancer 2013 Feb;32(2):84-90. PMID: 23149315
  • Chen C, Bundschuh R et al. Systematic investigation of insertional and deletional RNA-DNA differences in the human transcriptome. BMC Genomics 2012 Nov 13;13:616. PMID: 23148664
  • Queval G, Foyer CH et al. Redox regulation of photosynthetic gene expression. Philos Trans R Soc Lond B Biol Sci 2012 Dec 19;367(1608):3475-85. PMID: 23148274
  • Bourdon JA, Williams A, Kuo B, Moffat I et al. Gene expression profiling to identify potentially relevant disease outcomes and support human health risk assessment for carbon black nanoparticle exposure. Toxicology 2013 Jan 7;303:83-93. PMID: 23146762
  • Sanz-Pamplona R, Berenguer A, Cordero D, Riccadonna S et al. Clinical value of prognosis gene expression signatures in colorectal cancer: a systematic review. PLoS One 2012;7(11):e48877. PMID: 23145004
  • Aksoy E, Jeong IS, Koiwa H et al. Loss of function of Arabidopsis C-terminal domain phosphatase-like1 activates iron deficiency responses at the transcriptional level. Plant Physiol 2013 Jan;161(1):330-45. PMID: 23144187
  • Brockington A, Ning K, Heath PR, Wood E et al. Unravelling the enigma of selective vulnerability in neurodegeneration: motor neurons resistant to degeneration in ALS show distinct gene expression characteristics and decreased susceptibility to excitotoxicity. Acta Neuropathol 2013 Jan;125(1):95-109. PMID: 23143228
  • Reinius B, Johansson MM, Radomska KJ, Morrow EH et al. Abundance of female-biased and paucity of male-biased somatically expressed genes on the mouse X-chromosome. BMC Genomics 2012 Nov 10;13:607. PMID: 23140559
  • Endale Ahanda ML, Fritz ER, Estellé J, Hu ZL et al. Prediction of altered 3'- UTR miRNA-binding sites from RNA-Seq data: the swine leukocyte antigen complex (SLA) as a model region. PLoS One 2012;7(11):e48607. PMID: 23139801
  • Swamynathan S, Buela KA, Kinchington P, Lathrop KL et al. Klf4 regulates the expression of Slurp1, which functions as an immunomodulatory peptide in the mouse cornea. Invest Ophthalmol Vis Sci 2012 Dec 19;53(13):8433-46. PMID: 23139280
  • McCleland ML, Adler AS, Shang Y, Hunsaker T et al. An integrated genomic screen identifies LDHB as an essential gene for triple-negative breast cancer. Cancer Res 2012 Nov 15;72(22):5812-23. PMID: 23139210
  • Spoerke JM, O'Brien C, Huw L, Koeppen H et al. Phosphoinositide 3-kinase (PI3K) pathway alterations are associated with histologic subtypes and are predictive of sensitivity to PI3K inhibitors in lung cancer preclinical models. Clin Cancer Res 2012 Dec 15;18(24):6771-83. PMID: 23136191
  • Waldron L, Ogino S, Hoshida Y, Shima K et al. Expression profiling of archival tumors for long-term health studies. Clin Cancer Res 2012 Nov 15;18(22):6136-46. PMID: 23136189
  • Liu Z, Xie M, Yao Z, Niu Y et al. Three meta-analyses define a set of commonly overexpressed genes from microarray datasets on astrocytomas. Mol Neurobiol 2013 Feb;47(1):325-36. PMID: 23135747
  • Chinpongpanich A, Limruengroj K, Phean-O-Pas S, Limpaseni T et al. Expression analysis of calmodulin and calmodulin-like genes from rice, Oryza sativa L. BMC Res Notes 2012 Nov 8;5:625. PMID: 23134977
  • Jahid MJ, Ruan J et al. A Steiner tree-based method for biomarker discovery and classification in breast cancer metastasis. BMC Genomics 2012;13 Suppl 6(Suppl 6):S8. PMID: 23134806
  • Taslaman L, Nilsson B et al. A framework for regularized non-negative matrix factorization, with application to the analysis of gene expression data. PLoS One 2012;7(11):e46331. PMID: 23133590
  • Marinković M, de Leeuw WC, de Jong M, Kraak MH et al. Combining next-generation sequencing and microarray technology into a transcriptomics approach for the non-model organism Chironomus riparius. PLoS One 2012;7(10):e48096. PMID: 23133553
  • McDowell EN, Kisielewski AE, Pike JW, Franco HL et al. A transcriptome-wide screen for mRNAs enriched in fetal Leydig cells: CRHR1 agonism stimulates rat and mouse fetal testis steroidogenesis. PLoS One 2012;7(10):e47359. PMID: 23133512
  • Dana A, Tuller T et al. Determinants of translation elongation speed and ribosomal profiling biases in mouse embryonic stem cells. PLoS Comput Biol 2012;8(11):e1002755. PMID: 23133360
  • Murugan R, Kreiman G et al. Theory on the coupled stochastic dynamics of transcription and splice-site recognition. PLoS Comput Biol 2012;8(11):e1002747. PMID: 23133354
  • Kim TM, Xi R, Luquette LJ, Park RW et al. Functional genomic analysis of chromosomal aberrations in a compendium of 8000 cancer genomes. Genome Res 2013 Feb;23(2):217-27. PMID: 23132910
  • Degl'Innocenti D, Romeo P, Tarantino E, Sensi M et al. DUSP6/MKP3 is overexpressed in papillary and poorly differentiated thyroid carcinoma and contributes to neoplastic properties of thyroid cancer cells. Endocr Relat Cancer 2013 Feb;20(1):23-37. PMID: 23132790
  • Liang C, Xiong K, Szulwach KE, Zhang Y et al. Sjogren syndrome antigen B (SSB)/La promotes global microRNA expression by binding microRNA precursors through stem-loop recognition. J Biol Chem 2013 Jan 4;288(1):723-36. PMID: 23129761
  • Lockwood WW, Zejnullahu K, Bradner JE, Varmus H et al. Sensitivity of human lung adenocarcinoma cell lines to targeted inhibition of BET epigenetic signaling proteins. Proc Natl Acad Sci U S A 2012 Nov 20;109(47):19408-13. PMID: 23129625
  • Chen X, Ishwaran H et al. Pathway hunting by random survival forests. Bioinformatics 2013 Jan 1;29(1):99-105. PMID: 23129299
  • Pacini C, Iorio F, Gonçalves E, Iskar M et al. DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data. Bioinformatics 2013 Jan 1;29(1):132-4. PMID: 23129297
  • Szklarczyk R, Wanschers BF, Nijtmans LG, Rodenburg RJ et al. A mutation in the FAM36A gene, the human ortholog of COX20, impairs cytochrome c oxidase assembly and is associated with ataxia and muscle hypotonia. Hum Mol Genet 2013 Feb 15;22(4):656-67. PMID: 23125284
  • Sukhanova A, Gorin A, Serebriiskii IG, Gabitova L et al. Targeting C4-demethylating genes in the cholesterol pathway sensitizes cancer cells to EGF receptor inhibitors via increased EGF receptor degradation. Cancer Discov 2013 Jan;3(1):96-111. PMID: 23125191
  • Mukhopadhyay A, Krishnaswami SR, Cowing-Zitron C, Hung NJ et al. Negative regulation of Shh levels by Kras and Fgfr2 during hair follicle development. Dev Biol 2013 Jan 15;373(2):373-82. PMID: 23123965
  • Farztdinov V, McDyer F et al. Distributional fold change test - a statistical approach for detecting differential expression in microarray experiments. Algorithms Mol Biol 2012 Nov 2;7(1):29. PMID: 23122055
  • Porter MA, Dobson-Stone C, Kwok JB, Schofield PR et al. A role for transcription factor GTF2IRD2 in executive function in Williams-Beuren syndrome. PLoS One 2012;7(10):e47457. PMID: 23118870
  • Ioudinkova ES, Barat A, Pichugin A, Markova E et al. Distinct distribution of ectopically expressed histone variants H2A.Bbd and MacroH2A in open and closed chromatin domains. PLoS One 2012;7(10):e47157. PMID: 23118866
  • Bertucci F, Finetti P, Roche H, Le Doussal JM et al. Comparison of the prognostic value of genomic grade index, Ki67 expression and mitotic activity index in early node-positive breast cancer patients. Ann Oncol 2013 Mar;24(3):625-32. PMID: 23117074
  • Manakov SA, Morton A, Enright AJ, Grant SG et al. A Neuronal Transcriptome Response Involving Stress Pathways is Buffered by Neuronal microRNAs. Front Neurosci 2012;6:156. PMID: 23115547
  • Hulmi JJ, Oliveira BM, Silvennoinen M, Hoogaars WM et al. Muscle protein synthesis, mTORC1/MAPK/Hippo signaling, and capillary density are altered by blocking of myostatin and activins. Am J Physiol Endocrinol Metab 2013 Jan 1;304(1):E41-50. PMID: 23115080
  • Salari K, Spulak ME, Cuff J, Forster AD et al. CDX2 is an amplified lineage-survival oncogene in colorectal cancer. Proc Natl Acad Sci U S A 2012 Nov 13;109(46):E3196-205. PMID: 23112155
  • Xia J, Zhang W et al. Noncanonical microRNAs and endogenous siRNAs in lytic infection of murine gammaherpesvirus. PLoS One 2012;7(10):e47863. PMID: 23110115
  • Shao C, Ma X, Xu X, Wang H et al. Genome-wide identification of reverse complementary microRNA genes in plants. PLoS One 2012;7(10):e46991. PMID: 23110057
  • Chen X, Müller GA, Quaas M, Fischer M et al. The forkhead transcription factor FOXM1 controls cell cycle-dependent gene expression through an atypical chromatin binding mechanism. Mol Cell Biol 2013 Jan;33(2):227-36. PMID: 23109430
  • Jiang P, Zang W, Wang L, Xu Y et al. Protein-protein interaction and SNP analysis in intraductal papillary mucinous neoplasm. Gene 2013 Jan 15;513(1):219-24. PMID: 23107772
  • Wong HR, Cvijanovich NZ, Hall M, Allen GL et al. Interleukin-27 is a novel candidate diagnostic biomarker for bacterial infection in critically ill children. Crit Care 2012 Oct 29;16(5):R213. PMID: 23107287
  • Szabó PM, Pintér M, Szabó DR, Zsippai A et al. Integrative analysis of neuroblastoma and pheochromocytoma genomics data. BMC Med Genomics 2012 Oct 29;5:48. PMID: 23106811
  • Dobin A, Davis CA, Schlesinger F, Drenkow J et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 2013 Jan 1;29(1):15-21. PMID: 23104886
  • Sun N, Zang W, Li W et al. Bioinformatics analysis reveals potential candidate drugs for psychological stress in ovarian cancer. Eur Rev Med Pharmacol Sci 2012 Oct;16(10):1362-6. PMID: 23104652
  • Wei K, Chen J, Wang Y, Chen Y et al. Genome-wide analysis of bZIP-encoding genes in maize. DNA Res 2012 Dec;19(6):463-76. PMID: 23103471
  • Kothapalli D, Liu SL, Bae YH, Monslow J et al. Cardiovascular protection by ApoE and ApoE-HDL linked to suppression of ECM gene expression and arterial stiffening. Cell Rep 2012 Nov 29;2(5):1259-71. PMID: 23103162
  • Hochrainer K, Racchumi G, Anrather J et al. Site-specific phosphorylation of the p65 protein subunit mediates selective gene expression by differential NF-κB and RNA polymerase II promoter recruitment. J Biol Chem 2013 Jan 4;288(1):285-93. PMID: 23100252
  • Fenouil R, Cauchy P, Koch F, Descostes N et al. CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters. Genome Res 2012 Dec;22(12):2399-408. PMID: 23100115
  • Khodor YL, Menet JS, Tolan M, Rosbash M et al. Cotranscriptional splicing efficiency differs dramatically between Drosophila and mouse. RNA 2012 Dec;18(12):2174-86. PMID: 23097425
  • Beggs AD, Jones A, El-Bahrawy M, Abulafi M et al. Whole-genome methylation analysis of benign and malignant colorectal tumours. J Pathol 2013 Apr;229(5):697-704. PMID: 23096130
  • Coulombe-Huntington J, Xia Y et al. Regulatory network structure as a dominant determinant of transcription factor evolutionary rate. PLoS Comput Biol 2012;8(10):e1002734. PMID: 23093926
  • Fang F, Liu L, Yang Y, Tamaki Z et al. The adipokine adiponectin has potent anti-fibrotic effects mediated via adenosine monophosphate-activated protein kinase: novel target for fibrosis therapy. Arthritis Res Ther 2012 Oct 23;14(5):R229. PMID: 23092446
  • Yu H, Park J, Lee J, Choi K et al. Constitutive Expression of MAP Kinase Phosphatase-1 Confers Multi-drug Resistance in Human Glioblastoma Cells. Cancer Res Treat 2012 Sep;44(3):195-201. PMID: 23091446
  • Byers LA, Diao L, Wang J, Saintigny P et al. An epithelial-mesenchymal transition gene signature predicts resistance to EGFR and PI3K inhibitors and identifies Axl as a therapeutic target for overcoming EGFR inhibitor resistance. Clin Cancer Res 2013 Jan 1;19(1):279-90. PMID: 23091115
  • Valentijn LJ, Koster J, Haneveld F, Aissa RA et al. Functional MYCN signature predicts outcome of neuroblastoma irrespective of MYCN amplification. Proc Natl Acad Sci U S A 2012 Nov 20;109(47):19190-5. PMID: 23091029
  • Zhang Z, Niu X, Lu C, Jiang M et al. The effect of curcumin on human bronchial epithelial cells exposed to fine particulate matter: a predictive analysis. Molecules 2012 Oct 22;17(10):12406-26. PMID: 23090021
  • Moreaux J, Rème T, Leonard W, Veyrune JL et al. Development of gene expression-based score to predict sensitivity of multiple myeloma cells to DNA methylation inhibitors. Mol Cancer Ther 2012 Dec;11(12):2685-92. PMID: 23087257
  • Thibult ML, Mamessier E, Gertner-Dardenne J, Pastor S et al. PD-1 is a novel regulator of human B-cell activation. Int Immunol 2013 Feb;25(2):129-37. PMID: 23087177
  • Shen G, Jia H, Tai Q, Li Y et al. miR-106b downregulates adenomatous polyposis coli and promotes cell proliferation in human hepatocellular carcinoma. Carcinogenesis 2013 Jan;34(1):211-9. PMID: 23087084
  • Bauer I, Grozio A, Lasigliè D, Basile G et al. The NAD+-dependent histone deacetylase SIRT6 promotes cytokine production and migration in pancreatic cancer cells by regulating Ca2+ responses. J Biol Chem 2012 Nov 30;287(49):40924-37. PMID: 23086953
  • Wang Y, Winters J, Subramaniam S et al. Functional classification of skeletal muscle networks. II. Applications to pathophysiology. J Appl Physiol (1985) 2012 Dec 15;113(12):1902-20. PMID: 23085957
  • Koch CM, Reck K, Shao K, Lin Q et al. Pluripotent stem cells escape from senescence-associated DNA methylation changes. Genome Res 2013 Feb;23(2):248-59. PMID: 23080539
  • Caro P, Kishan AU, Norberg E, Stanley IA et al. Metabolic signatures uncover distinct targets in molecular subsets of diffuse large B cell lymphoma. Cancer Cell 2012 Oct 16;22(4):547-60. PMID: 23079663
  • Sturm D, Witt H, Hovestadt V, Khuong-Quang DA et al. Hotspot mutations in H3F3A and IDH1 define distinct epigenetic and biological subgroups of glioblastoma. Cancer Cell 2012 Oct 16;22(4):425-37. PMID: 23079654
  • Joshi H, Bhanot G, Børresen-Dale AL, Kristensen V et al. Potential tumorigenic programs associated with TP53 mutation status reveal role of VEGF pathway. Br J Cancer 2012 Nov 6;107(10):1722-8. PMID: 23079576
  • Zhang B, Xia C, Lin Q, Huang J et al. Identification of key pathways and transcription factors related to Parkinson disease in genome wide. Mol Biol Rep 2012 Dec;39(12):10881-7. PMID: 23076523
  • Thorne T, Stumpf MP et al. Inference of temporally varying Bayesian networks. Bioinformatics 2012 Dec 15;28(24):3298-305. PMID: 23074260
  • Stamper BD, Mecham B, Park SS, Wilkerson H et al. Transcriptome correlation analysis identifies two unique craniosynostosis subtypes associated with IRS1 activation. Physiol Genomics 2012 Dec 1;44(23):1154-63. PMID: 23073384
  • Stavik B, Skretting G, Olstad OK, Sletten M et al. TFPI alpha and beta regulate mRNAs and microRNAs involved in cancer biology and in the immune system in breast cancer cells. PLoS One 2012;7(10):e47184. PMID: 23071754
  • Hu P, Wang X, Haitsma JJ, Furmli S et al. Microarray meta-analysis identifies acute lung injury biomarkers in donor lungs that predict development of primary graft failure in recipients. PLoS One 2012;7(10):e45506. PMID: 23071521
  • Uckun FM, Ma H, Zhang J, Ozer Z et al. Serine phosphorylation by SYK is critical for nuclear localization and transcription factor function of Ikaros. Proc Natl Acad Sci U S A 2012 Oct 30;109(44):18072-7. PMID: 23071339
  • Naval-Sánchez M, Potier D, Haagen L, Sánchez M et al. Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions. Genome Res 2013 Jan;23(1):74-88. PMID: 23070853
  • O'Reilly D, Dienstbier M, Cowley SA, Vazquez P et al. Differentially expressed, variant U1 snRNAs regulate gene expression in human cells. Genome Res 2013 Feb;23(2):281-91. PMID: 23070852
  • Sleat DE, Wiseman JA, Sohar I, El-Banna M et al. Proteomic analysis of mouse models of Niemann-Pick C disease reveals alterations in the steady-state levels of lysosomal proteins within the brain. Proteomics 2012 Dec;12(23-24):3499-509. PMID: 23070805
  • Wang S, Duan C, Zhang F, Ma W et al. Regulatory gene networks and signaling pathways from primary osteoarthritis and Kashin-Beck disease, an endemic osteoarthritis, identified by three analysis software. Gene 2013 Jan 1;512(1):89-96. PMID: 23069848
  • Gelsi-Boyer V, Cervera N, Bertucci F, Brecqueville M et al. Molecular similarity between myelodysplastic form of chronic myelomonocytic leukemia and refractory anemia with ring sideroblasts. Haematologica 2013 Apr;98(4):576-83. PMID: 23065512
  • Sasaki I, Hoshino K, Sugiyama T, Yamazaki C et al. Spi-B is critical for plasmacytoid dendritic cell function and development. Blood 2012 Dec 6;120(24):4733-43. PMID: 23065153
  • Wan ES, Qiu W, Baccarelli A, Carey VJ et al. Systemic steroid exposure is associated with differential methylation in chronic obstructive pulmonary disease. Am J Respir Crit Care Med 2012 Dec 15;186(12):1248-55. PMID: 23065012
  • Canet JV, Dobón A, Tornero P et al. Non-recognition-of-BTH4, an Arabidopsis mediator subunit homolog, is necessary for development and response to salicylic acid. Plant Cell 2012 Oct;24(10):4220-35. PMID: 23064321
  • Sloutsky R, Jimenez N, Swamidass SJ, Naegle KM et al. Accounting for noise when clustering biological data. Brief Bioinform 2013 Jul;14(4):423-36. PMID: 23063929
  • Li W, Jiang T et al. Transcriptome assembly and isoform expression level estimation from biased RNA-Seq reads. Bioinformatics 2012 Nov 15;28(22):2914-21. PMID: 23060617
  • Covell DGIntegrating constitutive gene expression and chemoactivity: mining the NCI60 anticancer screen. PLoS One 2012;7(10):e44631. PMID: 23056181
  • Hu K, Chen F et al. Identification of significant pathways in gastric cancer based on protein-protein interaction networks and cluster analysis. Genet Mol Biol 2012 Jul;35(3):701-8. PMID: 23055812
  • Spisák S, Kalmár A, Galamb O, Wichmann B et al. Genome-wide screening of genes regulated by DNA methylation in colon cancer development. PLoS One 2012;7(10):e46215. PMID: 23049694
  • Choi JC, Wu W, Muchir A, Iwata S et al. Dual specificity phosphatase 4 mediates cardiomyopathy caused by lamin A/C (LMNA) gene mutation. J Biol Chem 2012 Nov 23;287(48):40513-24. PMID: 23048029
  • Piao G, Saito S, Sun Y, Liu ZP et al. A computational procedure for identifying master regulator candidates: a case study on diabetes progression in Goto-Kakizaki rats. BMC Syst Biol 2012;6 Suppl 1(Suppl 1):S2. PMID: 23046543
  • Thiollier C, Lopez CK, Gerby B, Ignacimouttou C et al. Characterization of novel genomic alterations and therapeutic approaches using acute megakaryoblastic leukemia xenograft models. J Exp Med 2012 Oct 22;209(11):2017-31. PMID: 23045605
  • Rahmatallah Y, Emmert-Streib F, Glazko G et al. Gene set analysis for self-contained tests: complex null and specific alternative hypotheses. Bioinformatics 2012 Dec 1;28(23):3073-80. PMID: 23044539
  • Li Z, Zheng W, Wang Z, Zeng Z et al. A transgenic zebrafish liver tumor model with inducible Myc expression reveals conserved Myc signatures with mammalian liver tumors. Dis Model Mech 2013 Mar;6(2):414-23. PMID: 23038063
  • Vejnar CE, Zdobnov EM et al. MiRmap: comprehensive prediction of microRNA target repression strength. Nucleic Acids Res 2012 Dec;40(22):11673-83. PMID: 23034802
  • Sproul D, Kitchen RR, Nestor CE, Dixon JM et al. Tissue of origin determines cancer-associated CpG island promoter hypermethylation patterns. Genome Biol 2012 Oct 3;13(10):R84. PMID: 23034185
  • Satoh JMolecular network analysis of human microRNA targetome: from cancers to Alzheimer's disease. BioData Min 2012 Oct 3;5(1):17. PMID: 23034144
  • Horvath S, Zhang Y, Langfelder P, Kahn RS et al. Aging effects on DNA methylation modules in human brain and blood tissue. Genome Biol 2012 Oct 3;13(10):R97. PMID: 23034122
  • Tewari AK, Yardimci GG, Shibata Y, Sheffield NC et al. Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity. Genome Biol 2012 Oct 3;13(10):R88. PMID: 23034120
  • Citterio C, Menacho-Márquez M, García-Escudero R, Larive RM et al. The rho exchange factors vav2 and vav3 control a lung metastasis-specific transcriptional program in breast cancer cells. Sci Signal 2012 Oct 2;5(244):ra71. PMID: 23033540
  • El-Haibi CP, Bell GW, Zhang J, Collmann AY et al. Critical role for lysyl oxidase in mesenchymal stem cell-driven breast cancer malignancy. Proc Natl Acad Sci U S A 2012 Oct 23;109(43):17460-5. PMID: 23033492
  • Botling J, Edlund K, Lohr M, Hellwig B et al. Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation. Clin Cancer Res 2013 Jan 1;19(1):194-204. PMID: 23032747
  • Hsu WC, Liu CC, Chang F, Chen SS et al. Cancer classification: Mutual information, target network and strategies of therapy. J Clin Bioinforma 2012 Oct 2;2(1):16. PMID: 23031749
  • Müller S, Baldin C, Groth M, Guthke R et al. Comparison of transcriptome technologies in the pathogenic fungus Aspergillus fumigatus reveals novel insights into the genome and MpkA dependent gene expression. BMC Genomics 2012 Oct 2;13:519. PMID: 23031507
  • Yao J, Zhao Q, Yuan Y, Zhang L et al. Identification of common prognostic gene expression signatures with biological meanings from microarray gene expression datasets. PLoS One 2012;7(9):e45894. PMID: 23029298
  • Stempler S, Ruppin E et al. Analyzing gene expression from whole tissue vs. different cell types reveals the central role of neurons in predicting severity of Alzheimer's disease. PLoS One 2012;7(9):e45879. PMID: 23029292
  • Arefin AS, Mathieson L, Johnstone D, Berretta R et al. Unveiling clusters of RNA transcript pairs associated with markers of Alzheimer's disease progression. PLoS One 2012;7(9):e45535. PMID: 23029078
  • Chen X, Xu S, McClelland M, Rahmatpanah F et al. An accurate prostate cancer prognosticator using a seven-gene signature plus Gleason score and taking cell type heterogeneity into account. PLoS One 2012;7(9):e45178. PMID: 23028830
  • Engreitz JM, Agarwala V, Mirny LA et al. Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease. PLoS One 2012;7(9):e44196. PMID: 23028501
  • Vattathil S, Scheet P et al. Haplotype-based profiling of subtle allelic imbalance with SNP arrays. Genome Res 2013 Jan;23(1):152-8. PMID: 23028187
  • Nair VD, Ge Y, Balasubramaniyan N, Kim J et al. Involvement of histone demethylase LSD1 in short-time-scale gene expression changes during cell cycle progression in embryonic stem cells. Mol Cell Biol 2012 Dec;32(23):4861-76. PMID: 23028048
  • Zou Y, Niu W, Qin S, Downes M et al. The nuclear receptor TLX is required for gliomagenesis within the adult neurogenic niche. Mol Cell Biol 2012 Dec;32(23):4811-20. PMID: 23028043
  • Nakamichi N, Kiba T, Kamioka M, Suzuki T et al. Transcriptional repressor PRR5 directly regulates clock-output pathways. Proc Natl Acad Sci U S A 2012 Oct 16;109(42):17123-8. PMID: 23027938
  • Croci DO, Salatino M, Rubinstein N, Cerliani JP et al. Disrupting galectin-1 interactions with N-glycans suppresses hypoxia-driven angiogenesis and tumorigenesis in Kaposi's sarcoma. J Exp Med 2012 Oct 22;209(11):1985-2000. PMID: 23027923
  • Park SM, Park SY, Kim JH, Kang TW et al. Genome-wide mRNA profiling and multiplex quantitative RT-PCR for forensic body fluid identification. Forensic Sci Int Genet 2013 Jan;7(1):143-50. PMID: 23026559
  • Rolland AD, Lavigne R, Dauly C, Calvel P et al. Identification of genital tract markers in the human seminal plasma using an integrative genomics approach. Hum Reprod 2013 Jan;28(1):199-209. PMID: 23024119
  • Mohanan S, Cherrington BD, Horibata S, McElwee JL et al. Potential role of peptidylarginine deiminase enzymes and protein citrullination in cancer pathogenesis. Biochem Res Int 2012;2012:895343. PMID: 23019525
  • Fukawa T, Ono M, Matsuo T, Uehara H et al. DDX31 regulates the p53-HDM2 pathway and rRNA gene transcription through its interaction with NPM1 in renal cell carcinomas. Cancer Res 2012 Nov 15;72(22):5867-77. PMID: 23019224
  • Decker KF, Zheng D, He Y, Bowman T et al. Persistent androgen receptor-mediated transcription in castration-resistant prostate cancer under androgen-deprived conditions. Nucleic Acids Res 2012 Nov;40(21):10765-79. PMID: 23019221
  • Accomando WP, Wiencke JK, Houseman EA, Butler RA et al. Decreased NK cells in patients with head and neck cancer determined in archival DNA. Clin Cancer Res 2012 Nov 15;18(22):6147-54. PMID: 23014525
  • Rhinn H, Qiang L, Yamashita T, Rhee D et al. Alternative α-synuclein transcript usage as a convergent mechanism in Parkinson's disease pathology. Nat Commun 2012;3:1084. PMID: 23011138
  • Bøhn SK, Russnes KM, Sakhi AK, Thoresen M et al. Stress associated gene expression in blood cells is related to outcome in radiotherapy treated head and neck cancer patients. BMC Cancer 2012 Sep 25;12:426. PMID: 23009663
  • Nie W, Jin L, Wang Y, Wang Z et al. The bioinformatics analysis of miRNAs signatures differentially expressed in HER2(+) versus HER2(-) breast cancers. Cancer Biother Radiopharm 2013 Feb;28(1):71-6. PMID: 23009584
  • Baciu C, Thompson KJ, Mougeot JL, Brooks BR et al. The LO-BaFL method and ALS microarray expression analysis. BMC Bioinformatics 2012 Sep 24;13:244. PMID: 23006766
  • Yon F, Seo PJ, Ryu JY, Park CM et al. Identification and characterization of circadian clock genes in a native tobacco, Nicotiana attenuata. BMC Plant Biol 2012 Sep 25;12:172. PMID: 23006446
  • Song L, Liu L, Wu Z, Li Y et al. TGF-β induces miR-182 to sustain NF-κB activation in glioma subsets. J Clin Invest 2012 Oct;122(10):3563-78. PMID: 23006329
  • Guagnano V, Kauffmann A, Wöhrle S, Stamm C et al. FGFR genetic alterations predict for sensitivity to NVP-BGJ398, a selective pan-FGFR inhibitor. Cancer Discov 2012 Dec;2(12):1118-33. PMID: 23002168
  • Nevo Y, Kamhi E, Jacob-Hirsch J, Amariglio N et al. Genome-wide activation of latent donor splice sites in stress and disease. Nucleic Acids Res 2012 Nov;40(21):10980-94. PMID: 23002147
  • Calado DP, Sasaki Y, Godinho SA, Pellerin A et al. The cell-cycle regulator c-Myc is essential for the formation and maintenance of germinal centers. Nat Immunol 2012 Nov;13(11):1092-100. PMID: 23001146
  • Hartig SM, He B, Newberg JY, Ochsner SA et al. Feed-forward inhibition of androgen receptor activity by glucocorticoid action in human adipocytes. Chem Biol 2012 Sep 21;19(9):1126-41. PMID: 22999881
  • Albright RA, Chang WC, Robert D, Ornstein DL et al. NPP4 is a procoagulant enzyme on the surface of vascular endothelium. Blood 2012 Nov 22;120(22):4432-40. PMID: 22995898
  • Dassi E, Quattrone A et al. Tuning the engine: an introduction to resources on post-transcriptional regulation of gene expression. RNA Biol 2012 Oct;9(10):1224-32. PMID: 22995832
  • Kobayashi A, Donaldson DS, Kanaya T, Fukuda S et al. Identification of novel genes selectively expressed in the follicle-associated epithelium from the meta-analysis of transcriptomics data from multiple mouse cell and tissue populations. DNA Res 2012 Oct;19(5):407-22. PMID: 22991451
  • Sveen A, Ågesen TH, Nesbakken A, Meling GI et al. ColoGuidePro: a prognostic 7-gene expression signature for stage III colorectal cancer patients. Clin Cancer Res 2012 Nov 1;18(21):6001-10. PMID: 22991413
  • Choi J, Masaratana P, Latunde-Dada GO, Arno M et al. Duodenal reductase activity and spleen iron stores are reduced and erythropoiesis is abnormal in Dcytb knockout mice exposed to hypoxic conditions. J Nutr 2012 Nov;142(11):1929-34. PMID: 22990466
  • Sasaki Y, Koyama R, Maruyama R, Hirano T et al. CLCA2, a target of the p53 family, negatively regulates cancer cell migration and invasion. Cancer Biol Ther 2012 Dec;13(14):1512-21. PMID: 22990203
  • Tiwary BKThe coordinated expression, interaction and evolution of the neuroendocrine genes. Integr Biol (Camb) 2012 Nov;4(11):1377-85. PMID: 22990097
  • Dillies MA, Rau A, Aubert J, Hennequet-Antier C et al. A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis. Brief Bioinform 2013 Nov;14(6):671-83. PMID: 22988256
  • Huang F, Zhang H, Wu M, Yang H et al. Calcium-activated chloride channel TMEM16A modulates mucin secretion and airway smooth muscle contraction. Proc Natl Acad Sci U S A 2012 Oct 2;109(40):16354-9. PMID: 22988107
  • Barbieri M, Chotalia M, Fraser J, Lavitas LM et al. Complexity of chromatin folding is captured by the strings and binders switch model. Proc Natl Acad Sci U S A 2012 Oct 2;109(40):16173-8. PMID: 22988072
  • Paparelli E, Gonzali S, Parlanti S, Novi G et al. Misexpression of a chloroplast aspartyl protease leads to severe growth defects and alters carbohydrate metabolism in Arabidopsis. Plant Physiol 2012 Nov;160(3):1237-50. PMID: 22987884
  • Beane J, Cheng L, Soldi R, Zhang X et al. SIRT1 pathway dysregulation in the smoke-exposed airway epithelium and lung tumor tissue. Cancer Res 2012 Nov 15;72(22):5702-11. PMID: 22986747
  • Chahal M, Abdulkarim B, Xu Y, Guiot MC et al. O6-Methylguanine-DNA methyltransferase is a novel negative effector of invasion in glioblastoma multiforme. Mol Cancer Ther 2012 Nov;11(11):2440-50. PMID: 22986464
  • Charoentong P, Angelova M, Efremova M, Gallasch R et al. Bioinformatics for cancer immunology and immunotherapy. Cancer Immunol Immunother 2012 Nov;61(11):1885-903. PMID: 22986455
  • Bauernfeind F, Rieger A, Schildberg FA, Knolle PA et al. NLRP3 inflammasome activity is negatively controlled by miR-223. J Immunol 2012 Oct 15;189(8):4175-81. PMID: 22984082
  • Eo HS, Heo JY, Choi Y, Hwang Y et al. A pathway-based classification of breast cancer integrating data on differentially expressed genes, copy number variations and microRNA target genes. Mol Cells 2012 Oct;34(4):393-8. PMID: 22983731
  • Akman BH, Can T, Erson-Bensan AE et al. Estrogen-induced upregulation and 3'-UTR shortening of CDC6. Nucleic Acids Res 2012 Nov;40(21):10679-88. PMID: 22977174
  • Gioti A, Wigby S, Wertheim B, Schuster E et al. Sex peptide of Drosophila melanogaster males is a global regulator of reproductive processes in females. Proc Biol Sci 2012 Nov 7;279(1746):4423-32. PMID: 22977156
  • Rao S, Lee SY, Gutierrez A, Perrigoue J et al. Inactivation of ribosomal protein L22 promotes transformation by induction of the stemness factor, Lin28B. Blood 2012 Nov 1;120(18):3764-73. PMID: 22976955
  • von Bueren AO, Bacolod MD, Hagel C, Heinimann K et al. Mismatch repair deficiency: a temozolomide resistance factor in medulloblastoma cell lines that is uncommon in primary medulloblastoma tumours. Br J Cancer 2012 Oct 9;107(8):1399-408. PMID: 22976800
  • Meiklejohn CD, Presgraves DC et al. Little evidence for demasculinization of the Drosophila X chromosome among genes expressed in the male germline. Genome Biol Evol 2012;4(10):1007-16. PMID: 22975718
  • Kwon AT, Arenillas DJ, Worsley Hunt R, Wasserman WW et al. oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets. G3 (Bethesda) 2012 Sep;2(9):987-1002. PMID: 22973536
  • Siegert S, Luther SA et al. Positive and negative regulation of T cell responses by fibroblastic reticular cells within paracortical regions of lymph nodes. Front Immunol 2012;3:285. PMID: 22973278
  • Mitsiades N, Sung CC, Schultz N, Danila DC et al. Distinct patterns of dysregulated expression of enzymes involved in androgen synthesis and metabolism in metastatic prostate cancer tumors. Cancer Res 2012 Dec 1;72(23):6142-52. PMID: 22971343
  • Shen X, He Z, Li H, Yao C et al. Distinct functional patterns of gene promoter hypomethylation and hypermethylation in cancer genomes. PLoS One 2012;7(9):e44822. PMID: 22970311
  • George SH, Milea A, Shaw PA et al. Proliferation in the normal FTE is a hallmark of the follicular phase, not BRCA mutation status. Clin Cancer Res 2012 Nov 15;18(22):6199-207. PMID: 22967960
  • Wen Z, Liu ZP, Liu Z, Zhang Y et al. An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer. J Am Med Inform Assoc 2013 Jul-Aug;20(4):659-67. PMID: 22967703
  • Jia H, Kast RJ, Steffan JS, Thomas EA et al. Selective histone deacetylase (HDAC) inhibition imparts beneficial effects in Huntington's disease mice: implications for the ubiquitin-proteasomal and autophagy systems. Hum Mol Genet 2012 Dec 15;21(24):5280-93. PMID: 22965876
  • Jang SJ, Wi SJ, Choi YJ, An G et al. Increased polyamine biosynthesis enhances stress tolerance by preventing the accumulation of reactive oxygen species: T-DNA mutational analysis of Oryza sativa lysine decarboxylase-like protein 1. Mol Cells 2012 Sep;34(3):251-62. PMID: 22965749
  • Sykacek PBayesian assignment of gene ontology terms to gene expression experiments. Bioinformatics 2012 Sep 15;28(18):i603-i610. PMID: 22962488
  • Kshirsagar M, Carbonell J, Klein-Seetharaman J et al. Techniques to cope with missing data in host-pathogen protein interaction prediction. Bioinformatics 2012 Sep 15;28(18):i466-i472. PMID: 22962468
  • Byers LA, Wang J, Nilsson MB, Fujimoto J et al. Proteomic profiling identifies dysregulated pathways in small cell lung cancer and novel therapeutic targets including PARP1. Cancer Discov 2012 Sep;2(9):798-811. PMID: 22961666
  • Kelly TK, Liu Y, Lay FD, Liang G et al. Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules. Genome Res 2012 Dec;22(12):2497-506. PMID: 22960375
  • Tan MH, Au KF, Yablonovitch AL, Wills AE et al. RNA sequencing reveals a diverse and dynamic repertoire of the Xenopus tropicalis transcriptome over development. Genome Res 2013 Jan;23(1):201-16. PMID: 22960373
  • Li W, Jin Y, Prazak L, Hammell M et al. Transposable elements in TDP-43-mediated neurodegenerative disorders. PLoS One 2012;7(9):e44099. PMID: 22957047
  • Zhang J, Lu K, Xiang Y, Islam M et al. Weighted frequent gene co-expression network mining to identify genes involved in genome stability. PLoS Comput Biol 2012;8(8):e1002656. PMID: 22956898
  • Harrow J, Frankish A, Gonzalez JM, Tapanari E et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res 2012 Sep;22(9):1760-74. PMID: 22955987
  • Natarajan A, Yardimci GG, Sheffield NC, Crawford GE et al. Predicting cell-type-specific gene expression from regions of open chromatin. Genome Res 2012 Sep;22(9):1711-22. PMID: 22955983
  • Bánfai B, Jia H, Khatun J, Wood E et al. Long noncoding RNAs are rarely translated in two human cell lines. Genome Res 2012 Sep;22(9):1646-57. PMID: 22955977
  • Varma S, Cao Y, Tagne JB, Lakshminarayanan M et al. The transcription factors Grainyhead-like 2 and NK2-homeobox 1 form a regulatory loop that coordinates lung epithelial cell morphogenesis and differentiation. J Biol Chem 2012 Oct 26;287(44):37282-95. PMID: 22955271
  • Liu Y, Liu S et al. Protein-protein interaction network analysis of children atopic asthma. Eur Rev Med Pharmacol Sci 2012 Jul;16(7):867-72. PMID: 22953633
  • Kim YW, Kwon C, Liu JL, Kim SH et al. Cancer association study of aminoacyl-tRNA synthetase signaling network in glioblastoma. PLoS One 2012;7(8):e40960. PMID: 22952576
  • Kazi JU, Sun J, Phung B, Zadjali F et al. Suppressor of cytokine signaling 6 (SOCS6) negatively regulates Flt3 signal transduction through direct binding to phosphorylated tyrosines 591 and 919 of Flt3. J Biol Chem 2012 Oct 19;287(43):36509-17. PMID: 22952242
  • Dong X, Greven MC, Kundaje A, Djebali S et al. Modeling gene expression using chromatin features in various cellular contexts. Genome Biol 2012 Jun 13;13(9):R53. PMID: 22950368
  • Tucci P, Agostini M, Grespi F, Markert EK et al. Loss of p63 and its microRNA-205 target results in enhanced cell migration and metastasis in prostate cancer. Proc Natl Acad Sci U S A 2012 Sep 18;109(38):15312-7. PMID: 22949650
  • Díaz de la Guardia R, Catalina P, Panero J, Elosua C et al. Expression profile of telomere-associated genes in multiple myeloma. J Cell Mol Med 2012 Dec;16(12):3009-21. PMID: 22947336
  • Miozzi L, Gambino G, Burgyan J, Pantaleo V et al. Genome-wide identification of viral and host transcripts targeted by viral siRNAs in Vitis vinifera. Mol Plant Pathol 2013 Jan;14(1):30-43. PMID: 22947170
  • Hsu S, Kim M, Hernandez L, Grajales V et al. IKK-ε coordinates invasion and metastasis of ovarian cancer. Cancer Res 2012 Nov 1;72(21):5494-504. PMID: 22942254
  • Arora M, Zhang J, Heine GF, Ozer G et al. Promoters active in interphase are bookmarked during mitosis by ubiquitination. Nucleic Acids Res 2012 Nov 1;40(20):10187-202. PMID: 22941662
  • Liu HW, Zhang J, Heine GF, Arora M et al. Chromatin modification by SUMO-1 stimulates the promoters of translation machinery genes. Nucleic Acids Res 2012 Nov 1;40(20):10172-86. PMID: 22941651
  • Gingold H, Dahan O, Pilpel Y et al. Dynamic changes in translational efficiency are deduced from codon usage of the transcriptome. Nucleic Acids Res 2012 Nov 1;40(20):10053-63. PMID: 22941644
  • Hucthagowder V, Meyer R, Mullins C, Nagarajan R et al. Resequencing analysis of the candidate tyrosine kinase and RAS pathway gene families in multiple myeloma. Cancer Genet 2012 Sep;205(9):474-8. PMID: 22939401
  • Weng K, Hu H, Xu AG, Khaitovich P et al. Mechanisms of dietary response in mice and primates: a role for EGR1 in regulating the reaction to human-specific nutritional content. PLoS One 2012;7(8):e43915. PMID: 22937124
  • Engler JR, Robinson AE, Smirnov I, Hodgson JG et al. Increased microglia/macrophage gene expression in a subset of adult and pediatric astrocytomas. PLoS One 2012;7(8):e43339. PMID: 22937035
  • Zhan M, Riordon DR, Yan B, Tarasova YS et al. The B-MYB transcriptional network guides cell cycle progression and fate decisions to sustain self-renewal and the identity of pluripotent stem cells. PLoS One 2012;7(8):e42350. PMID: 22936984
  • Coronado E, Roggo C, Johnson DR, van der Meer JR et al. Genome-Wide Analysis of Salicylate and Dibenzofuran Metabolism in Sphingomonas Wittichii RW1. Front Microbiol 2012;3:300. PMID: 22936930
  • Lee CS, Ungewickell A, Bhaduri A, Qu K et al. Transcriptome sequencing in Sezary syndrome identifies Sezary cell and mycosis fungoides-associated lncRNAs and novel transcripts. Blood 2012 Oct 18;120(16):3288-97. PMID: 22936659
  • Huang H, Jeon T, Sedmak G, Pletikos M et al. Coupling diffusion imaging with histological and gene expression analysis to examine the dynamics of cortical areas across the fetal period of human brain development. Cereb Cortex 2013 Nov;23(11):2620-31. PMID: 22933464
  • Szymczak S, Scheinhardt MO, Zeller T, Wild PS et al. Adaptive linear rank tests for eQTL studies. Stat Med 2013 Feb 10;32(3):524-37. PMID: 22933317
  • Popova T, Manié E, Rieunier G, Caux-Moncoutier V et al. Ploidy and large-scale genomic instability consistently identify basal-like breast carcinomas with BRCA1/2 inactivation. Cancer Res 2012 Nov 1;72(21):5454-62. PMID: 22933060
  • Turenne N, Tiys E, Ivanisenko V, Yudin N et al. Finding biomarkers in non-model species: literature mining of transcription factors involved in bovine embryo development. BioData Min 2012 Aug 29;5(1):12. PMID: 22931563
  • Surdez D, Benetkiewicz M, Perrin V, Han ZY et al. Targeting the EWSR1-FLI1 oncogene-induced protein kinase PKC-β abolishes ewing sarcoma growth. Cancer Res 2012 Sep 1;72(17):4494-503. PMID: 22930730
  • Visco C, Tzankov A, Xu-Monette ZY, Miranda RN et al. Patients with diffuse large B-cell lymphoma of germinal center origin with BCL2 translocations have poor outcome, irrespective of MYC status: a report from an International DLBCL rituximab-CHOP Consortium Program Study. Haematologica 2013 Feb;98(2):255-63. PMID: 22929980
  • Karlstädt A, Fliegner D, Kararigas G, Ruderisch HS et al. CardioNet: a human metabolic network suited for the study of cardiomyocyte metabolism. BMC Syst Biol 2012 Aug 29;6:114. PMID: 22929619
  • Setty M, Helmy K, Khan AA, Silber J et al. Inferring transcriptional and microRNA-mediated regulatory programs in glioblastoma. Mol Syst Biol 2012;8:605. PMID: 22929615
  • Alshalalfa M, Bader GD, Goldenberg A, Morris Q et al. Detecting microRNAs of high influence on protein functional interaction networks: a prostate cancer case study. BMC Syst Biol 2012 Aug 28;6:112. PMID: 22929553
  • Foong CS, Sandanaraj E, Brooks HB, Campbell RM et al. Glioma-propagating cells as an in vitro screening platform: PLK1 as a case study. J Biomol Screen 2012 Oct;17(9):1136-50. PMID: 22927677
  • Girgis AH, Iakovlev VV, Beheshti B, Bayani J et al. Multilevel whole-genome analysis reveals candidate biomarkers in clear cell renal cell carcinoma. Cancer Res 2012 Oct 15;72(20):5273-84. PMID: 22926558
  • Kim TS, Lee DH, Kim SK, Shin SY et al. Mammalian sterile 20-like kinase 1 suppresses lymphoma development by promoting faithful chromosome segregation. Cancer Res 2012 Oct 15;72(20):5386-95. PMID: 22926556
  • Pfeiffer D, Jendrossek D et al. Localization of poly(3-hydroxybutyrate) (PHB) granule-associated proteins during PHB granule formation and identification of two new phasins, PhaP6 and PhaP7, in Ralstonia eutropha H16. J Bacteriol 2012 Nov;194(21):5909-21. PMID: 22923598
  • Gaucher J, Boussouar F, Montellier E, Curtet S et al. Bromodomain-dependent stage-specific male genome programming by Brdt. EMBO J 2012 Oct 3;31(19):3809-20. PMID: 22922464
  • Chan XH, Nama S, Gopal F, Rizk P et al. Targeting glioma stem cells by functional inhibition of a prosurvival oncomiR-138 in malignant gliomas. Cell Rep 2012 Sep 27;2(3):591-602. PMID: 22921398
  • Lv S, Xu Y, Chen X, Li Y et al. Prioritizing cancer therapeutic small molecules by integrating multiple OMICS datasets. OMICS 2012 Oct;16(10):552-9. PMID: 22917481
  • Tchitchek N, Dzib JF, Targat B, Noth S et al. CDS: a fold-change based statistical test for concomitant identification of distinctness and similarity in gene expression analysis. Genomics Proteomics Bioinformatics 2012 Jun;10(3):127-35. PMID: 22917185
  • Thomas LF, Sætrom P et al. Single nucleotide polymorphisms can create alternative polyadenylation signals and affect gene expression through loss of microRNA-regulation. PLoS Comput Biol 2012;8(8):e1002621. PMID: 22915998
  • Navarro A, Clot G, Royo C, Jares P et al. Molecular subsets of mantle cell lymphoma defined by the IGHV mutational status and SOX11 expression have distinct biologic and clinical features. Cancer Res 2012 Oct 15;72(20):5307-16. PMID: 22915760
  • Ding J, Li X, Hu H et al. Systematic prediction of cis-regulatory elements in the Chlamydomonas reinhardtii genome using comparative genomics. Plant Physiol 2012 Oct;160(2):613-23. PMID: 22915576
  • Zhang D, Sun C, Ma C, Dai H et al. Data mining of spatial-temporal expression of genes in the human endometrium during the window of implantation. Reprod Sci 2012 Oct;19(10):1085-98. PMID: 22915151
  • Lui JC, Nilsson O, Chan Y, Palmer CD et al. Synthesizing genome-wide association studies and expression microarray reveals novel genes that act in the human growth plate to modulate height. Hum Mol Genet 2012 Dec 1;21(23):5193-201. PMID: 22914739
  • Liang ZD, Long Y, Tsai WB, Fu S et al. Mechanistic basis for overcoming platinum resistance using copper chelating agents. Mol Cancer Ther 2012 Nov;11(11):2483-94. PMID: 22914438
  • Zhang C, Li G, Wang J, Fang J et al. Identification of trans-acting siRNAs and their regulatory cascades in grapevine. Bioinformatics 2012 Oct 15;28(20):2561-8. PMID: 22914222
  • Ku BJ, Kim TH, Lee JH, Buras ED et al. Mig-6 plays a critical role in the regulation of cholesterol homeostasis and bile acid synthesis. PLoS One 2012;7(8):e42915. PMID: 22912762
  • González-González M, Muñoz-Bellvis L, Mackintosh C, Fontanillo C et al. Prognostic Impact of del(17p) and del(22q) as assessed by interphase FISH in sporadic colorectal carcinomas. PLoS One 2012;7(8):e42683. PMID: 22912721
  • Garg P, Borel C, Sharp AJ et al. Detection of parent-of-origin specific expression quantitative trait loci by cis-association analysis of gene expression in trios. PLoS One 2012;7(8):e41695. PMID: 22912676
  • Glubb DM, Dholakia N, Innocenti F et al. Liver expression quantitative trait loci: a foundation for pharmacogenomic research. Front Genet 2012;3:153. PMID: 22912647
  • Wuttke D, Connor R, Vora C, Craig T et al. Dissecting the gene network of dietary restriction to identify evolutionarily conserved pathways and new functional genes. PLoS Genet 2012;8(8):e1002834. PMID: 22912585
  • Lim JY, Yoon SO, Seol SY, Hong SW et al. Overexpression of the M2 isoform of pyruvate kinase is an adverse prognostic factor for signet ring cell gastric cancer. World J Gastroenterol 2012 Aug 14;18(30):4037-43. PMID: 22912555
  • Cunningham L, Finckbeiner S, Hyde RK, Southall N et al. Identification of benzodiazepine Ro5-3335 as an inhibitor of CBF leukemia through quantitative high throughput screen against RUNX1-CBFβ interaction. Proc Natl Acad Sci U S A 2012 Sep 4;109(36):14592-7. PMID: 22912405
  • Li B, Senbabaoglu Y, Peng W, Yang ML et al. Genomic estimates of aneuploid content in glioblastoma multiforme and improved classification. Clin Cancer Res 2012 Oct 15;18(20):5595-605. PMID: 22912392
  • Wang ZC, Birkbak NJ, Culhane AC, Drapkin R et al. Profiles of genomic instability in high-grade serous ovarian cancer predict treatment outcome. Clin Cancer Res 2012 Oct 15;18(20):5806-15. PMID: 22912389
  • Dinh HQ, Dubin M, Sedlazeck FJ, Lettner N et al. Advanced methylome analysis after bisulfite deep sequencing: an example in Arabidopsis. PLoS One 2012;7(7):e41528. PMID: 22911809
  • Chu LH, Rivera CG, Popel AS, Bader JS et al. Constructing the angiome: a global angiogenesis protein interaction network. Physiol Genomics 2012 Oct 2;44(19):915-24. PMID: 22911453
  • Lehmann L, Ferrari R, Vashisht AA, Wohlschlegel JA et al. Polycomb repressive complex 1 (PRC1) disassembles RNA polymerase II preinitiation complexes. J Biol Chem 2012 Oct 19;287(43):35784-94. PMID: 22910904
  • Lee JH, Kim DG, Bae TJ, Rho K et al. CDA: combinatorial drug discovery using transcriptional response modules. PLoS One 2012;7(8):e42573. PMID: 22905152
  • Haeberle H, Dudley JT, Liu JT, Butte AJ et al. Identification of cell surface targets through meta-analysis of microarray data. Neoplasia 2012 Jul;14(7):666-9. PMID: 22904683
  • Upton GJ, Harrison AP et al. Motif effects in Affymetrix GeneChips seriously affect probe intensities. Nucleic Acids Res 2012 Oct;40(19):9705-16. PMID: 22904084
  • Lloret-Llinares M, Pérez-Lluch S, Rossell D, Morán T et al. dKDM5/LID regulates H3K4me3 dynamics at the transcription-start site (TSS) of actively transcribed developmental genes. Nucleic Acids Res 2012 Oct;40(19):9493-505. PMID: 22904080
  • Balaga O, Friedman Y, Linial M et al. Toward a combinatorial nature of microRNA regulation in human cells. Nucleic Acids Res 2012 Oct;40(19):9404-16. PMID: 22904063
  • Bezman NA, Kim CC, Sun JC, Min-Oo G et al. Molecular definition of the identity and activation of natural killer cells. Nat Immunol 2012 Oct;13(10):1000-9. PMID: 22902830
  • Lv H, Lipes MA et al. Role of impaired central tolerance to α-myosin in inflammatory heart disease. Trends Cardiovasc Med 2012 Jul;22(5):113-7. PMID: 22902177
  • Oh Y, Franck WL, Han SO, Shows A et al. Polyubiquitin is required for growth, development and pathogenicity in the rice blast fungus Magnaporthe oryzae. PLoS One 2012;7(8):e42868. PMID: 22900059
  • Janiszewska M, Suvà ML, Riggi N, Houtkooper RH et al. Imp2 controls oxidative phosphorylation and is crucial for preserving glioblastoma cancer stem cells. Genes Dev 2012 Sep 1;26(17):1926-44. PMID: 22899010
  • Kawahara M, Pandolfi A, Bartholdy B, Barreyro L et al. H2.0-like homeobox regulates early hematopoiesis and promotes acute myeloid leukemia. Cancer Cell 2012 Aug 14;22(2):194-208. PMID: 22897850
  • Roberts KG, Morin RD, Zhang J, Hirst M et al. Genetic alterations activating kinase and cytokine receptor signaling in high-risk acute lymphoblastic leukemia. Cancer Cell 2012 Aug 14;22(2):153-66. PMID: 22897847
  • Xiong Y, Khanna S, Grzenda AL, Sarmento OF et al. Polycomb antagonizes p300/CREB-binding protein-associated factor to silence FOXP3 in a Kruppel-like factor-dependent manner. J Biol Chem 2012 Oct 5;287(41):34372-85. PMID: 22896699
  • Tadmouri A, Kiyonaka S, Barbado M, Rousset M et al. Cacnb4 directly couples electrical activity to gene expression, a process defective in juvenile epilepsy. EMBO J 2012 Sep 12;31(18):3730-44. PMID: 22892567
  • Li S, Kendall SE, Raices R, Finlay J et al. TWIST1 associates with NF-κB subunit RELA via carboxyl-terminal WR domain to promote cell autonomous invasion through IL8 production. BMC Biol 2012 Aug 14;10:73. PMID: 22891766
  • Lee SY, Meier R, Furuta S, Lenburg ME et al. FAM83A confers EGFR-TKI resistance in breast cancer cells and in mice. J Clin Invest 2012 Sep;122(9):3211-20. PMID: 22886303
  • Hsu WL, Tse KP, Liang S, Chien YC et al. Evaluation of human leukocyte antigen-A (HLA-A), other non-HLA markers on chromosome 6p21 and risk of nasopharyngeal carcinoma. PLoS One 2012;7(8):e42767. PMID: 22880099
  • Henke A, Grace OC, Ashley GR, Stewart GD et al. Stromal expression of decorin, Semaphorin6D, SPARC, Sprouty1 and Tsukushi in developing prostate and decreased levels of decorin in prostate cancer. PLoS One 2012;7(8):e42516. PMID: 22880013
  • Stoecklin-Wasmer C, Guarnieri P, Celenti R, Demmer RT et al. MicroRNAs and their target genes in gingival tissues. J Dent Res 2012 Oct;91(10):934-40. PMID: 22879578
  • Zhou ML, Zhang Q, Zhou M, Sun ZM et al. Genome-wide identification of genes involved in raffinose metabolism in Maize. Glycobiology 2012 Dec;22(12):1775-85. PMID: 22879458
  • Moindrot B, Audit B, Klous P, Baker A et al. 3D chromatin conformation correlates with replication timing and is conserved in resting cells. Nucleic Acids Res 2012 Oct;40(19):9470-81. PMID: 22879376
  • Harbinski F, Craig VJ, Sanghavi S, Jeffery D et al. Rescue screens with secreted proteins reveal compensatory potential of receptor tyrosine kinases in driving cancer growth. Cancer Discov 2012 Oct;2(10):948-59. PMID: 22874768
  • Chen X, Li J, Gray WH, Lehmann BD et al. TNBCtype: A Subtyping Tool for Triple-Negative Breast Cancer. Cancer Inform 2012;11:147-56. PMID: 22872785
  • Roberts PJ, Usary JE, Darr DB, Dillon PM et al. Combined PI3K/mTOR and MEK inhibition provides broad antitumor activity in faithful murine cancer models. Clin Cancer Res 2012 Oct 1;18(19):5290-303. PMID: 22872574
  • Levine PM, Lee E, Greenfield A, Bonneau R et al. Androgen receptor antagonism by divalent ethisterone conjugates in castrate-resistant prostate cancer cells. ACS Chem Biol 2012 Oct 19;7(10):1693-701. PMID: 22871957
  • Middelbeek J, Kuipers AJ, Henneman L, Visser D et al. TRPM7 is required for breast tumor cell metastasis. Cancer Res 2012 Aug 15;72(16):4250-61. PMID: 22871386
  • Lu TP, Lee CY, Tsai MH, Chiu YC et al. miRSystem: an integrated system for characterizing enriched functions and pathways of microRNA targets. PLoS One 2012;7(8):e42390. PMID: 22870325
  • Camiolo S, Farina L, Porceddu A et al. The relation of codon bias to tissue-specific gene expression in Arabidopsis thaliana. Genetics 2012 Oct;192(2):641-9. PMID: 22865738
  • Kassambara A, Hose D, Moreaux J, Rème T et al. Identification of pluripotent and adult stem cell genes unrelated to cell cycle and associated with poor prognosis in multiple myeloma. PLoS One 2012;7(7):e42161. PMID: 22860071
  • Vouk K, Hevir N, Ribić-Pucelj M, Haarpaintner G et al. Discovery of phosphatidylcholines and sphingomyelins as biomarkers for ovarian endometriosis. Hum Reprod 2012 Oct;27(10):2955-65. PMID: 22859507
  • Huang X, Dubuc AM, Hashizume R, Berg J et al. Voltage-gated potassium channel EAG2 controls mitotic entry and tumor growth in medulloblastoma via regulating cell volume dynamics. Genes Dev 2012 Aug 15;26(16):1780-96. PMID: 22855790
  • Gautier EL, Chow A, Spanbroek R, Marcelin G et al. Systemic analysis of PPARγ in mouse macrophage populations reveals marked diversity in expression with critical roles in resolution of inflammation and airway immunity. J Immunol 2012 Sep 1;189(5):2614-24. PMID: 22855714
  • Oduro KA Jr, Liu F, Tan Q, Kim CK et al. Myeloid skewing in murine autoimmune arthritis occurs in hematopoietic stem and primitive progenitor cells. Blood 2012 Sep 13;120(11):2203-13. PMID: 22855602
  • Heuck CJ, Szymonifka J, Hansen E, Shaughnessy JD Jr et al. Thalidomide in total therapy 2 overcomes inferior prognosis of myeloma with low expression of the glucocorticoid receptor gene NR3C1. Clin Cancer Res 2012 Oct 1;18(19):5499-506. PMID: 22855579
  • Vaquero-Sedas MI, Luo C, Vega-Palas MA et al. Analysis of the epigenetic status of telomeres by using ChIP-seq data. Nucleic Acids Res 2012 Nov;40(21):e163. PMID: 22855559
  • Josset L, Engelmann F, Haberthur K, Kelly S et al. Increased viral loads and exacerbated innate host responses in aged macaques infected with the 2009 pandemic H1N1 influenza A virus. J Virol 2012 Oct;86(20):11115-27. PMID: 22855494
  • Berendzen KW, Weiste C, Wanke D, Kilian J et al. Bioinformatic cis-element analyses performed in Arabidopsis and rice disclose bZIP- and MYB-related binding sites as potential AuxRE-coupling elements in auxin-mediated transcription. BMC Plant Biol 2012 Aug 1;12:125. PMID: 22852874
  • Meredith MM, Liu K, Kamphorst AO, Idoyaga J et al. Zinc finger transcription factor zDC is a negative regulator required to prevent activation of classical dendritic cells in the steady state. J Exp Med 2012 Aug 27;209(9):1583-93. PMID: 22851594
  • Lazar C, Meganck S, Taminau J, Steenhoff D et al. Batch effect removal methods for microarray gene expression data integration: a survey. Brief Bioinform 2013 Jul;14(4):469-90. PMID: 22851511
  • Gaedcke J, Grade M, Camps J, Søkilde R et al. The rectal cancer microRNAome--microRNA expression in rectal cancer and matched normal mucosa. Clin Cancer Res 2012 Sep 15;18(18):4919-30. PMID: 22850566
  • Mieczkowski J, Swiatek-Machado K, Kaminska B et al. Identification of pathway deregulation--gene expression based analysis of consistent signal transduction. PLoS One 2012;7(7):e41541. PMID: 22848524
  • Iacobucci I, Iraci N, Messina M, Lonetti A et al. IKAROS deletions dictate a unique gene expression signature in patients with adult B-cell acute lymphoblastic leukemia. PLoS One 2012;7(7):e40934. PMID: 22848414
  • Nagel S, Ehrentraut S, Tomasch J, Lienenklaus S et al. Transcriptional activation of prostate specific homeobox gene NKX3-1 in subsets of T-cell lymphoblastic leukemia (T-ALL). PLoS One 2012;7(7):e40747. PMID: 22848398
  • Liu QC, Zha XH, Faralli H, Yin H et al. Comparative expression profiling identifies differential roles for Myogenin and p38α MAPK signaling in myogenesis. J Mol Cell Biol 2012 Dec;4(6):386-97. PMID: 22847234
  • Stocco G, Yang W, Crews KR, Thierfelder WE et al. PACSIN2 polymorphism influences TPMT activity and mercaptopurine-related gastrointestinal toxicity. Hum Mol Genet 2012 Nov 1;21(21):4793-804. PMID: 22846425
  • Wang B, Lindley LE, Fernandez-Vega V, Rieger ME et al. The T box transcription factor TBX2 promotes epithelial-mesenchymal transition and invasion of normal and malignant breast epithelial cells. PLoS One 2012;7(7):e41355. PMID: 22844464
  • Xing H, Mo Y, Liao W, Zhang MQ et al. Genome-wide localization of protein-DNA binding and histone modification by a Bayesian change-point method with ChIP-seq data. PLoS Comput Biol 2012;8(7):e1002613. PMID: 22844240
  • García-Alonso L, Alonso R, Vidal E, Amadoz A et al. Discovering the hidden sub-network component in a ranked list of genes or proteins derived from genomic experiments. Nucleic Acids Res 2012 Nov 1;40(20):e158. PMID: 22844098
  • Dümcke S, Seizl M, Etzold S, Pirkl N et al. One Hand Clapping: detection of condition-specific transcription factor interactions from genome-wide gene activity data. Nucleic Acids Res 2012 Oct;40(18):8883-92. PMID: 22844089
  • Cai J, Keen HL, Sigmund CD, Casavant TL et al. Coex-Rank: An approach incorporating co-expression information for combined analysis of microarray data. J Integr Bioinform 2012 Jul 30;9(1):208. PMID: 22842118
  • Manzano C, Ramirez-Parra E, Casimiro I, Otero S et al. Auxin and epigenetic regulation of SKP2B, an F-box that represses lateral root formation. Plant Physiol 2012 Oct;160(2):749-62. PMID: 22837358
  • Chan G, Nogalski MT, Yurochko AD et al. Human cytomegalovirus stimulates monocyte-to-macrophage differentiation via the temporal regulation of caspase 3. J Virol 2012 Oct;86(19):10714-23. PMID: 22837201
  • Acevedo-Hernández G, Oropeza-Aburto A, Herrera-Estrella L et al. A specific variant of the PHR1 binding site is highly enriched in the Arabidopsis phosphate-responsive phospholipase DZ2 coexpression network. Plant Signal Behav 2012 Aug;7(8):914-7. PMID: 22836502
  • Tallack MR, Magor GW, Dartigues B, Sun L et al. Novel roles for KLF1 in erythropoiesis revealed by mRNA-seq. Genome Res 2012 Dec;22(12):2385-98. PMID: 22835905
  • Nakaya HI, Gardner J, Poo YS, Major L et al. Gene profiling of Chikungunya virus arthritis in a mouse model reveals significant overlap with rheumatoid arthritis. Arthritis Rheum 2012 Nov;64(11):3553-63. PMID: 22833339
  • Eschrich SA, Fulp WJ, Pawitan Y, Foekens JA et al. Validation of a radiosensitivity molecular signature in breast cancer. Clin Cancer Res 2012 Sep 15;18(18):5134-43. PMID: 22832933
  • Mozhui K, Wang X, Chen J, Mulligan MK et al. Genetic regulation of Nrxn1 [corrected] expression: an integrative cross-species analysis of schizophrenia candidate genes. Transl Psychiatry 2011 Jul 26;1(7):e25. PMID: 22832527
  • Tsunoda T, Ota T, Fujimoto T, Doi K et al. Inhibition of phosphodiesterase-4 (PDE4) activity triggers luminal apoptosis and AKT dephosphorylation in a 3-D colonic-crypt model. Mol Cancer 2012 Jul 25;11:46. PMID: 22830422
  • Acquaah-Mensah GK, Malhotra D, Vulimiri M, McDermott JE et al. Suppressed expression of T-box transcription factors is involved in senescence in chronic obstructive pulmonary disease. PLoS Comput Biol 2012;8(7):e1002597. PMID: 22829758
  • Zhuang G, Song W, Amato K, Hwang Y et al. Effects of cancer-associated EPHA3 mutations on lung cancer. J Natl Cancer Inst 2012 Aug 8;104(15):1182-97. PMID: 22829656
  • Bermúdez MÁ, Galmés J, Moreno I, Mullineaux PM et al. Photosynthetic adaptation to length of day is dependent on S-sulfocysteine synthase activity in the thylakoid lumen. Plant Physiol 2012 Sep;160(1):274-88. PMID: 22829322
  • Li L, Guo Y, Wu W, Shi Y et al. A comparison and evaluation of five biclustering algorithms by quantifying goodness of biclusters for gene expression data. BioData Min 2012 Jul 23;5(1):8. PMID: 22824157
  • Medrek C, Pontén F, Jirström K, Leandersson K et al. The presence of tumor associated macrophages in tumor stroma as a prognostic marker for breast cancer patients. BMC Cancer 2012 Jul 23;12:306. PMID: 22824040
  • Song J, Saha S, Gokulrangan G, Tesar PJ et al. DNA and chromatin modification networks distinguish stem cell pluripotent ground states. Mol Cell Proteomics 2012 Oct;11(10):1036-47. PMID: 22822199
  • Gu M, Nguyen PK, Lee AS, Xu D et al. Microfluidic single-cell analysis shows that porcine induced pluripotent stem cell-derived endothelial cells improve myocardial function by paracrine activation. Circ Res 2012 Sep 14;111(7):882-93. PMID: 22821929
  • Blotta S, Jakubikova J, Calimeri T, Roccaro AM et al. Canonical and noncanonical Hedgehog pathway in the pathogenesis of multiple myeloma. Blood 2012 Dec 13;120(25):5002-13. PMID: 22821765
  • Liu D, Liu X, Xing M et al. Epigenetic genes regulated by the BRAFV600E signaling are associated with alterations in the methylation and expression of tumor suppressor genes and patient survival in melanoma. Biochem Biophys Res Commun 2012 Aug 17;425(1):45-50. PMID: 22820187
  • Orlando DA, Guenther MG, Frampton GM, Young RA et al. CpG island structure and trithorax/polycomb chromatin domains in human cells. Genomics 2012 Nov;100(5):320-6. PMID: 22819920
  • Ahmad SM, Tansey TR, Busser BW, Nolte MT et al. Two forkhead transcription factors regulate the division of cardiac progenitor cells by a Polo-dependent pathway. Dev Cell 2012 Jul 17;23(1):97-111. PMID: 22814603
  • Witkiewicz AK, Ertel A, McFalls J, Valsecchi ME et al. RB-pathway disruption is associated with improved response to neoadjuvant chemotherapy in breast cancer. Clin Cancer Res 2012 Sep 15;18(18):5110-22. PMID: 22811582
  • Ljungberg K, McBrayer A, Camp JV, Chu YK et al. Host gene expression signatures discriminate between ferrets infected with genetically similar H1N1 strains. PLoS One 2012;7(7):e40743. PMID: 22808249
  • Rodrigo G, Carrera J, Ruiz-Ferrer V, del Toro FJ et al. A meta-analysis reveals the commonalities and differences in Arabidopsis thaliana response to different viral pathogens. PLoS One 2012;7(7):e40526. PMID: 22808182
  • Singh S, Dev A, Verma R, Pradeep A et al. Defining an EPOR- regulated transcriptome for primary progenitors, including Tnfr-sf13c as a novel mediator of EPO- dependent erythroblast formation. PLoS One 2012;7(7):e38530. PMID: 22808010
  • Reinhold WC, Sunshine M, Liu H, Varma S et al. CellMiner: a web-based suite of genomic and pharmacologic tools to explore transcript and drug patterns in the NCI-60 cell line set. Cancer Res 2012 Jul 15;72(14):3499-511. PMID: 22802077
  • Tian S, Simon I, Moreno V, Roepman P et al. A combined oncogenic pathway signature of BRAF, KRAS and PI3KCA mutation improves colorectal cancer classification and cetuximab treatment prediction. Gut 2013 Apr;62(4):540-9. PMID: 22798500
  • Feldstein O, Ben-Hamo R, Bashari D, Efroni S et al. RBM38 is a direct transcriptional target of E2F1 that limits E2F1-induced proliferation. Mol Cancer Res 2012 Sep;10(9):1169-77. PMID: 22798430
  • Iskow RC, Gokcumen O, Abyzov A, Malukiewicz J et al. Regulatory element copy number differences shape primate expression profiles. Proc Natl Acad Sci U S A 2012 Jul 31;109(31):12656-61. PMID: 22797897
  • Ma C, Wang X et al. Application of the Gini correlation coefficient to infer regulatory relationships in transcriptome analysis. Plant Physiol 2012 Sep;160(1):192-203. PMID: 22797655
  • Marbach D, Costello JC, Küffner R, Vega NM et al. Wisdom of crowds for robust gene network inference. Nat Methods 2012 Jul 15;9(8):796-804. PMID: 22796662
  • Amigo I, Traba J, Satrústegui J, del Arco A et al. SCaMC-1Like a member of the mitochondrial carrier (MC) family preferentially expressed in testis and localized in mitochondria and chromatoid body. PLoS One 2012;7(7):e40470. PMID: 22792342
  • Schmidt F, van den Eijnden M, Pescini Gobert R, Saborio GP et al. Identification of VHY/Dusp15 as a regulator of oligodendrocyte differentiation through a systematic genomics approach. PLoS One 2012;7(7):e40457. PMID: 22792334
  • Porter NM, Bohannon JH, Curran-Rauhut M, Buechel HM et al. Hippocampal CA1 transcriptional profile of sleep deprivation: relation to aging and stress. PLoS One 2012;7(7):e40128. PMID: 22792227
  • Gusenleitner D, Howe EA, Bentink S, Quackenbush J et al. iBBiG: iterative binary bi-clustering of gene sets. Bioinformatics 2012 Oct 1;28(19):2484-92. PMID: 22789589
  • Luesink M, Hollink IH, van der Velden VH, Knops RH et al. High GATA2 expression is a poor prognostic marker in pediatric acute myeloid leukemia. Blood 2012 Sep 6;120(10):2064-75. PMID: 22786876
  • Wang J, Qiu X, Li Y, Deng Y et al. A transcriptional dynamic network during Arabidopsis thaliana pollen development. BMC Syst Biol 2011;5 Suppl 3(Suppl 3):S8. PMID: 22784627
  • Yuan Y, Chen YP, Boyd-Kirkup J, Khaitovich P et al. Accelerated aging-related transcriptome changes in the female prefrontal cortex. Aging Cell 2012 Oct;11(5):894-901. PMID: 22783978
  • Wenzke KE, Cantemir-Stone C, Zhang J, Marsh CB et al. Identifying common genes and networks in multi-organ fibrosis. AMIA Jt Summits Transl Sci Proc 2012;2012:106-15. PMID: 22779061
  • Deng M, Zollanvari A, Alterovitz G et al. A bayesian translational framework for knowledge propagation, discovery, and integration under specific contexts. AMIA Jt Summits Transl Sci Proc 2012;2012:25-34. PMID: 22779044
  • Ryan SD, Britigan EM, Zasadil LM, Witte K et al. Up-regulation of the mitotic checkpoint component Mad1 causes chromosomal instability and resistance to microtubule poisons. Proc Natl Acad Sci U S A 2012 Aug 14;109(33):E2205-14. PMID: 22778409
  • DeFilippis RA, Chang H, Dumont N, Rabban JT et al. CD36 repression activates a multicellular stromal program shared by high mammographic density and tumor tissues. Cancer Discov 2012 Sep;2(9):826-39. PMID: 22777768
  • Sun YVIntegration of biological networks and pathways with genetic association studies. Hum Genet 2012 Oct;131(10):1677-86. PMID: 22777728
  • Voigt K, Gogol-Döring A, Miskey C, Chen W et al. Retargeting sleeping beauty transposon insertions by engineered zinc finger DNA-binding domains. Mol Ther 2012 Oct;20(10):1852-62. PMID: 22776959
  • Marina M, Wang L, Conrad SE et al. The scaffold protein MEK Partner 1 is required for the survival of estrogen receptor positive breast cancer cells. Cell Commun Signal 2012 Jul 9;10(1):18. PMID: 22776333
  • Muchir A, Wu W, Choi JC, Iwata S et al. Abnormal p38α mitogen-activated protein kinase signaling in dilated cardiomyopathy caused by lamin A/C gene mutation. Hum Mol Genet 2012 Oct 1;21(19):4325-33. PMID: 22773734
  • Eren K, Deveci M, Küçüktunç O, Çatalyürek ÜV et al. A comparative analysis of biclustering algorithms for gene expression data. Brief Bioinform 2013 May;14(3):279-92. PMID: 22772837
  • Shih B, Watson S, Bayat A et al. Whole genome and global expression profiling of Dupuytren's disease: systematic review of current findings and future perspectives. Ann Rheum Dis 2012 Sep;71(9):1440-7. PMID: 22772327
  • Qin J, Whyte WA, Anderssen E, Apostolou E et al. The polycomb group protein L3mbtl2 assembles an atypical PRC1-family complex that is essential in pluripotent stem cells and early development. Cell Stem Cell 2012 Sep 7;11(3):319-32. PMID: 22770845
  • Loinger A, Shemla Y, Simon I, Margalit H et al. Competition between small RNAs: a quantitative view. Biophys J 2012 Apr 18;102(8):1712-21. PMID: 22768926
  • Papadantonakis N, Matsuura S, Ravid K et al. Megakaryocyte pathology and bone marrow fibrosis: the lysyl oxidase connection. Blood 2012 Aug 30;120(9):1774-81. PMID: 22767499
  • Rizig MA, McQuillin A, Ng A, Robinson M et al. A gene expression and systems pathway analysis of the effects of clozapine compared to haloperidol in the mouse brain implicates susceptibility genes for schizophrenia. J Psychopharmacol 2012 Sep;26(9):1218-30. PMID: 22767372
  • Tiberio P, Cavadini E, Callari M, Daidone MG et al. AF1q: a novel mediator of basal and 4-HPR-induced apoptosis in ovarian cancer cells. PLoS One 2012;7(6):e39968. PMID: 22761939
  • Ma H, Hostuttler M, Wei H, Rexroad CE 3rd et al. Characterization of the rainbow trout egg microRNA transcriptome. PLoS One 2012;7(6):e39649. PMID: 22761856
  • Imsland F, Feng C, Boije H, Bed'hom B et al. The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb morphology and defective sperm motility. PLoS Genet 2012 Jun;8(6):e1002775. PMID: 22761584
  • Gulbahce N, Yan H, Dricot A, Padi M et al. Viral perturbations of host networks reflect disease etiology. PLoS Comput Biol 2012;8(6):e1002531. PMID: 22761553
  • Itoh S, Saito T, Hirata M, Ushita M et al. GSK-3α and GSK-3β proteins are involved in early stages of chondrocyte differentiation with functional redundancy through RelA protein phosphorylation. J Biol Chem 2012 Aug 24;287(35):29227-36. PMID: 22761446
  • Kaneda A, Matsusaka K, Aburatani H, Fukayama M et al. Epstein-Barr virus infection as an epigenetic driver of tumorigenesis. Cancer Res 2012 Jul 15;72(14):3445-50. PMID: 22761333
  • Lai L, Liberzon A, Hennessey J, Jiang G et al. AraPath: a knowledgebase for pathway analysis in Arabidopsis. Bioinformatics 2012 Sep 1;28(17):2291-2. PMID: 22760305
  • Eblen JD, Phillips CA, Rogers GL, Langston MA et al. The maximum clique enumeration problem: algorithms, applications, and implementations. BMC Bioinformatics 2012 Jun 25;13 Suppl 10(Suppl 10):S5. PMID: 22759429
  • Klie S, Nikoloski Z et al. The Choice between MapMan and Gene Ontology for Automated Gene Function Prediction in Plant Science. Front Genet 2012;3:115. PMID: 22754563
  • Pachynski RK, Zabel BA, Kohrt HE, Tejeda NM et al. The chemoattractant chemerin suppresses melanoma by recruiting natural killer cell antitumor defenses. J Exp Med 2012 Jul 30;209(8):1427-35. PMID: 22753924
  • Tone AA, Virtanen C, Shaw P, Brown TJ et al. Prolonged postovulatory proinflammatory signaling in the fallopian tube epithelium may be mediated through a BRCA1/DAB2 axis. Clin Cancer Res 2012 Aug 15;18(16):4334-44. PMID: 22753593
  • Sarwar Z, Garza AG et al. The Nla28S/Nla28 two-component signal transduction system regulates sporulation in Myxococcus xanthus. J Bacteriol 2012 Sep;194(17):4698-708. PMID: 22753068
  • Ziliak D, Gamazon ER, Lacroix B, Kyung Im H et al. Genetic variation that predicts platinum sensitivity reveals the role of miR-193b* in chemotherapeutic susceptibility. Mol Cancer Ther 2012 Sep;11(9):2054-61. PMID: 22752226
  • Kim K, Chadalapaka G, Pathi SS, Jin UH et al. Induction of the transcriptional repressor ZBTB4 in prostate cancer cells by drug-induced targeting of microRNA-17-92/106b-25 clusters. Mol Cancer Ther 2012 Sep;11(9):1852-62. PMID: 22752225
  • Koch EN, Costanzo M, Bellay J, Deshpande R et al. Conserved rules govern genetic interaction degree across species. Genome Biol 2012 Jul 2;13(7):R57. PMID: 22747640
  • Witwer KW, Clements JE et al. Evidence for miRNA expression differences of HIV-1-positive, treatment-naive patients and elite suppressors: a re-analysis. Blood 2012 Jun 28;119(26):6395-6. PMID: 22745299
  • Ho JJ, Metcalf JL, Yan MS, Turgeon PJ et al. Functional importance of Dicer protein in the adaptive cellular response to hypoxia. J Biol Chem 2012 Aug 17;287(34):29003-20. PMID: 22745131
  • Androsavich JR, Chau BN, Bhat B, Linsley PS et al. Disease-linked microRNA-21 exhibits drastically reduced mRNA binding and silencing activity in healthy mouse liver. RNA 2012 Aug;18(8):1510-26. PMID: 22740638
  • Agnelli L, Mereu E, Pellegrino E, Limongi T et al. Identification of a 3-gene model as a powerful diagnostic tool for the recognition of ALK-negative anaplastic large-cell lymphoma. Blood 2012 Aug 9;120(6):1274-81. PMID: 22740451
  • Hiraga T, Myoui A, Hashimoto N, Sasaki A et al. Bone-derived IGF mediates crosstalk between bone and breast cancer cells in bony metastases. Cancer Res 2012 Aug 15;72(16):4238-49. PMID: 22738911
  • Yang W, Kim Y, Kim TK, Keay SK et al. Integration analysis of quantitative proteomics and transcriptomics data identifies potential targets of frizzled-8 protein-related antiproliferative factor in vivo. BJU Int 2012 Dec;110(11 Pt C):E1138-46. PMID: 22738385
  • Leek JT, Taub MA, Rasgon JL et al. A statistical approach to selecting and confirming validation targets in -omics experiments. BMC Bioinformatics 2012 Jun 27;13:150. PMID: 22738145
  • Robinson TJ, Forte E, Salinas RE, Puri S et al. SplicerEX: a tool for the automated detection and classification of mRNA changes from conventional and splice-sensitive microarray expression data. RNA 2012 Aug;18(8):1435-45. PMID: 22736799
  • Wu Y, Grabsch H, Ivanova T, Tan IB et al. Comprehensive genomic meta-analysis identifies intra-tumoural stroma as a predictor of survival in patients with gastric cancer. Gut 2013 Aug;62(8):1100-11. PMID: 22735568
  • Goel A, Gaur VS, Arora S, Gupta S et al. In silico analysis of expression data for identification of genes involved in spatial accumulation of calcium in developing seeds of rice. OMICS 2012 Jul-Aug;16(7-8):402-13. PMID: 22734689
  • Beuling E, Aronson BE, Tran LM, Stapleton KA et al. GATA6 is required for proliferation, migration, secretory cell maturation, and gene expression in the mature mouse colon. Mol Cell Biol 2012 Sep;32(17):3392-402. PMID: 22733991
  • Curry MC, Luk NA, Kenny PA, Roberts-Thomson SJ et al. Distinct regulation of cytoplasmic calcium signals and cell death pathways by different plasma membrane calcium ATPase isoforms in MDA-MB-231 breast cancer cells. J Biol Chem 2012 Aug 17;287(34):28598-608. PMID: 22733819
  • Kouprina N, Lee NC, Pavlicek A, Samoshkin A et al. Exclusion of the 750-kb genetically unstable region at Xq27 as a candidate locus for prostate malignancy in HPCX1-linked families. Genes Chromosomes Cancer 2012 Oct;51(10):933-48. PMID: 22733720
  • Rodriguez-Blanco J, Schilling NS, Tokhunts R, Giambelli C et al. The hedgehog processing pathway is required for NSCLC growth and survival. Oncogene 2013 May 2;32(18):2335-45. PMID: 22733134
  • Waheed S, Mitchell A, Usmani S, Epstein J et al. Standard and novel imaging methods for multiple myeloma: correlates with prognostic laboratory variables including gene expression profiling data. Haematologica 2013 Jan;98(1):71-8. PMID: 22733020
  • do Rego TG, Roider HG, de Carvalho FA, Costa IG et al. Inferring epigenetic and transcriptional regulation during blood cell development with a mixture of sparse linear models. Bioinformatics 2012 Sep 15;28(18):2297-303. PMID: 22730432
  • Wang C, Sandling JK, Hagberg N, Berggren O et al. Genome-wide profiling of target genes for the systemic lupus erythematosus-associated transcription factors IRF5 and STAT4. Ann Rheum Dis 2013 Jan;72(1):96-103. PMID: 22730365
  • Sérandour AA, Avner S, Oger F, Bizot M et al. Dynamic hydroxymethylation of deoxyribonucleic acid marks differentiation-associated enhancers. Nucleic Acids Res 2012 Sep 1;40(17):8255-65. PMID: 22730288
  • Christensen J, El-Gebali S, Natoli M, Sengstag T et al. Defining new criteria for selection of cell-based intestinal models using publicly available databases. BMC Genomics 2012 Jun 22;13:274. PMID: 22726358
  • Artmann S, Jung K, Bleckmann A, Beissbarth T et al. Detection of simultaneous group effects in microRNA expression and related target gene sets. PLoS One 2012;7(6):e38365. PMID: 22723856
  • Lam KC, Mühlpfordt F, Vaquerizas JM, Raja SJ et al. The NSL complex regulates housekeeping genes in Drosophila. PLoS Genet 2012;8(6):e1002736. PMID: 22723752
  • Berthier CC, Bethunaickan R, Gonzalez-Rivera T, Nair V et al. Cross-species transcriptional network analysis defines shared inflammatory responses in murine and human lupus nephritis. J Immunol 2012 Jul 15;189(2):988-1001. PMID: 22723521
  • Gevaert O, Xu J, Hoang CD, Leung AN et al. Non-small cell lung cancer: identifying prognostic imaging biomarkers by leveraging public gene expression microarray data--methods and preliminary results. Radiology 2012 Aug;264(2):387-96. PMID: 22723499
  • Chen JL, Li J, Kiriluk KJ, Rosen AM et al. Deregulation of a Hox protein regulatory network spanning prostate cancer initiation and progression. Clin Cancer Res 2012 Aug 15;18(16):4291-302. PMID: 22723371
  • Irimia M, Tena JJ, Alexis MS, Fernandez-Miñan A et al. Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints. Genome Res 2012 Dec;22(12):2356-67. PMID: 22722344
  • Anders S, Reyes A, Huber W et al. Detecting differential usage of exons from RNA-seq data. Genome Res 2012 Oct;22(10):2008-17. PMID: 22722343
  • Marotta M, Piontkivska H, Tanaka H et al. Molecular trajectories leading to the alternative fates of duplicate genes. PLoS One 2012;7(6):e38958. PMID: 22720000
  • Bilal E, Vassallo K, Toppmeyer D, Barnard N et al. Amplified loci on chromosomes 8 and 17 predict early relapse in ER-positive breast cancers. PLoS One 2012;7(6):e38575. PMID: 22719901
  • Mefford D, Mefford J et al. Stromal genes add prognostic information to proliferation and histoclinical markers: a basis for the next generation of breast cancer gene signatures. PLoS One 2012;7(6):e37646. PMID: 22719844
  • Chan G, Nogalski MT, Stevenson EV, Yurochko AD et al. Human cytomegalovirus induction of a unique signalsome during viral entry into monocytes mediates distinct functional changes: a strategy for viral dissemination. J Leukoc Biol 2012 Oct;92(4):743-52. PMID: 22715139
  • Koestler DC, Marsit CJ, Christensen BC, Accomando W et al. Peripheral blood immune cell methylation profiles are associated with nonhematopoietic cancers. Cancer Epidemiol Biomarkers Prev 2012 Aug;21(8):1293-302. PMID: 22714737
  • Tarca AL, Draghici S, Bhatti G, Romero R et al. Down-weighting overlapping genes improves gene set analysis. BMC Bioinformatics 2012 Jun 19;13:136. PMID: 22713124
  • Epstein MM, Andrén O, Kasperzyk JL, Shui IM et al. Seasonal variation in expression of markers in the vitamin D pathway in prostate tissue. Cancer Causes Control 2012 Aug;23(8):1359-66. PMID: 22710747
  • Thorsteinsson M, Kirkeby LT, Hansen R, Lund LR et al. Gene expression profiles in stages II and III colon cancers: application of a 128-gene signature. Int J Colorectal Dis 2012 Dec;27(12):1579-86. PMID: 22710688
  • van der Weyden L, Papaspyropoulos A, Poulogiannis G, Rust AG et al. Loss of RASSF1A synergizes with deregulated RUNX2 signaling in tumorigenesis. Cancer Res 2012 Aug 1;72(15):3817-3827. PMID: 22710434
  • Nair VS, Gevaert O, Davidzon G, Napel S et al. Prognostic PET 18F-FDG uptake imaging features are associated with major oncogenomic alterations in patients with resected non-small cell lung cancer. Cancer Res 2012 Aug 1;72(15):3725-34. PMID: 22710433
  • Hertzano R, Elkon R et al. High throughput gene expression analysis of the inner ear. Hear Res 2012 Jun;288(1-2):77-88. PMID: 22710153
  • Chai G, Hu R, Zhang D, Qi G et al. Comprehensive analysis of CCCH zinc finger family in poplar (Populus trichocarpa). BMC Genomics 2012 Jun 18;13:253. PMID: 22708723
  • Nam JW, Bartel DP et al. Long noncoding RNAs in C. elegans. Genome Res 2012 Dec;22(12):2529-40. PMID: 22707570
  • Sparano JA, Goldstein LJ, Davidson NE, Sledge GW Jr et al. TOP2A RNA expression and recurrence in estrogen receptor-positive breast cancer. Breast Cancer Res Treat 2012 Jul;134(2):751-7. PMID: 22706628
  • Wittkop T, Berman AE, Fleisch KM, Mooney SD et al. DEFOG: discrete enrichment of functionally organized genes. Integr Biol (Camb) 2012 Jul;4(7):795-804. PMID: 22706384
  • Xiao Y, Guan J, Ping Y, Xu C et al. Prioritizing cancer-related key miRNA-target interactions by integrative genomics. Nucleic Acids Res 2012 Sep;40(16):7653-65. PMID: 22705797
  • Seckinger A, Meissner T, Moreaux J, Depeweg D et al. Clinical and prognostic role of annexin A2 in multiple myeloma. Blood 2012 Aug 2;120(5):1087-94. PMID: 22705595
  • Casellas J, Varona L et al. Modeling skewness in human transcriptomes. PLoS One 2012;7(6):e38919. PMID: 22701729
  • Gekonge B, Raymond AD, Yin X, Kostman J et al. Retinoblastoma protein induction by HIV viremia or CCR5 in monocytes exposed to HIV-1 mediates protection from activation-induced apoptosis: ex vivo and in vitro study. J Leukoc Biol 2012 Aug;92(2):397-405. PMID: 22701041
  • Jeong Y, Xie Y, Lee W, Bookout AL et al. Research resource: Diagnostic and therapeutic potential of nuclear receptor expression in lung cancer. Mol Endocrinol 2012 Aug;26(8):1443-54. PMID: 22700587
  • Pavón MA, Parreño M, Téllez-Gabriel M, Sancho FJ et al. Gene expression signatures and molecular markers associated with clinical outcome in locally advanced head and neck carcinoma. Carcinogenesis 2012 Sep;33(9):1707-16. PMID: 22696598
  • Labbé RM, Irimia M, Currie KW, Lin A et al. A comparative transcriptomic analysis reveals conserved features of stem cell pluripotency in planarians and mammals. Stem Cells 2012 Aug;30(8):1734-45. PMID: 22696458
  • Wilson TJ, Lai L, Ban Y, Ge SX et al. Identification of metagenes and their interactions through large-scale analysis of Arabidopsis gene expression data. BMC Genomics 2012 Jun 13;13:237. PMID: 22694750
  • Du X, Qian X, Papageorge A, Schetter AJ et al. Functional interaction of tumor suppressor DLC1 and caveolin-1 in cancer cells. Cancer Res 2012 Sep 1;72(17):4405-16. PMID: 22693251
  • Wu HJ, Ma YK, Chen T, Wang M et al. PsRobot: a web-based plant small RNA meta-analysis toolbox. Nucleic Acids Res 2012 Jul;40(Web Server issue):W22-8. PMID: 22693224
  • Wise A, Oltvai ZN, Bar-Joseph Z et al. Matching experiments across species using expression values and textual information. Bioinformatics 2012 Jun 15;28(12):i258-64. PMID: 22689770
  • Lohr M, Köllmann C, Freis E, Hellwig B et al. Optimal strategies for sequential validation of significant features from high-dimensional genomic data. J Toxicol Environ Health A 2012;75(8-10):447-60. PMID: 22686304
  • Ruau D, Dudley JT, Chen R, Phillips NG et al. Integrative approach to pain genetics identifies pain sensitivity loci across diseases. PLoS Comput Biol 2012;8(6):e1002538. PMID: 22685391
  • Page MD, Allen MD, Kropat J, Urzica EI et al. Fe sparing and Fe recycling contribute to increased superoxide dismutase capacity in iron-starved Chlamydomonas reinhardtii. Plant Cell 2012 Jun;24(6):2649-65. PMID: 22685165
  • Névéol A, Wilbur WJ, Lu Z et al. Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE. Database (Oxford) 2012;2012:bas026. PMID: 22685160
  • Terrados G, Finkernagel F, Stielow B, Sadic D et al. Genome-wide localization and expression profiling establish Sp2 as a sequence-specific transcription factor regulating vitally important genes. Nucleic Acids Res 2012 Sep;40(16):7844-57. PMID: 22684502
  • Balko JM, Cook RS, Vaught DB, Kuba MG et al. Profiling of residual breast cancers after neoadjuvant chemotherapy identifies DUSP4 deficiency as a mechanism of drug resistance. Nat Med 2012 Jul;18(7):1052-9. PMID: 22683778
  • Ceccaldi R, Parmar K, Mouly E, Delord M et al. Bone marrow failure in Fanconi anemia is triggered by an exacerbated p53/p21 DNA damage response that impairs hematopoietic stem and progenitor cells. Cell Stem Cell 2012 Jul 6;11(1):36-49. PMID: 22683204
  • Kafsack BF, Painter HJ, Llinás M et al. New Agilent platform DNA microarrays for transcriptome analysis of Plasmodium falciparum and Plasmodium berghei for the malaria research community. Malar J 2012 Jun 8;11:187. PMID: 22681930
  • Feyeux M, Bourgois-Rocha F, Redfern A, Giles P et al. Early transcriptional changes linked to naturally occurring Huntington's disease mutations in neural derivatives of human embryonic stem cells. Hum Mol Genet 2012 Sep 1;21(17):3883-95. PMID: 22678061
