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Items: 14

1.
Self-supervised deep learning encodes high-resolution features of protein subcellular localization
Hirofumi Kobayashi, Keith C. Cheveralls, Manuel D. Leonetti, Loic A. Royer
Nat Methods. 2022; 19(8): 995–1003. Published online 2022 Jul 25. doi: 10.1038/s41592-022-01541-z
PMCID:
PMC9349041
AbstractArticlePDF–6.1M
2.
OpenCell: proteome-scale endogenous tagging enables the cartography of human cellular organization
Nathan H. Cho, Keith C. Cheveralls, Andreas-David Brunner, Kibeom Kim, André C. Michaelis, Preethi Raghavan, Hirofumi Kobayashi, Laura Savy, Jason Y. Li, Hera Canaj, James Y.S. Kim, Edna M. Stewart, Christian Gnann, Frank McCarthy, Joana P. Cabrera, Rachel M. Brunetti, Bryant B. Chhun, Greg Dingle, Marco Y. Hein, Bo Huang, Shalin B. Mehta, Jonathan S. Weissman, Rafael Gómez-Sjöberg, Daniel N. Itzhak, Loic A. Royer, Matthias Mann, Manuel D. Leonetti
Science. Author manuscript; available in PMC 2022 Sep 11.
Published in final edited form as: Science. 2022 Mar 11; 375(6585): eabi6983. Published online 2022 Mar 11. doi: 10.1126/science.abi6983
PMCID:
PMC9119736
AbstractArticlePDF–3.3M
3.
SARS‐CoV‐2–host proteome interactions for antiviral drug discovery
Xiaonan Liu, Sini Huuskonen, Tuomo Laitinen, Taras Redchuk, Mariia Bogacheva, Kari Salokas, Ina Pöhner, Tiina Öhman, Arun Kumar Tonduru, Antti Hassinen, Lisa Gawriyski, Salla Keskitalo, Maria K Vartiainen, Vilja Pietiäinen, Antti Poso, Markku Varjosalo
Mol Syst Biol. 2021 Nov; 17(11): e10396. Published online 2021 Oct 28. doi: 10.15252/msb.202110396
PMCID:
PMC8552907
AbstractArticlePDF–3.9M
4.
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
AbstractArticlePDF–2.2M
5.
The STUbL RNF4 regulates protein group SUMOylation by targeting the SUMO conjugation machinery
Ramesh Kumar, Román González-Prieto, Zhenyu Xiao, Matty Verlaan-de Vries, Alfred C. O. Vertegaal
Nat Commun. 2017; 8: 1809. Published online 2017 Nov 27. doi: 10.1038/s41467-017-01900-x
PMCID:
PMC5703878
AbstractArticlePDF–3.7M
6.
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
AbstractArticlePDF–2.7M
7.
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
AbstractArticlePDF–2.2M
8.
Global mapping of herpesvirus-host protein complexes reveals a novel transcription strategy for late genes
Zoe H. Davis, Erik Verschueren, Gwendolyn M. Jang, Kevin Kleffman, Jeffrey R. Johnson, Jimin Park, John Von Dollen, M. Cyrus Maher, Tasha Johnson, William Newton, Stefanie Jäger, Michael Shales, Julie Horner, Ryan D. Hernandez, Nevan J. Krogan, Britt A. Glaunsinger
Mol Cell. Author manuscript; available in PMC 2016 Jan 22.
Published in final edited form as: Mol Cell. 2015 Jan 22; 57(2): 349–360. Published online 2014 Dec 24. doi: 10.1016/j.molcel.2014.11.026
PMCID:
PMC4305015
AbstractArticlePDF–1.9M
9.
Joint Effects of Common Genetic Variants on the Risk for Type 2 Diabetes in U.S. Men and Women of European Ancestry
Marilyn C. Cornelis, Lu Qi, Cuilin Zhang, Peter Kraft, JoAnn Manson, Tianxi Cai, David J. Hunter, Frank B. Hu
Ann Intern Med. Author manuscript; available in PMC 2013 Nov 12.
Published in final edited form as: Ann Intern Med. 2009 Apr 21; 150(8): 541–550. doi: 10.7326/0003-4819-150-8-200904210-00008
PMCID:
PMC3825275
AbstractArticlePDF–363K
10.
Association Study of 25 Type 2 Diabetes Related Loci with Measures of Obesity in Indian Sib Pairs
Vipin Gupta, Donipadi Guru Vinay, Ulla Sovio, Sajjad Rafiq, Madamchetty Venkata Kranthi Kumar, Charles Spurgeon Janipalli, David Evans, Kulathu Radha Mani, Madana Narasimha Sandeep, Amy Taylor, Sanjay Kinra, Ruth Sullivan, Liza Bowen, Nicholas Timpson, George Davey Smith, Frank Dudbridge, Dorairaj Prabhakaran, Yoav Ben-Shlomo, Kolli Srinath Reddy, Shah Ebrahim, Giriraj Ratan Chandak, the Indian Migration Study Group
PLoS One. 2013; 8(1): e53944. Published online 2013 Jan 17. doi: 10.1371/journal.pone.0053944
PMCID:
PMC3547960
AbstractArticlePDF–188K
11.
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
AbstractArticlePDF–1.0M
12.
A systematic gene-based screen of chr4q22–q32 identifies association of a novel susceptibility gene, DKK2, with the quantitative trait of alcohol dependence symptom counts
Gursharan Kalsi, Po-Hsiu Kuo, Fazil Aliev, Jeffry Alexander, Omari McMichael, Diana G. Patterson, Dermot Walsh, Zhongming Zhao, Marc Schuckit, John Nurnberger, Jr, Howard Edenberg, John Kramer, Vladimir Vladimirov, Carol A. Prescott, Danielle M. Dick, Kenneth S. Kendler, Brien P. Riley
Hum Mol Genet. 2010 Jun 15; 19(12): 2497–2506. Published online 2010 Mar 23. doi: 10.1093/hmg/ddq112
Correction in:
Hum Mol Genet. 2010 Oct 15; 19(20): 4121.
PMCID:
PMC2876884
AbstractArticlePDF–226K
13.
Ubiquitin-mediated proteolysis of HuR by heat shock
Kotb Abdelmohsen, Subramanya Srikantan, Xiaoling Yang, Ashish Lal, Hyeon Ho Kim, Yuki Kuwano, Stefanie Galban, Kevin G Becker, Davida Kamara, Rafael de Cabo, Myriam Gorospe
EMBO J. 2009 May 6; 28(9): 1271–1282. Published online 2009 Mar 26. doi: 10.1038/emboj.2009.67
PMCID:
PMC2683047
AbstractArticlePDF–1.4M
14.
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences
Mammalian Gene Collection (MGC) Program Team
Proc Natl Acad Sci U S A. 2002 Dec 24; 99(26): 16899–16903. Published online 2002 Dec 11. doi: 10.1073/pnas.242603899
PMCID:
PMC139241
AbstractArticlePDF–118K

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