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Select item 92594961.

Whole-genome sequencing reveals host factors underlying critical COVID-19

Athanasios Kousathanas, Erola Pairo-Castineira, Konrad Rawlik, Alex Stuckey, Christopher A. Odhams, Susan Walker, Clark D. Russell, Tomas Malinauskas, Yang Wu, Jonathan Millar, Xia Shen, Katherine S. Elliott, Fiona Griffiths, Wilna Oosthuyzen, Kirstie Morrice, Sean Keating, Bo Wang, Daniel Rhodes, Lucija Klaric, Marie Zechner, Nick Parkinson, Afshan Siddiq, Peter Goddard, Sally Donovan, David Maslove, Alistair Nichol, Malcolm G. Semple, Tala Zainy, Fiona Maleady-Crowe, Linda Todd, Shahla Salehi, Julian Knight, Greg Elgar, Georgia Chan, Prabhu Arumugam, Christine Patch, Augusto Rendon, David Bentley, Clare Kingsley, Jack A. Kosmicki, Julie E. Horowitz, Aris Baras, Goncalo R. Abecasis, Manuel A. R. Ferreira, Anne Justice, Tooraj Mirshahi, Matthew Oetjens, Daniel J. Rader, Marylyn D. Ritchie, Anurag Verma, Tom A. Fowler, Manu Shankar-Hari, Charlotte Summers, Charles Hinds, Peter Horby, Lowell Ling, Danny McAuley, Hugh Montgomery, Peter J. M. Openshaw, Paul Elliott, Timothy Walsh, Albert Tenesa, GenOMICC investigators, 23andMe investigators, COVID-19 Human Genetics Initiative, Angie Fawkes, Lee Murphy, Kathy Rowan, Chris P. Ponting, Veronique Vitart, James F. Wilson, Jian Yang, Andrew D. Bretherick, Richard H. Scott, Sara Clohisey Hendry, Loukas Moutsianas, Andy Law, Mark J. Caulfield, J. Kenneth Baillie

Nature. 2022; 607(7917): 97–103. Published online 2022 Mar 7. doi: 10.1038/s41586-022-04576-6

PMCID:: PMC9259496

Abstract Article PDF–8.1M

Select item 81650302.

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 71699833.

A reference map of the human binary protein interactome

Katja Luck, Dae-Kyum Kim, Luke Lambourne, Kerstin Spirohn, Bridget E. Begg, Wenting Bian, Ruth Brignall, Tiziana Cafarelli, Francisco J. Campos-Laborie, Benoit Charloteaux, Dongsic Choi, Atina G. Coté, Meaghan Daley, Steven Deimling, Alice Desbuleux, Amélie Dricot, Marinella Gebbia, Madeleine F. Hardy, Nishka Kishore, Jennifer J. Knapp, István A. Kovács, Irma Lemmens, Miles W. Mee, Joseph C. Mellor, Carl Pollis, Carles Pons, Aaron D. Richardson, Sadie Schlabach, Bridget Teeking, Anupama Yadav, Mariana Babor, Dawit Balcha, Omer Basha, Christian Bowman-Colin, Suet-Feung Chin, Soon Gang Choi, Claudia Colabella, Georges Coppin, Cassandra D’Amata, David De Ridder, Steffi De Rouck, Miquel Duran-Frigola, Hanane Ennajdaoui, Florian Goebels, Liana Goehring, Anjali Gopal, Ghazal Haddad, Elodie Hatchi, Mohamed Helmy, Yves Jacob, Yoseph Kassa, Serena Landini, Roujia Li, Natascha van Lieshout, Andrew MacWilliams, Dylan Markey, Joseph N. Paulson, Sudharshan Rangarajan, John Rasla, Ashyad Rayhan, Thomas Rolland, Adriana San-Miguel, Yun Shen, Dayag Sheykhkarimli, Gloria M. Sheynkman, Eyal Simonovsky, Murat Taşan, Alexander Tejeda, Vincent Tropepe, Jean-Claude Twizere, Yang Wang, Robert J. Weatheritt, Jochen Weile, Yu Xia, Xinping Yang, Esti Yeger-Lotem, Quan Zhong, Patrick Aloy, Gary D. Bader, Javier De Las Rivas, Suzanne Gaudet, Tong Hao, Janusz Rak, Jan Tavernier, David E. Hill, Marc Vidal, Frederick P. Roth, Michael A. Calderwood

Nature. Author manuscript; available in PMC 2020 Oct 8.

Published in final edited form as: Nature. 2020 Apr; 580(7803): 402–408. Published online 2020 Apr 8. doi: 10.1038/s41586-020-2188-x

PMCID:: PMC7169983

Abstract Article PDF–5.4M

Select item 67415514.