  • Kusko RL, Banerjee C, Long KK, Darcy A et al. Premature expression of a muscle fibrosis axis in chronic HIV infection. Skelet Muscle 2012 Jun 7;2(1):10. PMID: 22676806
  • Liu KQ, Liu ZP, Hao JK, Chen L et al. Identifying dysregulated pathways in cancers from pathway interaction networks. BMC Bioinformatics 2012 Jun 7;13:126. PMID: 22676414
  • Inglés-Esteve J, Morales M, Dalmases A, Garcia-Carbonell R et al. Inhibition of specific NF-κB activity contributes to the tumor suppressor function of 14-3-3σ in breast cancer. PLoS One 2012;7(5):e38347. PMID: 22675457
  • Ng FS, Toh TB, Ting EH, Koh GR et al. Progenitor-like traits contribute to patient survival and prognosis in oligodendroglial tumors. Clin Cancer Res 2012 Aug 1;18(15):4122-35. PMID: 22675171
  • Pritchard S, Wick HC, Slonim DK, Johnson KL et al. Comprehensive analysis of genes expressed by rare microchimeric fetal cells in the maternal mouse lung. Biol Reprod 2012 Aug;87(2):42. PMID: 22674387
  • Kowalewska M, Radziszewski J, Goryca K, Bujko M et al. Estimation of groin recurrence risk in patients with squamous cell vulvar carcinoma by the assessment of marker gene expression in the lymph nodes. BMC Cancer 2012 Jun 6;12:223. PMID: 22673103
  • Michalopoulos I, Pavlopoulos GA, Malatras A, Karelas A et al. Human gene correlation analysis (HGCA): a tool for the identification of transcriptionally co-expressed genes. BMC Res Notes 2012 Jun 6;5:265. PMID: 22672625
  • Friese RS, Ye C, Nievergelt CM, Schork AJ et al. Integrated computational and experimental analysis of the neuroendocrine transcriptome in genetic hypertension identifies novel control points for the cardiometabolic syndrome. Circ Cardiovasc Genet 2012 Aug 1;5(4):430-40. PMID: 22670052
  • Linderman GC, Chance MR, Bebek G et al. MAGNET: MicroArray Gene expression and Network Evaluation Toolkit. Nucleic Acids Res 2012 Jul;40(Web Server issue):W152-6. PMID: 22669910
  • Hu B, Nandhu MS, Sim H, Agudelo-Garcia PA et al. Fibulin-3 promotes glioma growth and resistance through a novel paracrine regulation of Notch signaling. Cancer Res 2012 Aug 1;72(15):3873-85. PMID: 22665268
  • Cai Y, Zhou Q, Yu C, Wang X et al. Transposable-element associated small RNAs in Bombyx mori genome. PLoS One 2012;7(5):e36599. PMID: 22662121
  • Hayashi T, Kato T, Furukawa K et al. Respiratory chain analysis of Zymomonas mobilis mutants producing high levels of ethanol. Appl Environ Microbiol 2012 Aug;78(16):5622-9. PMID: 22660712
  • Park C, Ahn J, Yoon Y, Park S et al. Identification of functional CNV region networks using a CNV-gene mapping algorithm in a genome-wide scale. Bioinformatics 2012 Aug 1;28(15):2045-51. PMID: 22652832
  • De Bodt S, Hollunder J, Nelissen H, Meulemeester N et al. CORNET 2.0: integrating plant coexpression, protein-protein interactions, regulatory interactions, gene associations and functional annotations. New Phytol 2012 Aug;195(3):707-720. PMID: 22651224
  • Hattlmann CJ, Kelly JN, Barr SD et al. TRIM22: A Diverse and Dynamic Antiviral Protein. Mol Biol Int 2012;2012:153415. PMID: 22649727
  • Jerabek H, Heermann DW et al. Expression-dependent folding of interphase chromatin. PLoS One 2012;7(5):e37525. PMID: 22649534
  • Voll LM, Horst RJ, Voitsik AM, Zajic D et al. Common Motifs in the Response of Cereal Primary Metabolism to Fungal Pathogens are not Based on Similar Transcriptional Reprogramming. Front Plant Sci 2011;2:39. PMID: 22645534
  • Yan Z, Shah PK, Amin SB, Samur MK et al. Integrative analysis of gene and miRNA expression profiles with transcription factor-miRNA feed-forward loops identifies regulators in human cancers. Nucleic Acids Res 2012 Sep 1;40(17):e135. PMID: 22645320
  • Naseem M, Philippi N, Hussain A, Wangorsch G et al. Integrated systems view on networking by hormones in Arabidopsis immunity reveals multiple crosstalk for cytokinin. Plant Cell 2012 May;24(5):1793-814. PMID: 22643121
  • Yoshida Y, Tsunoda T, Doi K, Fujimoto T et al. ALPK2 is crucial for luminal apoptosis and DNA repair-related gene expression in a three-dimensional colonic-crypt model. Anticancer Res 2012 Jun;32(6):2301-8. PMID: 22641666
  • Ota T, Doi K, Fujimoto T, Tanaka Y et al. KRAS up-regulates the expression of miR-181a, miR-200c and miR-210 in a three-dimensional-specific manner in DLD-1 colorectal cancer cells. Anticancer Res 2012 Jun;32(6):2271-5. PMID: 22641662
  • Wu D, Smyth GK et al. Camera: a competitive gene set test accounting for inter-gene correlation. Nucleic Acids Res 2012 Sep 1;40(17):e133. PMID: 22638577
  • Velasco-Velázquez M, Jiao X, De La Fuente M, Pestell TG et al. CCR5 antagonist blocks metastasis of basal breast cancer cells. Cancer Res 2012 Aug 1;72(15):3839-50. PMID: 22637726
  • Tong Y, Zheng Y, Zhou J, Oyesiku NM et al. Genomic characterization of human and rat prolactinomas. Endocrinology 2012 Aug;153(8):3679-91. PMID: 22635680
  • Zou J, Hao C, Hong G, Zheng J et al. Revealing weak differential gene expressions and their reproducible functions associated with breast cancer metastasis. Comput Biol Chem 2012 Aug;39:1-5. PMID: 22634492
  • Sonachalam M, Shen J, Huang H, Wu X et al. Systems biology approach to identify gene network signatures for colorectal cancer. Front Genet 2012;3:80. PMID: 22629282
  • Jahid S, Sun J, Edwards RA, Dizon D et al. miR-23a promotes the transition from indolent to invasive colorectal cancer. Cancer Discov 2012 Jun;2(6):540-53. PMID: 22628407
  • De Carvalho DD, Sharma S, You JS, Su SF et al. DNA methylation screening identifies driver epigenetic events of cancer cell survival. Cancer Cell 2012 May 15;21(5):655-667. PMID: 22624715
  • Su YW, Chen X, Jiang ZZ, Wang T et al. A panel of serum microRNAs as specific biomarkers for diagnosis of compound- and herb-induced liver injury in rats. PLoS One 2012;7(5):e37395. PMID: 22624025
  • Fankhauser N, Cima I, Wild P, Krek W et al. Identification of a gene expression signature common to distinct cancer pathways. Cancer Inform 2012;11:139-46. PMID: 22619501
  • Yus E, Güell M, Vivancos AP, Chen WH et al. Transcription start site associated RNAs in bacteria. Mol Syst Biol 2012 May 22;8:585. PMID: 22617959
  • Jurman G, Riccadonna S, Visintainer R, Furlanello C et al. Algebraic comparison of partial lists in bioinformatics. PLoS One 2012;7(5):e36540. PMID: 22615778
  • Heisig J, Weber D, Englberger E, Winkler A et al. Target gene analysis by microarrays and chromatin immunoprecipitation identifies HEY proteins as highly redundant bHLH repressors. PLoS Genet 2012;8(5):e1002728. PMID: 22615585
  • Mkrtchian S, Kåhlin J, Ebberyd A, Gonzalez C et al. The human carotid body transcriptome with focus on oxygen sensing and inflammation--a comparative analysis. J Physiol 2012 Aug 15;590(16):3807-19. PMID: 22615433
  • Meredith MM, Liu K, Darrasse-Jeze G, Kamphorst AO et al. Expression of the zinc finger transcription factor zDC (Zbtb46, Btbd4) defines the classical dendritic cell lineage. J Exp Med 2012 Jun 4;209(6):1153-65. PMID: 22615130
  • Meng Y, Shao C, Wang H, Jin Y et al. Target mimics: an embedded layer of microRNA-involved gene regulatory networks in plants. BMC Genomics 2012 May 21;13:197. PMID: 22613869
  • Selamat SA, Chung BS, Girard L, Zhang W et al. Genome-scale analysis of DNA methylation in lung adenocarcinoma and integration with mRNA expression. Genome Res 2012 Jul;22(7):1197-211. PMID: 22613842
  • Dubé E, Dufresne J, Chan PT, Cyr DG et al. Epidermal growth factor regulates connexin 43 in the human epididymis: role of gap junctions in azoospermia. Hum Reprod 2012 Aug;27(8):2285-96. PMID: 22611165
  • Labib S, Yauk C, Williams A, Arlt VM et al. Subchronic oral exposure to benzo(a)pyrene leads to distinct transcriptomic changes in the lungs that are related to carcinogenesis. Toxicol Sci 2012 Sep;129(1):213-24. PMID: 22610609
  • Tang A, Li N, Li X, Yang H et al. Dynamic activation of the key pathways: linking colitis to colorectal cancer in a mouse model. Carcinogenesis 2012 Jul;33(7):1375-83. PMID: 22610167
  • Groot Kormelink T, Koenders E, Hagemeijer Y, Overmars L et al. Comparative genome analysis of central nitrogen metabolism and its control by GlnR in the class Bacilli. BMC Genomics 2012 May 18;13:191. PMID: 22607086
  • Cutts RJ, Dayem Ullah AZ, Sangaralingam A, Gadaleta E et al. O-miner: an integrative platform for automated analysis and mining of -omics data. Nucleic Acids Res 2012 Jul;40(Web Server issue):W560-8. PMID: 22600742
  • El-Sayed Moustafa JS, Eleftherohorinou H, de Smith AJ, Andersson-Assarsson JC et al. Novel association approach for variable number tandem repeats (VNTRs) identifies DOCK5 as a susceptibility gene for severe obesity. Hum Mol Genet 2012 Aug 15;21(16):3727-38. PMID: 22595969
  • Bevilacqua V, Pannarale P, Abbrescia M, Cava C et al. Comparison of data-merging methods with SVM attribute selection and classification in breast cancer gene expression. BMC Bioinformatics 2012 May 8;13 Suppl 7(Suppl 7):S9. PMID: 22595006
  • Stropp T, McPhillips T, Ludäscher B, Bieda M et al. Workflows for microarray data processing in the Kepler environment. BMC Bioinformatics 2012 May 17;13:102. PMID: 22594911
  • Garcia CB, Shaffer CM, Eid JE et al. Genome-wide recruitment to Polycomb-modified chromatin and activity regulation of the synovial sarcoma oncogene SYT-SSX2. BMC Genomics 2012 May 17;13:189. PMID: 22594313
  • Fang R, Xiao T, Fang Z, Sun Y et al. MicroRNA-143 (miR-143) regulates cancer glycolysis via targeting hexokinase 2 gene. J Biol Chem 2012 Jun 29;287(27):23227-35. PMID: 22593586
  • Michel AM, Choudhury KR, Firth AE, Ingolia NT et al. Observation of dually decoded regions of the human genome using ribosome profiling data. Genome Res 2012 Nov;22(11):2219-29. PMID: 22593554
  • Gorlov IP, Byun J, Logothetis CJ et al. In silico functional profiling of individual prostate cancer tumors: many genes, few functions. Cancer Genomics Proteomics 2012 May-Jun;9(3):109-14. PMID: 22593245
  • Vendrell JA, Thollet A, Nguyen NT, Ghayad SE et al. ZNF217 is a marker of poor prognosis in breast cancer that drives epithelial-mesenchymal transition and invasion. Cancer Res 2012 Jul 15;72(14):3593-606. PMID: 22593193
  • Janouskova H, Maglott A, Leger DY, Bossert C et al. Integrin α5β1 plays a critical role in resistance to temozolomide by interfering with the p53 pathway in high-grade glioma. Cancer Res 2012 Jul 15;72(14):3463-70. PMID: 22593187
  • Fukuhara T, Kambara H, Shiokawa M, Ono C et al. Expression of microRNA miR-122 facilitates an efficient replication in nonhepatic cells upon infection with hepatitis C virus. J Virol 2012 Aug;86(15):7918-33. PMID: 22593164
  • Chen CH, Shiu LY, Su LJ, Huang CY et al. FLJ10540 is associated with tumor progression in nasopharyngeal carcinomas and contributes to nasopharyngeal cell proliferation, and metastasis via osteopontin/CD44 pathway. J Transl Med 2012 May 16;10:93. PMID: 22591637
  • Liu Y, Sun Y, Broaddus R, Liu J et al. Integrated analysis of gene expression and tumor nuclear image profiles associated with chemotherapy response in serous ovarian carcinoma. PLoS One 2012;7(5):e36383. PMID: 22590536
  • Dheilly NM, Lelong C, Huvet A, Kellner K et al. Gametogenesis in the Pacific oyster Crassostrea gigas: a microarrays-based analysis identifies sex and stage specific genes. PLoS One 2012;7(5):e36353. PMID: 22590533
  • Heyndrickx KS, Vandepoele K et al. Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol 2012 Jul;159(3):884-901. PMID: 22589469
  • Yen CC, Yeh CN, Cheng CT, Jung SM et al. Integrating bioinformatics and clinicopathological research of gastrointestinal stromal tumors: identification of aurora kinase A as a poor risk marker. Ann Surg Oncol 2012 Oct;19(11):3491-9. PMID: 22588468
  • Zhang X, Cheng W, Listgarten J, Kadie C et al. Learning transcriptional regulatory relationships using sparse graphical models. PLoS One 2012;7(5):e35762. PMID: 22586449
  • Smith SC, Baras AS, Owens CR, Dancik G et al. Transcriptional signatures of Ral GTPase are associated with aggressive clinicopathologic characteristics in human cancer. Cancer Res 2012 Jul 15;72(14):3480-91. PMID: 22586063
  • Benassi B, Flavin R, Marchionni L, Zanata S et al. MYC is activated by USP2a-mediated modulation of microRNAs in prostate cancer. Cancer Discov 2012 Mar;2(3):236-47. PMID: 22585994
  • Satya RV, Zavaljevski N, Reifman J et al. A new strategy to reduce allelic bias in RNA-Seq readmapping. Nucleic Acids Res 2012 Sep;40(16):e127. PMID: 22584625
  • de Matos Simoes R, Tripathi S, Emmert-Streib F et al. Organizational structure and the periphery of the gene regulatory network in B-cell lymphoma. BMC Syst Biol 2012 May 14;6:38. PMID: 22583750
  • Jjingo D, Conley AB, Yi SV, Lunyak VV et al. On the presence and role of human gene-body DNA methylation. Oncotarget 2012 Apr;3(4):462-74. PMID: 22577155
  • Ros S, Santos CR, Moco S, Baenke F et al. Functional metabolic screen identifies 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 as an important regulator of prostate cancer cell survival. Cancer Discov 2012 Apr;2(4):328-43. PMID: 22576210
  • Ragunath PK, Reddy BV, Abhinand PA, Ahmed SS et al. Relevance of systems biological approach in the differential diagnosis of invasive lobular carcinoma & invasive ductal carcinoma. Bioinformation 2012;8(8):359-64. PMID: 22570516
  • Bao J, Li D, Wang L, Wu J et al. MicroRNA-449 and microRNA-34b/c function redundantly in murine testes by targeting E2F transcription factor-retinoblastoma protein (E2F-pRb) pathway. J Biol Chem 2012 Jun 22;287(26):21686-98. PMID: 22570483
  • Harada A, Okada S, Konno D, Odawara J et al. Chd2 interacts with H3.3 to determine myogenic cell fate. EMBO J 2012 Jun 29;31(13):2994-3007. PMID: 22569126
  • Barvkar VT, Pardeshi VC, Kale SM, Kadoo NY et al. Phylogenomic analysis of UDP glycosyltransferase 1 multigene family in Linum usitatissimum identified genes with varied expression patterns. BMC Genomics 2012 May 8;13:175. PMID: 22568875
  • Milde T, Hielscher T, Witt H, Kool M et al. Nestin expression identifies ependymoma patients with poor outcome. Brain Pathol 2012 Nov;22(6):848-60. PMID: 22568867
  • Dreher F, Kreitler T, Hardt C, Kamburov A et al. DIPSBC--data integration platform for systems biology collaborations. BMC Bioinformatics 2012 May 8;13:85. PMID: 22568834
  • Xue W, Kitzing T, Roessler S, Zuber J et al. A cluster of cooperating tumor-suppressor gene candidates in chromosomal deletions. Proc Natl Acad Sci U S A 2012 May 22;109(21):8212-7. PMID: 22566646
  • Faunes F, Almonacid LI, Melo F, Larrain J et al. Characterization of small RNAs in X. tropicalis gastrulae. Genesis 2012 Jul;50(7):572-83. PMID: 22566284
  • Goldie SJ, Mulder KW, Tan DW, Lyons SK et al. FRMD4A upregulation in human squamous cell carcinoma promotes tumor growth and metastasis and is associated with poor prognosis. Cancer Res 2012 Jul 1;72(13):3424-36. PMID: 22564525
  • Jiang CR, Hung YC, Chen CM, Shieh GS et al. Inferring Genetic Interactions via a Data-Driven Second Order Model. Front Genet 2012;3:71. PMID: 22563331
  • Zacher B, Abnaof K, Gade S, Younesi E et al. Joint Bayesian inference of condition-specific miRNA and transcription factor activities from combined gene and microRNA expression data. Bioinformatics 2012 Jul 1;28(13):1714-20. PMID: 22563068
  • Rauchfuss F, Lambeck S, Claus RA, Ullmann J et al. Sustained liver regeneration after portal vein embolization --a human molecular pilot study. Dig Liver Dis 2012 Aug;44(8):681-8. PMID: 22561445
  • Ashida H, Asai K, Hamada M et al. Shape-based alignment of genomic landscapes in multi-scale resolution. Nucleic Acids Res 2012 Aug;40(14):6435-48. PMID: 22561376
  • Galili N, Tamayo P, Botvinnik OB, Mesirov JP et al. Prediction of response to therapy with ezatiostat in lower risk myelodysplastic syndrome. J Hematol Oncol 2012 May 6;5:20. PMID: 22559819
  • Bayjanov JR, Molenaar D, Tzeneva V, Siezen RJ et al. PhenoLink--a web-tool for linking phenotype to ~omics data for bacteria: application to gene-trait matching for Lactobacillus plantarum strains. BMC Genomics 2012 May 4;13:170. PMID: 22559291
  • Mannelqvist M, Stefansson IM, Wik E, Kusonmano K et al. Lipocalin 2 expression is associated with aggressive features of endometrial cancer. BMC Cancer 2012 May 6;12:169. PMID: 22559235
  • Liu L, Zhang Y, Feng J, Zheng N et al. GeSICA: genome segmentation from intra-chromosomal associations. BMC Genomics 2012 May 4;13:164. PMID: 22559164
  • Laukaitis CM, Mauss C, Karn RC et al. Congenic strain analysis reveals genes that are rapidly evolving components of a prezygotic isolation mechanism mediating incipient reinforcement. PLoS One 2012;7(4):e35898. PMID: 22558260
  • Ivliev AE, 't Hoen PA, van Roon-Mom WM, Peters DJ et al. Exploring the transcriptome of ciliated cells using in silico dissection of human tissues. PLoS One 2012;7(4):e35618. PMID: 22558177
  • Iancu OD, Kawane S, Bottomly D, Searles R et al. Utilizing RNA-Seq data for de novo coexpression network inference. Bioinformatics 2012 Jun 15;28(12):1592-7. PMID: 22556371
  • O'Donnell KA, Keng VW, York B, Reineke EL et al. A Sleeping Beauty mutagenesis screen reveals a tumor suppressor role for Ncoa2/Src-2 in liver cancer. Proc Natl Acad Sci U S A 2012 May 22;109(21):E1377-86. PMID: 22556267
  • Rombouts K, Mello T, Liotta F, Galli A et al. MARCKS actin-binding capacity mediates actin filament assembly during mitosis in human hepatic stellate cells. Am J Physiol Cell Physiol 2012 Aug 15;303(4):C357-67. PMID: 22555845
  • Bindels EM, Havermans M, Lugthart S, Erpelinck C et al. EVI1 is critical for the pathogenesis of a subset of MLL-AF9-rearranged AMLs. Blood 2012 Jun 14;119(24):5838-49. PMID: 22553314
  • Zeitouni S, Krause U, Clough BH, Halderman H et al. Human mesenchymal stem cell-derived matrices for enhanced osteoregeneration. Sci Transl Med 2012 May 2;4(132):132ra55. PMID: 22553253
  • Aurelius J, Thorén FB, Akhiani AA, Brune M et al. Monocytic AML cells inactivate antileukemic lymphocytes: role of NADPH oxidase/gp91(phox) expression and the PARP-1/PAR pathway of apoptosis. Blood 2012 Jun 14;119(24):5832-7. PMID: 22550344
  • Som A, Luštrek M, Singh NK, Fuellen G et al. Derivation of an interaction/regulation network describing pluripotency in human. Gene 2012 Jul 10;502(2):99-107. PMID: 22548825
  • Ré DA, Raud B, Chan RL, Baldwin IT et al. RNAi-mediated silencing of the HD-Zip gene HD20 in Nicotiana attenuata affects benzyl acetone emission from corollas via ABA levels and the expression of metabolic genes. BMC Plant Biol 2012 May 1;12:60. PMID: 22548747
  • Brevik A, Lindeman B, Brunborg G, Duale N et al. Paternal Benzo[a]pyrene Exposure Modulates MicroRNA Expression Patterns in the Developing Mouse Embryo. Int J Cell Biol 2012;2012:407431. PMID: 22548065
  • Watanabe T, Kobunai T, Yamamoto Y, Matsuda K et al. Chromosomal instability (CIN) phenotype, CIN high or CIN low, predicts survival for colorectal cancer. J Clin Oncol 2012 Jun 20;30(18):2256-64. PMID: 22547595
  • Schlitzer A, Heiseke AF, Einwächter H, Reindl W et al. Tissue-specific differentiation of a circulating CCR9- pDC-like common dendritic cell precursor. Blood 2012 Jun 21;119(25):6063-71. PMID: 22547585
  • Tarragona M, Pavlovic M, Arnal-Estapé A, Urosevic J et al. Identification of NOG as a specific breast cancer bone metastasis-supporting gene. J Biol Chem 2012 Jun 15;287(25):21346-55. PMID: 22547073
  • Chung EY, Psathas JN, Yu D, Li Y et al. CD19 is a major B cell receptor-independent activator of MYC-driven B-lymphomagenesis. J Clin Invest 2012 Jun;122(6):2257-66. PMID: 22546857
  • Adhikari BN, Savory EA, Vaillancourt B, Childs KL et al. Expression profiling of Cucumis sativus in response to infection by Pseudoperonospora cubensis. PLoS One 2012;7(4):e34954. PMID: 22545095
  • Patra T, Koley H, Ramamurthy T, Ghose AC et al. The Entner-Doudoroff pathway is obligatory for gluconate utilization and contributes to the pathogenicity of Vibrio cholerae. J Bacteriol 2012 Jul;194(13):3377-85. PMID: 22544275
  • Parker MH, von Maltzahn J, Bakkar N, Al-Joubori B et al. MyoD-dependent regulation of NF-κB activity couples cell-cycle withdrawal to myogenic differentiation. Skelet Muscle 2012 May 19;2(1):6. PMID: 22541644
  • Lin PP, Bai XJ, Yue ZX, Yan SF et al. [Suppression of NAMPT expression enhances the sensitivity of K562 cells to imatinib and its relative mechanism]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2012 Apr;20(2):235-41. PMID: 22541073
  • Zhao G, Ihuegbu N, Lee M, Schriefer L et al. Conserved Motifs and Prediction of Regulatory Modules in Caenorhabditis elegans. G3 (Bethesda) 2012 Apr;2(4):469-81. PMID: 22540038
  • Mérino D, Khaw SL, Glaser SP, Anderson DJ et al. Bcl-2, Bcl-x(L), and Bcl-w are not equivalent targets of ABT-737 and navitoclax (ABT-263) in lymphoid and leukemic cells. Blood 2012 Jun 14;119(24):5807-16. PMID: 22538851
  • Chen CY, Morris Q, Mitchell JA et al. Enhancer identification in mouse embryonic stem cells using integrative modeling of chromatin and genomic features. BMC Genomics 2012 Apr 26;13:152. PMID: 22537144
  • Sanavia T, Aiolli F, Da San Martino G, Bisognin A et al. Improving biomarker list stability by integration of biological knowledge in the learning process. BMC Bioinformatics 2012 Mar 28;13 Suppl 4(Suppl 4):S22. PMID: 22536969
  • Han Z, Tian L, Pécot T, Huang T et al. A signal processing approach for enriched region detection in RNA polymerase II ChIP-seq data. BMC Bioinformatics 2012 Mar 13;13 Suppl 2(Suppl 2):S2. PMID: 22536865
  • Dalman MR, Deeter A, Nimishakavi G, Duan ZH et al. Fold change and p-value cutoffs significantly alter microarray interpretations. BMC Bioinformatics 2012 Mar 13;13 Suppl 2(Suppl 2):S11. PMID: 22536862
  • Garmire LX, Subramaniam S et al. Evaluation of normalization methods in mammalian microRNA-Seq data. RNA 2012 Jun;18(6):1279-88. PMID: 22532701
  • Josset L, Belser JA, Pantin-Jackwood MJ, Chang JH et al. Implication of inflammatory macrophages, nuclear receptors, and interferon regulatory factors in increased virulence of pandemic 2009 H1N1 influenza A virus after host adaptation. J Virol 2012 Jul;86(13):7192-206. PMID: 22532695
  • Zhang L, Hou R, Su H, Hu X et al. Network analysis of oyster transcriptome revealed a cascade of cellular responses during recovery after heat shock. PLoS One 2012;7(4):e35484. PMID: 22530030
  • Zarychanski R, Schulz VP, Houston BL, Maksimova Y et al. Mutations in the mechanotransduction protein PIEZO1 are associated with hereditary xerocytosis. Blood 2012 Aug 30;120(9):1908-15. PMID: 22529292
  • Cuperlovic-Culf M, Ferguson D, Culf A, Morin P Jr et al. 1H NMR metabolomics analysis of glioblastoma subtypes: correlation between metabolomics and gene expression characteristics. J Biol Chem 2012 Jun 8;287(24):20164-75. PMID: 22528487
  • Parizot B, Roberts I, Raes J, Beeckman T et al. In silico analyses of pericycle cell populations reinforce their relation with associated vasculature in Arabidopsis. Philos Trans R Soc Lond B Biol Sci 2012 Jun 5;367(1595):1479-88. PMID: 22527390
  • Ammar I, Gogol-Döring A, Miskey C, Chen W et al. Retargeting transposon insertions by the adeno-associated virus Rep protein. Nucleic Acids Res 2012 Aug;40(14):6693-712. PMID: 22523082
  • Davidson L, Kerr A, West S et al. Co-transcriptional degradation of aberrant pre-mRNA by Xrn2. EMBO J 2012 May 30;31(11):2566-78. PMID: 22522706
  • Dukes F, Kanterakis S, Lee J, Pietrofesa R et al. Gene expression profiling of flaxseed in mouse lung tissues-modulation of toxicologically relevant genes. BMC Complement Altern Med 2012 Apr 20;12:47. PMID: 22520446
  • Li S, Pandey S, Gookin TE, Zhao Z et al. Gene-sharing networks reveal organizing principles of transcriptomes in Arabidopsis and other multicellular organisms. Plant Cell 2012 Apr;24(4):1362-78. PMID: 22517316
  • Hao H, Kim DS, Klocke B, Johnson KR et al. Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis. PLoS Genet 2012;8(4):e1002649. PMID: 22511886
  • Yu J, Valerius MT, Duah M, Staser K et al. Identification of molecular compartments and genetic circuitry in the developing mammalian kidney. Development 2012 May;139(10):1863-73. PMID: 22510988
  • Cheng Q, Chang JT, Geradts J, Neckers LM et al. Amplification and high-level expression of heat shock protein 90 marks aggressive phenotypes of human epidermal growth factor receptor 2 negative breast cancer. Breast Cancer Res 2012 Apr 17;14(2):R62. PMID: 22510516
  • Sathyanarayana P, Dev A, Pradeep A, Ufkin M et al. Spry1 as a novel regulator of erythropoiesis, EPO/EPOR target, and suppressor of JAK2. Blood 2012 Jun 7;119(23):5522-31. PMID: 22508938
  • Ignatiadis M, Singhal SK, Desmedt C, Haibe-Kains B et al. Gene modules and response to neoadjuvant chemotherapy in breast cancer subtypes: a pooled analysis. J Clin Oncol 2012 Jun 1;30(16):1996-2004. PMID: 22508827
  • He HH, Meyer CA, Chen MW, Jordan VC et al. Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics. Genome Res 2012 Jun;22(6):1015-25. PMID: 22508765
  • Albino D, Longoni N, Curti L, Mello-Grand M et al. ESE3/EHF controls epithelial cell differentiation and its loss leads to prostate tumors with mesenchymal and stem-like features. Cancer Res 2012 Jun 1;72(11):2889-900. PMID: 22505649
  • Chen FC, Liao BY, Pan CL, Lin HY et al. Assessing determinants of exonic evolutionary rates in mammals. Mol Biol Evol 2012 Oct;29(10):3121-9. PMID: 22504521
  • Kodama K, Horikoshi M, Toda K, Yamada S et al. Expression-based genome-wide association study links the receptor CD44 in adipose tissue with type 2 diabetes. Proc Natl Acad Sci U S A 2012 May 1;109(18):7049-54. PMID: 22499789
  • Baker A, Audit B, Chen CL, Moindrot B et al. Replication fork polarity gradients revealed by megabase-sized U-shaped replication timing domains in human cell lines. PLoS Comput Biol 2012;8(4):e1002443. PMID: 22496629
  • Leichtmann-Bardoogo Y, Cohen LA, Weiss A, Marohn B et al. Compartmentalization and regulation of iron metabolism proteins protect male germ cells from iron overload. Am J Physiol Endocrinol Metab 2012 Jun 15;302(12):E1519-30. PMID: 22496346
  • Kemper K, Versloot M, Cameron K, Colak S et al. Mutations in the Ras-Raf Axis underlie the prognostic value of CD133 in colorectal cancer. Clin Cancer Res 2012 Jun 1;18(11):3132-41. PMID: 22496204
  • Wang C, Tian R, Zhao Q, Xu H et al. Computational inference of mRNA stability from histone modification and transcriptome profiles. Nucleic Acids Res 2012 Aug;40(14):6414-23. PMID: 22495509
  • Ehlén Å, Rosselló CA, von Stedingk K, Höög G et al. Tumors with nonfunctional retinoblastoma protein are killed by reduced γ-tubulin levels. J Biol Chem 2012 May 18;287(21):17241-17247. PMID: 22493456
  • Zhou S, Yi T, Liu R, Bian C et al. Proteomics identification of annexin A2 as a key mediator in the metastasis and proangiogenesis of endometrial cells in human adenomyosis. Mol Cell Proteomics 2012 Jul;11(7):M112.017988. PMID: 22493182
  • Li Z, Ender C, Meister G, Moore PS et al. Extensive terminal and asymmetric processing of small RNAs from rRNAs, snoRNAs, snRNAs, and tRNAs. Nucleic Acids Res 2012 Aug;40(14):6787-99. PMID: 22492706
  • Ribeiro AF, Pratcorona M, Erpelinck-Verschueren C, Rockova V et al. Mutant DNMT3A: a marker of poor prognosis in acute myeloid leukemia. Blood 2012 Jun 14;119(24):5824-31. PMID: 22490330
  • Guttula SV, Allam A, Gumpeny RS et al. Analyzing microarray data of Alzheimer's using cluster analysis to identify the biomarker genes. Int J Alzheimers Dis 2012;2012:649456. PMID: 22482075
  • Suzuki S, Takai-Igarashi T, Fukuoka Y, Wall DP et al. Systems analysis of inflammatory bowel disease based on comprehensive gene information. BMC Med Genet 2012 Apr 5;13:25. PMID: 22480395
  • Swindell WR, Xing X, Stuart PE, Chen CS et al. Heterogeneity of inflammatory and cytokine networks in chronic plaque psoriasis. PLoS One 2012;7(3):e34594. PMID: 22479649
  • Bushel PR, McGovern R, Liu L, Hofmann O et al. Population differences in transcript-regulator expression quantitative trait loci. PLoS One 2012;7(3):e34286. PMID: 22479588
  • Qian W, Yang JR, Pearson NM, Maclean C et al. Balanced codon usage optimizes eukaryotic translational efficiency. PLoS Genet 2012;8(3):e1002603. PMID: 22479199
  • van Zanten M, Carles A, Li Y, Soppe WJ et al. Control and consequences of chromatin compaction during seed maturation in Arabidopsis thaliana. Plant Signal Behav 2012 Mar;7(3):338-41. PMID: 22476456
  • Tchagang AB, Phan S, Famili F, Shearer H et al. Mining biological information from 3D short time-series gene expression data: the OPTricluster algorithm. BMC Bioinformatics 2012 Apr 4;13:54. PMID: 22475802
  • Pu YS, Huang CY, Chen JY, Kang WY et al. Down-regulation of PKCζ in renal cell carcinoma and its clinicopathological implications. J Biomed Sci 2012 Apr 5;19(1):39. PMID: 22475628
  • Wilson TJ, Ge SX et al. ArraySearch: A Web-Based Genomic Search Engine. Comp Funct Genomics 2012;2012:650842. PMID: 22474412
  • Xiao Y, Decker PA, Rice T, McCoy LS et al. SSBP2 variants are associated with survival in glioblastoma patients. Clin Cancer Res 2012 Jun 1;18(11):3154-62. PMID: 22472174
  • Heering J, Weis N, Holeiter M, Neugart F et al. Loss of the ceramide transfer protein augments EGF receptor signaling in breast cancer. Cancer Res 2012 Jun 1;72(11):2855-66. PMID: 22472120
  • Hu Z, Gu Y, Han B, Zhang J et al. Knockdown of AGR2 induces cellular senescence in prostate cancer cells. Carcinogenesis 2012 Jun;33(6):1178-86. PMID: 22467239
  • Seo J, Kim SC, Lee HS, Kim JK et al. Genome-wide profiles of H2AX and γ-H2AX differentiate endogenous and exogenous DNA damage hotspots in human cells. Nucleic Acids Res 2012 Jul;40(13):5965-74. PMID: 22467212
  • Folkes L, Moxon S, Woolfenden HC, Stocks MB et al. PAREsnip: a tool for rapid genome-wide discovery of small RNA/target interactions evidenced through degradome sequencing. Nucleic Acids Res 2012 Jul;40(13):e103. PMID: 22467211
  • Statham AL, Robinson MD, Song JZ, Coolen MW et al. Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA. Genome Res 2012 Jun;22(6):1120-7. PMID: 22466171
  • Powell AE, Wang Y, Li Y, Poulin EJ et al. The pan-ErbB negative regulator Lrig1 is an intestinal stem cell marker that functions as a tumor suppressor. Cell 2012 Mar 30;149(1):146-58. PMID: 22464327
  • Barretina J, Caponigro G, Stransky N, Venkatesan K et al. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 2012 Mar 28;483(7391):603-7. PMID: 22460905
  • Liu JC, Voisin V, Bader GD, Deng T et al. Seventeen-gene signature from enriched Her2/Neu mammary tumor-initiating cells predicts clinical outcome for human HER2+:ERα- breast cancer. Proc Natl Acad Sci U S A 2012 Apr 10;109(15):5832-7. PMID: 22460789
  • Gundem G, Lopez-Bigas N et al. Sample-level enrichment analysis unravels shared stress phenotypes among multiple cancer types. Genome Med 2012 Mar 29;4(3):28. PMID: 22458606
  • Mao S, Garzon-Muvdi T, Di Fulvio M, Chen Y et al. Molecular and functional expression of cation-chloride cotransporters in dorsal root ganglion neurons during postnatal maturation. J Neurophysiol 2012 Aug 1;108(3):834-52. PMID: 22457464
  • Roux J, Gonzàlez-Porta M, Robinson-Rechavi M et al. Comparative analysis of human and mouse expression data illuminates tissue-specific evolutionary patterns of miRNAs. Nucleic Acids Res 2012 Jul;40(13):5890-900. PMID: 22457063
  • Reed J, Hsueh C, Lam ML, Kjolby R et al. Identifying individual DNA species in a complex mixture by precisely measuring the spacing between nicking restriction enzymes with atomic force microscope. J R Soc Interface 2012 Sep 7;9(74):2341-50. PMID: 22456455
  • Schmidt SF, Jørgensen M, Sandelin A, Mandrup S et al. Cross-species ChIP-seq studies provide insights into regulatory strategies of PPARγ in adipocytes. Transcription 2012 Jan-Feb;3(1):19-24. PMID: 22456316
  • Wang C, Han J, Liu C, Kibet KN et al. Identification of microRNAs from Amur grape (Vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics. BMC Genomics 2012 Mar 29;13:122. PMID: 22455456
  • Reddy S, Zhao M, Hu DQ, Fajardo G et al. Dynamic microRNA expression during the transition from right ventricular hypertrophy to failure. Physiol Genomics 2012 May 1;44(10):562-75. PMID: 22454450
  • Schroder K, Irvine KM, Taylor MS, Bokil NJ et al. Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages. Proc Natl Acad Sci U S A 2012 Apr 17;109(16):E944-53. PMID: 22451944
  • Willingham SB, Volkmer JP, Gentles AJ, Sahoo D et al. The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumors. Proc Natl Acad Sci U S A 2012 Apr 24;109(17):6662-7. PMID: 22451913
  • Hegde SR, Rajasingh H, Das C, Mande SS et al. Understanding communication signals during mycobacterial latency through predicted genome-wide protein interactions and boolean modeling. PLoS One 2012;7(3):e33893. PMID: 22448278
  • Schmid PR, Palmer NP, Kohane IS, Berger B et al. Making sense out of massive data by going beyond differential expression. Proc Natl Acad Sci U S A 2012 Apr 10;109(15):5594-9. PMID: 22447773
  • Foster J, Kim HU, Nakata PA, Browse J et al. A previously unknown oxalyl-CoA synthetase is important for oxalate catabolism in Arabidopsis. Plant Cell 2012 Mar;24(3):1217-29. PMID: 22447686
  • Gupta R, Ezashi T, Roberts RM et al. Squelching of ETS2 transactivation by POU5F1 silences the human chorionic gonadotropin CGA subunit gene in human choriocarcinoma and embryonic stem cells. Mol Endocrinol 2012 May;26(5):859-72. PMID: 22446105
  • Hewitt SC, Li L, Grimm SA, Chen Y et al. Research resource: whole-genome estrogen receptor α binding in mouse uterine tissue revealed by ChIP-seq. Mol Endocrinol 2012 May;26(5):887-98. PMID: 22446102
  • Huang CL, Lamb J, Chindelevitch L, Kostrowicki J et al. Correlation set analysis: detecting active regulators in disease populations using prior causal knowledge. BMC Bioinformatics 2012 Mar 23;13:46. PMID: 22443377
  • Lahti L, Schäfer M, Klein HU, Bicciato S et al. Cancer gene prioritization by integrative analysis of mRNA expression and DNA copy number data: a comparative review. Brief Bioinform 2013 Jan;14(1):27-35. PMID: 22441573
  • Fernández-Fueyo E, Ruiz-Dueñas FJ, Miki Y, Martínez MJ et al. Lignin-degrading peroxidases from genome of selective ligninolytic fungus Ceriporiopsis subvermispora. J Biol Chem 2012 May 11;287(20):16903-16. PMID: 22437835
  • Park C, Zhang J et al. High expression hampers horizontal gene transfer. Genome Biol Evol 2012;4(4):523-32. PMID: 22436996
  • Fernandez-Fueyo E, Ruiz-Dueñas FJ, Ferreira P, Floudas D et al. Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis. Proc Natl Acad Sci U S A 2012 Apr 3;109(14):5458-63. PMID: 22434909
  • Kubicek S, Gilbert JC, Fomina-Yadlin D, Gitlin AD et al. Chromatin-targeting small molecules cause class-specific transcriptional changes in pancreatic endocrine cells. Proc Natl Acad Sci U S A 2012 Apr 3;109(14):5364-9. PMID: 22434908
  • Rajeswaran R, Aregger M, Zvereva AS, Borah BK et al. Sequencing of RDR6-dependent double-stranded RNAs reveals novel features of plant siRNA biogenesis. Nucleic Acids Res 2012 Jul;40(13):6241-54. PMID: 22434877
  • Yoshida K, Yoshihara K, Adachi S, Haino K et al. Possible involvement of the E-cadherin gene in genetic susceptibility to endometriosis. Hum Reprod 2012 Jun;27(6):1685-9. PMID: 22434855
  • St-Pierre YGalectins in hematological malignancies. Am J Blood Res 2011;1(2):119-29. PMID: 22432074
  • Smith SB, Dampier W, Tozeren A, Brown JR et al. Identification of common biological pathways and drug targets across multiple respiratory viruses based on human host gene expression analysis. PLoS One 2012;7(3):e33174. PMID: 22432004
  • Lu J, Zhang C, Baulcombe DC, Chen ZJ et al. Maternal siRNAs as regulators of parental genome imbalance and gene expression in endosperm of Arabidopsis seeds. Proc Natl Acad Sci U S A 2012 Apr 3;109(14):5529-34. PMID: 22431617
  • Eckel-Mahan KL, Patel VR, Mohney RP, Vignola KS et al. Coordination of the transcriptome and metabolome by the circadian clock. Proc Natl Acad Sci U S A 2012 Apr 3;109(14):5541-6. PMID: 22431615
  • Zhang H, Li H, Ho N, Li D et al. Scd1 plays a tumor-suppressive role in survival of leukemia stem cells and the development of chronic myeloid leukemia. Mol Cell Biol 2012 May;32(10):1776-87. PMID: 22431519
  • Yoo SA, You S, Yoon HJ, Kim DH et al. A novel pathogenic role of the ER chaperone GRP78/BiP in rheumatoid arthritis. J Exp Med 2012 Apr 9;209(4):871-86. PMID: 22430489
  • Halim TY, Krauss RH, Sun AC, Takei F et al. Lung natural helper cells are a critical source of Th2 cell-type cytokines in protease allergen-induced airway inflammation. Immunity 2012 Mar 23;36(3):451-63. PMID: 22425247
  • Shao Z, Zhang Y, Yuan GC, Orkin SH et al. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol 2012 Mar 16;13(3):R16. PMID: 22424423
  • Luo S, Zhang Y, Hu Q, Chen J et al. Dynamic nucleotide-binding site and leucine-rich repeat-encoding genes in the grass family. Plant Physiol 2012 May;159(1):197-210. PMID: 22422941
  • Sun H, Guns T, Fierro AC, Thorrez L et al. Unveiling combinatorial regulation through the combination of ChIP information and in silico cis-regulatory module detection. Nucleic Acids Res 2012 Jul;40(12):e90. PMID: 22422841
  • Weng NP, Araki Y, Subedi K et al. The molecular basis of the memory T cell response: differential gene expression and its epigenetic regulation. Nat Rev Immunol 2012 Mar 16;12(4):306-15. PMID: 22421787
  • Jung I, Kim SK, Kim M, Han YM et al. H2B monoubiquitylation is a 5'-enriched active transcription mark and correlates with exon-intron structure in human cells. Genome Res 2012 Jun;22(6):1026-35. PMID: 22421545
  • Mann KM, Ward JM, Yew CC, Kovochich A et al. Sleeping Beauty mutagenesis reveals cooperating mutations and pathways in pancreatic adenocarcinoma. Proc Natl Acad Sci U S A 2012 Apr 17;109(16):5934-41. PMID: 22421440
  • Zhou C, Zhong Q, Rhodes LV, Townley I et al. Proteomic analysis of acquired tamoxifen resistance in MCF-7 cells reveals expression signatures associated with enhanced migration. Breast Cancer Res 2012 Mar 14;14(2):R45. PMID: 22417809
  • Pucciariello C, Parlanti S, Banti V, Novi G et al. Reactive oxygen species-driven transcription in Arabidopsis under oxygen deprivation. Plant Physiol 2012 May;159(1):184-96. PMID: 22415514
  • Krakstad C, Trovik J, Wik E, Engelsen IB et al. Loss of GPER identifies new targets for therapy among a subgroup of ERα-positive endometrial cancer patients with poor outcome. Br J Cancer 2012 May 8;106(10):1682-8. PMID: 22415229
  • Mahat DB, Brennan-Laun SE, Fialcowitz-White EJ, Kishor A et al. Coordinated expression of tristetraprolin post-transcriptionally attenuates mitogenic induction of the oncogenic Ser/Thr kinase Pim-1. PLoS One 2012;7(3):e33194. PMID: 22413002
  • Reynaud CA, Weill JC et al. Gene profiling of CD11b⁺ and CD11b⁻ B1 cell subsets reveals potential cell sorting artifacts. J Exp Med 2012 Mar 12;209(3):433-4. PMID: 22412175
  • Sergiev PV, Golovina AY, Sergeeva OV, Osterman IA et al. How much can we learn about the function of bacterial rRNA modification by mining large-scale experimental datasets? Nucleic Acids Res 2012 Jul;40(12):5694-705. PMID: 22411911
  • Wang Y, Roche O, Xu C, Moriyama EH et al. Hypoxia promotes ligand-independent EGF receptor signaling via hypoxia-inducible factor-mediated upregulation of caveolin-1. Proc Natl Acad Sci U S A 2012 Mar 27;109(13):4892-7. PMID: 22411794
  • Chang JTDeriving transcriptional programs and functional processes from gene expression databases. Bioinformatics 2012 Apr 15;28(8):1122-9. PMID: 22408194
  • Ritchie W, Gao D, Rasko JE et al. Defining and providing robust controls for microRNA prediction. Bioinformatics 2012 Apr 15;28(8):1058-61. PMID: 22408193
  • Wei C, Salichos L, Wittgrove CM, Rokas A et al. Transcriptome-wide analysis of small RNA expression in early zebrafish development. RNA 2012 May;18(5):915-29. PMID: 22408181
  • Dong C, Wu Y, Yao J, Wang Y et al. G9a interacts with Snail and is critical for Snail-mediated E-cadherin repression in human breast cancer. J Clin Invest 2012 Apr;122(4):1469-86. PMID: 22406531
  • Schroeder BW, Verhaeghe C, Park SW, Nguyenvu LT et al. AGR2 is induced in asthma and promotes allergen-induced mucin overproduction. Am J Respir Cell Mol Biol 2012 Aug;47(2):178-85. PMID: 22403803
  • Zhou F, Ma Q, Li G, Xu Y et al. QServer: a biclustering server for prediction and assessment of co-expressed gene clusters. PLoS One 2012;7(3):e32660. PMID: 22403692
  • Fieuw A, De Wilde B, Speleman F, Vandesompele J et al. Cancer gene prioritization for targeted resequencing using FitSNP scores. PLoS One 2012;7(3):e31333. PMID: 22396732
  • Ren K, Lu J, Porollo A, Du C et al. Tumor-suppressing function of caspase-2 requires catalytic site Cys-320 and site Ser-139 in mice. J Biol Chem 2012 Apr 27;287(18):14792-802. PMID: 22396545
  • Ji Y, Sun S, Xu A, Bhargava P et al. Activation of natural killer T cells promotes M2 Macrophage polarization in adipose tissue and improves systemic glucose tolerance via interleukin-4 (IL-4)/STAT6 protein signaling axis in obesity. J Biol Chem 2012 Apr 20;287(17):13561-71. PMID: 22396530
  • Azab AK, Hu J, Quang P, Azab F et al. Hypoxia promotes dissemination of multiple myeloma through acquisition of epithelial to mesenchymal transition-like features. Blood 2012 Jun 14;119(24):5782-94. PMID: 22394600
  • Kapetanovic R, Fairbairn L, Beraldi D, Sester DP et al. Pig bone marrow-derived macrophages resemble human macrophages in their response to bacterial lipopolysaccharide. J Immunol 2012 Apr 1;188(7):3382-94. PMID: 22393154
  • Easwaran H, Johnstone SE, Van Neste L, Ohm J et al. A DNA hypermethylation module for the stem/progenitor cell signature of cancer. Genome Res 2012 May;22(5):837-49. PMID: 22391556
  • Vasconcelos EJ, Terrão MC, Ruiz JC, Vêncio RZ et al. In silico identification of conserved intercoding sequences in Leishmania genomes: unraveling putative cis-regulatory elements. Mol Biochem Parasitol 2012 Jun;183(2):140-50. PMID: 22387760
  • Paulsson JM, Moshfegh A, Dadfar E, Held C et al. In-vivo extravasation induces the expression of interleukin 1 receptor type 1 in human neutrophils. Clin Exp Immunol 2012 Apr;168(1):105-12. PMID: 22385245
  • Taşan M, Drabkin HJ, Beaver JE, Chua HN et al. A Resource of Quantitative Functional Annotation for Homo sapiens Genes. G3 (Bethesda) 2012 Feb;2(2):223-33. PMID: 22384401
  • Lee JS, Kim YK, Kim HJ, Hajar S et al. Identification of cancer cell-line origins using fluorescence image-based phenomic screening. PLoS One 2012;7(2):e32096. PMID: 22384151
  • Orloff MS, Zhang L, Bebek G, Eng C et al. Integrative genomic analysis reveals extended germline homozygosity with lung cancer risk in the PLCO cohort. PLoS One 2012;7(2):e31975. PMID: 22384118
  • Li C, Yu S, Zhong X, Wu J et al. Circadian rhythms of fetal liver transcription persist in the absence of canonical circadian clock gene expression rhythms in vivo. PLoS One 2012;7(2):e30781. PMID: 22383974
  • Wiebke-Strohm B, Pasquali G, Margis-Pinheiro M, Bencke M et al. Ubiquitous urease affects soybean susceptibility to fungi. Plant Mol Biol 2012 May;79(1-2):75-87. PMID: 22382992
  • Buss MC, Read TA, Schniederjan MJ, Gandhi K et al. HDM2 promotes WIP1-mediated medulloblastoma growth. Neuro Oncol 2012 Apr;14(4):440-58. PMID: 22379189
  • Cieply B, Riley P 4th, Pifer PM, Widmeyer J et al. Suppression of the epithelial-mesenchymal transition by Grainyhead-like-2. Cancer Res 2012 May 1;72(9):2440-53. PMID: 22379025
  • Worzfeld T, Swiercz JM, Looso M, Straub BK et al. ErbB-2 signals through Plexin-B1 to promote breast cancer metastasis. J Clin Invest 2012 Apr;122(4):1296-305. PMID: 22378040
  • Sin HS, Ichijima Y, Koh E, Namiki M et al. Human postmeiotic sex chromatin and its impact on sex chromosome evolution. Genome Res 2012 May;22(5):827-36. PMID: 22375025
  • Bien SJ, Park CH, Shim HJ, Yang W et al. Bi-directional semantic similarity for gene ontology to optimize biological and clinical analyses. J Am Med Inform Assoc 2012 Sep-Oct;19(5):765-74. PMID: 22374934
  • Deffenbacher KE, Iqbal J, Sanger W, Shen Y et al. Molecular distinctions between pediatric and adult mature B-cell non-Hodgkin lymphomas identified through genomic profiling. Blood 2012 Apr 19;119(16):3757-66. PMID: 22374697
  • Sy MF, Ranwez S, Montmain J, Regnault A et al. User centered and ontology based information retrieval system for life sciences. BMC Bioinformatics 2012 Jan 25;13 Suppl 1(Suppl 1):S4. PMID: 22373375
  • Kinjo AR, Kumagai Y, Dinh H, Takeuchi O et al. Functional characterization of protein domains common to animal viruses and mouse. BMC Genomics 2011 Nov 30;12 Suppl 3(Suppl 3):S21. PMID: 22369715
  • Joshi T, Patil K, Fitzpatrick MR, Franklin LD et al. Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics. BMC Genomics 2012;13 Suppl 1(Suppl 1):S15. PMID: 22369646
  • Batagov AO, Kuznetsov VA, Kurochkin IV et al. Identification of nucleotide patterns enriched in secreted RNAs as putative cis-acting elements targeting them to exosome nano-vesicles. BMC Genomics 2011 Nov 30;12 Suppl 3(Suppl 3):S18. PMID: 22369587
  • Toh SH, Prathipati P, Motakis E, Kwoh CK et al. A robust tool for discriminative analysis and feature selection in paired samples impacts the identification of the genes essential for reprogramming lung tissue to adenocarcinoma. BMC Genomics 2011 Nov 30;12 Suppl 3(Suppl 3):S24. PMID: 22369099
  • Chen Z, Liu Q, Nadarajah S et al. A new statistical approach to detecting differentially methylated loci for case control Illumina array methylation data. Bioinformatics 2012 Apr 15;28(8):1109-13. PMID: 22368244
  • Zheng X, Dumitru R, Lackford BL, Freudenberg JM et al. Cnot1, Cnot2, and Cnot3 maintain mouse and human ESC identity and inhibit extraembryonic differentiation. Stem Cells 2012 May;30(5):910-22. PMID: 22367759
  • Warmoes M, Jaspers JE, Pham TV, Piersma SR et al. Proteomics of mouse BRCA1-deficient mammary tumors identifies DNA repair proteins with potential diagnostic and prognostic value in human breast cancer. Mol Cell Proteomics 2012 Jul;11(7):M111.013334. PMID: 22366898
  • Yuen HF, McCrudden CM, Grills C, Zhang SD et al. Combinatorial use of bone morphogenetic protein 6, noggin and SOST significantly predicts cancer progression. Cancer Sci 2012 Jun;103(6):1145-54. PMID: 22364398
  • O'Mahony FC, Faratian D, Varley J, Nanda J et al. The use of automated quantitative analysis to evaluate epithelial-to-mesenchymal transition associated proteins in clear cell renal cell carcinoma. PLoS One 2012;7(2):e31557. PMID: 22363672
  • Sircar K, Huang H, Hu L, Liu Y et al. Mitosis phase enrichment with identification of mitotic centromere-associated kinesin as a therapeutic target in castration-resistant prostate cancer. PLoS One 2012;7(2):e31259. PMID: 22363599
  • Xue LJ, Zhang JJ, Xue HW et al. Genome-wide analysis of the complex transcriptional networks of rice developing seeds. PLoS One 2012;7(2):e31081. PMID: 22363552
  • Gao X, Zhu Y, Li G, Huang H et al. TIM-3 expression characterizes regulatory T cells in tumor tissues and is associated with lung cancer progression. PLoS One 2012;7(2):e30676. PMID: 22363469
  • Houtman MJ, Takanari H, Kok BG, van Eck M et al. Experimental Mapping of the Canine KCNJ2 and KCNJ12 Gene Structures and Functional Analysis of the Canine K(IR)2.2 ion Channel. Front Physiol 2012;3:9. PMID: 22363290
  • Rivera-Gonzalez GC, Droop AP, Rippon HJ, Tiemann K et al. Retinoic acid and androgen receptors combine to achieve tissue specific control of human prostatic transglutaminase expression: a novel regulatory network with broader significance. Nucleic Acids Res 2012 Jun;40(11):4825-40. PMID: 22362749
  • He J, Cui L, Zeng Y, Wang G et al. REGγ is associated with multiple oncogenic pathways in human cancers. BMC Cancer 2012 Feb 23;12:75. PMID: 22361172
  • Laczny C, Leidinger P, Haas J, Ludwig N et al. miRTrail--a comprehensive webserver for analyzing gene and miRNA patterns to enhance the understanding of regulatory mechanisms in diseases. BMC Bioinformatics 2012 Feb 22;13:36. PMID: 22356618
  • Sati S, Tanwar VS, Kumar KA, Patowary A et al. High resolution methylome map of rat indicates role of intragenic DNA methylation in identification of coding region. PLoS One 2012;7(2):e31621. PMID: 22355382
  • Hancock T, Wicker N, Takigawa I, Mamitsuka H et al. Identifying neighborhoods of coordinated gene expression and metabolite profiles. PLoS One 2012;7(2):e31345. PMID: 22355360
  • Altwasser R, Linde J, Buyko E, Hahn U et al. Genome-Wide Scale-Free Network Inference for Candida albicans. Front Microbiol 2012;3:51. PMID: 22355294
  • Zhang H, Guo F, Zhu G et al. Involvement of host cell integrin α2 in Cryptosporidium parvum infection. Infect Immun 2012 May;80(5):1753-8. PMID: 22354032
  • Fijneman RJ, de Wit M, Pourghiasian M, Piersma SR et al. Proximal fluid proteome profiling of mouse colon tumors reveals biomarkers for early diagnosis of human colorectal cancer. Clin Cancer Res 2012 May 1;18(9):2613-24. PMID: 22351690
  • Kuo TY, Hsi E, Yang IP, Tsai PC et al. Computational analysis of mRNA expression profiles identifies microRNA-29a/c as predictor of colorectal cancer early recurrence. PLoS One 2012;7(2):e31587. PMID: 22348113
  • Zhang W, Edwards A, Zhu D, Flemington EK et al. miRNA-mediated relationships between Cis-SNP genotypes and transcript intensities in lymphocyte cell lines. PLoS One 2012;7(2):e31429. PMID: 22348086
  • Meng Y, Shao C et al. Large-scale identification of mirtrons in Arabidopsis and rice. PLoS One 2012;7(2):e31163. PMID: 22348048
  • Fang Z, Du R, Cui X et al. Uniform approximation is more appropriate for Wilcoxon Rank-Sum Test in gene set analysis. PLoS One 2012;7(2):e31505. PMID: 22347488
  • Lembo A, Di Cunto F, Provero P et al. Shortening of 3'UTRs correlates with poor prognosis in breast and lung cancer. PLoS One 2012;7(2):e31129. PMID: 22347440
  • Sohur US, Arlotta P, Macklis JD et al. Developmental Controls are Re-Expressed during Induction of Neurogenesis in the Neocortex of Young Adult Mice. Front Neurosci 2012;6:12. PMID: 22347158
  • Zhuang J, Jones A, Lee SH, Ng E et al. The dynamics and prognostic potential of DNA methylation changes at stem cell gene loci in women's cancer. PLoS Genet 2012 Feb;8(2):e1002517. PMID: 22346766
  • Shigemizu D, Hu Z, Hung JH, Huang CL et al. Using functional signatures to identify repositioned drugs for breast, myelogenous leukemia and prostate cancer. PLoS Comput Biol 2012 Feb;8(2):e1002347. PMID: 22346740
  • Gennarino VA, D'Angelo G, Dharmalingam G, Fernandez S et al. Identification of microRNA-regulated gene networks by expression analysis of target genes. Genome Res 2012 Jun;22(6):1163-72. PMID: 22345618
  • Wu Q, Wang Y, Cao M, Pantaleo V et al. Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm. Proc Natl Acad Sci U S A 2012 Mar 6;109(10):3938-43. PMID: 22345560
  • Taslim C, Chen Z, Huang K, Huang TH et al. Integrated analysis identifies a class of androgen-responsive genes regulated by short combinatorial long-range mechanism facilitated by CTCF. Nucleic Acids Res 2012 Jun;40(11):4754-64. PMID: 22344698
  • Bergholdt R, Brorsson C, Palleja A, Berchtold LA et al. Identification of novel type 1 diabetes candidate genes by integrating genome-wide association data, protein-protein interactions, and human pancreatic islet gene expression. Diabetes 2012 Apr;61(4):954-62. PMID: 22344559
  • Reid JF, Sokolova V, Zoni E, Lampis A et al. miRNA profiling in colorectal cancer highlights miR-1 involvement in MET-dependent proliferation. Mol Cancer Res 2012 Apr;10(4):504-15. PMID: 22343615
  • Hodge JC, Kim TM, Dreyfuss JM, Somasundaram P et al. Expression profiling of uterine leiomyomata cytogenetic subgroups reveals distinct signatures in matched myometrium: transcriptional profilingof the t(12;14) and evidence in support of predisposing genetic heterogeneity. Hum Mol Genet 2012 May 15;21(10):2312-29. PMID: 22343407
  • Singh A, Sweeney MF, Yu M, Burger A et al. TAK1 inhibition promotes apoptosis in KRAS-dependent colon cancers. Cell 2012 Feb 17;148(4):639-50. PMID: 22341439
  • Marco A, Hooks K, Griffiths-Jones S et al. Evolution and function of the extended miR-2 microRNA family. RNA Biol 2012 Mar;9(3):242-8. PMID: 22336713
  • Ungvári I, Hadadi E, Virág V, Bikov A et al. Implication of BIRC5 in asthma pathogenesis. Int Immunol 2012 May;24(5):293-301. PMID: 22336533
  • Zhang T, Berrocal JG, Yao J, DuMond ME et al. Regulation of poly(ADP-ribose) polymerase-1-dependent gene expression through promoter-directed recruitment of a nuclear NAD+ synthase. J Biol Chem 2012 Apr 6;287(15):12405-16. PMID: 22334709
  • Onozawa M, Aplan PD et al. Illegitimate V(D)J recombination involving nonantigen receptor loci in lymphoid malignancy. Genes Chromosomes Cancer 2012 Jun;51(6):525-35. PMID: 22334400
  • Kawaguchi S, Iida K, Harada E, Hanada K et al. Positional correlation analysis improves reconstruction of full-length transcripts and alternative isoforms from noisy array signals or short reads. Bioinformatics 2012 Apr 1;28(7):929-37. PMID: 22332235
  • Hasegawa N, Sumitomo A, Fujita A, Aritome N et al. Mediator subunits MED1 and MED24 cooperatively contribute to pubertal mammary gland development and growth of breast carcinoma cells. Mol Cell Biol 2012 Apr;32(8):1483-95. PMID: 22331469
  • Yang D, Zhong F, Li D, Liu Z et al. General trends in the utilization of structural factors contributing to biological complexity. Mol Biol Evol 2012 Aug;29(8):1957-68. PMID: 22328715
  • Lockwood WW, Thu KL, Lin L, Pikor LA et al. Integrative genomics identified RFC3 as an amplified candidate oncogene in esophageal adenocarcinoma. Clin Cancer Res 2012 Apr 1;18(7):1936-46. PMID: 22328562
  • Garcia I, Mayol G, Ríos J, Domenech G et al. A three-gene expression signature model for risk stratification of patients with neuroblastoma. Clin Cancer Res 2012 Apr 1;18(7):2012-23. PMID: 22328561
  • Ben-David U, Benvenisty N et al. High prevalence of evolutionarily conserved and species-specific genomic aberrations in mouse pluripotent stem cells. Stem Cells 2012 Apr;30(4):612-22. PMID: 22328490
  • Postel-Vinay S, Véron AS, Tirode F, Pierron G et al. Common variants near TARDBP and EGR2 are associated with susceptibility to Ewing sarcoma. Nat Genet 2012 Feb 12;44(3):323-7. PMID: 22327514
  • Saito T, Sætrom P et al. Target gene expression levels and competition between transfected and endogenous microRNAs are strong confounding factors in microRNA high-throughput experiments. Silence 2012 Feb 10;3:3. PMID: 22325809
  • Wani K, Armstrong TS, Vera-Bolanos E, Raghunathan A et al. A prognostic gene expression signature in infratentorial ependymoma. Acta Neuropathol 2012 May;123(5):727-38. PMID: 22322993
  • Xiao Y, Hsiao TH, Suresh U, Chen HI et al. A novel significance score for gene selection and ranking. Bioinformatics 2014 Mar 15;30(6):801-7. PMID: 22321699
  • Kotelnikova E, Shkrob MA, Pyatnitskiy MA, Ferlini A et al. Novel approach to meta-analysis of microarray datasets reveals muscle remodeling-related drug targets and biomarkers in Duchenne muscular dystrophy. PLoS Comput Biol 2012 Feb;8(2):e1002365. PMID: 22319435
  • Morgan AA, Pyrgos VJ, Nadeau KC, Williamson PR et al. Multiplex meta-analysis of RNA expression to identify genes with variants associated with immune dysfunction. J Am Med Inform Assoc 2012 Mar-Apr;19(2):284-8. PMID: 22319178
  • Volinia S, Galasso M, Sana ME, Wise TF et al. Breast cancer signatures for invasiveness and prognosis defined by deep sequencing of microRNA. Proc Natl Acad Sci U S A 2012 Feb 21;109(8):3024-9. PMID: 22315424
  • Andersen RS, Thrue CA, Junker N, Lyngaa R et al. Dissection of T-cell antigen specificity in human melanoma. Cancer Res 2012 Apr 1;72(7):1642-50. PMID: 22311675
  • Schwartz RE, Trehan K, Andrus L, Sheahan TP et al. Modeling hepatitis C virus infection using human induced pluripotent stem cells. Proc Natl Acad Sci U S A 2012 Feb 14;109(7):2544-8. PMID: 22308485
  • Volkmer JP, Sahoo D, Chin RK, Ho PL et al. Three differentiation states risk-stratify bladder cancer into distinct subtypes. Proc Natl Acad Sci U S A 2012 Feb 7;109(6):2078-83. PMID: 22308455
  • Bard-Chapeau EA, Jeyakani J, Kok CH, Muller J et al. Ecotopic viral integration site 1 (EVI1) regulates multiple cellular processes important for cancer and is a synergistic partner for FOS protein in invasive tumors. Proc Natl Acad Sci U S A 2012 Feb 7;109(6):2168-73. PMID: 22308434
  • Martínez MR, Corradin A, Klein U, Álvarez MJ et al. Quantitative modeling of the terminal differentiation of B cells and mechanisms of lymphomagenesis. Proc Natl Acad Sci U S A 2012 Feb 14;109(7):2672-7. PMID: 22308355
  • Van Hemert JL, Dickerson JA et al. Discriminating response groups in metabolic and regulatory pathway networks. Bioinformatics 2012 Apr 1;28(7):947-54. PMID: 22308149
  • Houbraken J, Frisvad JC, Samson RA et al. Taxonomy of Penicillium section Citrina. Stud Mycol 2011 Nov 15;70(1):53-138. PMID: 22308046
  • Gerson KD, Shearstone JR, Maddula VSRK, Seligmann BE et al. Integrin β4 regulates SPARC protein to promote invasion. J Biol Chem 2012 Mar 23;287(13):9835-9844. PMID: 22308039
  • Liu BY, Soloviev I, Huang X, Chang P et al. Mammary tumor regression elicited by Wnt signaling inhibitor requires IGFBP5. Cancer Res 2012 Mar 15;72(6):1568-78. PMID: 22307840
  • Cao X, Voss C, Zhao B, Kaneko T et al. Differential regulation of the activity of deleted in liver cancer 1 (DLC1) by tensins controls cell migration and transformation. Proc Natl Acad Sci U S A 2012 Jan 31;109(5):1455-60. PMID: 22307599
  • Rose D, Stadler PF et al. Molecular evolution of the non-coding eosinophil granule ontogeny transcript. Front Genet 2011;2:69. PMID: 22303364
  • Lu Y, Last RL et al. Web-based Arabidopsis functional and structural genomics resources. Arabidopsis Book 2008;6:e0118. PMID: 22303243
  • Alisch RS, Barwick BG, Chopra P, Myrick LK et al. Age-associated DNA methylation in pediatric populations. Genome Res 2012 Apr;22(4):623-32. PMID: 22300631
  • Frost HR, McCray AT et al. Markov Chain Ontology Analysis (MCOA). BMC Bioinformatics 2012 Feb 3;13:23. PMID: 22300537
  • Busser BW, Shokri L, Jaeger SA, Gisselbrecht SS et al. Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity. Development 2012 Mar;139(6):1164-74. PMID: 22296846
  • Yeung KY, Gooley TA, Zhang A, Raftery AE et al. Predicting relapse prior to transplantation in chronic myeloid leukemia by integrating expert knowledge and expression data. Bioinformatics 2012 Mar 15;28(6):823-30. PMID: 22296787
  • Yamakawa N, Kaneda K, Saito Y, Ichihara E et al. The increased expression of integrin α6 (ITGA6) enhances drug resistance in EVI1(high) leukemia. PLoS One 2012;7(1):e30706. PMID: 22295105
  • Ulrich DL, Lynch J, Wang Y, Fukuda Y et al. ATP-dependent mitochondrial porphyrin importer ABCB6 protects against phenylhydrazine toxicity. J Biol Chem 2012 Apr 13;287(16):12679-90. PMID: 22294697
  • Jiang QT, Liu T, Ma J, Wei YM et al. Characterization of barley Prp1 gene and its expression during seed development and under abiotic stress. Genetica 2011 Oct;139(10):1283-92. PMID: 22290495
  • Xie F, Xiao P, Chen D, Xu L et al. miRDeepFinder: a miRNA analysis tool for deep sequencing of plant small RNAs. Plant Mol Biol 2012 Jan 31 PMID: 22290409
  • Li Y, Zhang Z, Liu F, Vongsangnak W et al. Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis. Nucleic Acids Res 2012 May;40(10):4298-305. PMID: 22287634
  • McCarthy DJ, Chen Y, Smyth GK et al. Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation. Nucleic Acids Res 2012 May;40(10):4288-97. PMID: 22287627
  • Becker MA, Hou X, Harrington SC, Weroha SJ et al. IGFBP ratio confers resistance to IGF targeting and correlates with increased invasion and poor outcome in breast tumors. Clin Cancer Res 2012 Mar 15;18(6):1808-17. PMID: 22287600
  • Webb TR, Matarin M, Gardner JC, Kelberman D et al. X-linked megalocornea caused by mutations in CHRDL1 identifies an essential role for ventroptin in anterior segment development. Am J Hum Genet 2012 Feb 10;90(2):247-59. PMID: 22284829
  • Carvalho B, Sillars-Hardebol AH, Postma C, Mongera S et al. Colorectal adenoma to carcinoma progression is accompanied by changes in gene expression associated with ageing, chromosomal instability, and fatty acid metabolism. Cell Oncol (Dordr) 2012 Feb;35(1):53-63. PMID: 22278361
  • Gyorffy B, Lánczky A, Szállási Z et al. Implementing an online tool for genome-wide validation of survival-associated biomarkers in ovarian-cancer using microarray data from 1287 patients. Endocr Relat Cancer 2012 Apr;19(2):197-208. PMID: 22277193
  • Krishnappa RMolecular expression profiling with respect to KEGG hsa05219 pathway. Ecancermedicalscience 2011;5:189. PMID: 22276047
  • Bainbridge SA, Minhas A, Whiteley KJ, Qu D et al. Effects of reduced Gcm1 expression on trophoblast morphology, fetoplacental vascularity, and pregnancy outcomes in mice. Hypertension 2012 Mar;59(3):732-9. PMID: 22275534
  • Ashida S, Orloff MS, Bebek G, Zhang L et al. Integrated analysis reveals critical genomic regions in prostate tumor microenvironment associated with clinicopathologic phenotypes. Clin Cancer Res 2012 Mar 15;18(6):1578-87. PMID: 22275508
  • Zhang H, Li H, Xi HS, Li S et al. HIF1α is required for survival maintenance of chronic myeloid leukemia stem cells. Blood 2012 Mar 15;119(11):2595-607. PMID: 22275380
  • Wei Z, Peterson JM, Lei X, Cebotaru L et al. C1q/TNF-related protein-12 (CTRP12), a novel adipokine that improves insulin sensitivity and glycemic control in mouse models of obesity and diabetes. J Biol Chem 2012 Mar 23;287(13):10301-10315. PMID: 22275362
  • Lynch TP, Ferrer CM, Jackson SR, Shahriari KS et al. Critical role of O-Linked β-N-acetylglucosamine transferase in prostate cancer invasion, angiogenesis, and metastasis. J Biol Chem 2012 Mar 30;287(14):11070-81. PMID: 22275356
  • Dhahbi JM, Atamna H, Boffelli D, Martin DI et al. mRNA-Seq reveals complex patterns of gene regulation and expression in the mouse skeletal muscle transcriptome associated with calorie restriction. Physiol Genomics 2012 Mar 19;44(6):331-44. PMID: 22274562
  • Montano-Almendras CP, Essaghir A, Schoemans H, Varis I et al. ETV6-PDGFRB and FIP1L1-PDGFRA stimulate human hematopoietic progenitor cell proliferation and differentiation into eosinophils: the role of nuclear factor-κB. Haematologica 2012 Jul;97(7):1064-72. PMID: 22271894
  • Li S, Yang X, Wu F, He Y et al. HYL1 controls the miR156-mediated juvenile phase of vegetative growth. J Exp Bot 2012 Apr;63(7):2787-98. PMID: 22268150
  • West NR, Murphy LC, Watson PH et al. Oncostatin M suppresses oestrogen receptor-α expression and is associated with poor outcome in human breast cancer. Endocr Relat Cancer 2012 Apr;19(2):181-95. PMID: 22267707
  • Jiang Z, Jhunjhunwala S, Liu J, Haverty PM et al. The effects of hepatitis B virus integration into the genomes of hepatocellular carcinoma patients. Genome Res 2012 Apr;22(4):593-601. PMID: 22267523
  • Gudmundsson J, Sulem P, Gudbjartsson DF, Jonasson JG et al. Discovery of common variants associated with low TSH levels and thyroid cancer risk. Nat Genet 2012 Jan 22;44(3):319-22. PMID: 22267200
  • Nobile CJ, Fox EP, Nett JE, Sorrells TR et al. A recently evolved transcriptional network controls biofilm development in Candida albicans. Cell 2012 Jan 20;148(1-2):126-38. PMID: 22265407
  • Quante M, Bhagat G, Abrams JA, Marache F et al. Bile acid and inflammation activate gastric cardia stem cells in a mouse model of Barrett-like metaplasia. Cancer Cell 2012 Jan 17;21(1):36-51. PMID: 22264787
  • Haibe-Kains B, Desmedt C, Loi S, Culhane AC et al. A three-gene model to robustly identify breast cancer molecular subtypes. J Natl Cancer Inst 2012 Feb 22;104(4):311-25. PMID: 22262870
  • Tseng GC, Ghosh D, Feingold E et al. Comprehensive literature review and statistical considerations for microarray meta-analysis. Nucleic Acids Res 2012 May;40(9):3785-99. PMID: 22262733
  • Robinson JF, Verhoef A, Piersma AH et al. Transcriptomic analysis of neurulation and early organogenesis in rat embryos: an in vivo and ex vivo comparison. Toxicol Sci 2012 Mar;126(1):255-66. PMID: 22262562
  • Lee JS, Ward WO, Knapp G, Ren H et al. Transcriptional ontogeny of the developing liver. BMC Genomics 2012 Jan 19;13:33. PMID: 22260730
  • Baitaluk M, Kozhenkov S, Dubinina Y, Ponomarenko J et al. IntegromeDB: an integrated system and biological search engine. BMC Genomics 2012 Jan 19;13:35. PMID: 22260095
  • Holzinger ER, Ritchie MD et al. Integrating heterogeneous high-throughput data for meta-dimensional pharmacogenomics and disease-related studies. Pharmacogenomics 2012 Jan;13(2):213-22. PMID: 22256870
  • Wu PY, Phan JH, Wang MD et al. Exploring the feasibility of next-generation sequencing and microarray data meta-analysis. Annu Int Conf IEEE Eng Med Biol Soc 2011;2011:7618-21. PMID: 22256102
  • Chang HH, McGeachie M et al. Phenotype prediction by integrative network analysis of SNP and gene expression microarrays. Annu Int Conf IEEE Eng Med Biol Soc 2011;2011:6849-52. PMID: 22255912
  • Lauterbach EC, Fontenelle LF, Teixeira AL et al. The neuroprotective disease-modifying potential of psychotropics in Parkinson's disease. Parkinsons Dis 2012;2012:753548. PMID: 22254151
  • Choi W, Shah JB, Tran M, Svatek R et al. p63 expression defines a lethal subset of muscle-invasive bladder cancers. PLoS One 2012;7(1):e30206. PMID: 22253920
  • Seifert M, Gohr A, Strickert M, Grosse I et al. Parsimonious higher-order hidden Markov models for improved array-CGH analysis with applications to Arabidopsis thaliana. PLoS Comput Biol 2012 Jan;8(1):e1002286. PMID: 22253580
  • Collins CC, Volik SV, Lapuk AV, Wang Y et al. Next generation sequencing of prostate cancer from a patient identifies a deficiency of methylthioadenosine phosphorylase, an exploitable tumor target. Mol Cancer Ther 2012 Mar;11(3):775-83. PMID: 22252602
  • Lin HH, Li X, Chen JL, Sun X et al. Identification of an AAA ATPase VPS4B-dependent pathway that modulates epidermal growth factor receptor abundance and signaling during hypoxia. Mol Cell Biol 2012 Mar;32(6):1124-38. PMID: 22252323
  • Li Z, Huang H, Li Y, Jiang X et al. Up-regulation of a HOXA-PBX3 homeobox-gene signature following down-regulation of miR-181 is associated with adverse prognosis in patients with cytogenetically abnormal AML. Blood 2012 Mar 8;119(10):2314-24. PMID: 22251480
  • Kolde R, Laur S, Adler P, Vilo J et al. Robust rank aggregation for gene list integration and meta-analysis. Bioinformatics 2012 Feb 15;28(4):573-80. PMID: 22247279
  • Liu W, Xing F, Iiizumi-Gairani M, Okuda H et al. N-myc downstream regulated gene 1 modulates Wnt-β-catenin signalling and pleiotropically suppresses metastasis. EMBO Mol Med 2012 Feb;4(2):93-108. PMID: 22246988
  • Adrain C, Zettl M, Christova Y, Taylor N et al. Tumor necrosis factor signaling requires iRhom2 to promote trafficking and activation of TACE. Science 2012 Jan 13;335(6065):225-8. PMID: 22246777
  • Matheu A, Collado M, Wise C, Manterola L et al. Oncogenicity of the developmental transcription factor Sox9. Cancer Res 2012 Mar 1;72(5):1301-15. PMID: 22246670
  • Yang IV, Tomfohr J, Singh J, Foss CM et al. The clinical and environmental determinants of airway transcriptional profiles in allergic asthma. Am J Respir Crit Care Med 2012 Mar 15;185(6):620-7. PMID: 22246175
  • Fusi N, Stegle O, Lawrence ND et al. Joint modelling of confounding factors and prominent genetic regulators provides increased accuracy in genetical genomics studies. PLoS Comput Biol 2012 Jan;8(1):e1002330. PMID: 22241974
  • Williams PD, Owens CR, Dziegielewski J, Moskaluk CA et al. Cyclophilin B expression is associated with in vitro radioresistance and clinical outcome after radiotherapy. Neoplasia 2011 Dec;13(12):1122-31. PMID: 22241958
  • Imielinski M, Cha S, Rejtar T, Richardson EA et al. Integrated proteomic, transcriptomic, and biological network analysis of breast carcinoma reveals molecular features of tumorigenesis and clinical relapse. Mol Cell Proteomics 2012 Jun;11(6):M111.014910. PMID: 22240506
  • Mamtani M, Kulkarni H et al. Association of HADHA expression with the risk of breast cancer: targeted subset analysis and meta-analysis of microarray data. BMC Res Notes 2012 Jan 12;5:25. PMID: 22240105
  • Baral A, Kumar P, Halder R, Mani P et al. Quadruplex-single nucleotide polymorphisms (Quad-SNP) influence gene expression difference among individuals. Nucleic Acids Res 2012 May;40(9):3800-11. PMID: 22238381
  • He C, Li Z, Chen P, Huang H et al. Young intragenic miRNAs are less coexpressed with host genes than old ones: implications of miRNA-host gene coevolution. Nucleic Acids Res 2012 May;40(9):4002-12. PMID: 22238379
  • Klapper W, Kreuz M, Kohler CW, Burkhardt B et al. Patient age at diagnosis is associated with the molecular characteristics of diffuse large B-cell lymphoma. Blood 2012 Feb 23;119(8):1882-7. PMID: 22238326
  • Garcia M, Millat-Carus R, Bertucci F, Finetti P et al. Interactome-transcriptome integration for predicting distant metastasis in breast cancer. Bioinformatics 2012 Mar 1;28(5):672-8. PMID: 22238264
  • Yao C, Li H, Shen X, He Z et al. Reproducibility and concordance of differential DNA methylation and gene expression in cancer. PLoS One 2012;7(1):e29686. PMID: 22235325
  • Beverly LJ, Lockwood WW, Shah PP, Erdjument-Bromage H et al. Ubiquitination, localization, and stability of an anti-apoptotic BCL2-like protein, BCL2L10/BCLb, are regulated by Ubiquilin1. Proc Natl Acad Sci U S A 2012 Jan 17;109(3):E119-26. PMID: 22233804
  • Fernando MM, Freudenberg J, Lee A, Morris DL et al. Transancestral mapping of the MHC region in systemic lupus erythematosus identifies new independent and interacting loci at MSH5, HLA-DPB1 and HLA-G. Ann Rheum Dis 2012 May;71(5):777-84. PMID: 22233601
  • Williams GA searchable cross-platform gene expression database reveals connections between drug treatments and disease. BMC Genomics 2012 Jan 10;13:12. PMID: 22233519
  • García-Hoz C, Sánchez-Fernández G, García-Escudero R, Fernández-Velasco M et al. Protein kinase C (PKC)ζ-mediated Gαq stimulation of ERK5 protein pathway in cardiomyocytes and cardiac fibroblasts. J Biol Chem 2012 Mar 2;287(10):7792-802. PMID: 22232556
  • Joosse SA, Hannemann J, Spötter J, Bauche A et al. Changes in keratin expression during metastatic progression of breast cancer: impact on the detection of circulating tumor cells. Clin Cancer Res 2012 Feb 15;18(4):993-1003. PMID: 22228641
  • Riester M, Taylor JM, Feifer A, Koppie T et al. Combination of a novel gene expression signature with a clinical nomogram improves the prediction of survival in high-risk bladder cancer. Clin Cancer Res 2012 Mar 1;18(5):1323-33. PMID: 22228636
  • Sneddon TP, Church DM et al. Online resources for genomic structural variation. Methods Mol Biol 2012;838:273-89. PMID: 22228017
  • Koch F, Andrau JC et al. Initiating RNA polymerase II and TIPs as hallmarks of enhancer activity and tissue-specificity. Transcription 2011 Nov-Dec;2(6):263-8. PMID: 22223044
  • Hook KE, Garza SJ, Lira ME, Ching KA et al. An integrated genomic approach to identify predictive biomarkers of response to the aurora kinase inhibitor PF-03814735. Mol Cancer Ther 2012 Mar;11(3):710-9. PMID: 22222631
  • Lattanzi W, Geloso MC, Saulnier N, Giannetti S et al. Neurotrophic features of human adipose tissue-derived stromal cells: in vitro and in vivo studies. J Biomed Biotechnol 2011;2011:468705. PMID: 22219658
  • Kohane IS, Valtchinov VI et al. Quantifying the white blood cell transcriptome as an accessible window to the multiorgan transcriptome. Bioinformatics 2012 Feb 15;28(4):538-45. PMID: 22219206
  • Han M, Yang Z, Sayed D, He M et al. GATA4 expression is primarily regulated via a miR-26b-dependent post-transcriptional mechanism during cardiac hypertrophy. Cardiovasc Res 2012 Mar 15;93(4):645-54. PMID: 22219180
  • Shaw GT, Shih ES, Chen CH, Hwang MJ et al. Preservation of ranking order in the expression of human Housekeeping genes. PLoS One 2011;6(12):e29314. PMID: 22216246
  • Zhao B, Li L, Wang L, Wang CY et al. Cell detachment activates the Hippo pathway via cytoskeleton reorganization to induce anoikis. Genes Dev 2012 Jan 1;26(1):54-68. PMID: 22215811
  • de Wit E, de Laat W et al. A decade of 3C technologies: insights into nuclear organization. Genes Dev 2012 Jan 1;26(1):11-24. PMID: 22215806
  • Yang J, Staples O, Thomas LW, Briston T et al. Human CHCHD4 mitochondrial proteins regulate cellular oxygen consumption rate and metabolism and provide a critical role in hypoxia signaling and tumor progression. J Clin Invest 2012 Feb;122(2):600-11. PMID: 22214851
  • Brosché M, Kangasjärvi J et al. Low antioxidant concentrations impact on multiple signalling pathways in Arabidopsis thaliana partly through NPR1. J Exp Bot 2012 Mar;63(5):1849-61. PMID: 22213815
  • Agesen TH, Sveen A, Merok MA, Lind GE et al. ColoGuideEx: a robust gene classifier specific for stage II colorectal cancer prognosis. Gut 2012 Nov;61(11):1560-7. PMID: 22213796
  • Gawecka JE, Geerts D, Koster J, Caliva MJ et al. PEA15 impairs cell migration and correlates with clinical features predicting good prognosis in neuroblastoma. Int J Cancer 2012 Oct 1;131(7):1556-68. PMID: 22213050
  • Bauer P, Blondet E et al. Transcriptome analysis of ein3 eil1 mutants in response to iron deficiency. Plant Signal Behav 2011 Nov;6(11):1669-71. PMID: 22212120
  • Yano KLipid metabolic pathways as lung cancer therapeutic targets: a computational study. Int J Mol Med 2012 Apr;29(4):519-29. PMID: 22211244
  • Singh N, Shirdel EA, Waldron L, Zhang RH et al. The murine caecal microRNA signature depends on the presence of the endogenous microbiota. Int J Biol Sci 2012;8(2):171-86. PMID: 22211115
  • Schneider S, Smith T, Hansen U et al. SCOREM: statistical consolidation of redundant expression measures. Nucleic Acids Res 2012 Mar;40(6):e46. PMID: 22210887
  • Backes C, Rurainski A, Klau GW, Müller O et al. An integer linear programming approach for finding deregulated subgraphs in regulatory networks. Nucleic Acids Res 2012 Mar;40(6):e43. PMID: 22210863
  • McCall MN, Almudevar A et al. Affymetrix GeneChip microarray preprocessing for multivariate analyses. Brief Bioinform 2012 Sep;13(5):536-46. PMID: 22210854
  • Lau GJ, Godin N, Maachi H, Lo CS et al. Bcl-2-modifying factor induces renal proximal tubular cell apoptosis in diabetic mice. Diabetes 2012 Feb;61(2):474-84. PMID: 22210314
  • Braun R, Leibon G, Pauls S, Rockmore D et al. Partition decoupling for multi-gene analysis of gene expression profiling data. BMC Bioinformatics 2011 Dec 30;12:497. PMID: 22208906
  • Schwindinger WF, Mirshahi UL, Baylor KA, Sheridan KM et al. Synergistic roles for G-protein γ3 and γ7 subtypes in seizure susceptibility as revealed in double knock-out mice. J Biol Chem 2012 Mar 2;287(10):7121-33. PMID: 22207761
  • Feldman DE, Chen C, Punj V, Tsukamoto H et al. Pluripotency factor-mediated expression of the leptin receptor (OB-R) links obesity to oncogenesis through tumor-initiating stem cells. Proc Natl Acad Sci U S A 2012 Jan 17;109(3):829-34. PMID: 22207628
  • Jha A, Shankar R et al. Employing machine learning for reliable miRNA target identification in plants. BMC Genomics 2011 Dec 29;12:636. PMID: 22206472
  • Lasham A, Samuel W, Cao H, Patel R et al. YB-1, the E2F pathway, and regulation of tumor cell growth. J Natl Cancer Inst 2012 Jan 18;104(2):133-46. PMID: 22205655
  • Simonson MS, Tiktin M, Debanne SM, Rahman M et al. The renal transcriptome of db/db mice identifies putative urinary biomarker proteins in patients with type 2 diabetes: a pilot study. Am J Physiol Renal Physiol 2012 Apr 1;302(7):F820-9. PMID: 22205226
  • Giraud M, Yoshida H, Abramson J, Rahl PB et al. Aire unleashes stalled RNA polymerase to induce ectopic gene expression in thymic epithelial cells. Proc Natl Acad Sci U S A 2012 Jan 10;109(2):535-40. PMID: 22203960
  • Sankaran D, Pakala SB, Nair VS, Sirigiri DN et al. Mechanism of MTA1 protein overexpression-linked invasion: MTA1 regulation of hyaluronan-mediated motility receptor (HMMR) expression and function. J Biol Chem 2012 Feb 17;287(8):5483-91. PMID: 22203674
  • Planet E, Attolini CS, Reina O, Flores O et al. htSeqTools: high-throughput sequencing quality control, processing and visualization in R. Bioinformatics 2012 Feb 15;28(4):589-90. PMID: 22199381
  • Kobunai T, Watanabe T, Fukusato T et al. REG4, NEIL2, and BIRC5 gene expression correlates with gamma-radiation sensitivity in patients with rectal cancer receiving radiotherapy. Anticancer Res 2011 Dec;31(12):4147-53. PMID: 22199273
  • Shanahan HP, Memon FN, Upton GJ, Harrison AP et al. Normalized Affymetrix expression data are biased by G-quadruplex formation. Nucleic Acids Res 2012 Apr;40(8):3307-15. PMID: 22199258
  • Ahmadi A, Behm A, Honnalli N, Li C et al. Hobbes: optimized gram-based methods for efficient read alignment. Nucleic Acids Res 2012 Mar;40(6):e41. PMID: 22199254
  • Scott MS, Ono M, Yamada K, Endo A et al. Human box C/D snoRNA processing conservation across multiple cell types. Nucleic Acids Res 2012 Apr;40(8):3676-88. PMID: 22199253
  • Soreq L, Ben-Shaul Y, Israel Z, Bergman H et al. Meta-analysis of genetic and environmental Parkinson's disease models reveals a common role of mitochondrial protection pathways. Neurobiol Dis 2012 Mar;45(3):1018-30. PMID: 22198569
  • Zhou Y, Liu J, Han L, Li ZG et al. Comprehensive analysis of tandem amino acid repeats from ten angiosperm genomes. BMC Genomics 2011 Dec 23;12:632. PMID: 22195734
  • Westholm JO, Ladewig E, Okamura K, Robine N et al. Common and distinct patterns of terminal modifications to mirtrons and canonical microRNAs. RNA 2012 Feb;18(2):177-92. PMID: 22190743
  • Liu X, Liu ZP, Zhao XM, Chen L et al. Identifying disease genes and module biomarkers by differential interactions. J Am Med Inform Assoc 2012 Mar-Apr;19(2):241-8. PMID: 22190040
  • Chen CR, Shu WY, Tsai ML, Cheng WC et al. THEME: a web tool for loop-design microarray data analysis. Comput Biol Med 2012 Feb;42(2):228-34. PMID: 22188791
  • Gade S, Porzelius C, Fälth M, Brase JC et al. Graph based fusion of miRNA and mRNA expression data improves clinical outcome prediction in prostate cancer. BMC Bioinformatics 2011 Dec 21;12:488. PMID: 22188670
  • Kratochvill F, Machacek C, Vogl C, Ebner F et al. Tristetraprolin-driven regulatory circuit controls quality and timing of mRNA decay in inflammation. Mol Syst Biol 2011 Dec 20;7:560. PMID: 22186734
  • Turpeinen H, Kukkurainen S, Pulkkinen K, Kauppila T et al. Identification of proprotein convertase substrates using genome-wide expression correlation analysis. BMC Genomics 2011 Dec 20;12:618. PMID: 22185580
  • Wang T, Huang C, Lopez-Coral A, Slentz-Kesler KA et al. K12/SECTM1, an interferon-γ regulated molecule, synergizes with CD28 to costimulate human T cell proliferation. J Leukoc Biol 2012 Mar;91(3):449-59. PMID: 22184754
  • Krassovsky K, Henikoff JG, Henikoff S et al. Tripartite organization of centromeric chromatin in budding yeast. Proc Natl Acad Sci U S A 2012 Jan 3;109(1):243-8. PMID: 22184235
  • Marzook H, Li DQ, Nair VS, Mudvari P et al. Metastasis-associated protein 1 drives tumor cell migration and invasion through transcriptional repression of RING finger protein 144A. J Biol Chem 2012 Feb 17;287(8):5615-26. PMID: 22184113
  • Zhao JC, Yu J, Runkle C, Wu L et al. Cooperation between Polycomb and androgen receptor during oncogenic transformation. Genome Res 2012 Feb;22(2):322-31. PMID: 22179855
  • Beeby M, Cho M, Stubbe J, Jensen GJ et al. Growth and localization of polyhydroxybutyrate granules in Ralstonia eutropha. J Bacteriol 2012 Mar;194(5):1092-9. PMID: 22178974
  • Sitaraman R, Leppla SH et al. Methylation-dependent DNA restriction in Bacillus anthracis. Gene 2012 Feb 15;494(1):44-50. PMID: 22178763
  • Kammers K, Lang M, Hengstler JG, Schmidt M et al. Survival models with preclustered gene groups as covariates. BMC Bioinformatics 2011 Dec 16;12:478. PMID: 22177110
  • Li A, Zhang R, Pan L, Tang L et al. Transcriptome analysis of H2O2-treated wheat seedlings reveals a H2O2-responsive fatty acid desaturase gene participating in powdery mildew resistance. PLoS One 2011;6(12):e28810. PMID: 22174904
  • Sveen A, Bakken AC, Ågesen TH, Lind GE et al. The exon-level biomarker SLC39A14 has organ-confined cancer-specificity in colorectal cancer. Int J Cancer 2012 Sep 15;131(6):1479-85. PMID: 22173985
  • Marco A, Griffiths-Jones S et al. Detection of microRNAs in color space. Bioinformatics 2012 Feb 1;28(3):318-23. PMID: 22171334
  • Pascual O, Ben Achour S, Rostaing P, Triller A et al. Microglia activation triggers astrocyte-mediated modulation of excitatory neurotransmission. Proc Natl Acad Sci U S A 2012 Jan 24;109(4):E197-205. PMID: 22167804
  • Dozmorov MG, Giles CB, Wren JD et al. Predicting gene ontology from a global meta-analysis of 1-color microarray experiments. BMC Bioinformatics 2011 Oct 18;12 Suppl 10(Suppl 10):S14. PMID: 22166114
  • Dozmorov MG, Wren JD et al. High-throughput processing and normalization of one-color microarrays for transcriptional meta-analyses. BMC Bioinformatics 2011 Oct 18;12 Suppl 10(Suppl 10):S2. PMID: 22166002
  • Roy S, Heinrich K, Phan V, Berry MW et al. Latent Semantic Indexing of PubMed abstracts for identification of transcription factor candidates from microarray derived gene sets. BMC Bioinformatics 2011 Oct 18;12 Suppl 10(Suppl 10):S19. PMID: 22165960
