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Select item 81650301.

Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome

Edward L. Huttlin, Raphael J. Bruckner, Jose Navarrete-Perea, Joe R. Cannon, Kurt Baltier, Fana Gebreab, Melanie P. Gygi, Alexandra Thornock, Gabriela Zarraga, Stanley Tam, John Szpyt, Brandon M. Gassaway, Alexandra Panov, Hannah Parzen, Sipei Fu, Arvene Golbazi, Eila Maenpaa, Keegan Stricker, Sanjukta Guha Thakurta, Tian Zhang, Ramin Rad, Joshua Pan, David P. Nusinow, Joao A. Paulo, Devin K. Schweppe, Laura Pontano Vaites, J. Wade Harper, Steven P. Gygi

Cell. Author manuscript; available in PMC 2022 May 27.

Published in final edited form as: Cell. 2021 May 27; 184(11): 3022–3040.e28. Published online 2021 May 6. doi: 10.1016/j.cell.2021.04.011

PMCID:: PMC8165030

Abstract Article PDF–2.2M

Select item 65436712.

Upregulation of NPL4 promotes bladder cancer cell proliferation by inhibiting DXO destabilization of cyclin D1 mRNA

Bao-Sai Lu, Yue-Wei Yin, Yan-Ping Zhang, Ping-Ying Guo, Wei Li, Kai-Long Liu

Cancer Cell Int. 2019; 19: 149. Published online 2019 May 30. doi: 10.1186/s12935-019-0874-2

PMCID:: PMC6543671

Abstract Article PDF–1.6M

Select item 65271303.

Structural and mechanistic basis of the mammalian Nudt12 RNA deNADding

Ewa Grudzien-Nogalska, Yixuan Wu, Xinfu Jiao, Huijuan Cui, Maria K. Mateyak, Ronald P. Hart, Liang Tong, Megerditch Kiledjian

Nat Chem Biol. Author manuscript; available in PMC 2019 Nov 17.

Published in final edited form as: Nat Chem Biol. 2019 Jun; 15(6): 575–582. Published online 2019 May 17. doi: 10.1038/s41589-019-0293-7

PMCID:: PMC6527130

Abstract Article PDF–2.1M

Select item 61666824.

Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei

Domenico Fasci, Hugo van Ingen, Richard A. Scheltema, Albert J. R. Heck

Mol Cell Proteomics. 2018 Oct; 17(10): 2018–2033. Published online 2018 Jul 18. doi: 10.1074/mcp.RA118.000924

PMCID:: PMC6166682

Abstract Article PDF–3.8M

Select item 60074905.

miR-122 does not impact recognition of the HCV genome by innate sensors of RNA but rather protects the 5′ end from the cellular pyrophosphatases, DOM3Z and DUSP11

Yalena Amador-Cañizares, Annie Bernier, Joyce A Wilson, Selena M Sagan

Nucleic Acids Res. 2018 Jun 1; 46(10): 5139–5158. Published online 2018 Apr 17. doi: 10.1093/nar/gky273

PMCID:: PMC6007490

Abstract Article PDF–7.7M

Select item 58778316.

2'-O-methylation of the mRNA cap protects RNAs from decapping and degradation by DXO

Frédéric Picard-Jean, Carolin Brand, Maude Tremblay-Létourneau, Andréa Allaire, Maxime C. Beaudoin, Simon Boudreault, Cyntia Duval, Julien Rainville-Sirois, Francis Robert, Jerry Pelletier, Brian J. Geiss, Martin Bisaillon

PLoS One. 2018; 13(3): e0193804. Published online 2018 Mar 30. doi: 10.1371/journal.pone.0193804

Correction in:: PLoS One. 2018; 13(8): e0202308.

PMCID:: PMC5877831

Abstract Article PDF–5.6M

Select item 56306007.

Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism

Giulia Antoniali, Fabrizio Serra, Lisa Lirussi, Mikiei Tanaka, Chiara D’Ambrosio, Shiheng Zhang, Slobodanka Radovic, Emiliano Dalla, Yari Ciani, Andrea Scaloni, Mengxia Li, Silvano Piazza, Gianluca Tell

Nat Commun. 2017; 8: 797. Published online 2017 Oct 6. doi: 10.1038/s41467-017-00842-8

PMCID:: PMC5630600

Abstract Article PDF–2.3M

Select item 55316118.