HIV-1 Gag-Virus-Like Particles Inhibit HIV-1 Replication in Dendritic Cells and T Cells through IFN-α-Dependent Upregulation of APOBEC3G and 3F

Myint Oo Chang, Tomoyuki Suzuki, Norio Yamamoto, Megumi Watanabe, Hiroshi Takaku

J Innate Immun. 2012 Aug; 4(5-6): 579–590. Published online 2012 Jun 26. doi: 10.1159/000339402

PMCID:: PMC6741551

Abstract Article PDF–1.1M

Select item 65540245.

Decoding type I and III interferon signalling during viral infection

Emily V. Mesev, Robert A. LeDesma, Alexander Ploss

Nat Microbiol. 2019; 4(6): 914–924. Published online 2019 Apr 1. doi: 10.1038/s41564-019-0421-x

PMCID:: PMC6554024

Abstract Article PDF–1.4M

Select item 55316116.

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 46172117.

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 45056458.

HIV-1 Env and Nef Cooperatively Contribute to Plasmacytoid Dendritic Cell Activation via CD4-Dependent Mechanisms

Natalia J. Reszka-Blanco, Vijay Sivaraman, Liguo Zhang, Lishan Su

J Virol. 2015 Aug 1; 89(15): 7604–7611. Published online 2015 May 13. doi: 10.1128/JVI.00695-15

PMCID:: PMC4505645

Abstract Article PDF–531K

Select item 44413219.

Exome sequencing identifies novel compound heterozygous IFNA4 and IFNA10 mutations as a cause of impaired function in Crohn’s disease patients

Chuan-Xing Xiao, Jing-Jing Xiao, Hong-Zhi Xu, Huan-Huan Wang, Xu Chen, Yuan-Sheng Liu, Ping Li, Ying Shi, Yong-Zhan Nie, Shao Li, Kai-Chun Wu, Zhan-Ju Liu, Jian-Lin Ren, Bayasi Guleng

Sci Rep. 2015; 5: 10514. Published online 2015 May 22. doi: 10.1038/srep10514

PMCID:: PMC4441321

Abstract Article PDF–2.1M

Select item 426658810.

A proteome-scale map of the human interactome network

Thomas Rolland, Murat Taşan, Benoit Charloteaux, Samuel J. Pevzner, Quan Zhong, Nidhi Sahni, Song Yi, Irma Lemmens, Celia Fontanillo, Roberto Mosca, Atanas Kamburov, Susan D. Ghiassian, Xinping Yang, Lila Ghamsari, Dawit Balcha, Bridget E. Begg, Pascal Braun, Marc Brehme, Martin P. Broly, Anne-Ruxandra Carvunis, Dan Convery-Zupan, Roser Corominas, Jasmin Coulombe-Huntington, Elizabeth Dann, Matija Dreze, Amélie Dricot, Changyu Fan, Eric Franzosa, Fana Gebreab, Bryan J. Gutierrez, Madeleine F. Hardy, Mike Jin, Shuli Kang, Ruth Kiros, Guan Ning Lin, Katja Luck, Andrew MacWilliams, Jörg Menche, Ryan R. Murray, Alexandre Palagi, Matthew M. Poulin, Xavier Rambout, John Rasla, Patrick Reichert, Viviana Romero, Elien Ruyssinck, Julie M. Sahalie, Annemarie Scholz, Akash A. Shah, Amitabh Sharma, Yun Shen, Kerstin Spirohn, Stanley Tam, Alexander O. Tejeda, Shelly A. Wanamaker, Jean-Claude Twizere, Kerwin Vega, Jennifer Walsh, Michael E. Cusick, Yu Xia, Albert-László Barabási, Lilia M. Iakoucheva, Patrick Aloy, Javier De Las Rivas, Jan Tavernier, Michael A. Calderwood, David E. Hill, Tong Hao, Frederick P. Roth, Marc Vidal

Cell. Author manuscript; available in PMC 2015 Nov 20.

Published in final edited form as: Cell. 2014 Nov 20; 159(5): 1212–1226. doi: 10.1016/j.cell.2014.10.050

PMCID:: PMC4266588

Abstract Article PDF–3.1M

Select item 379364411.

An Interferon-α-Induced Tethering Mechanism Inhibits HIV-1 and Ebola Virus Particle Release but Is Counteracted by the HIV-1 Vpu Protein

Stuart J.D. Neil, Virginie Sandrin, Wesley I. Sundquist, Paul D. Bieniasz

Cell Host Microbe. Author manuscript; available in PMC 2013 Oct 9.

Published in final edited form as: Cell Host Microbe. 2007 Sep 13; 2(3): 193–203. doi: 10.1016/j.chom.2007.08.001

PMCID:: PMC3793644

Abstract Article PDF–5.4M

Select item 357135912.

Evidence for a Different Susceptibility of Primate Lentiviruses to Type I Interferons

Stéphanie Cordeil, Xuan-Nhi Nguyen, Gregory Berger, Stéphanie Durand, Michelle Ainouze, Andrea Cimarelli

J Virol. 2013 Mar; 87(5): 2587–2596. doi: 10.1128/JVI.02553-12

PMCID:: PMC3571359

Abstract Article PDF–974K

Select item 350413213.

