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PMC Full-Text Search Results

Items: 1 to 20 of 26

1.
Distinctive microbial community and genome structure in coastal seawater from a human-made port and nearby offshore island in northern Taiwan facing the Northwestern Pacific Ocean
Chi-Yu Shih, Shiow-Yi Chen, Chun-Ru Hsu, Ching-Hsiang Chin, Wei-Chih Chiu, Mei-Hung Chang, Lee-Kuo Kang, Cing-Han Yang, Tun-Wen Pai, Chin-Hwa Hu, Pang-Hung Hsu, Wen-Shyong Tzou
PLoS One. 2023; 18(6): e0284022. Published online 2023 Jun 9. doi: 10.1371/journal.pone.0284022
PMCID:
PMC10256201
AbstractArticlePDF–4.2M
2.
Thioesterase enzyme families: Functions, structures, and mechanisms
Benjamin T. Caswell, Caio C. de Carvalho, Hung Nguyen, Monikrishna Roy, Tin Nguyen, David C. Cantu
Protein Sci. 2022 Mar; 31(3): 652–676. Published online 2022 Jan 4. doi: 10.1002/pro.4263
PMCID:
PMC8862431
AbstractArticlePDF–5.2M
3.
Metabolic models and gene essentiality data reveal essential and conserved metabolism in prokaryotes
Joana C. Xavier, Kiran Raosaheb Patil, Isabel Rocha
PLoS Comput Biol. 2018 Nov; 14(11): e1006556. Published online 2018 Nov 16. doi: 10.1371/journal.pcbi.1006556
PMCID:
PMC6283598
AbstractArticlePDF–3.4M
4.
Sequence-based information-theoretic features for gene essentiality prediction
Dawit Nigatu, Patrick Sobetzko, Malik Yousef, Werner Henkel
BMC Bioinformatics. 2017; 18: 473. Published online 2017 Nov 9. doi: 10.1186/s12859-017-1884-5
PMCID:
PMC5679510
AbstractArticlePDF–845K
5.
Unsupervised statistical discovery of spaced motifs in prokaryotic genomes
Hao Tong, Paul Schliekelman, Jan Mrázek
BMC Genomics. 2017; 18: 27. Published online 2017 Jan 5. doi: 10.1186/s12864-016-3400-0
PMCID:
PMC5217627
AbstractArticlePDF–775K
6.
Genome-wide gene order distances support clustering the gram-positive bacteria
Christopher H. House, Matteo Pellegrini, Sorel T. Fitz-Gibbon
Front Microbiol. 2014; 5: 785. Published online 2015 Jan 20. doi: 10.3389/fmicb.2014.00785
PMCID:
PMC4299520
AbstractArticlePDF–8.7M
7.
Metabolic Network Analysis-Based Identification of Antimicrobial Drug Targets in Category A Bioterrorism Agents
Yong-Yeol Ahn, Deok-Sun Lee, Henry Burd, William Blank, Vinayak Kapatral
PLoS One. 2014; 9(1): e85195. Published online 2014 Jan 15. doi: 10.1371/journal.pone.0085195
PMCID:
PMC3893172
AbstractArticlePDF–498K
8.
Correction: Functional Annotation of Conserved Hypothetical Proteins from Haemophilus influenzae Rd KW20
Mohd Shahbaaz, Md. Imtaiyaz Hassan, Faizan Ahmad
PLoS One. 2014; 9(1): 10.1371/annotation/23d005b8-fe53-4b14-a31c-915be3e839b5. Published online 2014 Jan 13. doi: 10.1371/annotation/23d005b8-fe53-4b14-a31c-915be3e839b5
Corrects:
PLoS One. 2013; 8(12): e84263.
PMCID:
PMC4102170
Correction
9.
The evolutionary rate of antibacterial drug targets
Arkadiusz Gladki, Szymon Kaczanowski, Pawel Szczesny, Piotr Zielenkiewicz
BMC Bioinformatics. 2013; 14: 36. Published online 2013 Feb 1. doi: 10.1186/1471-2105-14-36
PMCID:
PMC3598507
AbstractArticlePDF–559K
10.
The origin of a derived superkingdom: how a gram-positive bacterium crossed the desert to become an archaeon
Ruben E Valas, Philip E Bourne
Biol Direct. 2011; 6: 16. Published online 2011 Feb 28. doi: 10.1186/1745-6150-6-16
PMCID:
PMC3056875
AbstractArticlePDF–1.0M
11.
