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Select item 98519731.

A comprehensive SARS-CoV-2–human protein–protein interactome reveals COVID-19 pathobiology and potential host therapeutic targets

Yadi Zhou, Yuan Liu, Shagun Gupta, Mauricio I. Paramo, Yuan Hou, Chengsheng Mao, Yuan Luo, Julius Judd, Shayne Wierbowski, Marta Bertolotti, Mriganka Nerkar, Lara Jehi, Nir Drayman, Vlad Nicolaescu, Haley Gula, Savaş Tay, Glenn Randall, Peihui Wang, John T. Lis, Cédric Feschotte, Serpil C. Erzurum, Feixiong Cheng, Haiyuan Yu

Nat Biotechnol. Author manuscript; available in PMC 2023 Jan 20.

Published in final edited form as: Nat Biotechnol. 2023 Jan; 41(1): 128–139. Published online 2022 Oct 10. doi: 10.1038/s41587-022-01474-0

PMCID:: PMC9851973

Abstract Article PDF–4.0M

Select item 89091272.

Interactions of Severe Acute Respiratory Syndrome Coronavirus 2 Protein E With Cell Junctions and Polarity PSD-95/Dlg/ZO-1-Containing Proteins

Yanlei Zhu, Flavio Alvarez, Nicolas Wolff, Ariel Mechaly, Sébastien Brûlé, Benoit Neitthoffer, Sandrine Etienne-Manneville, Ahmed Haouz, Batiste Boëda, Célia Caillet-Saguy

Front Microbiol. 2022; 13: 829094. Published online 2022 Feb 23. doi: 10.3389/fmicb.2022.829094

PMCID:: PMC8909127

Abstract Article PDF–3.1M

Select item 82501313.

Host PDZ‐containing proteins targeted by SARS‐CoV‐2

Célia Caillet‐Saguy, Fabien Durbesson, Veronica V. Rezelj, Gergö Gogl, Quang Dinh Tran, Jean‐Claude Twizere, Marco Vignuzzi, Renaud Vincentelli, Nicolas Wolff

FEBS J. 2021 Sep; 288(17): 5148–5162. Published online 2021 May 1. doi: 10.1111/febs.15881

PMCID:: PMC8250131

Abstract Article PDF–1.4M

Select item 68023834.

E3 ubiquitin ligases LNX1 and LNX2 are major regulators of the presynaptic glycine transporter GlyT2

A. de la Rocha-Muñoz, E. Núñez, E. Arribas-González, B. López-Corcuera, C. Aragón, J. de Juan-Sanz

Sci Rep. 2019; 9: 14944. Published online 2019 Oct 18. doi: 10.1038/s41598-019-51301-x

PMCID:: PMC6802383

Abstract Article PDF–1.6M

Select item 67426465.

Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations

Robert Fragoza, Jishnu Das, Shayne D. Wierbowski, Jin Liang, Tina N. Tran, Siqi Liang, Juan F. Beltran, Christen A. Rivera-Erick, Kaixiong Ye, Ting-Yi Wang, Li Yao, Matthew Mort, Peter D. Stenson, David N. Cooper, Xiaomu Wei, Alon Keinan, John C. Schimenti, Andrew G. Clark, Haiyuan Yu

Nat Commun. 2019; 10: 4141. Published online 2019 Sep 12. doi: 10.1038/s41467-019-11959-3

PMCID:: PMC6742646

Abstract Article PDF–1.2M

Select item 63149576.

An interactome perturbation framework prioritizes damaging missense mutations for developmental disorders

Siwei Chen, Robert Fragoza, Lambertus Klei, Yuan Liu, Jiebiao Wang, Kathryn Roeder, Bernie Devlin, Haiyuan Yu

Nat Genet. Author manuscript; available in PMC 2019 Jul 1.

Published in final edited form as: Nat Genet. 2018 Jul; 50(7): 1032–1040. Published online 2018 Jun 11. doi: 10.1038/s41588-018-0130-z

PMCID:: PMC6314957

Abstract Article PDF–1.3M

Select item 62982547.