  • Zhang F, Chen JY et al. HOMER: a human organ-specific molecular electronic repository. BMC Bioinformatics 2011 Oct 18;12 Suppl 10(Suppl 10):S4. PMID: 22165817
  • Starmans MH, Fung G, Steck H, Wouters BG et al. A simple but highly effective approach to evaluate the prognostic performance of gene expression signatures. PLoS One 2011;6(12):e28320. PMID: 22163293
  • Dai Y, Zhou X et al. Computational methods for the identification of microRNA targets. Open Access Bioinformatics 2010 May 1;2:29-39. PMID: 22162940
  • Van Vlierberghe P, Ambesi-Impiombato A, Perez-Garcia A, Haydu JE et al. ETV6 mutations in early immature human T cell leukemias. J Exp Med 2011 Dec 19;208(13):2571-9. PMID: 22162831
  • Antoniewicz AA, Paziewska A, Mikula M, Goryca K et al. Lack of evidence for increased level of circulating urothelial cells in the peripheral blood after transurethral resection of bladder tumors. Int Urol Nephrol 2012 Jun;44(3):761-7. PMID: 22160796
  • He A, Ma Q, Cao J, von Gise A et al. Polycomb repressive complex 2 regulates normal development of the mouse heart. Circ Res 2012 Feb 3;110(3):406-15. PMID: 22158708
  • Chen DT, Hsu YL, Fulp WJ, Coppola D et al. Prognostic and predictive value of a malignancy-risk gene signature in early-stage non-small cell lung cancer. J Natl Cancer Inst 2011 Dec 21;103(24):1859-70. PMID: 22157961
  • Zhou A, Chen YI, Zane GM, He Z et al. Functional characterization of Crp/Fnr-type global transcriptional regulators in Desulfovibrio vulgaris Hildenborough. Appl Environ Microbiol 2012 Feb;78(4):1168-77. PMID: 22156435
  • Kidder BL, Palmer S et al. HDAC1 regulates pluripotency and lineage specific transcriptional networks in embryonic and trophoblast stem cells. Nucleic Acids Res 2012 Apr;40(7):2925-39. PMID: 22156375
  • Mullican SE, Gaddis CA, Alenghat T, Nair MG et al. Histone deacetylase 3 is an epigenomic brake in macrophage alternative activation. Genes Dev 2011 Dec 1;25(23):2480-8. PMID: 22156208
  • Mendoza-Parra MA, Sankar M, Walia M, Gronemeyer H et al. POLYPHEMUS: R package for comparative analysis of RNA polymerase II ChIP-seq profiles by non-linear normalization. Nucleic Acids Res 2012 Feb;40(4):e30. PMID: 22156059
  • West NR, Milne K, Truong PT, Macpherson N et al. Tumor-infiltrating lymphocytes predict response to anthracycline-based chemotherapy in estrogen receptor-negative breast cancer. Breast Cancer Res 2011;13(6):R126. PMID: 22151962
  • Bauch A, Adamczyk I, Buczek P, Elmer FJ et al. openBIS: a flexible framework for managing and analyzing complex data in biology research. BMC Bioinformatics 2011 Dec 8;12:468. PMID: 22151573
  • Rudy J, Valafar F et al. Empirical comparison of cross-platform normalization methods for gene expression data. BMC Bioinformatics 2011 Dec 7;12:467. PMID: 22151536
  • Chimge NO, Baniwal SK, Luo J, Coetzee S et al. Opposing effects of Runx2 and estradiol on breast cancer cell proliferation: in vitro identification of reciprocally regulated gene signature related to clinical letrozole responsiveness. Clin Cancer Res 2012 Feb 1;18(3):901-11. PMID: 22147940
  • Rajan S, Chu Pham Dang H, Djambazian H, Zuzan H et al. Analysis of early C2C12 myogenesis identifies stably and differentially expressed transcriptional regulators whose knock-down inhibits myoblast differentiation. Physiol Genomics 2012 Feb 1;44(2):183-97. PMID: 22147266
  • Tiedemann RE, Zhu YX, Schmidt J, Shi CX et al. Identification of molecular vulnerabilities in human multiple myeloma cells by RNA interference lethality screening of the druggable genome. Cancer Res 2012 Feb 1;72(3):757-68. PMID: 22147262
  • Kacmarczyk T, Waltman P, Bate A, Eichenberger P et al. Comparative microbial modules resource: generation and visualization of multi-species biclusters. PLoS Comput Biol 2011 Dec;7(12):e1002228. PMID: 22144874
  • Jurmeister S, Baumann M, Balwierz A, Keklikoglou I et al. MicroRNA-200c represses migration and invasion of breast cancer cells by targeting actin-regulatory proteins FHOD1 and PPM1F. Mol Cell Biol 2012 Feb;32(3):633-51. PMID: 22144583
  • Li H, Bitler BG, Vathipadiekal V, Maradeo ME et al. ALDH1A1 is a novel EZH2 target gene in epithelial ovarian cancer identified by genome-wide approaches. Cancer Prev Res (Phila) 2012 Mar;5(3):484-91. PMID: 22144423
  • Mannava S, Zhuang D, Nair JR, Bansal R et al. KLF9 is a novel transcriptional regulator of bortezomib- and LBH589-induced apoptosis in multiple myeloma cells. Blood 2012 Feb 9;119(6):1450-8. PMID: 22144178
  • Grasso M, Fuso A, Dovere L, de Rooij DG et al. Distribution of GFRA1-expressing spermatogonia in adult mouse testis. Reproduction 2012 Mar;143(3):325-32. PMID: 22143971
  • Chen G, Yin K, Shi L, Fang Y et al. Comparative analysis of human protein-coding and noncoding RNAs between brain and 10 mixed cell lines by RNA-Seq. PLoS One 2011;6(11):e28318. PMID: 22140575
  • Ung CY, Lam SH, Zhang X, Li H et al. Existence of inverted profile in chemically responsive molecular pathways in the zebrafish liver. PLoS One 2011;6(11):e27819. PMID: 22140468
  • Zheng Y, Li YF, Sunkar R, Zhang W et al. SeqTar: an effective method for identifying microRNA guided cleavage sites from degradome of polyadenylated transcripts in plants. Nucleic Acids Res 2012 Feb;40(4):e28. PMID: 22140118
  • Ruwe H, Schmitz-Linneweber C et al. Short non-coding RNA fragments accumulating in chloroplasts: footprints of RNA binding proteins? Nucleic Acids Res 2012 Apr;40(7):3106-16. PMID: 22139936
  • Kao S, Shiau CK, Gu DL, Ho CM et al. IGDB.NSCLC: integrated genomic database of non-small cell lung cancer. Nucleic Acids Res 2012 Jan;40(Database issue):D972-7. PMID: 22139933
  • Kong D, Piao YS, Yamashita S, Oshima H et al. Inflammation-induced repression of tumor suppressor miR-7 in gastric tumor cells. Oncogene 2012 Aug 30;31(35):3949-60. PMID: 22139078
  • Brennan DJ, O'Connor DP, Laursen H, McGee SF et al. The cocaine- and amphetamine-regulated transcript mediates ligand-independent activation of ERα, and is an independent prognostic factor in node-negative breast cancer. Oncogene 2012 Jul 26;31(30):3483-94. PMID: 22139072
  • Reed KR, Tunster SJ, Young M, Carrico A et al. Entopic overexpression of Ascl2 does not accelerate tumourigenesis in ApcMin mice. Gut 2012 Oct;61(10):1435-8. PMID: 22138533
  • Pont C, Murat F, Confolent C, Balzergue S et al. RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.). Genome Biol 2011 Dec 2;12(12):R119. PMID: 22136458
  • He D, Liu ZP, Chen L et al. Identification of dysfunctional modules and disease genes in congenital heart disease by a network-based approach. BMC Genomics 2011 Dec 2;12:592. PMID: 22136190
  • Karnovsky A, Weymouth T, Hull T, Tarcea VG et al. Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data. Bioinformatics 2012 Feb 1;28(3):373-80. PMID: 22135418
  • Szcześniak MW, Deorowicz S, Gapski J, Kaczyński Ł et al. miRNEST database: an integrative approach in microRNA search and annotation. Nucleic Acids Res 2012 Jan;40(Database issue):D198-204. PMID: 22135287
  • Knudsen ES, Ertel A, Davicioni E, Kline J et al. Progression of ductal carcinoma in situ to invasive breast cancer is associated with gene expression programs of EMT and myoepithelia. Breast Cancer Res Treat 2012 Jun;133(3):1009-24. PMID: 22134623
  • Whitaker-Menezes D, Martinez-Outschoorn UE, Flomenberg N, Birbe RC et al. Hyperactivation of oxidative mitochondrial metabolism in epithelial cancer cells in situ: visualizing the therapeutic effects of metformin in tumor tissue. Cell Cycle 2011 Dec 1;10(23):4047-64. PMID: 22134189
  • Park JH, Park J, Choi JK, Lyu J et al. Identification of DNA methylation changes associated with human gastric cancer. BMC Med Genomics 2011 Dec 2;4:82. PMID: 22133303
  • Hess KR, Wei C, Qi Y, Iwamoto T et al. Lack of sufficiently strong informative features limits the potential of gene expression analysis as predictive tool for many clinical classification problems. BMC Bioinformatics 2011 Dec 1;12:463. PMID: 22132775
  • Adamo B, Deal AM, Burrows E, Geradts J et al. Phosphatidylinositol 3-kinase pathway activation in breast cancer brain metastases. Breast Cancer Res 2011;13(6):R125. PMID: 22132754
  • Darabos C, Di Cunto F, Tomassini M, Moore JH et al. Additive functions in boolean models of gene regulatory network modules. PLoS One 2011;6(11):e25110. PMID: 22132067
  • Wilhite SE, Barrett T et al. Strategies to explore functional genomics data sets in NCBI's GEO database. Methods Mol Biol 2012;802:41-53. PMID: 22130872
  • Nadiminty N, Tummala R, Lou W, Zhu Y et al. MicroRNA let-7c suppresses androgen receptor expression and activity via regulation of Myc expression in prostate cancer cells. J Biol Chem 2012 Jan 6;287(2):1527-37. PMID: 22128178
  • Liu P, Lu Y, Liu H, Wen W et al. Genome-wide association and fine mapping of genetic loci predisposing to colon carcinogenesis in mice. Mol Cancer Res 2012 Jan;10(1):66-74. PMID: 22127497
  • Markert EK, Mizuno H, Vazquez A, Levine AJ et al. Molecular classification of prostate cancer using curated expression signatures. Proc Natl Acad Sci U S A 2011 Dec 27;108(52):21276-81. PMID: 22123976
  • Gellert P, Teranishi M, Jenniches K, De Gaspari P et al. Gene Array Analyzer: alternative usage of gene arrays to study alternative splicing events. Nucleic Acids Res 2012 Mar;40(6):2414-25. PMID: 22123740
  • Sun S, Dong X, Fu Y, Tian W et al. An iterative network partition algorithm for accurate identification of dense network modules. Nucleic Acids Res 2012 Feb;40(3):e18. PMID: 22121225
  • Lin H, Halsall JA, Antczak P, O'Neill LP et al. Relative overexpression of X-linked genes in mouse embryonic stem cells is consistent with Ohno's hypothesis. Nat Genet 2011 Nov 28;43(12):1169-70; author reply 1171-2. PMID: 22120049
  • Kharchenko PV, Xi R, Park PJ et al. Evidence for dosage compensation between the X chromosome and autosomes in mammals. Nat Genet 2011 Nov 28;43(12):1167-9; author reply 1171-2. PMID: 22120048
  • Berman BP, Weisenberger DJ, Aman JF, Hinoue T et al. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nat Genet 2011 Nov 27;44(1):40-6. PMID: 22120008
  • Buler M, Aatsinki SM, Skoumal R, Komka Z et al. Energy-sensing factors coactivator peroxisome proliferator-activated receptor γ coactivator 1-α (PGC-1α) and AMP-activated protein kinase control expression of inflammatory mediators in liver: induction of interleukin 1 receptor antagonist. J Biol Chem 2012 Jan 13;287(3):1847-60. PMID: 22117073
  • Kang DD, Sibille E, Kaminski N, Tseng GC et al. MetaQC: objective quality control and inclusion/exclusion criteria for genomic meta-analysis. Nucleic Acids Res 2012 Jan;40(2):e15. PMID: 22116060
  • Kiebish MA, Young DM, Lehman JJ, Han X et al. Chronic caloric restriction attenuates a loss of sulfatide content in PGC-1α-/- mouse cortex: a potential lipidomic role of PGC-1α in neurodegeneration. J Lipid Res 2012 Feb;53(2):273-81. PMID: 22114039
  • Eigentler A, Pócsi I, Marx F et al. The anisin1 gene encodes a defensin-like protein and supports the fitness of Aspergillus nidulans. Arch Microbiol 2012 Jun;194(6):427-37. PMID: 22113351
  • Xiao W, Mindrinos MN, Seok J, Cuschieri J et al. A genomic storm in critically injured humans. J Exp Med 2011 Dec 19;208(13):2581-90. PMID: 22110166
  • Culhane AC, Schröder MS, Sultana R, Picard SC et al. GeneSigDB: a manually curated database and resource for analysis of gene expression signatures. Nucleic Acids Res 2012 Jan;40(Database issue):D1060-6. PMID: 22110038
  • Germar K, Dose M, Konstantinou T, Zhang J et al. T-cell factor 1 is a gatekeeper for T-cell specification in response to Notch signaling. Proc Natl Acad Sci U S A 2011 Dec 13;108(50):20060-5. PMID: 22109558
  • Rogers HA, Kilday JP, Mayne C, Ward J et al. Supratentorial and spinal pediatric ependymomas display a hypermethylated phenotype which includes the loss of tumor suppressor genes involved in the control of cell growth and death. Acta Neuropathol 2012 May;123(5):711-25. PMID: 22109108
  • Sun Y, Wang BE, Leong KG, Yue P et al. Androgen deprivation causes epithelial-mesenchymal transition in the prostate: implications for androgen-deprivation therapy. Cancer Res 2012 Jan 15;72(2):527-36. PMID: 22108827
  • Caldas J, Gehlenborg N, Kettunen E, Faisal A et al. Data-driven information retrieval in heterogeneous collections of transcriptomics data links SIM2s to malignant pleural mesothelioma. Bioinformatics 2012 Jan 15;28(2):246-53. PMID: 22106335
  • Kim SM, Leem SH, Chu IS, Park YY et al. Sixty-five gene-based risk score classifier predicts overall survival in hepatocellular carcinoma. Hepatology 2012 May;55(5):1443-52. PMID: 22105560
  • Sulzmaier FJ, Valmiki MK, Nelson DA, Caliva MJ et al. PEA-15 potentiates H-Ras-mediated epithelial cell transformation through phospholipase D. Oncogene 2012 Jul 26;31(30):3547-60. PMID: 22105357
  • Peurala H, Greco D, Heikkinen T, Kaur S et al. MiR-34a expression has an effect for lower risk of metastasis and associates with expression patterns predicting clinical outcome in breast cancer. PLoS One 2011;6(11):e26122. PMID: 22102859
  • Kassambara A, Hose D, Moreaux J, Walker BA et al. Genes with a spike expression are clustered in chromosome (sub)bands and spike (sub)bands have a powerful prognostic value in patients with multiple myeloma. Haematologica 2012 Apr;97(4):622-30. PMID: 22102711
  • Sharoni AM, Nuruzzaman M, Satoh K, Moumeni A et al. Comparative transcriptome analysis of AP2/EREBP gene family under normal and hormone treatments, and under two drought stresses in NILs setup by Aday Selection and IR64. Mol Genet Genomics 2012 Jan;287(1):1-19. PMID: 22102215
  • Gagnon-Bartsch JA, Speed TP et al. Using control genes to correct for unwanted variation in microarray data. Biostatistics 2012 Jul;13(3):539-52. PMID: 22101192
  • Zhang Z, Xu J, Koppetsch BS, Wang J et al. Heterotypic piRNA Ping-Pong requires qin, a protein with both E3 ligase and Tudor domains. Mol Cell 2011 Nov 18;44(4):572-84. PMID: 22099305
  • Yang H, Cheng C, Zhang W et al. Average rank-based score to measure deregulation of molecular pathway gene sets. PLoS One 2011;6(11):e27579. PMID: 22096597
  • Baron D, Magot A, Ramstein G, Steenman M et al. Immune response and mitochondrial metabolism are commonly deregulated in DMD and aging skeletal muscle. PLoS One 2011;6(11):e26952. PMID: 22096509
  • Azab AK, Quang P, Azab F, Pitsillides C et al. P-selectin glycoprotein ligand regulates the interaction of multiple myeloma cells with the bone marrow microenvironment. Blood 2012 Feb 9;119(6):1468-78. PMID: 22096244
  • Gostev M, Faulconbridge A, Brandizi M, Fernandez-Banet J et al. The BioSample Database (BioSD) at the European Bioinformatics Institute. Nucleic Acids Res 2012 Jan;40(Database issue):D64-70. PMID: 22096232
  • Chen YF, Tseng CY, Wang HW, Kuo HC et al. Rapid generation of mature hepatocyte-like cells from human induced pluripotent stem cells by an efficient three-step protocol. Hepatology 2012 Apr;55(4):1193-203. PMID: 22095466
  • Dondeti VR, Wubbenhorst B, Lal P, Gordan JD et al. Integrative genomic analyses of sporadic clear cell renal cell carcinoma define disease subtypes and potential new therapeutic targets. Cancer Res 2012 Jan 1;72(1):112-21. PMID: 22094876
  • Park AK, Lee SJ, Phi JH, Wang KC et al. Prognostic classification of pediatric medulloblastoma based on chromosome 17p loss, expression of MYCC and MYCN, and Wnt pathway activation. Neuro Oncol 2012 Feb;14(2):203-14. PMID: 22090452
  • Sher N, Bell GW, Li S, Nordman J et al. Developmental control of gene copy number by repression of replication initiation and fork progression. Genome Res 2012 Jan;22(1):64-75. PMID: 22090375
  • Yuen HF, Chan KK, Grills C, Murray JT et al. Ran is a potential therapeutic target for cancer cells with molecular changes associated with activation of the PI3K/Akt/mTORC1 and Ras/MEK/ERK pathways. Clin Cancer Res 2012 Jan 15;18(2):380-91. PMID: 22090358
  • Chen Y, Gu J, Li D, Li S et al. Time-course network analysis reveals TNF-α can promote G1/S transition of cell cycle in vascular endothelial cells. Bioinformatics 2012 Jan 1;28(1):1-4. PMID: 22088844
  • Zhang X, Zhao XM, He K, Lu L et al. Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information. Bioinformatics 2012 Jan 1;28(1):98-104. PMID: 22088843
  • Yu T, Bai Y et al. Improving gene expression data interpretation by finding latent factors that co-regulate gene modules with clinical factors. BMC Genomics 2011 Nov 16;12:563. PMID: 22087761
  • Punshon T, Hirschi K, Yang J, Lanzirotti A et al. The role of CAX1 and CAX3 in elemental distribution and abundance in Arabidopsis seed. Plant Physiol 2012 Jan;158(1):352-62. PMID: 22086421
  • Bergsland M, Ramsköld D, Zaouter C, Klum S et al. Sequentially acting Sox transcription factors in neural lineage development. Genes Dev 2011 Dec 1;25(23):2453-64. PMID: 22085726
  • Soldi R, Cohen AL, Cheng L, Sun Y et al. A genomic approach to predict synergistic combinations for breast cancer treatment. Pharmacogenomics J 2013 Feb;13(1):94-104. PMID: 22083351
  • Baker EJ, Jay JJ, Bubier JA, Langston MA et al. GeneWeaver: a web-based system for integrative functional genomics. Nucleic Acids Res 2012 Jan;40(Database issue):D1067-76. PMID: 22080549
  • Chen EY, Xu H, Gordonov S, Lim MP et al. Expression2Kinases: mRNA profiling linked to multiple upstream regulatory layers. Bioinformatics 2012 Jan 1;28(1):105-11. PMID: 22080467
  • Rodriguez C, Linge K, Blair P, Busetti F et al. Recycled water: potential health risks from volatile organic compounds and use of 1,4-dichlorobenzene as treatment performance indicator. Water Res 2012 Jan 1;46(1):93-106. PMID: 22078226
  • Tsoi LC, Qin T, Slate EH, Zheng WJ et al. Consistent Differential Expression Pattern (CDEP) on microarray to identify genes related to metastatic behavior. BMC Bioinformatics 2011 Nov 11;12:438. PMID: 22078224
  • Marom L, Ulitsky I, Cabilly Y, Shamir R et al. A point mutation in translation initiation factor eIF2B leads to function--and time-specific changes in brain gene expression. PLoS One 2011;6(10):e26992. PMID: 22073122
  • Bishop CV, Satterwhite S, Xu L, Hennebold JD et al. Microarray analysis of the primate luteal transcriptome during chorionic gonadotrophin administration simulating early pregnancy. Mol Hum Reprod 2012 Apr;18(4):216-27. PMID: 22072816
  • Morris JH, Apeltsin L, Newman AM, Baumbach J et al. clusterMaker: a multi-algorithm clustering plugin for Cytoscape. BMC Bioinformatics 2011 Nov 9;12:436. PMID: 22070249
  • Bhattacharya A, Roy R, Snijders AM, Hamilton G et al. Two distinct routes to oral cancer differing in genome instability and risk for cervical node metastasis. Clin Cancer Res 2011 Nov 15;17(22):7024-34. PMID: 22068658
  • Hulmi JJ, Silvennoinen M, Lehti M, Kivelä R et al. Altered REDD1, myostatin, and Akt/mTOR/FoxO/MAPK signaling in streptozotocin-induced diabetic muscle atrophy. Am J Physiol Endocrinol Metab 2012 Feb 1;302(3):E307-15. PMID: 22068602
  • Tiana M, Villar D, Pérez-Guijarro E, Gómez-Maldonado L et al. A role for insulator elements in the regulation of gene expression response to hypoxia. Nucleic Acids Res 2012 Mar;40(5):1916-27. PMID: 22067454
  • Hayward DC, Hetherington S, Behm CA, Grasso LC et al. Differential gene expression at coral settlement and metamorphosis--a subtractive hybridization study. PLoS One 2011;6(10):e26411. PMID: 22065994
  • Morris LG, Taylor BS, Bivona TG, Gong Y et al. Genomic dissection of the epidermal growth factor receptor (EGFR)/PI3K pathway reveals frequent deletion of the EGFR phosphatase PTPRS in head and neck cancers. Proc Natl Acad Sci U S A 2011 Nov 22;108(47):19024-9. PMID: 22065749
  • Caskey M, Lefebvre F, Filali-Mouhim A, Cameron MJ et al. Synthetic double-stranded RNA induces innate immune responses similar to a live viral vaccine in humans. J Exp Med 2011 Nov 21;208(12):2357-66. PMID: 22065672
  • Oh YT, Yue P, Zhou W, Balko JM et al. Oncogenic Ras and B-Raf proteins positively regulate death receptor 5 expression through co-activation of ERK and JNK signaling. J Biol Chem 2012 Jan 2;287(1):257-267. PMID: 22065586
  • Tonelli R, McIntyre A, Camerin C, Walters ZS et al. Antitumor activity of sustained N-myc reduction in rhabdomyosarcomas and transcriptional block by antigene therapy. Clin Cancer Res 2012 Feb 1;18(3):796-807. PMID: 22065083
  • Pratcorona M, Abbas S, Sanders MA, Koenders JE et al. Acquired mutations in ASXL1 in acute myeloid leukemia: prevalence and prognostic value. Haematologica 2012 Mar;97(3):388-92. PMID: 22058207
  • Zhao Y, Huang J et al. Reconstruction and analysis of human heart-specific metabolic network based on transcriptome and proteome data. Biochem Biophys Res Commun 2011 Nov 25;415(3):450-4. PMID: 22057009
  • Selth LA, Townley S, Gillis JL, Ochnik AM et al. Discovery of circulating microRNAs associated with human prostate cancer using a mouse model of disease. Int J Cancer 2012 Aug 1;131(3):652-61. PMID: 22052531
  • Caldeira J, Simões-Correia J, Paredes J, Pinto MT et al. CPEB1, a novel gene silenced in gastric cancer: a Drosophila approach. Gut 2012 Aug;61(8):1115-23. PMID: 22052064
  • Tuller T, Veksler-Lublinsky I, Gazit N, Kupiec M et al. Composite effects of gene determinants on the translation speed and density of ribosomes. Genome Biol 2011 Nov 3;12(11):R110. PMID: 22050731
  • Miller TW, Balko JM, Fox EM, Ghazoui Z et al. ERα-dependent E2F transcription can mediate resistance to estrogen deprivation in human breast cancer. Cancer Discov 2011 Sep;1(4):338-51. PMID: 22049316
  • McCall MN, Kent OA, Yu J, Fox-Talbot K et al. MicroRNA profiling of diverse endothelial cell types. BMC Med Genomics 2011 Nov 2;4:78. PMID: 22047531
  • Massa AN, Childs KL, Lin H, Bryan GJ et al. The transcriptome of the reference potato genome Solanum tuberosum Group Phureja clone DM1-3 516R44. PLoS One 2011;6(10):e26801. PMID: 22046362
  • Weber CC, Pink CJ, Hurst LD et al. Late-replicating domains have higher divergence and diversity in Drosophila melanogaster. Mol Biol Evol 2012 Feb;29(2):873-82. PMID: 22046001
  • Walker CG, Littlejohn MD, Mitchell MD, Roche JR et al. Endometrial gene expression during early pregnancy differs between fertile and subfertile dairy cow strains. Physiol Genomics 2012 Jan 18;44(1):47-58. PMID: 22045914
  • Kim NH, Kim HS, Kim NG, Lee I et al. p53 and microRNA-34 are suppressors of canonical Wnt signaling. Sci Signal 2011 Nov 1;4(197):ra71. PMID: 22045851
  • Zhao XW, van Beek EM, Schornagel K, Van der Maaden H et al. CD47-signal regulatory protein-α (SIRPα) interactions form a barrier for antibody-mediated tumor cell destruction. Proc Natl Acad Sci U S A 2011 Nov 8;108(45):18342-7. PMID: 22042861
  • Atwood A, DeConde R, Wang SS, Mockler TC et al. Cell-autonomous circadian clock of hepatocytes drives rhythms in transcription and polyamine synthesis. Proc Natl Acad Sci U S A 2011 Nov 8;108(45):18560-5. PMID: 22042857
  • Matsuyama H, Suzuki HI, Nishimori H, Noguchi M et al. miR-135b mediates NPM-ALK-driven oncogenicity and renders IL-17-producing immunophenotype to anaplastic large cell lymphoma. Blood 2011 Dec 22;118(26):6881-92. PMID: 22042699
  • Berg JS, Lin KK, Sonnet C, Boles NC et al. Imprinted genes that regulate early mammalian growth are coexpressed in somatic stem cells. PLoS One 2011;6(10):e26410. PMID: 22039481
  • Hatano A, Chiba H, Moesa HA, Taniguchi T et al. CELLPEDIA: a repository for human cell information for cell studies and differentiation analyses. Database (Oxford) 2011;2011:bar046. PMID: 22039163
  • Szulwach KE, Li X, Li Y, Song CX et al. 5-hmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging. Nat Neurosci 2011 Oct 30;14(12):1607-16. PMID: 22037496
  • Erten S, Bebek G, Koyutürk M et al. Vavien: an algorithm for prioritizing candidate disease genes based on topological similarity of proteins in interaction networks. J Comput Biol 2011 Nov;18(11):1561-74. PMID: 22035267
  • Brodsky AN, Caldwell M, Harcum SW et al. Glycosylation and post-translational modification gene expression analysis by DNA microarrays for cultured mammalian cells. Methods 2012 Mar;56(3):408-17. PMID: 22033470
  • Waki H, Nakamura M, Yamauchi T, Wakabayashi K et al. Global mapping of cell type-specific open chromatin by FAIRE-seq reveals the regulatory role of the NFI family in adipocyte differentiation. PLoS Genet 2011 Oct;7(10):e1002311. PMID: 22028663
  • Venet D, Dumont JE, Detours V et al. Most random gene expression signatures are significantly associated with breast cancer outcome. PLoS Comput Biol 2011 Oct;7(10):e1002240. PMID: 22028643
  • Zhang YE, Landback P, Vibranovski MD, Long M et al. Accelerated recruitment of new brain development genes into the human genome. PLoS Biol 2011 Oct;9(10):e1001179. PMID: 22028629
  • Rackham O, Shearwood AM, Mercer TR, Davies SM et al. Long noncoding RNAs are generated from the mitochondrial genome and regulated by nuclear-encoded proteins. RNA 2011 Dec;17(12):2085-93. PMID: 22028365
  • Sundaram P, Hultine S, Smith LM, Dews M et al. p53-responsive miR-194 inhibits thrombospondin-1 and promotes angiogenesis in colon cancers. Cancer Res 2011 Dec 15;71(24):7490-501. PMID: 22028325
  • Chen JJ, Knudsen S, Mazin W, Dahlgaard J et al. A 71-gene signature of TRAIL sensitivity in cancer cells. Mol Cancer Ther 2012 Jan;11(1):34-44. PMID: 22027696
  • Toups MA, Pease JB, Hahn MW et al. No excess gene movement is detected off the avian or lepidopteran Z chromosome. Genome Biol Evol 2011;3:1381-90. PMID: 22024813
  • Regala RP, Justilien V, Walsh MP, Weems C et al. Matrix metalloproteinase-10 promotes Kras-mediated bronchio-alveolar stem cell expansion and lung cancer formation. PLoS One 2011;6(10):e26439. PMID: 22022614
  • Dvorkin-Gheva A, Hassell JA et al. Hormone receptor and ERBB2 status in gene expression profiles of human breast tumor samples. PLoS One 2011;6(10):e26023. PMID: 22022496
  • Vatolina TY, Boldyreva LV, Demakova OV, Demakov SA et al. Identical functional organization of nonpolytene and polytene chromosomes in Drosophila melanogaster. PLoS One 2011;6(10):e25960. PMID: 22022482
  • Mar JC, Matigian NA, Quackenbush J, Wells CA et al. attract: A method for identifying core pathways that define cellular phenotypes. PLoS One 2011;6(10):e25445. PMID: 22022396
  • Kemppinen AK, Kaprio J, Palotie A, Saarela J et al. Systematic review of genome-wide expression studies in multiple sclerosis. BMJ Open 2011 Jul 18;1(1):e000053. PMID: 22021740
  • Wang Y, He X, Ngeow J, Eng C et al. GATA2 negatively regulates PTEN by preventing nuclear translocation of androgen receptor and by androgen-independent suppression of PTEN transcription in breast cancer. Hum Mol Genet 2012 Feb 1;21(3):569-76. PMID: 22021428
  • Mathur S, Vyas S, Kapoor S, Tyagi AK et al. The Mediator complex in plants: structure, phylogeny, and expression profiling of representative genes in a dicot (Arabidopsis) and a monocot (rice) during reproduction and abiotic stress. Plant Physiol 2011 Dec;157(4):1609-27. PMID: 22021418
  • Raiber EA, Kranaster R, Lam E, Nikan M et al. A non-canonical DNA structure is a binding motif for the transcription factor SP1 in vitro. Nucleic Acids Res 2012 Feb;40(4):1499-508. PMID: 22021377
  • Nakagawa M, Shimabe M, Watanabe-Okochi N, Arai S et al. AML1/RUNX1 functions as a cytoplasmic attenuator of NF-κB signaling in the repression of myeloid tumors. Blood 2011 Dec 15;118(25):6626-37. PMID: 22021368
  • Deng X, Hiatt JB, Nguyen DK, Ercan S et al. Evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster. Nat Genet 2011 Oct 23;43(12):1179-85. PMID: 22019781
  • Reinhold WC, Erliandri I, Liu H, Zoppoli G et al. Identification of a predominant co-regulation among kinetochore genes, prospective regulatory elements, and association with genomic instability. PLoS One 2011;6(10):e25991. PMID: 22016797
  • Hu Y, Galkin AV, Wu C, Reddy V et al. CAFET algorithm reveals Wnt/PCP signature in lung squamous cell carcinoma. PLoS One 2011;6(10):e25807. PMID: 22016777
  • Morales M, Planet E, Arnal-Estape A, Pavlovic M et al. Tumor-stroma interactions a trademark for metastasis. Breast 2011 Oct;20 Suppl 3:S50-5. PMID: 22015293
  • Chang CY, Kazmin D, Jasper JS, Kunder R et al. The metabolic regulator ERRα, a downstream target of HER2/IGF-1R, as a therapeutic target in breast cancer. Cancer Cell 2011 Oct 18;20(4):500-10. PMID: 22014575
  • Dancik GM, Ru Y, Owens CR, Theodorescu D et al. A framework to select clinically relevant cancer cell lines for investigation by establishing their molecular similarity with primary human cancers. Cancer Res 2011 Dec 15;71(24):7398-409. PMID: 22012889
  • Hollenhorst PC, Ferris MW, Hull MA, Chae H et al. Oncogenic ETS proteins mimic activated RAS/MAPK signaling in prostate cells. Genes Dev 2011 Oct 15;25(20):2147-57. PMID: 22012618
  • Schlage WK, Westra JW, Gebel S, Catlett NL et al. A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue. BMC Syst Biol 2011 Oct 19;5:168. PMID: 22011616
  • Enroth S, Rada-Iglesisas A, Andersson R, Wallerman O et al. Cancer associated epigenetic transitions identified by genome-wide histone methylation binding profiles in human colorectal cancer samples and paired normal mucosa. BMC Cancer 2011 Oct 19;11:450. PMID: 22011431
  • La Salle S, Palmer K, O'Brien M, Schimenti JC et al. Spata22, a novel vertebrate-specific gene, is required for meiotic progress in mouse germ cells. Biol Reprod 2012 Feb;86(2):45. PMID: 22011390
  • Elo LL, Kallio A, Laajala TD, Hawkins RD et al. Optimized detection of transcription factor-binding sites in ChIP-seq experiments. Nucleic Acids Res 2012 Jan;40(1):e1. PMID: 22009681
  • Blomster T, Salojärvi J, Sipari N, Brosché M et al. Apoplastic reactive oxygen species transiently decrease auxin signaling and cause stress-induced morphogenic response in Arabidopsis. Plant Physiol 2011 Dec;157(4):1866-83. PMID: 22007024
  • Sasaki Y, Negishi H, Idogawa M, Yokota I et al. p53 negatively regulates the hepatoma growth factor HDGF. Cancer Res 2011 Nov 15;71(22):7038-47. PMID: 22006999
  • Dawson JA, Kendziorski C et al. An empirical Bayesian approach for identifying differential coexpression in high-throughput experiments. Biometrics 2012 Jun;68(2):455-65. PMID: 22004327
  • Shehadeh LA, Webster KA, Hare JM, Vazquez-Padron RI et al. Dynamic regulation of vascular myosin light chain (MYL9) with injury and aging. PLoS One 2011;6(10):e25855. PMID: 22003410
  • Zwart W, Theodorou V, Kok M, Canisius S et al. Oestrogen receptor-co-factor-chromatin specificity in the transcriptional regulation of breast cancer. EMBO J 2011 Oct 14;30(23):4764-76. PMID: 22002538
  • Wang Y, Li X, Hu H et al. Transcriptional regulation of co-expressed microRNA target genes. Genomics 2011 Dec;98(6):445-52. PMID: 22002038
  • Cesana M, Cacchiarelli D, Legnini I, Santini T et al. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell 2011 Oct 14;147(2):358-69. PMID: 22000014
  • Thorsen K, Schepeler T, Øster B, Rasmussen MH et al. Tumor-specific usage of alternative transcription start sites in colorectal cancer identified by genome-wide exon array analysis. BMC Genomics 2011 Oct 14;12:505. PMID: 21999571
  • Garcia H, Fleyshman D, Kolesnikova K, Safina A et al. Expression of FACT in mammalian tissues suggests its role in maintaining of undifferentiated state of cells. Oncotarget 2011 Oct;2(10):783-96. PMID: 21998152
  • Oh SC, Park YY, Park ES, Lim JY et al. Prognostic gene expression signature associated with two molecularly distinct subtypes of colorectal cancer. Gut 2012 Sep;61(9):1291-8. PMID: 21997556
  • He K, Chen Z, Ma Y, Pan Y et al. Identification of high-copper-responsive target pathways in Atp7b knockout mouse liver by GSEA on microarray data sets. Mamm Genome 2011 Dec;22(11-12):703-13. PMID: 21997183
  • Leung JY, Andrechek ER, Cardiff RD, Nevins JR et al. Heterogeneity in MYC-induced mammary tumors contributes to escape from oncogene dependence. Oncogene 2012 May 17;31(20):2545-54. PMID: 21996730
  • Boyd KD, Ross FM, Walker BA, Wardell CP et al. Mapping of chromosome 1p deletions in myeloma identifies FAM46C at 1p12 and CDKN2C at 1p32.3 as being genes in regions associated with adverse survival. Clin Cancer Res 2011 Dec 15;17(24):7776-84. PMID: 21994415
  • Birsoy K, Berry R, Wang T, Ceyhan O et al. Analysis of gene networks in white adipose tissue development reveals a role for ETS2 in adipogenesis. Development 2011 Nov;138(21):4709-19. PMID: 21989915
  • Beyer SJ, Zhang X, Jimenez RE, Lee ML et al. Microarray analysis of genes associated with cell surface NIS protein levels in breast cancer. BMC Res Notes 2011 Oct 11;4:397. PMID: 21989294
  • Reis PP, Waldron L, Perez-Ordonez B, Pintilie M et al. A gene signature in histologically normal surgical margins is predictive of oral carcinoma recurrence. BMC Cancer 2011 Oct 11;11:437. PMID: 21989116
  • Krawetz SA, Kruger A, Lalancette C, Tagett R et al. A survey of small RNAs in human sperm. Hum Reprod 2011 Dec;26(12):3401-12. PMID: 21989093
  • Patel RK, Jain M et al. PlantRGS: a web server for the identification of most suitable candidate reference genes for quantitative gene expression studies in plants. DNA Res 2011 Dec;18(6):463-70. PMID: 21987088
  • Hughes AL, Piontkivska H et al. Evolutionary diversification of the avian fatty acid-binding proteins. Gene 2011 Dec 15;490(1-2):1-5. PMID: 21986036
  • Poschet G, Hannich B, Raab S, Jungkunz I et al. A novel Arabidopsis vacuolar glucose exporter is involved in cellular sugar homeostasis and affects the composition of seed storage compounds. Plant Physiol 2011 Dec;157(4):1664-76. PMID: 21984725
  • Tong Y, Zhou J, Mizutani J, Fukuoka H et al. CEBPD suppresses prolactin expression and prolactinoma cell proliferation. Mol Endocrinol 2011 Nov;25(11):1880-91. PMID: 21980073
  • Leacock SW, Basse AN, Chandler GL, Kirk AM et al. A zebrafish transgenic model of Ewing's sarcoma reveals conserved mediators of EWS-FLI1 tumorigenesis. Dis Model Mech 2012 Jan;5(1):95-106. PMID: 21979944
  • Ma C, Zhou Y, Huang SH et al. Inequalities and duality in gene coexpression networks of HIV-1 infection revealed by the combination of the double-connectivity approach and the Gini's method. J Biomed Biotechnol 2011;2011:926407. PMID: 21976970
  • Li X, Wang Q, Zheng Y, Lv S et al. Prioritizing human cancer microRNAs based on genes' functional consistency between microRNA and cancer. Nucleic Acids Res 2011 Dec;39(22):e153. PMID: 21976726
  • Sanz-Pamplona R, Cordero D, Berenguer A, Lejbkowicz F et al. Gene expression differences between colon and rectum tumors. Clin Cancer Res 2011 Dec 1;17(23):7303-12. PMID: 21976543
  • Govin J, Gaucher J, Ferro M, Debernardi A et al. Proteomic strategy for the identification of critical actors in reorganization of the post-meiotic male genome. Mol Hum Reprod 2012 Jan;18(1):1-13. PMID: 21971310
  • Wexler EM, Rosen E, Lu D, Osborn GE et al. Genome-wide analysis of a Wnt1-regulated transcriptional network implicates neurodegenerative pathways. Sci Signal 2011 Oct 4;4(193):ra65. PMID: 21971039
  • Emig D, Kacprowski T, Albrecht M et al. Measuring and analyzing tissue specificity of human genes and protein complexes. EURASIP J Bioinform Syst Biol 2011 Aug 4;2011(1):5. PMID: 21970702
  • Meinel T, Schweiger MR, Ludewig AH, Chenna R et al. Ortho2ExpressMatrix--a web server that interprets cross-species gene expression data by gene family information. BMC Genomics 2011 Oct 4;12:483. PMID: 21970648
  • Haughian JM, Pinto MP, Harrell JC, Bliesner BS et al. Maintenance of hormone responsiveness in luminal breast cancers by suppression of Notch. Proc Natl Acad Sci U S A 2012 Feb 21;109(8):2742-7. PMID: 21969591
  • Hu Y, Chopra V, Chopra R, Locascio JJ et al. Transcriptional modulator H2A histone family, member Y (H2AFY) marks Huntington disease activity in man and mouse. Proc Natl Acad Sci U S A 2011 Oct 11;108(41):17141-6. PMID: 21969577
  • Magombedze G, Mulder N et al. A mathematical representation of the development of Mycobacterium tuberculosis active, latent and dormant stages. J Theor Biol 2012 Jan 7;292:44-59. PMID: 21968442
  • Oh K, Ko E, Kim HS, Park AK et al. Transglutaminase 2 facilitates the distant hematogenous metastasis of breast cancer by modulating interleukin-6 in cancer cells. Breast Cancer Res 2011 Oct 3;13(5):R96. PMID: 21967801
  • Engreitz JM, Chen R, Morgan AA, Dudley JT et al. ProfileChaser: searching microarray repositories based on genome-wide patterns of differential expression. Bioinformatics 2011 Dec 1;27(23):3317-8. PMID: 21967760
  • Wan L, Zhang J, Zhang H, Zhang Z et al. Transcriptional activation of OsDERF1 in OsERF3 and OsAP2-39 negatively modulates ethylene synthesis and drought tolerance in rice. PLoS One 2011;6(9):e25216. PMID: 21966459
  • Ha DG, Merritt JH, Hampton TH, Hodgkinson JT et al. 2-Heptyl-4-quinolone, a precursor of the Pseudomonas quinolone signal molecule, modulates swarming motility in Pseudomonas aeruginosa. J Bacteriol 2011 Dec;193(23):6770-80. PMID: 21965567
  • Theis JL, Sharpe KM, Matsumoto ME, Chai HS et al. Homozygosity mapping and exome sequencing reveal GATAD1 mutation in autosomal recessive dilated cardiomyopathy. Circ Cardiovasc Genet 2011 Dec;4(6):585-94. PMID: 21965549
  • Maravillas-Montero JL, Santos-Argumedo L et al. The myosin family: unconventional roles of actin-dependent molecular motors in immune cells. J Leukoc Biol 2012 Jan;91(1):35-46. PMID: 21965174
  • Stott-Miller M, Houck JR, Lohavanichbutr P, Méndez E et al. Tumor and salivary matrix metalloproteinase levels are strong diagnostic markers of oral squamous cell carcinoma. Cancer Epidemiol Biomarkers Prev 2011 Dec;20(12):2628-36. PMID: 21960692
  • Kodesh E, Nesher N, Simaan A, Hochner B et al. Heat acclimation and exercise training interact when combined in an overriding and trade-off manner: physiologic-genomic linkage. Am J Physiol Regul Integr Comp Physiol 2011 Dec;301(6):R1786-97. PMID: 21957158
  • Zhang L, Ju X, Cheng Y, Guo X et al. Identifying Tmem59 related gene regulatory network of mouse neural stem cell from a compendium of expression profiles. BMC Syst Biol 2011 Sep 29;5:152. PMID: 21955788
  • Ojala KA, Kilpinen SK, Kallioniemi OP et al. Classification of unknown primary tumors with a data-driven method based on a large microarray reference database. Genome Med 2011 Oct 17;3(9):63. PMID: 21955394
  • Hench VK, Su L et al. Regulation of IL-2 gene expression by Siva and FOXP3 in human T cells. BMC Immunol 2011 Sep 28;12:54. PMID: 21955384
  • Qian Y, Hua E, Bisht K, Woditschka S et al. Inhibition of Polo-like kinase 1 prevents the growth of metastatic breast cancer cells in the brain. Clin Exp Metastasis 2011 Dec;28(8):899-908. PMID: 21953073
  • Mori T, Ikeda DD, Fukushima T, Takenoshita S et al. NIRF constitutes a nodal point in the cell cycle network and is a candidate tumor suppressor. Cell Cycle 2011 Oct 1;10(19):3284-99. PMID: 21952639
  • Kempster SL, Belteki G, Licence D, Charnock-Jones DS et al. Disruption of paraoxonase 3 impairs proliferation and antioxidant defenses in human A549 cells and causes embryonic lethality in mice. Am J Physiol Endocrinol Metab 2012 Jan 1;302(1):E103-7. PMID: 21952037
  • Gower AC, Spira A, Lenburg ME et al. Discovering biological connections between experimental conditions based on common patterns of differential gene expression. BMC Bioinformatics 2011 Sep 27;12:381. PMID: 21951600
  • Cui H, Hao Y, Kovtun M, Stolc V et al. Genome-wide direct target analysis reveals a role for SHORT-ROOT in root vascular patterning through cytokinin homeostasis. Plant Physiol 2011 Nov;157(3):1221-31. PMID: 21951467
  • Schmidt A, Wuest SE, Vijverberg K, Baroux C et al. Transcriptome analysis of the Arabidopsis megaspore mother cell uncovers the importance of RNA helicases for plant germline development. PLoS Biol 2011 Sep;9(9):e1001155. PMID: 21949639
  • Dompe N, Rivers CS, Li L, Cordes S et al. A whole-genome RNAi screen identifies an 8q22 gene cluster that inhibits death receptor-mediated apoptosis. Proc Natl Acad Sci U S A 2011 Oct 25;108(43):E943-51. PMID: 21949371
  • Crozat K, Tamoutounour S, Vu Manh TP, Fossum E et al. Cutting edge: expression of XCR1 defines mouse lymphoid-tissue resident and migratory dendritic cells of the CD8α+ type. J Immunol 2011 Nov 1;187(9):4411-5. PMID: 21948982
  • Wilson BA, Masel J et al. Putatively noncoding transcripts show extensive association with ribosomes. Genome Biol Evol 2011;3:1245-52. PMID: 21948395
  • Park J, Xu K, Park T, Yi SV et al. What are the determinants of gene expression levels and breadths in the human genome? Hum Mol Genet 2012 Jan 1;21(1):46-56. PMID: 21945885
  • Xiong Q, Ancona N, Hauser ER, Mukherjee S et al. Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets. Genome Res 2012 Feb;22(2):386-97. PMID: 21940837
  • Nanty L, Carbajosa G, Heap GA, Ratnieks F et al. Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates. Genome Res 2011 Nov;21(11):1841-50. PMID: 21940836
  • Hägerstrand D, He X, Bradic Lindh M, Hoefs S et al. Identification of a SOX2-dependent subset of tumor- and sphere-forming glioblastoma cells with a distinct tyrosine kinase inhibitor sensitivity profile. Neuro Oncol 2011 Nov;13(11):1178-91. PMID: 21940738
  • Keller PJ, Arendt LM, Skibinski A, Logvinenko T et al. Defining the cellular precursors to human breast cancer. Proc Natl Acad Sci U S A 2012 Feb 21;109(8):2772-7. PMID: 21940501
  • Pavlidis SP, Payne AM, Swift SM et al. Multi-membership gene regulation in pathway based microarray analysis. Algorithms Mol Biol 2011 Sep 22;6:22. PMID: 21939531
  • Noordermeer SM, Sanders MA, Gilissen C, Tönnissen E et al. High BRE expression predicts favorable outcome in adult acute myeloid leukemia, in particular among MLL-AF9-positive patients. Blood 2011 Nov 17;118(20):5613-21. PMID: 21937695
  • Wey S, Luo B, Tseng CC, Ni M et al. Inducible knockout of GRP78/BiP in the hematopoietic system suppresses Pten-null leukemogenesis and AKT oncogenic signaling. Blood 2012 Jan 19;119(3):817-25. PMID: 21937694
  • Kim SH, Park YY, Kim SW, Lee JS et al. ANGPTL4 induction by prostaglandin E2 under hypoxic conditions promotes colorectal cancer progression. Cancer Res 2011 Nov 15;71(22):7010-20. PMID: 21937683
  • Mamessier E, Sylvain A, Bertucci F, Castellano R et al. Human breast tumor cells induce self-tolerance mechanisms to avoid NKG2D-mediated and DNAM-mediated NK cell recognition. Cancer Res 2011 Nov 1;71(21):6621-32. PMID: 21937679
  • Taminau J, Steenhoff D, Coletta A, Meganck S et al. inSilicoDb: an R/Bioconductor package for accessing human Affymetrix expert-curated datasets from GEO. Bioinformatics 2011 Nov 15;27(22):3204-5. PMID: 21937664
  • Lu TP, Lai LC, Tsai MH, Chen PC et al. Integrated analyses of copy number variations and gene expression in lung adenocarcinoma. PLoS One 2011;6(9):e24829. PMID: 21935476
  • Liu J, Jolly RA, Smith AT, Searfoss GH et al. Predictive Power Estimation Algorithm (PPEA)--a new algorithm to reduce overfitting for genomic biomarker discovery. PLoS One 2011;6(9):e24233. PMID: 21935387
  • Claerhout S, Lim JY, Choi W, Park YY et al. Gene expression signature analysis identifies vorinostat as a candidate therapy for gastric cancer. PLoS One 2011;6(9):e24662. PMID: 21931799
  • Gonin J, Larousserie F, Bastard C, Picquenot JM et al. Epstein-Barr virus-induced gene 3 (EBI3): a novel diagnosis marker in Burkitt lymphoma and diffuse large B-cell lymphoma. PLoS One 2011;6(9):e24617. PMID: 21931777
  • Somwar R, Erdjument-Bromage H, Larsson E, Shum D et al. Superoxide dismutase 1 (SOD1) is a target for a small molecule identified in a screen for inhibitors of the growth of lung adenocarcinoma cell lines. Proc Natl Acad Sci U S A 2011 Sep 27;108(39):16375-80. PMID: 21930909
  • Liu K, Ling S, Lin WC et al. TopBP1 mediates mutant p53 gain of function through NF-Y and p63/p73. Mol Cell Biol 2011 Nov;31(22):4464-81. PMID: 21930790
  • Miura K, Matsuo J, Rahman MA, Kumagai Y et al. Ehrlichia chaffeensis induces monocyte inflammatory responses through MyD88, ERK, and NF-κB but not through TRIF, interleukin-1 receptor 1 (IL-1R1)/IL-18R1, or toll-like receptors. Infect Immun 2011 Dec;79(12):4947-56. PMID: 21930764
  • Cheng C, Gerstein M et al. Modeling the relative relationship of transcription factor binding and histone modifications to gene expression levels in mouse embryonic stem cells. Nucleic Acids Res 2012 Jan;40(2):553-68. PMID: 21926158
  • Bai J, Hu S et al. Transcriptome network analysis reveals potential candidate genes for squamous lung cancer. Int J Mol Med 2012 Jan;29(1):95-101. PMID: 21922129
  • Dong L, Bard AJ, Richards WG, Nitz MD et al. A gene expression ratio-based diagnostic test for bladder cancer. Adv Appl Bioinform Chem 2009;2:17-22. PMID: 21918612
  • Engelmann JC, Deeken R, Müller T, Nimtz G et al. Is gene activity in plant cells affected by UMTS-irradiation? A whole genome approach. Adv Appl Bioinform Chem 2008;1:71-83. PMID: 21918607
  • Knouf EC, Garg K, Arroyo JD, Correa Y et al. An integrative genomic approach identifies p73 and p63 as activators of miR-200 microRNA family transcription. Nucleic Acids Res 2012 Jan;40(2):499-510. PMID: 21917857
  • Neri P, Ren L, Gratton K, Stebner E et al. Bortezomib-induced "BRCAness" sensitizes multiple myeloma cells to PARP inhibitors. Blood 2011 Dec 8;118(24):6368-79. PMID: 21917757
  • Tsankov A, Yanagisawa Y, Rhind N, Regev A et al. Evolutionary divergence of intrinsic and trans-regulated nucleosome positioning sequences reveals plastic rules for chromatin organization. Genome Res 2011 Nov;21(11):1851-62. PMID: 21914852
  • Sima C, Braga-Neto UM, Dougherty ER et al. High-dimensional bolstered error estimation. Bioinformatics 2011 Nov 1;27(21):3056-64. PMID: 21914630
  • Zhao J, Yang TH, Huang Y, Holme P et al. Ranking candidate disease genes from gene expression and protein interaction: a Katz-centrality based approach. PLoS One 2011;6(9):e24306. PMID: 21912686
  • Martens GA, Jiang L, Hellemans KH, Stangé G et al. Clusters of conserved beta cell marker genes for assessment of beta cell phenotype. PLoS One 2011;6(9):e24134. PMID: 21912665
  • Hurtz C, Hatzi K, Cerchietti L, Braig M et al. BCL6-mediated repression of p53 is critical for leukemia stem cell survival in chronic myeloid leukemia. J Exp Med 2011 Oct 24;208(11):2163-74. PMID: 21911423
  • Calvanese V, Fernández AF, Urdinguio RG, Suárez-Alvarez B et al. A promoter DNA demethylation landscape of human hematopoietic differentiation. Nucleic Acids Res 2012 Jan;40(1):116-31. PMID: 21911366
  • Friedländer MR, Mackowiak SD, Li N, Chen W et al. miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res 2012 Jan;40(1):37-52. PMID: 21911355
  • Biasiolo M, Sales G, Lionetti M, Agnelli L et al. Impact of host genes and strand selection on miRNA and miRNA* expression. PLoS One 2011;6(8):e23854. PMID: 21909367
  • Turan N, Kalko S, Stincone A, Clarke K et al. A systems biology approach identifies molecular networks defining skeletal muscle abnormalities in chronic obstructive pulmonary disease. PLoS Comput Biol 2011 Sep;7(9):e1002129. PMID: 21909251
  • Arakawa S, Takahashi A, Ashikawa K, Hosono N et al. Genome-wide association study identifies two susceptibility loci for exudative age-related macular degeneration in the Japanese population. Nat Genet 2011 Sep 11;43(10):1001-4. PMID: 21909106
  • Kristensen VN, Vaske CJ, Ursini-Siegel J, Van Loo P et al. Integrated molecular profiles of invasive breast tumors and ductal carcinoma in situ (DCIS) reveal differential vascular and interleukin signaling. Proc Natl Acad Sci U S A 2012 Feb 21;109(8):2802-7. PMID: 21908711
  • Taguchi A, Politi K, Pitteri SJ, Lockwood WW et al. Lung cancer signatures in plasma based on proteome profiling of mouse tumor models. Cancer Cell 2011 Sep 13;20(3):289-99. PMID: 21907921
  • Li ZH, Liu YF, Li KN, Duanmu HZ et al. Analysis of functional and pathway association of differential co-expressed genes: a case study in drug addiction. J Biomed Inform 2012 Feb;45(1):30-6. PMID: 21907308
  • Arora H, Qureshi R, Park AK, Park WY et al. Coordinated regulation of ATF2 by miR-26b in γ-irradiated lung cancer cells. PLoS One 2011;6(8):e23802. PMID: 21901137
  • Ly-Huynh JD, Lieu KG, Major AT, Whiley PA et al. Importin alpha2-interacting proteins with nuclear roles during mammalian spermatogenesis. Biol Reprod 2011 Dec;85(6):1191-202. PMID: 21900684
  • Ahn YH, Yang Y, Gibbons DL, Creighton CJ et al. Map2k4 functions as a tumor suppressor in lung adenocarcinoma and inhibits tumor cell invasion by decreasing peroxisome proliferator-activated receptor γ2 expression. Mol Cell Biol 2011 Nov;31(21):4270-85. PMID: 21896780
  • Spradling AC, Bellen HJ, Hoskins RA et al. Drosophila P elements preferentially transpose to replication origins. Proc Natl Acad Sci U S A 2011 Sep 20;108(38):15948-53. PMID: 21896744
  • Soto-Girón MJ, García-Vallejo F et al. Changes in the topology of gene expression networks by human immunodeficiency virus type 1 (HIV-1) integration in macrophages. Virus Res 2012 Jan;163(1):91-7. PMID: 21896293
  • Fang Z, Tian W, Ji H et al. A network-based gene-weighting approach for pathway analysis. Cell Res 2012 Mar;22(3):565-80. PMID: 21894192
  • Shi M, Zhang B et al. Semi-supervised learning improves gene expression-based prediction of cancer recurrence. Bioinformatics 2011 Nov 1;27(21):3017-23. PMID: 21893520
  • Agnelli L, Forcato M, Ferrari F, Tuana G et al. The reconstruction of transcriptional networks reveals critical genes with implications for clinical outcome of multiple myeloma. Clin Cancer Res 2011 Dec 1;17(23):7402-12. PMID: 21890453
  • Zheng W, Wang Z, Collins JE, Andrews RM et al. Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and mammalian lung. PLoS One 2011;6(8):e24019. PMID: 21887364
  • Rodrigues CO, Shehadeh LA, Hoosien M, Otero V et al. Heterogeneity in SDF-1 expression defines the vasculogenic potential of adult cardiac progenitor cells. PLoS One 2011;6(8):e24013. PMID: 21887363
  • Goel M, Sienkiewicz AE, Picciani R, Lee RK et al. Cochlin induced TREK-1 co-expression and annexin A2 secretion: role in trabecular meshwork cell elongation and motility. PLoS One 2011;6(8):e23070. PMID: 21886777
  • Gulsuner S, Tekinay AB, Doerschner K, Boyaci H et al. Homozygosity mapping and targeted genomic sequencing reveal the gene responsible for cerebellar hypoplasia and quadrupedal locomotion in a consanguineous kindred. Genome Res 2011 Dec;21(12):1995-2003. PMID: 21885617
  • Lee IH, Lushington GH, Visvanathan M et al. A filter-based feature selection approach for identifying potential biomarkers for lung cancer. J Clin Bioinforma 2011 Mar 21;1(1):11. PMID: 21884628
  • Bebek G, Orloff M, Eng C et al. Microenvironmental genomic alterations reveal signaling networks for head and neck squamous cell carcinoma. J Clin Bioinforma 2011 Aug 2;1(1):21. PMID: 21884569
  • Hwang PI, Wu HB, Wang CD, Lin BL et al. Tissue-specific gene expression templates for accurate molecular characterization of the normal physiological states of multiple human tissues with implication in development and cancer studies. BMC Genomics 2011 Sep 1;12:439. PMID: 21880155
  • Aue G, Du Y, Cleveland SM, Smith SB et al. Sox4 cooperates with PU.1 haploinsufficiency in murine myeloid leukemia. Blood 2011 Oct 27;118(17):4674-81. PMID: 21878674
  • Sommariva M, De Cecco L, De Cesare M, Sfondrini L et al. TLR9 agonists oppositely modulate DNA repair genes in tumor versus immune cells and enhance chemotherapy effects. Cancer Res 2011 Oct 15;71(20):6382-90. PMID: 21878529
  • Orr KS, Shi Z, Brown WM, O'Hagan KA et al. Potential prognostic marker ubiquitin carboxyl-terminal hydrolase-L1 does not predict patient survival in non-small cell lung carcinoma. J Exp Clin Cancer Res 2011 Aug 30;30(1):79. PMID: 21878121
  • Jagannathan V, Robinson-Rechavi M et al. Meta-analysis of estrogen response in MCF-7 distinguishes early target genes involved in signaling and cell proliferation from later target genes involved in cell cycle and DNA repair. BMC Syst Biol 2011 Aug 30;5:138. PMID: 21878096
  • Kleger A, Liebau S, Lin Q, von Wichert G et al. The impact of bioactive lipids on cardiovascular development. Stem Cells Int 2011;2011:916180. PMID: 21876704
  • Zhang ZZ, Liu X, Wang DQ, Teng MK et al. Hepatitis B virus and hepatocellular carcinoma at the miRNA level. World J Gastroenterol 2011 Jul 28;17(28):3353-8. PMID: 21876625
  • Viatour P, Ehmer U, Saddic LA, Dorrell C et al. Notch signaling inhibits hepatocellular carcinoma following inactivation of the RB pathway. J Exp Med 2011 Sep 26;208(10):1963-76. PMID: 21875955
  • Ivanov R, Brumbarova T, Bauer P et al. Fitting into the harsh reality: regulation of iron-deficiency responses in dicotyledonous plants. Mol Plant 2012 Jan;5(1):27-42. PMID: 21873619
  • Morganella S, Pagnotta SM, Ceccarelli M et al. Finding recurrent copy number alterations preserving within-sample homogeneity. Bioinformatics 2011 Nov 1;27(21):2949-56. PMID: 21873327
  • Wang L, Brugge JS, Janes KA et al. Intersection of FOXO- and RUNX1-mediated gene expression programs in single breast epithelial cells during morphogenesis and tumor progression. Proc Natl Acad Sci U S A 2011 Oct 4;108(40):E803-12. PMID: 21873240
  • Hicks C, Asfour R, Pannuti A, Miele L et al. An integrative genomics approach to biomarker discovery in breast cancer. Cancer Inform 2011;10:185-204. PMID: 21869864
  • Pan D, Kocherginsky M, Conzen SD et al. Activation of the glucocorticoid receptor is associated with poor prognosis in estrogen receptor-negative breast cancer. Cancer Res 2011 Oct 15;71(20):6360-70. PMID: 21868756
  • Ellegren HEmergence of male-biased genes on the chicken Z-chromosome: sex-chromosome contrasts between male and female heterogametic systems. Genome Res 2011 Dec;21(12):2082-6. PMID: 21868722
  • Lee YS, Chao A, Chen CH, Chou T et al. Analysis of human meiotic recombination events with a parent-sibling tracing approach. BMC Genomics 2011 Aug 26;12:434. PMID: 21867557
  • Itman C, Wong C, Whiley PA, Fernando D et al. TGFβ superfamily signaling regulators are differentially expressed in the developing and adult mouse testis. Spermatogenesis 2011 Jan;1(1):63-72. PMID: 21866277
  • Marshall E, Lowrey J, MacPherson S, Maybin JA et al. In silico analysis identifies a novel role for androgens in the regulation of human endometrial apoptosis. J Clin Endocrinol Metab 2011 Nov;96(11):E1746-55. PMID: 21865353
  • Lamers F, van der Ploeg I, Schild L, Ebus ME et al. Knockdown of survivin (BIRC5) causes apoptosis in neuroblastoma via mitotic catastrophe. Endocr Relat Cancer 2011 Oct;18(6):657-68. PMID: 21859926
  • Mareschal S, Lanic H, Ruminy P, Bastard C et al. The proportion of activated B-cell like subtype among de novo diffuse large B-cell lymphoma increases with age. Haematologica 2011 Dec;96(12):1888-90. PMID: 21859735
  • Fekete T, Rásó E, Pete I, Tegze B et al. Meta-analysis of gene expression profiles associated with histological classification and survival in 829 ovarian cancer samples. Int J Cancer 2012 Jul 1;131(1):95-105. PMID: 21858809
  • Washington NL, Stinson EO, Perry MD, Ruzanov P et al. The modENCODE Data Coordination Center: lessons in harvesting comprehensive experimental details. Database (Oxford) 2011;2011:bar023. PMID: 21856757
  • Bourgo RJ, Thangavel C, Ertel A, Bergseid J et al. RB restricts DNA damage-initiated tumorigenesis through an LXCXE-dependent mechanism of transcriptional control. Mol Cell 2011 Aug 19;43(4):663-72. PMID: 21855804
  • Yin RX, Li YY, Lai CQ et al. Apolipoprotein A1/C3/A5 haplotypes and serum lipid levels. Lipids Health Dis 2011 Aug 19;10:140. PMID: 21854571
  • Ugolin N, Ory C, Lefevre E, Benhabiles N et al. Strategy to find molecular signatures in a small series of rare cancers: validation for radiation-induced breast and thyroid tumors. PLoS One 2011;6(8):e23581. PMID: 21853153
  • Koth LL, Solberg OD, Peng JC, Bhakta NR et al. Sarcoidosis blood transcriptome reflects lung inflammation and overlaps with tuberculosis. Am J Respir Crit Care Med 2011 Nov 15;184(10):1153-63. PMID: 21852540
  • Hombrink P, Hadrup SR, Bakker A, Kester MG et al. High-throughput identification of potential minor histocompatibility antigens by MHC tetramer-based screening: feasibility and limitations. PLoS One 2011;6(8):e22523. PMID: 21850230
  • Sirota M, Dudley JT, Kim J, Chiang AP et al. Discovery and preclinical validation of drug indications using compendia of public gene expression data. Sci Transl Med 2011 Aug 17;3(96):96ra77. PMID: 21849665
  • Dudley JT, Sirota M, Shenoy M, Pai RK et al. Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease. Sci Transl Med 2011 Aug 17;3(96):96ra76. PMID: 21849664
  • Hao H, Tummala P, Guzman E, Mali RS et al. The transcription factor neural retina leucine zipper (NRL) controls photoreceptor-specific expression of myocyte enhancer factor Mef2c from an alternative promoter. J Biol Chem 2011 Oct 7;286(40):34893-902. PMID: 21849497
  • Tang X, Wang J, Liu B, Li M et al. A comparison of the functional modules identified from time course and static PPI network data. BMC Bioinformatics 2011 Aug 15;12:339. PMID: 21849017
  • Choi K, Le T, Xing G, Johnson LR et al. Analysis of kinase gene expression in the frontal cortex of suicide victims: implications of fear and stress. Front Behav Neurosci 2011;5:46. PMID: 21847376
  • Nozaki T, Yachie N, Ogawa R, Kratz A et al. Tight associations between transcription promoter type and epigenetic variation in histone positioning and modification. BMC Genomics 2011 Aug 17;12:416. PMID: 21846408
  • Chowdhury NHistopathological and genomic grading provide complementary prognostic information in breast cancer: a study on publicly available datasets. Patholog Res Int 2011;2011:890938. PMID: 21845210
  • Novikov L, Park JW, Chen H, Klerman H et al. QKI-mediated alternative splicing of the histone variant MacroH2A1 regulates cancer cell proliferation. Mol Cell Biol 2011 Oct;31(20):4244-55. PMID: 21844227
  • Tomikawa J, Shimokawa H, Uesaka M, Yamamoto N et al. Single-stranded noncoding RNAs mediate local epigenetic alterations at gene promoters in rat cell lines. J Biol Chem 2011 Oct 7;286(40):34788-99. PMID: 21844201
  • Young JC, Major AT, Miyamoto Y, Loveland KL et al. Distinct effects of importin α2 and α4 on Oct3/4 localization and expression in mouse embryonic stem cells. FASEB J 2011 Nov;25(11):3958-65. PMID: 21840941
  • Mahmoudi M, Laurent S, Shokrgozar MA, Hosseinkhani M et al. Toxicity evaluations of superparamagnetic iron oxide nanoparticles: cell "vision" versus physicochemical properties of nanoparticles. ACS Nano 2011 Sep 27;5(9):7263-76. PMID: 21838310
  • Mestdagh P, Lefever S, Pattyn F, Ridzon D et al. The microRNA body map: dissecting microRNA function through integrative genomics. Nucleic Acids Res 2011 Nov 1;39(20):e136. PMID: 21835775
  • Sin S, Bonin F, Petit V, Meseure D et al. Role of the focal adhesion protein kindlin-1 in breast cancer growth and lung metastasis. J Natl Cancer Inst 2011 Sep 7;103(17):1323-37. PMID: 21832234
  • Kugler KG, Mueller LA, Graber A, Dehmer M et al. Integrative network biology: graph prototyping for co-expression cancer networks. PLoS One 2011;6(7):e22843. PMID: 21829532
  • Natsume-Kitatani Y, Shiga M, Mamitsuka H et al. Genome-wide integration on transcription factors, histone acetylation and gene expression reveals genes co-regulated by histone modification patterns. PLoS One 2011;6(7):e22281. PMID: 21829453
  • Barth AS, Kumordzie A, Frangakis C, Margulies KB et al. Reciprocal transcriptional regulation of metabolic and signaling pathways correlates with disease severity in heart failure. Circ Cardiovasc Genet 2011 Oct;4(5):475-83. PMID: 21828333
  • Woo AJ, Kim J, Xu J, Huang H et al. Role of ZBP-89 in human globin gene regulation and erythroid differentiation. Blood 2011 Sep 29;118(13):3684-93. PMID: 21828133
  • Andersson ER, Sandberg R, Lendahl U et al. Notch signaling: simplicity in design, versatility in function. Development 2011 Sep;138(17):3593-612. PMID: 21828089
  • Cruchaga C, Nowotny P, Kauwe JS, Ridge PG et al. Association and expression analyses with single-nucleotide polymorphisms in TOMM40 in Alzheimer disease. Arch Neurol 2011 Aug;68(8):1013-9. PMID: 21825236
  • Hwang T, Zhang W, Xie M, Liu J et al. Inferring disease and gene set associations with rank coherence in networks. Bioinformatics 2011 Oct 1;27(19):2692-9. PMID: 21824970
  • Zheng S, Tansey WP, Hiebert SW, Zhao Z et al. Integrative network analysis identifies key genes and pathways in the progression of hepatitis C virus induced hepatocellular carcinoma. BMC Med Genomics 2011 Aug 8;4:62. PMID: 21824427
  • Jethava V, Bhattacharyya C, Dubhashi D, Vemuri GN et al. NETGEM: Network Embedded Temporal GEnerative Model for gene expression data. BMC Bioinformatics 2011 Aug 8;12:327. PMID: 21824426
  • Park D, Jeong HO, Kim BC, Ha YM et al. Computational approach to identify enzymes that are potential therapeutic candidates for psoriasis. Enzyme Res 2011;2011:826784. PMID: 21822480
  • Chang AY, Liao BY et al. DNA methylation rebalances gene dosage after mammalian gene duplications. Mol Biol Evol 2012 Jan;29(1):133-44. PMID: 21821837
  • Esposito N, Colavita I, Quintarelli C, Sica AR et al. SHP-1 expression accounts for resistance to imatinib treatment in Philadelphia chromosome-positive cells derived from patients with chronic myeloid leukemia. Blood 2011 Sep 29;118(13):3634-44. PMID: 21821701
  • Krig SR, Frietze S, Simion C, Miller JK et al. Lrig1 is an estrogen-regulated growth suppressor and correlates with longer relapse-free survival in ERα-positive breast cancer. Mol Cancer Res 2011 Oct;9(10):1406-17. PMID: 21821674
  • Noh M, Smith JL, Huh YH, Sherley JL et al. A resource for discovering specific and universal biomarkers for distributed stem cells. PLoS One 2011;6(7):e22077. PMID: 21818293
  • Sanford T, Chung PH, Reinish A, Valera V et al. Molecular sub-classification of renal epithelial tumors using meta-analysis of gene expression microarrays. PLoS One 2011;6(7):e21260. PMID: 21818257
  • Jiang L, Schlesinger F, Davis CA, Zhang Y et al. Synthetic spike-in standards for RNA-seq experiments. Genome Res 2011 Sep;21(9):1543-51. PMID: 21816910
  • Huff CD, Witherspoon DJ, Zhang Y, Gatenbee C et al. Crohn's disease and genetic hitchhiking at IBD5. Mol Biol Evol 2012 Jan;29(1):101-11. PMID: 21816865
  • Li B, Dewey CN et al. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 2011 Aug 4;12:323. PMID: 21816040
  • Martin MM, Ryan M, Kim R, Zakas AL et al. Genome-wide depletion of replication initiation events in highly transcribed regions. Genome Res 2011 Nov;21(11):1822-32. PMID: 21813623
  • Hollink IH, van den Heuvel-Eibrink MM, Arentsen-Peters ST, Pratcorona M et al. NUP98/NSD1 characterizes a novel poor prognostic group in acute myeloid leukemia with a distinct HOX gene expression pattern. Blood 2011 Sep 29;118(13):3645-56. PMID: 21813447
  • Taft RJ, Hawkins PG, Mattick JS, Morris KV et al. The relationship between transcription initiation RNAs and CCCTC-binding factor (CTCF) localization. Epigenetics Chromatin 2011 Aug 3;4:13. PMID: 21813016
  • Rozowsky J, Abyzov A, Wang J, Alves P et al. AlleleSeq: analysis of allele-specific expression and binding in a network framework. Mol Syst Biol 2011 Aug 2;7:522. PMID: 21811232
  • Geertz M, Travers A, Mehandziska S, Sobetzko P et al. Structural coupling between RNA polymerase composition and DNA supercoiling in coordinating transcription: a global role for the omega subunit? mBio 2011;2(4). PMID: 21810966
  • Kato M, Chen X, Inukai S, Zhao H et al. Age-associated changes in expression of small, noncoding RNAs, including microRNAs, in C. elegans. RNA 2011 Oct;17(10):1804-20. PMID: 21810936
  • Kossenkov AV, Vachani A, Chang C, Nichols C et al. Resection of non-small cell lung cancers reverses tumor-induced gene expression changes in the peripheral immune system. Clin Cancer Res 2011 Sep 15;17(18):5867-77. PMID: 21807633
  • Chern SR, Li SH, Chiu CL, Chang HH et al. Spatiotemporal expression of SERPINE2 in the human placenta and its role in extravillous trophoblast migration and invasion. Reprod Biol Endocrinol 2011 Aug 2;9:106. PMID: 21806836
  • Molina JR, Agarwal NK, Morales FC, Hayashi Y et al. PTEN, NHERF1 and PHLPP form a tumor suppressor network that is disabled in glioblastoma. Oncogene 2012 Mar 8;31(10):1264-74. PMID: 21804599
  • Coyne MJ, Fletcher CM, Reinap B, Comstock LE et al. UDP-glucuronic acid decarboxylases of Bacteroides fragilis and their prevalence in bacteria. J Bacteriol 2011 Oct;193(19):5252-9. PMID: 21804000
  • Huang W, Umbach DM, Vincent Jordan N, Abell AN et al. Efficiently identifying genome-wide changes with next-generation sequencing data. Nucleic Acids Res 2011 Oct;39(19):e130. PMID: 21803788
  • Trinh XB, Tjalma WA, Dirix LY, Vermeulen PB et al. Microarray-based oncogenic pathway profiling in advanced serous papillary ovarian carcinoma. PLoS One 2011;6(7):e22469. PMID: 21799864
  • Childs KL, Davidson RM, Buell CR et al. Gene coexpression network analysis as a source of functional annotation for rice genes. PLoS One 2011;6(7):e22196. PMID: 21799793
  • Falin LJ, Tyler BM et al. Using interpolation to estimate system uncertainty in gene expression experiments. PLoS One 2011;6(7):e22071. PMID: 21799771
  • Miller S, Rogers HA, Lyon P, Rand V et al. Genome-wide molecular characterization of central nervous system primitive neuroectodermal tumor and pineoblastoma. Neuro Oncol 2011 Aug;13(8):866-79. PMID: 21798848
  • Al-Mayhani MT, Grenfell R, Narita M, Piccirillo S et al. NG2 expression in glioblastoma identifies an actively proliferating population with an aggressive molecular signature. Neuro Oncol 2011 Aug;13(8):830-45. PMID: 21798846
  • Kiviluoto S, Decuypere JP, De Smedt H, Missiaen L et al. STIM1 as a key regulator for Ca2+ homeostasis in skeletal-muscle development and function. Skelet Muscle 2011 Apr 4;1(1):16. PMID: 21798093
  • Zarrabi K, Dufour A, Li J, Kuscu C et al. Inhibition of matrix metalloproteinase 14 (MMP-14)-mediated cancer cell migration. J Biol Chem 2011 Sep 23;286(38):33167-77. PMID: 21795678
  • Coward J, Kulbe H, Chakravarty P, Leader D et al. Interleukin-6 as a therapeutic target in human ovarian cancer. Clin Cancer Res 2011 Sep 15;17(18):6083-96. PMID: 21795409
  • Xia K, Liu T, Ouyang J, Wang R et al. Genome-wide identification, classification, and expression analysis of autophagy-associated gene homologues in rice (Oryza sativa L.). DNA Res 2011 Oct;18(5):363-77. PMID: 21795261
  • Wirth H, Löffler M, von Bergen M, Binder H et al. Expression cartography of human tissues using self organizing maps. BMC Bioinformatics 2011 Jul 27;12:306. PMID: 21794127
  • Scheubert L, Schmidt R, Repsilber D, Lustrek M et al. Learning biomarkers of pluripotent stem cells in mouse. DNA Res 2011 Aug;18(4):233-51. PMID: 21791477
  • Harten SK, Esteban MA, Shukla D, Ashcroft M et al. Inactivation of the von Hippel-Lindau tumour suppressor gene induces Neuromedin U expression in renal cancer cells. Mol Cancer 2011 Jul 26;10:89. PMID: 21791076
  • Huang L, Zhao S, Frasor JM, Dai Y et al. An integrated bioinformatics approach identifies elevated cyclin E2 expression and E2F activity as distinct features of tamoxifen resistant breast tumors. PLoS One 2011;6(7):e22274. PMID: 21789246
  • Liang Y, Zhang F, Wang J, Joshi T et al. Prediction of drought-resistant genes in Arabidopsis thaliana using SVM-RFE. PLoS One 2011;6(7):e21750. PMID: 21789178
  • Pham L, Christadore L, Schaus S, Kolaczyk ED et al. Network-based prediction for sources of transcriptional dysregulation using latent pathway identification analysis. Proc Natl Acad Sci U S A 2011 Aug 9;108(32):13347-52. PMID: 21788508
  • Höög G, Zarrizi R, von Stedingk K, Jonsson K et al. Nuclear localization of γ-tubulin affects E2F transcriptional activity and S-phase progression. FASEB J 2011 Nov;25(11):3815-27. PMID: 21788450
  • Steininger A, Möbs M, Ullmann R, Köchert K et al. Genomic loss of the putative tumor suppressor gene E2A in human lymphoma. J Exp Med 2011 Aug 1;208(8):1585-93. PMID: 21788410
  • Kranz AL, Eils R, König R et al. Enhancers regulate progression of development in mammalian cells. Nucleic Acids Res 2011 Nov 1;39(20):8689-702. PMID: 21785139
  • Roylance R, Endesfelder D, Gorman P, Burrell RA et al. Relationship of extreme chromosomal instability with long-term survival in a retrospective analysis of primary breast cancer. Cancer Epidemiol Biomarkers Prev 2011 Oct;20(10):2183-94. PMID: 21784954
  • Pritchard JR, Gilbert LA, Meacham CE, Ricks JL et al. Bcl-2 family genetic profiling reveals microenvironment-specific determinants of chemotherapeutic response. Cancer Res 2011 Sep 1;71(17):5850-8. PMID: 21784872
  • LaBreche HG, Nevins JR, Huang E et al. Integrating factor analysis and a transgenic mouse model to reveal a peripheral blood predictor of breast tumors. BMC Med Genomics 2011 Jul 22;4:61. PMID: 21781289
  • Strong ER, Schimenti JC et al. Evidence Implicating CCNB1IP1, a RING Domain-Containing Protein Required for Meiotic Crossing Over in Mice, as an E3 SUMO Ligase. Genes (Basel) 2010 Dec 2;1(3):440-51. PMID: 21779533
  • Bilal E, Alexe G, Yao M, Cong L et al. Identification of the YES1 Kinase as a Therapeutic Target in Basal-Like Breast Cancers. Genes Cancer 2010 Oct;1(10):1063-73. PMID: 21779430
  • Engelen K, Fu Q, Meysman P, Sánchez-Rodríguez A et al. COLOMBOS: access port for cross-platform bacterial expression compendia. PLoS One 2011;6(7):e20938. PMID: 21779320
  • Chung D, Kuan PF, Li B, Sanalkumar R et al. Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data. PLoS Comput Biol 2011 Jul;7(7):e1002111. PMID: 21779159
  • Ukena SN, Velaga S, Geffers R, Grosse J et al. Human regulatory T cells in allogeneic stem cell transplantation. Blood 2011 Sep 29;118(13):e82-92. PMID: 21778340
  • Zhang Y, Chertov O, Zhang J, Hassan R et al. Cytotoxic activity of immunotoxin SS1P is modulated by TACE-dependent mesothelin shedding. Cancer Res 2011 Sep 1;71(17):5915-22. PMID: 21775520
  • Fini MA, Monks J, Farabaugh SM, Wright RM et al. Contribution of xanthine oxidoreductase to mammary epithelial and breast cancer cell differentiation in part modulates inhibitor of differentiation-1. Mol Cancer Res 2011 Sep;9(9):1242-54. PMID: 21775420
  • Sadanandam A, Futakuchi M, Lyssiotis CA, Gibb WJ et al. A cross-species analysis of a mouse model of breast cancer-specific osteolysis and human bone metastases using gene expression profiling. BMC Cancer 2011 Jul 20;11:304. PMID: 21774828
  • Ravindranath A, Yuen HF, Chan KK, Grills C et al. Wnt-β-catenin-Tcf-4 signalling-modulated invasiveness is dependent on osteopontin expression in breast cancer. Br J Cancer 2011 Aug 9;105(4):542-51. PMID: 21772333
  • Cohen AL, Soldi R, Zhang H, Gustafson AM et al. A pharmacogenomic method for individualized prediction of drug sensitivity. Mol Syst Biol 2011 Jul 19;7:513. PMID: 21772261
  • Zheng W, Chung LM, Zhao H et al. Bias detection and correction in RNA-Sequencing data. BMC Bioinformatics 2011 Jul 19;12:290. PMID: 21771300
  • Niu Z, Goodyear SM, Rao S, Wu X et al. MicroRNA-21 regulates the self-renewal of mouse spermatogonial stem cells. Proc Natl Acad Sci U S A 2011 Aug 2;108(31):12740-5. PMID: 21768389
  • Piwowar HAWho shares? Who doesn't? Factors associated with openly archiving raw research data. PLoS One 2011;6(7):e18657. PMID: 21765886
  • Zoppoli G, Solier S, Reinhold WC, Liu H et al. CHEK2 genomic and proteomic analyses reveal genetic inactivation or endogenous activation across the 60 cell lines of the US National Cancer Institute. Oncogene 2012 Jan 26;31(4):403-18. PMID: 21765476
  • Kim K, Chadalapaka G, Lee SO, Yamada D et al. Identification of oncogenic microRNA-17-92/ZBTB4/specificity protein axis in breast cancer. Oncogene 2012 Feb 23;31(8):1034-44. PMID: 21765466
  • Weissglas-Volkov D, Calkin AC, Tusie-Luna T, Sinsheimer JS et al. The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans. J Clin Invest 2011 Aug;121(8):3062-71. PMID: 21765216
  • Gao LL, Xue HW et al. Global analysis of expression profiles of rice receptor-like kinase genes. Mol Plant 2012 Jan;5(1):143-53. PMID: 21765177
  • Zagar L, Mulas F, Garagna S, Zuccotti M et al. Stage prediction of embryonic stem cell differentiation from genome-wide expression data. Bioinformatics 2011 Sep 15;27(18):2546-53. PMID: 21765096
  • Sontrop HM, Verhaegh WF, Reinders MJ, Moerland PD et al. An evaluation protocol for subtype-specific breast cancer event prediction. PLoS One 2011;6(7):e21681. PMID: 21760900
  • de Jonge HJ, Woolthuis CM, Vos AZ, Mulder A et al. Gene expression profiling in the leukemic stem cell-enriched CD34+ fraction identifies target genes that predict prognosis in normal karyotype AML. Leukemia 2011 Dec;25(12):1825-33. PMID: 21760593
  • Waardenberg AJ, Bernardo BC, Ng DCH, Shepherd PR et al. Phosphoinositide 3-kinase (PI3K(p110alpha)) directly regulates key components of the Z-disc and cardiac structure. J Biol Chem 2011 Sep 2;286(35):30837-30846. PMID: 21757757
  • Tzatsos A, Paskaleva P, Lymperi S, Contino G et al. Lysine-specific demethylase 2B (KDM2B)-let-7-enhancer of zester homolog 2 (EZH2) pathway regulates cell cycle progression and senescence in primary cells. J Biol Chem 2011 Sep 23;286(38):33061-9. PMID: 21757686
  • Stany MP, Vathipadiekal V, Ozbun L, Stone RL et al. Identification of novel therapeutic targets in microdissected clear cell ovarian cancers. PLoS One 2011;6(7):e21121. PMID: 21754983
  • Wu H, Zhang Y et al. Tet1 and 5-hydroxymethylation: a genome-wide view in mouse embryonic stem cells. Cell Cycle 2011 Aug 1;10(15):2428-36. PMID: 21750410
  • Song L, Zhang Z, Grasfeder LL, Boyle AP et al. Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome Res 2011 Oct;21(10):1757-67. PMID: 21750106
  • Hansen KD, Wu Z, Irizarry RA, Leek JT et al. Sequencing technology does not eliminate biological variability. Nat Biotechnol 2011 Jul 11;29(7):572-3. PMID: 21747377
  • Shtutman M, Baig M, Levina E, Hurteau G et al. Tumor-specific silencing of COPZ2 gene encoding coatomer protein complex subunit ζ 2 renders tumor cells dependent on its paralogous gene COPZ1. Proc Natl Acad Sci U S A 2011 Jul 26;108(30):12449-54. PMID: 21746916
  • Silk JD, Lakhal S, Laynes R, Vallius L et al. IDO induces expression of a novel tryptophan transporter in mouse and human tumor cells. J Immunol 2011 Aug 15;187(4):1617-25. PMID: 21742973
  • Wotschofsky Z, Meyer HA, Jung M, Fendler A et al. Reference genes for the relative quantification of microRNAs in renal cell carcinomas and their metastases. Anal Biochem 2011 Oct 15;417(2):233-41. PMID: 21741950
  • Thévenet J, Pescini Gobert R, Hooft van Huijsduijnen R, Wiessner C et al. Regulation of LRRK2 expression points to a functional role in human monocyte maturation. PLoS One 2011;6(6):e21519. PMID: 21738687
  • Vegliante MC, Royo C, Palomero J, Salaverria I et al. Epigenetic activation of SOX11 in lymphoid neoplasms by histone modifications. PLoS One 2011;6(6):e21382. PMID: 21738649
  • Desai SS, Rajpurohit YS, Misra HS, Deobagkar DN et al. Characterization of the role of the RadS/RadR two-component system in the radiation resistance of Deinococcus radiodurans. Microbiology (Reading) 2011 Oct;157(Pt 10):2974-2982. PMID: 21737498
  • Buffa FM, Camps C, Winchester L, Snell CE et al. microRNA-associated progression pathways and potential therapeutic targets identified by integrated mRNA and microRNA expression profiling in breast cancer. Cancer Res 2011 Sep 1;71(17):5635-45. PMID: 21737487
  • Luk JM, Burchard J, Zhang C, Liu AM et al. DLK1-DIO3 genomic imprinted microRNA cluster at 14q32.2 defines a stemlike subtype of hepatocellular carcinoma associated with poor survival. J Biol Chem 2011 Sep 2;286(35):30706-30713. PMID: 21737452
  • Giannopoulou EG, Elemento O et al. An integrated ChIP-seq analysis platform with customizable workflows. BMC Bioinformatics 2011 Jul 7;12:277. PMID: 21736739
  • Ezashi T, Matsuyama H, Telugu BP, Roberts RM et al. Generation of colonies of induced trophoblast cells during standard reprogramming of porcine fibroblasts to induced pluripotent stem cells. Biol Reprod 2011 Oct;85(4):779-87. PMID: 21734265
  • Fang H, Jin W, Yang Y, Jin Y et al. An organogenesis network-based comparative transcriptome analysis for understanding early human development in vivo and in vitro. BMC Syst Biol 2011 Jul 6;5:108. PMID: 21733158
  • Pukkila-Worley R, Ausubel FM, Mylonakis E et al. Candida albicans infection of Caenorhabditis elegans induces antifungal immune defenses. PLoS Pathog 2011 Jun;7(6):e1002074. PMID: 21731485
  • De Baets G, Reumers J, Delgado Blanco J, Dopazo J et al. An evolutionary trade-off between protein turnover rate and protein aggregation favors a higher aggregation propensity in fast degrading proteins. PLoS Comput Biol 2011 Jun;7(6):e1002090. PMID: 21731483
  • Wang D, Zavadil J, Martin L, Parisi F et al. Inhibition of nonsense-mediated RNA decay by the tumor microenvironment promotes tumorigenesis. Mol Cell Biol 2011 Sep;31(17):3670-80. PMID: 21730287
  • Nguyen AT, Emelyanov A, Koh CH, Spitsbergen JM et al. A high level of liver-specific expression of oncogenic Kras(V12) drives robust liver tumorigenesis in transgenic zebrafish. Dis Model Mech 2011 Nov;4(6):801-13. PMID: 21729876
  • Fulton DL, Denarier E, Friedman HC, Wasserman WW et al. Towards resolving the transcription factor network controlling myelin gene expression. Nucleic Acids Res 2011 Oct;39(18):7974-91. PMID: 21729871
  • Yang B, Cai LL, Chi XH, Lu XC et al. [Prediction and bioinformatics analysis of human gene expression profiling regulated by amifostine]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2011 Jun;19(3):711-6. PMID: 21729556
  • Libregts SF, Gutiérrez L, de Bruin AM, Wensveen FM et al. Chronic IFN-γ production in mice induces anemia by reducing erythrocyte life span and inhibiting erythropoiesis through an IRF-1/PU.1 axis. Blood 2011 Sep 1;118(9):2578-88. PMID: 21725055
  • Peng YM, van de Garde MD, Cheng KF, Baars PA et al. Specific expression of GPR56 by human cytotoxic lymphocytes. J Leukoc Biol 2011 Oct;90(4):735-40. PMID: 21724806
  • Gadaleta E, Cutts RJ, Kelly GP, Crnogorac-Jurcevic T et al. A global insight into a cancer transcriptional space using pancreatic data: importance, findings and flaws. Nucleic Acids Res 2011 Oct;39(18):7900-7. PMID: 21724610
  • Kang K, Kim J, Chung JH, Lee D et al. Decoding the genome with an integrative analysis tool: combinatorial CRM Decoder. Nucleic Acids Res 2011 Sep 1;39(17):e116. PMID: 21724599
  • Westra JW, Schlage WK, Frushour BP, Gebel S et al. Construction of a computable cell proliferation network focused on non-diseased lung cells. BMC Syst Biol 2011 Jul 2;5:105. PMID: 21722388
  • Xie Z, Bi C, Cheong LL, Liu SC et al. Determinants of sensitivity to DZNep induced apoptosis in multiple myeloma cells. PLoS One 2011;6(6):e21583. PMID: 21720561
  • He W, Liu W, Chew CS, Baker SS et al. Acid secretion-associated translocation of KCNJ15 in gastric parietal cells. Am J Physiol Gastrointest Liver Physiol 2011 Oct;301(4):G591-600. PMID: 21719736
  • Morrissy AS, Griffith M, Marra MA et al. Extensive relationship between antisense transcription and alternative splicing in the human genome. Genome Res 2011 Aug;21(8):1203-12. PMID: 21719572
  • Nair JR, Carlson LM, Koorella C, Rozanski CH et al. CD28 expressed on malignant plasma cells induces a prosurvival and immunosuppressive microenvironment. J Immunol 2011 Aug 1;187(3):1243-53. PMID: 21715687
  • Liao Q, Xiao H, Bu D, Xie C et al. ncFANs: a web server for functional annotation of long non-coding RNAs. Nucleic Acids Res 2011 Jul;39(Web Server issue):W118-24. PMID: 21715382
  • Wu YH, Hu TF, Chen YC, Tsai YN et al. The manipulation of miRNA-gene regulatory networks by KSHV induces endothelial cell motility. Blood 2011 Sep 8;118(10):2896-905. PMID: 21715310
  • Mitra AK, Crews KR, Pounds S, Cao X et al. Genetic variants in cytosolic 5'-nucleotidase II are associated with its expression and cytarabine sensitivity in HapMap cell lines and in patients with acute myeloid leukemia. J Pharmacol Exp Ther 2011 Oct;339(1):9-23. PMID: 21712425
  • Babiarz JE, Hsu R, Melton C, Thomas M et al. A role for noncanonical microRNAs in the mammalian brain revealed by phenotypic differences in Dgcr8 versus Dicer1 knockouts and small RNA sequencing. RNA 2011 Aug;17(8):1489-501. PMID: 21712401
  • Guo Y, Zhang W, Giroux C, Cai Y et al. Identification of the orphan G protein-coupled receptor GPR31 as a receptor for 12-(S)-hydroxyeicosatetraenoic acid. J Biol Chem 2011 Sep 30;286(39):33832-40. PMID: 21712392
  • Ohno Y, Narangajavana J, Yamamoto A, Hattori T et al. Ectopic gene expression and organogenesis in Arabidopsis mutants missing BRU1 required for genome maintenance. Genetics 2011 Sep;189(1):83-95. PMID: 21705754
  • Wang D, Cheng L, Wang M, Wu R et al. Extensive increase of microarray signals in cancers calls for novel normalization assumptions. Comput Biol Chem 2011 Jun;35(3):126-30. PMID: 21704257
  • Tseng CW, Lin CC, Chen CN, Huang HC et al. Integrative network analysis reveals active microRNAs and their functions in gastric cancer. BMC Syst Biol 2011 Jun 26;5:99. PMID: 21703006
  • Bolen CR, Uduman M, Kleinstein SH et al. Cell subset prediction for blood genomic studies. BMC Bioinformatics 2011 Jun 24;12:258. PMID: 21702940
  • Shiraishi Y, Okada-Hatakeyama M, Miyano S et al. A rank-based statistical test for measuring synergistic effects between two gene sets. Bioinformatics 2011 Sep 1;27(17):2399-405. PMID: 21700673
