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Items: 1 to 20 of 28

1.
Protein interaction network revealed by quantitative proteomic analysis links TFIIB to multiple aspects of the transcription cycle
Michael J. O’Brien, Athar Ansari
Biochim Biophys Acta Proteins Proteom. Author manuscript; available in PMC 2024 Feb 16.
Published in final edited form as: Biochim Biophys Acta Proteins Proteom. 2024 Jan 1; 1872(1): 140968. Published online 2023 Oct 19. doi: 10.1016/j.bbapap.2023.140968
PMCID:
PMC10872477
AbstractArticlePDF–1.7M
2.
A systematic proximity ligation approach to studying protein‐substrate specificity identifies the substrate spectrum of the Ssh1 translocon
Nir Cohen, Naama Aviram, Maya Schuldiner
EMBO J. 2023 Jun; 42(11): e113385. Published online 2023 Apr 19. doi: 10.15252/embj.2022113385
PMCID:
PMC10233368
AbstractArticlePDF–1.2M
3.
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
4.
Comprehensive Synthetic Genetic Array Analysis of Alleles That Interact with Mutation of the Saccharomyces cerevisiae RecQ Helicases Hrq1 and Sgs1
Elsbeth Sanders, Phoebe A. Nguyen, Cody M. Rogers, Matthew L. Bochman
G3 (Bethesda) 2020 Dec; 10(12): 4359–4368. Published online 2020 Oct 28. doi: 10.1534/g3.120.401709
PMCID:
PMC7718751
AbstractArticlePDF–1.2M
5.
Chaperone-Mediated Protein Disaggregation Triggers Proteolytic Clearance of Intra-nuclear Protein Inclusions
Fabian den Brave, Lucas V. Cairo, Chandhuru Jagadeesan, Carmen Ruger-Herreros, Axel Mogk, Bernd Bukau, Stefan Jentsch
Cell Rep. 2020 Jun 2; 31(9): 107680. Published online 2020 Jun 2. doi: 10.1016/j.celrep.2020.107680
PMCID:
PMC7273177
AbstractArticle
6.
A Genome-Wide Screen Reveals a Role for the HIR Histone Chaperone Complex in Preventing Mislocalization of Budding Yeast CENP-A
Sultan Ciftci-Yilmaz, Wei-Chun Au, Prashant K. Mishra, Jessica R. Eisenstatt, Joy Chang, Anthony R. Dawson, Iris Zhu, Mahfuzur Rahman, Sven Bilke, Michael Costanzo, Anastasia Baryshnikova, Chad L. Myers, Paul S. Meltzer, David Landsman, Richard E. Baker, Charles Boone, Munira A. Basrai
Genetics. 2018 Sep; 210(1): 203–218. Published online 2018 Jul 16. doi: 10.1534/genetics.118.301305
PMCID:
PMC6116949
AbstractArticlePDF–2.1M
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.
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
10.
Intrinsically Disordered Proteins Drive Emergence and Inheritance of Biological Traits
Sohini Chakrabortee, James S. Byers, Sandra Jones, David Garcia, Bhupinder Bhullar, Amelia Chang, Richard She, Laura Lee, Brayon Fremin, Susan Lindquist, Daniel F. Jarosz
Cell. Author manuscript; available in PMC 2017 Oct 6.
Published in final edited form as: Cell. 2016 Oct 6; 167(2): 369–381.e12. Published online 2016 Sep 29. doi: 10.1016/j.cell.2016.09.017
PMCID:
PMC5066306
AbstractArticlePDF–794K
11.
An inter‐species protein–protein interaction network across vast evolutionary distance
Quan Zhong, Samuel J Pevzner, Tong Hao, Yang Wang, Roberto Mosca, Jörg Menche, Mikko Taipale, Murat Taşan, Changyu Fan, Xinping Yang, Patrick Haley, Ryan R Murray, Flora Mer, Fana Gebreab, Stanley Tam, Andrew MacWilliams, Amélie Dricot, Patrick Reichert, Balaji Santhanam, Lila Ghamsari, Michael A Calderwood, Thomas Rolland, Benoit Charloteaux, Susan Lindquist, Albert‐László Barabási, David E Hill, Patrick Aloy, Michael E Cusick, Yu Xia, Frederick P Roth, Marc Vidal
Mol Syst Biol. 2016 Apr; 12(4): 865. Published online 2016 Apr 23. doi: 10.15252/msb.20156484
PMCID:
PMC4848758
AbstractArticlePDF–2.1M
12.
Proteomic and Genomic Analyses of the Rvb1 and Rvb2 Interaction Network upon Deletion of R2TP Complex Components
Mahadevan Lakshminarasimhan, Gina Boanca, Charles A. S. Banks, Gaye L. Hattem, Ana E. Gabriel, Brad D. Groppe, Christine Smoyer, Kate E. Malanowski, Allison Peak, Laurence Florens, Michael P. Washburn
Mol Cell Proteomics. 2016 Mar; 15(3): 960–974. Published online 2016 Feb 1. doi: 10.1074/mcp.M115.053165
PMCID:
PMC4813713
AbstractArticlePDF–1.2M
13.