Identification and characterization of repetitive extragenic palindromes (REP)-associated tyrosine transposases: implications for REP evolution and dynamics in bacterial genomes
Jaroslav Nunvar, Tereza Huckova, Irena Licha
BMC Genomics. 2010; 11: 44. Published online 2010 Jan 19. doi: 10.1186/1471-2164-11-44
PMCID:
PMC2817692
AbstractArticlePDF–1.2M
12.
Identification of Prophages in Bacterial Genomes by Dinucleotide Relative Abundance Difference
K. V. Srividhya, V. Alaguraj, G. Poornima, Dinesh Kumar, G. P. Singh, L. Raghavenderan, A. V. S. K. Mohan Katta, Preeti Mehta, S. Krishnaswamy
PLoS One. 2007; 2(11): e1193. Published online 2007 Nov 21. doi: 10.1371/journal.pone.0001193
PMCID:
PMC2075365
AbstractArticlePDF–295K
13.
Information theoretic perspective on genome clustering
Alaguraj Veluchamy, Preeti Mehta, K.V. Srividhya, Hirendra Vikram, M.K. Govind, Ramneek Gupta, Abdul Aziz Bin Dukhyil, Raed Abdullah Alharbi, Saleh Abdullah Aloyuni, Mohamed M. Hassan, S. Krishnaswamy
Saudi J Biol Sci. 2021 Mar; 28(3): 1867–1889. Published online 2020 Dec 31. doi: 10.1016/j.sjbs.2020.12.039
PMCID:
PMC7938122
AbstractArticlePDF–1.5M
14.
BacFITBase: a database to assess the relevance of bacterial genes during host infection
Javier Macho Rendón, Benjamin Lang, Gian Gaetano Tartaglia, Marc Torrent Burgas
Nucleic Acids Res. 2020 Jan 8; 48(D1): D511–D516. Published online 2019 Oct 29. doi: 10.1093/nar/gkz931
PMCID:
PMC7145566
AbstractArticlePDF–1009K
15.
Reconstructing Phylogeny by Aligning Multiple Metabolic Pathways Using Functional Module Mapping
Yiran Huang, Cheng Zhong, Hai Xiang Lin, Jianyi Wang, Yuzhong Peng
Molecules. 2018 Feb; 23(2): 486. Published online 2018 Feb 23. doi: 10.3390/molecules23020486
PMCID:
PMC6017379
AbstractArticlePDF–7.0M
16.
OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines
Wei-Hua Chen, Guanting Lu, Xiao Chen, Xing-Ming Zhao, Peer Bork
Nucleic Acids Res. 2017 Jan 4; 45(Database issue): D940–D944. Published online 2016 Oct 30. doi: 10.1093/nar/gkw1013
PMCID:
PMC5210522
AbstractArticlePDF–128K
17.
Codon usage bias in prokaryotic pyrimidine-ending codons is associated with the degeneracy of the encoded amino acids
Naama Wald, Maya Alroy, Maya Botzman, Hanah Margalit
Nucleic Acids Res. 2012 Aug; 40(15): 7074–7083. Published online 2012 May 11. doi: 10.1093/nar/gks348
PMCID:
PMC3424539
AbstractArticlePDF–3.5M
18.
Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms
Arshan Nasir, Aisha Naeem, Muhammad Jawad Khan, Horacio D. Lopez-Nicora, Gustavo Caetano-Anollés
Genes (Basel) 2011 Dec; 2(4): 869–911. Published online 2011 Nov 8. doi: 10.3390/genes2040869
PMCID:
PMC3927607
AbstractArticlePDF–2.0M
19.
Computational prediction of essential genes in an unculturable endosymbiotic bacterium, Wolbachia of Brugia malayi
Alexander G Holman, Paul J Davis, Jeremy M Foster, Clotilde KS Carlow, Sanjay Kumar
BMC Microbiol. 2009; 9: 243. Published online 2009 Nov 28. doi: 10.1186/1471-2180-9-243
PMCID:
PMC2794283
AbstractArticlePDF–1.0M
20.
Assessing the Quality of Whole Genome Alignments in Bacteria
Firas Swidan, Ron Shamir
Adv Bioinformatics. 2009; 2009: 749027. Published online 2009 Nov 15. doi: 10.1155/2009/749027
PMCID:
PMC2798158
AbstractArticlePDF–608K

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