  • Erten S, Bebek G, Ewing RM, Koyutürk M et al. DADA: Degree-Aware Algorithms for Network-Based Disease Gene Prioritization. BioData Min 2011 Jun 24;4:19. PMID: 21699738
  • Li W, Liu CC, Zhang T, Li H et al. Integrative analysis of many weighted co-expression networks using tensor computation. PLoS Comput Biol 2011 Jun;7(6):e1001106. PMID: 21698123
  • Nehrt NL, Clark WT, Radivojac P, Hahn MW et al. Testing the ortholog conjecture with comparative functional genomic data from mammals. PLoS Comput Biol 2011 Jun;7(6):e1002073. PMID: 21695233
  • Shin G, Kang TW, Yang S, Baek SJ et al. GENT: gene expression database of normal and tumor tissues. Cancer Inform 2011;10:149-57. PMID: 21695066
  • Radfar MH, Wong W, Morris Q et al. Computational prediction of intronic microRNA targets using host gene expression reveals novel regulatory mechanisms. PLoS One 2011;6(6):e19312. PMID: 21694770
  • Zhuang K, Vemuri GN, Mahadevan R et al. Economics of membrane occupancy and respiro-fermentation. Mol Syst Biol 2011 Jun 21;7:500. PMID: 21694717
  • Porro A, Iraci N, Soverini S, Diolaiti D et al. c-MYC oncoprotein dictates transcriptional profiles of ATP-binding cassette transporter genes in chronic myelogenous leukemia CD34+ hematopoietic progenitor cells. Mol Cancer Res 2011 Aug;9(8):1054-66. PMID: 21693596
  • Doehlemann G, Reissmann S, Assmann D, Fleckenstein M et al. Two linked genes encoding a secreted effector and a membrane protein are essential for Ustilago maydis-induced tumour formation. Mol Microbiol 2011 Aug;81(3):751-66. PMID: 21692877
  • Splinter E, de Wit E, Nora EP, Klous P et al. The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA. Genes Dev 2011 Jul 1;25(13):1371-83. PMID: 21690198
  • Bauer T, Eils R, König R et al. RIP: the regulatory interaction predictor--a machine learning-based approach for predicting target genes of transcription factors. Bioinformatics 2011 Aug 15;27(16):2239-47. PMID: 21690103
  • Dudley JT, Deshpande T, Butte AJ et al. Exploiting drug-disease relationships for computational drug repositioning. Brief Bioinform 2011 Jul;12(4):303-11. PMID: 21690101
  • Bushati N, Smith J, Briscoe J, Watkins C et al. An intuitive graphical visualization technique for the interrogation of transcriptome data. Nucleic Acids Res 2011 Sep 1;39(17):7380-9. PMID: 21690098
  • Shu W, Chen H, Bo X, Wang S et al. Genome-wide analysis of the relationships between DNaseI HS, histone modifications and gene expression reveals distinct modes of chromatin domains. Nucleic Acids Res 2011 Sep 1;39(17):7428-43. PMID: 21685456
  • Furlotte NA, Kang HM, Ye C, Eskin E et al. Mixed-model coexpression: calculating gene coexpression while accounting for expression heterogeneity. Bioinformatics 2011 Jul 1;27(13):i288-94. PMID: 21685083
  • Dao P, Wang K, Collins C, Ester M et al. Optimally discriminative subnetwork markers predict response to chemotherapy. Bioinformatics 2011 Jul 1;27(13):i205-13. PMID: 21685072
  • Maneck M, Schrader A, Kube D, Spang R et al. Genomic data integration using guided clustering. Bioinformatics 2011 Aug 15;27(16):2231-8. PMID: 21685050
  • Ben-David E, Granot-Hershkovitz E, Monderer-Rothkoff G, Lerer E et al. Identification of a functional rare variant in autism using genome-wide screen for monoallelic expression. Hum Mol Genet 2011 Sep 15;20(18):3632-41. PMID: 21680558
  • Faro A, Giordano D, Spampinato C et al. Combining literature text mining with microarray data: advances for system biology modeling. Brief Bioinform 2012 Jan;13(1):61-82. PMID: 21677032
  • Mani RS, Iyer MK, Cao Q, Brenner JC et al. TMPRSS2-ERG-mediated feed-forward regulation of wild-type ERG in human prostate cancers. Cancer Res 2011 Aug 15;71(16):5387-92. PMID: 21676887
  • Lytkin NI, McVoy L, Weitkamp JH, Aliferis CF et al. Expanding the understanding of biases in development of clinical-grade molecular signatures: a case study in acute respiratory viral infections. PLoS One 2011;6(6):e20662. PMID: 21673802
  • Kais Z, Barsky SH, Mathsyaraja H, Zha A et al. KIAA0101 interacts with BRCA1 and regulates centrosome number. Mol Cancer Res 2011 Aug;9(8):1091-9. PMID: 21673012
  • Chen JL, Li J, Stadler WM, Lussier YA et al. Protein-network modeling of prostate cancer gene signatures reveals essential pathways in disease recurrence. J Am Med Inform Assoc 2011 Jul-Aug;18(4):392-402. PMID: 21672909
  • Alizadeh AA, Gentles AJ, Alencar AJ, Liu CL et al. Prediction of survival in diffuse large B-cell lymphoma based on the expression of 2 genes reflecting tumor and microenvironment. Blood 2011 Aug 4;118(5):1350-8. PMID: 21670469
  • Hu Q, Guo C, Li Y, Aronow BJ et al. LMO7 mediates cell-specific activation of the Rho-myocardin-related transcription factor-serum response factor pathway and plays an important role in breast cancer cell migration. Mol Cell Biol 2011 Aug;31(16):3223-40. PMID: 21670154
  • Wang J, Wang Y, Wang Z, Liu L et al. Synchronization of cytoplasmic and transferred mitochondrial ribosomal protein gene expression in land plants is linked to Telo-box motif enrichment. BMC Evol Biol 2011 Jun 13;11:161. PMID: 21668973
  • Symons S, Nieselt K et al. MGV: a generic graph viewer for comparative omics data. Bioinformatics 2011 Aug 15;27(16):2248-55. PMID: 21666268
  • Graeber K, Linkies A, Wood AT, Leubner-Metzger G et al. A guideline to family-wide comparative state-of-the-art quantitative RT-PCR analysis exemplified with a Brassicaceae cross-species seed germination case study. Plant Cell 2011 Jun;23(6):2045-63. PMID: 21666000
  • Eliades A, Papadantonakis N, Bhupatiraju A, Burridge KA et al. Control of megakaryocyte expansion and bone marrow fibrosis by lysyl oxidase. J Biol Chem 2011 Aug 5;286(31):27630-8. PMID: 21665949
  • Wang H, Huang M, Zhang DY, Zhang F et al. Global profiling of signaling networks: study of breast cancer stem cells and potential regulation. Oncologist 2011;16(7):966-79. PMID: 21665913
  • Kulcheski FR, de Oliveira LF, Molina LG, Almerão MP et al. Identification of novel soybean microRNAs involved in abiotic and biotic stresses. BMC Genomics 2011 Jun 10;12:307. PMID: 21663675
  • Véron AS, Lemaitre C, Gautier C, Lacroix V et al. Close 3D proximity of evolutionary breakpoints argues for the notion of spatial synteny. BMC Genomics 2011 Jun 10;12:303. PMID: 21663614
  • Ke S, Shang S, Kalachikov SM, Morozova I et al. Quantitative evaluation of all hexamers as exonic splicing elements. Genome Res 2011 Aug;21(8):1360-74. PMID: 21659425
  • Briggs J, Paoloni M, Chen QR, Wen X et al. A compendium of canine normal tissue gene expression. PLoS One 2011;6(5):e17107. PMID: 21655323
  • Zhang X, Gamble MJ, Stadler S, Cherrington BD et al. Genome-wide analysis reveals PADI4 cooperates with Elk-1 to activate c-Fos expression in breast cancer cells. PLoS Genet 2011 Jun;7(6):e1002112. PMID: 21655091
  • Hebenstreit D, Fang M, Gu M, Charoensawan V et al. RNA sequencing reveals two major classes of gene expression levels in metazoan cells. Mol Syst Biol 2011 Jun 7;7:497. PMID: 21654674
  • Gottlieb A, Stein GY, Ruppin E, Sharan R et al. PREDICT: a method for inferring novel drug indications with application to personalized medicine. Mol Syst Biol 2011 Jun 7;7:496. PMID: 21654673
  • Greene CS, Troyanskaya OG et al. PILGRM: an interactive data-driven discovery platform for expert biologists. Nucleic Acids Res 2011 Jul;39(Web Server issue):W368-74. PMID: 21653547
  • Young MD, Willson TA, Wakefield MJ, Trounson E et al. ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity. Nucleic Acids Res 2011 Sep 1;39(17):7415-27. PMID: 21652639
  • Tanaka RJ, Ono M, Harrington HA et al. Skin barrier homeostasis in atopic dermatitis: feedback regulation of kallikrein activity. PLoS One 2011;6(5):e19895. PMID: 21647431
  • Chang TY, Wu YH, Cheng CC, Wang HW et al. Differentially regulated splice variants and systems biology analysis of Kaposi's sarcoma-associated herpesvirus-infected lymphatic endothelial cells. Nucleic Acids Res 2011 Sep 1;39(16):6970-85. PMID: 21646333
  • Farber CR, Kelly SA, Baruch E, Yu D et al. Identification of quantitative trait loci influencing skeletal architecture in mice: emergence of Cdh11 as a primary candidate gene regulating femoral morphology. J Bone Miner Res 2011 Sep;26(9):2174-83. PMID: 21638317
  • Innocenti F, Cooper GM, Stanaway IB, Gamazon ER et al. Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue. PLoS Genet 2011 May;7(5):e1002078. PMID: 21637794
  • Beane J, Vick J, Schembri F, Anderlind C et al. Characterizing the impact of smoking and lung cancer on the airway transcriptome using RNA-Seq. Cancer Prev Res (Phila) 2011 Jun;4(6):803-17. PMID: 21636547
  • Mabbott NA, Kenneth Baillie J, Kobayashi A, Donaldson DS et al. Expression of mesenchyme-specific gene signatures by follicular dendritic cells: insights from the meta-analysis of microarray data from multiple mouse cell populations. Immunology 2011 Aug;133(4):482-98. PMID: 21635249
  • Feng J, Liu T, Zhang Y et al. Using MACS to identify peaks from ChIP-Seq data. Curr Protoc Bioinformatics 2011 Jun;Chapter 2:2.14.1-2.14.14. PMID: 21633945
  • Lehmann BD, Bauer JA, Chen X, Sanders ME et al. Identification of human triple-negative breast cancer subtypes and preclinical models for selection of targeted therapies. J Clin Invest 2011 Jul;121(7):2750-67. PMID: 21633166
  • Zentner GE, Tesar PJ, Scacheri PC et al. Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions. Genome Res 2011 Aug;21(8):1273-83. PMID: 21632746
  • Li Y, Wu B, Yu Y, Yang G et al. Genome-wide analysis of the RING finger gene family in apple. Mol Genet Genomics 2011 Jul;286(1):81-94. PMID: 21630098
  • Lin S, Ferguson-Smith AC, Schultz RM, Bartolomei MS et al. Nonallelic transcriptional roles of CTCF and cohesins at imprinted loci. Mol Cell Biol 2011 Aug;31(15):3094-104. PMID: 21628529
  • Taher L, McGaughey DM, Maragh S, Aneas I et al. Genome-wide identification of conserved regulatory function in diverged sequences. Genome Res 2011 Jul;21(7):1139-49. PMID: 21628450
  • Alonso-Perez E, Suarez-Gestal M, Calaza M, Kwan T et al. Cis-regulation of IRF5 expression is unable to fully account for systemic lupus erythematosus association: analysis of multiple experiments with lymphoblastoid cell lines. Arthritis Res Ther 2011 May 31;13(3):R80. PMID: 21627826
  • Chu JH, Lazarus R, Carey VJ, Raby BA et al. Quantifying differential gene connectivity between disease states for objective identification of disease-relevant genes. BMC Syst Biol 2011 May 31;5:89. PMID: 21627793
  • Luciani MG, Seok J, Sayeed A, Champion S et al. Distinctive responsiveness to stromal signaling accompanies histologic grade programming of cancer cells. PLoS One 2011;6(5):e20016. PMID: 21625507
  • Chi SM, Kim J, Kim SY, Nam D et al. ADGO 2.0: interpreting microarray data and list of genes using composite annotations. Nucleic Acids Res 2011 Jul;39(Web Server issue):W302-6. PMID: 21624890
  • Suvorova IA, Tutukina MN, Ravcheev DA, Rodionov DA et al. Comparative genomic analysis of the hexuronate metabolism genes and their regulation in gammaproteobacteria. J Bacteriol 2011 Aug;193(15):3956-63. PMID: 21622752
  • Taniue K, Oda T, Hayashi T, Okuno M et al. A member of the ETS family, EHF, and the ATPase RUVBL1 inhibit p53-mediated apoptosis. EMBO Rep 2011 Jul 1;12(7):682-9. PMID: 21617703
  • Theunissen PT, Pennings JL, Robinson JF, Claessen SM et al. Time-response evaluation by transcriptomics of methylmercury effects on neural differentiation of murine embryonic stem cells. Toxicol Sci 2011 Aug;122(2):437-47. PMID: 21613230
  • Xu Y, Duanmu H, Chang Z, Zhang S et al. The application of gene co-expression network reconstruction based on CNVs and gene expression microarray data in breast cancer. Mol Biol Rep 2012 Feb;39(2):1627-37. PMID: 21611746
  • Racapé M, Duong Van Huyen JP, Danger R, Giral M et al. The involvement of SMILE/TMTC3 in endoplasmic reticulum stress response. PLoS One 2011;6(5):e19321. PMID: 21603654
  • Heluane H, Evans MR, Dagher SF, Bruno-Bárcena JM et al. Meta-analysis and functional validation of nutritional requirements of solventogenic Clostridia growing under butanol stress conditions and coutilization of D-glucose and D-xylose. Appl Environ Microbiol 2011 Jul;77(13):4473-85. PMID: 21602379
  • Gan H, Lin X, Zhang Z, Zhang W et al. piRNA profiling during specific stages of mouse spermatogenesis. RNA 2011 Jul;17(7):1191-203. PMID: 21602304
  • Bret C, Moreaux J, Schved JF, Hose D et al. SULFs in human neoplasia: implication as progression and prognosis factors. J Transl Med 2011 May 21;9:72. PMID: 21599997
  • Tang H, Lee M, Budak MT, Pietras N et al. Intrinsic apoptosis in mechanically ventilated human diaphragm: linkage to a novel Fos/FoxO1/Stat3-Bim axis. FASEB J 2011 Sep;25(9):2921-36. PMID: 21597002
  • Maver A, Peterlin B et al. Positional integratomic approach in identification of genomic candidate regions for Parkinson's disease. Bioinformatics 2011 Jul 15;27(14):1971-8. PMID: 21596793
  • Liang Z, Zhou H, He Z, Zheng H et al. mirAct: a web tool for evaluating microRNA activity based on gene expression data. Nucleic Acids Res 2011 Jul;39(Web Server issue):W139-44. PMID: 21596785
  • Meier S, Tzfadia O, Vallabhaneni R, Gehring C et al. A transcriptional analysis of carotenoid, chlorophyll and plastidial isoprenoid biosynthesis genes during development and osmotic stress responses in Arabidopsis thaliana. BMC Syst Biol 2011 May 19;5:77. PMID: 21595952
  • Duy C, Hurtz C, Shojaee S, Cerchietti L et al. BCL6 enables Ph+ acute lymphoblastic leukaemia cells to survive BCR-ABL1 kinase inhibition. Nature 2011 May 19;473(7347):384-8. PMID: 21593872
  • Taccioli C, Tegnér J, Maselli V, Gomez-Cabrero D et al. ParkDB: a Parkinson's disease gene expression database. Database (Oxford) 2011;2011:bar007. PMID: 21593080
  • Ahmed I, Sarazin A, Bowler C, Colot V et al. Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis. Nucleic Acids Res 2011 Sep 1;39(16):6919-31. PMID: 21586580
  • Hicks C, Pannuti A, Miele L et al. Associating GWAS Information with the Notch Signaling Pathway Using Transcription Profiling. Cancer Inform 2011 Apr 6;10:93-108. PMID: 21584266
  • Maurel B, Le Digarcher A, Dantec C, Journot L et al. Genome-wide profiling of G protein-coupled receptors in cerebellar granule neurons using high-throughput, real-time PCR. BMC Genomics 2011 May 16;12:241. PMID: 21575240
  • Gu H, Zhu P, Jiao Y, Meng Y et al. PRIN: a predicted rice interactome network. BMC Bioinformatics 2011 May 16;12:161. PMID: 21575196
  • Biswas S, Manikandan J, Pushparaj PN et al. Decoding the differential biomarkers of Rheumatoid arthritis and Osteoarthritis: A functional genomics paradigm to design disease specific therapeutics. Bioinformation 2011 May 7;6(4):153-7. PMID: 21572882
  • Hackett NR, Shaykhiev R, Walters MS, Wang R et al. The human airway epithelial basal cell transcriptome. PLoS One 2011 May 4;6(5):e18378. PMID: 21572528
  • Feurtado JA, Huang D, Wicki-Stordeur L, Hemstock LE et al. The Arabidopsis C2H2 zinc finger INDETERMINATE DOMAIN1/ENHYDROUS promotes the transition to germination by regulating light and hormonal signaling during seed maturation. Plant Cell 2011 May;23(5):1772-94. PMID: 21571950
  • Hoenerhoff MJ, Pandiri AR, Lahousse SA, Hong HH et al. Global gene profiling of spontaneous hepatocellular carcinoma in B6C3F1 mice: similarities in the molecular landscape with human liver cancer. Toxicol Pathol 2011 Jun;39(4):678-99. PMID: 21571946
  • Kim YJ, Yoon HY, Kim SK, Kim YW et al. EFEMP1 as a novel DNA methylation marker for prostate cancer: array-based DNA methylation and expression profiling. Clin Cancer Res 2011 Jul 1;17(13):4523-30. PMID: 21571867
  • Movahedi S, Van de Peer Y, Vandepoele K et al. Comparative network analysis reveals that tissue specificity and gene function are important factors influencing the mode of expression evolution in Arabidopsis and rice. Plant Physiol 2011 Jul;156(3):1316-30. PMID: 21571672
  • Li Y, Li C, Ding G, Jin Y et al. Evolution of MIR159/319 microRNA genes and their post-transcriptional regulatory link to siRNA pathways. BMC Evol Biol 2011 May 12;11:122. PMID: 21569383
  • Vanneschi L, Farinaccio A, Mauri G, Antoniotti M et al. A comparison of machine learning techniques for survival prediction in breast cancer. BioData Min 2011 May 11;4:12. PMID: 21569330
  • Vilardell M, Rasche A, Thormann A, Maschke-Dutz E et al. Meta-analysis of heterogeneous Down Syndrome data reveals consistent genome-wide dosage effects related to neurological processes. BMC Genomics 2011 May 11;12:229. PMID: 21569303
  • Dinavahi R, George A, Tretin A, Akalin E et al. Antibodies reactive to non-HLA antigens in transplant glomerulopathy. J Am Soc Nephrol 2011 Jun;22(6):1168-78. PMID: 21566057
  • Didon L, Barton JL, Roos AB, Gaschler GJ et al. Lung epithelial CCAAT/enhancer-binding protein-β is necessary for the integrity of inflammatory responses to cigarette smoke. Am J Respir Crit Care Med 2011 Jul 15;184(2):233-42. PMID: 21562127
  • Boegsted M, Holst JM, Fogd K, Falgreen S et al. Generation of a predictive melphalan resistance index by drug screen of B-cell cancer cell lines. PLoS One 2011 Apr 29;6(4):e19322. PMID: 21559449
  • Li Y, Li C, Xia J, Jin Y et al. Domestication of transposable elements into MicroRNA genes in plants. PLoS One 2011 May 3;6(5):e19212. PMID: 21559273
  • Augustin R, Lichtenthaler SF, Greeff M, Hansen J et al. Bioinformatics identification of modules of transcription factor binding sites in Alzheimer's disease-related genes by in silico promoter analysis and microarrays. Int J Alzheimers Dis 2011 Apr 26;2011:154325. PMID: 21559189
  • Guerrero-Preston R, Soudry E, Acero J, Orera M et al. NID2 and HOXA9 promoter hypermethylation as biomarkers for prevention and early detection in oral cavity squamous cell carcinoma tissues and saliva. Cancer Prev Res (Phila) 2011 Jul;4(7):1061-72. PMID: 21558411
  • Wei Z, Biswas N, Wang L, Courel M et al. A common genetic variant in the 3'-UTR of vacuolar H+-ATPase ATP6V0A1 creates a micro-RNA motif to alter chromogranin A processing and hypertension risk. Circ Cardiovasc Genet 2011 Aug 1;4(4):381-9. PMID: 21558123
  • Giangreco A, Lu L, Mazzatti DJ, Spencer-Dene B et al. Myd88 deficiency influences murine tracheal epithelial metaplasia and submucosal gland abundance. J Pathol 2011 Jun;224(2):190-202. PMID: 21557220
  • Holweg CT, Potena L, Luikart H, Yu T et al. Identification and classification of acute cardiac rejection by intragraft transcriptional profiling. Circulation 2011 May 24;123(20):2236-43. PMID: 21555702
  • Becker N, Toedt G, Lichter P, Benner A et al. Elastic SCAD as a novel penalization method for SVM classification tasks in high-dimensional data. BMC Bioinformatics 2011 May 9;12:138. PMID: 21554689
  • Muiño JM, Kaufmann K, van Ham RC, Angenent GC et al. ChIP-seq Analysis in R (CSAR): An R package for the statistical detection of protein-bound genomic regions. Plant Methods 2011 May 9;7:11. PMID: 21554688
  • Deveshwar P, Bovill WD, Sharma R, Able JA et al. Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice. BMC Plant Biol 2011 May 9;11:78. PMID: 21554676
  • Isci S, Ozturk C, Jones J, Otu HH et al. Pathway analysis of high-throughput biological data within a Bayesian network framework. Bioinformatics 2011 Jun 15;27(12):1667-74. PMID: 21551144
  • Norddahl GL, Pronk CJ, Wahlestedt M, Sten G et al. Accumulating mitochondrial DNA mutations drive premature hematopoietic aging phenotypes distinct from physiological stem cell aging. Cell Stem Cell 2011 May 6;8(5):499-510. PMID: 21549326
  • McCall MN, Murakami PN, Lukk M, Huber W et al. Assessing affymetrix GeneChip microarray quality. BMC Bioinformatics 2011 May 7;12:137. PMID: 21548974
  • Warth A, Muley T, Meister M, Herpel E et al. Loss of aquaporin-4 expression and putative function in non-small cell lung cancer. BMC Cancer 2011 May 6;11:161. PMID: 21548930
  • Tommasi S, Mangia A, Iannelli G, Chiarappa P et al. Gene copy number variation in male breast cancer by aCGH. Cell Oncol (Dordr) 2011 Oct;34(5):467-73. PMID: 21547577
  • Yan Z, Hu HY, Jiang X, Maierhofer V et al. Widespread expression of piRNA-like molecules in somatic tissues. Nucleic Acids Res 2011 Aug;39(15):6596-607. PMID: 21546553
  • Yang X, Yang YN, Xue LJ, Zou MJ et al. Rice ABI5-Like1 regulates abscisic acid and auxin responses by affecting the expression of ABRE-containing genes. Plant Physiol 2011 Jul;156(3):1397-409. PMID: 21546455
  • Liberzon A, Subramanian A, Pinchback R, Thorvaldsdóttir H et al. Molecular signatures database (MSigDB) 3.0. Bioinformatics 2011 Jun 15;27(12):1739-40. PMID: 21546393
  • Chen ZX, Zhang YE, Vibranovski M, Luo J et al. Deficiency of X-linked inverted duplicates with male-biased expression and the underlying evolutionary mechanisms in the Drosophila genome. Mol Biol Evol 2011 Oct;28(10):2823-32. PMID: 21546357
  • Gower AC, Steiling K, Brothers JF 2nd, Lenburg ME et al. Transcriptomic studies of the airway field of injury associated with smoking-related lung disease. Proc Am Thorac Soc 2011 May;8(2):173-9. PMID: 21543797
  • Schröder F, Lisso J, Müssig C et al. EXORDIUM-LIKE1 promotes growth during low carbon availability in Arabidopsis. Plant Physiol 2011 Jul;156(3):1620-30. PMID: 21543728
  • Wang A, Huang K, Shen Y, Xue Z et al. Functional modules distinguish human induced pluripotent stem cells from embryonic stem cells. Stem Cells Dev 2011 Nov;20(11):1937-50. PMID: 21542696
  • Ponz-Sarvisé M, Nguewa PA, Pajares MJ, Agorreta J et al. Inhibitor of differentiation-1 as a novel prognostic factor in NSCLC patients with adenocarcinoma histology and its potential contribution to therapy resistance. Clin Cancer Res 2011 Jun 15;17(12):4155-66. PMID: 21540238
  • Boogerd CJ, Wong LY, van den Boogaard M, Bakker ML et al. Sox4 mediates Tbx3 transcriptional regulation of the gap junction protein Cx43. Cell Mol Life Sci 2011 Dec;68(23):3949-61. PMID: 21538160
  • Todoric J, Strobl B, Jais A, Boucheron N et al. Cross-talk between interferon-γ and hedgehog signaling regulates adipogenesis. Diabetes 2011 Jun;60(6):1668-76. PMID: 21536945
  • Lamonica JM, Deng W, Kadauke S, Campbell AE et al. Bromodomain protein Brd3 associates with acetylated GATA1 to promote its chromatin occupancy at erythroid target genes. Proc Natl Acad Sci U S A 2011 May 31;108(22):E159-68. PMID: 21536911
  • Wang L, Sun L, Huang J, Jiang M et al. Cyclin-dependent kinase inhibitor 3 (CDKN3) novel cell cycle computational network between human non-malignancy associated hepatitis/cirrhosis and hepatocellular carcinoma (HCC) transformation. Cell Prolif 2011 Jun;44(3):291-9. PMID: 21535270
  • Zhou L, Opalinska J, Sohal D, Yu Y et al. Aberrant epigenetic and genetic marks are seen in myelodysplastic leukocytes and reveal Dock4 as a candidate pathogenic gene on chromosome 7q. J Biol Chem 2011 Jul 15;286(28):25211-23. PMID: 21532034
  • Redmond LC, Dumur CI, Archer KJ, Grayson DR et al. Krüppel-like factor 2 regulated gene expression in mouse embryonic yolk sac erythroid cells. Blood Cells Mol Dis 2011 Jun 15;47(1):1-11. PMID: 21530336
  • Duval E, Bigot N, Hervieu M, Kou I et al. Asporin expression is highly regulated in human chondrocytes. Mol Med 2011;17(7-8):816-23. PMID: 21528154
  • Lu J, Kerns RT, Peddada SD, Bushel PR et al. Principal component analysis-based filtering improves detection for Affymetrix gene expression arrays. Nucleic Acids Res 2011 Jul;39(13):e86. PMID: 21525126
  • Gallo CA, Carballido JA, Ponzoni I et al. Discovering time-lagged rules from microarray data using gene profile classifiers. BMC Bioinformatics 2011 Apr 27;12:123. PMID: 21524308
  • Witkiewicz AK, Kline J, Queenan M, Brody JR et al. Molecular profiling of a lethal tumor microenvironment, as defined by stromal caveolin-1 status in breast cancers. Cell Cycle 2011 Jun 1;10(11):1794-809. PMID: 21521946
  • Hu Z, Gu X, Baraoidan K, Ibanez V et al. RUNX1 regulates corepressor interactions of PU.1. Blood 2011 Jun 16;117(24):6498-508. PMID: 21518930
  • Kim T, Veronese A, Pichiorri F, Lee TJ et al. p53 regulates epithelial-mesenchymal transition through microRNAs targeting ZEB1 and ZEB2. J Exp Med 2011 May 9;208(5):875-83. PMID: 21518799
  • Hartman ZC, Yang XY, Glass O, Lei G et al. HER2 overexpression elicits a proinflammatory IL-6 autocrine signaling loop that is critical for tumorigenesis. Cancer Res 2011 Jul 1;71(13):4380-91. PMID: 21518778
  • Wu LC, Pfeiffer DR, Calhoon EA, Madiai F et al. Purification, identification, and cloning of lysoplasmalogenase, the enzyme that catalyzes hydrolysis of the vinyl ether bond of lysoplasmalogen. J Biol Chem 2011 Jul 15;286(28):24916-30. PMID: 21515882
  • Moyroud E, Minguet EG, Ott F, Yant L et al. Prediction of regulatory interactions from genome sequences using a biophysical model for the Arabidopsis LEAFY transcription factor. Plant Cell 2011 Apr;23(4):1293-306. PMID: 21515819
  • Hackenberg M, Rodríguez-Ezpeleta N, Aransay AM et al. miRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments. Nucleic Acids Res 2011 Jul;39(Web Server issue):W132-8. PMID: 21515631
  • Wei AY, Luo XG, Yang Y, He SH et al. [Microarray data analysis of genes related with erectile dysfunction in diabetic rats]. Nan Fang Yi Ke Da Xue Xue Bao 2011 Apr;31(4):694-7. PMID: 21515472
  • Martinez-Outschoorn UE, Prisco M, Ertel A, Tsirigos A et al. Ketones and lactate increase cancer cell "stemness," driving recurrence, metastasis and poor clinical outcome in breast cancer: achieving personalized medicine via Metabolo-Genomics. Cell Cycle 2011 Apr 15;10(8):1271-86. PMID: 21512313
  • Rhind N, Chen Z, Yassour M, Thompson DA et al. Comparative functional genomics of the fission yeasts. Science 2011 May 20;332(6032):930-6. PMID: 21511999
  • Wang M, Wang Q, Zhang X, Yang Y et al. Uncovering the transcriptional circuitry in skeletal muscle regeneration. Mamm Genome 2011 Jun;22(5-6):272-81. PMID: 21509518
  • Khaladkar M, Smyda M, Hannenhalli S et al. Epigenomic and RNA structural correlates of polyadenylation. RNA Biol 2011 May-Jun;8(3):529-37. PMID: 21508683
  • Ogawa D, Abe K, Miyao A, Kojima M et al. RSS1 regulates the cell cycle and maintains meristematic activity under stress conditions in rice. Nat Commun 2011;2:278. PMID: 21505434
  • Popovici V, Budinská E, Delorenzi M et al. Rgtsp: a generalized top scoring pairs package for class prediction. Bioinformatics 2011 Jun 15;27(12):1729-30. PMID: 21505033
  • Agirre E, Eyras E et al. Databases and resources for human small non-coding RNAs. Hum Genomics 2011 Mar;5(3):192-9. PMID: 21504869
  • Ohi Y, Qin H, Hong C, Blouin L et al. Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells. Nat Cell Biol 2011 May;13(5):541-9. PMID: 21499256
  • Lockstone HEExon array data analysis using Affymetrix power tools and R statistical software. Brief Bioinform 2011 Nov;12(6):634-44. PMID: 21498550
  • Ahmady E, Deeke SA, Rabaa S, Kouri L et al. Identification of a novel muscle A-type lamin-interacting protein (MLIP). J Biol Chem 2011 Jun 3;286(22):19702-13. PMID: 21498514
  • Galante PA, Parmigiani RB, Zhao Q, Caballero OL et al. Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individual. Nucleic Acids Res 2011 Aug;39(14):6056-68. PMID: 21493686
  • Nasser S, Cunliffe HE, Black MA, Kim S et al. Context-specific gene regulatory networks subdivide intrinsic subtypes of breast cancer. BMC Bioinformatics 2011 Mar 29;12 Suppl 2(Suppl 2):S3. PMID: 21489222
  • Patterson AD, Bonzo JA, Li F, Krausz KW et al. Metabolomics reveals attenuation of the SLC6A20 kidney transporter in nonhuman primate and mouse models of type 2 diabetes mellitus. J Biol Chem 2011 Jun 3;286(22):19511-22. PMID: 21487016
  • Marcinkowska M, Szymanski M, Krzyzosiak WJ, Kozlowski P et al. Copy number variation of microRNA genes in the human genome. BMC Genomics 2011 Apr 12;12:183. PMID: 21486463
  • Zaravinos A, Lambrou GI, Boulalas I, Delakas D et al. Identification of common differentially expressed genes in urinary bladder cancer. PLoS One 2011 Apr 4;6(4):e18135. PMID: 21483740
  • Zaravinos A, Lambrou GI, Volanis D, Delakas D et al. Spotlight on differentially expressed genes in urinary bladder cancer. PLoS One 2011 Apr 5;6(4):e18255. PMID: 21483670
  • Mendes-Pereira AM, Sims D, Dexter T, Fenwick K et al. Genome-wide functional screen identifies a compendium of genes affecting sensitivity to tamoxifen. Proc Natl Acad Sci U S A 2012 Feb 21;109(8):2730-5. PMID: 21482774
  • Martini P, Risso D, Sales G, Romualdi C et al. Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies. BMC Bioinformatics 2011 Apr 11;12:92. PMID: 21481242
  • Wu N, Castel D, Debily MA, Vigano MA et al. Large scale RNAi screen reveals that the inhibitor of DNA binding 2 (ID2) protein is repressed by p53 family member p63 and functions in human keratinocyte differentiation. J Biol Chem 2011 Jun 10;286(23):20870-9. PMID: 21478550
  • Kossler N, Stricker S, Rödelsperger C, Robinson PN et al. Neurofibromin (Nf1) is required for skeletal muscle development. Hum Mol Genet 2011 Jul 15;20(14):2697-709. PMID: 21478499
  • Neri P, Ren L, Azab AK, Brentnall M et al. Integrin β7-mediated regulation of multiple myeloma cell adhesion, migration, and invasion. Blood 2011 Jun 9;117(23):6202-13. PMID: 21474670
  • Geurts J, Vermeij EA, Pohlers D, Arntz OJ et al. A novel Saa3-promoter reporter distinguishes inflammatory subtypes in experimental arthritis and human synovial fibroblasts. Ann Rheum Dis 2011 Jul;70(7):1311-9. PMID: 21474483
  • Parker MA, Jiang K, Kempfle JS, Mizutari K et al. TAK1 expression in the cochlea: a specific marker for adult supporting cells. J Assoc Res Otolaryngol 2011 Aug;12(4):471-83. PMID: 21472480
  • Luk F, Yu Y, Dong HT, Walsh WR et al. New gene groups associated with dissimilar osteoblastic differentiation are linked to osteosarcomagenesis. Cancer Genomics Proteomics 2011 Mar-Apr;8(2):65-75. PMID: 21471516
  • Everett LJ, Jensen ST, Hannenhalli S et al. Transcriptional regulation via TF-modifying enzymes: an integrative model-based analysis. Nucleic Acids Res 2011 Jul;39(12):e78. PMID: 21470963
  • Chng WJ, Huang GF, Chung TH, Ng SB et al. Clinical and biological implications of MYC activation: a common difference between MGUS and newly diagnosed multiple myeloma. Leukemia 2011 Jun;25(6):1026-35. PMID: 21468039
  • Gawriluk TR, Hale AN, Flaws JA, Dillon CP et al. Autophagy is a cell survival program for female germ cells in the murine ovary. Reproduction 2011 Jun;141(6):759-65. PMID: 21464117
  • Namiki T, Tanemura A, Valencia JC, Coelho SG et al. AMP kinase-related kinase NUAK2 affects tumor growth, migration, and clinical outcome of human melanoma. Proc Natl Acad Sci U S A 2011 Apr 19;108(16):6597-602. PMID: 21460252
  • Kayano M, Takigawa I, Shiga M, Tsuda K et al. ROS-DET: robust detector of switching mechanisms in gene expression. Nucleic Acids Res 2011 Jun;39(11):e74. PMID: 21459849
  • Xue GP, Way HM, Richardson T, Drenth J et al. Overexpression of TaNAC69 leads to enhanced transcript levels of stress up-regulated genes and dehydration tolerance in bread wheat. Mol Plant 2011 Jul;4(4):697-712. PMID: 21459832
  • Kwee I, Rancoita PM, Rinaldi A, Ferreri AJ et al. Genomic profiles of MALT lymphomas: variability across anatomical sites. Haematologica 2011 Jul;96(7):1064-6. PMID: 21459788
  • MacDonald MJ, Longacre MJ, Stoker SW, Kendrick M et al. Differences between human and rodent pancreatic islets: low pyruvate carboxylase, atp citrate lyase, and pyruvate carboxylation and high glucose-stimulated acetoacetate in human pancreatic islets. J Biol Chem 2011 May 27;286(21):18383-96. PMID: 21454710
  • Hao F, Pysz MA, Curry KJ, Haas KN et al. Protein kinase Cα signaling regulates inhibitor of DNA binding 1 in the intestinal epithelium. J Biol Chem 2011 May 20;286(20):18104-17. PMID: 21454537
  • Kilpinen SK, Ojala KA, Kallioniemi OP et al. Alignment of gene expression profiles from test samples against a reference database: New method for context-specific interpretation of microarray data. BioData Min 2011 Mar 31;4:5. PMID: 21453538
  • Knop E, Knop N, Millar T, Obata H et al. The international workshop on meibomian gland dysfunction: report of the subcommittee on anatomy, physiology, and pathophysiology of the meibomian gland. Invest Ophthalmol Vis Sci 2011 Mar;52(4):1938-78. PMID: 21450915
  • Wang Q, Sun J, Zhou M, Yang H et al. A novel network-based method for measuring the functional relationship between gene sets. Bioinformatics 2011 Jun 1;27(11):1521-8. PMID: 21450716
  • Chen L, Wu G, Ji H et al. hmChIP: a database and web server for exploring publicly available human and mouse ChIP-seq and ChIP-chip data. Bioinformatics 2011 May 15;27(10):1447-8. PMID: 21450710
  • Wang J, Kong L, Zhao S, Zhang H et al. Rice-Map: a new-generation rice genome browser. BMC Genomics 2011 Mar 30;12:165. PMID: 21450055
  • Xie L, Pelz C, Wang W, Bashar A et al. KDM5B regulates embryonic stem cell self-renewal and represses cryptic intragenic transcription. EMBO J 2011 Apr 20;30(8):1473-84. PMID: 21448134
  • Schödel J, Oikonomopoulos S, Ragoussis J, Pugh CW et al. High-resolution genome-wide mapping of HIF-binding sites by ChIP-seq. Blood 2011 Jun 9;117(23):e207-17. PMID: 21447827
  • Barone I, Brusco L, Gu G, Selever J et al. Loss of Rho GDIα and resistance to tamoxifen via effects on estrogen receptor α. J Natl Cancer Inst 2011 Apr 6;103(7):538-52. PMID: 21447808
  • Oosterhof R, Ith M, Trepp R, Christ E et al. Regulation of whole body energy homeostasis with growth hormone replacement therapy and endurance exercise. Physiol Genomics 2011 Jun 28;43(12):739-48. PMID: 21447747
  • Ter Elst A, Ma B, Scherpen FJ, de Jonge HJ et al. Repression of vascular endothelial growth factor expression by the runt-related transcription factor 1 in acute myeloid leukemia. Cancer Res 2011 Apr 1;71(7):2761-71. PMID: 21447743
  • Ringnér M, Fredlund E, Häkkinen J, Borg Å et al. GOBO: gene expression-based outcome for breast cancer online. PLoS One 2011 Mar 21;6(3):e17911. PMID: 21445301
  • Rantala JK, Mäkelä R, Aaltola AR, Laasola P et al. A cell spot microarray method for production of high density siRNA transfection microarrays. BMC Genomics 2011 Mar 28;12:162. PMID: 21443765
  • Yeh SH, Yang WB, Gean PW, Hsu CY et al. Translational and transcriptional control of Sp1 against ischaemia through a hydrogen peroxide-activated internal ribosomal entry site pathway. Nucleic Acids Res 2011 Jul;39(13):5412-23. PMID: 21441538
  • Mutwil M, Klie S, Tohge T, Giorgi FM et al. PlaNet: combined sequence and expression comparisons across plant networks derived from seven species. Plant Cell 2011 Mar;23(3):895-910. PMID: 21441431
  • Mochida K, Uehara-Yamaguchi Y, Yoshida T, Sakurai T et al. Global landscape of a co-expressed gene network in barley and its application to gene discovery in Triticeae crops. Plant Cell Physiol 2011 May;52(5):785-803. PMID: 21441235
  • Cserháti M, Turóczy Z, Zombori Z, Cserzo M et al. Prediction of new abiotic stress genes in Arabidopsis thaliana and Oryza sativa according to enumeration-based statistical analysis. Mol Genet Genomics 2011 May;285(5):375-91. PMID: 21437642
  • Jeffries MA, Dozmorov M, Tang Y, Merrill JT et al. Genome-wide DNA methylation patterns in CD4+ T cells from patients with systemic lupus erythematosus. Epigenetics 2011 May;6(5):593-601. PMID: 21436623
  • Shi F, Abraham G, Leckie C, Haviv I et al. Meta-analysis of gene expression microarrays with missing replicates. BMC Bioinformatics 2011 Mar 24;12:84. PMID: 21435268
  • Shah MA, Khanin R, Tang L, Janjigian YY et al. Molecular classification of gastric cancer: a new paradigm. Clin Cancer Res 2011 May 1;17(9):2693-701. PMID: 21430069
  • Chao SY, Chiang JH, Huang AM, Chang WS et al. An integrative approach to identifying cancer chemoresistance-associated pathways. BMC Med Genomics 2011 Mar 24;4:23. PMID: 21429228
  • Walley AJ, Jacobson P, Falchi M, Bottolo L et al. Differential coexpression analysis of obesity-associated networks in human subcutaneous adipose tissue. Int J Obes (Lond) 2012 Jan;36(1):137-47. PMID: 21427694
  • Lewis DR, Ramirez MV, Miller ND, Vallabhaneni P et al. Auxin and ethylene induce flavonol accumulation through distinct transcriptional networks. Plant Physiol 2011 May;156(1):144-64. PMID: 21427279
  • Li GH, Cheung CL, Xiao SM, Lau KS et al. Identification of QTL genes for BMD variation using both linkage and gene-based association approaches. Hum Genet 2011 Oct;130(4):539-46. PMID: 21424381
  • Meijer HJ, Hassen HH, Govers F et al. Phytophthora infestans has a plethora of phospholipase D enzymes including a subclass that has extracellular activity. PLoS One 2011 Mar 14;6(3):e17767. PMID: 21423760
  • Aporntewan C, Phokaew C, Piriyapongsa J, Ngamphiw C et al. Hypomethylation of intragenic LINE-1 represses transcription in cancer cells through AGO2. PLoS One 2011 Mar 15;6(3):e17934. PMID: 21423624
  • Savarimuthu Francis SM, Larsen JE, Pavey SJ, Duhig EE et al. Genes and gene ontologies common to airflow obstruction and emphysema in the lungs of patients with COPD. PLoS One 2011 Mar 15;6(3):e17442. PMID: 21423603
  • Koschmieder A, Zimmermann K, Trissl S, Stoltmann T et al. Tools for managing and analyzing microarray data. Brief Bioinform 2012 Jan;13(1):46-60. PMID: 21422065
  • Mackay A, Weigelt B, Grigoriadis A, Kreike B et al. Microarray-based class discovery for molecular classification of breast cancer: analysis of interobserver agreement. J Natl Cancer Inst 2011 Apr 20;103(8):662-73. PMID: 21421860
  • Merlos-Suárez A, Barriga FM, Jung P, Iglesias M et al. The intestinal stem cell signature identifies colorectal cancer stem cells and predicts disease relapse. Cell Stem Cell 2011 May 6;8(5):511-24. PMID: 21419747
  • He A, Kong SW, Ma Q, Pu WT et al. Co-occupancy by multiple cardiac transcription factors identifies transcriptional enhancers active in heart. Proc Natl Acad Sci U S A 2011 Apr 5;108(14):5632-7. PMID: 21415370
  • Pettersson F, Yau C, Dobocan MC, Culjkovic-Kraljacic B et al. Ribavirin treatment effects on breast cancers overexpressing eIF4E, a biomarker with prognostic specificity for luminal B-type breast cancer. Clin Cancer Res 2011 May 1;17(9):2874-84. PMID: 21415224
  • Momin AA, Park H, Portz BJ, Haynes CA et al. A method for visualization of "omic" datasets for sphingolipid metabolism to predict potentially interesting differences. J Lipid Res 2011 Jun;52(6):1073-1083. PMID: 21415121
  • Ma H, Schadt EE, Kaplan LM, Zhao H et al. COSINE: COndition-SpecIfic sub-NEtwork identification using a global optimization method. Bioinformatics 2011 May 1;27(9):1290-8. PMID: 21414987
  • Vrzalikova K, Vockerodt M, Leonard S, Bell A et al. Down-regulation of BLIMP1α by the EBV oncogene, LMP-1, disrupts the plasma cell differentiation program and prevents viral replication in B cells: implications for the pathogenesis of EBV-associated B-cell lymphomas. Blood 2011 Jun 2;117(22):5907-17. PMID: 21411757
  • Bermejo-Alvarez P, Rizos D, Lonergan P, Gutierrez-Adan A et al. Transcriptional sexual dimorphism in elongating bovine embryos: implications for XCI and sex determination genes. Reproduction 2011 Jun;141(6):801-8. PMID: 21411694
  • Lee SH, Jia S, Zhu Y, Utermark T et al. Transgenic expression of polyomavirus middle T antigen in the mouse prostate gives rise to carcinoma. J Virol 2011 Jun;85(11):5581-92. PMID: 21411524
  • Kim J, Patel K, Jung H, Kuo WP et al. AnyExpress: integrated toolkit for analysis of cross-platform gene expression data using a fast interval matching algorithm. BMC Bioinformatics 2011 Mar 17;12:75. PMID: 21410990
  • Welle S, Mehta S, Burgess K et al. Effect of postdevelopmental myostatin depletion on myofibrillar protein metabolism. Am J Physiol Endocrinol Metab 2011 Jun;300(6):E993-E1001. PMID: 21406613
  • Chin L, Hahn WC, Getz G, Meyerson M et al. Making sense of cancer genomic data. Genes Dev 2011 Mar 15;25(6):534-55. PMID: 21406553
  • Pietras A, von Stedingk K, Lindgren D, Påhlman S et al. JAG2 induction in hypoxic tumor cells alters Notch signaling and enhances endothelial cell tube formation. Mol Cancer Res 2011 May;9(5):626-36. PMID: 21402725
  • Seitz V, Thomas PE, Zimmermann K, Paul U et al. Classical Hodgkin's lymphoma shows epigenetic features of abortive plasma cell differentiation. Haematologica 2011 Jun;96(6):863-70. PMID: 21393330
  • Creekmore AL, Silkworth WT, Cimini D, Jensen RV et al. Changes in gene expression and cellular architecture in an ovarian cancer progression model. PLoS One 2011 Mar 3;6(3):e17676. PMID: 21390237
  • Garcia-Cazarin ML, Gamboa JL, Andrade FH et al. Rat diaphragm mitochondria have lower intrinsic respiratory rates than mitochondria in limb muscles. Am J Physiol Regul Integr Comp Physiol 2011 Jun;300(6):R1311-5. PMID: 21389333
  • Wen J, Parker BJ, Jacobsen A, Krogh A et al. MicroRNA transfection and AGO-bound CLIP-seq data sets reveal distinct determinants of miRNA action. RNA 2011 May;17(5):820-34. PMID: 21389147
  • Fontaine JF, Suter B, Andrade-Navarro MA et al. QiSampler: evaluation of scoring schemes for high-throughput datasets using a repetitive sampling strategy on gold standards. BMC Res Notes 2011 Mar 9;4:57. PMID: 21388526
  • Thiagarajan RD, Georgas KM, Rumballe BA, Lesieur E et al. Identification of anchor genes during kidney development defines ontological relationships, molecular subcompartments and regulatory pathways. PLoS One 2011 Feb 28;6(2):e17286. PMID: 21386911
  • Damasco C, Lembo A, Somma MP, Gatti M et al. A signature inferred from Drosophila mitotic genes predicts survival of breast cancer patients. PLoS One 2011 Feb 28;6(2):e14737. PMID: 21386884
  • Alajez NM, Lenarduzzi M, Ito E, Hui AB et al. MiR-218 suppresses nasopharyngeal cancer progression through downregulation of survivin and the SLIT2-ROBO1 pathway. Cancer Res 2011 Mar 15;71(6):2381-91. PMID: 21385904
  • Kim TM, Huang W, Park R, Park PJ et al. A developmental taxonomy of glioblastoma defined and maintained by MicroRNAs. Cancer Res 2011 May 1;71(9):3387-99. PMID: 21385897
  • Torres Acosta JA, Fowke LC, Wang H et al. Analyses of phylogeny, evolution, conserved sequences and genome-wide expression of the ICK/KRP family of plant CDK inhibitors. Ann Bot 2011 May;107(7):1141-57. PMID: 21385782
  • Newnham GM, Conron M, McLachlan S, Dobrovic A et al. Integrated mutation, copy number and expression profiling in resectable non-small cell lung cancer. BMC Cancer 2011 Mar 7;11:93. PMID: 21385341
  • Chowdhury SA, Nibbe RK, Chance MR, Koyutürk M et al. Subnetwork state functions define dysregulated subnetworks in cancer. J Comput Biol 2011 Mar;18(3):263-81. PMID: 21385033
  • Yoneya T, Miyazawa T et al. Integration of pre-normalized microarray data using quantile correction. Bioinformation 2011 Feb 7;5(9):382-5. PMID: 21383905
  • Matsson P, Yee SW, Markova S, Morrissey K et al. Discovery of regulatory elements in human ATP-binding cassette transporters through expression quantitative trait mapping. Pharmacogenomics J 2012 Jun;12(3):214-26. PMID: 21383772
  • Jan M, Chao MP, Cha AC, Alizadeh AA et al. Prospective separation of normal and leukemic stem cells based on differential expression of TIM3, a human acute myeloid leukemia stem cell marker. Proc Natl Acad Sci U S A 2011 Mar 22;108(12):5009-14. PMID: 21383193
  • Wang L, Rubinstein R, Lines JL, Wasiuk A et al. VISTA, a novel mouse Ig superfamily ligand that negatively regulates T cell responses. J Exp Med 2011 Mar 14;208(3):577-92. PMID: 21383057
  • Jin SG, Wu X, Li AX, Pfeifer GP et al. Genomic mapping of 5-hydroxymethylcytosine in the human brain. Nucleic Acids Res 2011 Jul;39(12):5015-24. PMID: 21378125
  • Jayaswal V, Lutherborrow M, Ma DD, Yang YH et al. Identification of microRNA-mRNA modules using microarray data. BMC Genomics 2011 Mar 6;12:138. PMID: 21375780
  • Rosenwasser S, Rot I, Sollner E, Meyer AJ et al. Organelles contribute differentially to reactive oxygen species-related events during extended darkness. Plant Physiol 2011 May;156(1):185-201. PMID: 21372201
  • Liu S, Richards SM, Lo K, Hatton M et al. Changes in gene expression in human meibomian gland dysfunction. Invest Ophthalmol Vis Sci 2011 Apr;52(5):2727-40. PMID: 21372006
  • Fox AD, Hescott BJ, Blumer AC, Slonim DK et al. Connectedness of PPI network neighborhoods identifies regulatory hub proteins. Bioinformatics 2011 Apr 15;27(8):1135-42. PMID: 21367871
  • Thangavel C, Dean JL, Ertel A, Knudsen KE et al. Therapeutically activating RB: reestablishing cell cycle control in endocrine therapy-resistant breast cancer. Endocr Relat Cancer 2011 Jun;18(3):333-45. PMID: 21367843
  • Mpindi JP, Sara H, Haapa-Paananen S, Kilpinen S et al. GTI: a novel algorithm for identifying outlier gene expression profiles from integrated microarray datasets. PLoS One 2011 Feb 18;6(2):e17259. PMID: 21365010
  • Fassbender JM, Whittemore SR, Hagg T et al. Targeting microvasculature for neuroprotection after SCI. Neurotherapeutics 2011 Apr;8(2):240-51. PMID: 21360237
  • Ricci G, Astolfi A, Remondini D, Cipriani F et al. Pooled genome-wide analysis to identify novel risk loci for pediatric allergic asthma. PLoS One 2011 Feb 16;6(2):e16912. PMID: 21359210
  • Polymenidou M, Lagier-Tourenne C, Hutt KR, Huelga SC et al. Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43. Nat Neurosci 2011 Apr;14(4):459-68. PMID: 21358643
  • Tamayo P, Cho YJ, Tsherniak A, Greulich H et al. Predicting relapse in patients with medulloblastoma by integrating evidence from clinical and genomic features. J Clin Oncol 2011 Apr 10;29(11):1415-23. PMID: 21357789
  • Santisteban MS, Hang M, Smith MM et al. Histone variant H2A.Z and RNA polymerase II transcription elongation. Mol Cell Biol 2011 May;31(9):1848-60. PMID: 21357739
  • Onaitis M, D'Amico TA, Clark CP, Guinney J et al. A 10-gene progenitor cell signature predicts poor prognosis in lung adenocarcinoma. Ann Thorac Surg 2011 Apr;91(4):1046-50; discussion 1050. PMID: 21353202
  • Kasturi SP, Skountzou I, Albrecht RA, Koutsonanos D et al. Programming the magnitude and persistence of antibody responses with innate immunity. Nature 2011 Feb 24;470(7335):543-7. PMID: 21350488
  • Marques F, Sousa JC, Coppola G, Gao F et al. Transcriptome signature of the adult mouse choroid plexus. Fluids Barriers CNS 2011 Jan 18;8(1):10. PMID: 21349147
  • Coco S, Valdora F, Bonassi S, Scaruffi P et al. Chromosome 9q and 16q loss identified by genome-wide pooled-analysis are associated with tumor aggressiveness in patients with classic medulloblastoma. OMICS 2011 May;15(5):273-80. PMID: 21348762
  • Pantazatos SP, Li J, Pavlidis P, Lussier YA et al. Integration of Neuroimaging and Microarray Datasets through Mapping and Model-Theoretic Semantic Decomposition of Unstructured Phenotypes. Summit Transl Bioinform 2009 Mar 1;2009:85-9. PMID: 21347176
  • Miller TW, Balko JM, Ghazoui Z, Dunbier A et al. A gene expression signature from human breast cancer cells with acquired hormone independence identifies MYC as a mediator of antiestrogen resistance. Clin Cancer Res 2011 Apr 1;17(7):2024-34. PMID: 21346144
  • Linderman GC, Patel VN, Chance MR, Bebek G et al. BiC: a web server for calculating bimodality of coexpression between gene and protein networks. Bioinformatics 2011 Apr 15;27(8):1174-5. PMID: 21345871
  • Scherbak N, Ala-Häivälä A, Brosché M, Böwer N et al. The pea SAD short-chain dehydrogenase/reductase: quinone reduction, tissue distribution, and heterologous expression. Plant Physiol 2011 Apr;155(4):1839-50. PMID: 21343423
  • Anglesio MS, George J, Kulbe H, Friedlander M et al. IL6-STAT3-HIF signaling and therapeutic response to the angiogenesis inhibitor sunitinib in ovarian clear cell cancer. Clin Cancer Res 2011 Apr 15;17(8):2538-48. PMID: 21343371
  • Budczies J, Weichert W, Noske A, Müller BM et al. Genome-wide gene expression profiling of formalin-fixed paraffin-embedded breast cancer core biopsies using microarrays. J Histochem Cytochem 2011 Feb;59(2):146-57. PMID: 21339180
  • Siezen RJ, Bayjanov JR, Felis GE, van der Sijde MR et al. Genome-scale diversity and niche adaptation analysis of Lactococcus lactis by comparative genome hybridization using multi-strain arrays. Microb Biotechnol 2011 May;4(3):383-402. PMID: 21338475
  • Molineris I, Grassi E, Ala U, Di Cunto F et al. Evolution of promoter affinity for transcription factors in the human lineage. Mol Biol Evol 2011 Aug;28(8):2173-83. PMID: 21335606
  • Mar JC, Wells CA, Quackenbush J et al. Defining an informativeness metric for clustering gene expression data. Bioinformatics 2011 Apr 15;27(8):1094-100. PMID: 21330289
  • Knappskog S, Myklebust LM, Busch C, Aloysius T et al. RINF (CXXC5) is overexpressed in solid tumors and is an unfavorable prognostic factor in breast cancer. Ann Oncol 2011 Oct;22(10):2208-15. PMID: 21325450
  • Butler MW, Fukui T, Salit J, Shaykhiev R et al. Modulation of cystatin A expression in human airway epithelium related to genotype, smoking, COPD, and lung cancer. Cancer Res 2011 Apr 1;71(7):2572-81. PMID: 21325429
  • Haeussler M, Gerner M, Bergman CM et al. Annotating genes and genomes with DNA sequences extracted from biomedical articles. Bioinformatics 2011 Apr 1;27(7):980-6. PMID: 21325301
  • Schwalbe EC, Lindsey JC, Straughton D, Hogg TL et al. Rapid diagnosis of medulloblastoma molecular subgroups. Clin Cancer Res 2011 Apr 1;17(7):1883-94. PMID: 21325292
  • Ghazoui Z, Buffa FM, Dunbier AK, Anderson H et al. Close and stable relationship between proliferation and a hypoxia metagene in aromatase inhibitor-treated ER-positive breast cancer. Clin Cancer Res 2011 May 1;17(9):3005-12. PMID: 21325071
  • Román AC, González-Rico FJ, Moltó E, Hernando H et al. Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch. Genome Res 2011 Mar;21(3):422-32. PMID: 21324874
  • Baron D, Dubois E, Bihouée A, Teusan R et al. Meta-analysis of muscle transcriptome data using the MADMuscle database reveals biologically relevant gene patterns. BMC Genomics 2011 Feb 16;12:113. PMID: 21324190
  • Tsuzuki S, Taguchi O, Seto M et al. Promotion and maintenance of leukemia by ERG. Blood 2011 Apr 7;117(14):3858-68. PMID: 21321361
  • Kwak YT, Radaideh SM, Ding L, Li R et al. Cells lacking IKKα show nuclear cyclin D1 overexpression and a neoplastic phenotype: role of IKKα as a tumor suppressor. Mol Cancer Res 2011 Mar;9(3):341-9. PMID: 21317297
  • Vicoso B, Bachtrog D et al. Lack of global dosage compensation in Schistosoma mansoni, a female-heterogametic parasite. Genome Biol Evol 2011;3:230-5. PMID: 21317157
  • Blaby-Haas CE, de Crécy-Lagard V et al. Mining high-throughput experimental data to link gene and function. Trends Biotechnol 2011 Apr;29(4):174-82. PMID: 21310501
  • Zhang B, Chen B, Wu T, Xuan Z et al. Estimating developmental states of tumors and normal tissues using a linear time-ordered model. BMC Bioinformatics 2011 Feb 11;12:53. PMID: 21310084
  • Lovrecic L, Slavkov I, Dzeroski S, Peterlin B et al. ADP-ribosylation factor guanine nucleotide-exchange factor 2 (ARFGEF2): a new potential biomarker in Huntington's disease. J Int Med Res 2010 Sep-Oct;38(5):1653-62. PMID: 21309479
  • Zhang Y, Liu H, Lv J, Xiao X et al. QDMR: a quantitative method for identification of differentially methylated regions by entropy. Nucleic Acids Res 2011 May;39(9):e58. PMID: 21306990
  • Sugawara H, Iwamoto K, Bundo M, Ueda J et al. Comprehensive DNA methylation analysis of human peripheral blood leukocytes and lymphoblastoid cell lines. Epigenetics 2011 Apr;6(4):508-15. PMID: 21304276
  • Negrotto S, Hu Z, Alcazar O, Ng KP et al. Noncytotoxic differentiation treatment of renal cell cancer. Cancer Res 2011 Feb 15;71(4):1431-41. PMID: 21303982
  • Ouyang J, Juszczynski P, Rodig SJ, Green MR et al. Viral induction and targeted inhibition of galectin-1 in EBV+ posttransplant lymphoproliferative disorders. Blood 2011 Apr 21;117(16):4315-22. PMID: 21300977
  • Cole SW, Hawkley LC, Arevalo JM, Cacioppo JT et al. Transcript origin analysis identifies antigen-presenting cells as primary targets of socially regulated gene expression in leukocytes. Proc Natl Acad Sci U S A 2011 Feb 15;108(7):3080-5. PMID: 21300872
  • Grills C, Jithesh PV, Blayney J, Zhang SD et al. Gene expression meta-analysis identifies VDAC1 as a predictor of poor outcome in early stage non-small cell lung cancer. PLoS One 2011 Jan 31;6(1):e14635. PMID: 21297950
  • Schulte A, Günther HS, Phillips HS, Kemming D et al. A distinct subset of glioma cell lines with stem cell-like properties reflects the transcriptional phenotype of glioblastomas and overexpresses CXCR4 as therapeutic target. Glia 2011 Apr;59(4):590-602. PMID: 21294158
  • Saintigny P, Zhang L, Fan YH, El-Naggar AK et al. Gene expression profiling predicts the development of oral cancer. Cancer Prev Res (Phila) 2011 Feb;4(2):218-29. PMID: 21292635
  • Liu F, White JA, Antonescu C, Gusenleitner D et al. GCOD - GeneChip Oncology Database. BMC Bioinformatics 2011 Feb 3;12:46. PMID: 21291543
  • Chen Y, Meyer CA, Liu T, Li W et al. MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data. Genome Biol 2011;12(2):R11. PMID: 21284836
  • Wang G, Ye Y, Yang X, Liao H et al. Expression-based in silico screening of candidate therapeutic compounds for lung adenocarcinoma. PLoS One 2011 Jan 21;6(1):e14573. PMID: 21283735
  • Zhang B, Chen B, Wu T, Tan Y et al. Estimating the quality of reprogrammed cells using ES cell differentiation expression patterns. PLoS One 2011 Jan 11;6(1):e15336. PMID: 21283513
  • Efroni S, Ben-Hamo R, Edmonson M, Greenblum S et al. Detecting cancer gene networks characterized by recurrent genomic alterations in a population. PLoS One 2011 Jan 4;6(1):e14437. PMID: 21283511
  • Joshi MC, Bourniquel A, Fisher J, Ho BT et al. Escherichia coli sister chromosome separation includes an abrupt global transition with concomitant release of late-splitting intersister snaps. Proc Natl Acad Sci U S A 2011 Feb 15;108(7):2765-70. PMID: 21282646
  • Kang HS, Baba T, Mandai M, Matsumura N et al. GPR54 is a target for suppression of metastasis in endometrial cancer. Mol Cancer Ther 2011 Apr;10(4):580-90. PMID: 21282360
  • Roos FC, Evans AJ, Brenner W, Wondergem B et al. Deregulation of E2-EPF ubiquitin carrier protein in papillary renal cell carcinoma. Am J Pathol 2011 Feb;178(2):853-60. PMID: 21281817
  • Sun H, Schlondorff JS, Brown EJ, Higgs HN et al. Rho activation of mDia formins is modulated by an interaction with inverted formin 2 (INF2). Proc Natl Acad Sci U S A 2011 Feb 15;108(7):2933-8. PMID: 21278336
  • Scott MS, Boisvert FM, Lamond AI, Barton GJ et al. PNAC: a protein nucleolar association classifier. BMC Genomics 2011 Jan 27;12:74. PMID: 21272300
  • Diep CQ, Ma D, Deo RC, Holm TM et al. Identification of adult nephron progenitors capable of kidney regeneration in zebrafish. Nature 2011 Feb 3;470(7332):95-100. PMID: 21270795
  • Han J, Qureshi AA, Nan H, Zhang J et al. A germline variant in the interferon regulatory factor 4 gene as a novel skin cancer risk locus. Cancer Res 2011 Mar 1;71(5):1533-9. PMID: 21270109
  • Birkbak NJ, Eklund AC, Li Q, McClelland SE et al. Paradoxical relationship between chromosomal instability and survival outcome in cancer. Cancer Res 2011 May 15;71(10):3447-52. PMID: 21270108
  • Zhou Y, Shi R, Bao Y, Li CZ et al. [Bioinformatic analysis of genes related to temporal epilepsy]. Nan Fang Yi Ke Da Xue Xue Bao 2011 Jan;31(1):180-3. PMID: 21269987
  • Liu H, Duan X, Yu S, Sun X et al. Analysis of nucleosome positioning determined by DNA helix curvature in the human genome. BMC Genomics 2011 Jan 27;12:72. PMID: 21269520
  • López-Romero PPre-processing and differential expression analysis of Agilent microRNA arrays using the AgiMicroRna Bioconductor library. BMC Genomics 2011 Jan 26;12:64. PMID: 21269452
  • Diez-Roux G, Banfi S, Sultan M, Geffers L et al. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. PLoS Biol 2011 Jan 18;9(1):e1000582. PMID: 21267068
  • Ivanov IP, Firth AE, Michel AM, Atkins JF et al. Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences. Nucleic Acids Res 2011 May;39(10):4220-34. PMID: 21266472
  • Niemi NM, Lanning NJ, Klomp JA, Tait SW et al. MK-STYX, a catalytically inactive phosphatase regulating mitochondrially dependent apoptosis. Mol Cell Biol 2011 Apr;31(7):1357-68. PMID: 21262771
  • Prat Y, Fromer M, Linial N, Linial M et al. Recovering key biological constituents through sparse representation of gene expression. Bioinformatics 2011 Mar 1;27(5):655-61. PMID: 21258061
  • Xu H, Yan M, Patra J, Natrajan R et al. Enhanced RAD21 cohesin expression confers poor prognosis and resistance to chemotherapy in high grade luminal, basal and HER2 breast cancers. Breast Cancer Res 2011 Jan 21;13(1):R9. PMID: 21255398
  • Brüderlein S, Sommer JB, Meltzer PS, Li S et al. Molecular characterization of putative chordoma cell lines. Sarcoma 2010;2010:630129. PMID: 21253487
  • Smith SC, Havaleshko DM, Moon K, Baras AS et al. Use of yeast chemigenomics and COXEN informatics in preclinical evaluation of anticancer agents. Neoplasia 2011 Jan;13(1):72-80. PMID: 21253455
  • Gamazon ER, Im HK, O'Donnell PH, Ziliak D et al. Comprehensive evaluation of the contribution of X chromosome genes to platinum sensitivity. Mol Cancer Ther 2011 Mar;10(3):472-80. PMID: 21252287
  • Søkilde R, Kaczkowski B, Podolska A, Cirera S et al. Global microRNA analysis of the NCI-60 cancer cell panel. Mol Cancer Ther 2011 Mar;10(3):375-84. PMID: 21252286
  • Posekany A, Felsenstein K, Sykacek P et al. Biological assessment of robust noise models in microarray data analysis. Bioinformatics 2011 Mar 15;27(6):807-14. PMID: 21252077
  • Gao L, Fang Z, Zhang K, Zhi D et al. Length bias correction for RNA-seq data in gene set analyses. Bioinformatics 2011 Mar 1;27(5):662-9. PMID: 21252076
  • Bell JT, Pai AA, Pickrell JK, Gaffney DJ et al. DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines. Genome Biol 2011;12(1):R10. PMID: 21251332
  • Booker M, Samsonova AA, Kwon Y, Flockhart I et al. False negative rates in Drosophila cell-based RNAi screens: a case study. BMC Genomics 2011 Jan 20;12:50. PMID: 21251254
  • Yin L, Chung WO et al. Epigenetic regulation of human β-defensin 2 and CC chemokine ligand 20 expression in gingival epithelial cells in response to oral bacteria. Mucosal Immunol 2011 Jul;4(4):409-19. PMID: 21248725
  • Coutant C, Rouzier R, Qi Y, Lehmann-Che J et al. Distinct p53 gene signatures are needed to predict prognosis and response to chemotherapy in ER-positive and ER-negative breast cancers. Clin Cancer Res 2011 Apr 15;17(8):2591-601. PMID: 21248301
  • Liao Q, Liu C, Yuan X, Kang S et al. Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network. Nucleic Acids Res 2011 May;39(9):3864-78. PMID: 21247874
  • Steffen B, Knop M, Bergholz U, Vakhrusheva O et al. AML1/ETO induces self-renewal in hematopoietic progenitor cells via the Groucho-related amino-terminal AES protein. Blood 2011 Apr 21;117(16):4328-37. PMID: 21245488
  • Fujiwara K, Yuwanita I, Hollern DP, Andrechek ER et al. Prediction and genetic demonstration of a role for activator E2Fs in Myc-induced tumors. Cancer Res 2011 Mar 1;71(5):1924-32. PMID: 21245101
  • Mitra R, Lee J, Jo J, Milani M et al. Prediction of postoperative recurrence-free survival in non-small cell lung cancer by using an internationally validated gene expression model. Clin Cancer Res 2011 May 1;17(9):2934-46. PMID: 21242119
  • Fukao T, Yeung E, Bailey-Serres J et al. The submergence tolerance regulator SUB1A mediates crosstalk between submergence and drought tolerance in rice. Plant Cell 2011 Jan;23(1):412-27. PMID: 21239643
  • Scheff JD, Almon RR, Dubois DC, Jusko WJ et al. Assessment of pharmacologic area under the curve when baselines are variable. Pharm Res 2011 May;28(5):1081-9. PMID: 21234658
  • Hartmann B, Castelo R, Miñana B, Peden E et al. Distinct regulatory programs establish widespread sex-specific alternative splicing in Drosophila melanogaster. RNA 2011 Mar;17(3):453-68. PMID: 21233220
  • Sasaki D, Imaizumi Y, Hasegawa H, Osaka A et al. Overexpression of Enhancer of zeste homolog 2 with trimethylation of lysine 27 on histone H3 in adult T-cell leukemia/lymphoma as a target for epigenetic therapy. Haematologica 2011 May;96(5):712-9. PMID: 21228036
  • Iida K, Kawaguchi S, Kobayashi N, Yoshida Y et al. ARTADE2DB: improved statistical inferences for Arabidopsis gene functions and structure predictions by dynamic structure-based dynamic expression (DSDE) analyses. Plant Cell Physiol 2011 Feb;52(2):254-64. PMID: 21227933
  • Pillai R, Deeter R, Rigl CT, Nystrom JS et al. Validation and reproducibility of a microarray-based gene expression test for tumor identification in formalin-fixed, paraffin-embedded specimens. J Mol Diagn 2011 Jan;13(1):48-56. PMID: 21227394
  • Chung JJ, Navarro B, Krapivinsky G, Krapivinsky L et al. A novel gene required for male fertility and functional CATSPER channel formation in spermatozoa. Nat Commun 2011 Jan 11;2:153. PMID: 21224844
  • Lu ZX, Jiang P, Cai JJ, Xing Y et al. Context-dependent robustness to 5' splice site polymorphisms in human populations. Hum Mol Genet 2011 Mar 15;20(6):1084-96. PMID: 21224255
  • Cruchaga C, Graff C, Chiang HH, Wang J et al. Association of TMEM106B gene polymorphism with age at onset in granulin mutation carriers and plasma granulin protein levels. Arch Neurol 2011 May;68(5):581-6. PMID: 21220649
  • Looyenga BD, Furge KA, Dykema KJ, Koeman J et al. Chromosomal amplification of leucine-rich repeat kinase-2 (LRRK2) is required for oncogenic MET signaling in papillary renal and thyroid carcinomas. Proc Natl Acad Sci U S A 2011 Jan 25;108(4):1439-44. PMID: 21220347
  • Baron D, Bihouée A, Teusan R, Dubois E et al. MADGene: retrieval and processing of gene identifier lists for the analysis of heterogeneous microarray datasets. Bioinformatics 2011 Mar 1;27(5):725-6. PMID: 21216776
  • Mustafiz A, Singh AK, Pareek A, Sopory SK et al. Genome-wide analysis of rice and Arabidopsis identifies two glyoxalase genes that are highly expressed in abiotic stresses. Funct Integr Genomics 2011 Jun;11(2):293-305. PMID: 21213008
  • Wang YC, Chen BS et al. A network-based biomarker approach for molecular investigation and diagnosis of lung cancer. BMC Med Genomics 2011 Jan 6;4:2. PMID: 21211025
  • Ambavaram MM, Krishnan A, Trijatmiko KR, Pereira A et al. Coordinated activation of cellulose and repression of lignin biosynthesis pathways in rice. Plant Physiol 2011 Feb;155(2):916-31. PMID: 21205614
  • Worch S, Rajesh K, Harshavardhan VT, Pietsch C et al. Haplotyping, linkage mapping and expression analysis of barley genes regulated by terminal drought stress influencing seed quality. BMC Plant Biol 2011 Jan 4;11:1. PMID: 21205309
  • Gonzalez-Roca E, Garcia-Albéniz X, Rodriguez-Mulero S, Gomis RR et al. Accurate expression profiling of very small cell populations. PLoS One 2010 Dec 28;5(12):e14418. PMID: 21203435
  • Kiba T, Kudo T, Kojima M, Sakakibara H et al. Hormonal control of nitrogen acquisition: roles of auxin, abscisic acid, and cytokinin. J Exp Bot 2011 Feb;62(4):1399-409. PMID: 21196475
  • Pop A, Huttenhower C, Iyer-Pascuzzi A, Benfey PN et al. Integrated functional networks of process, tissue, and developmental stage specific interactions in Arabidopsis thaliana. BMC Syst Biol 2010 Dec 31;4:180. PMID: 21194434
  • Kim Y, Kim TK, Kim Y, Yoo J et al. Principal network analysis: identification of subnetworks representing major dynamics using gene expression data. Bioinformatics 2011 Feb 1;27(3):391-8. PMID: 21193522
  • Iwamoto T, Bianchini G, Booser D, Qi Y et al. Gene pathways associated with prognosis and chemotherapy sensitivity in molecular subtypes of breast cancer. J Natl Cancer Inst 2011 Feb 2;103(3):264-72. PMID: 21191116
  • Haddrill PR, Zeng K, Charlesworth B et al. Determinants of synonymous and nonsynonymous variability in three species of Drosophila. Mol Biol Evol 2011 May;28(5):1731-43. PMID: 21191087
  • Kozhenkov S, Dubinina Y, Sedova M, Gupta A et al. BiologicalNetworks 2.0--an integrative view of genome biology data. BMC Bioinformatics 2010 Dec 29;11:610. PMID: 21190573
  • Zhou L, McMahon C, Bhagat T, Alencar C et al. Reduced SMAD7 leads to overactivation of TGF-beta signaling in MDS that can be reversed by a specific inhibitor of TGF-beta receptor I kinase. Cancer Res 2011 Feb 1;71(3):955-63. PMID: 21189329
  • Pedicini M, Barrenäs F, Clancy T, Castiglione F et al. Combining network modeling and gene expression microarray analysis to explore the dynamics of Th1 and Th2 cell regulation. PLoS Comput Biol 2010 Dec 16;6(12):e1001032. PMID: 21187905
  • Li X, Thomason PA, Withers DJ, Scott J et al. Bio-informatics analysis of a gene co-expression module in adipose tissue containing the diet-responsive gene Nnat. BMC Syst Biol 2010 Dec 27;4:175. PMID: 21187013
  • Chen X, Xu J, Huang B, Li J et al. A sub-pathway-based approach for identifying drug response principal network. Bioinformatics 2011 Mar 1;27(5):649-54. PMID: 21186246
  • Hamada K, Hongo K, Suwabe K, Shimizu A et al. OryzaExpress: an integrated database of gene expression networks and omics annotations in rice. Plant Cell Physiol 2011 Feb;52(2):220-9. PMID: 21186175
  • Said N, Smith S, Sanchez-Carbayo M, Theodorescu D et al. Tumor endothelin-1 enhances metastatic colonization of the lung in mouse xenograft models of bladder cancer. J Clin Invest 2011 Jan;121(1):132-47. PMID: 21183790
  • Lardenois A, Chalmel F, Barrionuevo F, Demougin P et al. Profiling spermatogenic failure in adult testes bearing Sox9-deficient Sertoli cells identifies genes involved in feminization, inflammation and stress. Reprod Biol Endocrinol 2010 Dec 23;8:154. PMID: 21182756
  • Mulugeta Achame E, Baarends WM, Gribnau J, Grootegoed JA et al. Evaluating the relationship between spermatogenic silencing of the X chromosome and evolution of the Y chromosome in chimpanzee and human. PLoS One 2010 Dec 14;5(12):e15598. PMID: 21179482
  • Yang CH, Chuang LY, Shih TM, Chang HW et al. hSAGEing: an improved SAGE-based software for identification of human tissue-specific or common tumor markers and suppressors. PLoS One 2010 Dec 17;5(12):e14369. PMID: 21179408
  • Chung WJ, Agius P, Westholm JO, Chen M et al. Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans. Genome Res 2011 Feb;21(2):286-300. PMID: 21177960
  • Yang JS, Phillips MD, Betel D, Mu P et al. Widespread regulatory activity of vertebrate microRNA* species. RNA 2011 Feb;17(2):312-26. PMID: 21177881
  • Kaya KD, Karakülah G, Yakicier CM, Acar AC et al. mESAdb: microRNA expression and sequence analysis database. Nucleic Acids Res 2011 Jan;39(Database issue):D170-80. PMID: 21177657
  • Ye T, Krebs AR, Choukrallah MA, Keime C et al. seqMINER: an integrated ChIP-seq data interpretation platform. Nucleic Acids Res 2011 Mar;39(6):e35. PMID: 21177645
  • Gentles AJ, Plevritis SK, Majeti R, Alizadeh AA et al. Association of a leukemic stem cell gene expression signature with clinical outcomes in acute myeloid leukemia. JAMA 2010 Dec 22;304(24):2706-15. PMID: 21177505
  • Taskesen E, Bullinger L, Corbacioglu A, Sanders MA et al. Prognostic impact, concurrent genetic mutations, and gene expression features of AML with CEBPA mutations in a cohort of 1182 cytogenetically normal AML patients: further evidence for CEBPA double mutant AML as a distinctive disease entity. Blood 2011 Feb 24;117(8):2469-75. PMID: 21177436
  • Xu H, Lemischka IR, Ma'ayan A et al. SVM classifier to predict genes important for self-renewal and pluripotency of mouse embryonic stem cells. BMC Syst Biol 2010 Dec 21;4:173. PMID: 21176149
  • Kim HK, Choi IJ, Kim CG, Kim HS et al. Three-gene predictor of clinical outcome for gastric cancer patients treated with chemotherapy. Pharmacogenomics J 2012 Apr;12(2):119-27. PMID: 21173787
  • Klemm F, Bleckmann A, Siam L, Chuang HN et al. β-catenin-independent WNT signaling in basal-like breast cancer and brain metastasis. Carcinogenesis 2011 Mar;32(3):434-42. PMID: 21173432
  • Moreaux J, Klein B, Bataille R, Descamps G et al. A high-risk signature for patients with multiple myeloma established from the molecular classification of human myeloma cell lines. Haematologica 2011 Apr;96(4):574-82. PMID: 21173094
  • Liu W, Li D, Liu Q, Zhu Y et al. A novel parametric approach to mine gene regulatory relationship from microarray datasets. BMC Bioinformatics 2010 Dec 14;11 Suppl 11(Suppl 11):S15. PMID: 21172050
  • Xu T, Ping J, Yu Y, Yu F et al. Revealing parasite influence in metabolic pathways in Apicomplexa infected patients. BMC Bioinformatics 2010 Dec 14;11 Suppl 11(Suppl 11):S13. PMID: 21172048
  • Yu Y, Xu T, Yu Y, Hao P et al. Association of tissue lineage and gene expression: conservatively and differentially expressed genes define common and special functions of tissues. BMC Bioinformatics 2010 Dec 14;11 Suppl 11(Suppl 11):S1. PMID: 21172044
  • Engreitz JM, Morgan AA, Dudley JT, Chen R et al. Content-based microarray search using differential expression profiles. BMC Bioinformatics 2010 Dec 21;11:603. PMID: 21172034
  • Deshpande R, Sharma S, Verfaillie CM, Hu WS et al. A scalable approach for discovering conserved active subnetworks across species. PLoS Comput Biol 2010 Dec 9;6(12):e1001028. PMID: 21170309
  • Kannan N, Kang J, Kong X, Tang J et al. Trefoil factor 3 is oncogenic and mediates anti-estrogen resistance in human mammary carcinoma. Neoplasia 2010 Dec;12(12):1041-53. PMID: 21170268
  • Shats I, Gatza ML, Chang JT, Mori S et al. Using a stem cell-based signature to guide therapeutic selection in cancer. Cancer Res 2011 Mar 1;71(5):1772-80. PMID: 21169407
  • Tafreshi NK, Enkemann SA, Bui MM, Lloyd MC et al. A mammaglobin-A targeting agent for noninvasive detection of breast cancer metastasis in lymph nodes. Cancer Res 2011 Feb 1;71(3):1050-9. PMID: 21169406
  • Sharoni AM, Nuruzzaman M, Satoh K, Shimizu T et al. Gene structures, classification and expression models of the AP2/EREBP transcription factor family in rice. Plant Cell Physiol 2011 Feb;52(2):344-60. PMID: 21169347
  • Rybarczyk-Filho JL, Castro MA, Dalmolin RJ, Moreira JC et al. Towards a genome-wide transcriptogram: the Saccharomyces cerevisiae case. Nucleic Acids Res 2011 Apr;39(8):3005-16. PMID: 21169199
  • Wang L, Guo K, Li Y, Tu Y et al. Expression profiling and integrative analysis of the CESA/CSL superfamily in rice. BMC Plant Biol 2010 Dec 20;10:282. PMID: 21167079
  • McCole RB, Loughran NB, Chahal M, Fernandes LP et al. A case-by-case evolutionary analysis of four imprinted retrogenes. Evolution 2011 May;65(5):1413-27. PMID: 21166792
  • Annunziata CM, Hernandez L, Davis RE, Zingone A et al. A mechanistic rationale for MEK inhibitor therapy in myeloma based on blockade of MAF oncogene expression. Blood 2011 Feb 24;117(8):2396-404. PMID: 21163924
  • Klomp JA, Petillo D, Niemi NM, Dykema KJ et al. Birt-Hogg-Dubé renal tumors are genetically distinct from other renal neoplasias and are associated with up-regulation of mitochondrial gene expression. BMC Med Genomics 2010 Dec 16;3:59. PMID: 21162720
  • Richter W, Xie M, Scheitrum C, Krall J et al. Conserved expression and functions of PDE4 in rodent and human heart. Basic Res Cardiol 2011 Mar;106(2):249-62. PMID: 21161247
  • Sarasquete ME, Gutiérrez NC, Misiewicz-Krzeminska I, Paiva B et al. Upregulation of Dicer is more frequent in monoclonal gammopathies of undetermined significance than in multiple myeloma patients and is associated with longer survival in symptomatic myeloma patients. Haematologica 2011 Mar;96(3):468-71. PMID: 21160068
  • Guillou E, Ibarra A, Coulon V, Casado-Vela J et al. Cohesin organizes chromatin loops at DNA replication factories. Genes Dev 2010 Dec 15;24(24):2812-22. PMID: 21159821
  • Roessler S, Jia HL, Budhu A, Forgues M et al. A unique metastasis gene signature enables prediction of tumor relapse in early-stage hepatocellular carcinoma patients. Cancer Res 2010 Dec 15;70(24):10202-12. PMID: 21159642
  • Weidle UH, Klostermann S, Eggle D, Krüger A et al. Interleukin 6/interleukin 6 receptor interaction and its role as a therapeutic target for treatment of cachexia and cancer. Cancer Genomics Proteomics 2010 Nov-Dec;7(6):287-302. PMID: 21156962
  • Tuna M, Smid M, Zhu D, Martens JW et al. Association between acquired uniparental disomy and homozygous mutations and HER2/ER/PR status in breast cancer. PLoS One 2010 Nov 30;5(11):e15094. PMID: 21152100
  • Kilpinen S, Ojala K, Kallioniemi O et al. Analysis of kinase gene expression patterns across 5681 human tissue samples reveals functional genomic taxonomy of the kinome. PLoS One 2010 Dec 3;5(12):e15068. PMID: 21151926
  • Tominaga DPeriodicity detection method for small-sample time series datasets. Bioinform Biol Insights 2010 Nov 22;4:127-36. PMID: 21151841
  • Chanderbali AS, Yoo MJ, Zahn LM, Brockington SF et al. Conservation and canalization of gene expression during angiosperm diversification accompany the origin and evolution of the flower. Proc Natl Acad Sci U S A 2010 Dec 28;107(52):22570-5. PMID: 21149731
  • Rolland AD, Lehmann KP, Johnson KJ, Gaido KW et al. Uncovering gene regulatory networks during mouse fetal germ cell development. Biol Reprod 2011 Apr;84(4):790-800. PMID: 21148109
  • Ghosh HS, Cisse B, Bunin A, Lewis KL et al. Continuous expression of the transcription factor e2-2 maintains the cell fate of mature plasmacytoid dendritic cells. Immunity 2010 Dec 14;33(6):905-16. PMID: 21145760
  • Maresh EL, Mah V, Alavi M, Horvath S et al. Differential expression of anterior gradient gene AGR2 in prostate cancer. BMC Cancer 2010 Dec 13;10:680. PMID: 21144054
  • Brochu V, Girard-Martel M, Duval I, Lerat S et al. Habituation to thaxtomin A in hybrid poplar cell suspensions provides enhanced and durable resistance to inhibitors of cellulose synthesis. BMC Plant Biol 2010 Dec 10;10:272. PMID: 21143977
  • Yang Z, Ren F, Liu C, He S et al. dbDEMC: a database of differentially expressed miRNAs in human cancers. BMC Genomics 2010 Dec 2;11 Suppl 4(Suppl 4):S5. PMID: 21143814
  • Kim J, Ji M, DiDonato JA, Rackley RR et al. An hTERT-immortalized human urothelial cell line that responds to anti-proliferative factor. In Vitro Cell Dev Biol Anim 2011 Jan;47(1):2-9. PMID: 21136194
  • Wang L, Huang J, Jiang M et al. CREB5 computational regulation network construction and analysis between frontal cortex of HIV encephalitis (HIVE) and HIVE-control patients. Cell Biochem Biophys 2011 Jul;60(3):199-207. PMID: 21132541
  • Saito M, Kumamoto K, Robles AI, Horikawa I et al. Targeted disruption of Ing2 results in defective spermatogenesis and development of soft-tissue sarcomas. PLoS One 2010 Nov 19;5(11):e15541. PMID: 21124965
  • Kerkel K, Schupf N, Hatta K, Pang D et al. Altered DNA methylation in leukocytes with trisomy 21. PLoS Genet 2010 Nov 18;6(11):e1001212. PMID: 21124956
  • Wang X, Björklund S, Wasik AM, Grandien A et al. Gene expression profiling and chromatin immunoprecipitation identify DBN1, SETMAR and HIG2 as direct targets of SOX11 in mantle cell lymphoma. PLoS One 2010 Nov 22;5(11):e14085. PMID: 21124928
  • Hoshida YNearest template prediction: a single-sample-based flexible class prediction with confidence assessment. PLoS One 2010 Nov 23;5(11):e15543. PMID: 21124904
  • Ye ZQ, Niu S, Yu Y, Yu H et al. Analyses of copy number variation of GK rat reveal new putative type 2 diabetes susceptibility loci. PLoS One 2010 Nov 23;5(11):e14077. PMID: 21124896
  • Nodine MD, Bartel DP et al. MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis. Genes Dev 2010 Dec 1;24(23):2678-92. PMID: 21123653
  • Maess MB, Sendelbach S, Lorkowski S et al. Selection of reliable reference genes during THP-1 monocyte differentiation into macrophages. BMC Mol Biol 2010 Dec 1;11:90. PMID: 21122122
  • Daniels JP, Gull K, Wickstead B et al. Cell biology of the trypanosome genome. Microbiol Mol Biol Rev 2010 Dec;74(4):552-69. PMID: 21119017
  • Warsow G, Greber B, Falk SS, Harder C et al. ExprEssence--revealing the essence of differential experimental data in the context of an interaction/regulation net-work. BMC Syst Biol 2010 Nov 30;4:164. PMID: 21118483
  • Larsson O, Sonenberg N, Nadon R et al. Identification of differential translation in genome wide studies. Proc Natl Acad Sci U S A 2010 Dec 14;107(50):21487-92. PMID: 21115840
  • Li S, Pozhitkov A, Ryan RA, Manning CS et al. Constructing a fish metabolic network model. Genome Biol 2010;11(11):R115. PMID: 21114829
  • Wu FL, Jin WB, Li JH, Guo AG et al. Targets for human encoded microRNAs in HBV genes. Virus Genes 2011 Apr;42(2):157-61. PMID: 21113793
  • Aran D, Toperoff G, Rosenberg M, Hellman A et al. Replication timing-related and gene body-specific methylation of active human genes. Hum Mol Genet 2011 Feb 15;20(4):670-80. PMID: 21112978
  • Neveu P, Kye MJ, Qi S, Buchholz DE et al. MicroRNA profiling reveals two distinct p53-related human pluripotent stem cell states. Cell Stem Cell 2010 Dec 3;7(6):671-81. PMID: 21112562
  • Anton MA, Aramburu A, Rubio A et al. Improvements to previous algorithms to predict gene structure and isoform concentrations using Affymetrix Exon arrays. BMC Bioinformatics 2010 Nov 26;11:578. PMID: 21110835
  • Iwanaga E, Nanri T, Mitsuya H, Asou N et al. Mutation in the RNA binding protein TIS11D/ZFP36L2 is associated with the pathogenesis of acute leukemia. Int J Oncol 2011 Jan;38(1):25-31. PMID: 21109922
  • Rödelsperger C, Guo G, Kolanczyk M, Pletschacher A et al. Integrative analysis of genomic, functional and protein interaction data predicts long-range enhancer-target gene interactions. Nucleic Acids Res 2011 Apr;39(7):2492-502. PMID: 21109530
  • Gu J, Ye Y, Spitz MR, Lin J et al. A genetic variant near the PMAIP1/Noxa gene is associated with increased bleomycin sensitivity. Hum Mol Genet 2011 Feb 15;20(4):820-6. PMID: 21106707
  • Narsai R, Castleden I, Whelan J et al. Common and distinct organ and stress responsive transcriptomic patterns in Oryza sativa and Arabidopsis thaliana. BMC Plant Biol 2010 Nov 24;10:262. PMID: 21106056
  • Xiong Y, Chen X, Chen Z, Wang X et al. RNA sequencing shows no dosage compensation of the active X-chromosome. Nat Genet 2010 Dec;42(12):1043-7. PMID: 21102464
  • Lewis NE, Schramm G, Bordbar A, Schellenberger J et al. Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nat Biotechnol 2010 Dec;28(12):1279-85. PMID: 21102456
  • Capoccia BJ, Lennerz JK, Bredemeyer AJ, Klco JM et al. Transcription factor MIST1 in terminal differentiation of mouse and human plasma cells. Physiol Genomics 2011 Feb 11;43(3):174-86. PMID: 21098683
  • Cho YJ, Tsherniak A, Tamayo P, Santagata S et al. Integrative genomic analysis of medulloblastoma identifies a molecular subgroup that drives poor clinical outcome. J Clin Oncol 2011 Apr 10;29(11):1424-30. PMID: 21098324
  • Gupta R, Bhattacharyya A, Agosto-Perez FJ, Wickramasinghe P et al. MPromDb update 2010: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-seq experimental data. Nucleic Acids Res 2011 Jan;39(Database issue):D92-7. PMID: 21097880
  • Moreaux J, Hose D, Kassambara A, Reme T et al. Osteoclast-gene expression profiling reveals osteoclast-derived CCR2 chemokines promoting myeloma cell migration. Blood 2011 Jan 27;117(4):1280-90. PMID: 21097672
  • Gonzalez Bosquet J, Peedicayil A, Maguire J, Chien J et al. Comparison of gene expression patterns between avian and human ovarian cancers. Gynecol Oncol 2011 Feb;120(2):256-64. PMID: 21093898
  • Thomas R, de la Torre L, Chang X, Mehrotra S et al. Validation and characterization of DNA microarray gene expression data distribution and associated moments. BMC Bioinformatics 2010 Nov 24;11:576. PMID: 21092329
  • Dubey S, Misra P, Dwivedi S, Chatterjee S et al. Transcriptomic and metabolomic shifts in rice roots in response to Cr (VI) stress. BMC Genomics 2010 Nov 20;11:648. PMID: 21092124
  • Thorrez L, Laudadio I, Van Deun K, Quintens R et al. Tissue-specific disallowance of housekeeping genes: the other face of cell differentiation. Genome Res 2011 Jan;21(1):95-105. PMID: 21088282
  • Merico D, Isserlin R, Stueker O, Emili A et al. Enrichment map: a network-based method for gene-set enrichment visualization and interpretation. PLoS One 2010 Nov 15;5(11):e13984. PMID: 21085593
  • Folsom JP, Richards L, Pitts B, Roe F et al. Physiology of Pseudomonas aeruginosa in biofilms as revealed by transcriptome analysis. BMC Microbiol 2010 Nov 17;10:294. PMID: 21083928
  • Cahan P, Graubert TA et al. Integrated genomics of susceptibility to alkylator-induced leukemia in mice. BMC Genomics 2010 Nov 17;11:638. PMID: 21080971
  • Nord KH, Magnusson L, Isaksson M, Nilsson J et al. Concomitant deletions of tumor suppressor genes MEN1 and AIP are essential for the pathogenesis of the brown fat tumor hibernoma. Proc Natl Acad Sci U S A 2010 Dec 7;107(49):21122-7. PMID: 21078971
  • Verzi MP, Shin H, He HH, Sulahian R et al. Differentiation-specific histone modifications reveal dynamic chromatin interactions and partners for the intestinal transcription factor CDX2. Dev Cell 2010 Nov 16;19(5):713-26. PMID: 21074721
  • Komurov K, Ram PT et al. Patterns of human gene expression variance show strong associations with signaling network hierarchy. BMC Syst Biol 2010 Nov 12;4:154. PMID: 21073694
  • Peng S, Rao VS, Adelman RA, Rizzolo LJ et al. Claudin-19 and the barrier properties of the human retinal pigment epithelium. Invest Ophthalmol Vis Sci 2011 Mar;52(3):1392-403. PMID: 21071746