Architecture of the human interactome defines protein communities and disease networks

Edward L. Huttlin, Raphael J. Bruckner, Joao A. Paulo, Joe R. Cannon, Lily Ting, Kurt Baltier, Greg Colby, Fana Gebreab, Melanie P. Gygi, Hannah Parzen, John Szpyt, Stanley Tam, Gabriela Zarraga, Laura Pontano-Vaites, Sharan Swarup, Anne E. White, Devin K. Schweppe, Ramin Rad, Brian K. Erickson, Robert A. Obar, K.G. Guruharsha, Kejie Li, Spyros Artavanis-Tsakonas, Steven P. Gygi, J. Wade Harper

Nature. Author manuscript; available in PMC 2017 Nov 17.

Published in final edited form as: Nature. 2017 May 25; 545(7655): 505–509. Published online 2017 May 17. doi: 10.1038/nature22366

PMCID:: PMC5531611

Abstract Article PDF–2.7M

Select item 53714299.

5′-end NAD⁺ cap in human cells promotes RNA decay through DXO-mediated deNADding

Xinfu Jiao, Selom K. Doamekpor, Jeremy G. Bird, Bryce E. Nickels, Liang Tong, Ronald P. Hart, Megerditch Kiledjian

Cell. Author manuscript; available in PMC 2018 Mar 9.

Published in final edited form as: Cell. 2017 Mar 9; 168(6): 1015–1027.e10. doi: 10.1016/j.cell.2017.02.019

PMCID:: PMC5371429

Abstract Article PDF–901K

Select item 503652710.

Panorama of ancient metazoan macromolecular complexes

Cuihong Wan, Blake Borgeson, Sadhna Phanse, Fan Tu, Kevin Drew, Greg Clark, Xuejian Xiong, Olga Kagan, Julian Kwan, Alexandr Berzginov, Kyle Chessman, Swati Pal, Graham Cromar, Ophelia Papoulas, Zuyao Ni, Daniel R. Boutz, Snejana Stoilova, Pierre C. Havugimana, Xinghua Guo, Ramy H. Malty, Mihail Sarov, Jack Greenblatt, Mohan Babu, Brent Derry, Elisabeth Tillier, John B. Wallingford, John Parkinson, Edward M. Marcotte, Andrew Emili

Nature. Author manuscript; available in PMC 2016 Sep 26.

Published in final edited form as: Nature. 2015 Sep 17; 525(7569): 339–344. Published online 2015 Sep 7. doi: 10.1038/nature14877

PMCID:: PMC5036527

Abstract Article PDF–4.7M

Select item 461721111.

The BioPlex Network: A Systematic Exploration of the Human Interactome

Edward L. Huttlin, Lily Ting, Raphael J. Bruckner, Fana Gebreab, Melanie P. Gygi, John Szpyt, Stanley Tam, Gabriela Zarraga, Greg Colby, Kurt Baltier, Rui Dong, Virginia Guarani, Laura Pontano Vaites, Alban Ordureau, Ramin Rad, Brian K. Erickson, Martin Wühr, Joel Chick, Bo Zhai, Deepak Kolippakkam, Julian Mintseris, Robert A. Obar, Tim Harris, Spyros Artavanis-Tsakonas, Mathew E. Sowa, Pietro DeCamilli, Joao A. Paulo, J. Wade Harper, Steven P. Gygi

Cell. Author manuscript; available in PMC 2016 Jul 16.

Published in final edited form as: Cell. 2015 Jul 16; 162(2): 425–440. doi: 10.1016/j.cell.2015.06.043

PMCID:: PMC4617211

Abstract Article PDF–2.2M

Select item 383279012.

Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array

Rosalind A Eeles, Ali Amin Al Olama, Sara Benlloch, Edward J Saunders, Daniel A Leongamornlert, Malgorzata Tymrakiewicz, Maya Ghoussaini, Craig Luccarini, Joe Dennis, Sarah Jugurnauth-Little, Tokhir Dadaev, David E Neal, Freddie C Hamdy, Jenny L Donovan, Ken Muir, Graham G Giles, Gianluca Severi, Fredrik Wiklund, Henrik Gronberg, Christopher A Haiman, Fredrick Schumacher, Brian Henderson, Loic Le Marchand, Sara Lindstrom, Peter Kraft, David J Hunter, Susan Gapstur, Stephen J Chanock, Sonja I Berndt, Demetrius Albanes, Gerald Andriole, Johanna Schleutker, Maren Weischer, Federico Canzian, Elio Riboli, Tim J Key, Ruth Travis, Daniele Campa, Sue A Ingles, Esther M John, Richard B Hayes, Paul DP Pharoah, Nora Pashayan, Kay-Tee Khaw, Janet Stanford, Elaine A Ostrander, Lisa B Signorello, Stephen N Thibodeau, Dan Schaid, Christiane Maier, Walther Vogel, Adam S Kibel, Cezary Cybulski, Jan Lubinski, Cannon-Albright, Hermann Brenner, Jong Y Park, Radka Kaneva, Jyotsna Batra, Amanda B Spurdle, Judith A Clements, Manuel R Teixeira, Ed Dicks, Andrew Lee, Alison Dunning, Caroline Baynes, Don Conroy, Melanie J Maranian, Shahana Ahmed, Koveela Govindasami, Michelle Guy, Rosemary A Wilkinson, Emma J Sawyer, Angela Morgan, David P Dearnaley, Alan Horwich, Robert A Huddart, Vincent S Khoo, Christopher C Parker, Nicholas J Van As, J Woodhouse, Alan Thompson, Tim Dudderidge, Chris Ogden, Colin Cooper, Artitaya Lophatananon, Angela Cox, Melissa Southey, John L Hopper, Dallas R English, Markus Aly, Jan Adolfsson, Jiangfeng Xu, Siqun Zheng, Meredith Yeager, Rudolf Kaaks, W Ryan Diver, Mia M Gaudet, Mariana Stern, Roman Corral, Amit D Joshi, Ahva Shahabi, Tiina Wahlfors, Teuvo J Tammela, Anssi Auvinen, Jarmo Virtamo, Peter Klarskov, Børge G Nordestgaard, Andreas Røder, Sune F Nielsen, Stig E Bojesen, Afshan Siddiq, Liesel FitzGerald, Suzanne Kolb, Erika Kwon, Danielle Karyadi, William J Blot, Wei Zheng, Qiuyin Cai, Shannon K McDonnell, Antje Rinckleb, Bettina Drake, Graham Colditz, Dominika Wokolorczyk, Robert A Stephenson, Craig Teerlink, Heiko Muller, Dietrich Rothenbacher, Thomas A Sellers, Hui-Yi Lin, Chavdar Slavov, Vanio Mitev, Felicity Lose, Srilakshmi Srinivasan, Sofia Maia, Paula Paulo, Ethan Lange, Kathleen A Cooney, Antonis Antoniou, Daniel Vincent, François Bacot, Tessier, The COGS–Cancer Research UKGWAS–ELLIPSE(part of GAME-ON) Initiative, Australian Prostate Bioresource, UK Genetic Prostate Study Collaborators/British Association of Urological Surgeons’ Section of Oncology, UK ProtecT(Prostate testing for cancer and Treatment) Collaborators, PRACTICAL(Prostate Association Group to Investigate Cancer-Associated Alterations in the Genome) Consortium, Zsofia Kote-Jarai, Douglas F Easton

Nat Genet. Author manuscript; available in PMC 2013 Nov 19.

Published in final edited form as: Nat Genet. 2013 Apr; 45(4): 10.1038/ng.2560. doi: 10.1038/ng.2560

PMCID:: PMC3832790

Abstract Article PDF–1.5M

Select item 365747513.

GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children

Jin Li, Joseph T. Glessner, Haitao Zhang, Cuiping Hou, Zhi Wei, Jonathan P. Bradfield, Frank D. Mentch, Yiran Guo, Cecilia Kim, Qianghua Xia, Rosetta M. Chiavacci, Kelly A. Thomas, Haijun Qiu, Struan F.A. Grant, Susan L. Furth, Hakon Hakonarson, Patrick M.A. Sleiman

Hum Mol Genet. 2013 Apr 1; 22(7): 1457–1464. Published online 2012 Dec 20. doi: 10.1093/hmg/dds534

PMCID:: PMC3657475

Abstract Article PDF–147K

Select item 363047714.