A protein-protein interaction map of the TNF-induced NF-κB signal transduction pathway

Emmy Van Quickelberghe, Delphine De Sutter, Geert van Loo, Sven Eyckerman, Kris Gevaert

Sci Data. 2018; 5: 180289. Published online 2018 Dec 18. doi: 10.1038/sdata.2018.289

PMCID:: PMC6298254

Abstract Article PDF–1.4M

Select item 58269268.

VIRMA mediates preferential m⁶A mRNA methylation in 3′UTR and near stop codon and associates with alternative polyadenylation

Yanan Yue, Jun Liu, Xiaolong Cui, Jie Cao, Guanzheng Luo, Zezhou Zhang, Tao Cheng, Minsong Gao, Xiao Shu, Honghui Ma, Fengqin Wang, Xinxia Wang, Bin Shen, Yizhen Wang, Xinhua Feng, Chuan He, Jianzhao Liu

Cell Discov. 2018; 4: 10. Published online 2018 Feb 27. doi: 10.1038/s41421-018-0019-0

PMCID:: PMC5826926

Abstract Article PDF–2.3M

Select item 56795979.

Proteomic analysis reveals novel ligands and substrates for LNX1 E3 ubiquitin ligase

Joan A. Lenihan, Orthis Saha, Paul W. Young

PLoS One. 2017; 12(11): e0187352. Published online 2017 Nov 9. doi: 10.1371/journal.pone.0187352

PMCID:: PMC5679597

Abstract Article PDF–10M

Select item 567858110.

RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination

Nila Roy Choudhury, Gregory Heikel, Maryia Trubitsyna, Peter Kubik, Jakub Stanislaw Nowak, Shaun Webb, Sander Granneman, Christos Spanos, Juri Rappsilber, Alfredo Castello, Gracjan Michlewski

BMC Biol. 2017; 15: 105. Published online 2017 Nov 8. doi: 10.1186/s12915-017-0444-9

PMCID:: PMC5678581

Abstract Article PDF–3.2M

Select item 488286711.

Systematic interactome mapping of acute lymphoblastic leukemia cancer gene products reveals EXT-1 tumor suppressor as a Notch1 and FBWX7 common interactor

Sarah Daakour, Leon Juvenal Hajingabo, Despoina Kerselidou, Aurelie Devresse, Richard Kettmann, Nicolas Simonis, Franck Dequiedt, Jean-Claude Twizere

BMC Cancer. 2016; 16: 335. Published online 2016 May 26. doi: 10.1186/s12885-016-2374-2

PMCID:: PMC4882867

Abstract Article PDF–1.8M

Select item 484876212.

Pooled‐matrix protein interaction screens using Barcode Fusion Genetics

Nozomu Yachie, Evangelia Petsalaki, Joseph C Mellor, Jochen Weile, Yves Jacob, Marta Verby, Sedide B Ozturk, Siyang Li, Atina G Cote, Roberto Mosca, Jennifer J Knapp, Minjeong Ko, Analyn Yu, Marinella Gebbia, Nidhi Sahni, Song Yi, Tanya Tyagi, Dayag Sheykhkarimli, Jonathan F Roth, Cassandra Wong, Louai Musa, Jamie Snider, Yi‐Chun Liu, Haiyuan Yu, Pascal Braun, Igor Stagljar, Tong Hao, Michael A Calderwood, Laurence Pelletier, Patrick Aloy, David E Hill, Marc Vidal, Frederick P Roth

Mol Syst Biol. 2016 Apr; 12(4): 863. Published online 2016 Apr 23. doi: 10.15252/msb.20156660

PMCID:: PMC4848762

Abstract Article PDF–2.8M

Select item 474145713.

Structural basis for the indispensable role of a unique zinc finger motif in LNX2 ubiquitination

Digant Nayak, J. Sivaraman

Oncotarget. 2015 Oct 27; 6(33): 34342–34357. Published online 2015 Oct 5. doi: 10.18632/oncotarget.5326

PMCID:: PMC4741457

Abstract Article PDF–5.5M

Select item 472930514.