A deep proteomics perspective on CRM1-mediated nuclear export and nucleocytoplasmic partitioning
Koray Kırlı, Samir Karaca, Heinz Jürgen Dehne, Matthias Samwer, Kuan Ting Pan, Christof Lenz, Henning Urlaub, Dirk Görlich
eLife. 2015; 4: e11466. Published online 2015 Dec 17. doi: 10.7554/eLife.11466
PMCID:
PMC4764573
AbstractArticlePDF–5.7M
14.
ATPase modulated stress granules contain a diverse proteome and substructure
Saumya Jain, Joshua R. Wheeler, Robert W. Walters, Anurag Agrawal, Anthony Barsic, Roy Parker
Cell. Author manuscript; available in PMC 2017 Jan 28.
Published in final edited form as: Cell. 2016 Jan 28; 164(3): 487–498. Published online 2016 Jan 14. doi: 10.1016/j.cell.2015.12.038
PMCID:
PMC4733397
AbstractArticlePDF–2.2M
15.
A Visual Screen of Protein Localization during Sporulation Identifies New Components of Prospore Membrane-Associated Complexes in Budding Yeast
Chien Lam, Ethan Santore, Elizabeth Lavoie, Leor Needleman, Nicholas Fiacco, Carey Kim, Aaron M. Neiman
Eukaryot Cell. 2014 Mar; 13(3): 383–391. doi: 10.1128/EC.00333-13
PMCID:
PMC3957589
AbstractArticlePDF–1.3M
16.
Mass spectrometric identification of proteins that interact through specific domains of the poly(A) binding protein
Roy Richardson, Clyde L. Denis, Chongxu Zhang, Maria E. O. Nielsen, Yueh-Chin Chiang, Morten Kierkegaard, Xin Wang, Darren J. Lee, Jens S. Andersen, Gang Yao
Mol Genet Genomics. Author manuscript; available in PMC 2013 Oct 22.
Published in final edited form as: Mol Genet Genomics. 2012 Sep; 287(9): 711–730. Published online 2012 Jul 27. doi: 10.1007/s00438-012-0709-5
PMCID:
PMC3805108
AbstractArticlePDF–1.4M
17.
Saccharomyces cerevisiae Genetics Predicts Candidate Therapeutic Genetic Interactions at the Mammalian Replication Fork
Derek M. van Pel, Peter C. Stirling, Sean W. Minaker, Payal Sipahimalani, Philip Hieter
G3 (Bethesda) 2013 Feb; 3(2): 273–282. Published online 2013 Feb 1. doi: 10.1534/g3.112.004754
PMCID:
PMC3564987
AbstractArticlePDF–2.3M
18.
Global Analysis of Yeast mRNPs
Sarah F. Mitchell, Saumya Jain, Meipei She, Roy Parker
Nat Struct Mol Biol. Author manuscript; available in PMC 2013 Jul 1.
Published in final edited form as: Nat Struct Mol Biol. 2013 Jan; 20(1): 127–133. Published online 2012 Dec 9. doi: 10.1038/nsmb.2468
PMCID:
PMC3537908
AbstractArticlePDF–1.2M
19.
Functional Analysis With a Barcoder Yeast Gene Overexpression System
Alison C. Douglas, Andrew M. Smith, Sara Sharifpoor, Zhun Yan, Tanja Durbic, Lawrence E. Heisler, Anna Y. Lee, Owen Ryan, Hendrikje Göttert, Anu Surendra, Dewald van Dyk, Guri Giaever, Charles Boone, Corey Nislow, Brenda J. Andrews
G3 (Bethesda) 2012 Oct; 2(10): 1279–1289. Published online 2012 Oct 1. doi: 10.1534/g3.112.003400
PMCID:
PMC3464120
AbstractArticlePDF–2.5M
20.
Dissecting DNA damage response pathways by analyzing protein localization and abundance changes during DNA replication stress
Johnny M. Tkach, Askar Yimit, Anna Y. Lee, Michael Riffle, Michael Costanzo, Daniel Jaschob, Jason A. Hendry, Jiongwen Ou, Jason Moffat, Charles Boone, Trisha N. Davis, Corey Nislow, Grant W. Brown
Nat Cell Biol. Author manuscript; available in PMC 2013 Mar 1.
Published in final edited form as: Nat Cell Biol. 2012 Sep; 14(9): 966–976. Published online 2012 Jul 29. doi: 10.1038/ncb2549
PMCID:
PMC3434236
AbstractArticlePDF–1.5M

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