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Items: 1 to 20 of 25

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.
The social and structural architecture of the yeast protein interactome
André C. Michaelis, Andreas-David Brunner, Maximilian Zwiebel, Florian Meier, Maximilian T. Strauss, Isabell Bludau, Matthias Mann
Nature. 2023; 624(7990): 192–200. Published online 2023 Nov 15. doi: 10.1038/s41586-023-06739-5
PMCID:
PMC10700138
AbstractArticlePDF–20M
3.
The Paf1 complex is required for RNA polymerase II removal in response to DNA damage
Feilong Chen, Beibei Liu, Hao Zhou, Jiafu Long
Proc Natl Acad Sci U S A. 2022 Oct 4; 119(40): e2207332119. Published online 2022 Sep 26. doi: 10.1073/pnas.2207332119
PMCID:
PMC9546532
AbstractArticlePDF–2.1M
4.
New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources
Stacia R Engel, Edith D Wong, Robert S Nash, Suzi Aleksander, Micheal Alexander, Eric Douglass, Kalpana Karra, Stuart R Miyasato, Matt Simison, Marek S Skrzypek, Shuai Weng, J Michael Cherry
Genetics. 2022 Apr; 220(4): iyab224. Published online 2021 Dec 13. doi: 10.1093/genetics/iyab224
PMCID:
PMC9209811
AbstractArticlePDF–818K
5.
A regulatory phosphorylation site on Mec1 controls chromatin occupancy of RNA polymerases during replication stress
Verena Hurst, Kiran Challa, Felix Jonas, Romain Forey, Ragna Sack, Jan Seebacher, Christoph D Schmid, Naama Barkai, Kenji Shimada, Susan M Gasser, Jérôme Poli
EMBO J. 2021 Nov 2; 40(21): e108439. Published online 2021 Sep 27. doi: 10.15252/embj.2021108439
PMCID:
PMC8561635
AbstractArticlePDF–6.1M
6.
Systematic Analysis of Complex Genetic Interactions
Elena Kuzmin, Benjamin VanderSluis, Wen Wang, Guihong Tan, Raamesh Deshpande, Yiqun Chen, Matej Usaj, Attila Balint, Mojca Mattiazzi Usaj, Jolanda van Leeuwen, Elizabeth N. Koch, Carles Pons, Andrius J. Dagilis, Michael Pryszlak, Jason Zi Yang Wang, Julia Hanchard, Margot Riggi, Kaicong Xu, Hamed Heydari, Bryan-Joseph San Luis, Ermira Shuteriqi, Hongwei Zhu, Nydia Van Dyk, Sara Sharifpoor, Michael Costanzo, Robbie Loewith, Amy Caudy, Daniel Bolnick, Grant W. Brown, Brenda J. Andrews, Charles Boone, Chad L. Myers
Science. Author manuscript; available in PMC 2018 Nov 4.
Published in final edited form as: Science. 2018 Apr 20; 360(6386): eaao1729. doi: 10.1126/science.aao1729
PMCID:
PMC6215713
AbstractArticlePDF–1.9M
7.
Genome-Wide Mapping of Decay Factor–mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4
Jason E. Miller, Liye Zhang, Haoyang Jiang, Yunfei Li, B. Franklin Pugh, Joseph C. Reese
G3 (Bethesda) 2018 Jan; 8(1): 315–330. Published online 2017 Nov 20. doi: 10.1534/g3.117.300415
PMCID:
PMC5765359
AbstractArticlePDF–2.2M
8.