  • Park CY, Pierce SA, von Drehle M, Ivey KN et al. skNAC, a Smyd1-interacting transcription factor, is involved in cardiac development and skeletal muscle growth and regeneration. Proc Natl Acad Sci U S A 2010 Nov 30;107(48):20750-5. PMID: 21071677
  • Pastuszak AW, Joachimiak MP, Blanchette M, Rio DC et al. An SF1 affinity model to identify branch point sequences in human introns. Nucleic Acids Res 2011 Mar;39(6):2344-56. PMID: 21071404
  • Hagedorn PH, Burton CM, Sahar E, Domany E et al. Integrative analysis correlates donor transcripts to recipient autoantibodies in primary graft dysfunction after lung transplantation. Immunology 2011 Mar;132(3):394-400. PMID: 21070236
  • Uckun FM, Pitt J, Qazi S et al. JAK3 pathway is constitutively active in B-lineage acute lymphoblastic leukemia. Expert Rev Anticancer Ther 2011 Jan;11(1):37-48. PMID: 21070101
  • Gonçalves A, Finetti P, Sabatier R, Gilabert M et al. Poly(ADP-ribose) polymerase-1 mRNA expression in human breast cancer: a meta-analysis. Breast Cancer Res Treat 2011 May;127(1):273-81. PMID: 21069454
  • Satelli A, Rao PS, Thirumala S, Rao US et al. Galectin-4 functions as a tumor suppressor of human colorectal cancer. Int J Cancer 2011 Aug 15;129(4):799-809. PMID: 21064109
  • Cho S, Jun Y, Lee S, Choi HS et al. miRGator v2.0: an integrated system for functional investigation of microRNAs. Nucleic Acids Res 2011 Jan;39(Database issue):D158-62. PMID: 21062822
  • Albrecht I, Niesner U, Janke M, Menning A et al. Persistence of effector memory Th1 cells is regulated by Hopx. Eur J Immunol 2010 Nov;40(11):2993-3006. PMID: 21061432
  • Murthy SR, Pacak K, Loh YP et al. Carboxypeptidase E: elevated expression correlated with tumor growth and metastasis in pheochromocytomas and other cancers. Cell Mol Neurobiol 2010 Nov;30(8):1377-81. PMID: 21061162
  • Wang L, Huang J, Jiang M, Sun L et al. MYBPC1 computational phosphoprotein network construction and analysis between frontal cortex of HIV encephalitis (HIVE) and HIVE-control patients. Cell Mol Neurobiol 2011 Mar;31(2):233-41. PMID: 21061152
  • Censi F, Calcagnini G, Bartolini P, Giuliani A et al. A systems biology strategy on differential gene expression data discloses some biological features of atrial fibrillation. PLoS One 2010 Oct 29;5(10):e13668. PMID: 21060823
  • Cairo S, Wang Y, de Reyniès A, Duroure K et al. Stem cell-like micro-RNA signature driven by Myc in aggressive liver cancer. Proc Natl Acad Sci U S A 2010 Nov 23;107(47):20471-6. PMID: 21059911
  • Jones L, Wei G, Sevcikova S, Phan V et al. Gain of MYC underlies recurrent trisomy of the MYC chromosome in acute promyelocytic leukemia. J Exp Med 2010 Nov 22;207(12):2581-94. PMID: 21059853
  • Su N, Wang Y, Qian M, Deng M et al. Combinatorial regulation of transcription factors and microRNAs. BMC Syst Biol 2010 Nov 8;4:150. PMID: 21059252
  • Murray MJ, Saini HK, van Dongen S, Palmer RD et al. The two most common histological subtypes of malignant germ cell tumour are distinguished by global microRNA profiles, associated with differential transcription factor expression. Mol Cancer 2010 Nov 8;9:290. PMID: 21059207
  • Shiau CK, Gu DL, Chen CF, Lin CH et al. IGRhCellID: integrated genomic resources of human cell lines for identification. Nucleic Acids Res 2011 Jan;39(Database issue):D520-4. PMID: 21051335
  • Jing Z, Yuan X, Zhang J, Huang X et al. Chromosome 1 open reading frame 190 promotes activation of NF-κB canonical pathway and resistance of dendritic cells to tumor-associated inhibition in vitro. J Immunol 2010 Dec 1;185(11):6719-27. PMID: 21048106
  • Sugiura K, Su YQ, Li Q, Wigglesworth K et al. Estrogen promotes the development of mouse cumulus cells in coordination with oocyte-derived GDF9 and BMP15. Mol Endocrinol 2010 Dec;24(12):2303-14. PMID: 21047911
  • Bunt J, de Haas TG, Hasselt NE, Zwijnenburg DA et al. Regulation of cell cycle genes and induction of senescence by overexpression of OTX2 in medulloblastoma cell lines. Mol Cancer Res 2010 Oct;8(10):1344-57. PMID: 21047732
  • Reinius B, Shi C, Hengshuo L, Sandhu KS et al. Female-biased expression of long non-coding RNAs in domains that escape X-inactivation in mouse. BMC Genomics 2010 Nov 3;11:614. PMID: 21047393
  • Hu J, Xu J et al. Density based pruning for identification of differentially expressed genes from microarray data. BMC Genomics 2010 Nov 2;11 Suppl 2(Suppl 2):S3. PMID: 21047384
  • Wang L, Srivastava AK, Schwartz CE et al. Microarray data integration for genome-wide analysis of human tissue-selective gene expression. BMC Genomics 2010 Nov 2;11 Suppl 2(Suppl 2):S15. PMID: 21047382
  • Botta M, Haider S, Leung IX, Lio P et al. Intra- and inter-chromosomal interactions correlate with CTCF binding genome wide. Mol Syst Biol 2010 Nov 2;6:426. PMID: 21045820
  • Mercer TR, Dinger ME, Bracken CP, Kolle G et al. Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. Genome Res 2010 Dec;20(12):1639-50. PMID: 21045082
  • Garg R, Jhanwar S, Tyagi AK, Jain M et al. Genome-wide survey and expression analysis suggest diverse roles of glutaredoxin gene family members during development and response to various stimuli in rice. DNA Res 2010 Dec;17(6):353-67. PMID: 21044985
  • Lee HJ, Finkelstein D, Li X, Wu D et al. Identification of transmembrane protein 88 (TMEM88) as a dishevelled-binding protein. J Biol Chem 2010 Dec 31;285(53):41549-56. PMID: 21044957
  • Lacson R, Mbagwu M, Yousif H, Ohno-Machado L et al. Assessing the quality of annotations in asthma gene expression experiments. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S8. PMID: 21044366
  • Morgan AA, Khatri P, Jones RH, Sarwal MM et al. Comparison of multiplex meta analysis techniques for understanding the acute rejection of solid organ transplants. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S6. PMID: 21044364
  • Zhang J, Xiang Y, Ding L, Keen-Circle K et al. Using gene co-expression network analysis to predict biomarkers for chronic lymphocytic leukemia. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S5. PMID: 21044363
  • Payne PR, Huang K, Keen-Circle K, Kundu A et al. Multi-dimensional discovery of biomarker and phenotype complexes. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S3. PMID: 21044361
  • Chang HH, McGeachie M, Alterovitz G, Ramoni MF et al. Mapping transcription mechanisms from multimodal genomic data. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S2. PMID: 21044360
  • Yang X, Lee Y, Huang Y, Chen JL et al. Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models. BMC Bioinformatics 2010 Oct 28;11 Suppl 9(Suppl 9):S11. PMID: 21044358
  • Gorlov IP, Sircar K, Zhao H, Maity SN et al. Prioritizing genes associated with prostate cancer development. BMC Cancer 2010 Nov 2;10:599. PMID: 21044312
  • Van Pottelberge GR, Mestdagh P, Bracke KR, Thas O et al. MicroRNA expression in induced sputum of smokers and patients with chronic obstructive pulmonary disease. Am J Respir Crit Care Med 2011 Apr 1;183(7):898-906. PMID: 21037022
  • Cook KB, Kazan H, Zuberi K, Morris Q et al. RBPDB: a database of RNA-binding specificities. Nucleic Acids Res 2011 Jan;39(Database issue):D301-8. PMID: 21036867
  • Langdon WB, Upton GJ, da Silva Camargo R, Harrison AP et al. A survey of spatial defects in Homo Sapiens Affymetrix GeneChips. IEEE/ACM Trans Comput Biol Bioinform 2010 Oct-Dec;7(4):647-53. PMID: 21030732
  • Suo C, Salim A, Chia KS, Pawitan Y et al. Modified least-variant set normalization for miRNA microarray. RNA 2010 Dec;16(12):2293-303. PMID: 20980676
  • Lim SJ, Tan TW, Tong JC et al. Computational Epigenetics: the new scientific paradigm. Bioinformation 2010 Jan 23;4(7):331-7. PMID: 20978607
  • Glynn SA, Boersma BJ, Dorsey TH, Yi M et al. Increased NOS2 predicts poor survival in estrogen receptor-negative breast cancer patients. J Clin Invest 2010 Nov;120(11):3843-54. PMID: 20978357
  • Li J, Lenferink AE, Deng Y, Collins C et al. Identification of high-quality cancer prognostic markers and metastasis network modules. Nat Commun 2010 Jul 13;1(4):34. PMID: 20975711
  • Cushing L, Kuang PP, Qian J, Shao F et al. miR-29 is a major regulator of genes associated with pulmonary fibrosis. Am J Respir Cell Mol Biol 2011 Aug;45(2):287-94. PMID: 20971881
  • Bareke E, Pierre M, Gaigneaux A, De Meulder B et al. PathEx: a novel multi factors based datasets selector web tool. BMC Bioinformatics 2010 Oct 22;11:528. PMID: 20969778
  • Fei Z, Joung JG, Tang X, Zheng Y et al. Tomato Functional Genomics Database: a comprehensive resource and analysis package for tomato functional genomics. Nucleic Acids Res 2011 Jan;39(Database issue):D1156-63. PMID: 20965973
  • Miecznikowski JC, Wang D, Liu S, Sucheston L et al. Comparative survival analysis of breast cancer microarray studies identifies important prognostic genetic pathways. BMC Cancer 2010 Oct 21;10:573. PMID: 20964848
  • Pawłowski K, Muszewska A, Lenart A, Szczepińska T et al. A widespread peroxiredoxin-like domain present in tumor suppression- and progression-implicated proteins. BMC Genomics 2010 Oct 21;11:590. PMID: 20964819
  • Hao L, Ge X, Wan H, Hu S et al. Human functional genetic studies are biased against the medically most relevant primate-specific genes. BMC Evol Biol 2010 Oct 20;10:316. PMID: 20961448
  • Bianchini G, Iwamoto T, Qi Y, Coutant C et al. Prognostic and therapeutic implications of distinct kinase expression patterns in different subtypes of breast cancer. Cancer Res 2010 Nov 1;70(21):8852-62. PMID: 20959472
  • Li Y, Liu H, Wang J, Li Y et al. [BAG family gene and its relationship with lung adenocarcinoma susceptibility]. Zhongguo Fei Ai Za Zhi 2010 Oct;13(10):942-6. PMID: 20959066
  • Kleger A, Seufferlein T, Malan D, Tischendorf M et al. Modulation of calcium-activated potassium channels induces cardiogenesis of pluripotent stem cells and enrichment of pacemaker-like cells. Circulation 2010 Nov 2;122(18):1823-36. PMID: 20956206
  • Gatti DM, Barry WT, Nobel AB, Rusyn I et al. Heading down the wrong pathway: on the influence of correlation within gene sets. BMC Genomics 2010 Oct 18;11:574. PMID: 20955544
  • Mendes-Ferreira A, Sampaio-Marques B, Barbosa C, Rodrigues F et al. Accumulation of non-superoxide anion reactive oxygen species mediates nitrogen-limited alcoholic fermentation by Saccharomyces cerevisiae. Appl Environ Microbiol 2010 Dec;76(24):7918-24. PMID: 20952643
  • Liu Y, Han D, Han Y, Yan Z et al. Ab initio identification of transcription start sites in the Rhesus macaque genome by histone modification and RNA-Seq. Nucleic Acids Res 2011 Mar;39(4):1408-18. PMID: 20952408
  • Narendra V, Lytkin NI, Aliferis CF, Statnikov A et al. A comprehensive assessment of methods for de-novo reverse-engineering of genome-scale regulatory networks. Genomics 2011 Jan;97(1):7-18. PMID: 20951196
  • Lin CC, Hsiang JT, Wu CY, Oyang YJ et al. Dynamic functional modules in co-expressed protein interaction networks of dilated cardiomyopathy. BMC Syst Biol 2010 Oct 15;4:138. PMID: 20950417
  • Thorner AR, Parker JS, Hoadley KA, Perou CM et al. Potential tumor suppressor role for the c-Myb oncogene in luminal breast cancer. PLoS One 2010 Oct 7;5(10):e13073. PMID: 20949095
  • Wang Y, Robbins KR, Rekaya R et al. Comparison of computational models for assessing conservation of gene expression across species. PLoS One 2010 Oct 8;5(10):e13239. PMID: 20949029
  • Gunaratne GH, Gunaratne PH, Seemann L, Török A et al. Using effective subnetworks to predict selected properties of gene networks. PLoS One 2010 Oct 8;5(10):e13080. PMID: 20949025
  • Ertel A, Dean JL, Rui H, Liu C et al. RB-pathway disruption in breast cancer: differential association with disease subtypes, disease-specific prognosis and therapeutic response. Cell Cycle 2010 Oct 15;9(20):4153-63. PMID: 20948315
  • Nguyen TT, Almon RR, Dubois DC, Jusko WJ et al. Comparative analysis of acute and chronic corticosteroid pharmacogenomic effects in rat liver: transcriptional dynamics and regulatory structures. BMC Bioinformatics 2010 Oct 14;11:515. PMID: 20946642
  • Kelly VR, Xu B, Kuick R, Koenig RJ et al. Dax1 up-regulates Oct4 expression in mouse embryonic stem cells via LRH-1 and SRA. Mol Endocrinol 2010 Dec;24(12):2281-91. PMID: 20943815
  • Xu Y, Hu W, Chang Z, Duanmu H et al. Prediction of human protein-protein interaction by a mixed Bayesian model and its application to exploring underlying cancer-related pathway crosstalk. J R Soc Interface 2011 Apr 6;8(57):555-67. PMID: 20943681
  • Berger F, De Meulder B, Gaigneaux A, Depiereux S et al. Functional analysis: evaluation of response intensities--tailoring ANOVA for lists of expression subsets. BMC Bioinformatics 2010 Oct 13;11:510. PMID: 20942918
  • Du C, Zhang C, Hassan S, Biswas MH et al. Protein kinase D1 suppresses epithelial-to-mesenchymal transition through phosphorylation of snail. Cancer Res 2010 Oct 15;70(20):7810-9. PMID: 20940406
  • Lai YDifferential expression analysis of Digital Gene Expression data: RNA-tag filtering, comparison of t-type tests and their genome-wide co-expression based adjustments. Int J Bioinform Res Appl 2010;6(4):353-65. PMID: 20940123
  • Gurtowski J, Cancio A, Shah H, Levovitz C et al. Geoseq: a tool for dissecting deep-sequencing datasets. BMC Bioinformatics 2010 Oct 12;11:506. PMID: 20939882
  • Weber CC, Hurst LD et al. Intronic AT skew is a defendable proxy for germline transcription but does not predict crossing-over or protein evolution rates in Drosophila melanogaster. J Mol Evol 2010 Dec;71(5-6):415-26. PMID: 20938653
  • Thorsen K, Mansilla F, Schepeler T, Øster B et al. Alternative splicing of SLC39A14 in colorectal cancer is regulated by the Wnt pathway. Mol Cell Proteomics 2011 Jan;10(1):M110.002998. PMID: 20938052
  • Boulkroun S, Samson-Couterie B, Dzib JF, Lefebvre H et al. Adrenal cortex remodeling and functional zona glomerulosa hyperplasia in primary aldosteronism. Hypertension 2010 Nov;56(5):885-92. PMID: 20937967
  • Freyhult E, Landfors M, Önskog J, Hvidsten TR et al. Challenges in microarray class discovery: a comprehensive examination of normalization, gene selection and clustering. BMC Bioinformatics 2010 Oct 11;11:503. PMID: 20937082
  • Gaspar N, Marshall L, Perryman L, Bax DA et al. MGMT-independent temozolomide resistance in pediatric glioblastoma cells associated with a PI3-kinase-mediated HOX/stem cell gene signature. Cancer Res 2010 Nov 15;70(22):9243-52. PMID: 20935218
  • Swindell WRMetallothionein and the biology of aging. Ageing Res Rev 2011 Jan;10(1):132-45. PMID: 20933613
  • Fabris S, Bollati V, Agnelli L, Morabito F et al. Biological and clinical relevance of quantitative global methylation of repetitive DNA sequences in chronic lymphocytic leukemia. Epigenetics 2011 Feb;6(2):188-94. PMID: 20930513
  • Winsor GL, Lam DK, Fleming L, Lo R et al. Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes. Nucleic Acids Res 2011 Jan;39(Database issue):D596-600. PMID: 20929876
  • Ciraci C, Tuggle CK, Wannemuehler MJ, Nettleton D et al. Unique genome-wide transcriptome profiles of chicken macrophages exposed to Salmonella-derived endotoxin. BMC Genomics 2010 Oct 8;11:545. PMID: 20929591
  • Kupershmidt I, Su QJ, Grewal A, Sundaresh S et al. Ontology-based meta-analysis of global collections of high-throughput public data. PLoS One 2010 Sep 29;5(9). PMID: 20927376
  • Cao K, Chen-Plotkin AS, Plotkin JB, Wang LS et al. Age-correlated gene expression in normal and neurodegenerative human brain tissues. PLoS One 2010 Sep 29;5(9). PMID: 20927326
  • Zheng B, Liao Z, Locascio JJ, Lesniak KA et al. PGC-1α, a potential therapeutic target for early intervention in Parkinson's disease. Sci Transl Med 2010 Oct 6;2(52):52ra73. PMID: 20926834
  • Mangelsen E, Kilian J, Harter K, Jansson C et al. Transcriptome analysis of high-temperature stress in developing barley caryopses: early stress responses and effects on storage compound biosynthesis. Mol Plant 2011 Jan;4(1):97-115. PMID: 20924027
  • Gardet A, Benita Y, Li C, Sands BE et al. LRRK2 is involved in the IFN-gamma response and host response to pathogens. J Immunol 2010 Nov 1;185(9):5577-85. PMID: 20921534
  • Jung YW, Rutishauser RL, Joshi NS, Haberman AM et al. Differential localization of effector and memory CD8 T cell subsets in lymphoid organs during acute viral infection. J Immunol 2010 Nov 1;185(9):5315-25. PMID: 20921525
  • Huang JX, Wang L, Jiang MH et al. TNFRSF11B computational development network construction and analysis between frontal cortex of HIV encephalitis (HIVE) and HIVE-control patients. J Inflamm (Lond) 2010 Sep 30;7:50. PMID: 20920282
  • Waltman P, Kacmarczyk T, Bate AR, Kearns DB et al. Multi-species integrative biclustering. Genome Biol 2010;11(9):R96. PMID: 20920250
  • Manisterski M, Golan M, Amir S, Weisman Y et al. Hypoxia induces PTHrP gene transcription in human cancer cells through the HIF-2α. Cell Cycle 2010 Sep 15;9(18):3723-9. PMID: 20890122
  • Hassane DC, Sen S, Minhajuddin M, Rossi RM et al. Chemical genomic screening reveals synergism between parthenolide and inhibitors of the PI-3 kinase and mTOR pathways. Blood 2010 Dec 23;116(26):5983-90. PMID: 20889920
  • Nishino K, Toyoda M, Yamazaki-Inoue M, Makino H et al. Defining hypo-methylated regions of stem cell-specific promoters in human iPS cells derived from extra-embryonic amnions and lung fibroblasts. PLoS One 2010 Sep 27;5(9):e13017. PMID: 20885964
  • Chen R, Sigdel TK, Li L, Kambham N et al. Differentially expressed RNA from public microarray data identifies serum protein biomarkers for cross-organ transplant rejection and other conditions. PLoS Comput Biol 2010 Sep 23;6(9). PMID: 20885780
  • Lin CC, Chen LC, Tseng VS, Yan JJ et al. Malignant pleural effusion cells show aberrant glucose metabolism gene expression. Eur Respir J 2011 Jun;37(6):1453-65. PMID: 20884743
  • Marvi M, Rose JB, Bang A, Moon BC et al. Nucleoside transporter expression profiles in human cardiac tissue show striking individual variability with overall predominance of hENT1. Eur J Pharm Sci 2010 Dec 23;41(5):685-91. PMID: 20883780
  • Paulino VM, Yang Z, Kloss J, Ennis MJ et al. TROY (TNFRSF19) is overexpressed in advanced glial tumors and promotes glioblastoma cell invasion via Pyk2-Rac1 signaling. Mol Cancer Res 2010 Nov;8(11):1558-67. PMID: 20881009
  • Agam A, Yalcin B, Bhomra A, Cubin M et al. Elusive copy number variation in the mouse genome. PLoS One 2010 Sep 21;5(9):e12839. PMID: 20877625
  • Jeong SW, Das PK, Jeoung SC, Song JY et al. Ethylene suppression of sugar-induced anthocyanin pigmentation in Arabidopsis. Plant Physiol 2010 Nov;154(3):1514-31. PMID: 20876338
  • Chandrasekaran S, Price ND et al. Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proc Natl Acad Sci U S A 2010 Oct 12;107(41):17845-50. PMID: 20876091
  • Dawany NB, Tozeren A et al. Asymmetric microarray data produces gene lists highly predictive of research literature on multiple cancer types. BMC Bioinformatics 2010 Sep 27;11:483. PMID: 20875095
  • Brannon AR, Reddy A, Seiler M, Arreola A et al. Molecular Stratification of Clear Cell Renal Cell Carcinoma by Consensus Clustering Reveals Distinct Subtypes and Survival Patterns. Genes Cancer 2010 Feb 1;1(2):152-163. PMID: 20871783
  • Deng J, Deng L, Su S, Zhang M et al. Investigating the predictability of essential genes across distantly related organisms using an integrative approach. Nucleic Acids Res 2011 Feb;39(3):795-807. PMID: 20870748
  • Lee E, Bussemaker HJ et al. Identifying the genetic determinants of transcription factor activity. Mol Syst Biol 2010 Sep 21;6:412. PMID: 20865005
  • Liu S, Lin L, Jiang P, Wang D et al. A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species. Nucleic Acids Res 2011 Jan;39(2):578-88. PMID: 20864445
  • Boué S, Paramonov I, Barrero MJ, Izpisúa Belmonte JC et al. Analysis of human and mouse reprogramming of somatic cells to induced pluripotent stem cells. What is in the plate? PLoS One 2010 Sep 17;5(9). PMID: 20862250
  • Széles L, Póliska S, Nagy G, Szatmari I et al. Research resource: transcriptome profiling of genes regulated by RXR and its permissive and nonpermissive partners in differentiating monocyte-derived dendritic cells. Mol Endocrinol 2010 Nov;24(11):2218-31. PMID: 20861222
  • Toedling J, Ciaudo C, Voinnet O, Heard E et al. Girafe--an R/Bioconductor package for functional exploration of aligned next-generation sequencing reads. Bioinformatics 2010 Nov 15;26(22):2902-3. PMID: 20861030
  • Astsaturov I, Ratushny V, Sukhanova A, Einarson MB et al. Synthetic lethal screen of an EGFR-centered network to improve targeted therapies. Sci Signal 2010 Sep 21;3(140):ra67. PMID: 20858866
  • Aryee MJ, Wu Z, Ladd-Acosta C, Herb B et al. Accurate genome-scale percentage DNA methylation estimates from microarray data. Biostatistics 2011 Apr;12(2):197-210. PMID: 20858772
  • Wegener KM, Singh AK, Jacobs JM, Elvitigala T et al. Global proteomics reveal an atypical strategy for carbon/nitrogen assimilation by a cyanobacterium under diverse environmental perturbations. Mol Cell Proteomics 2010 Dec;9(12):2678-89. PMID: 20858728
  • Ungethuem U, Haeupl T, Witt H, Koczan D et al. Molecular signatures and new candidates to target the pathogenesis of rheumatoid arthritis. Physiol Genomics 2010 Nov 29;42A(4):267-82. PMID: 20858714
  • Yau C, Mouradov D, Jorissen RN, Colella S et al. A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data. Genome Biol 2010;11(9):R92. PMID: 20858232
  • Cai YD, Huang T, Feng KY, Hu L et al. A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas. PLoS One 2010 Sep 13;5(9):e12726. PMID: 20856936
  • Spade DJ, Griffitt RJ, Liu L, Brown-Peterson NJ et al. Queen conch (Strombus gigas) testis regresses during the reproductive season at nearshore sites in the Florida Keys. PLoS One 2010 Sep 15;5(9):e12737. PMID: 20856805
  • Bishop CV, Bogan RL, Hennebold JD, Stouffer RL et al. Analysis of microarray data from the macaque corpus luteum; the search for common themes in primate luteal regression. Mol Hum Reprod 2011 Mar;17(3):143-51. PMID: 20855453
  • Zheng M, Liu GX, Zhou CG, Liang YC et al. Gravitation field algorithm and its application in gene cluster. Algorithms Mol Biol 2010 Sep 20;5:32. PMID: 20854683
  • Zaravinos A, Chatziioannou M, Lambrou GI, Boulalas I et al. Implication of RAF and RKIP genes in urinary bladder cancer. Pathol Oncol Res 2011 Jun;17(2):181-90. PMID: 20853079
  • Park YY, Choi HS, Lee JS et al. Systems-level analysis of gene expression data revealed NR0B2/SHP as potential tumor suppressor in human liver cancer. Mol Cells 2010 Nov;30(5):485-91. PMID: 20853064
  • Wang X, Osada T, Wang Y, Yu L et al. CSPG4 protein as a new target for the antibody-based immunotherapy of triple-negative breast cancer. J Natl Cancer Inst 2010 Oct 6;102(19):1496-512. PMID: 20852124
  • Teider N, Scott DK, Neiss A, Weeraratne SD et al. Neuralized1 causes apoptosis and downregulates Notch target genes in medulloblastoma. Neuro Oncol 2010 Dec;12(12):1244-56. PMID: 20847082
  • Sun H, Wu J, Wickramasinghe P, Pal S et al. Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq. Nucleic Acids Res 2011 Jan;39(1):190-201. PMID: 20843783
  • Wu C, Amini-Nik S, Nadesan P, Stanford WL et al. Aggressive fibromatosis (desmoid tumor) is derived from mesenchymal progenitor cells. Cancer Res 2010 Oct 1;70(19):7690-8. PMID: 20841474
  • Pekowska A, Benoukraf T, Ferrier P, Spicuglia S et al. A unique H3K4me2 profile marks tissue-specific gene regulation. Genome Res 2010 Nov;20(11):1493-502. PMID: 20841431
  • Itsara A, Wu H, Smith JD, Nickerson DA et al. De novo rates and selection of large copy number variation. Genome Res 2010 Nov;20(11):1469-81. PMID: 20841430
  • Nitsch D, Gonçalves JP, Ojeda F, de Moor B et al. Candidate gene prioritization by network analysis of differential expression using machine learning approaches. BMC Bioinformatics 2010 Sep 14;11:460. PMID: 20840752
  • Raychaudhuri S, Korn JM, McCarroll SA, International Schizophrenia Consortium et al. Accurately assessing the risk of schizophrenia conferred by rare copy-number variation affecting genes with brain function. PLoS Genet 2010 Sep 9;6(9):e1001097. PMID: 20838587
  • Ding Q, MacAlpine DM et al. Preferential re-replication of Drosophila heterochromatin in the absence of geminin. PLoS Genet 2010 Sep 9;6(9):e1001112. PMID: 20838463
  • Rao S, Zhen S, Roumiantsev S, McDonald LT et al. Differential roles of Sall4 isoforms in embryonic stem cell pluripotency. Mol Cell Biol 2010 Nov;30(22):5364-80. PMID: 20837710
  • Uddin M, Koenen KC, Aiello AE, Wildman DE et al. Epigenetic and inflammatory marker profiles associated with depression in a community-based epidemiologic sample. Psychol Med 2011 May;41(5):997-1007. PMID: 20836906
  • Ramachandran S, Ruef B, Pich C, Sprague J et al. Exploring zebrafish genomic, functional and phenotypic data using ZFIN. Curr Protoc Bioinformatics 2010 Sep;Chapter 1:Unit 1.18. PMID: 20836073
  • Gelly JC, Orgeur M, Jacq C, Lelandais G et al. MitoGenesisDB: an expression data mining tool to explore spatio-temporal dynamics of mitochondrial biogenesis. Nucleic Acids Res 2011 Jan;39(Database issue):D1079-84. PMID: 20833631
  • Lam LT, Lu X, Zhang H, Lesniewski R et al. A microRNA screen to identify modulators of sensitivity to BCL2 inhibitor ABT-263 (navitoclax). Mol Cancer Ther 2010 Nov;9(11):2943-50. PMID: 20829195
  • Stojmirović A, Yu YK et al. Robust and accurate data enrichment statistics via distribution function of sum of weights. Bioinformatics 2010 Nov 1;26(21):2752-9. PMID: 20826881
  • Cosgrove EJ, Gardner TS, Kolaczyk ED et al. On the choice and number of microarrays for transcriptional regulatory network inference. BMC Bioinformatics 2010 Sep 9;11:454. PMID: 20825684
  • Dexter TJ, Sims D, Mitsopoulos C, Mackay A et al. Genomic distance entrained clustering and regression modelling highlights interacting genomic regions contributing to proliferation in breast cancer. BMC Syst Biol 2010 Sep 8;4:127. PMID: 20825665
  • Patel VN, Bebek G, Mariadason JM, Wang D et al. Prediction and testing of biological networks underlying intestinal cancer. PLoS One 2010 Sep 1;5(9). PMID: 20824133
  • Serb JM, Orr MC, West Greenlee MH et al. Using evolutionary conserved modules in gene networks as a strategy to leverage high throughput gene expression queries. PLoS One 2010 Sep 2;5(9). PMID: 20824082
  • Gille C, Bölling C, Hoppe A, Bulik S et al. HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology. Mol Syst Biol 2010 Sep 7;6:411. PMID: 20823849
  • Dao P, Colak R, Salari R, Moser F et al. Inferring cancer subnetwork markers using density-constrained biclustering. Bioinformatics 2010 Sep 15;26(18):i625-31. PMID: 20823331
  • Guillon-Munos A, Dambrine G, Richerioux N, Coupeau D et al. The chicken miR-150 targets the avian orthologue of the functional zebrafish MYB 3'UTR target site. BMC Mol Biol 2010 Sep 2;11:67. PMID: 20813039
  • Zavadil J, Ye H, Liu Z, Wu J et al. Profiling and functional analyses of microRNAs and their target gene products in human uterine leiomyomas. PLoS One 2010 Aug 24;5(8):e12362. PMID: 20808773
  • Fernandez-Valverde SL, Taft RJ, Mattick JS et al. Dynamic isomiR regulation in Drosophila development. RNA 2010 Oct;16(10):1881-8. PMID: 20805289
  • Lu TP, Tsai MH, Lee JM, Hsu CP et al. Identification of a novel biomarker, SEMA5A, for non-small cell lung carcinoma in nonsmoking women. Cancer Epidemiol Biomarkers Prev 2010 Oct;19(10):2590-7. PMID: 20802022
  • Liu BH, Yu H, Tu K, Li C et al. DCGL: an R package for identifying differentially coexpressed genes and links from gene expression microarray data. Bioinformatics 2010 Oct 15;26(20):2637-8. PMID: 20801914
  • Yu Y, Ping J, Chen H, Jiao L et al. A comparative analysis of liver transcriptome suggests divergent liver function among human, mouse and rat. Genomics 2010 Nov;96(5):281-9. PMID: 20800674
  • Sama IE, Huynen MA et al. Measuring the physical cohesiveness of proteins using physical interaction enrichment. Bioinformatics 2010 Nov 1;26(21):2737-43. PMID: 20798171
  • Walker MP, Diaugustine RP, Zeringue E, Bunger MK et al. An IGF1/insulin receptor substrate-1 pathway stimulates a mitotic kinase (cdk1) in the uterine epithelium during the proliferative response to estradiol. J Endocrinol 2010 Nov;207(2):225-35. PMID: 20798132
  • Zhu CQ, Strumpf D, Li CY, Li Q et al. Prognostic gene expression signature for squamous cell carcinoma of lung. Clin Cancer Res 2010 Oct 15;16(20):5038-47. PMID: 20739434
  • Hummel TR, Jessen WJ, Miller SJ, Kluwe L et al. Gene expression analysis identifies potential biomarkers of neurofibromatosis type 1 including adrenomedullin. Clin Cancer Res 2010 Oct 15;16(20):5048-57. PMID: 20739432
  • McEachron TA, Pawlinski R, Richards KL, Church FC et al. Protease-activated receptors mediate crosstalk between coagulation and fibrinolysis. Blood 2010 Dec 2;116(23):5037-44. PMID: 20736455
  • Zhang XY, Shi L, Liu Y, Tian F et al. ICPS: an integrative cancer profiler system. Bioinformatics 2010 Oct 15;26(20):2649-50. PMID: 20736342
  • Jima DD, Zhang J, Jacobs C, Richards KL et al. Deep sequencing of the small RNA transcriptome of normal and malignant human B cells identifies hundreds of novel microRNAs. Blood 2010 Dec 2;116(23):e118-27. PMID: 20733160
  • Wilson KD, Hu S, Venkatasubrahmanyam S, Fu JD et al. Dynamic microRNA expression programs during cardiac differentiation of human embryonic stem cells: role for miR-499. Circ Cardiovasc Genet 2010 Oct;3(5):426-35. PMID: 20733065
  • Blow MJ, McCulley DJ, Li Z, Zhang T et al. ChIP-Seq identification of weakly conserved heart enhancers. Nat Genet 2010 Sep;42(9):806-10. PMID: 20729851
  • Ehlén A, Brennan DJ, Nodin B, O'Connor DP et al. Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer. J Transl Med 2010 Aug 20;8:78. PMID: 20727170
  • Zhang M, Zhang Y, Liu L, Yu L et al. Gene Expression Browser: large-scale and cross-experiment microarray data integration, management, search & visualization. BMC Bioinformatics 2010 Aug 20;11:433. PMID: 20727159
  • Takasugi M, Yagi S, Hirabayashi K, Shiota K et al. DNA methylation status of nuclear-encoded mitochondrial genes underlies the tissue-dependent mitochondrial functions. BMC Genomics 2010 Aug 19;11:481. PMID: 20723256
  • Wong EH, Smith DK, Rabadan R, Peiris M et al. Codon usage bias and the evolution of influenza A viruses. Codon Usage Biases of Influenza Virus. BMC Evol Biol 2010 Aug 19;10:253. PMID: 20723216
  • Taylor NL, Howell KA, Heazlewood JL, Tan TY et al. Analysis of the rice mitochondrial carrier family reveals anaerobic accumulation of a basic amino acid carrier involved in arginine metabolism during seed germination. Plant Physiol 2010 Oct;154(2):691-704. PMID: 20720170
  • Assou S, Boumela I, Haouzi D, Anahory T et al. Dynamic changes in gene expression during human early embryo development: from fundamental aspects to clinical applications. Hum Reprod Update 2011 Mar-Apr;17(2):272-90. PMID: 20716614
  • Datta S, Pihur V, Datta S et al. An adaptive optimal ensemble classifier via bagging and rank aggregation with applications to high dimensional data. BMC Bioinformatics 2010 Aug 18;11:427. PMID: 20716381
  • Fu FF, Xue HW et al. Coexpression analysis identifies Rice Starch Regulator1, a rice AP2/EREBP family transcription factor, as a novel rice starch biosynthesis regulator. Plant Physiol 2010 Oct;154(2):927-38. PMID: 20713616
  • Chang X, Liu S, Yu YT, Li YX et al. Identifying modules of coexpressed transcript units and their organization of Saccharopolyspora erythraea from time series gene expression profiles. PLoS One 2010 Aug 12;5(8):e12126. PMID: 20711345
  • Oberhardt MA, Goldberg JB, Hogardt M, Papin JA et al. Metabolic network analysis of Pseudomonas aeruginosa during chronic cystic fibrosis lung infection. J Bacteriol 2010 Oct;192(20):5534-48. PMID: 20709898
  • Jennen DG, Gaj S, Giesbertz PJ, van Delft JH et al. Biotransformation pathway maps in WikiPathways enable direct visualization of drug metabolism related expression changes. Drug Discov Today 2010 Oct;15(19-20):851-8. PMID: 20708095
  • Visser WE, Swagemakers SM, Ozgur Z, Schot R et al. Transcriptional profiling of fibroblasts from patients with mutations in MCT8 and comparative analysis with the human brain transcriptome. Hum Mol Genet 2010 Nov 1;19(21):4189-200. PMID: 20705735
  • Bachtrog D, Toda NR, Lockton S et al. Dosage compensation and demasculinization of X chromosomes in Drosophila. Curr Biol 2010 Aug 24;20(16):1476-81. PMID: 20705467
  • Zuber H, Davidian JC, Aubert G, Aimé D et al. The seed composition of Arabidopsis mutants for the group 3 sulfate transporters indicates a role in sulfate translocation within developing seeds. Plant Physiol 2010 Oct;154(2):913-26. PMID: 20702726
  • Vignudelli T, Selmi T, Martello A, Parenti S et al. ZFP36L1 negatively regulates erythroid differentiation of CD34+ hematopoietic stem cells by interfering with the Stat5b pathway. Mol Biol Cell 2010 Oct 1;21(19):3340-51. PMID: 20702587
  • Suyama M, Harrington ED, Vinokourova S, von Knebel Doeberitz M et al. A network of conserved co-occurring motifs for the regulation of alternative splicing. Nucleic Acids Res 2010 Dec;38(22):7916-26. PMID: 20702423
  • Rao SK, Pavicevic Z, Du Z, Kim JG et al. Pro-inflammatory genes as biomarkers and therapeutic targets in oral squamous cell carcinoma. J Biol Chem 2010 Oct 15;285(42):32512-21. PMID: 20702412
  • Le HS, Oltvai ZN, Bar-Joseph Z et al. Cross-species queries of large gene expression databases. Bioinformatics 2010 Oct 1;26(19):2416-23. PMID: 20702396
  • Sa Q, Hart E, Nadeau JH, Hoover-Plow JL et al. Mouse chromosome 17 candidate modifier genes for thrombosis. Mamm Genome 2010 Aug;21(7-8):337-49. PMID: 20700597
  • Cheng WC, Tsai ML, Chang CW, Huang CL et al. Microarray meta-analysis database (M(2)DB): a uniformly pre-processed, quality controlled, and manually curated human clinical microarray database. BMC Bioinformatics 2010 Aug 10;11:421. PMID: 20698961
  • Verzi MP, Hatzis P, Sulahian R, Philips J et al. TCF4 and CDX2, major transcription factors for intestinal function, converge on the same cis-regulatory regions. Proc Natl Acad Sci U S A 2010 Aug 24;107(34):15157-62. PMID: 20696899
  • Smith RP, Lerch-Haner JK, Pardinas JR, Buchser WJ et al. Transcriptional profiling of intrinsic PNS factors in the postnatal mouse. Mol Cell Neurosci 2011 Jan;46(1):32-44. PMID: 20696251
  • Zhang W, Gao S, Zhou X, Xia J et al. Multiple distinct small RNAs originate from the same microRNA precursors. Genome Biol 2010;11(8):R81. PMID: 20696037
  • Finka A, Mattoo RU, Goloubinoff P et al. Meta-analysis of heat- and chemically upregulated chaperone genes in plant and human cells. Cell Stress Chaperones 2011 Jan;16(1):15-31. PMID: 20694844
  • Cui JY, Gunewardena SS, Rockwell CE, Klaassen CD et al. ChIPing the cistrome of PXR in mouse liver. Nucleic Acids Res 2010 Dec;38(22):7943-63. PMID: 20693526
  • Smith AE, Mohamedali AM, Kulasekararaj A, Lim Z et al. Next-generation sequencing of the TET2 gene in 355 MDS and CMML patients reveals low-abundance mutant clones with early origins, but indicates no definite prognostic value. Blood 2010 Nov 11;116(19):3923-32. PMID: 20693430
  • Ling KH, Hewitt CA, Beissbarth T, Hyde L et al. Spatiotemporal regulation of multiple overlapping sense and novel natural antisense transcripts at the Nrgn and Camk2n1 gene loci during mouse cerebral corticogenesis. Cereb Cortex 2011 Mar;21(3):683-97. PMID: 20693275
  • Park SG, Choi SS et al. Expression breadth and expression abundance behave differently in correlations with evolutionary rates. BMC Evol Biol 2010 Aug 7;10:241. PMID: 20691101
  • Dudley JT, Pouliot Y, Chen R, Morgan AA et al. Translational bioinformatics in the cloud: an affordable alternative. Genome Med 2010 Aug 6;2(8):51. PMID: 20691073
  • Salmon-Divon M, Dvinge H, Tammoja K, Bertone P et al. PeakAnalyzer: genome-wide annotation of chromatin binding and modification loci. BMC Bioinformatics 2010 Aug 6;11:415. PMID: 20691053
  • Gilchrist CA, Moore ES, Zhang Y, Bousquet CB et al. Regulation of Virulence of Entamoeba histolytica by the URE3-BP Transcription Factor. mBio 2010 May 18;1(1). PMID: 20689746
  • Swindell WR, Johnston A, Gudjonsson JE et al. Transcriptional profiles of leukocyte populations provide a tool for interpreting gene expression patterns associated with high fat diet in mice. PLoS One 2010 Jul 29;5(7):e11861. PMID: 20686622
  • Pinnix ZK, Miller LD, Wang W, D'Agostino R Jr et al. Ferroportin and iron regulation in breast cancer progression and prognosis. Sci Transl Med 2010 Aug 4;2(43):43ra56. PMID: 20686179
  • Ochsner SA, Watkins CM, LaGrone BS, Steffen DL et al. Research resource: Tissue-specific transcriptomics and cistromics of nuclear receptor signaling: a web research resource. Mol Endocrinol 2010 Oct;24(10):2065-9. PMID: 20685849
  • Kapasa M, Arhondakis S, Kossida S et al. Phylogenetic and regulatory region analysis of Wnt5 genes reveals conservation of a regulatory module with putative implication in pancreas development. Biol Direct 2010 Aug 4;5:49. PMID: 20684756
  • De S, Zhang Y, Garner JR, Wang SA et al. Disease and phenotype gene set analysis of disease-based gene expression in mouse and human. Physiol Genomics 2010 Oct;42A(2):162-7. PMID: 20682848
  • Thi MM, Suadicani SO, Spray DC et al. Fluid flow-induced soluble vascular endothelial growth factor isoforms regulate actin adaptation in osteoblasts. J Biol Chem 2010 Oct 1;285(40):30931-41. PMID: 20682775
  • Newman AM, Cooper JB et al. Lab-specific gene expression signatures in pluripotent stem cells. Cell Stem Cell 2010 Aug 6;7(2):258-62. PMID: 20682451
  • Chari R, Lonergan KM, Pikor LA, Coe BP et al. A sequence-based approach to identify reference genes for gene expression analysis. BMC Med Genomics 2010 Aug 3;3:32. PMID: 20682026
  • Junes-Gill KS, Gallaher TK, Gluzman-Poltorak Z, Miller JD et al. hHSS1: a novel secreted factor and suppressor of glioma growth located at chromosome 19q13.33. J Neurooncol 2011 Apr;102(2):197-211. PMID: 20680400
  • Weng YI, Hsu PY, Liyanarachchi S, Liu J et al. Epigenetic influences of low-dose bisphenol A in primary human breast epithelial cells. Toxicol Appl Pharmacol 2010 Oct 15;248(2):111-21. PMID: 20678512
  • Wang G, Ye Y, Zheng W, Ma W et al. [Identification of candidate genes for lung adenocarcinoma using Toppgene]. Zhongguo Fei Ai Za Zhi 2010 Apr;13(4):282-6. PMID: 20677550
  • Yan W, Si Y, Slaymaker S, Li J et al. Zmynd15 encodes a histone deacetylase-dependent transcriptional repressor essential for spermiogenesis and male fertility. J Biol Chem 2010 Oct 8;285(41):31418-26. PMID: 20675388
  • Tsai CC, Chen CL, Liu HC, Lee YT et al. Overexpression of hTERT increases stem-like properties and decreases spontaneous differentiation in human mesenchymal stem cell lines. J Biomed Sci 2010 Jul 29;17(1):64. PMID: 20670406
  • Cappallo-Obermann H, von Kopylow K, Schulze W, Spiess AN et al. A biopsy sample reduction approach to identify significant alterations of the testicular transcriptome in the presence of Y-chromosomal microdeletions that are independent of germ cell composition. Hum Genet 2010 Oct;128(4):421-31. PMID: 20668881
  • Uva P, Lahm A, Sbardellati A, Grigoriadis A et al. Comparative Membranome expression analysis in primary tumors and derived cell lines. PLoS One 2010 Jul 23;5(7):e11742. PMID: 20668533
  • Irie HY, Shrestha Y, Selfors LM, Frye F et al. PTK6 regulates IGF-1-induced anchorage-independent survival. PLoS One 2010 Jul 23;5(7):e11729. PMID: 20668531
  • Joseph EW, Pratilas CA, Poulikakos PI, Tadi M et al. The RAF inhibitor PLX4032 inhibits ERK signaling and tumor cell proliferation in a V600E BRAF-selective manner. Proc Natl Acad Sci U S A 2010 Aug 17;107(33):14903-8. PMID: 20668238
  • Hewitt SC, Kissling GE, Fieselman KE, Jayes FL et al. Biological and biochemical consequences of global deletion of exon 3 from the ER alpha gene. FASEB J 2010 Dec;24(12):4660-7. PMID: 20667977
  • Junk AK, Goel M, Mundorf T, Rockwood EJ et al. Decreased carbohydrate metabolism enzyme activities in the glaucomatous trabecular meshwork. Mol Vis 2010 Jul 10;16:1286-91. PMID: 20664702
  • Nakagawa M, Takizawa N, Narita M, Ichisaka T et al. Promotion of direct reprogramming by transformation-deficient Myc. Proc Natl Acad Sci U S A 2010 Aug 10;107(32):14152-7. PMID: 20660764
  • Ferraiuolo MA, Rousseau M, Miyamoto C, Shenker S et al. The three-dimensional architecture of Hox cluster silencing. Nucleic Acids Res 2010 Nov;38(21):7472-84. PMID: 20660483
  • Gowda M, Nunes CC, Sailsbery J, Xue M et al. Genome-wide characterization of methylguanosine-capped and polyadenylated small RNAs in the rice blast fungus Magnaporthe oryzae. Nucleic Acids Res 2010 Nov;38(21):7558-69. PMID: 20660015
  • Plaisier SB, Taschereau R, Wong JA, Graeber TG et al. Rank-rank hypergeometric overlap: identification of statistically significant overlap between gene-expression signatures. Nucleic Acids Res 2010 Sep;38(17):e169. PMID: 20660011
  • Benner MJ, Drew RE, Hardy RW, Robison BD et al. Zebrafish (Danio rerio) vary by strain and sex in their behavioral and transcriptional responses to selenium supplementation. Comp Biochem Physiol A Mol Integr Physiol 2010 Dec;157(4):310-8. PMID: 20659579
  • Schnetz MP, Handoko L, Akhtar-Zaidi B, Bartels CF et al. CHD7 targets active gene enhancer elements to modulate ES cell-specific gene expression. PLoS Genet 2010 Jul 15;6(7):e1001023. PMID: 20657823
  • Luo Y, Yang C, Lu W, Xie R et al. Metabolic regulator betaKlotho interacts with fibroblast growth factor receptor 4 (FGFR4) to induce apoptosis and inhibit tumor cell proliferation. J Biol Chem 2010 Sep 24;285(39):30069-78. PMID: 20657013
  • Jiang SS, Fang WT, Hou YH, Huang SF et al. Upregulation of SOX9 in lung adenocarcinoma and its involvement in the regulation of cell growth and tumorigenicity. Clin Cancer Res 2010 Sep 1;16(17):4363-73. PMID: 20651055
  • Li D, Zhang Y, Xu L, Zhou L et al. Regulation of gene expression by FSP27 in white and brown adipose tissue. BMC Genomics 2010 Jul 22;11:446. PMID: 20649970
  • McMullen PD, Morimoto RI, Amaral LA et al. Physically grounded approach for estimating gene expression from microarray data. Proc Natl Acad Sci U S A 2010 Aug 3;107(31):13690-5. PMID: 20643961
  • Yu H, Huang J, Qiao N, Green CD et al. Evaluating diabetes and hypertension disease causality using mouse phenotypes. BMC Syst Biol 2010 Jul 20;4:97. PMID: 20642857
  • Szalma S, Koka V, Khasanova T, Perakslis ED et al. Effective knowledge management in translational medicine. J Transl Med 2010 Jul 19;8:68. PMID: 20642836
  • Kalushkova A, Fryknäs M, Lemaire M, Fristedt C et al. Polycomb target genes are silenced in multiple myeloma. PLoS One 2010 Jul 9;5(7):e11483. PMID: 20634887
  • Roy Choudhury D, Small C, Wang Y, Mueller PR et al. Microarray-based analysis of cell-cycle gene expression during spermatogenesis in the mouse. Biol Reprod 2010 Oct;83(4):663-75. PMID: 20631398
  • Hu R, Qi G, Kong Y, Kong D et al. Comprehensive analysis of NAC domain transcription factor gene family in Populus trichocarpa. BMC Plant Biol 2010 Jul 15;10:145. PMID: 20630103
  • Pantzartzi C, Drosopoulou E, Yiangou M, Drozdov I et al. Promoter complexity and tissue-specific expression of stress response components in Mytilus galloprovincialis, a sessile marine invertebrate species. PLoS Comput Biol 2010 Jul 8;6(7):e1000847. PMID: 20628614
  • Planas J, Serrat JM et al. Gene promoter evolution targets the center of the human protein interaction network. PLoS One 2010 Jul 8;5(7):e11476. PMID: 20628608
  • Hüser D, Gogol-Döring A, Lutter T, Weger S et al. Integration preferences of wildtype AAV-2 for consensus rep-binding sites at numerous loci in the human genome. PLoS Pathog 2010 Jul 8;6(7):e1000985. PMID: 20628575
  • Laganà A, Forte S, Russo F, Giugno R et al. Prediction of human targets for viral-encoded microRNAs by thermodynamics and empirical constraints. J RNAi Gene Silencing 2010 May 24;6(1):379-85. PMID: 20628498
  • Plager DA, Kahl JC, Asmann YW, Nilson AE et al. Gene transcription changes in asthmatic chronic rhinosinusitis with nasal polyps and comparison to those in atopic dermatitis. PLoS One 2010 Jul 6;5(7):e11450. PMID: 20625511
  • Stiglic G, Kokol P et al. Stability of ranked gene lists in large microarray analysis studies. J Biomed Biotechnol 2010;2010:616358. PMID: 20625502
  • Zhang Z, Maurer K, Perin JC, Song L et al. Cytokine-induced monocyte characteristics in SLE. J Biomed Biotechnol 2010;2010:507475. PMID: 20625490
  • Hou ML, Wang SL, Li XL, Lei YK et al. Neighborhood rough set reduction-based gene selection and prioritization for gene expression profile analysis and molecular cancer classification. J Biomed Biotechnol 2010;2010:726413. PMID: 20625410
  • Kavak E, Unlü M, Nistér M, Koman A et al. Meta-analysis of cancer gene expression signatures reveals new cancer genes, SAGE tags and tumor associated regions of co-regulation. Nucleic Acids Res 2010 Nov;38(20):7008-21. PMID: 20621981
  • Chellappan P, Xia J, Zhou X, Gao S et al. siRNAs from miRNA sites mediate DNA methylation of target genes. Nucleic Acids Res 2010 Nov;38(20):6883-94. PMID: 20621980
  • Engreitz JM, Daigle BJ Jr, Marshall JJ, Altman RB et al. Independent component analysis: mining microarray data for fundamental human gene expression modules. J Biomed Inform 2010 Dec;43(6):932-44. PMID: 20619355
  • Riz I, Hawley TS, Luu TV, Lee NH et al. TLX1 and NOTCH coregulate transcription in T cell acute lymphoblastic leukemia cells. Mol Cancer 2010 Jul 9;9:181. PMID: 20618946
  • Liu SL, Adams KL et al. Dramatic change in function and expression pattern of a gene duplicated by polyploidy created a paternal effect gene in the Brassicaceae. Mol Biol Evol 2010 Dec;27(12):2817-28. PMID: 20616146
  • Miller JA, Horvath S, Geschwind DH et al. Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways. Proc Natl Acad Sci U S A 2010 Jul 13;107(28):12698-703. PMID: 20616000
  • Gu X, Liu X, Xu D, Li X et al. Cardiac functional improvement in rats with myocardial infarction by up-regulating cardiac myosin light chain kinase with neuregulin. Cardiovasc Res 2010 Nov 1;88(2):334-43. PMID: 20615916
  • Shaknovich R, Geng H, Johnson NA, Tsikitas L et al. DNA methylation signatures define molecular subtypes of diffuse large B-cell lymphoma. Blood 2010 Nov 18;116(20):e81-9. PMID: 20610814
  • Appaiah H, Bhat-Nakshatri P, Mehta R, Thorat M et al. ITF2 is a target of CXCR4 in MDA-MB-231 breast cancer cells and is associated with reduced survival in estrogen receptor-negative breast cancer. Cancer Biol Ther 2010 Sep 15;10(6):600-14. PMID: 20603605
  • Choi JKContrasting chromatin organization of CpG islands and exons in the human genome. Genome Biol 2010;11(7):R70. PMID: 20602769
  • Fong CY, Chak LL, Biswas A, Tan JH et al. Human Wharton's jelly stem cells have unique transcriptome profiles compared to human embryonic stem cells and other mesenchymal stem cells. Stem Cell Rev Rep 2011 Mar;7(1):1-16. PMID: 20602182
  • Berkofsky-Fessler W, Buzzai M, Kim MK, Fruchtman S et al. Transcriptional profiling of polycythemia vera identifies gene expression patterns both dependent and independent from the action of JAK2V617F. Clin Cancer Res 2010 Sep 1;16(17):4339-52. PMID: 20601445
  • Liu Y, Chu A, Chakroun I, Islam U et al. Cooperation between myogenic regulatory factors and SIX family transcription factors is important for myoblast differentiation. Nucleic Acids Res 2010 Nov;38(20):6857-71. PMID: 20601407
  • Nuruzzaman M, Manimekalai R, Sharoni AM, Satoh K et al. Genome-wide analysis of NAC transcription factor family in rice. Gene 2010 Oct 1;465(1-2):30-44. PMID: 20600702
  • Flak MB, Connell CM, Chelala C, Archibald K et al. p21 Promotes oncolytic adenoviral activity in ovarian cancer and is a potential biomarker. Mol Cancer 2010 Jul 3;9:175. PMID: 20598155
  • Qin ZS, Yu J, Shen J, Maher CA et al. HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data. BMC Bioinformatics 2010 Jul 2;11:369. PMID: 20598134
  • Xin Y, Chanrion B, Liu MM, Galfalvy H et al. Genome-wide divergence of DNA methylation marks in cerebral and cerebellar cortices. PLoS One 2010 Jun 28;5(6):e11357. PMID: 20596539
  • Zhang C, Zhu C, Chen H, Li L et al. Kif18A is involved in human breast carcinogenesis. Carcinogenesis 2010 Sep;31(9):1676-84. PMID: 20595236
  • Loboda A, Nebozhyn M, Klinghoffer R, Frazier J et al. A gene expression signature of RAS pathway dependence predicts response to PI3K and RAS pathway inhibitors and expands the population of RAS pathway activated tumors. BMC Med Genomics 2010 Jun 30;3:26. PMID: 20591134
  • Puig O, Wang IM, Cheng P, Zhou P et al. Transcriptome profiling and network analysis of genetically hypertensive mice identifies potential pharmacological targets of hypertension. Physiol Genomics 2010 Sep;42A(1):24-32. PMID: 20587620
  • Sánchez-Navarro I, Gámez-Pozo A, Pinto A, Hardisson D et al. An 8-gene qRT-PCR-based gene expression score that has prognostic value in early breast cancer. BMC Cancer 2010 Jun 28;10:336. PMID: 20584321
  • Caron C, Lestrat C, Marsal S, Escoffier E et al. Functional characterization of ATAD2 as a new cancer/testis factor and a predictor of poor prognosis in breast and lung cancers. Oncogene 2010 Sep 16;29(37):5171-81. PMID: 20581866
  • Ko K, Araúzo-Bravo MJ, Tapia N, Kim J et al. Human adult germline stem cells in question. Nature 2010 Jun 24;465(7301):E1; discussion E3. PMID: 20577160
  • Riggins RB, Mazzotta MM, Maniya OZ, Clarke R et al. Orphan nuclear receptors in breast cancer pathogenesis and therapeutic response. Endocr Relat Cancer 2010 Sep;17(3):R213-31. PMID: 20576803
  • Hinze CH, Fall N, Thornton S, Mo JQ et al. Immature cell populations and an erythropoiesis gene-expression signature in systemic juvenile idiopathic arthritis: implications for pathogenesis. Arthritis Res Ther 2010;12(3):R123. PMID: 20576155
  • Broyl A, Hose D, Lokhorst H, de Knegt Y et al. Gene expression profiling for molecular classification of multiple myeloma in newly diagnosed patients. Blood 2010 Oct 7;116(14):2543-53. PMID: 20574050
  • Irgon J, Huang CC, Zhang Y, Talantov D et al. Robust multi-tissue gene panel for cancer detection. BMC Cancer 2010 Jun 22;10:319. PMID: 20569444
  • Bazarov AV, Van Sluis M, Hines WC, Bassett E et al. p16(INK4a) -mediated suppression of telomerase in normal and malignant human breast cells. Aging Cell 2010 Oct;9(5):736-46. PMID: 20569236
  • Wang Z, Du J, Lam SH, Mathavan S et al. Morphological and molecular evidence for functional organization along the rostrocaudal axis of the adult zebrafish intestine. BMC Genomics 2010 Jun 22;11:392. PMID: 20565988
  • Yano KGene expression correlation analysis predicts involvement of high- and low-confidence risk genes in different stages of prostate carcinogenesis. Prostate 2010 Dec 1;70(16):1746-59. PMID: 20564324
  • Cai J, Kandagatla P, Singareddy R, Kropinski A et al. Androgens Induce Functional CXCR4 through ERG Factor Expression in TMPRSS2-ERG Fusion-Positive Prostate Cancer Cells. Transl Oncol 2010 Jun 1;3(3):195-203. PMID: 20563261
  • Mayshar Y, Yanuka O, Benvenisty N et al. Teratogen screening using transcriptome profiling of differentiating human embryonic stem cells. J Cell Mol Med 2011 Jun;15(6):1393-401. PMID: 20561110
  • Jiang X, Zhu T, Yang J, Li S et al. Identification of novel epithelial ovarian cancer biomarkers by cross-laboratory microarray analysis. J Huazhong Univ Sci Technolog Med Sci 2010 Jun;30(3):354-9. PMID: 20556581
  • Summers KM, Raza S, van Nimwegen E, Freeman TC et al. Co-expression of FBN1 with mesenchyme-specific genes in mouse cell lines: implications for phenotypic variability in Marfan syndrome. Eur J Hum Genet 2010 Nov;18(11):1209-15. PMID: 20551991
  • Weidle UH, Scheuer W, Eggle D, Klostermann S et al. Cancer-related issues of CD147. Cancer Genomics Proteomics 2010 May-Jun;7(3):157-69. PMID: 20551248
  • Wu H, Ji H et al. JAMIE: joint analysis of multiple ChIP-chip experiments. Bioinformatics 2010 Aug 1;26(15):1864-70. PMID: 20551135
  • Hsu YH, Zillikens MC, Wilson SG, Farber CR et al. An integration of genome-wide association study and gene expression profiling to prioritize the discovery of novel susceptibility Loci for osteoporosis-related traits. PLoS Genet 2010 Jun 10;6(6):e1000977. PMID: 20548944
  • Kastner P, Chan S, Vogel WK, Zhang LJ et al. Bcl11b represses a mature T-cell gene expression program in immature CD4(+)CD8(+) thymocytes. Eur J Immunol 2010 Aug;40(8):2143-54. PMID: 20544728
  • Niida A, Imoto S, Yamaguchi R, Nagasaki M et al. Gene set-based module discovery decodes cis-regulatory codes governing diverse gene expression across human multiple tissues. PLoS One 2010 Jun 9;5(6):e10910. PMID: 20544005
  • Irvin DK, Jouanneau E, Duvall G, Zhang XX et al. T cells enhance stem-like properties and conditional malignancy in gliomas. PLoS One 2010 Jun 7;5(6):e10974. PMID: 20539758
  • Kavak E, Najafov A, Ozturk N, Seker T et al. Analysis of the Wnt/B-catenin/TCF4 pathway using SAGE, genome-wide microarray and promoter analysis: Identification of BRI3 and HSF2 as novel targets. Cell Signal 2010 Oct;22(10):1523-35. PMID: 20538055
  • Lee SH, Poulogiannis G, Pyne S, Jia S et al. A constitutively activated form of the p110beta isoform of PI3-kinase induces prostatic intraepithelial neoplasia in mice. Proc Natl Acad Sci U S A 2010 Jun 15;107(24):11002-7. PMID: 20534477
  • Wang L, Huang J, Jiang M, Zheng X et al. AFP computational secreted network construction and analysis between human hepatocellular carcinoma (HCC) and no-tumor hepatitis/cirrhotic liver tissues. Tumour Biol 2010 Oct;31(5):417-25. PMID: 20532728
  • Collings CK, Fernandez AG, Pitschka CG, Hawkins TB et al. Oligonucleotide sequence motifs as nucleosome positioning signals. PLoS One 2010 Jun 3;5(6):e10933. PMID: 20532171
  • Bapat SA, Krishnan A, Ghanate AD, Kusumbe AP et al. Gene expression: protein interaction systems network modeling identifies transformation-associated molecules and pathways in ovarian cancer. Cancer Res 2010 Jun 15;70(12):4809-19. PMID: 20530682
  • Saunders R, Deane CM et al. Synonymous codon usage influences the local protein structure observed. Nucleic Acids Res 2010 Oct;38(19):6719-28. PMID: 20530529
  • He F, Zhou Y, Zhang Z et al. Deciphering the Arabidopsis floral transition process by integrating a protein-protein interaction network and gene expression data. Plant Physiol 2010 Aug;153(4):1492-505. PMID: 20530214
  • Vaske CJ, Benz SC, Sanborn JZ, Earl D et al. Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM. Bioinformatics 2010 Jun 15;26(12):i237-45. PMID: 20529912
  • Ortiz-Estevez M, Bengtsson H, Rubio A et al. ACNE: a summarization method to estimate allele-specific copy numbers for Affymetrix SNP arrays. Bioinformatics 2010 Aug 1;26(15):1827-33. PMID: 20529889
  • Yun T, Hwang T, Cha K, Yi GS et al. CLIC: clustering analysis of large microarray datasets with individual dimension-based clustering. Nucleic Acids Res 2010 Jul;38(Web Server issue):W246-53. PMID: 20529873
  • Altman MK, Gopal V, Jia W, Yu S et al. Targeting melanoma growth and viability reveals dualistic functionality of the phosphonothionate analogue of carba cyclic phosphatidic acid. Mol Cancer 2010 Jun 9;9:140. PMID: 20529378
  • Pang CY, Wang H, Pang Y, Xu C et al. Comparative proteomics indicates that biosynthesis of pectic precursors is important for cotton fiber and Arabidopsis root hair elongation. Mol Cell Proteomics 2010 Sep;9(9):2019-33. PMID: 20525998
  • Bennani-Baiti IM, Cooper A, Lawlor ER, Kauer M et al. Intercohort gene expression co-analysis reveals chemokine receptors as prognostic indicators in Ewing's sarcoma. Clin Cancer Res 2010 Jul 15;16(14):3769-78. PMID: 20525755
  • Chavali S, Barrenas F, Kanduri K, Benson M et al. Network properties of human disease genes with pleiotropic effects. BMC Syst Biol 2010 Jun 4;4:78. PMID: 20525321
  • Gottlieb A, Varshavsky R, Linial M, Horn D et al. UFFizi: a generic platform for ranking informative features. BMC Bioinformatics 2010 Jun 3;11:300. PMID: 20525252
  • Hutchison EA, Glass NL et al. Meiotic regulators Ndt80 and ime2 have different roles in Saccharomyces and Neurospora. Genetics 2010 Aug;185(4):1271-82. PMID: 20519745
  • Guan H, Xie L, Leithäuser F, Flossbach L et al. KLF4 is a tumor suppressor in B-cell non-Hodgkin lymphoma and in classic Hodgkin lymphoma. Blood 2010 Sep 2;116(9):1469-78. PMID: 20519630
  • O'Brien RN, Shen Z, Tachikawa K, Lee PA et al. Quantitative proteome analysis of pluripotent cells by iTRAQ mass tagging reveals post-transcriptional regulation of proteins required for ES cell self-renewal. Mol Cell Proteomics 2010 Oct;9(10):2238-51. PMID: 20513800
  • Vazquez M, Nogales-Cadenas R, Arroyo J, Botías P et al. MARQ: an online tool to mine GEO for experiments with similar or opposite gene expression signatures. Nucleic Acids Res 2010 Jul;38(Web Server issue):W228-32. PMID: 20513648
  • Emig D, Salomonis N, Baumbach J, Lengauer T et al. AltAnalyze and DomainGraph: analyzing and visualizing exon expression data. Nucleic Acids Res 2010 Jul;38(Web Server issue):W755-62. PMID: 20513647
  • Kim JY, Kim JH, Park TJ, Bae JS et al. Positive association between aspirin-intolerant asthma and genetic polymorphisms of FSIP1: a case-case study. BMC Pulm Med 2010 Jun 1;10:34. PMID: 20513247
  • Kim C, Choi J, Park H, Park Y et al. Global analysis of microarray data reveals intrinsic properties in gene expression and tissue selectivity. Bioinformatics 2010 Jul 15;26(14):1723-30. PMID: 20511364
  • Morse DL, Balagurunathan Y, Hostetter G, Trissal M et al. Identification of novel pancreatic adenocarcinoma cell-surface targets by gene expression profiling and tissue microarray. Biochem Pharmacol 2010 Sep 1;80(5):748-54. PMID: 20510208
  • Carro A, Rico D, Rueda OM, Díaz-Uriarte R et al. waviCGH: a web application for the analysis and visualization of genomic copy number alterations. Nucleic Acids Res 2010 Jul;38(Web Server issue):W182-7. PMID: 20507915
  • Mostafavi S, Morris Q et al. Fast integration of heterogeneous data sources for predicting gene function with limited annotation. Bioinformatics 2010 Jul 15;26(14):1759-65. PMID: 20507895
  • Shi Z, Derow CK, Zhang B et al. Co-expression module analysis reveals biological processes, genomic gain, and regulatory mechanisms associated with breast cancer progression. BMC Syst Biol 2010 May 27;4:74. PMID: 20507583
  • Ren X, Zhou X, Wu LY, Zhang XS et al. An information-flow-based model with dissipation, saturation and direction for active pathway inference. BMC Syst Biol 2010 May 27;4:72. PMID: 20504374
  • Ritchie ME, Forrest MS, Dimas AS, Daelemans C et al. Data analysis issues for allele-specific expression using Illumina's GoldenGate assay. BMC Bioinformatics 2010 May 26;11:280. PMID: 20504309
  • Tun HW, Marlow LA, von Roemeling CA, Cooper SJ et al. Pathway signature and cellular differentiation in clear cell renal cell carcinoma. PLoS One 2010 May 18;5(5):e10696. PMID: 20502531
  • Wrzaczek M, Brosché M, Salojärvi J, Kangasjärvi S et al. Transcriptional regulation of the CRK/DUF26 group of receptor-like protein kinases by ozone and plant hormones in Arabidopsis. BMC Plant Biol 2010 May 25;10:95. PMID: 20500828
  • Abraham G, Kowalczyk A, Loi S, Haviv I et al. Prediction of breast cancer prognosis using gene set statistics provides signature stability and biological context. BMC Bioinformatics 2010 May 25;11:277. PMID: 20500821
  • Hellwig B, Hengstler JG, Schmidt M, Gehrmann MC et al. Comparison of scores for bimodality of gene expression distributions and genome-wide evaluation of the prognostic relevance of high-scoring genes. BMC Bioinformatics 2010 May 25;11:276. PMID: 20500820
  • Farber CRIdentification of a gene module associated with BMD through the integration of network analysis and genome-wide association data. J Bone Miner Res 2010 Nov;25(11):2359-67. PMID: 20499364
  • Liao JY, Ma LM, Guo YH, Zhang YC et al. Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3' trailers. PLoS One 2010 May 14;5(5):e10563. PMID: 20498841
  • Rodríguez-Prados JC, Través PG, Cuenca J, Rico D et al. Substrate fate in activated macrophages: a comparison between innate, classic, and alternative activation. J Immunol 2010 Jul 1;185(1):605-14. PMID: 20498354
  • Li S, Shih CH, Kohn MH et al. Functional and evolutionary correlates of gene constellations in the Drosophila melanogaster genome that deviate from the stereotypical gene architecture. BMC Genomics 2010 May 24;11:322. PMID: 20497561
  • Yang SK, Wang YC, Chao CC, Chuang YJ et al. Dynamic cross-talk analysis among TNF-R, TLR-4 and IL-1R signalings in TNFalpha-induced inflammatory responses. BMC Med Genomics 2010 May 24;3:19. PMID: 20497537
  • Pantazatos SP, Li J, Pavlidis P, Lussier YA et al. Integration of Neuroimaging and Microarray Datasets through Mapping and Model-Theoretic Semantic Decomposition of Unstructured Phenotypes. Cancer Inform 2009 Jun 8;8:75-94. PMID: 20495688
  • Ni T, Corcoran DL, Rach EA, Song S et al. A paired-end sequencing strategy to map the complex landscape of transcription initiation. Nat Methods 2010 Jul;7(7):521-7. PMID: 20495556
  • Parikh JR, Klinger B, Xia Y, Marto JA et al. Discovering causal signaling pathways through gene-expression patterns. Nucleic Acids Res 2010 Jul;38(Web Server issue):W109-17. PMID: 20494976
  • Yu G, Zhao Y, He J, Lonard DM et al. Comparative analysis of REG{gamma} expression in mouse and human tissues. J Mol Cell Biol 2010 Aug;2(4):192-8. PMID: 20494959
  • Schotte D, Lange-Turenhout EA, Stumpel DJ, Stam RW et al. Expression of miR-196b is not exclusively MLL-driven but is especially linked to activation of HOXA genes in pediatric acute lymphoblastic leukemia. Haematologica 2010 Oct;95(10):1675-82. PMID: 20494936
  • Thienpont B, Zhang L, Postma AV, Breckpot J et al. Haploinsufficiency of TAB2 causes congenital heart defects in humans. Am J Hum Genet 2010 Jun 11;86(6):839-49. PMID: 20493459
  • Tai SK, Wu G, Yuan S, Li KC et al. Genome-wide expression links the electron transfer pathway of Shewanella oneidensis to chemotaxis. BMC Genomics 2010 May 21;11:319. PMID: 20492688
  • Blangiardo M, Cassese A, Richardson S et al. sdef: an R package to synthesize lists of significant features in related experiments. BMC Bioinformatics 2010 May 20;11:270. PMID: 20487547
  • Kim MS, Kim JR, Cho KH et al. Dynamic network rewiring determines temporal regulatory functions in Drosophila melanogaster development processes. Bioessays 2010 Jun;32(6):505-13. PMID: 20486137
  • Gout JF, Kahn D, Duret L, Paramecium Post-Genomics Consortium et al. The relationship among gene expression, the evolution of gene dosage, and the rate of protein evolution. PLoS Genet 2010 May 13;6(5):e1000944. PMID: 20485561
  • Sales G, Coppe A, Bisognin A, Biasiolo M et al. MAGIA, a web-based tool for miRNA and Genes Integrated Analysis. Nucleic Acids Res 2010 Jul;38(Web Server issue):W352-9. PMID: 20484379
  • De Rijck J, Bartholomeeusen K, Ceulemans H, Debyser Z et al. High-resolution profiling of the LEDGF/p75 chromatin interaction in the ENCODE region. Nucleic Acids Res 2010 Oct;38(18):6135-47. PMID: 20484370
  • Wu G, Feng X, Stein L et al. A human functional protein interaction network and its application to cancer data analysis. Genome Biol 2010;11(5):R53. PMID: 20482850
  • Alonso A, Julià A, Tortosa R, Canaleta C et al. CNstream: a method for the identification and genotyping of copy number polymorphisms using Illumina microarrays. BMC Bioinformatics 2010 May 19;11:264. PMID: 20482829
  • Madden SF, Carpenter SB, Jeffery IB, Björkbacka H et al. Detecting microRNA activity from gene expression data. BMC Bioinformatics 2010 May 18;11:257. PMID: 20482775
  • Crozat K, Guiton R, Contreras V, Feuillet V et al. The XC chemokine receptor 1 is a conserved selective marker of mammalian cells homologous to mouse CD8alpha+ dendritic cells. J Exp Med 2010 Jun 7;207(6):1283-92. PMID: 20479118
  • Huang PJ, Liu YC, Lee CC, Lin WC et al. DSAP: deep-sequencing small RNA analysis pipeline. Nucleic Acids Res 2010 Jul;38(Web Server issue):W385-91. PMID: 20478825
  • Winn ME, Zapala MA, Hovatta I, Risbrough VB et al. The effects of globin on microarray-based gene expression analysis of mouse blood. Mamm Genome 2010 Jun;21(5-6):268-75. PMID: 20473674
  • Zhong H, Beaulaurier J, Lum PY, Molony C et al. Liver and adipose expression associated SNPs are enriched for association to type 2 diabetes. PLoS Genet 2010 May 6;6(5):e1000932. PMID: 20463879
  • Riester M, Stephan-Otto Attolini C, Downey RJ, Singer S et al. A differentiation-based phylogeny of cancer subtypes. PLoS Comput Biol 2010 May 6;6(5):e1000777. PMID: 20463876
  • Stegle O, Parts L, Durbin R, Winn J et al. A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. PLoS Comput Biol 2010 May 6;6(5):e1000770. PMID: 20463871
  • Hughes T, Webb R, Fei Y, Wren JD et al. DNA methylome in human CD4+ T cells identifies transcriptionally repressive and non-repressive methylation peaks. Genes Immun 2010 Oct;11(7):554-60. PMID: 20463746
  • Fan J, Traore K, Li W, Amri H et al. Molecular mechanisms mediating the effect of mono-(2-ethylhexyl) phthalate on hormone-stimulated steroidogenesis in MA-10 mouse tumor Leydig cells. Endocrinology 2010 Jul;151(7):3348-62. PMID: 20463053
  • Makareeva E, Han S, Vera JC, Sackett DL et al. Carcinomas contain a matrix metalloproteinase-resistant isoform of type I collagen exerting selective support to invasion. Cancer Res 2010 Jun 1;70(11):4366-74. PMID: 20460529
  • Dey JH, Bianchi F, Voshol J, Bonenfant D et al. Targeting fibroblast growth factor receptors blocks PI3K/AKT signaling, induces apoptosis, and impairs mammary tumor outgrowth and metastasis. Cancer Res 2010 May 15;70(10):4151-62. PMID: 20460524
  • Jönsson G, Busch C, Knappskog S, Geisler J et al. Gene expression profiling-based identification of molecular subtypes in stage IV melanomas with different clinical outcome. Clin Cancer Res 2010 Jul 1;16(13):3356-67. PMID: 20460471
  • Sun CH, Hwang T, Oh K, Yi GS et al. DynaMod: dynamic functional modularity analysis. Nucleic Acids Res 2010 Jul;38(Web Server issue):W103-8. PMID: 20460468
  • Patel CJ, Butte AJ et al. Predicting environmental chemical factors associated with disease-related gene expression data. BMC Med Genomics 2010 May 6;3:17. PMID: 20459635
  • Xiong J, Liu J, Rayner S, Li Y et al. Protein-protein interaction reveals synergistic discrimination of cancer phenotype. Cancer Inform 2010 Mar 26;9:61-6. PMID: 20458363
  • Scheff JD, Almon RR, DuBois DC, Jusko WJ et al. A new symbolic representation for the identification of informative genes in replicated microarray experiments. OMICS 2010 Jun;14(3):239-48. PMID: 20455749
  • Martínez O, Reyes-Valdés MH, Herrera-Estrella L et al. Cancer reduces transcriptome specialization. PLoS One 2010 May 3;5(5):e10398. PMID: 20454660
  • Brysbaert G, Pellay FX, Noth S, Benecke A et al. Quality assessment of transcriptome data using intrinsic statistical properties. Genomics Proteomics Bioinformatics 2010 Mar;8(1):57-71. PMID: 20451162
  • Stein LDThe case for cloud computing in genome informatics. Genome Biol 2010;11(5):207. PMID: 20441614
  • Uddin M, Aiello AE, Wildman DE, Koenen KC et al. Epigenetic and immune function profiles associated with posttraumatic stress disorder. Proc Natl Acad Sci U S A 2010 May 18;107(20):9470-5. PMID: 20439746
  • Volinia S, Galasso M, Costinean S, Tagliavini L et al. Reprogramming of miRNA networks in cancer and leukemia. Genome Res 2010 May;20(5):589-99. PMID: 20439436
  • Towfic F, VanderPlas S, Oliver CA, Couture O et al. Detection of gene orthology from gene co-expression and protein interaction networks. BMC Bioinformatics 2010 Apr 29;11 Suppl 3(Suppl 3):S7. PMID: 20438654
  • Xiang H, Zhu J, Chen Q, Dai F et al. Single base-resolution methylome of the silkworm reveals a sparse epigenomic map. Nat Biotechnol 2010 May;28(5):516-20. PMID: 20436463
  • Lacson R, Pitzer E, Kim J, Galante P et al. DSGeo: software tools for cross-platform analysis of gene expression data in GEO. J Biomed Inform 2010 Oct;43(5):709-15. PMID: 20435161
  • Pierre M, DeHertogh B, Gaigneaux A, DeMeulder B et al. Meta-analysis of archived DNA microarrays identifies genes regulated by hypoxia and involved in a metastatic phenotype in cancer cells. BMC Cancer 2010 Apr 30;10:176. PMID: 20433688
  • Risueño A, Fontanillo C, Dinger ME, De Las Rivas J et al. GATExplorer: genomic and transcriptomic explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs. BMC Bioinformatics 2010 Apr 29;11:221. PMID: 20429936
  • Moulder S, Yan K, Huang F, Hess KR et al. Development of candidate genomic markers to select breast cancer patients for dasatinib therapy. Mol Cancer Ther 2010 May;9(5):1120-7. PMID: 20423993
  • Ma H, Zhao J et al. Genome-wide identification, classification, and expression analysis of the arabinogalactan protein gene family in rice (Oryza sativa L.). J Exp Bot 2010 Jun;61(10):2647-68. PMID: 20423940
  • Gopalakrishna-Pillai S, Iverson LE et al. Astrocytes derived from trisomic human embryonic stem cells express markers of astrocytic cancer cells and premalignant stem-like progenitors. BMC Med Genomics 2010 Apr 27;3:12. PMID: 20423517
  • Fasold M, Stadler PF, Binder H et al. G-stack modulated probe intensities on expression arrays - sequence corrections and signal calibration. BMC Bioinformatics 2010 Apr 27;11:207. PMID: 20423484
  • Hou J, Aerts J, den Hamer B, van Ijcken W et al. Gene expression-based classification of non-small cell lung carcinomas and survival prediction. PLoS One 2010 Apr 22;5(4):e10312. PMID: 20421987
  • Nagarajan M, Veyrieras JB, de Dieuleveult M, Bottin H et al. Natural single-nucleosome epi-polymorphisms in yeast. PLoS Genet 2010 Apr 22;6(4):e1000913. PMID: 20421933
  • Wu AH, Drees JC, Wang H, VandenBerg SR et al. Gene expression profiles help identify the tissue of origin for metastatic brain cancers. Diagn Pathol 2010 Apr 26;5:26. PMID: 20420692
  • Lin B, Madan A, Yoon JG, Fang X et al. Massively parallel signature sequencing and bioinformatics analysis identifies up-regulation of TGFBI and SOX4 in human glioblastoma. PLoS One 2010 Apr 19;5(4):e10210. PMID: 20419098
  • Rangwala SM, Wang X, Calvo JA, Lindsley L et al. Estrogen-related receptor gamma is a key regulator of muscle mitochondrial activity and oxidative capacity. J Biol Chem 2010 Jul 16;285(29):22619-29. PMID: 20418374
  • Blackledge NP, Zhou JC, Tolstorukov MY, Farcas AM et al. CpG islands recruit a histone H3 lysine 36 demethylase. Mol Cell 2010 Apr 23;38(2):179-90. PMID: 20417597
  • Klein SL, Jedlicka A, Pekosz A et al. The Xs and Y of immune responses to viral vaccines. Lancet Infect Dis 2010 May;10(5):338-49. PMID: 20417416
  • Lu XC, Chi XH, Yang B, Zhu HL et al. [Gene expression profile analysis of T lymphocytes involved in pathogenesis of severe aplastic anemia by using bioinformatics method as a novel way of drug screening]. Zhongguo Shi Yan Xue Ye Xue Za Zhi 2010 Apr;18(2):416-20. PMID: 20416179
  • Borsics T, Lundberg E, Geerts D, Koomoa DL et al. Subcellular distribution and expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in malignant glioma: Influence on cell survival and migration. Cancer Sci 2010 Jul;101(7):1624-31. PMID: 20412121
  • Benita Y, Cao Z, Giallourakis C, Li C et al. Gene enrichment profiles reveal T-cell development, differentiation, and lineage-specific transcription factors including ZBTB25 as a novel NF-AT repressor. Blood 2010 Jul 1;115(26):5376-84. PMID: 20410506
  • Sørensen AL, Jacobsen BM, Reiner AH, Andersen IS et al. Promoter DNA methylation patterns of differentiated cells are largely programmed at the progenitor stage. Mol Biol Cell 2010 Jun 15;21(12):2066-77. PMID: 20410135
  • Docquier A, Harmand PO, Fritsch S, Chanrion M et al. The transcriptional coregulator RIP140 represses E2F1 activity and discriminates breast cancer subtypes. Clin Cancer Res 2010 Jun 1;16(11):2959-70. PMID: 20410059
  • Olaussen KA, Soria JC et al. Validation of ERCC1-XPF immunodetection--letter. Cancer Res 2010 May 1;70(9):3851-2; author reply 3852. PMID: 20406965
  • Gu J, Chen Y, Li S, Li Y et al. Identification of responsive gene modules by network-based gene clustering and extending: application to inflammation and angiogenesis. BMC Syst Biol 2010 Apr 21;4:47. PMID: 20406493
  • Gómez Ravetti M, Rosso OA, Berretta R, Moscato P et al. Uncovering molecular biomarkers that correlate cognitive decline with the changes of hippocampus' gene expression profiles in Alzheimer's disease. PLoS One 2010 Apr 13;5(4):e10153. PMID: 20405009
  • Mondal T, Rasmussen M, Pandey GK, Isaksson A et al. Characterization of the RNA content of chromatin. Genome Res 2010 Jul;20(7):899-907. PMID: 20404130
  • Sharma A, Zhao J, Podolsky R, McIndoe RA et al. ParaSAM: a parallelized version of the significance analysis of microarrays algorithm. Bioinformatics 2010 Jun 1;26(11):1465-7. PMID: 20400455
  • Chen L, Yang S, Jakoncic J, Zhang JJ et al. Migrastatin analogues target fascin to block tumour metastasis. Nature 2010 Apr 15;464(7291):1062-6. PMID: 20393565
  • Palstra AP, van den Thillart GEEJM et al. Swimming physiology of European silver eels (Anguilla anguilla L.): energetic costs and effects on sexual maturation and reproduction. Fish Physiol Biochem 2010 Sep;36(3):297-322. PMID: 20390348
  • Le BH, Cheng C, Bui AQ, Wagmaister JA et al. Global analysis of gene activity during Arabidopsis seed development and identification of seed-specific transcription factors. Proc Natl Acad Sci U S A 2010 May 4;107(18):8063-70. PMID: 20385809
  • Mollet IG, Ben-Dov C, Felício-Silva D, Grosso AR et al. Unconstrained mining of transcript data reveals increased alternative splicing complexity in the human transcriptome. Nucleic Acids Res 2010 Aug;38(14):4740-54. PMID: 20385588
  • Ohnishi Y, Totoki Y, Toyoda A, Watanabe T et al. Small RNA class transition from siRNA/piRNA to miRNA during pre-implantation mouse development. Nucleic Acids Res 2010 Aug;38(15):5141-51. PMID: 20385573
  • Dötsch A, Klawonn F, Jarek M, Scharfe M et al. Evolutionary conservation of essential and highly expressed genes in Pseudomonas aeruginosa. BMC Genomics 2010 Apr 9;11:234. PMID: 20380691
  • Surendran K, Selassie M, Liapis H, Krigman H et al. Reduced Notch signaling leads to renal cysts and papillary microadenomas. J Am Soc Nephrol 2010 May;21(5):819-32. PMID: 20378824
  • Li CY, Zhang Y, Wang Z, Zhang Y et al. A human-specific de novo protein-coding gene associated with human brain functions. PLoS Comput Biol 2010 Mar 26;6(3):e1000734. PMID: 20376170
  • Rowsell J, da Silva Camargo R, Langdon WB, Stalteri MA et al. Uncovering the expression patterns of chimeric transcripts using surveys of affymetrix GeneChips. J Integr Bioinform 2010 Mar 25;7(3). PMID: 20375459
  • Gustafson AM, Soldi R, Anderlind C, Scholand MB et al. Airway PI3K pathway activation is an early and reversible event in lung cancer development. Sci Transl Med 2010 Apr 7;2(26):26ra25. PMID: 20375364
  • Brase JC, Schmidt M, Fischbach T, Sültmann H et al. ERBB2 and TOP2A in breast cancer: a comprehensive analysis of gene amplification, RNA levels, and protein expression and their influence on prognosis and prediction. Clin Cancer Res 2010 Apr 15;16(8):2391-401. PMID: 20371687
  • Kwon RY, Temiyasathit S, Tummala P, Quah CC et al. Primary cilium-dependent mechanosensing is mediated by adenylyl cyclase 6 and cyclic AMP in bone cells. FASEB J 2010 Aug;24(8):2859-68. PMID: 20371630
  • Vohradsky J, Panek J, Vomastek T et al. Numerical modelling of microRNA-mediated mRNA decay identifies novel mechanism of microRNA controlled mRNA downregulation. Nucleic Acids Res 2010 Aug;38(14):4579-85. PMID: 20371515
  • Lee Y, Yang X, Huang Y, Fan H et al. Network modeling identifies molecular functions targeted by miR-204 to suppress head and neck tumor metastasis. PLoS Comput Biol 2010 Apr 1;6(4):e1000730. PMID: 20369013
  • Barry WT, Kernagis DN, Dressman HK, Griffis RJ et al. Intratumor heterogeneity and precision of microarray-based predictors of breast cancer biology and clinical outcome. J Clin Oncol 2010 May 1;28(13):2198-206. PMID: 20368555
  • Németh A, Conesa A, Santoyo-Lopez J, Medina I et al. Initial genomics of the human nucleolus. PLoS Genet 2010 Mar 26;6(3):e1000889. PMID: 20361057
  • Daigle BJ Jr, Deng A, McLaughlin T, Cushman SW et al. Using pre-existing microarray datasets to increase experimental power: application to insulin resistance. PLoS Comput Biol 2010 Mar 26;6(3):e1000718. PMID: 20361040
  • Huang H, Liu CC, Zhou XJ et al. Bayesian approach to transforming public gene expression repositories into disease diagnosis databases. Proc Natl Acad Sci U S A 2010 Apr 13;107(15):6823-8. PMID: 20360561
  • Wojcik J, Hantschel O, Grebien F, Kaupe I et al. A potent and highly specific FN3 monobody inhibitor of the Abl SH2 domain. Nat Struct Mol Biol 2010 Apr;17(4):519-27. PMID: 20357770
  • Narsai R, Ivanova A, Ng S, Whelan J et al. Defining reference genes in Oryza sativa using organ, development, biotic and abiotic transcriptome datasets. BMC Plant Biol 2010 Mar 31;10:56. PMID: 20353606
  • Wang C, Xuan J, Li H, Wang Y et al. Knowledge-guided gene ranking by coordinative component analysis. BMC Bioinformatics 2010 Mar 30;11:162. PMID: 20353603
  • Silva IT, Vêncio RZ, Oliveira TY, Molfetta GA et al. ProbFAST: Probabilistic functional analysis system tool. BMC Bioinformatics 2010 Mar 30;11:161. PMID: 20353576
  • Voelckel C, Borevitz JO, Kramer EM, Hodges SA et al. Within and between whorls: comparative transcriptional profiling of Aquilegia and Arabidopsis. PLoS One 2010 Mar 23;5(3):e9735. PMID: 20352114
  • Hunt DL, Cheng C, Pounds S et al. The Beta-Binomial Distribution for Estimating the Number of False Rejections in Microarray Gene Expression Studies. Comput Stat Data Anal 2009 Mar 15;53(5):1688-1700. PMID: 20352014
  • Chen J, Sam L, Huang Y, Lee Y et al. Protein interaction network underpins concordant prognosis among heterogeneous breast cancer signatures. J Biomed Inform 2010 Jun;43(3):385-96. PMID: 20350617
  • Piwowar H, Chapman W et al. Recall and bias of retrieving gene expression microarray datasets through PubMed identifiers. J Biomed Discov Collab 2010 Mar 28;5:7-20. PMID: 20349403
  • Fujiwara T, Kuroiwa H, Yagisawa F, Ohnuma M et al. The coiled-coil protein VIG1 is essential for tethering vacuoles to mitochondria during vacuole inheritance of Cyanidioschyzon merolae. Plant Cell 2010 Mar;22(3):772-81. PMID: 20348431
  • Zhong H, Yang X, Kaplan LM, Molony C et al. Integrating pathway analysis and genetics of gene expression for genome-wide association studies. Am J Hum Genet 2010 Apr 9;86(4):581-91. PMID: 20346437
  • Thorrez L, Tranchevent LC, Chang HJ, Moreau Y et al. Detection of novel 3' untranslated region extensions with 3' expression microarrays. BMC Genomics 2010 Mar 26;11:205. PMID: 20346121
  • Kang UB, Ahn Y, Lee JW, Kim YH et al. Differential profiling of breast cancer plasma proteome by isotope-coded affinity tagging method reveals biotinidase as a breast cancer biomarker. BMC Cancer 2010 Mar 26;10:114. PMID: 20346108
  • Watanabe M, Hubberten HM, Saito K, Hoefgen R et al. General regulatory patterns of plant mineral nutrient depletion as revealed by serat quadruple mutants disturbed in cysteine synthesis. Mol Plant 2010 Mar;3(2):438-66. PMID: 20339158
  • Liu S, Hatton MP, Khandelwal P, Sullivan DA et al. Culture, immortalization, and characterization of human meibomian gland epithelial cells. Invest Ophthalmol Vis Sci 2010 Aug;51(8):3993-4005. PMID: 20335607
  • Gatza ML, Lucas JE, Barry WT, Kim JW et al. A pathway-based classification of human breast cancer. Proc Natl Acad Sci U S A 2010 Apr 13;107(15):6994-9. PMID: 20335537
  • Barth AS, Kumordzie A, Colantuoni C, Margulies KB et al. Reciprocal regulation of metabolic and signaling pathways. BMC Genomics 2010 Mar 24;11:197. PMID: 20334672
  • Rouam S, Moreau T, Broët P et al. Identifying common prognostic factors in genomic cancer studies: a novel index for censored outcomes. BMC Bioinformatics 2010 Mar 24;11:150. PMID: 20334636
  • Williams RD, Al-Saadi R, Chagtai T, Popov S et al. Subtype-specific FBXW7 mutation and MYCN copy number gain in Wilms' tumor. Clin Cancer Res 2010 Apr 1;16(7):2036-45. PMID: 20332316
  • Palmer RD, Murray MJ, Saini HK, van Dongen S et al. Malignant germ cell tumors display common microRNA profiles resulting in global changes in expression of messenger RNA targets. Cancer Res 2010 Apr 1;70(7):2911-23. PMID: 20332240
  • Zou F, Huang H, Ibrahim JG et al. A semiparametric Bayesian approach for estimating the gene expression distribution. J Biopharm Stat 2010 Mar;20(2):267-80. PMID: 20309758
  • Lu Z, Xu X, Hu X, Lee S et al. Oxidative stress regulates left ventricular PDE5 expression in the failing heart. Circulation 2010 Apr 6;121(13):1474-83. PMID: 20308615
  • Vivanco I, Rohle D, Versele M, Iwanami A et al. The phosphatase and tensin homolog regulates epidermal growth factor receptor (EGFR) inhibitor response by targeting EGFR for degradation. Proc Natl Acad Sci U S A 2010 Apr 6;107(14):6459-64. PMID: 20308550
  • Lunardi A, Di Minin G, Provero P, Dal Ferro M et al. A genome-scale protein interaction profile of Drosophila p53 uncovers additional nodes of the human p53 network. Proc Natl Acad Sci U S A 2010 Apr 6;107(14):6322-7. PMID: 20308539
  • Innocenti P, Morrow EH et al. The sexually antagonistic genes of Drosophila melanogaster. PLoS Biol 2010 Mar 16;8(3):e1000335. PMID: 20305719