A mammalian pre-mRNA 5′-end capping quality control mechanism and an unexpected link of capping to pre-mRNA processing

Xinfu Jiao, Jeong Ho Chang, Turgay Kilic, Liang Tong, Megerditch Kiledjian

Mol Cell. Author manuscript; available in PMC 2014 Apr 11.

Published in final edited form as: Mol Cell. 2013 Apr 11; 50(1): 104–115. Published online 2013 Mar 21. doi: 10.1016/j.molcel.2013.02.017

PMCID:: PMC3630477

Abstract Article PDF–4.8M

Select item 317805915.

Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium

Pascale Gaudet, Michael S. Livstone, Suzanna E. Lewis, Paul D. Thomas

Brief Bioinform. 2011 Sep; 12(5): 449–462. Published online 2011 Aug 27. doi: 10.1093/bib/bbr042

PMCID:: PMC3178059

Abstract Article PDF–1.0M

Select item 294516816.

Variation at the NFATC2 Locus Increases the Risk of Thiazolidinedione-Induced Edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) Study

Swneke D. Bailey, Changchun Xie, Ron Do, Alexandre Montpetit, Rafael Diaz, Viswanathan Mohan, Bernard Keavney, Salim Yusuf, Hertzel C. Gerstein, James C. Engert, Sonia Anand, on behalf of the DREAM investigators

Diabetes Care. 2010 Oct; 33(10): 2250–2253. Published online 2010 Jul 13. doi: 10.2337/dc10-0452

PMCID:: PMC2945168

Abstract Article PDF–153K

Select item 286078317.

Transcriptomic and genetic studies identify IL-33 as a candidate gene for Alzheimer’s disease

J Chapuis, D Hot, F Hansmannel, O Kerdraon, S Ferreira, C Hubans, CA Maurage, L Huot, F Bensemain, G Laumet, AM Ayral, N Fievet, JJ Hauw, ST DeKosky, Y Lemoine, T Iwatsubo, F Wavrant-Devrièze, JF Dartigues, C Tzourio, L Buée, F Pasquier, C Berr, D Mann, C Lendon, A Alpérovitch, MI Kamboh, P Amouyel, JC Lambert

Mol Psychiatry. Author manuscript; available in PMC 2010 Apr 28.

Published in final edited form as: Mol Psychiatry. 2009 Nov; 14(11): 1004–1016. Published online 2009 Feb 10. doi: 10.1038/mp.2009.10

PMCID:: PMC2860783

Abstract Article PDF–1.3M

Select item 277583218.

Gene-centric Association Signals for Lipids and Apolipoproteins Identified via the HumanCVD BeadChip

Philippa J. Talmud, Fotios Drenos, Sonia Shah, Tina Shah, Jutta Palmen, Claudio Verzilli, Tom R. Gaunt, Jacky Pallas, Ruth Lovering, Kawah Li, Juan Pablo Casas, Reecha Sofat, Meena Kumari, Santiago Rodriguez, Toby Johnson, Stephen J. Newhouse, Anna Dominiczak, Nilesh J. Samani, Mark Caulfield, Peter Sever, Alice Stanton, Denis C. Shields, on behalf of the ASCOT investigators, Sandosh Padmanabhan, Olle Melander, Claire Hastie, Christian Delles, on behalf of the NORDIL investigators, Shah Ebrahim, Michael G. Marmot, George Davey Smith, Debbie A. Lawlor, Patricia B. Munroe, for the BRIGHT Consortium, Ian N. Day, Mika Kivimaki, John Whittaker, Steve E. Humphries, Aroon D. Hingorani

Am J Hum Genet. 2009 Nov 13; 85(5): 628–642. doi: 10.1016/j.ajhg.2009.10.014

PMCID:: PMC2775832

Abstract Article PDF–2.8M

Select item 52892819.

The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)

Genome Res. 2004 Oct; 14(10b): 2121–2127. doi: 10.1101/gr.2596504

Correction in:: Genome Res. 2006 Jun; 16(6): 804.

PMCID:: PMC528928

Abstract Article PDF–140K

Select item 44214720.

A Protein Interaction Framework for Human mRNA Degradation

Ben Lehner, Christopher M. Sanderson

Genome Res. 2004 Jul; 14(7): 1315–1323. doi: 10.1101/gr.2122004

PMCID:: PMC442147

Abstract Article PDF–272K

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