A global interaction network maps a wiring diagram of cellular function
Michael Costanzo, Benjamin VanderSluis, Elizabeth N. Koch, Anastasia Baryshnikova, Carles Pons, Guihong Tan, Wen Wang, Matej Usaj, Julia Hanchard, Susan D. Lee, Vicent Pelechano, Erin B. Styles, Maximilian Billmann, Jolanda van Leeuwen, Nydia van Dyk, Zhen-Yuan Lin, Elena Kuzmin, Justin Nelson, Jeff S. Piotrowski, Tharan Srikumar, Sondra Bahr, Yiqun Chen, Raamesh Deshpande, Christoph F. Kurat, Sheena C. Li, Zhijian Li, Mojca Mattiazzi Usaj, Hiroki Okada, Natasha Pascoe, Bryan-Joseph San Luis, Sara Sharifpoor, Emira Shuteriqi, Scott W. Simpkins, Jamie Snider, Harsha Garadi Suresh, Yizhao Tan, Hongwei Zhu, Noel Malod-Dognin, Vuk Janjic, Natasa Przulj, Olga G. Troyanskaya, Igor Stagljar, Tian Xia, Yoshikazu Ohya, Anne-Claude Gingras, Brian Raught, Michael Boutros, Lars M. Steinmetz, Claire L. Moore, Adam P. Rosebrock, Amy A. Caudy, Chad L. Myers, Brenda Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Oct 30.
Published in final edited form as: Science. 2016 Sep 23; 353(6306): aaf1420. doi: 10.1126/science.aaf1420
PMCID:
PMC5661885
AbstractArticlePDF–2.6M
9.
Architecture and dynamics of overlapped RNA regulatory networks
Christopher P. Lapointe, Melanie A. Preston, Daniel Wilinski, Harriet A.J. Saunders, Zachary T. Campbell, Marvin Wickens
RNA. 2017 Nov; 23(11): 1636–1647. doi: 10.1261/rna.062687.117
PMCID:
PMC5648032
AbstractArticlePDF–6.6M
10.
The Genetic Landscape of a Cell
Michael Costanzo, Anastasia Baryshnikova, Jeremy Bellay, Yungil Kim, Eric D. Spear, Carolyn S. Sevier, Huiming Ding, Judice L.Y. Koh, Kiana Toufighi, Sara Mostafavi, Jeany Prinz, Robert P. St. Onge, Benjamin VanderSluis, Taras Makhnevych, Franco J. Vizeacoumar, Solmaz Alizadeh, Sondra Bahr, Renee L. Brost, Yiqun Chen, Murat Cokol, Raamesh Deshpande, Zhijian Li, Zhen-Yuan Lin, Wendy Liang, Michaela Marback, Jadine Paw, Bryan-Joseph San Luis, Ermira Shuteriqi, Amy Hin Yan Tong, Nydia van Dyk, Iain M. Wallace, Joseph A. Whitney, Matthew T. Weirauch, Guoqing Zhong, Hongwei Zhu, Walid A. Houry, Michael Brudno, Sasan Ragibizadeh, Balázs Papp, Csaba Pál, Frederick P. Roth, Guri Giaever, Corey Nislow, Olga G. Troyanskaya, Howard Bussey, Gary D. Bader, Anne-Claude Gingras, Quaid D. Morris, Philip M. Kim, Chris A. Kaiser, Chad L. Myers, Brenda J. Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Sep 15.
Published in final edited form as: Science. 2010 Jan 22; 327(5964): 425–431. doi: 10.1126/science.1180823
PMCID:
PMC5600254
AbstractArticlePDF–2.4M
11.
Recurrent background mutations in WHI2 impair proteostasis and degradation of misfolded cytosolic proteins in Saccharomyces cerevisiae
Sophie A. Comyn, Stéphane Flibotte, Thibault Mayor
Sci Rep. 2017; 7: 4183. Published online 2017 Jun 23. doi: 10.1038/s41598-017-04525-8
PMCID:
PMC5482819
AbstractArticlePDF–4.5M
12.
A network of conserved synthetic lethal interactions for exploration of precision cancer therapy
Rohith Srivas, John Paul Shen, Chih Cheng Yang, Su Ming Sun, Jianfeng Li, Andrew M. Gross, James Jensen, Katherine Licon, Ana Bojorquez-Gomez, Kristin Klepper, Justin Huang, Daniel Pekin, Jia L. Xu, Huwate Yeerna, Vignesh Sivaganesh, Leonie Kollenstart, Haico van Attikum, Pedro Aza-Blanc, Robert W. Sobol, Trey Ideker
Mol Cell. Author manuscript; available in PMC 2017 Aug 4.
Published in final edited form as: Mol Cell. 2016 Aug 4; 63(3): 514–525. Published online 2016 Jul 21. doi: 10.1016/j.molcel.2016.06.022
PMCID:
PMC5209245
AbstractArticlePDF–1.6M
13.