  • Ogata Y, Suzuki H, Sakurai N, Shibata D et al. CoP: a database for characterizing co-expressed gene modules with biological information in plants. Bioinformatics 2010 May 1;26(9):1267-8. PMID: 20305269
  • Waluk DP, Schultz N, Hunt MC et al. Identification of glycine N-acyltransferase-like 2 (GLYATL2) as a transferase that produces N-acyl glycines in humans. FASEB J 2010 Aug;24(8):2795-803. PMID: 20305126
  • Chen XDExtracellular matrix provides an optimal niche for the maintenance and propagation of mesenchymal stem cells. Birth Defects Res C Embryo Today 2010 Mar;90(1):45-54. PMID: 20301219
  • Romanowska M, Reilly L, Palmer CN, Gustafsson MC et al. Activation of PPARbeta/delta causes a psoriasis-like skin disease in vivo. PLoS One 2010 Mar 16;5(3):e9701. PMID: 20300524
  • Backes C, Meese E, Lenhof HP, Keller A et al. A dictionary on microRNAs and their putative target pathways. Nucleic Acids Res 2010 Jul;38(13):4476-86. PMID: 20299343
  • Ameur A, Wetterbom A, Feuk L, Gyllensten U et al. Global and unbiased detection of splice junctions from RNA-seq data. Genome Biol 2010;11(3):R34. PMID: 20236510
  • Purdie KJ, Harwood CA, Gibbon K, Chaplin T et al. High-resolution genomic profiling of human papillomavirus-associated vulval neoplasia. Br J Cancer 2010 Mar 16;102(6):1044-51. PMID: 20234371
  • Staaf J, Ringnér M, Vallon-Christersson J, Jönsson G et al. Identification of subtypes in human epidermal growth factor receptor 2--positive breast cancer reveals a gene signature prognostic of outcome. J Clin Oncol 2010 Apr 10;28(11):1813-20. PMID: 20231686
  • Sahoo D, Seita J, Bhattacharya D, Inlay MA et al. MiDReG: a method of mining developmentally regulated genes using Boolean implications. Proc Natl Acad Sci U S A 2010 Mar 30;107(13):5732-7. PMID: 20231483
  • Holman TJ, Wilson MH, Kenobi K, Dryden IL et al. Statistical evaluation of transcriptomic data generated using the Affymetrix one-cycle, two-cycle and IVT-Express RNA labelling protocols with the Arabidopsis ATH1 microarray. Plant Methods 2010 Mar 15;6:9. PMID: 20230623
  • Weinberg Z, Wang JX, Bogue J, Yang J et al. Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes. Genome Biol 2010;11(3):R31. PMID: 20230605
  • Verissimo CS, Molenaar JJ, Meerman J, Puigvert JC et al. Silencing of the microtubule-associated proteins doublecortin-like and doublecortin-like kinase-long induces apoptosis in neuroblastoma cells. Endocr Relat Cancer 2010 Jun;17(2):399-414. PMID: 20228126
  • Kim KX, Marcus DC et al. Inward-rectifier chloride currents in Reissner's membrane epithelial cells. Biochem Biophys Res Commun 2010 Apr 2;394(2):434-8. PMID: 20226170
  • Jaspers P, Overmyer K, Wrzaczek M, Vainonen JP et al. The RST and PARP-like domain containing SRO protein family: analysis of protein structure, function and conservation in land plants. BMC Genomics 2010 Mar 12;11:170. PMID: 20226034
  • Mourier T, Willerslev E et al. Large-scale transcriptome data reveals transcriptional activity of fission yeast LTR retrotransposons. BMC Genomics 2010 Mar 12;11:167. PMID: 20226011
  • Tanaka Y, Yoshimura I, Nakai K et al. Positional variations among heterogeneous nucleosome maps give dynamical information on chromatin. Chromosoma 2010 Aug;119(4):391-404. PMID: 20224866
  • Shiraishi Y, Kimura S, Okada M et al. Inferring cluster-based networks from differently stimulated multiple time-course gene expression data. Bioinformatics 2010 Apr 15;26(8):1073-81. PMID: 20223837
  • Bernard V, Brunaud V, Lecharny A et al. TC-motifs at the TATA-box expected position in plant genes: a novel class of motifs involved in the transcription regulation. BMC Genomics 2010 Mar 12;11:166. PMID: 20222994
  • Hirschman J, Berardini TZ, Drabkin HJ, Howe D et al. A MOD(ern) perspective on literature curation. Mol Genet Genomics 2010 May;283(5):415-25. PMID: 20221640
  • Chng WJ, Gertz MA, Chung TH, Van Wier S et al. Correlation between array-comparative genomic hybridization-defined genomic gains and losses and survival: identification of 1p31-32 deletion as a prognostic factor in myeloma. Leukemia 2010 Apr;24(4):833-42. PMID: 20220778
  • De Biase LM, Nishiyama A, Bergles DE et al. Excitability and synaptic communication within the oligodendrocyte lineage. J Neurosci 2010 Mar 10;30(10):3600-11. PMID: 20219994
  • Xie D, Chen CC, Ptaszek LM, Xiao S et al. Rewirable gene regulatory networks in the preimplantation embryonic development of three mammalian species. Genome Res 2010 Jun;20(6):804-15. PMID: 20219939
  • Dry JR, Pavey S, Pratilas CA, Harbron C et al. Transcriptional pathway signatures predict MEK addiction and response to selumetinib (AZD6244). Cancer Res 2010 Mar 15;70(6):2264-73. PMID: 20215513
  • Ng WL, Wei Y, Perez LJ, Cong J et al. Probing bacterial transmembrane histidine kinase receptor-ligand interactions with natural and synthetic molecules. Proc Natl Acad Sci U S A 2010 Mar 23;107(12):5575-80. PMID: 20212168
  • Fowler JH, Christakis NA et al. Cooperative behavior cascades in human social networks. Proc Natl Acad Sci U S A 2010 Mar 23;107(12):5334-8. PMID: 20212120
  • Tuna S, Niranjan M et al. Reducing the algorithmic variability in transcriptome-based inference. Bioinformatics 2010 May 1;26(9):1185-91. PMID: 20212019
  • Hu Z, Huang G, Sadanandam A, Gu S et al. The expression level of HJURP has an independent prognostic impact and predicts the sensitivity to radiotherapy in breast cancer. Breast Cancer Res 2010;12(2):R18. PMID: 20211017
  • Guerreiro RJ, Beck J, Gibbs JR, Santana I et al. Genetic variability in CLU and its association with Alzheimer's disease. PLoS One 2010 Mar 3;5(3):e9510. PMID: 20209083
  • Mejhert N, Laurencikiene J, Pettersson AT, Kaaman M et al. Role of Receptor-Interacting Protein 140 in human fat cells. BMC Endocr Disord 2010 Jan 29;10:1. PMID: 20205832
  • Rodríguez-Flores JL, Zhang K, Kang SW, Wen G et al. Conserved regulatory motifs at phenylethanolamine N-methyltransferase (PNMT) are disrupted by common functional genetic variation: an integrated computational/experimental approach. Mamm Genome 2010 Apr;21(3-4):195-204. PMID: 20204374
  • Tseng LH, Chen I, Wang CN, Lin YH et al. Genome-based expression profiling study of Hunner's ulcer type interstitial cystitis: an array of 40-gene model. Int Urogynecol J 2010 Aug;21(8):911-8. PMID: 20204322
  • Clarke J, Seo P, Clarke B et al. Statistical expression deconvolution from mixed tissue samples. Bioinformatics 2010 Apr 15;26(8):1043-9. PMID: 20202973
  • Newman AM, Cooper JB et al. AutoSOME: a clustering method for identifying gene expression modules without prior knowledge of cluster number. BMC Bioinformatics 2010 Mar 4;11:117. PMID: 20202218
  • Aruga J, Nozaki Y, Hatayama M, Odaka YS et al. Expression of ZIC family genes in meningiomas and other brain tumors. BMC Cancer 2010 Mar 3;10:79. PMID: 20199689
  • Shimamura T, Imoto S, Yamaguchi R, Nagasaki M et al. Inferring dynamic gene networks under varying conditions for transcriptomic network comparison. Bioinformatics 2010 Apr 15;26(8):1064-72. PMID: 20197286
  • Nielsen TO, West RB et al. Translating gene expression into clinical care: sarcomas as a paradigm. J Clin Oncol 2010 Apr 1;28(10):1796-805. PMID: 20194847
  • Thompson RF, Fazzari MJ, Niu H, Barzilai N et al. Experimental intrauterine growth restriction induces alterations in DNA methylation and gene expression in pancreatic islets of rats. J Biol Chem 2010 May 14;285(20):15111-15118. PMID: 20194508
  • Dubois PC, Trynka G, Franke L, Hunt KA et al. Multiple common variants for celiac disease influencing immune gene expression. Nat Genet 2010 Apr;42(4):295-302. PMID: 20190752
  • Juul N, Szallasi Z, Eklund AC, Li Q et al. Assessment of an RNA interference screen-derived mitotic and ceramide pathway metagene as a predictor of response to neoadjuvant paclitaxel for primary triple-negative breast cancer: a retrospective analysis of five clinical trials. Lancet Oncol 2010 Apr;11(4):358-65. PMID: 20189874
  • Hung JH, Whitfield TW, Yang TH, Hu Z et al. Identification of functional modules that correlate with phenotypic difference: the influence of network topology. Genome Biol 2010;11(2):R23. PMID: 20187943
  • Salajegheh M, Kong SW, Pinkus JL, Walsh RJ et al. Interferon-stimulated gene 15 (ISG15) conjugates proteins in dermatomyositis muscle with perifascicular atrophy. Ann Neurol 2010 Jan;67(1):53-63. PMID: 20186858
  • Robinson TJ, Dinan MA, Dewhirst M, Garcia-Blanco MA et al. SplicerAV: a tool for mining microarray expression data for changes in RNA processing. BMC Bioinformatics 2010 Feb 25;11:108. PMID: 20184770
  • Doss MX, Wagh V, Schulz H, Kull M et al. Global transcriptomic analysis of murine embryonic stem cell-derived brachyury(+) (T) cells. Genes Cells 2010 Mar;15(3):209-28. PMID: 20184659
  • Garge N, Pan H, Rowland MD, Cargile BJ et al. Identification of quantitative trait loci underlying proteome variation in human lymphoblastoid cells. Mol Cell Proteomics 2010 Jul;9(7):1383-99. PMID: 20179311
  • De Preter K, Vermeulen J, Brors B, Delattre O et al. Accurate outcome prediction in neuroblastoma across independent data sets using a multigene signature. Clin Cancer Res 2010 Mar 1;16(5):1532-41. PMID: 20179214
  • Creighton CJ, Fountain MD, Yu Z, Nagaraja AK et al. Molecular profiling uncovers a p53-associated role for microRNA-31 in inhibiting the proliferation of serous ovarian carcinomas and other cancers. Cancer Res 2010 Mar 1;70(5):1906-15. PMID: 20179198
  • Wang HW, Wu YH, Hsieh JY, Liang ML et al. Pediatric primary central nervous system germ cell tumors of different prognosis groups show characteristic miRNome traits and chromosome copy number variations. BMC Genomics 2010 Feb 24;11:132. PMID: 20178649
  • Dada JO, Spasić I, Paton NW, Mendes P et al. SBRML: a markup language for associating systems biology data with models. Bioinformatics 2010 Apr 1;26(7):932-8. PMID: 20176582
  • Zhang S, Cao J, Kong YM, Scheuermann RH et al. GO-Bayes: Gene Ontology-based overrepresentation analysis using a Bayesian approach. Bioinformatics 2010 Apr 1;26(7):905-11. PMID: 20176581
  • Gustafsson M, Hörnquist M et al. Gene expression prediction by soft integration and the elastic net-best performance of the DREAM3 gene expression challenge. PLoS One 2010 Feb 16;5(2):e9134. PMID: 20169069
  • Clarke TF 4th, Clark PL et al. Increased incidence of rare codon clusters at 5' and 3' gene termini: implications for function. BMC Genomics 2010 Feb 18;11:118. PMID: 20167116
  • MacLean D, Moulton V, Studholme DJ et al. Finding sRNA generative locales from high-throughput sequencing data with NiBLS. BMC Bioinformatics 2010 Feb 18;11:93. PMID: 20167070
  • Raleigh DR, Marchiando AM, Zhang Y, Shen L et al. Tight junction-associated MARVEL proteins marveld3, tricellulin, and occludin have distinct but overlapping functions. Mol Biol Cell 2010 Apr 1;21(7):1200-13. PMID: 20164257
  • Lonergan KM, Chari R, Coe BP, Wilson IM et al. Transcriptome profiles of carcinoma-in-situ and invasive non-small cell lung cancer as revealed by SAGE. PLoS One 2010 Feb 11;5(2):e9162. PMID: 20161782
  • Shehadeh LA, Yu K, Wang L, Guevara A et al. SRRM2, a potential blood biomarker revealing high alternative splicing in Parkinson's disease. PLoS One 2010 Feb 8;5(2):e9104. PMID: 20161708
  • Barrios F, Filipponi D, Pellegrini M, Paronetto MP et al. Opposing effects of retinoic acid and FGF9 on Nanos2 expression and meiotic entry of mouse germ cells. J Cell Sci 2010 Mar 15;123(Pt 6):871-80. PMID: 20159962
  • Li X, Wu M, Kwoh CK, Ng SK et al. Computational approaches for detecting protein complexes from protein interaction networks: a survey. BMC Genomics 2010 Feb 10;11 Suppl 1(Suppl 1):S3. PMID: 20158874
  • Kuznetsov VA, Singh O, Jenjaroenpun P et al. Statistics of protein-DNA binding and the total number of binding sites for a transcription factor in the mammalian genome. BMC Genomics 2010 Feb 10;11 Suppl 1(Suppl 1):S12. PMID: 20158869
  • Yu H, Yu FD, Zhang GQ, Shen X et al. DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels. Database (Oxford) 2009;2009:bap006. PMID: 20157479
  • Sun W, Ibrahim JG, Zou F et al. Genomewide multiple-loci mapping in experimental crosses by iterative adaptive penalized regression. Genetics 2010 May;185(1):349-59. PMID: 20157003
  • Oldridge DA, Banerjee S, Setlur SR, Sboner A et al. Optimizing copy number variation analysis using genome-wide short sequence oligonucleotide arrays. Nucleic Acids Res 2010 Jun;38(10):3275-86. PMID: 20156996
  • Richard H, Schulz MH, Sultan M, Nürnberger A et al. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments. Nucleic Acids Res 2010 Jun;38(10):e112. PMID: 20150413
  • Qu HQ, Jacob K, Fatet S, Ge B et al. Genome-wide profiling using single-nucleotide polymorphism arrays identifies novel chromosomal imbalances in pediatric glioblastomas. Neuro Oncol 2010 Feb;12(2):153-63. PMID: 20150382
  • Li H, Zhan M et al. Identifying Conserved and Divergent Transcriptional Modules by Cross-species Matrix Decomposition on Microarray Data. J Proteomics Bioinform 2009 Mar 12;2:117. PMID: 20148181
  • Faulk C, Kim J et al. Position-based clustering of microarray expression data. Cold Spring Harb Protoc 2009 Sep;2009(9):pdb.prot5280. PMID: 20147265
  • Lottaz C, Beier D, Meyer K, Kumar P et al. Transcriptional profiles of CD133+ and CD133- glioblastoma-derived cancer stem cell lines suggest different cells of origin. Cancer Res 2010 Mar 1;70(5):2030-40. PMID: 20145155
  • Zabuawala T, Taffany DA, Sharma SM, Merchant A et al. An ets2-driven transcriptional program in tumor-associated macrophages promotes tumor metastasis. Cancer Res 2010 Feb 15;70(4):1323-33. PMID: 20145133
  • Hong Y, Downey T, Eu KW, Koh PK et al. A 'metastasis-prone' signature for early-stage mismatch-repair proficient sporadic colorectal cancer patients and its implications for possible therapeutics. Clin Exp Metastasis 2010 Feb;27(2):83-90. PMID: 20143136
  • Dellinger AE, Saw SM, Goh LK, Seielstad M et al. Comparative analyses of seven algorithms for copy number variant identification from single nucleotide polymorphism arrays. Nucleic Acids Res 2010 May;38(9):e105. PMID: 20142258
  • Suthram S, Dudley JT, Chiang AP, Chen R et al. Network-based elucidation of human disease similarities reveals common functional modules enriched for pluripotent drug targets. PLoS Comput Biol 2010 Feb 5;6(2):e1000662. PMID: 20140234
  • Huang HC, Jupiter D, VanBuren V et al. Classification of genes and putative biomarker identification using distribution metrics on expression profiles. PLoS One 2010 Feb 4;5(2):e9056. PMID: 20140228
  • Turcan S, Slonim DK, Vetter DE et al. Lack of nAChR activity depresses cochlear maturation and up-regulates GABA system components: temporal profiling of gene expression in alpha9 null mice. PLoS One 2010 Feb 4;5(2):e9058. PMID: 20140217
  • Duggan SP, Behan FM, Kirca M, Smith S et al. An integrative genomic approach in oesophageal cells identifies TRB3 as a bile acid responsive gene, downregulated in Barrett's oesophagus, which regulates NF-kappaB activation and cytokine levels. Carcinogenesis 2010 May;31(5):936-45. PMID: 20139130
  • Gao P, Bai X, Yang L, Lv D et al. Over-expression of osa-MIR396c decreases salt and alkali stress tolerance. Planta 2010 Apr;231(5):991-1001. PMID: 20135324
  • Lima WR, Parreira KS, Devuyst O, Caplanusi A et al. ZONAB promotes proliferation and represses differentiation of proximal tubule epithelial cells. J Am Soc Nephrol 2010 Mar;21(3):478-88. PMID: 20133480
  • Mithraprabhu S, Mendis S, Meachem SJ, Tubino L et al. Activin bioactivity affects germ cell differentiation in the postnatal mouse testis in vivo. Biol Reprod 2010 May;82(5):980-90. PMID: 20130270
  • Yao L, Barontini M, Niederle B, Jech M et al. Mutations of the metabolic genes IDH1, IDH2, and SDHAF2 are not major determinants of the pseudohypoxic phenotype of sporadic pheochromocytomas and paragangliomas. J Clin Endocrinol Metab 2010 Mar;95(3):1469-72. PMID: 20130071
  • Chen W, Hilton IB, Staudt MR, Burd CE et al. Distinct p53, p53:LANA, and LANA complexes in Kaposi's Sarcoma--associated Herpesvirus Lymphomas. J Virol 2010 Apr;84(8):3898-908. PMID: 20130056
  • Alston MJ, Seers J, Hinton JC, Lucchini S et al. BABAR: an R package to simplify the normalisation of common reference design microarray-based transcriptomic datasets. BMC Bioinformatics 2010 Feb 3;11:73. PMID: 20128918
  • Rathnagiriswaran S, Wan YW, Abraham J, Castranova V et al. A population-based gene signature is predictive of breast cancer survival and chemoresponse. Int J Oncol 2010 Mar;36(3):607-16. PMID: 20126981
  • Meier S, Ruzvidzo O, Morse M, Donaldson L et al. The Arabidopsis wall associated kinase-like 10 gene encodes a functional guanylyl cyclase and is co-expressed with pathogen defense related genes. PLoS One 2010 Jan 26;5(1):e8904. PMID: 20126659
  • Ghosh Z, Wilson KD, Wu Y, Hu S et al. Persistent donor cell gene expression among human induced pluripotent stem cells contributes to differences with human embryonic stem cells. PLoS One 2010 Feb 1;5(2):e8975. PMID: 20126639
  • Hussenet T, Dali S, Exinger J, Monga B et al. SOX2 is an oncogene activated by recurrent 3q26.3 amplifications in human lung squamous cell carcinomas. PLoS One 2010 Jan 29;5(1):e8960. PMID: 20126410
  • Notani D, Gottimukkala KP, Jayani RS, Limaye AS et al. Global regulator SATB1 recruits beta-catenin and regulates T(H)2 differentiation in Wnt-dependent manner. PLoS Biol 2010 Jan 26;8(1):e1000296. PMID: 20126258
  • Kong SW, Hu YW, Ho JW, Ikeda S et al. Heart failure-associated changes in RNA splicing of sarcomere genes. Circ Cardiovasc Genet 2010 Apr;3(2):138-46. PMID: 20124440
  • Shen Y, Chen CS, Ichikawa H, Goldberg GS et al. SRC induces podoplanin expression to promote cell migration. J Biol Chem 2010 Mar 26;285(13):9649-9656. PMID: 20123990
  • Kristensen DM, Nielsen JE, Kalisz M, Dalgaard MD et al. OCT4 and downstream factors are expressed in human somatic urogenital epithelia and in culture of epididymal spheres. Mol Hum Reprod 2010 Nov;16(11):835-45. PMID: 20123703
  • Gupta R, Wikramasinghe P, Bhattacharyya A, Perez FA et al. Annotation of gene promoters by integrative data-mining of ChIP-seq Pol-II enrichment data. BMC Bioinformatics 2010 Jan 18;11 Suppl 1(Suppl 1):S65. PMID: 20122241
  • Yang P, Zhou BB, Zhang Z, Zomaya AY et al. A multi-filter enhanced genetic ensemble system for gene selection and sample classification of microarray data. BMC Bioinformatics 2010 Jan 18;11 Suppl 1(Suppl 1):S5. PMID: 20122224
  • Maran C, Tassone E, Masola V, Onisto M et al. The Story of SPATA2 (Spermatogenesis-Associated Protein 2): From Sertoli Cells to Pancreatic Beta-Cells. Curr Genomics 2009 Aug;10(5):361-3. PMID: 20119533
  • Sone H, Okura M, Zaha H, Fujibuchi W et al. Profiles of Chemical Effects on Cells (pCEC): a toxicogenomics database with a toxicoinformatics system for risk evaluation and toxicity prediction of environmental chemicals. J Toxicol Sci 2010 Feb;35(1):115-23. PMID: 20118632
  • Jung CH, Hansen MA, Makunin IV, Korbie DJ et al. Identification of novel non-coding RNAs using profiles of short sequence reads from next generation sequencing data. BMC Genomics 2010 Feb 1;11:77. PMID: 20113528
  • Tsai HK, Huang PY, Kao CY, Wang D et al. Co-expression of neighboring genes in the zebrafish (Danio rerio) genome. Int J Mol Sci 2009 Aug 21;10(8):3658-3670. PMID: 20111688
  • Jain M, Ghanashyam C, Bhattacharjee A et al. Comprehensive expression analysis suggests overlapping and specific roles of rice glutathione S-transferase genes during development and stress responses. BMC Genomics 2010 Jan 29;11:73. PMID: 20109239
  • Jung KH, Seo YS, Walia H, Cao P et al. The submergence tolerance regulator Sub1A mediates stress-responsive expression of AP2/ERF transcription factors. Plant Physiol 2010 Mar;152(3):1674-92. PMID: 20107022
  • Jennen DG, Magkoufopoulou C, Ketelslegers HB, van Herwijnen MH et al. Comparison of HepG2 and HepaRG by whole-genome gene expression analysis for the purpose of chemical hazard identification. Toxicol Sci 2010 May;115(1):66-79. PMID: 20106945
  • McKeen HD, Byrne C, Jithesh PV, Donley C et al. FKBPL regulates estrogen receptor signaling and determines response to endocrine therapy. Cancer Res 2010 Feb 1;70(3):1090-100. PMID: 20103631
  • Lawrence MG, Lai J, Clements JA et al. Kallikreins on steroids: structure, function, and hormonal regulation of prostate-specific antigen and the extended kallikrein locus. Endocr Rev 2010 Aug;31(4):407-46. PMID: 20103546
  • McEachin RC, Saccone NL, Saccone SF, Kleyman-Smith YD et al. Modeling complex genetic and environmental influences on comorbid bipolar disorder with tobacco use disorder. BMC Med Genet 2010 Jan 26;11:14. PMID: 20102619
  • Auman JT, McLeod HL et al. Colorectal cancer cell lines lack the molecular heterogeneity of clinical colorectal tumors. Clin Colorectal Cancer 2010 Jan;9(1):40-7. PMID: 20100687
  • Wooten EC, Iyer LK, Montefusco MC, Hedgepeth AK et al. Application of gene network analysis techniques identifies AXIN1/PDIA2 and endoglin haplotypes associated with bicuspid aortic valve. PLoS One 2010 Jan 21;5(1):e8830. PMID: 20098615
  • Goh WS, Orlov Y, Li J, Clarke ND et al. Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local. PLoS Comput Biol 2010 Jan 22;6(1):e1000649. PMID: 20098497
  • McCall MN, Bolstad BM, Irizarry RA et al. Frozen robust multiarray analysis (fRMA). Biostatistics 2010 Apr;11(2):242-53. PMID: 20097884
  • Mustroph A, Lee SC, Oosumi T, Zanetti ME et al. Cross-kingdom comparison of transcriptomic adjustments to low-oxygen stress highlights conserved and plant-specific responses. Plant Physiol 2010 Mar;152(3):1484-500. PMID: 20097791
  • Waldman YY, Tuller T, Shlomi T, Sharan R et al. Translation efficiency in humans: tissue specificity, global optimization and differences between developmental stages. Nucleic Acids Res 2010 May;38(9):2964-74. PMID: 20097653
  • Toplak M, Curk T, Demsar J, Zupan B et al. Does replication groups scoring reduce false positive rate in SNP interaction discovery? BMC Genomics 2010 Jan 22;11:58. PMID: 20092660
  • Haugen AC, Di Prospero NA, Parker JS, Fannin RD et al. Altered gene expression and DNA damage in peripheral blood cells from Friedreich's ataxia patients: cellular model of pathology. PLoS Genet 2010 Jan 15;6(1):e1000812. PMID: 20090835
  • Nibbe RK, Koyutürk M, Chance MR et al. An integrative -omics approach to identify functional sub-networks in human colorectal cancer. PLoS Comput Biol 2010 Jan 15;6(1):e1000639. PMID: 20090827
  • Christen B, Robles V, Raya M, Paramonov I et al. Regeneration and reprogramming compared. BMC Biol 2010 Jan 20;8:5. PMID: 20089153
  • Chia CY, Lim CW, Leong WT, Ling MH et al. High expression stability of microtubule affinity regulating kinase 3 (MARK3) makes it a reliable reference gene. IUBMB Life 2010 Mar;62(3):200-3. PMID: 20087965
  • Ariazi EA, Brailoiu E, Yerrum S, Shupp HA et al. The G protein-coupled receptor GPR30 inhibits proliferation of estrogen receptor-positive breast cancer cells. Cancer Res 2010 Feb 1;70(3):1184-94. PMID: 20086172
  • Zaravinos A, Spandidos DA et al. Yin yang 1 expression in human tumors. Cell Cycle 2010 Feb 1;9(3):512-22. PMID: 20081375
  • Ralston A, Cox BJ, Nishioka N, Sasaki H et al. Gata3 regulates trophoblast development downstream of Tead4 and in parallel to Cdx2. Development 2010 Feb;137(3):395-403. PMID: 20081188
  • Wu Q, Luo Y, Lu R, Lau N et al. Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs. Proc Natl Acad Sci U S A 2010 Jan 26;107(4):1606-11. PMID: 20080648
  • Markitsis A, Lai Y et al. A censored beta mixture model for the estimation of the proportion of non-differentially expressed genes. Bioinformatics 2010 Mar 1;26(5):640-6. PMID: 20080506
  • Anvar SY, 't Hoen PA, Tucker A et al. The identification of informative genes from multiple datasets with increasing complexity. BMC Bioinformatics 2010 Jan 15;11:32. PMID: 20078860
  • Sales G, Coppe A, Bicciato S, Bortoluzzi S et al. Impact of probe annotation on the integration of miRNA-mRNA expression profiles for miRNA target detection. Nucleic Acids Res 2010 Apr;38(7):e97. PMID: 20071740
  • Shinde K, Phatak M, Johannes FM, Chen J et al. Genomics Portals: integrative web-platform for mining genomics data. BMC Genomics 2010 Jan 13;11:27. PMID: 20070909
  • Barwick BG, Abramovitz M, Kodani M, Moreno CS et al. Prostate cancer genes associated with TMPRSS2-ERG gene fusion and prognostic of biochemical recurrence in multiple cohorts. Br J Cancer 2010 Feb 2;102(3):570-6. PMID: 20068566
  • Freidlin B, Jiang W, Simon R et al. The cross-validated adaptive signature design. Clin Cancer Res 2010 Jan 15;16(2):691-8. PMID: 20068112
  • Petry IB, Fieber E, Schmidt M, Gehrmann M et al. ERBB2 induces an antiapoptotic expression pattern of Bcl-2 family members in node-negative breast cancer. Clin Cancer Res 2010 Jan 15;16(2):451-60. PMID: 20068093
  • Lee JK, Coutant C, Kim YC, Qi Y et al. Prospective comparison of clinical and genomic multivariate predictors of response to neoadjuvant chemotherapy in breast cancer. Clin Cancer Res 2010 Jan 15;16(2):711-8. PMID: 20068086
  • Kandasamy K, Mohan SS, Raju R, Keerthikumar S et al. NetPath: a public resource of curated signal transduction pathways. Genome Biol 2010 Jan 12;11(1):R3. PMID: 20067622
  • De Hertogh B, De Meulder B, Berger F, Pierre M et al. A benchmark for statistical microarray data analysis that preserves actual biological and technical variance. BMC Bioinformatics 2010 Jan 11;11:17. PMID: 20064233
  • Yamaguchi K, Mandai M, Oura T, Matsumura N et al. Identification of an ovarian clear cell carcinoma gene signature that reflects inherent disease biology and the carcinogenic processes. Oncogene 2010 Mar 25;29(12):1741-52. PMID: 20062075
  • Ortiz-Barahona A, Villar D, Pescador N, Amigo J et al. Genome-wide identification of hypoxia-inducible factor binding sites and target genes by a probabilistic model integrating transcription-profiling data and in silico binding site prediction. Nucleic Acids Res 2010 Apr;38(7):2332-45. PMID: 20061373
  • Chim N, Riley R, The J, Im S et al. An extracellular disulfide bond forming protein (DsbF) from Mycobacterium tuberculosis: structural, biochemical, and gene expression analysis. J Mol Biol 2010 Mar 12;396(5):1211-26. PMID: 20060836
  • Calvo A, Perez-Stable C, Segura V, Catena R et al. Molecular characterization of the Ggamma-globin-Tag transgenic mouse model of hormone refractory prostate cancer: comparison to human prostate cancer. Prostate 2010 May 1;70(6):630-45. PMID: 20058236
  • Kirienko NV, Fay DS et al. SLR-2 and JMJC-1 regulate an evolutionarily conserved stress-response network. EMBO J 2010 Feb 17;29(4):727-39. PMID: 20057358
  • De Bodt S, Carvajal D, Hollunder J, Van den Cruyce J et al. CORNET: a user-friendly tool for data mining and integration. Plant Physiol 2010 Mar;152(3):1167-79. PMID: 20053712
  • Boles NC, Peddibhotla S, Chen AJ, Goodell MA et al. Chk1 haploinsufficiency results in anemia and defective erythropoiesis. PLoS One 2010 Jan 5;5(1):e8581. PMID: 20052416
  • Hampton TH, Stanton BA et al. A novel approach to analyze gene expression data demonstrates that the DeltaF508 mutation in CFTR downregulates the antigen presentation pathway. Am J Physiol Lung Cell Mol Physiol 2010 Apr;298(4):L473-82. PMID: 20044437
  • Parikh H, Lyssenko V, Groop LC et al. Prioritizing genes for follow-up from genome wide association studies using information on gene expression in tissues relevant for type 2 diabetes mellitus. BMC Med Genomics 2009 Dec 31;2:72. PMID: 20043853
  • Ma J, Meng Y, Kwiatkowski DJ, Chen X et al. Mammalian target of rapamycin regulates murine and human cell differentiation through STAT3/p63/Jagged/Notch cascade. J Clin Invest 2010 Jan;120(1):103-14. PMID: 20038814
  • Farrar D, Rai S, Chernukhin I, Jagodic M et al. Mutational analysis of the poly(ADP-ribosyl)ation sites of the transcription factor CTCF provides an insight into the mechanism of its regulation by poly(ADP-ribosyl)ation. Mol Cell Biol 2010 Mar;30(5):1199-216. PMID: 20038529
  • Mořkovský L, Storchová R, Plachý J, Ivánek R et al. The chicken Z chromosome is enriched for genes with preferential expression in ovarian somatic cells. J Mol Evol 2010 Feb;70(2):129-36. PMID: 20037757
  • Ji Z, Tian B et al. Reprogramming of 3' untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types. PLoS One 2009 Dec 23;4(12):e8419. PMID: 20037631
  • Main H, Lee KL, Yang H, Haapa-Paananen S et al. Interactions between Notch- and hypoxia-induced transcriptomes in embryonic stem cells. Exp Cell Res 2010 May 15;316(9):1610-24. PMID: 20034489
  • Wallace HA, Plata MP, Kang HJ, Ross M et al. Chromatin insulators specifically associate with different levels of higher-order chromatin organization in Drosophila. Chromosoma 2010 Apr;119(2):177-94. PMID: 20033198
  • Pfeifle C, Reinhardt K, Heins S, Burdach S et al. Development and characterization of HAT-sensitive Ewing tumour cells for immunotherapy. Anticancer Res 2009 Nov;29(11):4489-96. PMID: 20032396
  • Barth AS, Aiba T, Halperin V, DiSilvestre D et al. Cardiac resynchronization therapy corrects dyssynchrony-induced regional gene expression changes on a genomic level. Circ Cardiovasc Genet 2009 Aug;2(4):371-8. PMID: 20031609
  • Putt ME, Hannenhalli S, Lu Y, Haines P et al. Evidence for coregulation of myocardial gene expression by MEF2 and NFAT in human heart failure. Circ Cardiovasc Genet 2009 Jun;2(3):212-9. PMID: 20031589
  • Sheehy SP, Huang S, Parker KK et al. Time-warped comparison of gene expression in adaptive and maladaptive cardiac hypertrophy. Circ Cardiovasc Genet 2009 Apr;2(2):116-24. PMID: 20031575
  • He M, Mangiameli DP, Kachala S, Hunter K et al. Expression signature developed from a complex series of mouse models accurately predicts human breast cancer survival. Clin Cancer Res 2010 Jan 1;16(1):249-59. PMID: 20028755
  • Shi W, Bugrim A, Nikolsky Y, Nikolskya T et al. Characteristics of genomic signatures derived using univariate methods and mechanistically anchored functional descriptors for predicting drug- and xenobiotic-induced nephrotoxicity. Toxicol Mech Methods 2008;18(2-3):267-76. PMID: 20020920
  • Southworth LK, Owen AB, Kim SK et al. Aging mice show a decreasing correlation of gene expression within genetic modules. PLoS Genet 2009 Dec;5(12):e1000776. PMID: 20019809
  • Dressaire C, Gitton C, Loubière P, Monnet V et al. Transcriptome and proteome exploration to model translation efficiency and protein stability in Lactococcus lactis. PLoS Comput Biol 2009 Dec;5(12):e1000606. PMID: 20019804
  • Yoda A, Yoda Y, Chiaretti S, Bar-Natan M et al. Functional screening identifies CRLF2 in precursor B-cell acute lymphoblastic leukemia. Proc Natl Acad Sci U S A 2010 Jan 5;107(1):252-7. PMID: 20018760
  • Makarevitch I, Harris C et al. Aneuploidy causes tissue-specific qualitative changes in global gene expression patterns in maize. Plant Physiol 2010 Feb;152(2):927-38. PMID: 20018594
  • Gevaert O, Daemen A, De Moor B, Libbrecht L et al. A taxonomy of epithelial human cancer and their metastases. BMC Med Genomics 2009 Dec 17;2:69. PMID: 20017941
  • Mans JJ, Hendrickson EL, Hackett M, Lamont RJ et al. Cellular and bacterial profiles associated with oral epithelium-microbiota interactions. Periodontol 2000 2010 Feb;52(1):207-17. PMID: 20017802
  • Fu LM, Tai SC et al. The Differential Gene Expression Pattern of Mycobacterium tuberculosis in Response to Capreomycin and PA-824 versus First-Line TB Drugs Reveals Stress- and PE/PPE-Related Drug Targets. Int J Microbiol 2009;2009:879621. PMID: 20016672
  • Kim M, Cho SB, Kim JH et al. Mixture-model based estimation of gene expression variance from public database improves identification of differentially expressed genes in small sized microarray data. Bioinformatics 2010 Feb 15;26(4):486-92. PMID: 20015947
  • Chang SJ, Wang TY, Tsai CY, Hu TF et al. Increased epithelial stem cell traits in advanced endometrial endometrioid carcinoma. BMC Genomics 2009 Dec 16;10:613. PMID: 20015385
  • Buisine N, Sachs L et al. Impact of genome assembly status on ChIP-Seq and ChIP-PET data mapping. BMC Res Notes 2009 Dec 16;2:257. PMID: 20015379
  • Haag M, Van Linthout S, Schröder SE, Freymann U et al. Endomyocardial biopsy derived adherent proliferating cells - a potential cell source for cardiac tissue engineering. J Cell Biochem 2010 Feb 15;109(3):564-75. PMID: 20013794
  • Camateros P, Marino R, Fortin A, Martin JG et al. Identification of novel chromosomal regions associated with airway hyperresponsiveness in recombinant congenic strains of mice. Mamm Genome 2010 Feb;21(1-2):28-38. PMID: 20012967
  • Liu Y, Balaraman Y, Wang G, Nephew KP et al. Alcohol exposure alters DNA methylation profiles in mouse embryos at early neurulation. Epigenetics 2009 Oct 1;4(7):500-11. PMID: 20009564
  • Sartor MA, Mahavisno V, Keshamouni VG, Cavalcoli J et al. ConceptGen: a gene set enrichment and gene set relation mapping tool. Bioinformatics 2010 Feb 15;26(4):456-63. PMID: 20007254
  • Wu J, Qiu Q, Xie L, Fullerton J et al. Web-based interrogation of gene expression signatures using EXALT. BMC Bioinformatics 2009 Dec 14;10:420. PMID: 20003458
  • Mentzen WI, Floris M, de la Fuente A et al. Dissecting the dynamics of dysregulation of cellular processes in mouse mammary gland tumor. BMC Genomics 2009 Dec 13;10:601. PMID: 20003387
  • Cavalieri D, Calura E, Romualdi C, Marchi E et al. Filling gaps in PPAR-alpha signaling through comparative nutrigenomics analysis. BMC Genomics 2009 Dec 11;10:596. PMID: 20003344
  • Galindo CL, Skinner MA, Errami M, Olson LD et al. Transcriptional profile of isoproterenol-induced cardiomyopathy and comparison to exercise-induced cardiac hypertrophy and human cardiac failure. BMC Physiol 2009 Dec 9;9:23. PMID: 20003209
  • Glazer CA, Smith IM, Ochs MF, Begum S et al. Integrative discovery of epigenetically derepressed cancer testis antigens in NSCLC. PLoS One 2009 Dec 4;4(12):e8189. PMID: 19997593
  • Jorissen RN, Gibbs P, Christie M, Prakash S et al. Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer. Clin Cancer Res 2009 Dec 15;15(24):7642-7651. PMID: 19996206
  • Fu Y, Chen Z, Blakemore AI, Orwoll E et al. Absence of AVPR2 copy number variation in eunatremic and dysnatremic subjects in non-Hispanic Caucasian populations. Physiol Genomics 2010 Feb 4;40(3):121-7. PMID: 19996159
  • Chen LA global comparison between nuclear and cytosolic transcriptomes reveals differential compartmentalization of alternative transcript isoforms. Nucleic Acids Res 2010 Mar;38(4):1086-97. PMID: 19969546
  • Swindell WRGenes and gene expression modules associated with caloric restriction and aging in the laboratory mouse. BMC Genomics 2009 Dec 7;10:585. PMID: 19968875
  • Madore J, Ren F, Filali-Mouhim A, Sanchez L et al. Characterization of the molecular differences between ovarian endometrioid carcinoma and ovarian serous carcinoma. J Pathol 2010 Feb;220(3):392-400. PMID: 19967725
  • Johnson JE, Cao K, Ryvkin P, Wang LS et al. Altered gene expression in the Werner and Bloom syndromes is associated with sequences having G-quadruplex forming potential. Nucleic Acids Res 2010 Mar;38(4):1114-22. PMID: 19966276
  • Yang JH, Shao P, Zhou H, Chen YQ et al. deepBase: a database for deeply annotating and mining deep sequencing data. Nucleic Acids Res 2010 Jan;38(Database issue):D123-30. PMID: 19966272
  • Huang Y, de Reyniès A, de Leval L, Ghazi B et al. Gene expression profiling identifies emerging oncogenic pathways operating in extranodal NK/T-cell lymphoma, nasal type. Blood 2010 Feb 11;115(6):1226-37. PMID: 19965620
  • Keller MA, Watschinger K, Golderer G, Maglione M et al. Monitoring of fatty aldehyde dehydrogenase by formation of pyrenedecanoic acid from pyrenedecanal. J Lipid Res 2010 Jun;51(6):1554-9. PMID: 19965611
  • Edelman LB, Toia G, Geman D, Zhang W et al. Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases. BMC Genomics 2009 Dec 5;10:583. PMID: 19961616
  • Geerts D, Koster J, Albert D, Koomoa DL et al. The polyamine metabolism genes ornithine decarboxylase and antizyme 2 predict aggressive behavior in neuroblastomas with and without MYCN amplification. Int J Cancer 2010 May 1;126(9):2012-24. PMID: 19960435
  • Ho JW, Stefani M, dos Remedios CG, Charleston MA et al. A model selection approach to discover age-dependent gene expression patterns using quantile regression models. BMC Genomics 2009 Dec 3;10 Suppl 3(Suppl 3):S16. PMID: 19958479
  • Keum C, Woo JH, Oh WS, Park SN et al. Improving gene expression similarity measurement using pathway-based analytic dimension. BMC Genomics 2009 Dec 3;10 Suppl 3(Suppl 3):S15. PMID: 19958478
  • Huang T, Cui W, Hu L, Feng K et al. Prediction of pharmacological and xenobiotic responses to drugs based on time course gene expression profiles. PLoS One 2009 Dec 2;4(12):e8126. PMID: 19956587
  • Jiang P, Rushing SN, Kong CW, Fu J et al. Electrophysiological properties of human induced pluripotent stem cells. Am J Physiol Cell Physiol 2010 Mar;298(3):C486-95. PMID: 19955484
  • Bargaje R, Hariharan M, Scaria V, Pillai B et al. Consensus miRNA expression profiles derived from interplatform normalization of microarray data. RNA 2010 Jan;16(1):16-25. PMID: 19948767
  • Maver A, Medica I, Peterlin B et al. Search for sarcoidosis candidate genes by integration of data from genomic, transcriptomic and proteomic studies. Med Sci Monit 2009 Dec;15(12):SR22-8. PMID: 19946248
  • Noma H, Matsui S, Omori T, Sato T et al. Bayesian ranking and selection methods using hierarchical mixture models in microarray studies. Biostatistics 2010 Apr;11(2):281-9. PMID: 19946026
  • Sontrop HM, Moerland PD, van den Ham R, Reinders MJ et al. A comprehensive sensitivity analysis of microarray breast cancer classification under feature variability. BMC Bioinformatics 2009 Nov 26;10:389. PMID: 19941644
  • Liu S, Yeh CT, Ji T, Ying K et al. Mu transposon insertion sites and meiotic recombination events co-localize with epigenetic marks for open chromatin across the maize genome. PLoS Genet 2009 Nov;5(11):e1000733. PMID: 19936291
  • Nakamura K, Salomonis N, Tomoda K, Yamanaka S et al. G(i)-coupled GPCR signaling controls the formation and organization of human pluripotent colonies. PLoS One 2009 Nov 10;4(11):e7780. PMID: 19936228
  • Tategu M, Arauchi T, Tanaka R, Nakagawa H et al. Systems biology-based identification of crosstalk between E2F transcription factors and the Fanconi anemia pathway. Gene Regul Syst Bio 2007 May 1;1:1-8. PMID: 19936073
  • Culhane AC, Schwarzl T, Sultana R, Picard KC et al. GeneSigDB--a curated database of gene expression signatures. Nucleic Acids Res 2010 Jan;38(Database issue):D716-25. PMID: 19934259
  • Singh LN, Hannenhalli S et al. Correlated changes between regulatory cis elements and condition-specific expression in paralogous gene families. Nucleic Acids Res 2010 Jan;38(3):738-49. PMID: 19933262
  • Hong BS, Cho JH, Kim H, Choi EJ et al. Colorectal cancer cell-derived microvesicles are enriched in cell cycle-related mRNAs that promote proliferation of endothelial cells. BMC Genomics 2009 Nov 25;10:556. PMID: 19930720
  • Pattin KA, Moore JH et al. Role for protein-protein interaction databases in human genetics. Expert Rev Proteomics 2009 Dec;6(6):647-59. PMID: 19929610
  • Penning BW, Hunter CT 3rd, Tayengwa R, Eveland AL et al. Genetic resources for maize cell wall biology. Plant Physiol 2009 Dec;151(4):1703-28. PMID: 19926802
  • Wan R, Kiseleva L, Harada H, Mamitsuka H et al. HAMSTER: visualizing microarray experiments as a set of minimum spanning trees. Source Code Biol Med 2009 Nov 20;4:8. PMID: 19925686
  • Rolland AD, Lareyre JJ, Goupil AS, Montfort J et al. Expression profiling of rainbow trout testis development identifies evolutionary conserved genes involved in spermatogenesis. BMC Genomics 2009 Nov 20;10:546. PMID: 19925684
  • Zhang W, Dolan ME et al. Use of cell lines in the investigation of pharmacogenetic loci. Curr Pharm Des 2009;15(32):3782-95. PMID: 19925429
  • Huang S, Taylor NL, Narsai R, Eubel H et al. Functional and composition differences between mitochondrial complex II in Arabidopsis and rice are correlated with the complex genetic history of the enzyme. Plant Mol Biol 2010 Feb;72(3):331-42. PMID: 19924544
  • Barbosa-Morais NL, Dunning MJ, Samarajiwa SA, Darot JF et al. A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data. Nucleic Acids Res 2010 Jan;38(3):e17. PMID: 19923232
  • Cedano J, Huerta M, Querol E et al. NCR-PCOPGene: An Exploratory Tool for Analysis of Sample-Classes Effect on Gene-Expression Relationships. Adv Bioinformatics 2008;2008:789026. PMID: 19920990
  • Morgan AA, Dudley JT, Deshpande T, Butte AJ et al. Dynamism in gene expression across multiple studies. Physiol Genomics 2010 Feb 4;40(3):128-40. PMID: 19920211
  • Wu C, Orozco C, Boyer J, Leglise M et al. BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources. Genome Biol 2009;10(11):R130. PMID: 19919682
  • Motallebipour M, Ameur A, Reddy Bysani MS, Patra K et al. Differential binding and co-binding pattern of FOXA1 and FOXA3 and their relation to H3K4me3 in HepG2 cells revealed by ChIP-seq. Genome Biol 2009;10(11):R129. PMID: 19919681
  • Okamura K, Liu N, Lai EC et al. Distinct mechanisms for microRNA strand selection by Drosophila Argonautes. Mol Cell 2009 Nov 13;36(3):431-44. PMID: 19917251
  • Asmann YW, Klee EW, Thompson EA, Perez EA et al. 3' tag digital gene expression profiling of human brain and universal reference RNA using Illumina Genome Analyzer. BMC Genomics 2009 Nov 16;10:531. PMID: 19917133
  • Kroll KM, Barkema GT, Carlon E et al. Linear model for fast background subtraction in oligonucleotide microarrays. Algorithms Mol Biol 2009 Nov 16;4:15. PMID: 19917117
  • Imielinski M, Baldassano RN, Griffiths A, Russell RK et al. Common variants at five new loci associated with early-onset inflammatory bowel disease. Nat Genet 2009 Dec;41(12):1335-40. PMID: 19915574
  • Yamada M, Hamatani T, Akutsu H, Chikazawa N et al. Involvement of a novel preimplantation-specific gene encoding the high mobility group box protein Hmgpi in early embryonic development. Hum Mol Genet 2010 Feb 1;19(3):480-93. PMID: 19915186
  • Grinchuk OV, Jenjaroenpun P, Orlov YL, Zhou J et al. Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns. Nucleic Acids Res 2010 Jan;38(2):534-47. PMID: 19906709
  • Serre D, Lee BH, Ting AH et al. MBD-isolated Genome Sequencing provides a high-throughput and comprehensive survey of DNA methylation in the human genome. Nucleic Acids Res 2010 Jan;38(2):391-9. PMID: 19906696
  • Ruckhäberle E, Holtrich U, Engels K, Hanker L et al. Acid ceramidase 1 expression correlates with a better prognosis in ER-positive breast cancer. Climacteric 2009 Dec;12(6):502-13. PMID: 19905902
  • Yang G, Thieu K, Tsai KY, Piris A et al. Dynamic gene expression analysis links melanocyte growth arrest with nevogenesis. Cancer Res 2009 Dec 1;69(23):9029-37. PMID: 19903842
  • Hillion J, Wood LJ, Mukherjee M, Bhattacharya R et al. Upregulation of MMP-2 by HMGA1 promotes transformation in undifferentiated, large-cell lung cancer. Mol Cancer Res 2009 Nov;7(11):1803-12. PMID: 19903768
  • Pai VP, Marshall AM, Hernandez LL, Buckley AR et al. Altered serotonin physiology in human breast cancers favors paradoxical growth and cell survival. Breast Cancer Res 2009;11(6):R81. PMID: 19903352
  • Beck AH, Lee CH, Witten DM, Gleason BC et al. Discovery of molecular subtypes in leiomyosarcoma through integrative molecular profiling. Oncogene 2010 Feb 11;29(6):845-54. PMID: 19901961
  • DuSell CD, Nelson ER, Wittmann BM, Fretz JA et al. Regulation of aryl hydrocarbon receptor function by selective estrogen receptor modulators. Mol Endocrinol 2010 Jan;24(1):33-46. PMID: 19901195
  • Volinia S, Visone R, Galasso M, Rossi E et al. Identification of microRNA activity by Targets' Reverse EXpression. Bioinformatics 2010 Jan 1;26(1):91-7. PMID: 19897564
  • Kossenkov AV, Ochs MF et al. Matrix factorization for recovery of biological processes from microarray data. Methods Enzymol 2009;467:59-77. PMID: 19897089
  • Yang J, Cogdell D, Yang D, Hu L et al. Deletion of the WWOX gene and frequent loss of its protein expression in human osteosarcoma. Cancer Lett 2010 May 1;291(1):31-8. PMID: 19896763
  • Agarwal N, Lippmann ES, Shusta EV et al. Identification and expression profiling of blood-brain barrier membrane proteins. J Neurochem 2010 Feb;112(3):625-35. PMID: 19895664
  • Belotserkovsky I, Baruch M, Peer A, Dov E et al. Functional analysis of the quorum-sensing streptococcal invasion locus (sil). PLoS Pathog 2009 Nov;5(11):e1000651. PMID: 19893632
  • Kobayashi I, Ono H, Moritomo T, Kano K et al. Comparative gene expression analysis of zebrafish and mammals identifies common regulators in hematopoietic stem cells. Blood 2010 Jan 14;115(2):e1-9. PMID: 19890097
  • Cohen NM, Dighe V, Landan G, Reynisdóttir S et al. DNA methylation programming and reprogramming in primate embryonic stem cells. Genome Res 2009 Dec;19(12):2193-201. PMID: 19887575
  • Edson MA, Lin YN, Matzuk MM et al. Deletion of the novel oocyte-enriched gene, Gpr149, leads to increased fertility in mice. Endocrinology 2010 Jan;151(1):358-68. PMID: 19887567
  • Lendahl U, Lee KL, Yang H, Poellinger L et al. Generating specificity and diversity in the transcriptional response to hypoxia. Nat Rev Genet 2009 Dec;10(12):821-32. PMID: 19884889
  • Heydemann A, Ceco E, Lim JE, Hadhazy M et al. Latent TGF-beta-binding protein 4 modifies muscular dystrophy in mice. J Clin Invest 2009 Dec;119(12):3703-12. PMID: 19884661
  • Martina E, Degen M, Rüegg C, Merlo A et al. Tenascin-W is a specific marker of glioma-associated blood vessels and stimulates angiogenesis in vitro. FASEB J 2010 Mar;24(3):778-87. PMID: 19884327
  • Bowes JB, Snyder KA, Segerdell E, Jarabek CJ et al. Xenbase: gene expression and improved integration. Nucleic Acids Res 2010 Jan;38(Database issue):D607-12. PMID: 19884130
  • Yang X, Sun X et al. Meta-analysis of cancer gene-profiling data. Methods Mol Biol 2010;576:409-26. PMID: 19882274
  • Glaab E, Garibaldi JM, Krasnogor N et al. ArrayMining: a modular web-application for microarray analysis combining ensemble and consensus methods with cross-study normalization. BMC Bioinformatics 2009 Oct 28;10:358. PMID: 19863798
  • Fortin SP, Ennis MJ, Savitch BA, Carpentieri D et al. Tumor necrosis factor-like weak inducer of apoptosis stimulation of glioma cell survival is dependent on Akt2 function. Mol Cancer Res 2009 Nov;7(11):1871-81. PMID: 19861406
  • Liu M, Casimiro MC, Wang C, Shirley LA et al. p21CIP1 attenuates Ras- and c-Myc-dependent breast tumor epithelial mesenchymal transition and cancer stem cell-like gene expression in vivo. Proc Natl Acad Sci U S A 2009 Nov 10;106(45):19035-9. PMID: 19858489
  • Filichkin SA, Priest HD, Givan SA, Shen R et al. Genome-wide mapping of alternative splicing in Arabidopsis thaliana. Genome Res 2010 Jan;20(1):45-58. PMID: 19858364
  • Unger K, Wienberg J, Riches A, Hieber L et al. Novel gene rearrangements in transformed breast cells identified by high-resolution breakpoint analysis of chromosomal aberrations. Endocr Relat Cancer 2010 Mar;17(1):87-98. PMID: 19858224
  • Rullo OJ, Woo JM, Wu H, Hoftman AD et al. Association of IRF5 polymorphisms with activation of the interferon alpha pathway. Ann Rheum Dis 2010 Mar;69(3):611-7. PMID: 19854706
  • Ivanova AV, Ivanov SV, Prudkin L, Nonaka D et al. Mechanisms of FUS1/TUSC2 deficiency in mesothelioma and its tumorigenic transcriptional effects. Mol Cancer 2009 Oct 24;8:91. PMID: 19852844
  • Day RC, Müller S, Macknight RC et al. Identification of cytoskeleton-associated genes expressed during Arabidopsis syncytial endosperm development. Plant Signal Behav 2009 Sep;4(9):883-6. PMID: 19847098
  • Qian CN, Furge KA, Knol J, Huang D et al. Activation of the PI3K/AKT pathway induces urothelial carcinoma of the renal pelvis: identification in human tumors and confirmation in animal models. Cancer Res 2009 Nov 1;69(21):8256-64. PMID: 19843858
  • Agrawal A, Sinha A, Ahmad T, Aich J et al. Maladaptation of critical cellular functions in asthma: bioinformatic analysis. Physiol Genomics 2009 Dec 30;40(1):1-7. PMID: 19843653
  • Ying H, Epps J, Williams R, Huttley G et al. Evidence that localized variation in primate sequence divergence arises from an influence of nucleosome placement on DNA repair. Mol Biol Evol 2010 Mar;27(3):637-49. PMID: 19843619
  • Bommer GT, Feng Y, Iura A, Giordano TJ et al. IRS1 regulation by Wnt/beta-catenin signaling and varied contribution of IRS1 to the neoplastic phenotype. J Biol Chem 2010 Jan 15;285(3):1928-38. PMID: 19843521
  • Platts AE, Lalancette C, Emery BR, Carrell DT et al. Disease progression and solid tumor survival: a transcriptome decoherence model. Mol Cell Probes 2010 Feb;24(1):53-60. PMID: 19835949
  • Knoop KA, Kumar N, Butler BR, Sakthivel SK et al. RANKL is necessary and sufficient to initiate development of antigen-sampling M cells in the intestinal epithelium. J Immunol 2009 Nov 1;183(9):5738-47. PMID: 19828638
  • Corradi L, Mirisola V, Porro I, Torterolo L et al. Survival Online: a web-based service for the analysis of correlations between gene expression and clinical and follow-up data. BMC Bioinformatics 2009 Oct 15;10 Suppl 12(Suppl 12):S10. PMID: 19828070
  • Balestrieri C, Alberghina L, Vanoni M, Chiaradonna F et al. Data recovery and integration from public databases uncovers transformation-specific transcriptional downregulation of cAMP-PKA pathway-encoding genes. BMC Bioinformatics 2009 Oct 15;10 Suppl 12(Suppl 12):S1. PMID: 19828069
  • Jupiter D, Chen H, VanBuren V et al. STARNET 2: a web-based tool for accelerating discovery of gene regulatory networks using microarray co-expression data. BMC Bioinformatics 2009 Oct 14;10:332. PMID: 19828039
  • Nevo J, Mattila E, Pellinen T, Yamamoto DL et al. Mammary-derived growth inhibitor alters traffic of EGFR and induces a novel form of cetuximab resistance. Clin Cancer Res 2009 Nov 1;15(21):6570-81. PMID: 19825952
  • Wallerman O, Motallebipour M, Enroth S, Patra K et al. Molecular interactions between HNF4a, FOXA2 and GABP identified at regulatory DNA elements through ChIP-sequencing. Nucleic Acids Res 2009 Dec;37(22):7498-508. PMID: 19822575
  • Kusakabe M, Kutomi T, Watanabe K, Emoto N et al. Identification of G0S2 as a gene frequently methylated in squamous lung cancer by combination of in silico and experimental approaches. Int J Cancer 2010 Apr 15;126(8):1895-1902. PMID: 19816938
  • Pollard C, Nitz M, Baras A, Williams P et al. Genoproteomic mining of urothelial cancer suggests {gamma}-glutamyl hydrolase and diazepam-binding inhibitor as putative urinary markers of outcome after chemotherapy. Am J Pathol 2009 Nov;175(5):1824-30. PMID: 19815704
  • Hecker LA, Alcon TC, Honavar VG, Greenlee MH et al. Using a seed-network to query multiple large-scale gene expression datasets from the developing retina in order to identify and prioritize experimental targets. Bioinform Biol Insights 2008 Feb 1;2:401-12. PMID: 19812791
  • Engelmann JC, Schwarz R, Blenk S, Friedrich T et al. Unsupervised meta-analysis on diverse gene expression datasets allows insight into gene function and regulation. Bioinform Biol Insights 2008 May 26;2:265-80. PMID: 19812781
  • Hirakawa A, Sato Y, Hamada C, Yoshimura I et al. A new test statistic based on shrunken sample variance for identifying differentially expressed genes in small microarray experiments. Bioinform Biol Insights 2008 Feb 29;2:145-56. PMID: 19812772
  • van den Berg BH, Thanthiriwatte C, Manda P, Bridges SM et al. Comparing gene annotation enrichment tools for functional modeling of agricultural microarray data. BMC Bioinformatics 2009 Oct 8;10 Suppl 11(Suppl 11):S9. PMID: 19811693
  • Gao C, Dang X, Chen Y, Wilkins D et al. Graph ranking for exploratory gene data analysis. BMC Bioinformatics 2009 Oct 8;10 Suppl 11(Suppl 11):S19. PMID: 19811684
  • Reina-Pinto JJ, Voisin D, Teodor R, Yephremov A et al. Probing differentially expressed genes against a microarray database for in silico suppressor/enhancer and inhibitor/activator screens. Plant J 2010 Jan;61(1):166-75. PMID: 19811619
  • Zhang Z, Yu J, Li D, Zhang Z et al. PMRD: plant microRNA database. Nucleic Acids Res 2010 Jan;38(Database issue):D806-13. PMID: 19808935
  • Lim PS, Hardy K, Bunting KL, Ma L et al. Defining the chromatin signature of inducible genes in T cells. Genome Biol 2009;10(10):R107. PMID: 19807913
  • Nobuta K, McCormick K, Nakano M, Meyers BC et al. Bioinformatics analysis of small RNAs in plants using next generation sequencing technologies. Methods Mol Biol 2010;592:89-106. PMID: 19802591
  • Chase A, Ernst T, Fiebig A, Collins A et al. TFG, a target of chromosome translocations in lymphoma and soft tissue tumors, fuses to GPR128 in healthy individuals. Haematologica 2010 Jan;95(1):20-6. PMID: 19797732
  • Anwar N, Hunt E et al. Francisella tularensis novicida proteomic and transcriptomic data integration and annotation based on semantic web technologies. BMC Bioinformatics 2009 Oct 1;10 Suppl 10(Suppl 10):S3. PMID: 19796400
  • McCusker JP, Phillips JA, González Beltrán A, Finkelstein A et al. Semantic web data warehousing for caGrid. BMC Bioinformatics 2009 Oct 1;10 Suppl 10(Suppl 10):S2. PMID: 19796399
  • Simons JWEpigenetic hereditary transcription profiles III, evidence for an epigenetic network resulting in gender, tissue and age-specific variation in overall transcription. Biol Direct 2009 Oct 1;4:37. PMID: 19796384
  • Park PJ, Kong SW, Tebaldi T, Lai WR et al. Integration of heterogeneous expression data sets extends the role of the retinol pathway in diabetes and insulin resistance. Bioinformatics 2009 Dec 1;25(23):3121-7. PMID: 19786482
  • Moreira JM, Ohlsson G, Gromov P, Simon R et al. Bladder cancer-associated protein, a potential prognostic biomarker in human bladder cancer. Mol Cell Proteomics 2010 Jan;9(1):161-77. PMID: 19783793
  • Ritchie W, Rajasekhar M, Flamant S, Rasko JE et al. Conserved expression patterns predict microRNA targets. PLoS Comput Biol 2009 Sep;5(9):e1000513. PMID: 19779543
  • Bogan RL, Hennebold JD et al. The reverse cholesterol transport system as a potential mediator of luteolysis in the primate corpus luteum. Reproduction 2010 Jan;139(1):163-76. PMID: 19776099
  • Ladroue C, Guo S, Kendrick K, Feng J et al. Beyond element-wise interactions: identifying complex interactions in biological processes. PLoS One 2009 Sep 23;4(9):e6899. PMID: 19774090
  • Chudova D, Ihler A, Lin KK, Andersen B et al. Bayesian detection of non-sinusoidal periodic patterns in circadian expression data. Bioinformatics 2009 Dec 1;25(23):3114-20. PMID: 19773336
  • Chowdhury R, Bois PR, Feingold E, Sherman SL et al. Genetic analysis of variation in human meiotic recombination. PLoS Genet 2009 Sep;5(9):e1000648. PMID: 19763160
  • Pitzer E, Lacson R, Hinske C, Kim J et al. Towards large-scale sample annotation in gene expression repositories. BMC Bioinformatics 2009 Sep 17;10 Suppl 9(Suppl 9):S9. PMID: 19761579
  • Shivakumar P, Krauthammer M et al. Structural similarity assessment for drug sensitivity prediction in cancer. BMC Bioinformatics 2009 Sep 17;10 Suppl 9(Suppl 9):S17. PMID: 19761571
  • Lacson R, Pitzer E, Hinske C, Galante P et al. Evaluation of a large-scale biomedical data annotation initiative. BMC Bioinformatics 2009 Sep 17;10 Suppl 9(Suppl 9):S10. PMID: 19761564
  • Chang HH, Ramoni MF et al. Transcriptional network classifiers. BMC Bioinformatics 2009 Sep 17;10 Suppl 9(Suppl 9):S1. PMID: 19761563
  • Davey MW, Graham NS, Vanholme B, Swennen R et al. Heterologous oligonucleotide microarrays for transcriptomics in a non-model species; a proof-of-concept study of drought stress in Musa. BMC Genomics 2009 Sep 16;10:436. PMID: 19758430
  • Dudley JT, Tibshirani R, Deshpande T, Butte AJ et al. Disease signatures are robust across tissues and experiments. Mol Syst Biol 2009;5:307. PMID: 19756046
  • Young RM, Polsky A, Refaeli Y et al. TC-PTP is required for the maintenance of MYC-driven B-cell lymphomas. Blood 2009 Dec 3;114(24):5016-23. PMID: 19755676
  • Scharl T, Voglhuber I, Leisch F et al. Exploratory and inferential analysis of gene cluster neighborhood graphs. BMC Bioinformatics 2009 Sep 14;10:288. PMID: 19751523
  • Sanga S, Broom BM, Cristini V, Edgerton ME et al. Gene expression meta-analysis supports existence of molecular apocrine breast cancer with a role for androgen receptor and implies interactions with ErbB family. BMC Med Genomics 2009 Sep 11;2:59. PMID: 19747394
  • Charles KA, Kulbe H, Soper R, Escorcio-Correia M et al. The tumor-promoting actions of TNF-alpha involve TNFR1 and IL-17 in ovarian cancer in mice and humans. J Clin Invest 2009 Oct;119(10):3011-23. PMID: 19741298
  • Aid-Pavlidis T, Pavlidis P, Timmusk T et al. Meta-coexpression conservation analysis of microarray data: a "subset" approach provides insight into brain-derived neurotrophic factor regulation. BMC Genomics 2009 Sep 8;10:420. PMID: 19737418
  • Wu Y, Yan L, Liu H, Sun H et al. A new outlier removal approach for cDNA microarray normalization. Biotechniques 2009 Aug;47(2):691-2, 694-700. PMID: 19737130
  • Lai Y, Sun Y, Skinner CM, Son EL et al. Reconstitution of marrow-derived extracellular matrix ex vivo: a robust culture system for expanding large-scale highly functional human mesenchymal stem cells. Stem Cells Dev 2010 Jul;19(7):1095-107. PMID: 19737070
  • Kayano M, Takigawa I, Shiga M, Tsuda K et al. Efficiently finding genome-wide three-way gene interactions from transcript- and genotype-data. Bioinformatics 2009 Nov 1;25(21):2735-43. PMID: 19736252
  • Zhao H, Wang Q, Bai C, He K et al. A cross-study gene set enrichment analysis identifies critical pathways in endometriosis. Reprod Biol Endocrinol 2009 Sep 8;7:94. PMID: 19735579
  • Upton GJ, Sanchez-Graillet O, Rowsell J, Arteaga-Salas JM et al. On the causes of outliers in Affymetrix GeneChip data. Brief Funct Genomic Proteomic 2009 May;8(3):199-212. PMID: 19734302
  • Hu HY, Yan Z, Xu Y, Hu H et al. Sequence features associated with microRNA strand selection in humans and flies. BMC Genomics 2009 Sep 4;10:413. PMID: 19732433
  • Arbour M, Epp E, Hogues H, Sellam A et al. Widespread occurrence of chromosomal aneuploidy following the routine production of Candida albicans mutants. FEMS Yeast Res 2009 Oct;9(7):1070-7. PMID: 19732157
  • Freishtat RJ, Benton AS, Watson AM, Wang Z et al. Delineation of a gene network underlying the pulmonary response to oxidative stress in asthma. J Investig Med 2009 Oct;57(7):756-64. PMID: 19730131
  • Fan J, Rone MB, Papadopoulos V et al. Translocator protein 2 is involved in cholesterol redistribution during erythropoiesis. J Biol Chem 2009 Oct 30;284(44):30484-97. PMID: 19729679
  • Wang W, Nunez-Iglesias J, Luan Y, Sun F et al. Usefulness and limitations of dK random graph models to predict interactions and functional homogeneity in biological networks under a pseudo-likelihood parameter estimation approach. BMC Bioinformatics 2009 Sep 3;10:277. PMID: 19728875
  • Feng C, Araki M, Kunimoto R, Tamon A et al. GEM-TREND: a web tool for gene expression data mining toward relevant network discovery. BMC Genomics 2009 Sep 3;10:411. PMID: 19728865
  • Shiryaev SA, Remacle AG, Savinov AY, Chernov AV et al. Inflammatory proprotein convertase-matrix metalloproteinase proteolytic pathway in antigen-presenting cells as a step to autoimmune multiple sclerosis. J Biol Chem 2009 Oct 30;284(44):30615-26. PMID: 19726693
  • Beck L, Leroy C, Salaün C, Margall-Ducos G et al. Identification of a novel function of PiT1 critical for cell proliferation and independent of its phosphate transport activity. J Biol Chem 2009 Nov 6;284(45):31363-74. PMID: 19726692
  • Huang YW, Jansen RA, Fabbri E, Potter D et al. Identification of candidate epigenetic biomarkers for ovarian cancer detection. Oncol Rep 2009 Oct;22(4):853-61. PMID: 19724865
  • Culhane AC, Quackenbush J et al. Confounding effects in "A six-gene signature predicting breast cancer lung metastasis". Cancer Res 2009 Sep 15;69(18):7480-5. PMID: 19723662
  • Francis SM, Larsen JE, Pavey SJ, Bowman RV et al. Expression profiling identifies genes involved in emphysema severity. Respir Res 2009 Sep 2;10(1):81. PMID: 19723343
  • Choi JK, Bae JB, Lyu J, Kim TY et al. Nucleosome deposition and DNA methylation at coding region boundaries. Genome Biol 2009;10(9):R89. PMID: 19723310
  • Le Martelot G, Claudel T, Gatfield D, Schaad O et al. REV-ERBalpha participates in circadian SREBP signaling and bile acid homeostasis. PLoS Biol 2009 Sep;7(9):e1000181. PMID: 19721697
  • Yuan Z, Pei H, Roberts DJ, Zhang Z et al. Quantitative trait locus analysis of neointimal formation in an intercross between C57BL/6 and C3H/HeJ apolipoprotein E-deficient mice. Circ Cardiovasc Genet 2009 Jun;2(3):220-8. PMID: 19718279
  • Shin J, Li B, Davis ME, Suh Y et al. Comparative analysis of fatty acid-binding protein 4 promoters: conservation of peroxisome proliferator-activated receptor binding sites. J Anim Sci 2009 Dec;87(12):3923-34. PMID: 19717768
  • Colijn C, Brandes A, Zucker J, Lun DS et al. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. PLoS Comput Biol 2009 Aug;5(8):e1000489. PMID: 19714220
  • Keller A, Backes C, Gerasch A, Kaufmann M et al. A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis. Bioinformatics 2009 Nov 1;25(21):2787-94. PMID: 19713416
  • Mertsch S, Schurgers LJ, Weber K, Paulus W et al. Matrix gla protein (MGP): an overexpressed and migration-promoting mesenchymal component in glioblastoma. BMC Cancer 2009 Aug 27;9:302. PMID: 19712474
  • Lively GD, Jiang B, Hedberg-Buenz A, Chang B et al. Genetic dependence of central corneal thickness among inbred strains of mice. Invest Ophthalmol Vis Sci 2010 Jan;51(1):160-71. PMID: 19710407
  • Xu WW, Cho S, Yang SS, Bolon YT et al. Single-feature polymorphism discovery by computing probe affinity shape powers. BMC Genet 2009 Aug 26;10:48. PMID: 19709416
  • Li C, Li X, Miao Y, Wang Q et al. SubpathwayMiner: a software package for flexible identification of pathways. Nucleic Acids Res 2009 Oct;37(19):e131. PMID: 19706733
  • Auerbach RK, Euskirchen G, Rozowsky J, Lamarre-Vincent N et al. Mapping accessible chromatin regions using Sono-Seq. Proc Natl Acad Sci U S A 2009 Sep 1;106(35):14926-31. PMID: 19706456
  • Han B, Chen XW, Wang X, Michaelis EK et al. Integrating multiple microarray data for cancer pathway analysis using bootstrapping K-S test. J Biomed Biotechnol 2009;2009:707580. PMID: 19704919
  • Hsu SC, Patel R, Bédard J, Jarvis P et al. Two distinct Omp85 paralogs in the chloroplast outer envelope membrane are essential for embryogenesis in Arabidopsis thaliana. Plant Signal Behav 2008 Dec;3(12):1134-5. PMID: 19704458
  • Yu Y, Tu K, Zheng S, Li Y et al. GEOGLE: context mining tool for the correlation between gene expression and the phenotypic distinction. BMC Bioinformatics 2009 Aug 25;10:264. PMID: 19703314
  • Kim EY, Kim SY, Ashlock D, Nam D et al. MULTI-K: accurate classification of microarray subtypes using ensemble k-means clustering. BMC Bioinformatics 2009 Aug 22;10:260. PMID: 19698124
  • Bandyopadhyay S, Mitra R et al. TargetMiner: microRNA target prediction with systematic identification of tissue-specific negative examples. Bioinformatics 2009 Oct 15;25(20):2625-31. PMID: 19692556
  • Li J, Zimmerman LJ, Park BH, Tabb DL et al. Network-assisted protein identification and data interpretation in shotgun proteomics. Mol Syst Biol 2009;5:303. PMID: 19690572
  • Choi Y, Kendziorski C et al. Statistical methods for gene set co-expression analysis. Bioinformatics 2009 Nov 1;25(21):2780-6. PMID: 19689953
  • Lafferty-Whyte K, Cairney CJ, Will MB, Serakinci N et al. A gene expression signature classifying telomerase and ALT immortalization reveals an hTERT regulatory network and suggests a mesenchymal stem cell origin for ALT. Oncogene 2009 Oct 29;28(43):3765-74. PMID: 19684619
  • Baughman JM, Nilsson R, Gohil VM, Arlow DH et al. A computational screen for regulators of oxidative phosphorylation implicates SLIRP in mitochondrial RNA homeostasis. PLoS Genet 2009 Aug;5(8):e1000590. PMID: 19680543
  • Tu K, Yu H, Hua YJ, Li YY et al. Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms. Nucleic Acids Res 2009 Oct;37(18):5969-80. PMID: 19671526
  • Li X, Cai H, Xu J, Ying S et al. A mouse protein interactome through combined literature mining with multiple sources of interaction evidence. Amino Acids 2010 Apr;38(4):1237-52. PMID: 19669079
  • Kim WY, Perera S, Zhou B, Carretero J et al. HIF2alpha cooperates with RAS to promote lung tumorigenesis in mice. J Clin Invest 2009 Aug;119(8):2160-70. PMID: 19662677
  • Hu G, Agarwal P et al. Human disease-drug network based on genomic expression profiles. PLoS One 2009 Aug 6;4(8):e6536. PMID: 19657382
  • Tian F, Shah PK, Liu X, Negre N et al. Flynet: a genomic resource for Drosophila melanogaster transcriptional regulatory networks. Bioinformatics 2009 Nov 15;25(22):3001-4. PMID: 19656951
  • Nilsson R, Schultz IJ, Pierce EL, Soltis KA et al. Discovery of genes essential for heme biosynthesis through large-scale gene expression analysis. Cell Metab 2009 Aug;10(2):119-30. PMID: 19656490
  • Faraone D, Aguzzi MS, Toietta G, Facchiano AM et al. Platelet-derived growth factor-receptor alpha strongly inhibits melanoma growth in vitro and in vivo. Neoplasia 2009 Aug;11(8):732-42. PMID: 19649203
  • Houot R, Goldstein MJ, Kohrt HE, Myklebust JH et al. Therapeutic effect of CD137 immunomodulation in lymphoma and its enhancement by Treg depletion. Blood 2009 Oct 15;114(16):3431-8. PMID: 19641184
  • Freudenberg JM, Joshi VK, Hu Z, Medvedovic M et al. CLEAN: CLustering Enrichment ANalysis. BMC Bioinformatics 2009 Jul 29;10:234. PMID: 19640299
  • Winden KD, Oldham MC, Mirnics K, Ebert PJ et al. The organization of the transcriptional network in specific neuronal classes. Mol Syst Biol 2009;5:291. PMID: 19638972
  • Galvez-Valdivieso G, Fryer MJ, Lawson T, Slattery K et al. The high light response in Arabidopsis involves ABA signaling between vascular and bundle sheath cells. Plant Cell 2009 Jul;21(7):2143-62. PMID: 19638476
  • Kino T, Su YA, Chrousos GP et al. Human glucocorticoid receptor isoform beta: recent understanding of its potential implications in physiology and pathophysiology. Cell Mol Life Sci 2009 Nov;66(21):3435-48. PMID: 19633971
  • Mehan MR, Nunez-Iglesias J, Kalakrishnan M, Waterman MS et al. An integrative network approach to map the transcriptome to the phenome. J Comput Biol 2009 Aug;16(8):1023-34. PMID: 19630539
  • Zhu W, Yang L, Du Z et al. Layered functional network analysis of gene expression in human heart failure. PLoS One 2009 Jul 24;4(7):e6288. PMID: 19629191
  • Tsui IF, Poh CF, Garnis C, Rosin MP et al. Multiple pathways in the FGF signaling network are frequently deregulated by gene amplification in oral dysplasias. Int J Cancer 2009 Nov 1;125(9):2219-28. PMID: 19623652
  • Cheng H, Liu P, Wang ZC, Zou L et al. SIK1 couples LKB1 to p53-dependent anoikis and suppresses metastasis. Sci Signal 2009 Jul 21;2(80):ra35. PMID: 19622832
  • Kutlu B, Kayali AG, Jung S, Parnaud G et al. Meta-analysis of gene expression in human pancreatic islets after in vitro expansion. Physiol Genomics 2009 Sep 9;39(1):72-81. PMID: 19622797
  • Wessells H, Sullivan CJ, Tsubota Y, Engel KL et al. Transcriptional profiling of human cavernosal endothelial cells reveals distinctive cell adhesion phenotype and role for claudin 11 in vascular barrier function. Physiol Genomics 2009 Oct 7;39(2):100-8. PMID: 19622796
  • Zhang J, Liu X, Datta A, Govindarajan K et al. RCP is a human breast cancer-promoting gene with Ras-activating function. J Clin Invest 2009 Aug;119(8):2171-83. PMID: 19620787
  • Kinoshita K, Obayashi T et al. Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis. Bioinformatics 2009 Oct 15;25(20):2677-84. PMID: 19620096
  • Buechler SLow expression of a few genes indicates good prognosis in estrogen receptor positive breast cancer. BMC Cancer 2009 Jul 20;9:243. PMID: 19619298
  • Zhang J, Liu B, Jiang X, Zhao H et al. A systems biology-based gene expression classifier of glioblastoma predicts survival with solid tumors. PLoS One 2009 Jul 17;4(7):e6274. PMID: 19609451
  • Bredel M, Scholtens DM, Harsh GR, Bredel C et al. A network model of a cooperative genetic landscape in brain tumors. JAMA 2009 Jul 15;302(3):261-75. PMID: 19602686
  • Saiki A, Olsson M, Jernås M, Gummesson A et al. Tenomodulin is highly expressed in adipose tissue, increased in obesity, and down-regulated during diet-induced weight loss. J Clin Endocrinol Metab 2009 Oct;94(10):3987-94. PMID: 19602561
  • Smith LR, Pontén E, Hedström Y, Ward SR et al. Novel transcriptional profile in wrist muscles from cerebral palsy patients. BMC Med Genomics 2009 Jul 14;2:44. PMID: 19602279
  • Kuznetsov VARelative avidity, specificity, and sensitivity of transcription factor-DNA binding in genome-scale experiments. Methods Mol Biol 2009;563:15-50. PMID: 19597778
  • Seike M, Goto A, Okano T, Bowman ED et al. MiR-21 is an EGFR-regulated anti-apoptotic factor in lung cancer in never-smokers. Proc Natl Acad Sci U S A 2009 Jul 21;106(29):12085-90. PMID: 19597153
  • Lis M, Fuss JR, Bobek LA et al. Exploring the mode of action of antimicrobial peptide MUC7 12-mer by fitness profiling of Saccharomyces cerevisiae genomewide mutant collection. Antimicrob Agents Chemother 2009 Sep;53(9):3762-9. PMID: 19596888
  • Ahmed SS, Santosh W, Kumar S, Christlet HT et al. Metabolic profiling of Parkinson's disease: evidence of biomarker from gene expression analysis and rapid neural network detection. J Biomed Sci 2009 Jul 13;16(1):63. PMID: 19594911
  • Hennetin J, Pehkonen P, Bellis M et al. Construction and use of gene expression covariation matrix. BMC Bioinformatics 2009 Jul 13;10:214. PMID: 19594909
  • Judy JT, Ji H et al. TileProbe: modeling tiling array probe effects using publicly available data. Bioinformatics 2009 Sep 15;25(18):2369-75. PMID: 19592393
  • Guda P, Chittur SV, Guda C et al. Comparative analysis of protein-protein interactions in cancer-associated genes. Genomics Proteomics Bioinformatics 2009 Jun;7(1-2):25-36. PMID: 19591789
  • Hong SE, Heo HS, Kim DH, Kim MS et al. Revealing system-level correlations between aging and calorie restriction using a mouse transcriptome. Age (Dordr) 2010 Mar;32(1):15-30. PMID: 19590981
  • Blotta S, Tassone P, Prabhala RH, Tagliaferri P et al. Identification of novel antigens with induced immune response in monoclonal gammopathy of undetermined significance. Blood 2009 Oct 8;114(15):3276-84. PMID: 19587378
  • Arpanahi A, Brinkworth M, Iles D, Krawetz SA et al. Endonuclease-sensitive regions of human spermatozoal chromatin are highly enriched in promoter and CTCF binding sequences. Genome Res 2009 Aug;19(8):1338-49. PMID: 19584098
  • Kennedy L, Vass JK, Haggart DR, Moore S et al. Hematopoietic Lineage Transcriptome Stability and Representation in PAXgene Collected Peripheral Blood Utilising SPIA Single-Stranded cDNA Probes for Microarray. Biomark Insights 2008 Aug 25;3:403-417. PMID: 19578521
  • Lee BT, Liew L, Lim J, Tan JK et al. Candidate List of yoUr Biomarker (CLUB): A Web-based Platform to Aid Cancer Biomarker Research. Biomark Insights 2008 Feb 9;3:65-71. PMID: 19578495
  • Witten DM, Tibshirani RJ et al. Extensions of sparse canonical correlation analysis with applications to genomic data. Stat Appl Genet Mol Biol 2009;8(1):Article28. PMID: 19572827
  • Narsai R, Howell KA, Carroll A, Ivanova A et al. Defining core metabolic and transcriptomic responses to oxygen availability in rice embryos and young seedlings. Plant Physiol 2009 Sep;151(1):306-22. PMID: 19571305
  • Chin MH, Mason MJ, Xie W, Volinia S et al. Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures. Cell Stem Cell 2009 Jul 2;5(1):111-23. PMID: 19570518
  • Abbas AR, Wolslegel K, Seshasayee D, Modrusan Z et al. Deconvolution of blood microarray data identifies cellular activation patterns in systemic lupus erythematosus. PLoS One 2009 Jul 1;4(7):e6098. PMID: 19568420
  • Chung HR, Vingron M et al. Comparison of sequence-dependent tiling array normalization approaches. BMC Bioinformatics 2009 Jun 30;10:204. PMID: 19566918
  • Butte AJTranslational bioinformatics applications in genome medicine. Genome Med 2009 Jun 29;1(6):64. PMID: 19566916
  • Bisognin A, Coppe A, Ferrari F, Risso D et al. A-MADMAN: annotation-based microarray data meta-analysis tool. BMC Bioinformatics 2009 Jun 29;10:201. PMID: 19563634
  • Raychaudhuri S, Plenge RM, Rossin EJ, Ng AC et al. Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions. PLoS Genet 2009 Jun;5(6):e1000534. PMID: 19557189
  • Israel A, Sharan R, Ruppin E, Galun E et al. Increased microRNA activity in human cancers. PLoS One 2009 Jun 25;4(6):e6045. PMID: 19557174
  • Alves BN, Marshall K, Tamang DL, Leong J et al. Lipid-dependent cytotoxicity by the lipase PLRP2 and by PLRP2-positive cytotoxic T lymphocytes (CTLs). Cell Biochem Funct 2009 Jul;27(5):296-308. PMID: 19548271
  • Grobei MA, Qeli E, Brunner E, Rehrauer H et al. Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function. Genome Res 2009 Oct;19(10):1786-800. PMID: 19546170
  • Melamud E, Moult J et al. Stochastic noise in splicing machinery. Nucleic Acids Res 2009 Aug;37(14):4873-86. PMID: 19546110
  • Howard BE, Sick B, Heber S et al. Unsupervised assessment of microarray data quality using a Gaussian mixture model. BMC Bioinformatics 2009 Jun 22;10:191. PMID: 19545436
  • Rao MR, Halfhill MD, Abercrombie LG, Ranjan P et al. Phytoremediation and phytosensing of chemical contaminants, RDX and TNT: identification of the required target genes. Funct Integr Genomics 2009 Nov;9(4):537-47. PMID: 19543758
  • Volodarsky D, Leviatan N, Otcheretianski A, Fluhr R et al. HORMONOMETER: a tool for discerning transcript signatures of hormone action in the Arabidopsis transcriptome. Plant Physiol 2009 Aug;150(4):1796-805. PMID: 19535475
  • Jiang SY, Christoffels A, Ramamoorthy R, Ramachandran S et al. Expansion mechanisms and functional annotations of hypothetical genes in the rice genome. Plant Physiol 2009 Aug;150(4):1997-2008. PMID: 19535473
  • Li Z, Zhang H, Ge S, Gu X et al. Expression pattern divergence of duplicated genes in rice. BMC Bioinformatics 2009 Jun 16;10 Suppl 6(Suppl 6):S8. PMID: 19534757
  • Makeyev AV, Bayarsaihan D et al. New TFII-I family target genes involved in embryonic development. Biochem Biophys Res Commun 2009 Sep 4;386(4):554-8. PMID: 19527686
  • Mayburd ALExpression variation: its relevance to emergence of chronic disease and to therapy. PLoS One 2009 Jun 15;4(6):e5921. PMID: 19526064
  • Xu D, Holko M, Sadler AJ, Scott B et al. Promyelocytic leukemia zinc finger protein regulates interferon-mediated innate immunity. Immunity 2009 Jun 19;30(6):802-16. PMID: 19523849
  • Lelandais G, Saint-Georges Y, Geneix C, Al-Shikhley L et al. Spatio-temporal dynamics of yeast mitochondrial biogenesis: transcriptional and post-transcriptional mRNA oscillatory modules. PLoS Comput Biol 2009 Jun;5(6):e1000409. PMID: 19521515
  • Fierro AC, Vandenbussche F, Engelen K, Van de Peer Y et al. Meta Analysis of Gene Expression Data within and Across Species. Curr Genomics 2008 Dec;9(8):525-34. PMID: 19516959
  • Packham IM, Gray C, Heath PR, Hellewell PG et al. Microarray profiling reveals CXCR4a is downregulated by blood flow in vivo and mediates collateral formation in zebrafish embryos. Physiol Genomics 2009 Aug 7;38(3):319-27. PMID: 19509081
  • Cheung HC, Hai T, Zhu W, Baggerly KA et al. Splicing factors PTBP1 and PTBP2 promote proliferation and migration of glioma cell lines. Brain 2009 Aug;132(Pt 8):2277-88. PMID: 19506066
  • Godmann M, Gashaw I, Eildermann K, Schweyer S et al. The pluripotency transcription factor Krüppel-like factor 4 is strongly expressed in intratubular germ cell neoplasia unclassified and seminoma. Mol Hum Reprod 2009 Aug;15(8):479-88. PMID: 19505997
  • Yin Y, Yan Y, Jiang X, Mai J et al. Inflammasomes are differentially expressed in cardiovascular and other tissues. Int J Immunopathol Pharmacol 2009 Apr-Jun;22(2):311-22. PMID: 19505385
  • Sun W, Buck MJ, Patel M, Davis IJ et al. Improved ChIP-chip analysis by a mixture model approach. BMC Bioinformatics 2009 Jun 7;10:173. PMID: 19500407
  • Pinheiro DG, Galante PA, de Souza SJ, Zago MA et al. A score system for quality evaluation of RNA sequence tags: an improvement for gene expression profiling. BMC Bioinformatics 2009 Jun 6;10:170. PMID: 19500384
  • Viswanathan SR, Powers JT, Einhorn W, Hoshida Y et al. Lin28 promotes transformation and is associated with advanced human malignancies. Nat Genet 2009 Jul;41(7):843-8. PMID: 19483683
  • Danko CG, Pertsov AM et al. Identification of gene co-regulatory modules and associated cis-elements involved in degenerative heart disease. BMC Med Genomics 2009 May 28;2:31. PMID: 19476647
  • Urbanski HF, Noriega NC, Lemos DR, Kohama SG et al. Gene expression profiling in the rhesus macaque: experimental design considerations. Methods 2009 Sep;49(1):26-31. PMID: 19467336
  • Glover CN, Zheng D, Jayashankar S, Sales GD et al. Methylmercury speciation influences brain gene expression and behavior in gestationally-exposed mice pups. Toxicol Sci 2009 Aug;110(2):389-400. PMID: 19465457
  • Wehbe FH, Brown SH, Massion PP, Gadd CS et al. A novel information retrieval model for high-throughput molecular medicine modalities. Cancer Inform 2009 Feb 9;8:1-17. PMID: 19458790
  • Swanton C, Nicke B, Schuett M, Eklund AC et al. Chromosomal instability determines taxane response. Proc Natl Acad Sci U S A 2009 May 26;106(21):8671-6. PMID: 19458043
  • Karn T, Metzler D, Ruckhäberle E, Hanker L et al. Data-driven derivation of cutoffs from a pool of 3,030 Affymetrix arrays to stratify distinct clinical types of breast cancer. Breast Cancer Res Treat 2010 Apr;120(3):567-79. PMID: 19455418
  • Simon R, Lam A, Li MC, Ngan M et al. Analysis of gene expression data using BRB-ArrayTools. Cancer Inform 2007 Feb 4;3:11-7. PMID: 19455231
  • Hill-Baskin AE, Markiewski MM, Buchner DA, Shao H et al. Diet-induced hepatocellular carcinoma in genetically predisposed mice. Hum Mol Genet 2009 Aug 15;18(16):2975-88. PMID: 19454484
  • Ko Y, Zhai C, Rodriguez-Zas S et al. Inference of gene pathways using mixture Bayesian networks. BMC Syst Biol 2009 May 19;3:54. PMID: 19454027
  • Bierie B, Chung CH, Parker JS, Stover DG et al. Abrogation of TGF-beta signaling enhances chemokine production and correlates with prognosis in human breast cancer. J Clin Invest 2009 Jun;119(6):1571-82. PMID: 19451693
  • Choi H, Nesvizhskii AI, Ghosh D, Qin ZS et al. Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data. Bioinformatics 2009 Jul 15;25(14):1715-21. PMID: 19447789
  • Wren JDA global meta-analysis of microarray expression data to predict unknown gene functions and estimate the literature-data divide. Bioinformatics 2009 Jul 1;25(13):1694-701. PMID: 19447786
  • Wan J, Lin J, Zack DJ, Qian J et al. Relating periodicity of nucleosome organization and gene regulation. Bioinformatics 2009 Jul 15;25(14):1782-8. PMID: 19447785
  • Southey BR, Rodriguez-Zas SL, Sweedler JV et al. Characterization of the prohormone complement in cattle using genomic libraries and cleavage prediction approaches. BMC Genomics 2009 May 16;10:228. PMID: 19445702
  • Du Z, Zhou X, Li L, Su Z et al. plantsUPS: a database of plants' Ubiquitin Proteasome System. BMC Genomics 2009 May 16;10:227. PMID: 19445698
  • Kim SYEffects of sample size on robustness and prediction accuracy of a prognostic gene signature. BMC Bioinformatics 2009 May 16;10:147. PMID: 19445687
  • Murph MM, Liu W, Yu S, Lu Y et al. Lysophosphatidic acid-induced transcriptional profile represents serous epithelial ovarian carcinoma and worsened prognosis. PLoS One 2009;4(5):e5583. PMID: 19440550
  • Nitsch D, Tranchevent LC, Thienpont B, Thorrez L et al. Network analysis of differential expression for the identification of disease-causing genes. PLoS One 2009;4(5):e5526. PMID: 19436755
  • Hackenberg M, Sturm M, Langenberger D, Falcón-Pérez JM et al. miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments. Nucleic Acids Res 2009 Jul;37(Web Server issue):W68-76. PMID: 19433510
  • Shen S, Zhang P, Lovchik MA, Li Y et al. Cyclodepsipeptide toxin promotes the degradation of Hsp90 client proteins through chaperone-mediated autophagy. J Cell Biol 2009 May 18;185(4):629-39. PMID: 19433452
  • Edwards YJ, Lobley AE, Pentony MM, Jones DT et al. Insights into the regulation of intrinsically disordered proteins in the human proteome by analyzing sequence and gene expression data. Genome Biol 2009;10(5):R50. PMID: 19432952
  • Lin X, Liu M, Chen XW et al. Assessing reliability of protein-protein interactions by integrative analysis of data in model organisms. BMC Bioinformatics 2009 Apr 29;10 Suppl 4(Suppl 4):S5. PMID: 19426453
  • Haverty PM, Hon LS, Kaminker JS, Chant J et al. High-resolution analysis of copy number alterations and associated expression changes in ovarian tumors. BMC Med Genomics 2009 May 6;2:21. PMID: 19419571
  • Lahusen T, Henke RT, Kagan BL, Wellstein A et al. The role and regulation of the nuclear receptor co-activator AIB1 in breast cancer. Breast Cancer Res Treat 2009 Jul;116(2):225-37. PMID: 19418218
  • Kim YC, Wu Q, Chen J, Xuan Z et al. The transcriptome of human CD34+ hematopoietic stem-progenitor cells. Proc Natl Acad Sci U S A 2009 May 19;106(20):8278-83. PMID: 19416867
