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Items: 1 to 20 of 30

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.
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.
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
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 genetic interaction map centered on cohesin reveals auxiliary factors involved in sister chromatid cohesion in S. cerevisiae
Su Ming Sun, Amandine Batté, Mireille Elmer, Sophie C. van der Horst, Tibor van Welsem, Gordon Bean, Trey Ideker, Fred van Leeuwen, Haico van Attikum
J Cell Sci. 2020 May 15; 133(10): jcs237628. Published online 2020 May 22. doi: 10.1242/jcs.237628
PMCID:
PMC7325435
AbstractArticle
6.
Functions for Cdc42p BEM adaptors in regulating a differentiation-type MAP kinase pathway
Sukanya Basu, Beatriz González, Boyang Li, Garrett Kimble, Keith G. Kozminski, Paul J. Cullen
Mol Biol Cell. 2020 Mar 15; 31(6): 491–510. doi: 10.1091/mbc.E19-08-0441
PMCID:
PMC7185891
AbstractArticlePDF–2.1M
7.
Interaction between the transmembrane domains of Sho1 and Opy2 enhances the signaling efficiency of the Hog1 MAP kinase cascade in Saccharomyces cerevisiae
Tomomi Takayama, Katsuyoshi Yamamoto, Haruo Saito, Kazuo Tatebayashi
PLoS One. 2019; 14(1): e0211380. Published online 2019 Jan 25. doi: 10.1371/journal.pone.0211380
PMCID:
PMC6347418
AbstractArticlePDF–2.1M
8.
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
9.
Short linear motifs in intrinsically disordered regions modulate HOG signaling capacity
Bob Strome, Ian Shenyen Hsu, Mitchell Li Cheong Man, Taraneh Zarin, Alex Nguyen Ba, Alan M. Moses
BMC Syst Biol. 2018; 12: 75. Published online 2018 Jul 3. doi: 10.1186/s12918-018-0597-3
PMCID:
PMC6029073
AbstractArticlePDF–2.7M
10.
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
11.
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
12.
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
13.
One library to make them all: Streamlining yeast library creation by a SWAp-Tag (SWAT) strategy
Ido Yofe, Uri Weill, Matthias Meurer, Silvia Chuartzman, Einat Zalckvar, Omer Goldman, Shifra Ben-Dor, Conny Schütze, Nils Wiedemann, Michael Knop, Anton Khmelinskii, Maya Schuldiner
Nat Methods. Author manuscript; available in PMC 2016 Sep 22.
Published in final edited form as: Nat Methods. 2016 Apr; 13(4): 371–378. Published online 2016 Feb 29. doi: 10.1038/nmeth.3795
PMCID:
PMC4869835
AbstractArticlePDF–2.7M
14.
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
15.
Scaffold Protein Ahk1, Which Associates with Hkr1, Sho1, Ste11, and Pbs2, Inhibits Cross Talk Signaling from the Hkr1 Osmosensor to the Kss1 Mitogen-Activated Protein Kinase
Akiko Nishimura, Katsuyoshi Yamamoto, Masaaki Oyama, Hiroko Kozuka-Hata, Haruo Saito, Kazuo Tatebayashi
Mol Cell Biol. 2016 Apr 1; 36(7): 1109–1123. Prepublished online 2016 Jan 19. Published online 2016 Mar 18. doi: 10.1128/MCB.01017-15
PMCID:
PMC4800789
AbstractArticlePDF–3.5M
16.
Binding of the Extracellular Eight-Cysteine Motif of Opy2 to the Putative Osmosensor Msb2 Is Essential for Activation of the Yeast High-Osmolarity Glycerol Pathway
Katsuyoshi Yamamoto, Kazuo Tatebayashi, Haruo Saito
Mol Cell Biol. 2016 Feb 1; 36(3): 475–487. Prepublished online 2015 Nov 23. Published online 2016 Jan 19. doi: 10.1128/MCB.00853-15
PMCID:
PMC4719420
AbstractArticlePDF–2.5M
17.
Comparative Analysis of Transmembrane Regulators of the Filamentous Growth Mitogen-Activated Protein Kinase Pathway Uncovers Functional and Regulatory Differences
Hema Adhikari, Lauren M. Caccamise, Tanaya Pande, Paul J. Cullen
Eukaryot Cell. 2015 Sep; 14(9): 868–883. Prepublished online 2015 Jun 26. Published online 2015 Aug 27. doi: 10.1128/EC.00085-15
PMCID:
PMC4551592
AbstractArticlePDF–2.9M
18.
Osmosensing and scaffolding functions of the oligomeric four-transmembrane domain osmosensor Sho1
Kazuo Tatebayashi, Katsuyoshi Yamamoto, Miho Nagoya, Tomomi Takayama, Akiko Nishimura, Megumi Sakurai, Takashi Momma, Haruo Saito
Nat Commun. 2015 Apr 21; 6: 6975. Published online 2015 Apr 21. doi: 10.1038/ncomms7975
PMCID:
PMC4411306
AbstractArticlePDF–5.3M
19.
The Filamentous Growth MAPK Pathway Responds to Glucose Starvation Through the Mig1/2 Transcriptional Repressors in Saccharomyces cerevisiae
Sheelarani Karunanithi, Paul J. Cullen
Genetics. 2012 Nov; 192(3): 869–887. doi: 10.1534/genetics.112.142661
PMCID:
PMC3522164
AbstractArticlePDF–5.4M
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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