Functional Metabolomics Describes the Yeast Biosynthetic Regulome
Michael Mülleder, Enrica Calvani, Mohammad Tauqeer Alam, Richard Kangda Wang, Florian Eckerstorfer, Aleksej Zelezniak, Markus Ralser
Cell. 2016 Oct 6; 167(2): 553–565.e12. doi: 10.1016/j.cell.2016.09.007
PMCID:
PMC5055083
AbstractArticlePDF–3.9M
14.
Genetic Networks Required to Coordinate Chromosome Replication by DNA Polymerases α, δ, and ε in Saccharomyces cerevisiae
Marion Dubarry, Conor Lawless, A. Peter Banks, Simon Cockell, David Lydall
G3 (Bethesda) 2015 Oct; 5(10): 2187–2197. Published online 2015 Aug 21. doi: 10.1534/g3.115.021493
PMCID:
PMC4593000
AbstractArticlePDF–1.8M
15.
Degradation of DNA damage-independently stalled RNA polymerase II is independent of the E3 ligase Elc1
Eleni Karakasili, Cornelia Burkert-Kautzsch, Anja Kieser, Katja Sträßer
Nucleic Acids Res. 2014 Sep 15; 42(16): 10503–10515. Published online 2014 Aug 12. doi: 10.1093/nar/gku731
Correction in:
Nucleic Acids Res. 2015 Feb 27; 43(4): 2486.
PMCID:
PMC4176355
AbstractArticlePDF–1.2M
16.
Conditional Genetic Interactions of RTT107, SLX4, and HRQ1 Reveal Dynamic Networks upon DNA Damage in S. cerevisiae
Grace P. Leung, Maria J. Aristizabal, Nevan J. Krogan, Michael S. Kobor
G3 (Bethesda) 2014 Jun; 4(6): 1059–1069. Published online 2014 Apr 2. doi: 10.1534/g3.114.011205
PMCID:
PMC4065249
AbstractArticlePDF–2.3M
17.
Proteasome-Mediated Processing of Def1, a Critical Step in the Cellular Response to Transcription Stress
Marcus D. Wilson, Michelle Harreman, Michael Taschner, James Reid, Jane Walker, Hediye Erdjument-Bromage, Paul Tempst, Jesper Q. Svejstrup
Cell. 2013 Aug 29; 154(5): 983–995. doi: 10.1016/j.cell.2013.07.028
PMCID:
PMC3778974
AbstractArticle
18.
The Yeast SR-Like Protein Npl3 Links Chromatin Modification to mRNA Processing
Erica A. Moehle, Colm J. Ryan, Nevan J. Krogan, Tracy L. Kress, Christine Guthrie
PLoS Genet. 2012 Nov; 8(11): e1003101. Published online 2012 Nov 29. doi: 10.1371/journal.pgen.1003101
PMCID:
PMC3510044
AbstractArticlePDF–3.4M
19.
An evolutionarily ‘young’ lysine residue in histone H3 attenuates transcriptional output in Saccharomyces cerevisiae
Edel M. Hyland, Henrik Molina, Kunal Poorey, Chunfa Jie, Zhi Xie, Junbiao Dai, Jiang Qian, Stefan Bekiranov, David T. Auble, Akhilesh Pandey, Jef D. Boeke
Genes Dev. 2011 Jun 15; 25(12): 1306–1319. doi: 10.1101/gad.2050311
PMCID:
PMC3127431
AbstractArticlePDF–1.1M
20.
Distinct ubiquitin ligases act sequentially for RNA polymerase II polyubiquitylation
Michelle Harreman, Michael Taschner, Stefan Sigurdsson, Roy Anindya, James Reid, Baggavalli Somesh, Stephanie E. Kong, Charles A. S. Banks, Ronald C. Conaway, Joan W. Conaway, Jesper Q. Svejstrup
Proc Natl Acad Sci U S A. 2009 Dec 8; 106(49): 20705–20710. Published online 2009 Nov 17. doi: 10.1073/pnas.0907052106
PMCID:
PMC2778569
AbstractArticlePDF–954K

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