  • Wang XL, Suzuki R, Lee K, Tran T et al. Ablation of ARNT/HIF1beta in liver alters gluconeogenesis, lipogenic gene expression, and serum ketones. Cell Metab 2009 May;9(5):428-39. PMID: 19416713
  • Gohlke JM, Thomas R, Zhang Y, Rosenstein MC et al. Genetic and environmental pathways to complex diseases. BMC Syst Biol 2009 May 5;3:46. PMID: 19416532
  • Beck AH, West RB, van de Rijn M et al. Gene expression profiling for the investigation of soft tissue sarcoma pathogenesis and the identification of diagnostic, prognostic, and predictive biomarkers. Virchows Arch 2010 Feb;456(2):141-51. PMID: 19412622
  • Monteiro JP, Clemons KV, Mirels LF, Coller JA et al. Genomic DNA microarray comparison of gene expression patterns in Paracoccidioides brasiliensis mycelia and yeasts in vitro. Microbiology (Reading) 2009 Aug;155(Pt 8):2795-2808. PMID: 19406900
  • Hwang T, Park T et al. Identification of differentially expressed subnetworks based on multivariate ANOVA. BMC Bioinformatics 2009 Apr 30;10:128. PMID: 19405941
  • Kauer M, Ban J, Kofler R, Walker B et al. A molecular function map of Ewing's sarcoma. PLoS One 2009;4(4):e5415. PMID: 19404404
  • Zhang W, He L, Liu W, Sun C et al. Exploring the relationship between polymorphic (TG/CA)n repeats in intron 1 regions and gene expression. Hum Genomics 2009 Apr;3(3):236-45. PMID: 19403458
  • Foat BC, Stormo GD et al. Discovering structural cis-regulatory elements by modeling the behaviors of mRNAs. Mol Syst Biol 2009;5:268. PMID: 19401680
  • Staub E, Groene J, Heinze M, Mennerich D et al. An expression module of WIPF1-coexpressed genes identifies patients with favorable prognosis in three tumor types. J Mol Med (Berl) 2009 Jun;87(6):633-44. PMID: 19399471
  • Folkersen L, Diez D, Wheelock CE, Haeggström JZ et al. GeneRegionScan: a Bioconductor package for probe-level analysis of specific, small regions of the genome. Bioinformatics 2009 Aug 1;25(15):1978-9. PMID: 19398447
  • Våtsveen TK, Tian E, Kresse SH, Meza-Zepeda LA et al. OH-2, a hyperdiploid myeloma cell line without an IGH translocation, has a complex translocation juxtaposing MYC near MAFB and the IGK locus. Leuk Res 2009 Dec;33(12):1670-7. PMID: 19395026
  • Mizuno H, Kitada K, Nakai K, Sarai A et al. PrognoScan: a new database for meta-analysis of the prognostic value of genes. BMC Med Genomics 2009 Apr 24;2:18. PMID: 19393097
  • Yu H, McDaid R, Lee J, Possik P et al. The role of BRAF mutation and p53 inactivation during transformation of a subpopulation of primary human melanocytes. Am J Pathol 2009 Jun;174(6):2367-77. PMID: 19389934
  • Kadota K, Nakai Y, Shimizu K et al. Ranking differentially expressed genes from Affymetrix gene expression data: methods with reproducibility, sensitivity, and specificity. Algorithms Mol Biol 2009 Apr 22;4:7. PMID: 19386098
  • Shimamura T, Imoto S, Yamaguchi R, Fujita A et al. Recursive regularization for inferring gene networks from time-course gene expression profiles. BMC Syst Biol 2009 Apr 22;3:41. PMID: 19386091
  • Holt JE, Ly-Huynh JD, Efthymiadis A, Hime GR et al. Regulation of Nuclear Import During Differentiation; The IMP alpha Gene Family and Spermatogenesis. Curr Genomics 2007 Aug;8(5):323-34. PMID: 19384428
  • Guess CM, Lafleur BJ, Weidow BL, Quaranta V et al. A decreased ratio of laminin-332 beta3 to gamma2 subunit mRNA is associated with poor prognosis in colon cancer. Cancer Epidemiol Biomarkers Prev 2009 May;18(5):1584-90. PMID: 19383890
  • Li H, Sun Y, Zhan M et al. Exploring pathways from gene co-expression to network dynamics. Methods Mol Biol 2009;541:249-67. PMID: 19381544
  • French L, Lane S, Law T, Xu L et al. Application and evaluation of automated semantic annotation of gene expression experiments. Bioinformatics 2009 Jun 15;25(12):1543-9. PMID: 19376825
  • Wang X, Tang H, Bowers JE, Paterson AH et al. Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization. Genome Res 2009 Jun;19(6):1026-32. PMID: 19372385
  • Cho SB, Kim J, Kim JH et al. Identifying set-wise differential co-expression in gene expression microarray data. BMC Bioinformatics 2009 Apr 16;10:109. PMID: 19371436
  • Hansen NT, Brunak S, Altman RB et al. Generating genome-scale candidate gene lists for pharmacogenomics. Clin Pharmacol Ther 2009 Aug;86(2):183-9. PMID: 19369935
  • Harsha HC, Kandasamy K, Ranganathan P, Rani S et al. A compendium of potential biomarkers of pancreatic cancer. PLoS Med 2009 Apr 7;6(4):e1000046. PMID: 19360088
  • Sinha R, Nikolajewa S, Szafranski K, Hiller M et al. Accurate prediction of NAGNAG alternative splicing. Nucleic Acids Res 2009 Jun;37(11):3569-79. PMID: 19359358
  • Shay T, Lambiv WL, Reiner-Benaim A, Hegi ME et al. Combining chromosomal arm status and significantly aberrant genomic locations reveals new cancer subtypes. Cancer Inform 2009;7:91-104. PMID: 19352461
  • Wang G, Haile S, Comuzzi B, Tien AH et al. Osteoblast-derived factors induce an expression signature that identifies prostate cancer metastasis and hormonal progression. Cancer Res 2009 Apr 15;69(8):3433-42. PMID: 19351846
  • Haldar M, Hedberg ML, Hockin MF, Capecchi MR et al. A CreER-based random induction strategy for modeling translocation-associated sarcomas in mice. Cancer Res 2009 Apr 15;69(8):3657-64. PMID: 19351831
  • Daniel VC, Marchionni L, Hierman JS, Rhodes JT et al. A primary xenograft model of small-cell lung cancer reveals irreversible changes in gene expression imposed by culture in vitro. Cancer Res 2009 Apr 15;69(8):3364-73. PMID: 19351829
  • Wendland JR, Moya PR, Timpano KR, Anavitarte AP et al. A haplotype containing quantitative trait loci for SLC1A1 gene expression and its association with obsessive-compulsive disorder. Arch Gen Psychiatry 2009 Apr;66(4):408-16. PMID: 19349310
  • Nykter M, Lähdesmäki H, Rust A, Thorsson V et al. A data integration framework for prediction of transcription factor targets. Ann N Y Acad Sci 2009 Mar;1158:205-14. PMID: 19348642
  • Taylor RC, Singhal M, Weller J, Khoshnevis S et al. A network inference workflow applied to virulence-related processes in Salmonella typhimurium. Ann N Y Acad Sci 2009 Mar;1158:143-58. PMID: 19348639
  • Kim S, Lee D et al. Mining metastasis related genes by primary-secondary tumor comparisons from large-scale databases. BMC Bioinformatics 2009 Mar 19;10 Suppl 3(Suppl 3):S2. PMID: 19344478
  • Chandramohanadas R, Davis PH, Beiting DP, Harbut MB et al. Apicomplexan parasites co-opt host calpains to facilitate their escape from infected cells. Science 2009 May 8;324(5928):794-7. PMID: 19342550
  • Geyer CB, Inselman AL, Sunman JA, Bornstein S et al. A missense mutation in the Capza3 gene and disruption of F-actin organization in spermatids of repro32 infertile male mice. Dev Biol 2009 Jun 1;330(1):142-52. PMID: 19341723
  • Williams-Devane CR, Wolf MA, Richard AM et al. Toward a public toxicogenomics capability for supporting predictive toxicology: survey of current resources and chemical indexing of experiments in GEO and ArrayExpress. Toxicol Sci 2009 Jun;109(2):358-71. PMID: 19332651
  • Tseng LH, Chen I, Chen MY, Yan H et al. Genome-based expression profiling as a single standardized microarray platform for the diagnosis of endometrial disorder: an array of 126-gene model. Fertil Steril 2010 Jun;94(1):114-9. PMID: 19328470
  • Chou IC, Voit EO et al. Recent developments in parameter estimation and structure identification of biochemical and genomic systems. Math Biosci 2009 Jun;219(2):57-83. PMID: 19327372
  • Fahlgren N, Sullivan CM, Kasschau KD, Chapman EJ et al. Computational and analytical framework for small RNA profiling by high-throughput sequencing. RNA 2009 May;15(5):992-1002. PMID: 19307293
  • Smith IM, Glazer CA, Mithani SK, Ochs MF et al. Coordinated activation of candidate proto-oncogenes and cancer testes antigens via promoter demethylation in head and neck cancer and lung cancer. PLoS One 2009;4(3):e4961. PMID: 19305507
  • Hennah W, Porteous D et al. The DISC1 pathway modulates expression of neurodevelopmental, synaptogenic and sensory perception genes. PLoS One 2009;4(3):e4906. PMID: 19300510
  • Akerman M, David-Eden H, Pinter RY, Mandel-Gutfreund Y et al. A computational approach for genome-wide mapping of splicing factor binding sites. Genome Biol 2009;10(3):R30. PMID: 19296853
  • Siddique ZL, Drozdov I, Floch J, Gustafsson BI et al. KRJ-I and BON cell lines: defining an appropriate enterochromaffin cell neuroendocrine tumor model. Neuroendocrinology 2009;89(4):458-70. PMID: 19295186
  • Lee YS, Chen CH, Tsai CN, Tsai CL et al. Microarray labeling extension values: laboratory signatures for Affymetrix GeneChips. Nucleic Acids Res 2009 May;37(8):e61. PMID: 19295132
  • Motallebipour M, Enroth S, Punga T, Ameur A et al. Novel genes in cell cycle control and lipid metabolism with dynamically regulated binding sites for sterol regulatory element-binding protein 1 and RNA polymerase II in HepG2 cells detected by chromatin immunoprecipitation with microarray detection. FEBS J 2009 Apr;276(7):1878-90. PMID: 19292868
  • Mercher T, Raffel GD, Moore SA, Cornejo MG et al. The OTT-MAL fusion oncogene activates RBPJ-mediated transcription and induces acute megakaryoblastic leukemia in a knockin mouse model. J Clin Invest 2009 Apr;119(4):852-64. PMID: 19287095
  • Sunagawa S, DeSalvo MK, Voolstra CR, Reyes-Bermudez A et al. Identification and gene expression analysis of a taxonomically restricted cysteine-rich protein family in reef-building corals. PLoS One 2009;4(3):e4865. PMID: 19283069
  • Chen M, Martin J, Fang H, Isukapalli S et al. ebTrack: an environmental bioinformatics system built upon ArrayTrack. BMC Proc 2009 Mar 10;3 Suppl 2(Suppl 2):S5. PMID: 19278561
  • Almanzar G, Olkhanud PB, Bodogai M, Dell'agnola C et al. Sperm-derived SPANX-B is a clinically relevant tumor antigen that is expressed in human tumors and readily recognized by human CD4+ and CD8+ T cells. Clin Cancer Res 2009 Mar 15;15(6):1954-63. PMID: 19276289
  • Gharib SA, Liles WC, Klaff LS, Altemeier WA et al. Noninjurious mechanical ventilation activates a proinflammatory transcriptional program in the lung. Physiol Genomics 2009 May 13;37(3):239-48. PMID: 19276240
  • Carlsson LM, Jacobson P, Walley A, Froguel P et al. ALK7 expression is specific for adipose tissue, reduced in obesity and correlates to factors implicated in metabolic disease. Biochem Biophys Res Commun 2009 May 1;382(2):309-14. PMID: 19275893
  • Rody A, Holtrich U, Pusztai L, Liedtke C et al. T-cell metagene predicts a favorable prognosis in estrogen receptor-negative and HER2-positive breast cancers. Breast Cancer Res 2009;11(2):R15. PMID: 19272155
  • Alles MC, Gardiner-Garden M, Nott DJ, Wang Y et al. Meta-analysis and gene set enrichment relative to er status reveal elevated activity of MYC and E2F in the "basal" breast cancer subgroup. PLoS One 2009;4(3):e4710. PMID: 19270750
  • Menssen A, Edinger G, Grün JR, Haase U et al. SiPaGene: A new repository for instant online retrieval, sharing and meta-analyses of GeneChip expression data. BMC Genomics 2009 Mar 5;10:98. PMID: 19265543
  • Leimgruber E, Seguín-Estévez Q, Dunand-Sauthier I, Rybtsova N et al. Nucleosome eviction from MHC class II promoters controls positioning of the transcription start site. Nucleic Acids Res 2009 May;37(8):2514-28. PMID: 19264803
  • Frigyesi A, Höglund M et al. Non-negative matrix factorization for the analysis of complex gene expression data: identification of clinically relevant tumor subtypes. Cancer Inform 2008;6:275-92. PMID: 19259414
  • Zhao Y, Simon R et al. BRB-ArrayTools Data Archive for human cancer gene expression: a unique and efficient data sharing resource. Cancer Inform 2008;6:9-15. PMID: 19259398
  • Guillén N, Navarro MA, Arnal C, Noone E et al. Microarray analysis of hepatic gene expression identifies new genes involved in steatotic liver. Physiol Genomics 2009 May 13;37(3):187-98. PMID: 19258494
  • Cho IJ, Ki SH, Brooks C 3rd, Kim SG et al. Role of hepatitis B virus X repression of C/EBPbeta activity in the down-regulation of glutathione S-transferase A2 gene: implications in other phase II detoxifying enzyme expression. Xenobiotica 2009 Feb;39(2):182-92. PMID: 19255944
  • Vanhoutte K, de Asmundis C, Francesconi A, Figysl J et al. Leaving out control groups: an internal contrast analysis of gene expression profiles in atrial fibrillation patients--a systems biology approach to clinical categorization. Bioinformation 2009;3(6):275-8. PMID: 19255648
  • Ebhardt HA, Tsang HH, Dai DC, Liu Y et al. Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications. Nucleic Acids Res 2009 May;37(8):2461-70. PMID: 19255090
  • Rybaczyk L, Rozmiarek A, Circle K, Grants I et al. New bioinformatics approach to analyze gene expressions and signaling pathways reveals unique purine gene dysregulation profiles that distinguish between CD and UC. Inflamm Bowel Dis 2009 Jul;15(7):971-84. PMID: 19253308
  • Enge M, Bao W, Hedström E, Jackson SP et al. MDM2-dependent downregulation of p21 and hnRNP K provides a switch between apoptosis and growth arrest induced by pharmacologically activated p53. Cancer Cell 2009 Mar 3;15(3):171-83. PMID: 19249676
  • Xiong DH, Liu XG, Guo YF, Tan LJ et al. Genome-wide association and follow-up replication studies identified ADAMTS18 and TGFBR3 as bone mass candidate genes in different ethnic groups. Am J Hum Genet 2009 Mar;84(3):388-98. PMID: 19249006
  • Miyagawa Y, Okita H, Itagaki M, Toyoda M et al. EWS/ETS regulates the expression of the Dickkopf family in Ewing family tumor cells. PLoS One 2009;4(2):e4634. PMID: 19247449
  • Huttenhower C, Haley EM, Hibbs MA, Dumeaux V et al. Exploring the human genome with functional maps. Genome Res 2009 Jun;19(6):1093-106. PMID: 19246570
  • Kerber RA, O'Brien E, Cawthon RM et al. Gene expression profiles associated with aging and mortality in humans. Aging Cell 2009 Jun;8(3):239-50. PMID: 19245677
  • Tang B, Chang WL, Lanigan CM, Dean B et al. Normal human aging and early-stage schizophrenia share common molecular profiles. Aging Cell 2009 Jun;8(3):339-42. PMID: 19245676
  • Li A, Walling J, Ahn S, Kotliarov Y et al. Unsupervised analysis of transcriptomic profiles reveals six glioma subtypes. Cancer Res 2009 Mar 1;69(5):2091-9. PMID: 19244127
  • James MA, Lu Y, Liu Y, Vikis HG et al. RGS17, an overexpressed gene in human lung and prostate cancer, induces tumor cell proliferation through the cyclic AMP-PKA-CREB pathway. Cancer Res 2009 Mar 1;69(5):2108-16. PMID: 19244110
  • Niida A, Smith AD, Imoto S, Aburatani H et al. Gene set-based module discovery in the breast cancer transcriptome. BMC Bioinformatics 2009 Feb 26;10:71. PMID: 19243633
  • Eiseler T, Döppler H, Yan IK, Goodison S et al. Protein kinase D1 regulates matrix metalloproteinase expression and inhibits breast cancer cell invasion. Breast Cancer Res 2009;11(1):R13. PMID: 19243594
  • Cardoso CM, Groth-Pedersen L, Høyer-Hansen M, Kirkegaard T et al. Depletion of kinesin 5B affects lysosomal distribution and stability and induces peri-nuclear accumulation of autophagosomes in cancer cells. PLoS One 2009;4(2):e4424. PMID: 19242560
  • Finkbeiner SR, Le BM, Holtz LR, Storch GA et al. Detection of newly described astrovirus MLB1 in stool samples from children. Emerg Infect Dis 2009 Mar;15(3):441-4. PMID: 19239759
  • Tsuchihara K, Suzuki Y, Wakaguri H, Irie T et al. Massive transcriptional start site analysis of human genes in hypoxia cells. Nucleic Acids Res 2009 Apr;37(7):2249-63. PMID: 19237398
  • Carlile M, Swan D, Jackson K, Preston-Fayers K et al. Strand selective generation of endo-siRNAs from the Na/phosphate transporter gene Slc34a1 in murine tissues. Nucleic Acids Res 2009 Apr;37(7):2274-82. PMID: 19237395
  • Missiaglia E, Selfe J, Hamdi M, Williamson D et al. Genomic imbalances in rhabdomyosarcoma cell lines affect expression of genes frequently altered in primary tumors: an approach to identify candidate genes involved in tumor development. Genes Chromosomes Cancer 2009 Jun;48(6):455-67. PMID: 19235922
  • Yoon H, McDermott JE, Porwollik S, McClelland M et al. Coordinated regulation of virulence during systemic infection of Salmonella enterica serovar Typhimurium. PLoS Pathog 2009 Feb;5(2):e1000306. PMID: 19229334
  • Osada T, Yang XY, Hartman ZC, Glass O et al. Optimization of vaccine responses with an E1, E2b and E3-deleted Ad5 vector circumvents pre-existing anti-vector immunity. Cancer Gene Ther 2009 Sep;16(9):673-82. PMID: 19229288
  • Erdogan E, Klee EW, Thompson EA, Fields AP et al. Meta-analysis of oncogenic protein kinase Ciota signaling in lung adenocarcinoma. Clin Cancer Res 2009 Mar 1;15(5):1527-33. PMID: 19223491
  • Liu Q, Feng Y, Zhu Z et al. Dicer-like (DCL) proteins in plants. Funct Integr Genomics 2009 Aug;9(3):277-86. PMID: 19221817
  • Birks DK, Kleinschmidt-DeMasters BK, Donson AM, Barton VN et al. Claudin 6 is a positive marker for atypical teratoid/rhabdoid tumors. Brain Pathol 2010 Jan;20(1):140-50. PMID: 19220299
  • Gilchrist CA, Petri WA Jr et al. Using differential gene expression to study Entamoeba histolytica pathogenesis. Trends Parasitol 2009 Mar;25(3):124-31. PMID: 19217826
  • Notebaart RA, Kensche PR, Huynen MA, Dutilh BE et al. Asymmetric relationships between proteins shape genome evolution. Genome Biol 2009 Feb 12;10(2):R19. PMID: 19216750
  • Winklmeier A, Poser I, Hoek KS, Bosserhoff AK et al. Loss of full length CtBP1 expression enhances the invasive potential of human melanoma. BMC Cancer 2009 Feb 12;9:52. PMID: 19216735
  • Yang S, Wang K, Gregory B, Berrettini W et al. Genomic landscape of a three-generation pedigree segregating affective disorder. PLoS One 2009;4(2):e4474. PMID: 19214233
  • Dudley JT, Butte AJ et al. Identification of discriminating biomarkers for human disease using integrative network biology. Pac Symp Biocomput 2009;:27-38. PMID: 19209693
  • Yang E, Androulakis IP et al. Assessing and selecting gene expression signals based upon the quality of the measured dynamics. BMC Bioinformatics 2009 Feb 10;10:55. PMID: 19208252
  • Hao P, Zheng S, Ping J, Tu K et al. Human gene expression sensitivity according to large scale meta-analysis. BMC Bioinformatics 2009 Jan 30;10 Suppl 1(Suppl 1):S56. PMID: 19208159
  • Parker BJ, Wen J et al. Predicting microRNA targets in time-series microarray experiments via functional data analysis. BMC Bioinformatics 2009 Jan 30;10 Suppl 1(Suppl 1):S32. PMID: 19208133
  • Kotliarov Y, Kotliarova S, Charong N, Li A et al. Correlation analysis between single-nucleotide polymorphism and expression arrays in gliomas identifies potentially relevant target genes. Cancer Res 2009 Feb 15;69(4):1596-603. PMID: 19190341
  • Boj SF, Servitja JM, Martin D, Rios M et al. Functional targets of the monogenic diabetes transcription factors HNF-1alpha and HNF-4alpha are highly conserved between mice and humans. Diabetes 2009 May;58(5):1245-53. PMID: 19188435
  • Beck AH, Espinosa I, Edris B, Li R et al. The macrophage colony-stimulating factor 1 response signature in breast carcinoma. Clin Cancer Res 2009 Feb 1;15(3):778-87. PMID: 19188147
  • Jourdan M, Reme T, Goldschmidt H, Fiol G et al. Gene expression of anti- and pro-apoptotic proteins in malignant and normal plasma cells. Br J Haematol 2009 Apr;145(1):45-58. PMID: 19183193
  • Chen X, Wang L et al. Integrating biological knowledge with gene expression profiles for survival prediction of cancer. J Comput Biol 2009 Feb;16(2):265-78. PMID: 19183004
  • Pendino F, Nguyen E, Jonassen I, Dysvik B et al. Functional involvement of RINF, retinoid-inducible nuclear factor (CXXC5), in normal and tumoral human myelopoiesis. Blood 2009 Apr 2;113(14):3172-81. PMID: 19182210
  • Sun Z, Luo J, Zhou Y, Luo J et al. Exploring phenotype-associated modules in an oral cavity tumor using an integrated framework. Bioinformatics 2009 Mar 15;25(6):795-800. PMID: 19181684
  • Agarwal N, Shusta EV et al. Multiplex expression cloning of blood-brain barrier membrane proteins. Proteomics 2009 Feb;9(4):1099-108. PMID: 19180536
  • Watanabe S, Ueda Y, Akaboshi S, Hino Y et al. HMGA2 maintains oncogenic RAS-induced epithelial-mesenchymal transition in human pancreatic cancer cells. Am J Pathol 2009 Mar;174(3):854-68. PMID: 19179606
  • Nilsson R, Björkegren J, Tegnér J et al. On reliable discovery of molecular signatures. BMC Bioinformatics 2009 Jan 29;10:38. PMID: 19178740
  • McDermott JE, Taylor RC, Yoon H, Heffron F et al. Bottlenecks and hubs in inferred networks are important for virulence in Salmonella typhimurium. J Comput Biol 2009 Feb;16(2):169-80. PMID: 19178137
  • Murphy TM, Belmonte M, Shu S, Britt AB et al. Requirement for abasic endonuclease gene homologues in Arabidopsis seed development. PLoS One 2009;4(1):e4297. PMID: 19172180
  • van Staveren WC, Solís DY, Hébrant A, Detours V et al. Human cancer cell lines: Experimental models for cancer cells in situ? For cancer stem cells? Biochim Biophys Acta 2009 Apr;1795(2):92-103. PMID: 19167460
  • Cui X, Loraine AE et al. Consistency analysis of redundant probe sets on affymetrix three-prime expression arrays and applications to differential mRNA processing. PLoS One 2009;4(1):e4229. PMID: 19165320
  • Fukuoka Y, Inaoka H, Noshiro M et al. Adaptive threshold to detect biologically meaningful changes in microarray data. Annu Int Conf IEEE Eng Med Biol Soc 2008;2008:5708-11. PMID: 19164013
  • Williams-DeVane CR, Wolf MA, Richard AM et al. DSSTox chemical-index files for exposure-related experiments in ArrayExpress and Gene Expression Omnibus: enabling toxico-chemogenomics data linkages. Bioinformatics 2009 Mar 1;25(5):692-4. PMID: 19158160
  • de Tayrac M, Lê S, Aubry M, Mosser J et al. Simultaneous analysis of distinct Omics data sets with integration of biological knowledge: Multiple Factor Analysis approach. BMC Genomics 2009 Jan 20;10:32. PMID: 19154582
  • Halperin Y, Linhart C, Ulitsky I, Shamir R et al. Allegro: analyzing expression and sequence in concert to discover regulatory programs. Nucleic Acids Res 2009 Apr;37(5):1566-79. PMID: 19151090
  • Tung CY, Jen CH, Hsu MT, Wang HW et al. A novel regulatory event-based gene set analysis method for exploring global functional changes in heterogeneous genomic data sets. BMC Genomics 2009 Jan 16;10:26. PMID: 19146704
  • Zhang X, Lian Z, Padden C, Gerstein MB et al. A myelopoiesis-associated regulatory intergenic noncoding RNA transcript within the human HOXA cluster. Blood 2009 Mar 12;113(11):2526-34. PMID: 19144990
  • Chien AJ, Moore EC, Lonsdorf AS, Kulikauskas RM et al. Activated Wnt/beta-catenin signaling in melanoma is associated with decreased proliferation in patient tumors and a murine melanoma model. Proc Natl Acad Sci U S A 2009 Jan 27;106(4):1193-8. PMID: 19144919
  • Tahara H, Yee SW, Urban TJ, Hesselson S et al. Functional genetic variation in the basal promoter of the organic cation/carnitine transporters OCTN1 (SLC22A4) and OCTN2 (SLC22A5). J Pharmacol Exp Ther 2009 Apr;329(1):262-71. PMID: 19141711
  • Rauch TA, Wu X, Zhong X, Riggs AD et al. A human B cell methylome at 100-base pair resolution. Proc Natl Acad Sci U S A 2009 Jan 20;106(3):671-8. PMID: 19139413
  • Bedford T, Hartl DL et al. Optimization of gene expression by natural selection. Proc Natl Acad Sci U S A 2009 Jan 27;106(4):1133-8. PMID: 19139403
  • Malhas AN, Lee CF, Vaux DJ et al. Lamin B1 controls oxidative stress responses via Oct-1. J Cell Biol 2009 Jan 12;184(1):45-55. PMID: 19139261
  • Hoekenga OAUsing metabolomics to estimate unintended effects in transgenic crop plants: problems, promises, and opportunities. J Biomol Tech 2008 Jul;19(3):159-66. PMID: 19137102
  • O'Neal J, Gao F, Hassan A, Monahan R et al. Neurobeachin (NBEA) is a target of recurrent interstitial deletions at 13q13 in patients with MGUS and multiple myeloma. Exp Hematol 2009 Feb;37(2):234-44. PMID: 19135901
  • Riz I, Hawley TS, Johnston H, Hawley RG et al. Role of TLX1 in T-cell acute lymphoblastic leukaemia pathogenesis. Br J Haematol 2009 Apr;145(1):140-3. PMID: 19133982
  • Hackstadt AJ, Hess AM et al. Filtering for increased power for microarray data analysis. BMC Bioinformatics 2009 Jan 8;10:11. PMID: 19133141
  • Pei Y, Zhang T, Renault V, Zhang X et al. An overview of hepatocellular carcinoma study by omics-based methods. Acta Biochim Biophys Sin (Shanghai) 2009 Jan;41(1):1-15. PMID: 19129945
  • Beltrame L, Rizzetto L, Paola R, Rocca-Serra P et al. Using pathway signatures as means of identifying similarities among microarray experiments. PLoS One 2009;4(1):e4128. PMID: 19125200
  • Balasubramanian S, Zheng D, Liu YJ, Fang G et al. Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes. Genome Biol 2009;10(1):R2. PMID: 19123937
  • Ochsner SA, Steffen DL, Hilsenbeck SG, Chen ES et al. GEMS (Gene Expression MetaSignatures), a Web resource for querying meta-analysis of expression microarray datasets: 17beta-estradiol in MCF-7 cells. Cancer Res 2009 Jan 1;69(1):23-6. PMID: 19117983
  • de Mello Varani A, Souza RC, Nakaya HI, de Lima WC et al. Origins of the Xylella fastidiosa prophage-like regions and their impact in genome differentiation. PLoS One 2008;3(12):e4059. PMID: 19116666
  • Kim WK, Hwang HR, Kim DH, Lee PY et al. Glycoproteomic analysis of plasma from patients with atopic dermatitis: CD5L and ApoE as potential biomarkers. Exp Mol Med 2008 Dec 31;40(6):677-85. PMID: 19116453
  • Gur-Dedeoglu B, Konu O, Kir S, Ozturk AR et al. A resampling-based meta-analysis for detection of differential gene expression in breast cancer. BMC Cancer 2008 Dec 30;8:396. PMID: 19116033
  • Makeyev AV, Bayarsaihan D et al. Alternative splicing and promoter use in TFII-I genes. Gene 2009 Mar 15;433(1-2):16-25. PMID: 19111598
  • Morris KE, St Laurent CD, Hoeve RS, Forsythe P et al. Autonomic nervous system regulates secretion of anti-inflammatory prohormone SMR1 from rat salivary glands. Am J Physiol Cell Physiol 2009 Mar;296(3):C514-24. PMID: 19109528
  • Kolesnikova TV, Kazarov AR, Lemieux ME, Lafleur MA et al. Glioblastoma inhibition by cell surface immunoglobulin protein EWI-2, in vitro and in vivo. Neoplasia 2009 Jan;11(1):77-86, 4p following 86. PMID: 19107234
  • Cho WK, Geimer S, Meurer J et al. Cluster analysis and comparison of various chloroplast transcriptomes and genes in Arabidopsis thaliana. DNA Res 2009 Feb;16(1):31-44. PMID: 19106172
  • Ertel A, Tozeren A et al. Human and mouse switch-like genes share common transcriptional regulatory mechanisms for bimodality. BMC Genomics 2008 Dec 23;9:628. PMID: 19105848
  • Lopez F, Textoris J, Bergon A, Didier G et al. TranscriptomeBrowser: a powerful and flexible toolbox to explore productively the transcriptional landscape of the Gene Expression Omnibus database. PLoS One 2008;3(12):e4001. PMID: 19104654
  • Bailey MJ, Coon SL, Carter DA, Humphries A et al. Night/day changes in pineal expression of >600 genes: central role of adrenergic/cAMP signaling. J Biol Chem 2009 Mar 20;284(12):7606-22. PMID: 19103603
  • Schnackenberg LK, Chen M, Sun J, Holland RD et al. Evaluations of the trans-sulfuration pathway in multiple liver toxicity studies. Toxicol Appl Pharmacol 2009 Feb 15;235(1):25-32. PMID: 19103213
  • Keller A, Backes C, Al-Awadhi M, Gerasch A et al. GeneTrailExpress: a web-based pipeline for the statistical evaluation of microarray experiments. BMC Bioinformatics 2008 Dec 22;9:552. PMID: 19099609
  • Vazin T, Chen J, Spivak CE, Amable R et al. Dopaminergic neurons derived from BG01V2, a variant of human embryonic stem cell line BG01. Restor Neurol Neurosci 2008;26(6):447-58. PMID: 19096132
  • Chen R, Mallelwar R, Thosar A, Venkatasubrahmanyam S et al. GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed. BMC Bioinformatics 2008 Dec 18;9:548. PMID: 19094235
  • Upton GJ, Langdon WB, Harrison AP et al. G-spots cause incorrect expression measurement in Affymetrix microarrays. BMC Genomics 2008 Dec 18;9:613. PMID: 19094220
  • Hsu PC, Yang UC, Shih KH, Liu CM et al. A protein interaction based model for schizophrenia study. BMC Bioinformatics 2008 Dec 12;9 Suppl 12(Suppl 12):S23. PMID: 19091023
  • Sharabi AB, Aldrich M, Sosic D, Olson EN et al. Twist-2 controls myeloid lineage development and function. PLoS Biol 2008 Dec 16;6(12):e316. PMID: 19090621
  • Guo NL, Wan YW, Tosun K, Lin H et al. Confirmation of gene expression-based prediction of survival in non-small cell lung cancer. Clin Cancer Res 2008 Dec 15;14(24):8213-20. PMID: 19088038
  • Liang YAn expression meta-analysis of predicted microRNA targets identifies a diagnostic signature for lung cancer. BMC Med Genomics 2008 Dec 16;1:61. PMID: 19087325
  • Blom EJ, van Hijum SA, Hofstede KJ, Silvis R et al. DISCLOSE : DISsection of CLusters Obtained by SEries of transcriptome data using functional annotations and putative transcription factor binding sites. BMC Bioinformatics 2008 Dec 16;9:535. PMID: 19087282
  • McPartland JMExpression of the endocannabinoid system in fibroblasts and myofascial tissues. J Bodyw Mov Ther 2008 Apr;12(2):169-82. PMID: 19083670
  • Straub T, Grimaud C, Gilfillan GD, Mitterweger A et al. The chromosomal high-affinity binding sites for the Drosophila dosage compensation complex. PLoS Genet 2008 Dec;4(12):e1000302. PMID: 19079572
  • Liu J, Deng M, Lancto CA, Abrahamsen MS et al. Biphasic modulation of apoptotic pathways in Cryptosporidium parvum-infected human intestinal epithelial cells. Infect Immun 2009 Feb;77(2):837-49. PMID: 19075026
  • Sakai Y, Honda M, Fujinaga H, Tatsumi I et al. Common transcriptional signature of tumor-infiltrating mononuclear inflammatory cells and peripheral blood mononuclear cells in hepatocellular carcinoma patients. Cancer Res 2008 Dec 15;68(24):10267-79. PMID: 19074895
  • Howell KA, Narsai R, Carroll A, Ivanova A et al. Mapping metabolic and transcript temporal switches during germination in rice highlights specific transcription factors and the role of RNA instability in the germination process. Plant Physiol 2009 Feb;149(2):961-80. PMID: 19074628
  • Praz V, Bucher P et al. CleanEx: new data extraction and merging tools based on MeSH term annotation. Nucleic Acids Res 2009 Jan;37(Database issue):D880-4. PMID: 19073704
  • Tanurdzic M, Vaughn MW, Jiang H, Lee TJ et al. Epigenomic consequences of immortalized plant cell suspension culture. PLoS Biol 2008 Dec 9;6(12):2880-95. PMID: 19071958
  • Blizard DA, Lionikas A, Vandenbergh DJ, Vasilopoulos T et al. Blood pressure and heart rate QTL in mice of the B6/D2 lineage: sex differences and environmental influences. Physiol Genomics 2009 Feb 2;36(3):158-66. PMID: 19066325
  • Street NR, Sjödin A, Bylesjö M, Gustafsson P et al. A cross-species transcriptomics approach to identify genes involved in leaf development. BMC Genomics 2008 Dec 5;9:589. PMID: 19061504
  • Chen R, Morgan AA, Dudley J, Deshpande T et al. FitSNPs: highly differentially expressed genes are more likely to have variants associated with disease. Genome Biol 2008;9(12):R170. PMID: 19061490
  • Wang-Sattler R, Yu Y, Mittelstrass K, Lattka E et al. Metabolic profiling reveals distinct variations linked to nicotine consumption in humans--first results from the KORA study. PLoS One 2008;3(12):e3863. PMID: 19057651
  • Preker P, Nielsen J, Kammler S, Lykke-Andersen S et al. RNA exosome depletion reveals transcription upstream of active human promoters. Science 2008 Dec 19;322(5909):1851-4. PMID: 19056938
  • Pi M, Chen L, Huang MZ, Zhu W et al. GPRC6A null mice exhibit osteopenia, feminization and metabolic syndrome. PLoS One 2008;3(12):e3858. PMID: 19050760
  • Garman KS, Acharya CR, Edelman E, Grade M et al. A genomic approach to colon cancer risk stratification yields biologic insights into therapeutic opportunities. Proc Natl Acad Sci U S A 2008 Dec 9;105(49):19432-7. PMID: 19050079
  • Le DT, Lee BC, Marino SM, Zhang Y et al. Functional analysis of free methionine-R-sulfoxide reductase from Saccharomyces cerevisiae. J Biol Chem 2009 Feb 13;284(7):4354-64. PMID: 19049972
  • Wang G, Wang J, Sadar MD et al. Crosstalk between the androgen receptor and beta-catenin in castrate-resistant prostate cancer. Cancer Res 2008 Dec 1;68(23):9918-27. PMID: 19047173
  • Rayner TF, Rezwan FI, Lukk M, Bradley XZ et al. MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB. Bioinformatics 2009 Jan 15;25(2):279-80. PMID: 19038988
  • Sartor MA, Leikauf GD, Medvedovic M et al. LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data. Bioinformatics 2009 Jan 15;25(2):211-7. PMID: 19038984
  • Brosh R, Shalgi R, Liran A, Landan G et al. p53-Repressed miRNAs are involved with E2F in a feed-forward loop promoting proliferation. Mol Syst Biol 2008;4:229. PMID: 19034270
  • Richards AL, Holmans P, O'Donovan MC, Owen MJ et al. A comparison of four clustering methods for brain expression microarray data. BMC Bioinformatics 2008 Nov 25;9:490. PMID: 19032745
  • Anas MK, Lee MB, Zhou C, Hammer MA et al. SIT1 is a betaine/proline transporter that is activated in mouse eggs after fertilization and functions until the 2-cell stage. Development 2008 Dec;135(24):4123-30. PMID: 19029042
  • Reid RW, Fodor AA et al. Determining gene expression on a single pair of microarrays. BMC Bioinformatics 2008 Nov 21;9:489. PMID: 19025600
  • Kechris K, Yang YH, Yeh RF et al. Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays. BMC Genomics 2008 Nov 20;9:551. PMID: 19021909
  • Parkinson H, Kapushesky M, Kolesnikov N, Rustici G et al. ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression. Nucleic Acids Res 2009 Jan;37(Database issue):D868-72. PMID: 19015125
  • Gormley M, Tozeren A et al. Expression profiles of switch-like genes accurately classify tissue and infectious disease phenotypes in model-based classification. BMC Bioinformatics 2008 Nov 17;9:486. PMID: 19014681
  • Pichler K, Schneider G, Grassmann R et al. MicroRNA miR-146a and further oncogenesis-related cellular microRNAs are dysregulated in HTLV-1-transformed T lymphocytes. Retrovirology 2008 Nov 12;5:100. PMID: 19014482
  • Huang S, Taylor NL, Narsai R, Eubel H et al. Experimental analysis of the rice mitochondrial proteome, its biogenesis, and heterogeneity. Plant Physiol 2009 Feb;149(2):719-34. PMID: 19010998
  • Lito P, Mets BD, Appledorn DM, Maher VM et al. Sprouty 2 regulates DNA damage-induced apoptosis in Ras-transformed human fibroblasts. J Biol Chem 2009 Jan 9;284(2):848-54. PMID: 19008219
  • Kienhuis AS, van de Poll MC, Wortelboer H, van Herwijnen M et al. Parallelogram approach using rat-human in vitro and rat in vivo toxicogenomics predicts acetaminophen-induced hepatotoxicity in humans. Toxicol Sci 2009 Feb;107(2):544-52. PMID: 19008212
  • Liu H, Li X, Yoon V, Clarke R et al. Annotating breast cancer microarray samples using ontologies. AMIA Annu Symp Proc 2008 Nov 6;2008:414-8. PMID: 18999108
  • Hishiki T, Tamada I, Okubo K et al. Gene-L'EXPO: a tool to extract knowledge From transcriptomes and find 'Literature-Sparse' relationships between genes and tissues. AMIA Annu Symp Proc 2008 Nov 6;2008:313-7. PMID: 18999036
  • Miranda-Saavedra D, De S, Trotter MW, Teichmann SA et al. BloodExpress: a database of gene expression in mouse haematopoiesis. Nucleic Acids Res 2009 Jan;37(Database issue):D873-9. PMID: 18987008
  • Fang Q, Strand A, Law W, Faca VM et al. Brain-specific proteins decline in the cerebrospinal fluid of humans with Huntington disease. Mol Cell Proteomics 2009 Mar;8(3):451-66. PMID: 18984577
  • van Dongen S, Abreu-Goodger C, Enright AJ et al. Detecting microRNA binding and siRNA off-target effects from expression data. Nat Methods 2008 Dec;5(12):1023-5. PMID: 18978784
  • He F, Zhang Y, Chen H, Zhang Z et al. The prediction of protein-protein interaction networks in rice blast fungus. BMC Genomics 2008 Nov 2;9:519. PMID: 18976500
  • Arteaga-Salas JM, Harrison AP, Upton GJ et al. Reducing spatial flaws in oligonucleotide arrays by using neighborhood information. Stat Appl Genet Mol Biol 2008;7(1):Article29. PMID: 18976225
  • Sahoo D, Dill DL, Gentles AJ, Tibshirani R et al. Boolean implication networks derived from large scale, whole genome microarray datasets. Genome Biol 2008 Oct 30;9(10):R157. PMID: 18973690
  • Tsujimura A, Matsuki M, Takao K, Yamanishi K et al. Mice lacking the kf-1 gene exhibit increased anxiety- but not despair-like behavior. Front Behav Neurosci 2008;2:4. PMID: 18958194
  • Konishi T, Konishi F, Takasaki S, Inoue K et al. Coincidence between transcriptome analyses on different microarray platforms using a parametric framework. PLoS One 2008;3(10):e3555. PMID: 18958174
  • Malaspina A, Jokic N, Huang WL, Priestley JV et al. Comparative analysis of the time-dependent functional and molecular changes in spinal cord degeneration induced by the G93A SOD1 gene mutation and by mechanical compression. BMC Genomics 2008 Oct 23;9:500. PMID: 18947433
  • Steen MS, Adams ME, Tesch Y, Froehner SC et al. Amelioration of muscular dystrophy by transgenic expression of Niemann-Pick C1. Mol Biol Cell 2009 Jan;20(1):146-52. PMID: 18946078
  • Taccioli C, Fabbri E, Visone R, Volinia S et al. UCbase & miRfunc: a database of ultraconserved sequences and microRNA function. Nucleic Acids Res 2009 Jan;37(Database issue):D41-8. PMID: 18945703
  • Waardenberg AJ, Reverter A, Wells CA, Dalrymple BP et al. Using a 3D virtual muscle model to link gene expression changes during myogenesis to protein spatial location in muscle. BMC Syst Biol 2008 Oct 22;2:88. PMID: 18945372
  • Maurer J, Nelson B, Ceceña G, Bajpai R et al. Contrasting expression of keratins in mouse and human embryonic stem cells. PLoS One 2008;3(10):e3451. PMID: 18941637
  • Camargo A, Azuaje F, Wang H, Zheng H et al. Permutation - based statistical tests for multiple hypotheses. Source Code Biol Med 2008 Oct 21;3:15. PMID: 18939983
  • Tenenbaum JD, Walker MG, Utz PJ, Butte AJ et al. Expression-based Pathway Signature Analysis (EPSA): mining publicly available microarray data for insight into human disease. BMC Med Genomics 2008 Oct 20;1:51. PMID: 18937865
  • Alexandrov NN, Brover VV, Freidin S, Troukhan ME et al. Insights into corn genes derived from large-scale cDNA sequencing. Plant Mol Biol 2009 Jan;69(1-2):179-94. PMID: 18937034
  • Wang S, Yang S, Yin Y, Guo X et al. An in silico strategy identified the target gene candidates regulated by dehydration responsive element binding proteins (DREBs) in Arabidopsis genome. Plant Mol Biol 2009 Jan;69(1-2):167-78. PMID: 18931920
  • Fukushima A, Wada M, Kanaya S, Arita M et al. SVD-based anatomy of gene expressions for correlation analysis in Arabidopsis thaliana. DNA Res 2008 Dec;15(6):367-74. PMID: 18931094
  • Bréhélin L, Dufayard JF, Gascuel O et al. PlasmoDraft: a database of Plasmodium falciparum gene function predictions based on postgenomic data. BMC Bioinformatics 2008 Oct 16;9:440. PMID: 18925948
  • Sun Y, Li H, Liu Y, Mattson MP et al. Evolutionarily conserved transcriptional co-expression guiding embryonic stem cell differentiation. PLoS One 2008;3(10):e3406. PMID: 18923680
  • Janoueix-Lerosey I, Lequin D, Brugières L, Ribeiro A et al. Somatic and germline activating mutations of the ALK kinase receptor in neuroblastoma. Nature 2008 Oct 16;455(7215):967-70. PMID: 18923523
  • Lange V, Picotti P, Domon B, Aebersold R et al. Selected reaction monitoring for quantitative proteomics: a tutorial. Mol Syst Biol 2008;4:222. PMID: 18854821
  • Eisenhofer G, Huynh TT, Elkahloun A, Morris JC et al. Differential expression of the regulated catecholamine secretory pathway in different hereditary forms of pheochromocytoma. Am J Physiol Endocrinol Metab 2008 Nov;295(5):E1223-33. PMID: 18854424
  • Gaetje R, Holtrich U, Engels K, Kissler S et al. Differential expression of claudins in human endometrium and endometriosis. Gynecol Endocrinol 2008 Aug;24(8):442-9. PMID: 18850381
  • Ouyang C, Smith DD, Krontiris TG et al. Evolutionary signatures of common human cis-regulatory haplotypes. PLoS One 2008;3(10):e3362. PMID: 18846218
  • Keerthikumar S, Raju R, Kandasamy K, Hijikata A et al. RAPID: Resource of Asian Primary Immunodeficiency Diseases. Nucleic Acids Res 2009 Jan;37(Database issue):D863-7. PMID: 18842635
  • Li Y, Hao P, Zheng S, Tu K et al. Gene expression module-based chemical function similarity search. Nucleic Acids Res 2008 Nov;36(20):e137. PMID: 18842630
  • Vazquez F, Blevins T, Ailhas J, Boller T et al. Evolution of Arabidopsis MIR genes generates novel microRNA classes. Nucleic Acids Res 2008 Nov;36(20):6429-38. PMID: 18842626
  • Bülow L, Engelmann S, Schindler M, Hehl R et al. AthaMap, integrating transcriptional and post-transcriptional data. Nucleic Acids Res 2009 Jan;37(Database issue):D983-6. PMID: 18842622
  • Zhu Y, Davis S, Stephens R, Meltzer PS et al. GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus. Bioinformatics 2008 Dec 1;24(23):2798-800. PMID: 18842599
  • Yellaboina S, Dudekula DB, Ko MSh et al. Prediction of evolutionarily conserved interologs in Mus musculus. BMC Genomics 2008 Oct 8;9:465. PMID: 18842131
  • Yu J, Pacifico S, Liu G, Finley RL Jr et al. DroID: the Drosophila Interactions Database, a comprehensive resource for annotated gene and protein interactions. BMC Genomics 2008 Oct 7;9:461. PMID: 18840285
  • Venanzi ES, Melamed R, Mathis D, Benoist C et al. The variable immunological self: genetic variation and nongenetic noise in Aire-regulated transcription. Proc Natl Acad Sci U S A 2008 Oct 14;105(41):15860-5. PMID: 18838677
  • Angelini C, Cutillo L, De Canditiis D, Mutarelli M et al. BATS: a Bayesian user-friendly software for analyzing time series microarray experiments. BMC Bioinformatics 2008 Oct 6;9:415. PMID: 18837969
  • Alter MD, Rubin DB, Ramsey K, Halpern R et al. Variation in the large-scale organization of gene expression levels in the hippocampus relates to stable epigenetic variability in behavior. PLoS One 2008 Oct 6;3(10):e3344. PMID: 18836535
  • Elkon R, Agami R et al. Removal of AU bias from microarray mRNA expression data enhances computational identification of active microRNAs. PLoS Comput Biol 2008 Oct 3;4(10):e1000189. PMID: 18833292
  • Kamimura D, Bevan MJ et al. Endoplasmic reticulum stress regulator XBP-1 contributes to effector CD8+ T cell differentiation during acute infection. J Immunol 2008 Oct 15;181(8):5433-41. PMID: 18832700
  • Shema E, Tirosh I, Aylon Y, Huang J et al. The histone H2B-specific ubiquitin ligase RNF20/hBRE1 acts as a putative tumor suppressor through selective regulation of gene expression. Genes Dev 2008 Oct 1;22(19):2664-76. PMID: 18832071
  • Wang G, Wang Y, Feng W, Wang X et al. Transcription factor and microRNA regulation in androgen-dependent and -independent prostate cancer cells. BMC Genomics 2008 Sep 16;9 Suppl 2(Suppl 2):S22. PMID: 18831788
  • Soong TT, Wrzeszczynski KO, Rost B et al. Physical protein-protein interactions predicted from microarrays. Bioinformatics 2008 Nov 15;24(22):2608-14. PMID: 18829707
  • Kapoor M, Arora R, Lama T, Nijhawan A et al. Genome-wide identification, organization and phylogenetic analysis of Dicer-like, Argonaute and RNA-dependent RNA Polymerase gene families and their expression analysis during reproductive development and stress in rice. BMC Genomics 2008 Oct 1;9:451. PMID: 18826656
  • Watts GS, Futscher BW, Holtan N, Degeest K et al. DNA methylation changes in ovarian cancer are cumulative with disease progression and identify tumor stage. BMC Med Genomics 2008 Sep 30;1:47. PMID: 18826610
  • Niida A, Smith AD, Imoto S, Tsutsumi S et al. Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells. BMC Bioinformatics 2008 Sep 29;9:404. PMID: 18823535
  • Chain FJ, Ilieva D, Evans BJ et al. Single-species microarrays and comparative transcriptomics. PLoS One 2008 Sep 25;3(9):e3279. PMID: 18815615
  • Pi M, Chen L, Huang M, Luo Q et al. Parathyroid-specific interaction of the calcium-sensing receptor and G alpha q. Kidney Int 2008 Dec;74(12):1548-56. PMID: 18813283
  • Schnütgen F, Hansen J, De-Zolt S, Horn C et al. Enhanced gene trapping in mouse embryonic stem cells. Nucleic Acids Res 2008 Nov;36(20):e133. PMID: 18812397
  • Tuller T, Kupiec M, Ruppin E et al. Evolutionary rate and gene expression across different brain regions. Genome Biol 2008;9(9):R142. PMID: 18811952
  • Sims AH, Smethurst GJ, Hey Y, Okoniewski MJ et al. The removal of multiplicative, systematic bias allows integration of breast cancer gene expression datasets - improving meta-analysis and prediction of prognosis. BMC Med Genomics 2008 Sep 21;1:42. PMID: 18803878
  • Fulp CT, Cho G, Marsh ED, Nasrallah IM et al. Identification of Arx transcriptional targets in the developing basal forebrain. Hum Mol Genet 2008 Dec 1;17(23):3740-60. PMID: 18799476
  • Zhang Y, Liu T, Meyer CA, Eeckhoute J et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol 2008;9(9):R137. PMID: 18798982
  • Michael TP, Breton G, Hazen SP, Priest H et al. A morning-specific phytohormone gene expression program underlying rhythmic plant growth. PLoS Biol 2008 Sep 16;6(9):e225. PMID: 18798691
  • Rouchka EC, Phatak AW, Singh AV et al. Effect of single nucleotide polymorphisms on Affymetrix match-mismatch probe pairs. Bioinformation 2008 Jul 14;2(9):405-11. PMID: 18795114
  • Suzuki A, Yamada R, Kochi Y, Sawada T et al. Functional SNPs in CD244 increase the risk of rheumatoid arthritis in a Japanese population. Nat Genet 2008 Oct;40(10):1224-9. PMID: 18794858
  • Ptitsyn AA, Weil MM, Thamm DH et al. Systems biology approach to identification of biomarkers for metastatic progression in cancer. BMC Bioinformatics 2008 Aug 12;9 Suppl 9(Suppl 9):S8. PMID: 18793472
  • Liu J, Li X, Dong GL, Zhang HW et al. In silico analysis and verification of S100 gene expression in gastric cancer. BMC Cancer 2008 Sep 16;8:261. PMID: 18793447
  • Cox ME, Gleave ME, Zakikhani M, Bell RH et al. Insulin receptor expression by human prostate cancers. Prostate 2009 Jan 1;69(1):33-40. PMID: 18785179
  • Taylor BS, Barretina J, Socci ND, Decarolis P et al. Functional copy-number alterations in cancer. PLoS One 2008 Sep 11;3(9):e3179. PMID: 18784837
  • Gilbert JA, Thomas S, Cooley NA, Kulakova A et al. Potential for phosphonoacetate utilization by marine bacteria in temperate coastal waters. Environ Microbiol 2009 Jan;11(1):111-25. PMID: 18783384
  • Akavia UD, Benayahu D et al. Meta-analysis and profiling of cardiac expression modules. Physiol Genomics 2008 Nov 12;35(3):305-15. PMID: 18780758
  • Cosgrove EJ, Zhou Y, Gardner TS, Kolaczyk ED et al. Predicting gene targets of perturbations via network-based filtering of mRNA expression compendia. Bioinformatics 2008 Nov 1;24(21):2482-90. PMID: 18779235
  • Shows KH, Shiang R et al. Regulation of the mouse Treacher Collins syndrome homolog (Tcof1) promoter through differential repression of constitutive expression. DNA Cell Biol 2008 Nov;27(11):589-600. PMID: 18771418
  • Rotter A, Hren M, Baebler S, Blejec A et al. Finding differentially expressed genes in two-channel DNA microarray datasets: how to increase reliability of data preprocessing. OMICS 2008 Sep;12(3):171-82. PMID: 18771401
  • Benoit M, Desnues B, Mege JL et al. Macrophage polarization in bacterial infections. J Immunol 2008 Sep 15;181(6):3733-9. PMID: 18768823
  • Konishi TData distribution of short oligonucleotide expression arrays and its application to the construction of a generalized intellectual framework. Stat Appl Genet Mol Biol 2008;7(1):Article25. PMID: 18764774
  • Casas S, Novials A, Reimann F, Gomis R et al. Calcium elevation in mouse pancreatic beta cells evoked by extracellular human islet amyloid polypeptide involves activation of the mechanosensitive ion channel TRPV4. Diabetologia 2008 Dec;51(12):2252-62. PMID: 18751967
  • Goertzel B, Pennachin C, de Alvarenga Mudado M, de Souza Coelho L et al. Identifying the genes and genetic interrelationships underlying the impact of calorie restriction on maximum lifespan: an artificial intelligence-based approach. Rejuvenation Res 2008 Aug;11(4):735-48. PMID: 18729806
  • Eisenberg I, Novershtern N, Itzhaki Z, Becker-Cohen M et al. Mitochondrial processes are impaired in hereditary inclusion body myopathy. Hum Mol Genet 2008 Dec 1;17(23):3663-74. PMID: 18723858
  • Tanner SW, Agarwal P et al. Gene Vector Analysis (Geneva): a unified method to detect differentially-regulated gene sets and similar microarray experiments. BMC Bioinformatics 2008 Aug 22;9:348. PMID: 18721468
  • Bonte D, Lindvall C, Liu H, Dykema K et al. Cdc7-Dbf4 kinase overexpression in multiple cancers and tumor cell lines is correlated with p53 inactivation. Neoplasia 2008 Sep;10(9):920-31. PMID: 18714392
  • Martin KJ, Patrick DR, Bissell MJ, Fournier MV et al. Prognostic breast cancer signature identified from 3D culture model accurately predicts clinical outcome across independent datasets. PLoS One 2008 Aug 20;3(8):e2994. PMID: 18714348
  • Zheng G, Tu K, Yang Q, Xiong Y et al. ITFP: an integrated platform of mammalian transcription factors. Bioinformatics 2008 Oct 15;24(20):2416-7. PMID: 18713790
  • Laragione T, Brenner M, Li W, Gulko PS et al. Cia5d regulates a new fibroblast-like synoviocyte invasion-associated gene expression signature. Arthritis Res Ther 2008;10(4):R92. PMID: 18706093
  • Magnusson B, Gummesson A, Glad CA, Goedecke JH et al. Cell death-inducing DFF45-like effector C is reduced by caloric restriction and regulates adipocyte lipid metabolism. Metabolism 2008 Sep;57(9):1307-13. PMID: 18702959
  • Ronchetti D, Lionetti M, Mosca L, Agnelli L et al. An integrative genomic approach reveals coordinated expression of intronic miR-335, miR-342, and miR-561 with deregulated host genes in multiple myeloma. BMC Med Genomics 2008 Aug 13;1:37. PMID: 18700954
  • Abu-Asab MS, Chaouchi M, Amri H et al. Phylogenetic modeling of heterogeneous gene-expression microarray data from cancerous specimens. OMICS 2008 Sep;12(3):183-99. PMID: 18699725
  • Lin YA, Chiang A, Lin R, Yao P et al. Methodologies for extracting functional pharmacogenomic experiments from international repository. AMIA Annu Symp Proc 2007 Oct 11;2007:463-7. PMID: 18693879
  • Rehrauer H, Schönmann S, Eberl L, Schlapbach R et al. PhyloDetect: a likelihood-based strategy for detecting microorganisms with diagnostic microarrays. Bioinformatics 2008 Aug 15;24(16):i83-9. PMID: 18689845
  • Ghosh D, Srivastava GP, Xu D, Schulz LC et al. A link between SIN1 (MAPKAP1) and poly(rC) binding protein 2 (PCBP2) in counteracting environmental stress. Proc Natl Acad Sci U S A 2008 Aug 19;105(33):11673-8. PMID: 18687895
  • van Vliet MH, Reyal F, Horlings HM, van de Vijver MJ et al. Pooling breast cancer datasets has a synergetic effect on classification performance and improves signature stability. BMC Genomics 2008 Aug 6;9:375. PMID: 18684329
  • Efroni S, Carmel L, Schaefer CG, Buetow KH et al. Superposition of transcriptional behaviors determines gene state. PLoS One 2008 Aug 6;3(8):e2901. PMID: 18682855
  • Adamo A, Pinney JW, Kunova A, Westhead DR et al. Heat stress enhances the accumulation of polyadenylated mitochondrial transcripts in Arabidopsis thaliana. PLoS One 2008 Aug 6;3(8):e2889. PMID: 18682831
  • Vinci G, Xia X, Veitia RA et al. Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses. PLoS One 2008 Aug 6;3(8):e2883. PMID: 18682733
  • Innocenti F, Mirkov S, Nagasubramanian R, Ramírez J et al. The Werner's syndrome 4330T>C (Cys1367Arg) gene variant does not affect the in vitro cytotoxicity of topoisomerase inhibitors and platinum compounds. Cancer Chemother Pharmacol 2009 Apr;63(5):881-7. PMID: 18677484
  • Williams PD, Lee JK, Theodorescu D et al. Molecular credentialing of rodent bladder carcinogenesis models. Neoplasia 2008 Aug;10(8):838-46. PMID: 18670642
  • Simcox A, Mitra S, Truesdell S, Paul L et al. Efficient genetic method for establishing Drosophila cell lines unlocks the potential to create lines of specific genotypes. PLoS Genet 2008 Aug 1;4(8):e1000142. PMID: 18670627
  • Scherzer CR, Grass JA, Liao Z, Pepivani I et al. GATA transcription factors directly regulate the Parkinson's disease-linked gene alpha-synuclein. Proc Natl Acad Sci U S A 2008 Aug 5;105(31):10907-12. PMID: 18669654
  • Ueda S, Kawamata M, Teratani T, Shimizu T et al. Establishment of rat embryonic stem cells and making of chimera rats. PLoS One 2008 Jul 30;3(7):e2800. PMID: 18665239
  • Wirapati P, Sotiriou C, Kunkel S, Farmer P et al. Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures. Breast Cancer Res 2008;10(4):R65. PMID: 18662380
  • Holt KE, Parkhill J, Mazzoni CJ, Roumagnac P et al. High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi. Nat Genet 2008 Aug;40(8):987-93. PMID: 18660809
  • Rouf R, Greytak S, Wooten EC, Wu J et al. Increased FOG-2 in failing myocardium disrupts thyroid hormone-dependent SERCA2 gene transcription. Circ Res 2008 Aug 29;103(5):493-501. PMID: 18658259
  • Grosso AR, Gomes AQ, Barbosa-Morais NL, Caldeira S et al. Tissue-specific splicing factor gene expression signatures. Nucleic Acids Res 2008 Sep;36(15):4823-32. PMID: 18653532
  • Li JT, Zhang Y, Kong L, Liu QR et al. Trans-natural antisense transcripts including noncoding RNAs in 10 species: implications for expression regulation. Nucleic Acids Res 2008 Sep;36(15):4833-44. PMID: 18653530
  • Huang X, Lu G, Zhao Q, Liu X et al. Genome-wide analysis of transposon insertion polymorphisms reveals intraspecific variation in cultivated rice. Plant Physiol 2008 Sep;148(1):25-40. PMID: 18650402
  • Svensson PA, Gabrielsson BG, Jernås M, Gummesson A et al. Regulation of human aldoketoreductase 1C3 (AKR1C3) gene expression in the adipose tissue. Cell Mol Biol Lett 2008;13(4):599-613. PMID: 18641923
  • Haibe-Kains B, Desmedt C, Sotiriou C, Bontempi G et al. A comparative study of survival models for breast cancer prognostication based on microarray data: does a single gene beat them all? Bioinformatics 2008 Oct 1;24(19):2200-8. PMID: 18635567
  • Yau C, Benz CC et al. Genes responsive to both oxidant stress and loss of estrogen receptor function identify a poor prognosis group of estrogen receptor positive primary breast cancers. Breast Cancer Res 2008;10(4):R61. PMID: 18631401
  • Kim WK, Krumpelman C, Marcotte EM et al. Inferring mouse gene functions from genomic-scale data using a combined functional network/classification strategy. Genome Biol 2008;9 Suppl 1(Suppl 1):S5. PMID: 18613949
  • Wegiel B, Bjartell A, Tuomela J, Dizeyi N et al. Multiple cellular mechanisms related to cyclin A1 in prostate cancer invasion and metastasis. J Natl Cancer Inst 2008 Jul 16;100(14):1022-36. PMID: 18612129
  • Martínez O, Reyes-Valdés MH et al. Defining diversity, specialization, and gene specificity in transcriptomes through information theory. Proc Natl Acad Sci U S A 2008 Jul 15;105(28):9709-14. PMID: 18606989
  • Hu J, Hu H, Li X et al. MOPAT: a graph-based method to predict recurrent cis-regulatory modules from known motifs. Nucleic Acids Res 2008 Aug;36(13):4488-97. PMID: 18606616
  • Chen X, Liang S, Zheng W, Liao Z et al. Meta-analysis of nasopharyngeal carcinoma microarray data explores mechanism of EBV-regulated neoplastic transformation. BMC Genomics 2008 Jul 7;9:322. PMID: 18605998
  • Agrawal S, Dimitrova N, Nathan P, Udayakumar K et al. T2D-Db: an integrated platform to study the molecular basis of Type 2 diabetes. BMC Genomics 2008 Jul 7;9:320. PMID: 18605991
  • Chen HI, Hsu FH, Jiang Y, Tsai MH et al. A probe-density-based analysis method for array CGH data: simulation, normalization and centralization. Bioinformatics 2008 Aug 15;24(16):1749-56. PMID: 18603568
  • Vogelzang A, McGuire HM, Yu D, Sprent J et al. A fundamental role for interleukin-21 in the generation of T follicular helper cells. Immunity 2008 Jul 18;29(1):127-37. PMID: 18602282
  • Casellas J, Varona L et al. Between-groups within-gene heterogeneity of residual variances in microarray gene expression data. BMC Genomics 2008 Jul 4;9:319. PMID: 18601719
  • Traka M, Gasper AV, Melchini A, Bacon JR et al. Broccoli consumption interacts with GSTM1 to perturb oncogenic signalling pathways in the prostate. PLoS One 2008 Jul 2;3(7):e2568. PMID: 18596959
  • Lippman ME, Rae JM, Chinnaiyan AM et al. An expression signature of estrogen-regulated genes predicts disease-free survival in tamoxifen-treated patients better than progesterone receptor status. Trans Am Clin Climatol Assoc 2008;119:77-90; discussion 90-2. PMID: 18596862
  • Parsons MJ, Grimm CH, Paya-Cano JL, Sugden K et al. Using hippocampal microRNA expression differences between mouse inbred strains to characterise miRNA function. Mamm Genome 2008 Aug;19(7-8):552-60. PMID: 18594913
  • Macartney-Coxson DP, Hood KA, Shi HJ, Ward T et al. Metastatic susceptibility locus, an 8p hot-spot for tumour progression disrupted in colorectal liver metastases: 13 candidate genes examined at the DNA, mRNA and protein level. BMC Cancer 2008 Jul 1;8:187. PMID: 18590575
  • Ho JW, Stefani M, dos Remedios CG, Charleston MA et al. Differential variability analysis of gene expression and its application to human diseases. Bioinformatics 2008 Jul 1;24(13):i390-8. PMID: 18586739
  • Tempelman RJStatistical analysis of efficient unbalanced factorial designs for two-color microarray experiments. Int J Plant Genomics 2008;2008:584360. PMID: 18584033
  • Lin WY, Hu YJ, Lee YH et al. Hepatocyte nuclear factor-1alpha regulates glucocorticoid receptor expression to control postnatal body growth. Am J Physiol Gastrointest Liver Physiol 2008 Sep;295(3):G542-51. PMID: 18583462
  • Rakyan VK, Down TA, Thorne NP, Flicek P et al. An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs). Genome Res 2008 Sep;18(9):1518-29. PMID: 18577705
  • Wheelan SJ, Martínez Murillo F, Boeke JD et al. The incredible shrinking world of DNA microarrays. Mol Biosyst 2008 Jul;4(7):726-32. PMID: 18563246
  • Park KW, Waki H, Villanueva CJ, Monticelli LA et al. Inhibitor of DNA binding 2 is a small molecule-inducible modulator of peroxisome proliferator-activated receptor-gamma expression and adipocyte differentiation. Mol Endocrinol 2008 Sep;22(9):2038-48. PMID: 18562627
  • Miozzi L, Piro RM, Rosa F, Ala U et al. Functional annotation and identification of candidate disease genes by computational analysis of normal tissue gene expression data. PLoS One 2008 Jun 18;3(6):e2439. PMID: 18560577
  • Huang L, Heinloth AN, Zeng ZB, Paules RS et al. Genes related to apoptosis predict necrosis of the liver as a phenotype observed in rats exposed to a compendium of hepatotoxicants. BMC Genomics 2008 Jun 16;9:288. PMID: 18558008
  • Rasmussen TB, Danielsen M, Valina O, Garrigues C et al. Streptococcus thermophilus core genome: comparative genome hybridization study of 47 strains. Appl Environ Microbiol 2008 Aug;74(15):4703-10. PMID: 18539806
  • Tomlins SA, Rhodes DR, Yu J, Varambally S et al. The role of SPINK1 in ETS rearrangement-negative prostate cancers. Cancer Cell 2008 Jun;13(6):519-28. PMID: 18538735
  • Hulst M, Kerstens H, de Wit A, Smits M et al. Early transcriptional response in the jejunum of germ-free piglets after oral infection with virulent rotavirus. Arch Virol 2008;153(7):1311-22. PMID: 18523839
  • Palmer RD, Barbosa-Morais NL, Gooding EL, Muralidhar B et al. Pediatric malignant germ cell tumors show characteristic transcriptome profiles. Cancer Res 2008 Jun 1;68(11):4239-47. PMID: 18519683
  • Zhang SD, Gant TW et al. A simple and robust method for connecting small-molecule drugs using gene-expression signatures. BMC Bioinformatics 2008 Jun 2;9:258. PMID: 18518950
  • Liu L, Liao GQ, He P, Zhu H et al. Detection of circulating cancer cells in lung cancer patients with a panel of marker genes. Biochem Biophys Res Commun 2008 Aug 8;372(4):756-60. PMID: 18514066
  • Sridhar S, Schembri F, Zeskind J, Shah V et al. Smoking-induced gene expression changes in the bronchial airway are reflected in nasal and buccal epithelium. BMC Genomics 2008 May 30;9:259. PMID: 18513428
  • Iakoubova O, Shepherd J, Sacks F et al. Association of the 719Arg variant of KIF6 with both increased risk of coronary events and with greater response to statin therapy. J Am Coll Cardiol 2008 Jun 3;51(22):2195; author reply 2195-6. PMID: 18510970
  • Foell JL, Max D, Giersberg C, Korholz D et al. Sensitivity of Hodgkin's lymphoma cell lines to the cell cycle inhibitor roscovitine. Anticancer Res 2008 Mar-Apr;28(2A):887-94. PMID: 18507033
  • Arya R, Lakhotia SC et al. Hsp60D is essential for caspase-mediated induced apoptosis in Drosophila melanogaster. Cell Stress Chaperones 2008 Dec;13(4):509-26. PMID: 18506601
  • Sun W, Yuan S, Li KC et al. Trait-trait dynamic interaction: 2D-trait eQTL mapping for genetic variation study. BMC Genomics 2008 May 23;9:242. PMID: 18498664
  • Mikhaylova LM, Nguyen K, Nurminsky DI et al. Analysis of the Drosophila melanogaster testes transcriptome reveals coordinate regulation of paralogous genes. Genetics 2008 May;179(1):305-15. PMID: 18493055
  • Ducray F, Idbaih A, de Reyniès A, Bièche I et al. Anaplastic oligodendrogliomas with 1p19q codeletion have a proneural gene expression profile. Mol Cancer 2008 May 20;7:41. PMID: 18492260
  • Vias M, Massie CE, East P, Scott H et al. Pro-neural transcription factors as cancer markers. BMC Med Genomics 2008 May 19;1:17. PMID: 18489756
  • Gotea V, Ovcharenko I et al. DiRE: identifying distant regulatory elements of co-expressed genes. Nucleic Acids Res 2008 Jul 1;36(Web Server issue):W133-9. PMID: 18487623
  • Cheung KH, Yip KY, Townsend JP, Scotch M et al. HCLS 2.0/3.0: health care and life sciences data mashup using Web 2.0/3.0. J Biomed Inform 2008 Oct;41(5):694-705. PMID: 18487092
  • Arora A, Simpson DA et al. Individual mRNA expression profiles reveal the effects of specific microRNAs. Genome Biol 2008;9(5):R82. PMID: 18485210
  • Becker SA, Palsson BO et al. Context-specific metabolic networks are consistent with experiments. PLoS Comput Biol 2008 May 16;4(5):e1000082. PMID: 18483554
  • Okada K, Asai K et al. Expansion of signaling genes for adaptive immune system evolution in early vertebrates. BMC Genomics 2008 May 14;9:218. PMID: 18479507
  • Engelsen IB, Mannelqvist M, Stefansson IM, Carter SL et al. Low BMI-1 expression is associated with an activated BMI-1-driven signature, vascular invasion, and hormone receptor loss in endometrial carcinoma. Br J Cancer 2008 May 20;98(10):1662-9. PMID: 18475299
  • Risques RA, Rondeau G, Judex M, McClelland M et al. Assessment of gene expression in many samples using vertical arrays. Nucleic Acids Res 2008 Jun;36(10):e60. PMID: 18474526
  • Chen GK, Jorgenson E, Witte JS et al. An empirical evaluation of the common disease-common variant hypothesis. BMC Proc 2007;1 Suppl 1(Suppl 1):S5. PMID: 18466549
  • Legewie S, Herzel H, Westerhoff HV, Blüthgen N et al. Recurrent design patterns in the feedback regulation of the mammalian signalling network. Mol Syst Biol 2008;4:190. PMID: 18463614
  • Ivliev AE, 't Hoen PA, Villerius MP, den Dunnen JT et al. Microarray retriever: a web-based tool for searching and large scale retrieval of public microarray data. Nucleic Acids Res 2008 Jul 1;36(Web Server issue):W327-31. PMID: 18463138
  • Reimand J, Tooming L, Peterson H, Adler P et al. GraphWeb: mining heterogeneous biological networks for gene modules with functional significance. Nucleic Acids Res 2008 Jul 1;36(Web Server issue):W452-9. PMID: 18460544
  • Kalathur RK, Gagniere N, Berthommier G, Poidevin L et al. RETINOBASE: a web database, data mining and analysis platform for gene expression data on retina. BMC Genomics 2008 May 5;9:208. PMID: 18457592
  • Zhang Y, Maksakova IA, Gagnier L, van de Lagemaat LN et al. Genome-wide assessments reveal extremely high levels of polymorphism of two active families of mouse endogenous retroviral elements. PLoS Genet 2008 Feb 29;4(2):e1000007. PMID: 18454193
  • Mosley JD, Keri RA et al. Cell cycle correlated genes dictate the prognostic power of breast cancer gene lists. BMC Med Genomics 2008 Apr 25;1:11. PMID: 18439262
  • Li H, Zhu D, Cook M et al. A statistical framework for consolidating "sibling" probe sets for Affymetrix GeneChip data. BMC Genomics 2008 Apr 24;9:188. PMID: 18435860
  • Foell JL, Hesse M, Volkmer I, Schmiedel BJ et al. Membrane-associated phospholipase A1 beta (LIPI) Is an Ewing tumour-associated cancer/testis antigen. Pediatr Blood Cancer 2008 Aug;51(2):228-34. PMID: 18435455
  • Dohmann EM, Levesque MP, De Veylder L, Reichardt I et al. The Arabidopsis COP9 signalosome is essential for G2 phase progression and genomic stability. Development 2008 Jun;135(11):2013-22. PMID: 18434413
  • Oti M, van Reeuwijk J, Huynen MA, Brunner HG et al. Conserved co-expression for candidate disease gene prioritization. BMC Bioinformatics 2008 Apr 23;9:208. PMID: 18433471
  • Cheng C, Li LM et al. Inferring microRNA activities by combining gene expression with microRNA target prediction. PLoS One 2008 Apr 23;3(4):e1989. PMID: 18431476
  • Kuner R, Barth AS, Ruschhaupt M, Buness A et al. Genomic analysis reveals poor separation of human cardiomyopathies of ischemic and nonischemic etiologies. Physiol Genomics 2008 Jun 12;34(1):88-94. PMID: 18430805
  • Crawford NP, Alsarraj J, Lukes L, Walker RC et al. Bromodomain 4 activation predicts breast cancer survival. Proc Natl Acad Sci U S A 2008 Apr 29;105(17):6380-5. PMID: 18427120
  • Tang H, Ross A, Capel B et al. Expression and functional analysis of Gm114, a putative mammalian ortholog of Drosophila bam. Dev Biol 2008 Jun 1;318(1):73-81. PMID: 18423593
  • Rondaij MG, Bierings R, van Agtmaal EL, Gijzen KA et al. Guanine exchange factor RalGDS mediates exocytosis of Weibel-Palade bodies from endothelial cells. Blood 2008 Jul 1;112(1):56-63. PMID: 18417737
  • Kim SY, Kim YS et al. A gene sets approach for identifying prognostic gene signatures for outcome prediction. BMC Genomics 2008 Apr 16;9:177. PMID: 18416850
  • Zhu J, He F, Song S, Wang J et al. How many human genes can be defined as housekeeping with current expression data? BMC Genomics 2008 Apr 16;9:172. PMID: 18416810
  • Molenaar JJ, Ebus ME, Koster J, van Sluis P et al. Cyclin D1 and CDK4 activity contribute to the undifferentiated phenotype in neuroblastoma. Cancer Res 2008 Apr 15;68(8):2599-609. PMID: 18413728
  • Zhao XM, Wang RS, Chen L, Aihara K et al. Uncovering signal transduction networks from high-throughput data by integer linear programming. Nucleic Acids Res 2008 May;36(9):e48. PMID: 18411207
  • Xu B, Geerts D, Qian K, Zhang H et al. Myeloid ecotropic viral integration site 1 (MEIS) 1 involvement in embryonic implantation. Hum Reprod 2008 Jun;23(6):1394-406. PMID: 18408019
  • Bhattacharya A, De RK et al. Divisive Correlation Clustering Algorithm (DCCA) for grouping of genes: detecting varying patterns in expression profiles. Bioinformatics 2008 Jun 1;24(11):1359-66. PMID: 18407922
  • Hwang S, Son SW, Kim SC, Kim YJ et al. A protein interaction network associated with asthma. J Theor Biol 2008 Jun 21;252(4):722-31. PMID: 18395227
  • Roomets E, Kivelä T, Tyni T et al. Carnitine palmitoyltransferase I and Acyl-CoA dehydrogenase 9 in retina: insights of retinopathy in mitochondrial trifunctional protein defects. Invest Ophthalmol Vis Sci 2008 Apr;49(4):1660-4. PMID: 18385088
  • Greco D, Somervuo P, Di Lieto A, Raitila T et al. Physiology, pathology and relatedness of human tissues from gene expression meta-analysis. PLoS One 2008 Apr 2;3(4):e1880. PMID: 18382664
  • Xu H, Tang Y, Liu DZ, Ran R et al. Gene expression in peripheral blood differs after cardioembolic compared with large-vessel atherosclerotic stroke: biomarkers for the etiology of ischemic stroke. J Cereb Blood Flow Metab 2008 Jul;28(7):1320-8. PMID: 18382470
  • Hann CL, Daniel VC, Sugar EA, Dobromilskaya I et al. Therapeutic efficacy of ABT-737, a selective inhibitor of BCL-2, in small cell lung cancer. Cancer Res 2008 Apr 1;68(7):2321-8. PMID: 18381439
  • Nukiwa T, Suzuki T, Fukuhara T, Kikuchi T et al. Secretory leukocyte peptidase inhibitor and lung cancer. Cancer Sci 2008 May;99(5):849-55. PMID: 18380788
  • Bieniawska Z, Espinoza C, Schlereth A, Sulpice R et al. Disruption of the Arabidopsis circadian clock is responsible for extensive variation in the cold-responsive transcriptome. Plant Physiol 2008 May;147(1):263-79. PMID: 18375597
  • Butt AJ, Sergio CM, Inman CK, Anderson LR et al. The estrogen and c-Myc target gene HSPC111 is over-expressed in breast cancer and associated with poor patient outcome. Breast Cancer Res 2008;10(2):R28. PMID: 18373870
  • Noordermeer D, Branco MR, Splinter E, Klous P et al. Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin locus control region. PLoS Genet 2008 Mar 7;4(3):e1000016. PMID: 18369441
  • Rybaczyk LA, Bashaw MJ, Pathak DR, Huang K et al. An indicator of cancer: downregulation of monoamine oxidase-A in multiple organs and species. BMC Genomics 2008 Mar 20;9:134. PMID: 18366702
  • Astrand M, Mostad P, Rudemo M et al. Empirical Bayes models for multiple probe type microarrays at the probe level. BMC Bioinformatics 2008 Mar 20;9:156. PMID: 18366694
  • Thorrez L, Van Deun K, Tranchevent LC, Van Lommel L et al. Using ribosomal protein genes as reference: a tale of caution. PLoS One 2008 Mar 26;3(3):e1854. PMID: 18365009
  • Ivanov SV, Ivanova AV, Salnikow K, Timofeeva O et al. Two novel VHL targets, TGFBI (BIGH3) and its transactivator KLF10, are up-regulated in renal clear cell carcinoma and other tumors. Biochem Biophys Res Commun 2008 Jun 13;370(4):536-40. PMID: 18359287
  • Sharopova NPlant simple sequence repeats: distribution, variation, and effects on gene expression. Genome 2008 Feb;51(2):79-90. PMID: 18356942
  • Horan K, Jang C, Bailey-Serres J, Mittler R et al. Annotating genes of known and unknown function by large-scale coexpression analysis. Plant Physiol 2008 May;147(1):41-57. PMID: 18354039
  • Creighton CJMultiple oncogenic pathway signatures show coordinate expression patterns in human prostate tumors. PLoS One 2008 Mar 19;3(3):e1816. PMID: 18350153
  • Liu BAssociation of the dusp6 (mkp3) gene with mouse brain weight and forebrain structure. J Child Neurol 2008 Jun;23(6):624-7. PMID: 18344456
  • Rody A, Karn T, Ruckhäberle E, Müller V et al. Gene expression of topoisomerase II alpha (TOP2A) by microarray analysis is highly prognostic in estrogen receptor (ER) positive breast cancer. Breast Cancer Res Treat 2009 Feb;113(3):457-66. PMID: 18340528
  • Neptune ER, Podowski M, Calvi C, Cho JH et al. Targeted disruption of NeuroD, a proneural basic helix-loop-helix factor, impairs distal lung formation and neuroendocrine morphology in the neonatal lung. J Biol Chem 2008 Jul 25;283(30):21160-9. PMID: 18339630
  • Grundberg E, Brändström H, Lam KC, Gurd S et al. Systematic assessment of the human osteoblast transcriptome in resting and induced primary cells. Physiol Genomics 2008 May 13;33(3):301-11. PMID: 18334548
  • Mahoney DJ, Safdar A, Parise G, Melov S et al. Gene expression profiling in human skeletal muscle during recovery from eccentric exercise. Am J Physiol Regul Integr Comp Physiol 2008 Jun;294(6):R1901-10. PMID: 18321953
  • Hong SE, Park I, Cha H, Rho SH et al. Identification of mouse heart transcriptomic network sensitive to various heart diseases. Biotechnol J 2008 May;3(5):648-58. PMID: 18320566
  • Jupiter DC, VanBuren V et al. A visual data mining tool that facilitates reconstruction of transcription regulatory networks. PLoS One 2008 Mar 5;3(3):e1717. PMID: 18320038
  • Gallegos Ruiz MI, Floor K, Roepman P, Rodriguez JA et al. Integration of gene dosage and gene expression in non-small cell lung cancer, identification of HSP90 as potential target. PLoS One 2008 Mar 5;3(3):e0001722. PMID: 18320023
  • Wong HL, Koh WP, Probst-Hensch NM, Van den Berg D et al. Insulin-like growth factor-1 promoter polymorphisms and colorectal cancer: a functional genomics approach. Gut 2008 Aug;57(8):1090-6. PMID: 18308828
  • Hassane DC, Guzman ML, Corbett C, Li X et al. Discovery of agents that eradicate leukemia stem cells using an in silico screen of public gene expression data. Blood 2008 Jun 15;111(12):5654-62. PMID: 18305216
  • Fehrmann RS, de Jonge HJ, Ter Elst A, de Vries A et al. A new perspective on transcriptional system regulation (TSR): towards TSR profiling. PLoS One 2008 Feb 20;3(2):e1656. PMID: 18297136
  • Calogero RA, Quaglino E, Saviozzi S, Forni G et al. Oncoantigens as anti-tumor vaccination targets: the chance of a lucky strike? Cancer Immunol Immunother 2008 Nov;57(11):1685-94. PMID: 18286283
  • Tomlins SA, Laxman B, Varambally S, Cao X et al. Role of the TMPRSS2-ERG gene fusion in prostate cancer. Neoplasia 2008 Feb;10(2):177-88. PMID: 18283340
  • Cho H, Park C, Hwang IY, Han SB et al. Rgs5 targeting leads to chronic low blood pressure and a lean body habitus. Mol Cell Biol 2008 Apr;28(8):2590-7. PMID: 18268011
  • Pang H, Zhao H et al. Building pathway clusters from Random Forests classification using class votes. BMC Bioinformatics 2008 Feb 6;9:87. PMID: 18254968
  • Ye H, Yu T, Temam S, Ziober BL et al. Transcriptomic dissection of tongue squamous cell carcinoma. BMC Genomics 2008 Feb 6;9:69. PMID: 18254958
  • Malo N, Libiger O, Schork NJ et al. Accommodating linkage disequilibrium in genetic-association analyses via ridge regression. Am J Hum Genet 2008 Feb;82(2):375-85. PMID: 18252218
  • Toonen EJ, Barrera P, Radstake TR, van Riel PL et al. Gene expression profiling in rheumatoid arthritis: current concepts and future directions. Ann Rheum Dis 2008 Dec;67(12):1663-9. PMID: 18250114
  • Chesi M, Robbiani DF, Sebag M, Chng WJ et al. AID-dependent activation of a MYC transgene induces multiple myeloma in a conditional mouse model of post-germinal center malignancies. Cancer Cell 2008 Feb;13(2):167-80. PMID: 18242516
  • Rodriguez-Zas SL, Ko Y, Adams HA, Southey BR et al. Advancing the understanding of the embryo transcriptome co-regulation using meta-, functional, and gene network analysis tools. Reproduction 2008 Feb;135(2):213-24. PMID: 18239050
  • Rodriguez-Zas SL, Schellander K, Lewin HA et al. Biological interpretations of transcriptomic profiles in mammalian oocytes and embryos. Reproduction 2008 Feb;135(2):129-39. PMID: 18239044
  • Aerssens J, Camilleri M, Talloen W, Thielemans L et al. Alterations in mucosal immunity identified in the colon of patients with irritable bowel syndrome. Clin Gastroenterol Hepatol 2008 Feb;6(2):194-205. PMID: 18237869
  • Lee CK, Sunkin SM, Kuan C, Thompson CL et al. Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data. Genome Biol 2008 Jan 30;9(1):R23. PMID: 18234097
  • Dudley J, Butte AJ et al. Enabling integrative genomic analysis of high-impact human diseases through text mining. Pac Symp Biocomput 2008;:580-91. PMID: 18229717
  • Kuan PF, Chun H, Keleş S et al. CMARRT: a tool for the analysis of ChIP-chip data from tiling arrays by incorporating the correlation structure. Pac Symp Biocomput 2008;:515-26. PMID: 18229712
  • Chen DP, Weber SC, Constantinou PS, Ferris TA et al. Novel integration of hospital electronic medical records and gene expression measurements to identify genetic markers of maturation. Pac Symp Biocomput 2008;:243-54. PMID: 18229690
  • Jen CH, Yang TP, Tung CY, Su SH et al. Signature Evaluation Tool (SET): a Java-based tool to evaluate and visualize the sample discrimination abilities of gene expression signatures. BMC Bioinformatics 2008 Jan 28;9:58. PMID: 18221568
  • Giangreco A, Qin M, Pintar JE, Watt FM et al. Epidermal stem cells are retained in vivo throughout skin aging. Aging Cell 2008 Mar;7(2):250-9. PMID: 18221414
  • Davids W, Zhang Z et al. The impact of horizontal gene transfer in shaping operons and protein interaction networks--direct evidence of preferential attachment. BMC Evol Biol 2008 Jan 24;8:23. PMID: 18218112
  • Zhu Y, Zhu Y, Xu W et al. EzArray: a web-based highly automated Affymetrix expression array data management and analysis system. BMC Bioinformatics 2008 Jan 24;9:46. PMID: 18218103
  • Wang Z, Hao Y, Lowe AW et al. The adenocarcinoma-associated antigen, AGR2, promotes tumor growth, cell migration, and cellular transformation. Cancer Res 2008 Jan 15;68(2):492-7. PMID: 18199544
  • Yang PH, Cheung WK, Peng Y, He ML et al. Makorin-2 is a neurogenesis inhibitor downstream of phosphatidylinositol 3-kinase/Akt (PI3K/Akt) signal. J Biol Chem 2008 Mar 28;283(13):8486-95. PMID: 18198183
  • Moran LB, Graeber MB et al. Towards a pathway definition of Parkinson's disease: a complex disorder with links to cancer, diabetes and inflammation. Neurogenetics 2008 Feb;9(1):1-13. PMID: 18196299
  • Bar-Joseph Z, Siegfried Z, Brandeis M, Brors B et al. Genome-wide transcriptional analysis of the human cell cycle identifies genes differentially regulated in normal and cancer cells. Proc Natl Acad Sci U S A 2008 Jan 22;105(3):955-60. PMID: 18195366
  • Yagi T, Giallourakis C, Mohanty S, Scheidig C et al. Defective signal transduction in B lymphocytes lacking presenilin proteins. Proc Natl Acad Sci U S A 2008 Jan 22;105(3):979-84. PMID: 18195359
  • Solé X, Hernández P, de Heredia ML, Armengol L et al. Genetic and genomic analysis modeling of germline c-MYC overexpression and cancer susceptibility. BMC Genomics 2008 Jan 11;9:12. PMID: 18190704
  • Tchagang AB, Tewfik AH, DeRycke MS, Skubitz KM et al. Early detection of ovarian cancer using group biomarkers. Mol Cancer Ther 2008 Jan;7(1):27-37. PMID: 18187805
  • Sharma M, Batra J, Mabalirajan U, Sharma S et al. A genetic variation in inositol polyphosphate 4 phosphatase a enhances susceptibility to asthma. Am J Respir Crit Care Med 2008 Apr 1;177(7):712-9. PMID: 18187694
  • Ertel A, Tozeren A et al. Switch-like genes populate cell communication pathways and are enriched for extracellular proteins. BMC Genomics 2008 Jan 4;9:3. PMID: 18177501
  • Lin SL, Chang D, Chiang A, Ying SY et al. Androgen receptor regulates CD168 expression and signaling in prostate cancer. Carcinogenesis 2008 Feb;29(2):282-90. PMID: 18174258
  • Helgeson BE, Tomlins SA, Shah N, Laxman B et al. Characterization of TMPRSS2:ETV5 and SLC45A3:ETV5 gene fusions in prostate cancer. Cancer Res 2008 Jan 1;68(1):73-80. PMID: 18172298
  • Tuller T, Kupiec M, Ruppin E et al. Determinants of protein abundance and translation efficiency in S. cerevisiae. PLoS Comput Biol 2007 Dec;3(12):e248. PMID: 18159940
  • Demetris AJ, Specht S, Nozaki I, Lunz JG 3rd et al. Small proline-rich proteins (SPRR) function as SH3 domain ligands, increase resistance to injury and are associated with epithelial-mesenchymal transition (EMT) in cholangiocytes. J Hepatol 2008 Feb;48(2):276-88. PMID: 18155796
  • Swindell WRComparative analysis of microarray data identifies common responses to caloric restriction among mouse tissues. Mech Ageing Dev 2008 Mar;129(3):138-53. PMID: 18155270
  • Camargo A, Azuaje F et al. Linking gene expression and functional network data in human heart failure. PLoS One 2007 Dec 19;2(12):e1347. PMID: 18094754
  • Jiang L, Yao M, Shi J, Shen P et al. Yin yang 1 directly regulates the transcription of RE-1 silencing transcription factor. J Neurosci Res 2008 May 1;86(6):1209-16. PMID: 18092359
  • Febbo PG, Mulligan MG, Slonina DA, Stegmaier K et al. Literature Lab: a method of automated literature interrogation to infer biology from microarray analysis. BMC Genomics 2007 Dec 18;8:461. PMID: 18088408
  • Nix RN, Altschuler SE, Henson PM, Detweiler CS et al. Hemophagocytic macrophages harbor Salmonella enterica during persistent infection. PLoS Pathog 2007 Dec;3(12):e193. PMID: 18085823
  • Gerbe F, Cox B, Rossant J, Chazaud C et al. Dynamic expression of Lrp2 pathway members reveals progressive epithelial differentiation of primitive endoderm in mouse blastocyst. Dev Biol 2008 Jan 15;313(2):594-602. PMID: 18083160
  • Lopez de Armentia M, Jancic D, Olivares R, Alarcon JM et al. cAMP response element-binding protein-mediated gene expression increases the intrinsic excitability of CA1 pyramidal neurons. J Neurosci 2007 Dec 12;27(50):13909-18. PMID: 18077703
  • O'Neil J, Tchinda J, Gutierrez A, Moreau L et al. Alu elements mediate MYB gene tandem duplication in human T-ALL. J Exp Med 2007 Dec 24;204(13):3059-66. PMID: 18070937
  • Chng WJ, Glebov O, Bergsagel PL, Kuehl WM et al. Genetic events in the pathogenesis of multiple myeloma. Best Pract Res Clin Haematol 2007 Dec;20(4):571-96. PMID: 18070707
  • Nijhawan A, Jain M, Tyagi AK, Khurana JP et al. Genomic survey and gene expression analysis of the basic leucine zipper transcription factor family in rice. Plant Physiol 2008 Feb;146(2):333-50. PMID: 18065552
  • Xue H, Xian B, Dong D, Xia K et al. A modular network model of aging. Mol Syst Biol 2007;3:147. PMID: 18059442
  • Ruckhäberle E, Rody A, Engels K, Gaetje R et al. Microarray analysis of altered sphingolipid metabolism reveals prognostic significance of sphingosine kinase 1 in breast cancer. Breast Cancer Res Treat 2008 Nov;112(1):41-52. PMID: 18058224
  • Arteaga-Salas JM, Zuzan H, Langdon WB, Upton GJ et al. An overview of image-processing methods for Affymetrix GeneChips. Brief Bioinform 2008 Jan;9(1):25-33. PMID: 18057073
  • Ruzanov P, Jones SJ, Riddle DL et al. Discovery of novel alternatively spliced C. elegans transcripts by computational analysis of SAGE data. BMC Genomics 2007 Nov 30;8:447. PMID: 18053145
  • Masotti D, Nardini C, Rossi S, Bonora E et al. TOM: enhancement and extension of a tool suite for in silico approaches to multigenic hereditary disorders. Bioinformatics 2008 Feb 1;24(3):428-9. PMID: 18048394
