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Select item 108724771.

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

Abstract Article PDF–1.7M

Select item 102333682.

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

Abstract Article PDF–1.2M

Select item 92098113.

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

Abstract Article PDF–818K

Select item 62913664.

The cellular economy of the Saccharomyces cerevisiae zinc proteome

Yirong Wang, Erin Weisenhorn, Colin MacDiarmid, Claudia Andreini, Michael Bucci, Janet Taggart, Lucia Banci, Jason Russell, Joshua J. Coon, David J. Eide

Metallomics. Author manuscript; available in PMC 2019 Dec 12.

Published in final edited form as: Metallomics. 2018 Dec 12; 10(12): 1755–1776. doi: 10.1039/c8mt00269j

PMCID:: PMC6291366

Abstract Article PDF–3.0M

Select item 59745125.

Mapping DNA damage‐dependent genetic interactions in yeast via party mating and barcode fusion genetics

J Javier Díaz‐Mejía, Albi Celaj, Joseph C Mellor, Atina Coté, Attila Balint, Brandon Ho, Pritpal Bansal, Fatemeh Shaeri, Marinella Gebbia, Jochen Weile, Marta Verby, Anna Karkhanina, YiFan Zhang, Cassandra Wong, Justin Rich, D'Arcy Prendergast, Gaurav Gupta, Sedide Öztürk, Daniel Durocher, Grant W Brown, Frederick P Roth

Mol Syst Biol. 2018 May; 14(5): e7985. Published online 2018 May 28. doi: 10.15252/msb.20177985

PMCID:: PMC5974512

Abstract Article PDF–2.2M

Select item 59204176.

A 2-Deoxyglucose-Resistant Mutant of Saccharomyces cerevisiae Shows Enhanced Maltose Fermentative Ability by the Activation of MAL Genes

Yoshitake Orikasa, Dai Mikumo, Takuji Ohwada

Foods. 2018 Apr; 7(4): 52. Published online 2018 Apr 1. doi: 10.3390/foods7040052

PMCID:: PMC5920417

Abstract Article PDF–965K

Select item 57653597.

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

Abstract Article PDF–2.2M

Select item 56618858.

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

Abstract Article PDF–2.6M

Select item 55929459.

A Functional Link Between Bir1 and the Saccharomyces cerevisiae Ctf19 Kinetochore Complex Revealed Through Quantitative Fitness Analysis

Vasso Makrantoni, Adam Ciesiolka, Conor Lawless, Josefin Fernius, Adele Marston, David Lydall, Michael J. R. Stark

G3 (Bethesda) 2017 Sep; 7(9): 3203–3215. Published online 2017 Jul 28. doi: 10.1534/g3.117.300089

PMCID:: PMC5592945

Abstract Article PDF–1.7M

Select item 461603910.

Integrated multi-omics analyses reveal the pleiotropic nature of the control of gene expression by Puf3p

Christopher J. Kershaw, Joseph L. Costello, David Talavera, William Rowe, Lydia M. Castelli, Paul F. G. Sims, Christopher M. Grant, Mark P. Ashe, Simon J. Hubbard, Graham D. Pavitt

Sci Rep. 2015; 5: 15518. Published online 2015 Oct 23. doi: 10.1038/srep15518

PMCID:: PMC4616039

Abstract Article PDF–2.2M

Select item 424395211.

Leveraging transcription factors to speed cellobiose fermentation by Saccharomyces cerevisiae

Yuping Lin, Kulika Chomvong, Ligia Acosta-Sampson, Raíssa Estrela, Jonathan M Galazka, Soo Rin Kim, Yong-Su Jin, Jamie HD Cate

Biotechnol Biofuels. 2014; 7: 126. Published online 2014 Aug 27. doi: 10.1186/s13068-014-0126-6

PMCID:: PMC4243952

Abstract Article PDF–2.0M

Select item 417297012.

Duplication of a promiscuous transcription factor drives the emergence of a new regulatory network

Ksenia Pougach, Arnout Voet, Fyodor A. Kondrashov, Karin Voordeckers, Joaquin F. Christiaens, Bianka Baying, Vladimir Benes, Ryo Sakai, Jan Aerts, Bo Zhu, Patrick Van Dijck, Kevin J. Verstrepen

Nat Commun. 2014 Sep 10; 5: 4868. Published online 2014 Sep 10. doi: 10.1038/ncomms5868

Correction in:: Nat Commun. 2015 Feb 26; 6: 6543.

PMCID:: PMC4172970

Abstract Article PDF–1.1M

Select item 376403613.

Genome-Wide Study of the Adaptation of Saccharomyces cerevisiae to the Early Stages of Wine Fermentation

Maite Novo, Ana Mangado, Manuel Quirós, Pilar Morales, Zoel Salvadó, Ramon Gonzalez

PLoS One. 2013; 8(9): e74086. Published online 2013 Sep 5. doi: 10.1371/journal.pone.0074086

PMCID:: PMC3764036

Abstract Article PDF–496K

Select item 356498714.

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

Abstract Article PDF–2.3M

Select item 313444215.

Defining the Specificity of Cotranslationally Acting Chaperones by Systematic Analysis of mRNAs Associated with Ribosome-Nascent Chain Complexes

Marta del Alamo, Daniel J. Hogan, Sebastian Pechmann, Veronique Albanese, Patrick O. Brown, Judith Frydman

PLoS Biol. 2011 Jul; 9(7): e1001100. Published online 2011 Jul 12. doi: 10.1371/journal.pbio.1001100

PMCID:: PMC3134442

Abstract Article PDF–3.7M

Select item 300618716.

Rewiring of Genetic Networks in Response to DNA Damage

Sourav Bandyopadhyay, Monika Mehta, Dwight Kuo, Min-Kyung Sung, Ryan Chuang, Eric J. Jaehnig, Bernd Bodenmiller, Katherine Licon, Wilbert Copeland, Michael Shales, Dorothea Fiedler, Janusz Dutkowski, Aude Guénolé, Haico van Attikum, Kevan M. Shokat, Richard D. Kolodner, Won-Ki Huh, Ruedi Aebersold, Michael-Christopher Keogh, Nevan J. Krogan, Trey Ideker

Science. Author manuscript; available in PMC 2010 Dec 21.

Published in final edited form as: Science. 2010 Dec 3; 330(6009): 1385–1389. doi: 10.1126/science.1195618