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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 92098112.

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 84888593.

Crystal structure of the complex of DNA with the C-terminal domain of TYE7 from Saccharomyces cerevisiae

Wei Gui, Lu Xue, Jian Yue, Zhiling Kuang, Yuping Jin, Liwen Niu

Acta Crystallogr F Struct Biol Commun. 2021 Oct 1; 77(Pt 10): 341–347. Published online 2021 Sep 21. doi: 10.1107/S2053230X21009250

PMCID:: PMC8488859

Abstract Article PDF–1.5M

Select item 81177604.

Improving Acetic Acid and Furfural Resistance of Xylose-Fermenting Saccharomyces cerevisiae Strains by Regulating Novel Transcription Factors Revealed via Comparative Transcriptomic Analysis

Bo Li, Li Wang, Ya-Jing Wu, Zi-Yuan Xia, Bai-Xue Yang, Yue-Qin Tang

Appl Environ Microbiol. 2021 May; 87(10): e00158-21. Prepublished online 2021 Mar 12. Published online 2021 Apr 27. doi: 10.1128/AEM.00158-21

PMCID:: PMC8117760

Abstract Article PDF–2.5M

Select item 75074025.

Systematic analysis of bypass suppression of essential genes

Jolanda van Leeuwen, Carles Pons, Guihong Tan, Zi Yang Wang, Jing Hou, Jochen Weile, Marinella Gebbia, Wendy Liang, Ermira Shuteriqi, Zhijian Li, Maykel Lopes, Matej Ušaj, Andreia Dos Santos Lopes, Natascha van Lieshout, Chad L Myers, Frederick P Roth, Patrick Aloy, Brenda J Andrews, Charles Boone

Mol Syst Biol. 2020 Sep; 16(9): e9828. Published online 2020 Sep 17. doi: 10.15252/msb.20209828

PMCID:: PMC7507402

Abstract Article PDF–1.9M

Select item 71449426.

A genetic analysis reveals novel histone residues required for transcriptional reprogramming upon stress

Cristina Viéitez, Gerard Martínez-Cebrián, Carme Solé, René Böttcher, Clement M Potel, Mikhail M Savitski, Sara Onnebo, Marc Fabregat, Ali Shilatifard, Francesc Posas, Eulàlia de Nadal

Nucleic Acids Res. 2020 Apr 17; 48(7): 3455–3475. Published online 2020 Feb 17. doi: 10.1093/nar/gkaa081

PMCID:: PMC7144942

Abstract Article PDF–4.4M

Select item 66899777.

Homotypic cooperativity and collective binding are determinants of bHLH specificity and function

Christian A. Shively, Jiayue Liu, Xuhua Chen, Kaiser Loell, Robi D. Mitra

Proc Natl Acad Sci U S A. 2019 Aug 6; 116(32): 16143–16152. Published online 2019 Jul 24. doi: 10.1073/pnas.1818015116

PMCID:: PMC6689977

Abstract Article PDF–1.8M

Select item 62157138.

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

Abstract Article PDF–1.9M

Select item 57653599.

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 566188510.

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 560025411.

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

Abstract Article PDF–2.4M

Select item 559580812.

Interrogation of γ-tubulin alleles using high-resolution fitness measurements reveals a distinct cytoplasmic function in spindle alignment

Kristian Shulist, Eric Yen, Susanne Kaitna, Allen Leary, Alexandra Decterov, Debarun Gupta, Jackie Vogel

Sci Rep. 2017; 7: 11398. Published online 2017 Sep 12. doi: 10.1038/s41598-017-11789-7

Correction in:: Sci Rep. 2018; 8: 2513.

PMCID:: PMC5595808

Abstract Article PDF–5.9M

Select item 534572113.

Functional Analysis of Kinases and Transcription Factors in Saccharomyces cerevisiae Using an Integrated Overexpression Library

Ji-Young Youn, Helena Friesen, Alex N. Nguyen Ba, Wendy Liang, Vincent Messier, Mike J. Cox, Alan M. Moses, Brenda Andrews

G3 (Bethesda) 2017 Mar; 7(3): 911–921. Published online 2017 Jan 22. doi: 10.1534/g3.116.038471

PMCID:: PMC5345721

Abstract Article PDF–1.6M

Select item 524764314.

Loss of Cardiolipin Leads to Perturbation of Acetyl-CoA Synthesis

Vaishnavi Raja, Amit S. Joshi, Guiling Li, Krishna Rao Maddipati, Miriam L. Greenberg

J Biol Chem. 2017 Jan 20; 292(3): 1092–1102. Published online 2016 Dec 9. doi: 10.1074/jbc.M116.753624

PMCID:: PMC5247643

Abstract Article PDF–1.3M

Select item 520434815.

A novel translational control mechanism involving RNA structures within coding sequences

Jennifer Jungfleisch, Danny D. Nedialkova, Ivan Dotu, Katherine E. Sloan, Neus Martinez-Bosch, Lukas Brüning, Emanuele Raineri, Pilar Navarro, Markus T. Bohnsack, Sebastian A. Leidel, Juana Díez

Genome Res. 2017 Jan; 27(1): 95–106. doi: 10.1101/gr.209015.116