Genetic amplification of the NOTCH modulator LNX2 upregulates the WNT/β-catenin pathway in colorectal cancer

Jordi Camps, Jason J. Pitt, Georg Emons, Amanda B. Hummon, Chanelle M. Case, Marian Grade, Tamara L. Jones, Quang T. Nguyen, B. Michael Ghadimi, Tim Beissbarth, Michael J. Difilippantonio, Natasha J. Caplen, Thomas Ried

Cancer Res. Author manuscript; available in PMC 2016 Jan 27.

Published in final edited form as: Cancer Res. 2013 Mar 15; 73(6): 2003–2013. Published online 2013 Jan 14. doi: 10.1158/0008-5472.CAN-12-3159

PMCID:: PMC4729305

Abstract Article PDF–1.7M

Select item 452198115.

Quantifying domain-ligand affinities and specificities by high-throughput holdup assay

Renaud Vincentelli, Katja Luck, Juline Poirson, Jolanta Polanowska, Julie Abdat, Marilyne Blémont, Jeremy Turchetto, François Iv, Kevin Ricquier, Marie-Laure Straub, Anne Forster, Patricia Cassonnet, Jean-Paul Borg, Yves Jacob, Murielle Masson, Yves Nominé, Jérôme Reboul, Nicolas Wolff, Sebastian Charbonnier, Gilles Travé

Nat Methods. Author manuscript; available in PMC 2016 Feb 1.

Published in final edited form as: Nat Methods. 2015 Aug; 12(8): 787–793. Published online 2015 Jun 8. doi: 10.1038/nmeth.3438

PMCID:: PMC4521981

Abstract Article PDF–1.3M

Select item 438092816.

Phospho-tyrosine dependent protein–protein interaction network

Arndt Grossmann, Nouhad Benlasfer, Petra Birth, Anna Hegele, Franziska Wachsmuth, Luise Apelt, Ulrich Stelzl

Mol Syst Biol. 2015 Mar; 11(3): 0794. Published online 2015 Mar 26. doi: 10.15252/msb.20145968

PMCID:: PMC4380928

Abstract Article PDF–1.9M

Select item 426658817.

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 393054618.

Discovery of genetic biomarkers contributing to variation in drug response of cytidine analogues using human lymphoblastoid cell lines

Liang Li, Brooke L Fridley, Krishna Kalari, Nifang Niu, Gregory Jenkins, Anthony Batzler, Ryan P Abo, Daniel Schaid, Liewei Wang

BMC Genomics. 2014; 15: 93. Published online 2014 Feb 1. doi: 10.1186/1471-2164-15-93

PMCID:: PMC3930546

Abstract Article PDF–2.0M

Select item 373297119.

EVI1 oncoprotein interacts with a large and complex network of proteins and integrates signals through protein phosphorylation

Emilie A. Bard-Chapeau, Jayantha Gunaratne, Pankaj Kumar, Belinda Q. Chua, Julius Muller, Frederic A. Bard, Walter Blackstock, Neal G. Copeland, Nancy A. Jenkins

Proc Natl Acad Sci U S A. 2013 Jul 30; 110(31): E2885–E2894. Published online 2013 Jul 15. doi: 10.1073/pnas.1309310110

PMCID:: PMC3732971

Abstract Article PDF–1.9M

Select item 352229520.

Direct and Indirect Control of Mitogen-activated Protein Kinase Pathway-associated Components, BRAP/IMP E3 Ubiquitin Ligase and CRAF/RAF1 Kinase, by the Deubiquitylating Enzyme USP15

Sebastian D. Hayes, Han Liu, Ewan MacDonald, Christopher M. Sanderson, Judy M. Coulson, Michael J. Clague, Sylvie Urbé

J Biol Chem. 2012 Dec 14; 287(51): 43007–43018. Published online 2012 Oct 26. doi: 10.1074/jbc.M112.386938

PMCID:: PMC3522295

Abstract Article PDF–2.6M

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