HIV-1 gp120 impairs the induction of B cell responses by TLR9-activated plasmacytoid dendritic cells

Nancy P.Y. Chung, Katie Matthews, Per Johan Klasse, Rogier W. Sanders, John P. Moore

J Immunol. Author manuscript; available in PMC 2013 Dec 1.

Published in final edited form as: J Immunol. 2012 Dec 1; 189(11): 5257–5265. Published online 2012 Oct 24. doi: 10.4049/jimmunol.1201905

PMCID:: PMC3504132

Abstract Article PDF–2.3M

Select item 328692214.

Role of retroviral restriction factors in the interferon-α–mediated suppression of HIV-1 in vivo

Satish K. Pillai, Mohamed Abdel-Mohsen, John Guatelli, Mark Skasko, Alexander Monto, Katsuya Fujimoto, Steven Yukl, Warner C. Greene, Helen Kovari, Andri Rauch, Jacques Fellay, Manuel Battegay, Bernard Hirschel, Andrea Witteck, Enos Bernasconi, Bruno Ledergerber, Huldrych F. Günthard, Joseph K. Wong, the Swiss HIV Cohort Study, J Barth, M Battegay, E Bernasconi, J Böni, HC Bucher, C Burton-Jeangros, A Calmy, M Cavassini, C Cellerai, M Egger, L Elzi, J Fehr, J Fellay, M Flepp, P Francioli, H Furrer, CA Fux, M Gorgievski, H Günthard, D Haerry, B Hasse, HH Hirsch, B Hirschel, I Hösli, C Kahlert, L Kaiser, O Keiser, C Kind, T Klimkait, H Kovari, B Ledergerber, G Martinetti, B Martinez de Tejada, K Metzner, N Müller, D Nadal, G Pantaleo, A Rauch, S Regenass, M Rickenbach, C Rudin, P Schmid, D Schultze, F Schöni-Affolter, J Schüpbach, R Speck, P Taffé, P Tarr, A Telenti, A Trkola, P Vernazza, R Weber, S Yerly

Proc Natl Acad Sci U S A. 2012 Feb 21; 109(8): 3035–3040. Published online 2012 Feb 6. doi: 10.1073/pnas.1111573109

PMCID:: PMC3286922

Abstract Article PDF–1007K

Select item 323372715.

Associations of 9p21 variants with cutaneous malignant melanoma, nevi, and pigmentation phenotypes in melanoma-prone families with and without CDKN2A mutations

Xiaohong R Yang, Xueying (Sharon) Liang, Ruth M. Pfeiffer, William Wheeler, Dennis Maeder, Laurie Burdette, Meredith Yeager, Stephen Chanock, Margaret A. Tucker, Alisa M. Goldstein

Fam Cancer. Author manuscript; available in PMC 2011 Dec 8.

Published in final edited form as: Fam Cancer. 2010 Dec; 9(4): 625–633. doi: 10.1007/s10689-010-9356-3

PMCID:: PMC3233727

Abstract Article PDF–456K

Select item 317805916.

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 295089817.

Dengue hemorrhagic fever is associated with polymorphisms in JAK1

Luciano K Silva, Ronald E Blanton, Antonio R Parrado, Paulo S Melo, Vanessa G Morato, Eliana AG Reis, Juarez P Dias, Jesuina M Castro, Pedro FC Vasconcelos, Katrina AB Goddard, Maurício L Barreto, Mitermayer G Reis, M Glória Teixeira

Eur J Hum Genet. 2010 Nov; 18(11): 1221–1227. Published online 2010 Jun 30. doi: 10.1038/ejhg.2010.98

PMCID:: PMC2950898

Abstract Article PDF–446K

Select item 286079318.

Interactions of host APOBEC3 restriction factors with HIV-1 in vivo: implications for therapeutics

John S. Albin, Reuben S. Harris

Expert Rev Mol Med. Author manuscript; available in PMC 2010 Apr 28.

Published in final edited form as: Expert Rev Mol Med. 2010 Jan 22; 12: e4. Published online 2010 Jan 22. doi: 10.1017/S1462399409001343

PMCID:: PMC2860793

Abstract Article PDF–1.4M

Select item 285372119.

Large-Scale candidate gene analysis of spontaneous hepatitis C virus clearance

Timothy L Mosbruger, Priya Duggal, James J. Goedert, Gregory D Kirk, W. Keith Hoots, Leslie H Tobler, Michael Busch, Marion G. Peters, Hugo R Rosen, David L Thomas, Chloe L Thio

J Infect Dis. Author manuscript; available in PMC 2011 May 1.

Published in final edited form as: J Infect Dis. 2010 May 1; 201(9): 1371–1380. doi: 10.1086/651606