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Items: 16

1.
K48- and K63-linked ubiquitin chain interactome reveals branch- and length-specific ubiquitin interactors
Anita Waltho, Oliver Popp, Christopher Lenz, Lukas Pluska, Mahil Lambert, Volker Dötsch, Philipp Mertins, Thomas Sommer
Life Sci Alliance. 2024 Aug; 7(8): e202402740. Published online 2024 May 21. doi: 10.26508/lsa.202402740
PMCID:
PMC11109483
AbstractArticlePDF–2.9M
2.
Mechanism of activation and regulation of deubiquitinase activity in MINDY1 and MINDY2
Syed Arif Abdul Rehman, Lee A. Armstrong, Sven M. Lange, Yosua Adi Kristariyanto, Tobias W. Gräwert, Axel Knebel, Dmitri I. Svergun, Yogesh Kulathu
Mol Cell. 2021 Oct 21; 81(20): 4176–4190.e6. doi: 10.1016/j.molcel.2021.08.024
PMCID:
PMC8550791
AbstractArticle
3.
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
4.
Crosstalk between Lys63- and Lys11-polyubiquitin signaling at DNA damage sites is driven by Cezanne
Xiao Wu, Shichang Liu, Cari Sagum, Jianji Chen, Rajesh Singh, Apurva Chaturvedi, John R. Horton, Tanuja R. Kashyap, David Fushman, Xiaodong Cheng, Mark T. Bedford, Bin Wang
Genes Dev. 2019 Dec 1; 33(23-24): 1702–1717. doi: 10.1101/gad.332395.119
PMCID:
PMC6942045
AbstractArticlePDF–7.6M
5.
Oncogenic functions of protein kinase D2 and D3 in regulating multiple cancer‐related pathways in breast cancer
Yan Liu, Jian Li, Zhifang Ma, Jun Zhang, Yuzhi Wang, Zhenghong Yu, Xue Lin, Zhi Xu, Qian Su, Li An, Yehui Zhou, Xinxing Ma, Yiwen Yang, Feifei Wang, Qingfei Chen, Yunchao Zhang, Jilinlin Wang, Huilin Zheng, Aihua Shi, Shuang Yu, Jingzhong Zhang, Weiyong Zhao, Liming Chen
Cancer Med. 2019 Feb; 8(2): 729–741. Published online 2019 Jan 16. doi: 10.1002/cam4.1938
PMCID:
PMC6504119
AbstractArticlePDF–1.3M
6.
Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability
Dominika Kwasna, Syed Arif Abdul Rehman, Jayaprakash Natarajan, Stephen Matthews, Ross Madden, Virginia De Cesare, Simone Weidlich, Satpal Virdee, Ivan Ahel, Ian Gibbs-Seymour, Yogesh Kulathu
Mol Cell. 2018 Apr 5; 70(1): 150–164.e6. doi: 10.1016/j.molcel.2018.02.023
PMCID:
PMC5896202
AbstractArticle
7.
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
8.
A single MIU motif of MINDY‐1 recognizes K48‐linked polyubiquitin chains
Yosua Adi Kristariyanto, Syed Arif Abdul Rehman, Simone Weidlich, Axel Knebel, Yogesh Kulathu
EMBO Rep. 2017 Mar; 18(3): 392–402. Published online 2017 Jan 12. doi: 10.15252/embr.201643205
PMCID:
PMC5331195
AbstractArticlePDF–1.5M
9.
MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes
Syed Arif Abdul Rehman, Yosua Adi Kristariyanto, Soo-Youn Choi, Pedro Junior Nkosi, Simone Weidlich, Karim Labib, Kay Hofmann, Yogesh Kulathu
Mol Cell. 2016 Jul 7; 63(1): 146–155. doi: 10.1016/j.molcel.2016.05.009
PMCID:
PMC4942677
AbstractArticle
10.
Hypomethylation of FAM63B in bipolar disorder patients
Anna Starnawska, Ditte Demontis, Andrew McQuillin, Niamh L. O’Brien, Nicklas H. Staunstrup, Ole Mors, Anders L. Nielsen, Anders D. Børglum, Mette Nyegaard
Clin Epigenetics. 2016; 8: 52. Published online 2016 May 11. doi: 10.1186/s13148-016-0221-6
PMCID:
PMC4865008
AbstractArticlePDF–516K
11.
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
12.
New interaction partners for Nek4.1 and Nek4.2 isoforms: from the DNA damage response to RNA splicing
Fernanda Luisa Basei, Gabriela Vaz Meirelles, Germanna Lima Righetto, Deivid Lucas dos Santos Migueleti, Juliana Helena Costa Smetana, Jörg Kobarg
Proteome Sci. 2015; 13: 11. Published online 2015 Feb 26. doi: 10.1186/s12953-015-0065-6
PMCID:
PMC4367857
AbstractArticlePDF–3.1M
13.
A kinesin-1 binding motif in vaccinia virus that is widespread throughout the human genome
Mark P Dodding, Richard Mitter, Ashley C Humphries, Michael Way
EMBO J. 2011 Nov 16; 30(22): 4523–4538. Published online 2011 Sep 13. doi: 10.1038/emboj.2011.326
PMCID:
PMC3243594
AbstractArticlePDF–1.8M
14.
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
15.
Diversification of transcriptional modulation: Large-scale identification and characterization of putative alternative promoters of human genes
Kouichi Kimura, Ai Wakamatsu, Yutaka Suzuki, Toshio Ota, Tetsuo Nishikawa, Riu Yamashita, Jun-ichi Yamamoto, Mitsuo Sekine, Katsuki Tsuritani, Hiroyuki Wakaguri, Shizuko Ishii, Tomoyasu Sugiyama, Kaoru Saito, Yuko Isono, Ryotaro Irie, Norihiro Kushida, Takahiro Yoneyama, Rie Otsuka, Katsuhiro Kanda, Takahide Yokoi, Hiroshi Kondo, Masako Wagatsuma, Katsuji Murakawa, Shinichi Ishida, Tadashi Ishibashi, Asako Takahashi-Fujii, Tomoo Tanase, Keiichi Nagai, Hisashi Kikuchi, Kenta Nakai, Takao Isogai, Sumio Sugano
Genome Res. 2006 Jan; 16(1): 55–65. doi: 10.1101/gr.4039406
PMCID:
PMC1356129
AbstractArticlePDF–438K
16.
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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