  • Moen ST, Yeager LA, Lawrence WS, Ponce C et al. Transcriptional profiling of murine organ genes in response to infection with Bacillus anthracis Ames spores. Microb Pathog 2008 Apr;44(4):293-310. PMID: 18037264
  • Seo DC, Sung JM, Cho HJ, Yi H et al. Gene expression profiling of cancer stem cell in human lung adenocarcinoma A549 cells. Mol Cancer 2007 Nov 22;6:75. PMID: 18034892
  • Hoshida Y, Brunet JP, Tamayo P, Golub TR et al. Subclass mapping: identifying common subtypes in independent disease data sets. PLoS One 2007 Nov 21;2(11):e1195. PMID: 18030330
  • Hsu SD, Chu CH, Tsou AP, Chen SJ et al. miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes. Nucleic Acids Res 2008 Jan;36(Database issue):D165-9. PMID: 18029362
  • Pavelka N, Fournier ML, Swanson SK, Pelizzola M et al. Statistical similarities between transcriptomics and quantitative shotgun proteomics data. Mol Cell Proteomics 2008 Apr;7(4):631-44. PMID: 18029349
  • Kim TM, Chung YJ, Rhyu MG, Jung MH et al. Inferring biological functions and associated transcriptional regulators using gene set expression coherence analysis. BMC Bioinformatics 2007 Nov 17;8:453. PMID: 18021416
  • Lalancette C, Thibault C, Bachand I, Caron N et al. Transcriptome analysis of bull semen with extreme nonreturn rate: use of suppression-subtractive hybridization to identify functional markers for fertility. Biol Reprod 2008 Apr;78(4):618-35. PMID: 18003951
  • Boursiac Y, Harper JF et al. The origin and function of calmodulin regulated Ca2+ pumps in plants. J Bioenerg Biomembr 2007 Dec;39(5-6):409-14. PMID: 18000746
  • Sturgill D, Zhang Y, Parisi M, Oliver B et al. Demasculinization of X chromosomes in the Drosophila genus. Nature 2007 Nov 8;450(7167):238-41. PMID: 17994090
  • Hacker S, Sohlenkamp C, Aktas M, Geiger O et al. Multiple phospholipid N-methyltransferases with distinct substrate specificities are encoded in Bradyrhizobium japonicum. J Bacteriol 2008 Jan;190(2):571-80. PMID: 17993534
  • Lu Y, Yi Y, Liu P, Wen W et al. Common human cancer genes discovered by integrated gene-expression analysis. PLoS One 2007 Nov 7;2(11):e1149. PMID: 17989776
  • Klebanov L, Chen L, Yakovlev A et al. Revisiting adverse effects of cross-hybridization in Affymetrix gene expression data: do they matter for correlation analysis? Biol Direct 2007 Nov 7;2:28. PMID: 17988401
  • Caspi A, Williams B, Kim-Cohen J, Craig IW et al. Moderation of breastfeeding effects on the IQ by genetic variation in fatty acid metabolism. Proc Natl Acad Sci U S A 2007 Nov 20;104(47):18860-5. PMID: 17984066
  • Kim SY, Kim JH, Lee HS, Noh SM et al. Meta- and gene set analysis of stomach cancer gene expression data. Mol Cells 2007 Oct 31;24(2):200-9. PMID: 17978572
  • Myllärniemi M, Lindholm P, Ryynänen MJ, Kliment CR et al. Gremlin-mediated decrease in bone morphogenetic protein signaling promotes pulmonary fibrosis. Am J Respir Crit Care Med 2008 Feb 1;177(3):321-9. PMID: 17975199
  • Geerts D, Wallick CJ, Koomoa DL, Koster J et al. Expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in neuroblastoma: correlation with clinical features, cellular localization, and cerulenin-mediated apoptosis regulation. Clin Cancer Res 2007 Nov 1;13(21):6312-9. PMID: 17975142
  • Ferguson BJ, Alexander C, Rossi SW, Liiv I et al. AIRE's CARD revealed, a new structure for central tolerance provokes transcriptional plasticity. J Biol Chem 2008 Jan 18;283(3):1723-1731. PMID: 17974569
  • Chen R, Li L, Butte AJ et al. AILUN: reannotating gene expression data automatically. Nat Methods 2007 Nov;4(11):879. PMID: 17971777
  • Jongjaroenprasert W, Chanprasertyotin S, Butadej S, Nakasatien S et al. Association of genetic variants in GABRA3 gene and thyrotoxic hypokalaemic periodic paralysis in Thai population. Clin Endocrinol (Oxf) 2008 Apr;68(4):646-51. PMID: 17970773
  • Davis FP, Barkan DT, Eswar N, McKerrow JH et al. Host pathogen protein interactions predicted by comparative modeling. Protein Sci 2007 Dec;16(12):2585-96. PMID: 17965183
  • Gormley M, Dampier W, Ertel A, Karacali B et al. Prediction potential of candidate biomarker sets identified and validated on gene expression data from multiple datasets. BMC Bioinformatics 2007 Oct 26;8:415. PMID: 17963508
  • Meir T, Dror R, Yu X, Qian J et al. Molecular characteristics of liver metastases from uveal melanoma. Invest Ophthalmol Vis Sci 2007 Nov;48(11):4890-6. PMID: 17962435
  • Waters M, Stasiewicz S, Merrick BA, Tomer K et al. CEBS--Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data with microarray and proteomics data. Nucleic Acids Res 2008 Jan;36(Database issue):D892-900. PMID: 17962311
  • Strand AD, Baquet ZC, Aragaki AK, Holmans P et al. Expression profiling of Huntington's disease models suggests that brain-derived neurotrophic factor depletion plays a major role in striatal degeneration. J Neurosci 2007 Oct 24;27(43):11758-68. PMID: 17959817
  • Gosink MM, Petrie HT, Tsinoremas NF et al. Electronically subtracting expression patterns from a mixed cell population. Bioinformatics 2007 Dec 15;23(24):3328-34. PMID: 17956877
  • Jokic N, Ling YY, Ward RE, Michael-Titus AT et al. Retinoid receptors in chronic degeneration of the spinal cord: observations in a rat model of amyotrophic lateral sclerosis. J Neurochem 2007 Dec;103(5):1821-33. PMID: 17956549
  • Danko CG, McIlvain VA, Qin M, Knox BE et al. Bioinformatic identification of novel putative photoreceptor specific cis-elements. BMC Bioinformatics 2007 Oct 22;8:407. PMID: 17953763
  • Beach S, Tang H, Park S, Dhillon AS et al. Snail is a repressor of RKIP transcription in metastatic prostate cancer cells. Oncogene 2008 Apr 3;27(15):2243-8. PMID: 17952120
  • Crijns AP, de Graeff P, Geerts D, Ten Hoor KA et al. MEIS and PBX homeobox proteins in ovarian cancer. Eur J Cancer 2007 Nov;43(17):2495-505. PMID: 17949970
  • Foat BC, Tepper RG, Bussemaker HJ et al. TransfactomeDB: a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors. Nucleic Acids Res 2008 Jan;36(Database issue):D125-31. PMID: 17947326
  • Nam S, Kim B, Shin S, Lee S et al. miRGator: an integrated system for functional annotation of microRNAs. Nucleic Acids Res 2008 Jan;36(Database issue):D159-64. PMID: 17942429
  • Chen J, Xu H, Aronow BJ, Jegga AG et al. Improved human disease candidate gene prioritization using mouse phenotype. BMC Bioinformatics 2007 Oct 16;8:392. PMID: 17939863
  • Sjögren A, Kristiansson E, Rudemo M, Nerman O et al. Weighted analysis of general microarray experiments. BMC Bioinformatics 2007 Oct 15;8:387. PMID: 17937807
  • Obayashi T, Hayashi S, Shibaoka M, Saeki M et al. COXPRESdb: a database of coexpressed gene networks in mammals. Nucleic Acids Res 2008 Jan;36(Database issue):D77-82. PMID: 17932064
  • Costa IG, Roepcke S, Schliep A et al. Gene expression trees in lymphoid development. BMC Immunol 2007 Oct 9;8:25. PMID: 17925013
  • Zhang J, Ji Y, Zhang L et al. Extracting three-way gene interactions from microarray data. Bioinformatics 2007 Nov 1;23(21):2903-9. PMID: 17921496
  • Novershtern N, Itzhaki Z, Manor O, Friedman N et al. A functional and regulatory map of asthma. Am J Respir Cell Mol Biol 2008 Mar;38(3):324-36. PMID: 17921359
  • Wan X, Pavlidis P et al. Sharing and reusing gene expression profiling data in neuroscience. Neuroinformatics 2007 Fall;5(3):161-75. PMID: 17917127
  • Swindell WRGene expression profiling of long-lived dwarf mice: longevity-associated genes and relationships with diet, gender and aging. BMC Genomics 2007 Oct 3;8:353. PMID: 17915019
  • Stirewalt DL, Meshinchi S, Kopecky KJ, Fan W et al. Identification of genes with abnormal expression changes in acute myeloid leukemia. Genes Chromosomes Cancer 2008 Jan;47(1):8-20. PMID: 17910043
  • Zilliox MJ, Irizarry RA et al. A gene expression bar code for microarray data. Nat Methods 2007 Nov;4(11):911-3. PMID: 17906632
  • Fujibuchi W, Kiseleva L, Taniguchi T, Harada H et al. CellMontage: similar expression profile search server. Bioinformatics 2007 Nov 15;23(22):3103-4. PMID: 17895274
  • Beane J, Sebastiani P, Liu G, Brody JS et al. Reversible and permanent effects of tobacco smoke exposure on airway epithelial gene expression. Genome Biol 2007;8(9):R201. PMID: 17894889
  • Yu JX, Sieuwerts AM, Zhang Y, Martens JW et al. Pathway analysis of gene signatures predicting metastasis of node-negative primary breast cancer. BMC Cancer 2007 Sep 25;7:182. PMID: 17894856
  • Gamberoni G, Lamma E, Lodo G, Marchesini J et al. Fun&Co: identification of key functional differences in transcriptomes. Bioinformatics 2007 Oct 15;23(20):2725-32. PMID: 17893090
  • Bianchetti L, Wu Y, Guerin E, Plewniak F et al. SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages. Nucleic Acids Res 2007;35(18):e122. PMID: 17884916
  • Zhang Z, Chen D, Fenstermacher DA et al. Integrated analysis of independent gene expression microarray datasets improves the predictability of breast cancer outcome. BMC Genomics 2007 Sep 20;8:331. PMID: 17883867
  • Jørgensen TN, Roper E, Thurman JM, Marrack P et al. Type I interferon signaling is involved in the spontaneous development of lupus-like disease in B6.Nba2 and (B6.Nba2 x NZW)F(1) mice. Genes Immun 2007 Dec;8(8):653-62. PMID: 17882225
  • Abdueva D, Wing MR, Schaub B, Triche TJ et al. Experimental comparison and evaluation of the Affymetrix exon and U133Plus2 GeneChip arrays. PLoS One 2007 Sep 19;2(9):e913. PMID: 17878948
  • de Jonge HJ, Fehrmann RS, de Bont ES, Hofstra RM et al. Evidence based selection of housekeeping genes. PLoS One 2007 Sep 19;2(9):e898. PMID: 17878933
  • Gary-Gouy H, Sainz-Perez A, Marteau JB, Marfaing-Koka A et al. Natural phosphorylation of CD5 in chronic lymphocytic leukemia B cells and analysis of CD5-regulated genes in a B cell line suggest a role for CD5 in malignant phenotype. J Immunol 2007 Oct 1;179(7):4335-44. PMID: 17878328
  • Hipp J, Andersson KE, Kwon TG, Kwak EK et al. Microarray analysis of exstrophic human bladder smooth muscle. BJU Int 2008 Jan;101(1):100-5. PMID: 17868416
  • Wang K, Abbott D et al. A principal components regression approach to multilocus genetic association studies. Genet Epidemiol 2008 Feb;32(2):108-18. PMID: 17849491
  • Li H, Sun Y, Zhan M et al. Analysis of gene coexpression by B-spline based CoD estimation. EURASIP J Bioinform Syst Biol 2007;2007(1):49478. PMID: 17846662
  • Ucar D, Neuhaus I, Ross-MacDonald P, Tilford C et al. Construction of a reference gene association network from multiple profiling data: application to data analysis. Bioinformatics 2007 Oct 15;23(20):2716-24. PMID: 17846039
  • Price MN, Dehal PS, Arkin AP et al. Orthologous transcription factors in bacteria have different functions and regulate different genes. PLoS Comput Biol 2007 Sep;3(9):1739-50. PMID: 17845071
  • Möller-Levet CS, West CM, Miller CJ et al. Exploiting sample variability to enhance multivariate analysis of microarray data. Bioinformatics 2007 Oct 15;23(20):2733-40. PMID: 17827205
  • Xie RL, Liu L, Mitra P, Stein JL et al. Transcriptional activation of the histone nuclear factor P (HiNF-P) gene by HiNF-P and its cyclin E/CDK2 responsive co-factor p220NPAT defines a novel autoregulatory loop at the G1/S phase transition. Gene 2007 Nov 1;402(1-2):94-102. PMID: 17826007
  • Gorlov IP, Meyer P, Liloglou T, Myles J et al. Seizure 6-like (SEZ6L) gene and risk for lung cancer. Cancer Res 2007 Sep 1;67(17):8406-11. PMID: 17804757
  • Jarboe JS, Johnson KR, Choi Y, Lonser RR et al. Expression of interleukin-13 receptor alpha2 in glioblastoma multiforme: implications for targeted therapies. Cancer Res 2007 Sep 1;67(17):7983-6. PMID: 17804706
  • Alberstein M, Amit M, Vaknin K, O'Donnell A et al. Regulation of transcription of the RNA splicing factor hSlu7 by Elk-1 and Sp1 affects alternative splicing. RNA 2007 Nov;13(11):1988-99. PMID: 17804646
  • Bhave SV, Hornbaker C, Phang TL, Saba L et al. The PhenoGen informatics website: tools for analyses of complex traits. BMC Genet 2007 Aug 30;8:59. PMID: 17760997
  • Ottolenghi C, Pelosi E, Tran J, Colombino M et al. Loss of Wnt4 and Foxl2 leads to female-to-male sex reversal extending to germ cells. Hum Mol Genet 2007 Dec 1;16(23):2795-804. PMID: 17728319
  • Hibbs MA, Hess DC, Myers CL, Huttenhower C et al. Exploring the functional landscape of gene expression: directed search of large microarray compendia. Bioinformatics 2007 Oct 15;23(20):2692-9. PMID: 17724061
  • Clement TM, Anway MD, Uzumcu M, Skinner MK et al. Regulation of the gonadal transcriptome during sex determination and testis morphogenesis: comparative candidate genes. Reproduction 2007 Sep;134(3):455-72. PMID: 17709564
  • Ferg M, Sanges R, Gehrig J, Kiss J et al. The TATA-binding protein regulates maternal mRNA degradation and differential zygotic transcription in zebrafish. EMBO J 2007 Sep 5;26(17):3945-56. PMID: 17703193
  • Keller A, Backes C, Lenhof HP et al. Computation of significance scores of unweighted Gene Set Enrichment Analyses. BMC Bioinformatics 2007 Aug 6;8:290. PMID: 17683603
  • Tian F, Zhang H, Zhang X, Song C et al. miRAS: a data processing system for miRNA expression profiling study. BMC Bioinformatics 2007 Aug 4;8:285. PMID: 17683571
  • Jing E, Gesta S, Kahn CR et al. SIRT2 regulates adipocyte differentiation through FoxO1 acetylation/deacetylation. Cell Metab 2007 Aug;6(2):105-14. PMID: 17681146
  • Tomlins SA, Laxman B, Dhanasekaran SM, Helgeson BE et al. Distinct classes of chromosomal rearrangements create oncogenic ETS gene fusions in prostate cancer. Nature 2007 Aug 2;448(7153):595-9. PMID: 17671502
  • Kim B, Lee HJ, Choi HY, Shin Y et al. Clinical validity of the lung cancer biomarkers identified by bioinformatics analysis of public expression data. Cancer Res 2007 Aug 1;67(15):7431-8. PMID: 17671213
  • Chen GK, Witte JS et al. Enriching the analysis of genomewide association studies with hierarchical modeling. Am J Hum Genet 2007 Aug;81(2):397-404. PMID: 17668389
  • Axelsen JB, Lotem J, Sachs L, Domany E et al. Genes overexpressed in different human solid cancers exhibit different tissue-specific expression profiles. Proc Natl Acad Sci U S A 2007 Aug 7;104(32):13122-7. PMID: 17664417
  • Xiang Z, Tian Y, He Y et al. PHIDIAS: a pathogen-host interaction data integration and analysis system. Genome Biol 2007;8(7):R150. PMID: 17663773
  • Chen M, Kendziorski C et al. A statistical framework for expression quantitative trait loci mapping. Genetics 2007 Oct;177(2):761-71. PMID: 17660576
  • Fujibuchi W, Kato T et al. Classification of heterogeneous microarray data by maximum entropy kernel. BMC Bioinformatics 2007 Jul 26;8:267. PMID: 17651507
  • Yang J, Chen L, Wang L, Zhang W et al. TrED: the Trichophyton rubrum Expression Database. BMC Genomics 2007 Jul 25;8:250. PMID: 17650345
  • Song L, Bedo J, Borgwardt KM, Gretton A et al. Gene selection via the BAHSIC family of algorithms. Bioinformatics 2007 Jul 1;23(13):i490-8. PMID: 17646335
  • Shiga M, Takigawa I, Mamitsuka H et al. Annotating gene function by combining expression data with a modular gene network. Bioinformatics 2007 Jul 1;23(13):i468-78. PMID: 17646332
  • Lim WK, Wang K, Lefebvre C, Califano A et al. Comparative analysis of microarray normalization procedures: effects on reverse engineering gene networks. Bioinformatics 2007 Jul 1;23(13):i282-8. PMID: 17646307
  • Huang Y, Li H, Hu H, Yan X et al. Systematic discovery of functional modules and context-specific functional annotation of human genome. Bioinformatics 2007 Jul 1;23(13):i222-9. PMID: 17646300
  • Green ML, Karp PD et al. Using genome-context data to identify specific types of functional associations in pathway/genome databases. Bioinformatics 2007 Jul 1;23(13):i205-11. PMID: 17646298
  • Dyer MD, Murali TM, Sobral BW et al. Computational prediction of host-pathogen protein-protein interactions. Bioinformatics 2007 Jul 1;23(13):i159-66. PMID: 17646292
  • Arora R, Agarwal P, Ray S, Singh AK et al. MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress. BMC Genomics 2007 Jul 18;8:242. PMID: 17640358
  • Pemberton TJ, Li FY, Oka S, Mendoza-Fandino GA et al. Identification of novel genes expressed during mouse tooth development by microarray gene expression analysis. Dev Dyn 2007 Aug;236(8):2245-57. PMID: 17626284
  • Wu M, Min C, Wang X, Yu Z et al. Repression of BCL2 by the tumor suppressor activity of the lysyl oxidase propeptide inhibits transformed phenotype of lung and pancreatic cancer cells. Cancer Res 2007 Jul 1;67(13):6278-85. PMID: 17616686
  • Paulson KE, Rieger-Christ K, McDevitt MA, Kuperwasser C et al. Alterations of the HBP1 transcriptional repressor are associated with invasive breast cancer. Cancer Res 2007 Jul 1;67(13):6136-45. PMID: 17616670
  • Scott MS, Barton GJ et al. Probabilistic prediction and ranking of human protein-protein interactions. BMC Bioinformatics 2007 Jul 5;8:239. PMID: 17615067
  • Yi Y, Li C, Miller C, George AL Jr et al. Strategy for encoding and comparison of gene expression signatures. Genome Biol 2007;8(7):R133. PMID: 17612401
  • McElwee JJ, Schuster E, Blanc E, Piper MD et al. Evolutionary conservation of regulated longevity assurance mechanisms. Genome Biol 2007;8(7):R132. PMID: 17612391
  • Jenner MW, Leone PE, Walker BA, Ross FM et al. Gene mapping and expression analysis of 16q loss of heterozygosity identifies WWOX and CYLD as being important in determining clinical outcome in multiple myeloma. Blood 2007 Nov 1;110(9):3291-300. PMID: 17609426
  • Greenhall JA, Zapala MA, Cáceres M, Libiger O et al. Detecting genetic variation in microarray expression data. Genome Res 2007 Aug;17(8):1228-35. PMID: 17609390
  • Ito S, Chen C, Satoh J, Yim S et al. Dietary phytochemicals regulate whole-body CYP1A1 expression through an arylhydrocarbon receptor nuclear translocator-dependent system in gut. J Clin Invest 2007 Jul;117(7):1940-50. PMID: 17607366
  • Smith SC, Oxford G, Baras AS, Owens C et al. Expression of ral GTPases, their effectors, and activators in human bladder cancer. Clin Cancer Res 2007 Jul 1;13(13):3803-13. PMID: 17606711
  • Yap DY, Smith DK, Zhang XW, Hill J et al. Using biomarker signature patterns for an mRNA molecular diagnostic of mouse embryonic stem cell differentiation state. BMC Genomics 2007 Jul 3;8:210. PMID: 17605829
  • Huang J, Hao P, Zhang YL, Deng FX et al. Discovering multiple transcripts of human hepatocytes using massively parallel signature sequencing (MPSS). BMC Genomics 2007 Jul 2;8:207. PMID: 17601345
  • Capoen W, Den Herder J, Rombauts S, De Gussem J et al. Comparative transcriptome analysis reveals common and specific tags for root hair and crack-entry invasion in Sesbania rostrata. Plant Physiol 2007 Aug;144(4):1878-89. PMID: 17600136
  • Lu ZH, Wright JD, Belt B, Cardiff RD et al. Hypoxia-inducible factor-1 facilitates cervical cancer progression in human papillomavirus type 16 transgenic mice. Am J Pathol 2007 Aug;171(2):667-81. PMID: 17600126
  • Oeder S, Mages J, Flicek P, Lang R et al. Uncovering information on expression of natural antisense transcripts in Affymetrix MOE430 datasets. BMC Genomics 2007 Jun 28;8:200. PMID: 17598913
  • Singh AV, Knudsen KB, Knudsen TB et al. Integrative analysis of the mouse embryonic transcriptome. Bioinformation 2007 Apr 10;1(10):406-13. PMID: 17597930
  • Holst CR, Bou-Reslan H, Gore BB, Wong K et al. Secreted sulfatases Sulf1 and Sulf2 have overlapping yet essential roles in mouse neonatal survival. PLoS One 2007 Jun 27;2(6):e575. PMID: 17593974
  • Ruby JG, Jan CH, Bartel DP et al. Intronic microRNA precursors that bypass Drosha processing. Nature 2007 Jul 5;448(7149):83-6. PMID: 17589500
  • Hu Z, Ng DM, Yamada T, Chen C et al. VisANT 3.0: new modules for pathway visualization, editing, prediction and construction. Nucleic Acids Res 2007 Jul;35(Web Server issue):W625-32. PMID: 17586824
  • Sarangi A, Bupp K, Roth MJ et al. Identification of a retroviral receptor used by an envelope protein derived by peptide library screening. Proc Natl Acad Sci U S A 2007 Jun 26;104(26):11032-7. PMID: 17581869
  • ENCODE Project Consortium, Birney E, Stamatoyannopoulos JA, Dutta A et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 2007 Jun 14;447(7146):799-816. PMID: 17571346
  • Hirst M, Delaney A, Rogers SA, Schnerch A et al. LongSAGE profiling of nine human embryonic stem cell lines. Genome Biol 2007;8(6):R113. PMID: 17570852
  • Day A, Carlson MR, Dong J, O'Connor BD et al. Celsius: a community resource for Affymetrix microarray data. Genome Biol 2007;8(6):R112. PMID: 17570842
  • Elnitski LL, Shah P, Moreland RT, Umayam L et al. The ENCODEdb portal: simplified access to ENCODE Consortium data. Genome Res 2007 Jun;17(6):954-9. PMID: 17568011
  • Calabria AR, Shusta EV et al. A genomic comparison of in vivo and in vitro brain microvascular endothelial cells. J Cereb Blood Flow Metab 2008 Jan;28(1):135-48. PMID: 17565361
  • Harrison AP, Johnston CE, Orengo CA et al. Establishing a major cause of discrepancy in the calibration of Affymetrix GeneChips. BMC Bioinformatics 2007 Jun 11;8:195. PMID: 17562008
  • Tsang J, Zhu J, van Oudenaarden A et al. MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals. Mol Cell 2007 Jun 8;26(5):753-67. PMID: 17560377
  • Yu H, Wang F, Tu K, Xie L et al. Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data. BMC Bioinformatics 2007 Jun 11;8:194. PMID: 17559689
  • Smith JJ, Ramsey SA, Marelli M, Marzolf B et al. Transcriptional responses to fatty acid are coordinated by combinatorial control. Mol Syst Biol 2007;3:115. PMID: 17551510
  • Shephard EA, Chandan P, Stevanovic-Walker M, Edwards M et al. Alternative promoters and repetitive DNA elements define the species-dependent tissue-specific expression of the FMO1 genes of human and mouse. Biochem J 2007 Sep 15;406(3):491-9. PMID: 17547558
  • Zhang Y, Luoh SM, Hon LS, Baertsch R et al. GeneHub-GEPIS: digital expression profiling for normal and cancer tissues based on an integrated gene database. Nucleic Acids Res 2007 Jul;35(Web Server issue):W152-8. PMID: 17545196
  • Noth S, Brysbaert G, Pellay FX, Benecke A et al. High-sensitivity transcriptome data structure and implications for analysis and biologic interpretation. Genomics Proteomics Bioinformatics 2006 Nov;4(4):212-29. PMID: 17531797
  • Warnat P, Oberthuer A, Fischer M, Westermann F et al. Cross-study analysis of gene expression data for intermediate neuroblastoma identifies two biological subtypes. BMC Cancer 2007 May 25;7:89. PMID: 17531100
  • Schmid CD, Sengstag T, Bucher P, Delorenzi M et al. MADAP, a flexible clustering tool for the interpretation of one-dimensional genome annotation data. Nucleic Acids Res 2007 Jul;35(Web Server issue):W201-5. PMID: 17526516
  • Luan Y, Li H et al. Group additive regression models for genomic data analysis. Biostatistics 2008 Jan;9(1):100-13. PMID: 17513311
  • Kapur K, Xing Y, Ouyang Z, Wong WH et al. Exon arrays provide accurate assessments of gene expression. Genome Biol 2007;8(5):R82. PMID: 17504534
  • Ott LW, Resing KA, Sizemore AW, Heyen JW et al. Tumor Necrosis Factor-alpha- and interleukin-1-induced cellular responses: coupling proteomic and genomic information. J Proteome Res 2007 Jun;6(6):2176-85. PMID: 17503796
  • Maine GN, Burstein E et al. COMMD proteins: COMMing to the scene. Cell Mol Life Sci 2007 Aug;64(15):1997-2005. PMID: 17497243
  • Davis S, Meltzer PS et al. GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor. Bioinformatics 2007 Jul 15;23(14):1846-7. PMID: 17496320
  • Hardie WD, Korfhagen TR, Sartor MA, Prestridge A et al. Genomic profile of matrix and vasculature remodeling in TGF-alpha induced pulmonary fibrosis. Am J Respir Cell Mol Biol 2007 Sep;37(3):309-21. PMID: 17496152
  • Henz SR, Cumbie JS, Kasschau KD, Lohmann JU et al. Distinct expression patterns of natural antisense transcripts in Arabidopsis. Plant Physiol 2007 Jul;144(3):1247-55. PMID: 17496106
  • Herschkowitz JI, Simin K, Weigman VJ, Mikaelian I et al. Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors. Genome Biol 2007;8(5):R76. PMID: 17493263
  • Hertzberg L, Izraeli S, Domany E et al. STOP: searching for transcription factor motifs using gene expression. Bioinformatics 2007 Jul 15;23(14):1737-43. PMID: 17488754
  • Nilsson B, Håkansson P, Johansson M, Nelander S et al. Threshold-free high-power methods for the ontological analysis of genome-wide gene-expression studies. Genome Biol 2007;8(5):R74. PMID: 17488501
  • Wei Z, Li H et al. A Markov random field model for network-based analysis of genomic data. Bioinformatics 2007 Jun 15;23(12):1537-44. PMID: 17483504
  • Chalmel F, Rolland AD, Niederhauser-Wiederkehr C, Chung SS et al. The conserved transcriptome in human and rodent male gametogenesis. Proc Natl Acad Sci U S A 2007 May 15;104(20):8346-51. PMID: 17483452
  • Reimand J, Kull M, Peterson H, Hansen J et al. g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments. Nucleic Acids Res 2007 Jul;35(Web Server issue):W193-200. PMID: 17478515
  • Sukhdeo K, Mani M, Zhang Y, Dutta J et al. Targeting the beta-catenin/TCF transcriptional complex in the treatment of multiple myeloma. Proc Natl Acad Sci U S A 2007 May 1;104(18):7516-21. PMID: 17452641
  • Alberts R, Terpstra P, Hardonk M, Bystrykh LV et al. A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat. BMC Bioinformatics 2007 Apr 20;8:132. PMID: 17448222
  • Strand AD, Aragaki AK, Baquet ZC, Hodges A et al. Conservation of regional gene expression in mouse and human brain. PLoS Genet 2007 Apr 20;3(4):e59. PMID: 17447843
  • Arredouani MS, Franco F, Imrich A, Fedulov A et al. Scavenger Receptors SR-AI/II and MARCO limit pulmonary dendritic cell migration and allergic airway inflammation. J Immunol 2007 May 1;178(9):5912-20. PMID: 17442975
  • Montano M, Flanagan JN, Jiang L, Sebastiani P et al. Transcriptional profiling of testosterone-regulated genes in the skeletal muscle of human immunodeficiency virus-infected men experiencing weight loss. J Clin Endocrinol Metab 2007 Jul;92(7):2793-802. PMID: 17440010
  • Graham RR, Kyogoku C, Sigurdsson S, Vlasova IA et al. Three functional variants of IFN regulatory factor 5 (IRF5) define risk and protective haplotypes for human lupus. Proc Natl Acad Sci U S A 2007 Apr 17;104(16):6758-63. PMID: 17412832
  • Stansberg C, Vik-Mo AO, Holdhus R, Breilid H et al. Gene expression profiles in rat brain disclose CNS signature genes and regional patterns of functional specialisation. BMC Genomics 2007 Apr 4;8:94. PMID: 17408481
  • Al-Shahrour F, Arbiza L, Dopazo H, Huerta-Cepas J et al. From genes to functional classes in the study of biological systems. BMC Bioinformatics 2007 Apr 3;8:114. PMID: 17407596
  • Wei T, Geiser AG, Qian HR, Su C et al. DNA microarray data integration by ortholog gene analysis reveals potential molecular mechanisms of estrogen-dependent growth of human uterine fibroids. BMC Womens Health 2007 Apr 2;7:5. PMID: 17407572
  • Park WD, Stegall MD et al. A meta-analysis of kidney microarray datasets: investigation of cytokine gene detection and correlation with rt-PCR and detection thresholds. BMC Genomics 2007 Mar 30;8:88. PMID: 17397532
  • Hanada K, Zhang X, Borevitz JO, Li WH et al. A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection. Genome Res 2007 May;17(5):632-40. PMID: 17395691
  • Chandramouli A, Shi J, Feng Y, Holubec H et al. Haploinsufficiency of the cdc2l gene contributes to skin cancer development in mice. Carcinogenesis 2007 Sep;28(9):2028-35. PMID: 17389615
  • Simmen FA, Xiao R, Velarde MC, Nicholson RD et al. Dysregulation of intestinal crypt cell proliferation and villus cell migration in mice lacking Kruppel-like factor 9. Am J Physiol Gastrointest Liver Physiol 2007 Jun;292(6):G1757-69. PMID: 17379758
  • Ernst C, Sequeira A, Klempan T, Ernst N et al. Confirmation of region-specific patterns of gene expression in the human brain. Neurogenetics 2007 Aug;8(3):219-24. PMID: 17375343
  • Piwowar HA, Day RS, Fridsma DB et al. Sharing detailed research data is associated with increased citation rate. PLoS One 2007 Mar 21;2(3):e308. PMID: 17375194
  • Agnelli L, Fabris S, Bicciato S, Basso D et al. Upregulation of translational machinery and distinct genetic subgroups characterise hyperdiploidy in multiple myeloma. Br J Haematol 2007 Feb;136(4):565-73. PMID: 17367409
  • Inaoka H, Fukuoka Y, Kohane IS et al. Evidence of spatially bound gene regulation in Mus musculus: decreased gene expression proximal to microRNA genomic location. Proc Natl Acad Sci U S A 2007 Mar 20;104(12):5020-5. PMID: 17360362
  • Rhodes DR, Kalyana-Sundaram S, Mahavisno V, Varambally R et al. Oncomine 3.0: genes, pathways, and networks in a collection of 18,000 cancer gene expression profiles. Neoplasia 2007 Feb;9(2):166-80. PMID: 17356713
  • Truntzer C, Mercier C, Estève J, Gautier C et al. Importance of data structure in comparing two dimension reduction methods for classification of microarray gene expression data. BMC Bioinformatics 2007 Mar 13;8:90. PMID: 17355634
  • Itoh Y, Melamed E, Yang X, Kampf K et al. Dosage compensation is less effective in birds than in mammals. J Biol 2007;6(1):2. PMID: 17352797
  • Pedemonte E, Benvenuto F, Casazza S, Mancardi G et al. The molecular signature of therapeutic mesenchymal stem cells exposes the architecture of the hematopoietic stem cell niche synapse. BMC Genomics 2007 Mar 6;8:65. PMID: 17341312
  • Jia Z, Xu S et al. Mapping quantitative trait loci for expression abundance. Genetics 2007 May;176(1):611-23. PMID: 17339210
  • Talavera D, Vogel C, Orozco M, Teichmann SA et al. The (in)dependence of alternative splicing and gene duplication. PLoS Comput Biol 2007 Mar 2;3(3):e33. PMID: 17335345
  • O'Shaughnessy PJ, Abel M, Charlton HM, Hu B et al. Altered expression of genes involved in regulation of vitamin A metabolism, solute transportation, and cytoskeletal function in the androgen-insensitive tfm mouse testis. Endocrinology 2007 Jun;148(6):2914-24. PMID: 17332066
  • Crasto CJ, Masiar P, Miller PL et al. NeuroExtract: facilitating neuroscience-oriented retrieval from broadly-focused bioscience databases using text-based query mediation. J Am Med Inform Assoc 2007 May-Jun;14(3):355-60. PMID: 17329721
  • Buckanovich RJ, Sasaroli D, O'Brien-Jenkins A, Botbyl J et al. Tumor vascular proteins as biomarkers in ovarian cancer. J Clin Oncol 2007 Mar 1;25(7):852-61. PMID: 17327606
  • Platts AE, Dix DJ, Chemes HE, Thompson KE et al. Success and failure in human spermatogenesis as revealed by teratozoospermic RNAs. Hum Mol Genet 2007 Apr 1;16(7):763-73. PMID: 17327269
  • Ergün A, Lawrence CA, Kohanski MA, Brennan TA et al. A network biology approach to prostate cancer. Mol Syst Biol 2007;3:82. PMID: 17299418
  • Murray DB, Beckmann M, Kitano H et al. Regulation of yeast oscillatory dynamics. Proc Natl Acad Sci U S A 2007 Feb 13;104(7):2241-6. PMID: 17284613
  • Turley RS, Finger EC, Hempel N, How T et al. The type III transforming growth factor-beta receptor as a novel tumor suppressor gene in prostate cancer. Cancer Res 2007 Feb 1;67(3):1090-8. PMID: 17283142
  • Hernández P, Solé X, Valls J, Moreno V et al. Integrative analysis of a cancer somatic mutome. Mol Cancer 2007 Feb 5;6:13. PMID: 17280605
  • Duarte NC, Becker SA, Jamshidi N, Thiele I et al. Global reconstruction of the human metabolic network based on genomic and bibliomic data. Proc Natl Acad Sci U S A 2007 Feb 6;104(6):1777-82. PMID: 17267599
  • Bonig H, Priestley GV, Oehler V, Papayannopoulou T et al. Hematopoietic progenitor cells (HPC) from mobilized peripheral blood display enhanced migration and marrow homing compared to steady-state bone marrow HPC. Exp Hematol 2007 Feb;35(2):326-34. PMID: 17258081
  • Cheng CW, Bielby H, Licence D, Smith SK et al. Quantitative cellular and molecular analysis of the effect of progesterone withdrawal in a murine model of decidualization. Biol Reprod 2007 May;76(5):871-83. PMID: 17251523
  • Butte AJ, Chen R et al. Finding disease-related genomic experiments within an international repository: first steps in translational bioinformatics. AMIA Annu Symp Proc 2006;2006:106-10. PMID: 17238312
  • Choi JK, Kim SC et al. Environmental effects on gene expression phenotype have regional biases in the human genome. Genetics 2007 Apr;175(4):1607-13. PMID: 17237506
  • Shi Y, Mitchell T, Bar-Joseph Z et al. Inferring pairwise regulatory relationships from multiple time series datasets. Bioinformatics 2007 Mar 15;23(6):755-63. PMID: 17237067
  • Yoneya T, Mamitsuka H et al. A hidden Markov model-based approach for identifying timing differences in gene expression under different experimental factors. Bioinformatics 2007 Apr 1;23(7):842-9. PMID: 17237042
  • Jelier R, Jenster G, Dorssers LC, Wouters BJ et al. Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation. BMC Bioinformatics 2007 Jan 18;8:14. PMID: 17233900
  • Stalteri MA, Harrison AP et al. Interpretation of multiple probe sets mapping to the same gene in Affymetrix GeneChips. BMC Bioinformatics 2007 Jan 15;8:13. PMID: 17224057
  • Yang E, Maguire T, Yarmush ML, Berthiaume F et al. Bioinformatics analysis of the early inflammatory response in a rat thermal injury model. BMC Bioinformatics 2007 Jan 10;8:10. PMID: 17214898
  • Riz I, Akimov SS, Eaker SS, Baxter KK et al. TLX1/HOX11-induced hematopoietic differentiation blockade. Oncogene 2007 Jun 14;26(28):4115-23. PMID: 17213805
  • Robertson N, Oveisi-Fordorei M, Zuyderduyn SD, Varhol RJ et al. DiscoverySpace: an interactive data analysis application. Genome Biol 2007;8(1):R6. PMID: 17210078
  • Chong A, Zhang Z, Choi KP, Choudhary V et al. Promoter profiling and coexpression data analysis identifies 24 novel genes that are coregulated with AMPA receptor genes, GRIAs. Genomics 2007 Mar;89(3):378-84. PMID: 17208408
  • Brass DM, Tomfohr J, Yang IV, Schwartz DA et al. Using mouse genomics to understand idiopathic interstitial fibrosis. Proc Am Thorac Soc 2007 Jan;4(1):92-100. PMID: 17202297
  • Studer SM, Kaminski N et al. Towards systems biology of human pulmonary fibrosis. Proc Am Thorac Soc 2007 Jan;4(1):85-91. PMID: 17202296
  • Kolpakov F, Poroikov V, Sharipov R, Kondrakhin Y et al. CYCLONET--an integrated database on cell cycle regulation and carcinogenesis. Nucleic Acids Res 2007 Jan;35(Database issue):D550-6. PMID: 17202170
  • Hurt EM, Thomas SB, Peng B, Farrar WL et al. Integrated molecular profiling of SOD2 expression in multiple myeloma. Blood 2007 May 1;109(9):3953-62. PMID: 17192397
  • Chari R, Lockwood WW, Coe BP, Chu A et al. SIGMA: a system for integrative genomic microarray analysis of cancer genomes. BMC Genomics 2006 Dec 27;7:324. PMID: 17192189
  • Barbacioru CC, Wang Y, Canales RD, Sun YA et al. Effect of various normalization methods on Applied Biosystems expression array system data. BMC Bioinformatics 2006 Dec 15;7:533. PMID: 17173684
  • Ramsey VG, Doherty JM, Chen CC, Stappenbeck TS et al. The maturation of mucus-secreting gastric epithelial progenitors into digestive-enzyme secreting zymogenic cells requires Mist1. Development 2007 Jan;134(1):211-22. PMID: 17164426
  • McRae AF, Matigian NA, Vadlamudi L, Mulley JC et al. Replicated effects of sex and genotype on gene expression in human lymphoblastoid cell lines. Hum Mol Genet 2007 Feb 15;16(4):364-73. PMID: 17164263
  • Bosco EE, Wang Y, Xu H, Zilfou JT et al. The retinoblastoma tumor suppressor modifies the therapeutic response of breast cancer. J Clin Invest 2007 Jan;117(1):218-28. PMID: 17160137
  • Carey VJ, Morgan M, Falcon S, Lazarus R et al. GGtools: analysis of genetics of gene expression in bioconductor. Bioinformatics 2007 Feb 15;23(4):522-3. PMID: 17158513
  • Liu D, Brockman JM, Dass B, Hutchins LN et al. Systematic variation in mRNA 3'-processing signals during mouse spermatogenesis. Nucleic Acids Res 2007;35(1):234-46. PMID: 17158511
  • Zapala MA, Schork NJ et al. Multivariate regression analysis of distance matrices for testing associations between gene expression patterns and related variables. Proc Natl Acad Sci U S A 2006 Dec 19;103(51):19430-5. PMID: 17146048
  • Nguyen LN, Holdren MS, Nguyen AP, Furuya MH et al. Sorting nexin 1 down-regulation promotes colon tumorigenesis. Clin Cancer Res 2006 Dec 1;12(23):6952-9. PMID: 17145813
  • Forton JT, Udalova IA, Campino S, Rockett KA et al. Localization of a long-range cis-regulatory element of IL13 by allelic transcript ratio mapping. Genome Res 2007 Jan;17(1):82-7. PMID: 17135570
  • Saxena V, Orgill D, Kohane I et al. Absolute enrichment: gene set enrichment analysis for homeostatic systems. Nucleic Acids Res 2006;34(22):e151. PMID: 17130162
  • Obayashi T, Kinoshita K, Nakai K, Shibaoka M et al. ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis. Nucleic Acids Res 2007 Jan;35(Database issue):D863-9. PMID: 17130150
  • Jeffery IB, Madden SF, McGettigan PA, Perrière G et al. Integrating transcription factor binding site information with gene expression datasets. Bioinformatics 2007 Feb 1;23(3):298-305. PMID: 17127681
  • Hayashi R, Arauchi T, Tategu M, Goto Y et al. A combined computational and experimental study on the structure-regulation relationships of putative mammalian DNA replication initiator GINS. Genomics Proteomics Bioinformatics 2006 Aug;4(3):156-64. PMID: 17127213
  • Komura D, Shen F, Ishikawa S, Fitch KR et al. Genome-wide detection of human copy number variations using high-density DNA oligonucleotide arrays. Genome Res 2006 Dec;16(12):1575-84. PMID: 17122084
  • Glover CH, Marin M, Eaves CJ, Helgason CD et al. Meta-analysis of differentiating mouse embryonic stem cell gene expression kinetics reveals early change of a small gene set. PLoS Comput Biol 2006 Nov 24;2(11):e158. PMID: 17121458
  • Sternlicht MD, Dunning AM, Moore DH, Pharoah PD et al. Prognostic value of PAI1 in invasive breast cancer: evidence that tumor-specific factors are more important than genetic variation in regulating PAI1 expression. Cancer Epidemiol Biomarkers Prev 2006 Nov;15(11):2107-14. PMID: 17119035
  • Kel A, Voss N, Jauregui R, Kel-Margoulis O et al. Beyond microarrays: find key transcription factors controlling signal transduction pathways. BMC Bioinformatics 2006 Sep 6;7 Suppl 2(Suppl 2):S13. PMID: 17118134
  • DeVoss J, Hou Y, Johannes K, Lu W et al. Spontaneous autoimmunity prevented by thymic expression of a single self-antigen. J Exp Med 2006 Nov 27;203(12):2727-35. PMID: 17116738
  • Kim YC, Jung YC, Xuan Z, Dong H et al. Pan-genome isolation of low abundance transcripts using SAGE tag. FEBS Lett 2006 Dec 11;580(28-29):6721-9. PMID: 17113583
  • Pujana MA, Ruiz A, Badenas C, Puig-Butille JA et al. Molecular characterization of a t(9;12)(p21;q13) balanced chromosome translocation in combination with integrative genomics analysis identifies C9orf14 as a candidate tumor-suppressor. Genes Chromosomes Cancer 2007 Feb;46(2):155-62. PMID: 17099875
  • Bao L, Zhou M, Wu L, Lu L et al. PolymiRTS Database: linking polymorphisms in microRNA target sites with complex traits. Nucleic Acids Res 2007 Jan;35(Database issue):D51-4. PMID: 17099235
  • Kopitar-Jerala NThe role of cystatins in cells of the immune system. FEBS Lett 2006 Nov 27;580(27):6295-301. PMID: 17098233
  • Balko JM, Potti A, Saunders C, Stromberg A et al. Gene expression patterns that predict sensitivity to epidermal growth factor receptor tyrosine kinase inhibitors in lung cancer cell lines and human lung tumors. BMC Genomics 2006 Nov 10;7:289. PMID: 17096850
  • Pan F, Chiu CH, Pulapura S, Mehan MR et al. Gene Aging Nexus: a web database and data mining platform for microarray data on aging. Nucleic Acids Res 2007 Jan;35(Database issue):D756-9. PMID: 17090592
  • Ji H, Vokes SA, Wong WH et al. A comparative analysis of genome-wide chromatin immunoprecipitation data for mammalian transcription factors. Nucleic Acids Res 2006;34(21):e146. PMID: 17090591
  • Liu F, Park PJ, Lai W, Maher E et al. A genome-wide screen reveals functional gene clusters in the cancer genome and identifies EphA2 as a mitogen in glioblastoma. Cancer Res 2006 Nov 15;66(22):10815-23. PMID: 17090523
  • Romualdi C, De Pittà C, Tombolan L, Bortoluzzi S et al. Defining the gene expression signature of rhabdomyosarcoma by meta-analysis. BMC Genomics 2006 Nov 7;7:287. PMID: 17090319
  • Campagne F, Skrabanek L et al. Mining expressed sequence tags identifies cancer markers of clinical interest. BMC Bioinformatics 2006 Nov 1;7:481. PMID: 17078886
  • Zhu Y, Zhang W, Huo Z, Zhang Y et al. A novel locus for maternally inherited human gingival fibromatosis at chromosome 11p15. Hum Genet 2007 Mar;121(1):113-23. PMID: 17075716
  • Thompson DM, Parker R et al. Cytoplasmic decay of intergenic transcripts in Saccharomyces cerevisiae. Mol Cell Biol 2007 Jan;27(1):92-101. PMID: 17074811
  • Farkas IJ, Wu C, Chennubhotla C, Bahar I et al. Topological basis of signal integration in the transcriptional-regulatory network of the yeast, Saccharomyces cerevisiae. BMC Bioinformatics 2006 Oct 28;7:478. PMID: 17069658
  • Cheung TH, Kwan YL, Hamady M, Liu X et al. Unraveling transcriptional control and cis-regulatory codes using the software suite GeneACT. Genome Biol 2006;7(10):R97. PMID: 17064417
  • Li S, Li YH, Wei T, Su EW et al. Too much data, but little inter-changeability: a lesson learned from mining public data on tissue specificity of gene expression. Biol Direct 2006 Oct 25;1:33. PMID: 17064414
  • Ziober AF, Patel KR, Alawi F, Gimotty P et al. Identification of a gene signature for rapid screening of oral squamous cell carcinoma. Clin Cancer Res 2006 Oct 15;12(20 Pt 1):5960-71. PMID: 17062667
  • Guo L, Lobenhofer EK, Wang C, Shippy R et al. Rat toxicogenomic study reveals analytical consistency across microarray platforms. Nat Biotechnol 2006 Sep;24(9):1162-9. PMID: 17061323
  • Barth AS, Kuner R, Buness A, Ruschhaupt M et al. Identification of a common gene expression signature in dilated cardiomyopathy across independent microarray studies. J Am Coll Cardiol 2006 Oct 17;48(8):1610-7. PMID: 17045896
  • Levine DM, Haynor DR, Castle JC, Stepaniants SB et al. Pathway and gene-set activation measurement from mRNA expression data: the tissue distribution of human pathways. Genome Biol 2006;7(10):R93. PMID: 17044931
  • Agarwal S, Harada J, Schreifels J, Lech P et al. Isolation, characterization, and genetic complementation of a cellular mutant resistant to retroviral infection. Proc Natl Acad Sci U S A 2006 Oct 24;103(43):15933-8. PMID: 17043244
  • Wessel J, Schork NJ et al. Generalized genomic distance-based regression methodology for multilocus association analysis. Am J Hum Genet 2006 Nov;79(5):792-806. PMID: 17033957
  • Yoon S, Yang Y, Choi J, Seong J et al. Large scale data mining approach for gene-specific standardization of microarray gene expression data. Bioinformatics 2006 Dec 1;22(23):2898-904. PMID: 17032674
  • Wormald S, Hilton DJ, Smyth GK, Speed TP et al. Proximal genomic localization of STAT1 binding and regulated transcriptional activity. BMC Genomics 2006 Oct 11;7:254. PMID: 17032459
  • Mendoza G, Pemberton TJ, Lee K, Scarel-Caminaga R et al. A new locus for autosomal dominant amelogenesis imperfecta on chromosome 8q24.3. Hum Genet 2007 Jan;120(5):653-62. PMID: 17024372
  • Fonseca R, Van Wier SA, Chng WJ, Ketterling R et al. Prognostic value of chromosome 1q21 gain by fluorescent in situ hybridization and increase CKS1B expression in myeloma. Leukemia 2006 Nov;20(11):2034-40. PMID: 17024118
  • Hever A, Roth RB, Hevezi PA, Lee J et al. Molecular characterization of human adenomyosis. Mol Hum Reprod 2006 Dec;12(12):737-48. PMID: 17020905
  • Carroll JS, Meyer CA, Song J, Li W et al. Genome-wide analysis of estrogen receptor binding sites. Nat Genet 2006 Nov;38(11):1289-97. PMID: 17013392
  • Huttenhower C, Hibbs M, Myers C, Troyanskaya OG et al. A scalable method for integration and functional analysis of multiple microarray datasets. Bioinformatics 2006 Dec 1;22(23):2890-7. PMID: 17005538
  • Paananen J, Storvik M, Wong G et al. CROPPER: a metagene creator resource for cross-platform and cross-species compendium studies. BMC Bioinformatics 2006 Sep 22;7:418. PMID: 16995941
  • Harvatine KJ, Bauman DE et al. SREBP1 and thyroid hormone responsive spot 14 (S14) are involved in the regulation of bovine mammary lipid synthesis during diet-induced milk fat depression and treatment with CLA. J Nutr 2006 Oct;136(10):2468-74. PMID: 16988111
  • Dolan ME, Holden CC, Beard MK, Bult CJ et al. Genomes as geography: using GIS technology to build interactive genome feature maps. BMC Bioinformatics 2006 Sep 19;7:416. PMID: 16984652
  • Sahni J, Nelson B, Scharenberg AM et al. SLC41A2 encodes a plasma-membrane Mg2+ transporter. Biochem J 2007 Jan 15;401(2):505-13. PMID: 16984228
  • Stahlman MT, Besnard V, Wert SE, Weaver TE et al. Expression of ABCA3 in developing lung and other tissues. J Histochem Cytochem 2007 Jan;55(1):71-83. PMID: 16982851
  • Sutherland HG, Newton K, Brownstein DG, Holmes MC et al. Disruption of Ledgf/Psip1 results in perinatal mortality and homeotic skeletal transformations. Mol Cell Biol 2006 Oct;26(19):7201-10. PMID: 16980622
  • Whitehead K, Kish A, Pan M, Kaur A et al. An integrated systems approach for understanding cellular responses to gamma radiation. Mol Syst Biol 2006;2:47. PMID: 16969339
  • Mullins JJ, Mullins LJ, Dunbar DR, Brammar WJ et al. Identification of a human ortholog of the mouse Dcpp gene locus, encoding a novel member of the CSP-1/Dcpp salivary protein family. Physiol Genomics 2006 Dec 13;28(1):129-40. PMID: 16954406
  • Irizarry RA, Cope LM, Wu Z et al. Feature-level exploration of a published Affymetrix GeneChip control dataset. Genome Biol 2006;7(8):404. PMID: 16953902
  • Vinther J, Hedegaard MM, Gardner PP, Andersen JS et al. Identification of miRNA targets with stable isotope labeling by amino acids in cell culture. Nucleic Acids Res 2006;34(16):e107. PMID: 16945957
  • MacKenzie S, Montserrat N, Mas M, Acerete L et al. Bacterial lipopolysaccharide induces apoptosis in the trout ovary. Reprod Biol Endocrinol 2006 Aug 31;4:46. PMID: 16945135
  • Lohoff FW, Dahl JP, Ferraro TN, Arnold SE et al. Variations in the vesicular monoamine transporter 1 gene (VMAT1/SLC18A1) are associated with bipolar i disorder. Neuropsychopharmacology 2006 Dec;31(12):2739-47. PMID: 16936705
  • Moalic Y, Blanchard Y, Félix H, Jestin A et al. Porcine endogenous retrovirus integration sites in the human genome: features in common with those of murine leukemia virus. J Virol 2006 Nov;80(22):10980-8. PMID: 16928752
  • Radde N, Gebert J, Forst CV et al. Systematic component selection for gene-network refinement. Bioinformatics 2006 Nov 1;22(21):2674-80. PMID: 16926218
  • Wang XS, Zhang Z, Wang HC, Cai JL et al. Rapid identification of UCA1 as a very sensitive and specific unique marker for human bladder carcinoma. Clin Cancer Res 2006 Aug 15;12(16):4851-8. PMID: 16914571
  • Ge X, Wu Q, Jung YC, Chen J et al. A large quantity of novel human antisense transcripts detected by LongSAGE. Bioinformatics 2006 Oct 15;22(20):2475-9. PMID: 16895931
  • Hung MS, Avner P, Rogner UC et al. Identification of the transcription factor ARNTL2 as a candidate gene for the type 1 diabetes locus Idd6. Hum Mol Genet 2006 Sep 15;15(18):2732-42. PMID: 16893914
  • Georgieva L, Moskvina V, Peirce T, Norton N et al. Convergent evidence that oligodendrocyte lineage transcription factor 2 (OLIG2) and interacting genes influence susceptibility to schizophrenia. Proc Natl Acad Sci U S A 2006 Aug 15;103(33):12469-74. PMID: 16891421
  • Itman C, Mendis S, Barakat B, Loveland KL et al. All in the family: TGF-beta family action in testis development. Reproduction 2006 Aug;132(2):233-46. PMID: 16885532
  • Jeffery IB, Higgins DG, Culhane AC et al. Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. BMC Bioinformatics 2006 Jul 26;7:359. PMID: 16872483
  • Lu X, Zhang X et al. The effect of GeneChip gene definitions on the microarray study of cancers. Bioessays 2006 Jul;28(7):739-46. PMID: 16850407
  • Wang YP, Liang L, Han BC, Quan Y et al. GEPS: the Gene Expression Pattern Scanner. Nucleic Acids Res 2006 Jul 1;34(Web Server issue):W492-7. PMID: 16845057
  • Penkett CJ, Morris JA, Wood V, Bähler J et al. YOGY: a web-based, integrated database to retrieve protein orthologs and associated Gene Ontology terms. Nucleic Acids Res 2006 Jul 1;34(Web Server issue):W330-4. PMID: 16845020
  • Rossi S, Masotti D, Nardini C, Bonora E et al. TOM: a web-based integrated approach for identification of candidate disease genes. Nucleic Acids Res 2006 Jul 1;34(Web Server issue):W285-92. PMID: 16845011
  • Papana A, Ishwaran H et al. CART variance stabilization and regularization for high-throughput genomic data. Bioinformatics 2006 Sep 15;22(18):2254-61. PMID: 16844707
  • Siddiqui AS, Delaney AD, Schnerch A, Griffith OL et al. Sequence biases in large scale gene expression profiling data. Nucleic Acids Res 2006 Jul 13;34(12):e83. PMID: 16840527
  • Nam D, Kim SB, Kim SK, Yang S et al. ADGO: analysis of differentially expressed gene sets using composite GO annotation. Bioinformatics 2006 Sep 15;22(18):2249-53. PMID: 16837524
  • Kim SY, Kim Y et al. Genome-wide prediction of transcriptional regulatory elements of human promoters using gene expression and promoter analysis data. BMC Bioinformatics 2006 Jul 4;7:330. PMID: 16817975
  • Koli K, Myllärniemi M, Vuorinen K, Salmenkivi K et al. Bone morphogenetic protein-4 inhibitor gremlin is overexpressed in idiopathic pulmonary fibrosis. Am J Pathol 2006 Jul;169(1):61-71. PMID: 16816361
  • Laule O, Hirsch-Hoffmann M, Hruz T, Gruissem W et al. Web-based analysis of the mouse transcriptome using Genevestigator. BMC Bioinformatics 2006 Jun 21;7:311. PMID: 16790046
  • Lewinski MK, Yamashita M, Emerman M, Ciuffi A et al. Retroviral DNA integration: viral and cellular determinants of target-site selection. PLoS Pathog 2006 Jun;2(6):e60. PMID: 16789841
  • Hong SE, Rho SH, Yeom YI, Kim DH et al. HCNet: a database of heart and calcium functional network. Bioinformatics 2006 Aug 15;22(16):2053-4. PMID: 16787974
  • Yin H, Radomska HS, Tenen DG, Glass J et al. Down regulation of PSA by C/EBPalpha is associated with loss of AR expression and inhibition of PSA promoter activity in the LNCaP cell line. BMC Cancer 2006 Jun 14;6:158. PMID: 16774685
  • Wei Z, Li H et al. Nonparametric pathway-based regression models for analysis of genomic data. Biostatistics 2007 Apr;8(2):265-84. PMID: 16772399
  • Sun M, Hurst LD, Carmichael GG, Chen J et al. Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcriptionand organismic complexity. Genome Res 2006 Jul;16(7):922-33. PMID: 16769979
  • Brown AL, Wilkinson CR, Waterman SR, Kok CH et al. Genetic regulators of myelopoiesis and leukemic signaling identified by gene profiling and linear modeling. J Leukoc Biol 2006 Aug;80(2):433-47. PMID: 16769770
  • Sémon M, Duret L et al. Evolutionary origin and maintenance of coexpressed gene clusters in mammals. Mol Biol Evol 2006 Sep;23(9):1715-23. PMID: 16757654
  • Elbez Y, Farkash-Amar S, Simon I et al. An analysis of intra array repeats: the good, the bad and the non informative. BMC Genomics 2006 Jun 5;7:136. PMID: 16753054
  • Wiese C, Rolletschek A, Kania G, Navarrete-Santos A et al. Signals from embryonic fibroblasts induce adult intestinal epithelial cells to form nestin-positive cells with proliferation and multilineage differentiation capacity in vitro. Stem Cells 2006 Sep;24(9):2085-97. PMID: 16741226
  • Kaminski N, Rosas IO et al. Gene expression profiling as a window into idiopathic pulmonary fibrosis pathogenesis: can we identify the right target genes? Proc Am Thorac Soc 2006 Jun;3(4):339-44. PMID: 16738198
  • Ponomarev I, Maiya R, Harnett MT, Schafer GL et al. Transcriptional signatures of cellular plasticity in mice lacking the alpha1 subunit of GABAA receptors. J Neurosci 2006 May 24;26(21):5673-83. PMID: 16723524
  • Knowles DG, McLysaght A et al. High rate of recent intron gain and loss in simultaneously duplicated Arabidopsis genes. Mol Biol Evol 2006 Aug;23(8):1548-57. PMID: 16720694
  • Legendre M, Ritchie W, Lopez F, Gautheret D et al. Differential repression of alternative transcripts: a screen for miRNA targets. PLoS Comput Biol 2006 May;2(5):e43. PMID: 16699595
  • Montano M, Rarick M, Sebastiani P, Brinkmann P et al. Gene-expression profiling of HIV-1 infection and perinatal transmission in Botswana. Genes Immun 2006 Jun;7(4):298-309. PMID: 16691187
  • Calcagno AM, Ludwig JA, Fostel JM, Gottesman MM et al. Comparison of drug transporter levels in normal colon, colon cancer, and Caco-2 cells: impact on drug disposition and discovery. Mol Pharm 2006 Jan-Feb;3(1):87-93. PMID: 16686373
  • Franke L, van Bakel H, Fokkens L, de Jong ED et al. Reconstruction of a functional human gene network, with an application for prioritizing positional candidate genes. Am J Hum Genet 2006 Jun;78(6):1011-25. PMID: 16685651
  • Malcomber ST, Kellogg EA et al. Evolution of unisexual flowers in grasses (Poaceae) and the putative sex-determination gene, TASSELSEED2 (TS2). New Phytol 2006;170(4):885-99. PMID: 16684246
  • Frith MC, Forrest AR, Nourbakhsh E, Pang KC et al. The abundance of short proteins in the mammalian proteome. PLoS Genet 2006 Apr;2(4):e52. PMID: 16683031
  • Khan RL, Gonye GE, Gao G, Schwaber JS et al. A universal reference sample derived from clone vector for improved detection of differential gene expression. BMC Genomics 2006 May 5;7:109. PMID: 16677381
  • Radmacher MD, Marcucci G, Ruppert AS, Mrózek K et al. Independent confirmation of a prognostic gene-expression signature in adult acute myeloid leukemia with a normal karyotype: a Cancer and Leukemia Group B study. Blood 2006 Sep 1;108(5):1677-83. PMID: 16670265
  • Dunne J, Cullmann C, Ritter M, Soria NM et al. siRNA-mediated AML1/MTG8 depletion affects differentiation and proliferation-associated gene expression in t(8;21)-positive cell lines and primary AML blasts. Oncogene 2006 Oct 5;25(45):6067-78. PMID: 16652140
  • Grasberger H, Refetoff S et al. Identification of the maturation factor for dual oxidase. Evolution of an eukaryotic operon equivalent. J Biol Chem 2006 Jul 7;281(27):18269-72. PMID: 16651268
  • Yu H, Jiang H, Zhou Q, Yang J et al. Origination and evolution of a human-specific transmembrane protein gene, c1orf37-dup. Hum Mol Genet 2006 Jun 1;15(11):1870-5. PMID: 16644869
  • Soupene E, Kuypers FA et al. Identification of an erythroid ATP-dependent aminophospholipid transporter. Br J Haematol 2006 May;133(4):436-8. PMID: 16643453
  • Graham RR, Kozyrev SV, Baechler EC, Reddy MV et al. A common haplotype of interferon regulatory factor 5 (IRF5) regulates splicing and expression and is associated with increased risk of systemic lupus erythematosus. Nat Genet 2006 May;38(5):550-5. PMID: 16642019
  • Daniel VC, Peacock CD, Watkins DN et al. Developmental signalling pathways in lung cancer. Respirology 2006 May;11(3):234-40. PMID: 16635080
  • Boyer LA, Plath K, Zeitlinger J, Brambrink T et al. Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature 2006 May 18;441(7091):349-53. PMID: 16625203
  • Albers CJ, Jansen RC, Kok J, Kuipers OP et al. SIMAGE: simulation of DNA-microarray gene expression data. BMC Bioinformatics 2006 Apr 13;7:205. PMID: 16613602
  • Yuan Z, Tie A, Tarnopolsky M, Bakovic M et al. Genomic organization, promoter activity, and expression of the human choline transporter-like protein 1. Physiol Genomics 2006 Jun 16;26(1):76-90. PMID: 16609143
  • van Haaften RI, Schroen B, Janssen BJ, van Erk A et al. Biologically relevant effects of mRNA amplification on gene expression profiles. BMC Bioinformatics 2006 Apr 11;7:200. PMID: 16608515
  • Yu X, Griffith WC, Hanspers K, Dillman JF 3rd et al. A system-based approach to interpret dose- and time-dependent microarray data: quantitative integration of gene ontology analysis for risk assessment. Toxicol Sci 2006 Aug;92(2):560-77. PMID: 16601082
  • Ruzanov P, Jones SJ et al. An interactive tool for visualization of relationships between gene expression profiles. BMC Bioinformatics 2006 Apr 6;7:193. PMID: 16600045
  • Ernst J, Bar-Joseph Z et al. STEM: a tool for the analysis of short time series gene expression data. BMC Bioinformatics 2006 Apr 5;7:191. PMID: 16597342
  • Saarela J, Kallio SP, Chen D, Montpetit A et al. PRKCA and multiple sclerosis: association in two independent populations. PLoS Genet 2006 Mar;2(3):e42. PMID: 16596167
  • Calvo S, Jain M, Xie X, Sheth SA et al. Systematic identification of human mitochondrial disease genes through integrative genomics. Nat Genet 2006 May;38(5):576-82. PMID: 16582907
  • Hoen DR, Park KC, Elrouby N, Yu Z et al. Transposon-mediated expansion and diversification of a family of ULP-like genes. Mol Biol Evol 2006 Jun;23(6):1254-68. PMID: 16581939
  • Missirlis F, Holmberg S, Georgieva T, Dunkov BC et al. Characterization of mitochondrial ferritin in Drosophila. Proc Natl Acad Sci U S A 2006 Apr 11;103(15):5893-8. PMID: 16571656
  • Robertson KP, Smith CJ, Gough AM, Rocha ER et al. Characterization of Bacteroides fragilis hemolysins and regulation and synergistic interactions of HlyA and HlyB. Infect Immun 2006 Apr;74(4):2304-16. PMID: 16552061
  • Gao G, Zhong Y, Guo A, Zhu Q et al. DRTF: a database of rice transcription factors. Bioinformatics 2006 May 15;22(10):1286-7. PMID: 16551659
  • Byrnes JK, Morris GP, Li WH et al. Reorganization of adjacent gene relationships in yeast genomes by whole-genome duplication and gene deletion. Mol Biol Evol 2006 Jun;23(6):1136-43. PMID: 16527865
  • Inaoka H, Fukuoka Y, Kohane IS et al. Lower expression of genes near microRNA in C. elegans germline. BMC Bioinformatics 2006 Mar 6;7:112. PMID: 16519803
  • Pesaresi P, Masiero S, Eubel H, Braun HP et al. Nuclear photosynthetic gene expression is synergistically modulated by rates of protein synthesis in chloroplasts and mitochondria. Plant Cell 2006 Apr;18(4):970-91. PMID: 16517761
  • Gupta V, Parisi M, Sturgill D, Nuttall R et al. Global analysis of X-chromosome dosage compensation. J Biol 2006;5(1):3. PMID: 16507155
  • Ishii K, Washio T, Uechi T, Yoshihama M et al. Characteristics and clustering of human ribosomal protein genes. BMC Genomics 2006 Feb 28;7:37. PMID: 16504170
  • Page GP, Edwards JW, Gadbury GL, Yelisetti P et al. The PowerAtlas: a power and sample size atlas for microarray experimental design and research. BMC Bioinformatics 2006 Feb 22;7:84. PMID: 16504070
  • Bourquin JP, Subramanian A, Langebrake C, Reinhardt D et al. Identification of distinct molecular phenotypes in acute megakaryoblastic leukemia by gene expression profiling. Proc Natl Acad Sci U S A 2006 Feb 28;103(9):3339-44. PMID: 16492768
  • Sood P, Krek A, Zavolan M, Macino G et al. Cell-type-specific signatures of microRNAs on target mRNA expression. Proc Natl Acad Sci U S A 2006 Feb 21;103(8):2746-51. PMID: 16477010
  • Xiong HNon-linear tests for identifying differentially expressed genes or genetic networks. Bioinformatics 2006 Apr 15;22(8):919-23. PMID: 16473873
  • Borghei A, Ouyang YB, Westmuckett AD, Marcello MR et al. Targeted disruption of tyrosylprotein sulfotransferase-2, an enzyme that catalyzes post-translational protein tyrosine O-sulfation, causes male infertility. J Biol Chem 2006 Apr 7;281(14):9423-31. PMID: 16469738
  • Ishwaran H, Rao JS, Kogalur UB et al. BAMarraytrade mark: Java software for Bayesian analysis of variance for microarray data. BMC Bioinformatics 2006 Feb 8;7:59. PMID: 16466568
  • Murdoch S, Djuric U, Mazhar B, Seoud M et al. Mutations in NALP7 cause recurrent hydatidiform moles and reproductive wastage in humans. Nat Genet 2006 Mar;38(3):300-2. PMID: 16462743
  • McClintick JN, Edenberg HJ et al. Effects of filtering by Present call on analysis of microarray experiments. BMC Bioinformatics 2006 Jan 31;7:49. PMID: 16448562
  • Seo J, Gordish-Dressman H, Hoffman EP et al. An interactive power analysis tool for microarray hypothesis testing and generation. Bioinformatics 2006 Apr 1;22(7):808-14. PMID: 16418236
  • Price MN, Arkin AP, Alm EJ et al. OpWise: operons aid the identification of differentially expressed genes in bacterial microarray experiments. BMC Bioinformatics 2006 Jan 13;7:19. PMID: 16412220
  • Norris AW, Kahn CR et al. Analysis of gene expression in pathophysiological states: balancing false discovery and false negative rates. Proc Natl Acad Sci U S A 2006 Jan 17;103(3):649-53. PMID: 16407153
  • Butte AJ, Kohane IS et al. Creation and implications of a phenome-genome network. Nat Biotechnol 2006 Jan;24(1):55-62. PMID: 16404398
  • Elfilali A, Lair S, Verbeke C, La Rosa P et al. ITTACA: a new database for integrated tumor transcriptome array and clinical data analysis. Nucleic Acids Res 2006 Jan 1;34(Database issue):D613-6. PMID: 16381943
  • Wang X, Zhao H, Xu Q, Jin W et al. HPtaa database-potential target genes for clinical diagnosis and immunotherapy of human carcinoma. Nucleic Acids Res 2006 Jan 1;34(Database issue):D607-12. PMID: 16381942
  • Platts AE, Moldenhauer JS, Fayz B, Wang D et al. LARaLink 2.0: a comprehensive aid to basic and clinical cytogenetic research. Genet Test 2005 Winter;9(4):334-41. PMID: 16379548
  • Newkirk HL, Knoll JH, Rogan PK et al. Distortion of quantitative genomic and expression hybridization by Cot-1 DNA: mitigation of this effect. Nucleic Acids Res 2005 Dec 14;33(22):e191. PMID: 16356923
  • Zhang H, Lee JY, Tian B et al. Biased alternative polyadenylation in human tissues. Genome Biol 2005;6(12):R100. PMID: 16356263
  • Finocchiaro G, Mancuso F, Muller H et al. Mining published lists of cancer related microarray experiments: identification of a gene expression signature having a critical role in cell-cycle control. BMC Bioinformatics 2005 Dec 1;6 Suppl 4(Suppl 4):S14. PMID: 16351740
  • Crawford GE, Holt IE, Whittle J, Webb BD et al. Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS). Genome Res 2006 Jan;16(1):123-31. PMID: 16344561
  • Hothorn T, Bühlmann P, Dudoit S, Molinaro A et al. Survival ensembles. Biostatistics 2006 Jul;7(3):355-73. PMID: 16344280
  • Grimes GR, Moodie S, Beattie JS, Craigon M et al. GPX-Macrophage Expression Atlas: a database for expression profiles of macrophages challenged with a variety of pro-inflammatory, anti-inflammatory, benign and pathogen insults. BMC Genomics 2005 Dec 12;6:178. PMID: 16343346
  • Argraves GL, Jani S, Barth JL, Argraves WS et al. ArrayQuest: a web resource for the analysis of DNA microarray data. BMC Bioinformatics 2005 Dec 1;6:287. PMID: 16321157
  • Chen Q, Qian K, Yan C et al. Cloning of cDNAs with PDCD2(C) domain and their expressions during apoptosis of HEK293T cells. Mol Cell Biochem 2005 Dec;280(1-2):185-91. PMID: 16311922
  • Dai M, Wang P, Boyd AD, Kostov G et al. Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res 2005 Nov 10;33(20):e175. PMID: 16284200
  • Li H, Zhan M et al. Systematic intervention of transcription for identifying network response to disease and cellular phenotypes. Bioinformatics 2006 Jan 1;22(1):96-102. PMID: 16278241
  • Balagopal P, Olney R, Darmaun D, Mougey E et al. Oxandrolone enhances skeletal muscle myosin synthesis and alters global gene expression profile in Duchenne muscular dystrophy. Am J Physiol Endocrinol Metab 2006 Mar;290(3):E530-9. PMID: 16263771
  • Van Winkle LJ, Tesch JK, Shah A, Campione AL et al. System B0,+ amino acid transport regulates the penetration stage of blastocyst implantation with possible long-term developmental consequences through adulthood. Hum Reprod Update 2006 Mar-Apr;12(2):145-57. PMID: 16251251
  • Pritlove DC, Gu M, Boyd CA, Randeva HS et al. Novel placental expression of 2,3-bisphosphoglycerate mutase. Placenta 2006 Aug;27(8):924-7. PMID: 16246416
  • Chiu RW, Chan CW, Zhong XY, Lapaire O et al. Fetal rhesus D mRNA is not detectable in maternal plasma. Clin Chem 2005 Nov;51(11):2210-1. PMID: 16244308
  • Bhattacharya S, Mariani TJ et al. Transformation of expression intensities across generations of Affymetrix microarrays using sequence matching and regression modeling. Nucleic Acids Res 2005 Oct 13;33(18):e157. PMID: 16224098
  • Hughes ALConsistent across-tissue signatures of differential gene expression in Crohn's disease. Immunogenetics 2005 Nov;57(10):709-16. PMID: 16189665
  • Hodanová K, Majewski J, Kublová M, Vyletal P et al. Mapping of a new candidate locus for uromodulin-associated kidney disease (UAKD) to chromosome 1q41. Kidney Int 2005 Oct;68(4):1472-82. PMID: 16164624
  • Wolfe CJ, Kohane IS, Butte AJ et al. Systematic survey reveals general applicability of "guilt-by-association" within gene coexpression networks. BMC Bioinformatics 2005 Sep 14;6:227. PMID: 16162296
  • Sczyrba A, Beckstette M, Brivanlou AH, Giegerich R et al. XenDB: full length cDNA prediction and cross species mapping in Xenopus laevis. BMC Genomics 2005 Sep 14;6:123. PMID: 16162280
  • Enver T, Soneji S, Joshi C, Brown J et al. Cellular differentiation hierarchies in normal and culture-adapted human embryonic stem cells. Hum Mol Genet 2005 Nov 1;14(21):3129-40. PMID: 16159889
  • Miller LD, Smeds J, George J, Vega VB et al. An expression signature for p53 status in human breast cancer predicts mutation status, transcriptional effects, and patient survival. Proc Natl Acad Sci U S A 2005 Sep 20;102(38):13550-5. PMID: 16141321
  • Watanabe H, Nonoguchi K, Sakurai T, Masuda T et al. A novel protein Depp, which is induced by progesterone in human endometrial stromal cells activates Elk-1 transcription factor. Mol Hum Reprod 2005 Jul;11(7):471-6. PMID: 16123073
  • Drukker M, Katchman H, Katz G, Even-Tov Friedman S et al. Human embryonic stem cells and their differentiated derivatives are less susceptible to immune rejection than adult cells. Stem Cells 2006 Feb;24(2):221-9. PMID: 16109762
  • Dybbs M, Ngai J, Kaplan JM et al. Using microarrays to facilitate positional cloning: identification of tomosyn as an inhibitor of neurosecretion. PLoS Genet 2005 Jul;1(1):6-16. PMID: 16103915
  • Broberg PA comparative review of estimates of the proportion unchanged genes and the false discovery rate. BMC Bioinformatics 2005 Aug 8;6:199. PMID: 16086831
  • Dawson K, Rodriguez RL, Malyj W et al. Sample phenotype clusters in high-density oligonucleotide microarray data sets are revealed using Isomap, a nonlinear algorithm. BMC Bioinformatics 2005 Aug 2;6:195. PMID: 16076401
  • Fisher JS, Ju JS, Oppelt PJ, Smith JL et al. Muscle contractions, AICAR, and insulin cause phosphorylation of an AMPK-related kinase. Am J Physiol Endocrinol Metab 2005 Dec;289(6):E986-92. PMID: 16030062
  • Garge NR, Page GP, Sprague AP, Gorman BS et al. Reproducible clusters from microarray research: whither? BMC Bioinformatics 2005 Jul 15;6 Suppl 2(Suppl 2):S10. PMID: 16026595
  • Stangeland B, Nestestog R, Grini PE, Skrbo N et al. Molecular analysis of Arabidopsis endosperm and embryo promoter trap lines: reporter-gene expression can result from T-DNA insertions in antisense orientation, in introns and in intergenic regions, in addition to sense insertion at the 5' end of genes. J Exp Bot 2005 Sep;56(419):2495-505. PMID: 16014362
  • Qian J, Esumi N, Chen Y, Wang Q et al. Identification of regulatory targets of tissue-specific transcription factors: application to retina-specific gene regulation. Nucleic Acids Res 2005;33(11):3479-91. PMID: 15967807
  • Jen CH, Michalopoulos I, Westhead DR, Meyer P et al. Natural antisense transcripts with coding capacity in Arabidopsis may have a regulatory role that is not linked to double-stranded RNA degradation. Genome Biol 2005;6(6):R51. PMID: 15960803
  • Reid JF, Lusa L, De Cecco L, Coradini D et al. Limits of predictive models using microarray data for breast cancer clinical treatment outcome. J Natl Cancer Inst 2005 Jun 15;97(12):927-30. PMID: 15956654
  • Kim SY, Volsky DJ et al. PAGE: parametric analysis of gene set enrichment. BMC Bioinformatics 2005 Jun 8;6:144. PMID: 15941488
  • Persson S, Wei H, Milne J, Page GP et al. Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets. Proc Natl Acad Sci U S A 2005 Jun 14;102(24):8633-8. PMID: 15932943
  • Hu J, Zou F, Wright FA et al. Practical FDR-based sample size calculations in microarray experiments. Bioinformatics 2005 Aug 1;21(15):3264-72. PMID: 15932903
  • Blaveri E, Simko JP, Korkola JE, Brewer JL et al. Bladder cancer outcome and subtype classification by gene expression. Clin Cancer Res 2005 Jun 1;11(11):4044-55. PMID: 15930339
  • Jiang T, Keating AE et al. AVID: an integrative framework for discovering functional relationships among proteins. BMC Bioinformatics 2005 Jun 1;6:136. PMID: 15929793
  • Ren XY, Fiers MW, Stiekema WJ, Nap JP et al. Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiol 2005 Jun;138(2):923-34. PMID: 15923337
  • Kliman RM, Bernal CA et al. Unusual usage of AGG and TTG codons in humans and their viruses. Gene 2005 Jun 6;352:92-9. PMID: 15922516
  • Larsson O, Wahlestedt C, Timmons JA et al. Considerations when using the significance analysis of microarrays (SAM) algorithm. BMC Bioinformatics 2005 May 29;6:129. PMID: 15921534
  • Vasta V, Sonnenburg WK, Yan C, Soderling SH et al. Identification of a new variant of PDE1A calmodulin-stimulated cyclic nucleotide phosphodiesterase expressed in mouse sperm. Biol Reprod 2005 Oct;73(4):598-609. PMID: 15901640
  • Chen SH, Babichev Y, Rodrigues N, Voskas D et al. Gene expression analysis of Tek/Tie2 signaling. Physiol Genomics 2005 Jul 14;22(2):257-67. PMID: 15899944
  • Wang H, He X, Band M, Wilson C et al. A study of inter-lab and inter-platform agreement of DNA microarray data. BMC Genomics 2005 May 11;6:71. PMID: 15888200
  • Park SG, Kim HJ, Min YH, Choi EC et al. Human lysyl-tRNA synthetase is secreted to trigger proinflammatory response. Proc Natl Acad Sci U S A 2005 May 3;102(18):6356-61. PMID: 15851690
  • Ozyildirim AM, Wistow GJ, Gao J, Wang J et al. The lacrimal gland transcriptome is an unusually rich source of rare and poorly characterized gene transcripts. Invest Ophthalmol Vis Sci 2005 May;46(5):1572-80. PMID: 15851553
  • Mercer SE, Ewton DZ, Deng X, Lim S et al. Mirk/Dyrk1B mediates survival during the differentiation of C2C12 myoblasts. J Biol Chem 2005 Jul 8;280(27):25788-801. PMID: 15851482
  • Zhou S, Liu Y, Weng J, Kong L et al. Expression profiles of mouse dendritic cell sarcoma are similar to those of hematopoietic stem cells or progenitors by clustering and principal component analyses. Biochem Biophys Res Commun 2005 May 27;331(1):194-202. PMID: 15845378
  • Cabusora L, Sutton E, Fulmer A, Forst CV et al. Differential network expression during drug and stress response. Bioinformatics 2005 Jun 15;21(12):2898-905. PMID: 15840709
  • Bing N, Hoeschele I et al. Genetical genomics analysis of a yeast segregant population for transcription network inference. Genetics 2005 Jun;170(2):533-42. PMID: 15781693
  • Bazzini C, Vezzoli V, Sironi C, Dossena S et al. Thiazide-sensitive NaCl-cotransporter in the intestine: possible role of hydrochlorothiazide in the intestinal Ca2+ uptake. J Biol Chem 2005 May 20;280(20):19902-10. PMID: 15781471
  • Boyle JGene-Expression Omnibus integration and clustering tools in SeqExpress. Bioinformatics 2005 May 15;21(10):2550-1. PMID: 15746290
  • Yant SR, Wu X, Huang Y, Garrison B et al. High-resolution genome-wide mapping of transposon integration in mammals. Mol Cell Biol 2005 Mar;25(6):2085-94. PMID: 15743807
  • Nakai H, Wu X, Fuess S, Storm TA et al. Large-scale molecular characterization of adeno-associated virus vector integration in mouse liver. J Virol 2005 Mar;79(6):3606-14. PMID: 15731255
  • Adamia S, Reiman T, Crainie M, Mant MJ et al. Intronic splicing of hyaluronan synthase 1 (HAS1): a biologically relevant indicator of poor outcome in multiple myeloma. Blood 2005 Jun 15;105(12):4836-44. PMID: 15731173
  • Lu T, Costello CM, Croucher PJ, Häsler R et al. Can Zipf's law be adapted to normalize microarrays? BMC Bioinformatics 2005 Feb 23;6:37. PMID: 15727680
  • Scott MS, Perkins T, Bunnell S, Pepin F et al. Identifying regulatory subnetworks for a set of genes. Mol Cell Proteomics 2005 May;4(5):683-92. PMID: 15722371
  • Michiels S, Koscielny S, Hill C et al. Prediction of cancer outcome with microarrays: a multiple random validation strategy. Lancet 2005 Feb 5-11;365(9458):488-92. PMID: 15705458
  • Singh AV, Knudsen KB, Knudsen TB et al. Computational systems analysis of developmental toxicity: design, development and implementation of a Birth Defects Systems Manager (BDSM). Reprod Toxicol 2005 Jan-Feb;19(3):421-39. PMID: 15686875
  • Vinterbo SA, Kim EY, Ohno-Machado L et al. Small, fuzzy and interpretable gene expression based classifiers. Bioinformatics 2005 May 1;21(9):1964-70. PMID: 15661797
  • Brockington M, Torelli S, Prandini P, Boito C et al. Localization and functional analysis of the LARGE family of glycosyltransferases: significance for muscular dystrophy. Hum Mol Genet 2005 Mar 1;14(5):657-65. PMID: 15661757
  • Staswick PE, Serban B, Rowe M, Tiryaki I et al. Characterization of an Arabidopsis enzyme family that conjugates amino acids to indole-3-acetic acid. Plant Cell 2005 Feb;17(2):616-27. PMID: 15659623
  • Sengoelge G, Luo W, Fine D, Perschl AM et al. A SAGE-based comparison between glomerular and aortic endothelial cells. Am J Physiol Renal Physiol 2005 Jun;288(6):F1290-300. PMID: 15657302
  • Zhou XJ, Kao MC, Huang H, Wong A et al. Functional annotation and network reconstruction through cross-platform integration of microarray data. Nat Biotechnol 2005 Feb;23(2):238-43. PMID: 15654329
  • Shen D, He J, Chang HR et al. In silico identification of breast cancer genes by combined multiple high throughput analyses. Int J Mol Med 2005 Feb;15(2):205-12. PMID: 15647832
  • Qin H, Wu WB, Comeron JM, Kreitman M et al. Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes. Genetics 2004 Dec;168(4):2245-60. PMID: 15611189
  • Tanino M, Debily MA, Tamura T, Hishiki T et al. The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms. Nucleic Acids Res 2005 Jan 1;33(Database issue):D567-72. PMID: 15608263
  • Tateno Y, Saitou N, Okubo K, Sugawara H et al. DDBJ in collaboration with mass-sequencing teams on annotation. Nucleic Acids Res 2005 Jan 1;33(Database issue):D25-8. PMID: 15608189
  • Sémon M, Mouchiroud D, Duret L et al. Relationship between gene expression and GC-content in mammals: statistical significance and biological relevance. Hum Mol Genet 2005 Feb 1;14(3):421-7. PMID: 15590696
  • Panepucci RA, Siufi JL, Silva WA Jr, Proto-Siquiera R et al. Comparison of gene expression of umbilical cord vein and bone marrow-derived mesenchymal stem cells. Stem Cells 2004;22(7):1263-78. PMID: 15579645
  • Rico-Bautista E, Greenhalgh CJ, Tollet-Egnell P, Hilton DJ et al. Suppressor of cytokine signaling-2 deficiency induces molecular and metabolic changes that partially overlap with growth hormone-dependent effects. Mol Endocrinol 2005 Mar;19(3):781-93. PMID: 15563548
  • Rodwell GE, Sonu R, Zahn JM, Lund J et al. A transcriptional profile of aging in the human kidney. PLoS Biol 2004 Dec;2(12):e427. PMID: 15562319
  • Shima N, Munroe RJ, Schimenti JC et al. The mouse genomic instability mutation chaos1 is an allele of Polq that exhibits genetic interaction with Atm. Mol Cell Biol 2004 Dec;24(23):10381-9. PMID: 15542845
  • Cheng KW, Lahad JP, Kuo WL, Lapuk A et al. The RAB25 small GTPase determines aggressiveness of ovarian and breast cancers. Nat Med 2004 Nov;10(11):1251-6. PMID: 15502842
  • Robinson SJ, Cram DJ, Lewis CT, Parkin IA et al. Maximizing the efficacy of SAGE analysis identifies novel transcripts in Arabidopsis. Plant Physiol 2004 Oct;136(2):3223-33. PMID: 15489285
  • Narezkina A, Taganov KD, Litwin S, Stoyanova R et al. Genome-wide analyses of avian sarcoma virus integration sites. J Virol 2004 Nov;78(21):11656-63. PMID: 15479807
  • Ott S, Hansen A, Kim SY, Miyano S et al. Superiority of network motifs over optimal networks and an application to the revelation of gene network evolution. Bioinformatics 2005 Jan 15;21(2):227-38. PMID: 15377501
  • Zerbini LF, Wang Y, Czibere A, Correa RG et al. NF-kappa B-mediated repression of growth arrest- and DNA-damage-inducible proteins 45alpha and gamma is essential for cancer cell survival. Proc Natl Acad Sci U S A 2004 Sep 14;101(37):13618-23. PMID: 15353598
  • Osier MV, Zhao H, Cheung KH et al. Handling multiple testing while interpreting microarrays with the Gene Ontology Database. BMC Bioinformatics 2004 Sep 6;5:124. PMID: 15350198
  • Kim RD, Park PJ et al. Improving identification of differentially expressed genes in microarray studies using information from public databases. Genome Biol 2004;5(9):R70. PMID: 15345054
  • Tasheva ES, Ke A, Conrad GW et al. Analysis of the expression of chondroadherin in mouse ocular and non-ocular tissues. Mol Vis 2004 Aug 18;10:544-54. PMID: 15332017
  • Reverter A, McWilliam SM, Barris W, Dalrymple BP et al. A rapid method for computationally inferring transcriptome coverage and microarray sensitivity. Bioinformatics 2005 Jan 1;21(1):80-9. PMID: 15308544
  • Jordan IK, Mariño-Ramírez L, Wolf YI, Koonin EV et al. Conservation and coevolution in the scale-free human gene coexpression network. Mol Biol Evol 2004 Nov;21(11):2058-70. PMID: 15282333
  • Comeron JMSelective and mutational patterns associated with gene expression in humans: influences on synonymous composition and intron presence. Genetics 2004 Jul;167(3):1293-304. PMID: 15280243
  • Puffenberger EG, Hu-Lince D, Parod JM, Craig DW et al. Mapping of sudden infant death with dysgenesis of the testes syndrome (SIDDT) by a SNP genome scan and identification of TSPYL loss of function. Proc Natl Acad Sci U S A 2004 Aug 10;101(32):11689-94. PMID: 15273283
  • Huopaniemi L, Kolmer M, Niittymäki J, Pelto-Huikko M et al. Inflammation-induced transcriptional regulation of Golgi transporters required for the synthesis of sulfo sLex glycan epitopes. Glycobiology 2004 Dec;14(12):1285-94. PMID: 15269183
  • Middendorf M, Kundaje A, Wiggins C, Freund Y et al. Predicting genetic regulatory response using classification. Bioinformatics 2004 Aug 4;20 Suppl 1:i232-40. PMID: 15262804
  • Volinia S, Evangelisti R, Francioso F, Arcelli D et al. GOAL: automated Gene Ontology analysis of expression profiles. Nucleic Acids Res 2004 Jul 1;32(Web Server issue):W492-9. PMID: 15215435
  • Haverty PM, Frith MC, Weng Z et al. CARRIE web service: automated transcriptional regulatory network inference and interactive analysis. Nucleic Acids Res 2004 Jul 1;32(Web Server issue):W213-6. PMID: 15215383
  • Lee HK, Hsu AK, Sajdak J, Qin J et al. Coexpression analysis of human genes across many microarray data sets. Genome Res 2004 Jun;14(6):1085-94. PMID: 15173114
  • Smid M, Dorssers LC et al. GO-Mapper: functional analysis of gene expression data using the expression level as a score to evaluate Gene Ontology terms. Bioinformatics 2004 Nov 1;20(16):2618-25. PMID: 15130934
  • Cheadle C, Cho-Chung YS, Becker KG, Vawter MP et al. Application of z-score transformation to Affymetrix data. Appl Bioinformatics 2003;2(4):209-17. PMID: 15130792
  • Laderoute KR, Calaoagan JM, Knapp M, Johnson RS et al. Glucose utilization is essential for hypoxia-inducible factor 1 alpha-dependent phosphorylation of c-Jun. Mol Cell Biol 2004 May;24(10):4128-37. PMID: 15121835
  • Challacombe JF, Rechtsteiner A, Gottardo R, Rocha LM et al. Evaluation of the host transcriptional response to human cytomegalovirus infection. Physiol Genomics 2004 Jun 17;18(1):51-62. PMID: 15069167
  • Vitt U, Gietzen D, Stevens K, Wingrove J et al. Identification of candidate disease genes by EST alignments, synteny, and expression and verification of Ensembl genes on rat chromosome 1q43-54. Genome Res 2004 Apr;14(4):640-50. PMID: 15060005
  • Oue N, Hamai Y, Mitani Y, Matsumura S et al. Gene expression profile of gastric carcinoma: identification of genes and tags potentially involved in invasion, metastasis, and carcinogenesis by serial analysis of gene expression. Cancer Res 2004 Apr 1;64(7):2397-405. PMID: 15059891
  • Mei H, Tarczy-Hornoch P, Mork P, Rossini AJ et al. Expression array annotation using the BioMediator biological data integration system and the BioConductor analytic platform. AMIA Annu Symp Proc 2003;2003:445-9. PMID: 14728212
  • Walter-Yohrling J, Cao X, Callahan M, Weber W et al. Identification of genes expressed in malignant cells that promote invasion. Cancer Res 2003 Dec 15;63(24):8939-47. PMID: 14695211
  • Divina P, Forejt J et al. The Mouse SAGE Site: database of public mouse SAGE libraries. Nucleic Acids Res 2004 Jan 1;32(Database issue):D482-3. PMID: 14681462
  • Gómez-Merino FC, Brearley CA, Ornatowska M, Abdel-Haliem ME et al. AtDGK2, a novel diacylglycerol kinase from Arabidopsis thaliana, phosphorylates 1-stearoyl-2-arachidonoyl-sn-glycerol and 1,2-dioleoyl-sn-glycerol and exhibits cold-inducible gene expression. J Biol Chem 2004 Feb 27;279(9):8230-41. PMID: 14665624
  • Wu X, Li Y, Crise B, Burgess SM et al. Transcription start regions in the human genome are favored targets for MLV integration. Science 2003 Jun 13;300(5626):1749-51. PMID: 12805549
  • Olivero M, Ruggiero T, Coltella N, Maffe' A et al. Amplification of repeat-containing transcribed sequences (ARTS): a transcriptome fingerprinting strategy to detect functionally relevant microsatellite mutations in cancer. Nucleic Acids Res 2003 Apr 1;31(7):e33. PMID: 12655021
  • Hauser MA, Li YJ, Takeuchi S, Walters R et al. Genomic convergence: identifying candidate genes for Parkinson's disease by combining serial analysis of gene expression and genetic linkage. Hum Mol Genet 2003 Mar 15;12(6):671-7. PMID: 12620972

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