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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 108687272.

Adaptive preservation of orphan ribosomal proteins in chaperone-dispersed condensates

Asif Ali, Rania Garde, Olivia C. Schaffer, Jared A. M. Bard, Kabir Husain, Samantha Keyport Kik, Kathleen A. Davis, Sofia Luengo-Woods, Maya G. Igarashi, D. Allan Drummond, Allison H. Squires, David Pincus

Nat Cell Biol. Author manuscript; available in PMC 2024 Feb 15.

Published in final edited form as: Nat Cell Biol. 2023 Nov; 25(11): 1691–1703. Published online 2023 Oct 16. doi: 10.1038/s41556-023-01253-2

PMCID:: PMC10868727

Abstract Article PDF–7.0M

Select item 105147003.

Xrn1 biochemically associates with eisosome proteins after the post diauxic shift in yeast

Baptiste Courtin, Abdelkader Namane, Maite Gomard, Laura Meyer, Alain Jacquier, Micheline Fromont-Racine

MicroPubl Biol. 2023; 2023: 10.17912/micropub.biology.000926. Published online 2023 Sep 7. doi: 10.17912/micropub.biology.000926

PMCID:: PMC10514700

Abstract Article PDF–1.7M

Select item 102333684.

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 98363485.

A synthetic genetic array screen for interactions with the RNA helicase DED1 during cell stress in budding yeast

Sara B Carey, Hannah M List, Ashwin Siby, Paolo Guerra, Timothy A Bolger

G3 (Bethesda) 2023 Jan; 13(1): jkac296. Published online 2022 Nov 21. doi: 10.1093/g3journal/jkac296

PMCID:: PMC9836348

Abstract Article PDF–857K

Select item 96380286.

Yeast Smy2 and its human homologs GIGYF1 and -2 regulate Cdc48/VCP function during transcription stress

Michelle Harreman Lehner, Jane Walker, Kotryna Temcinaite, Anna Herlihy, Michael Taschner, Adam C. Berger, Anita H. Corbett, A. Barbara Dirac Svejstrup, Jesper Q. Svejstrup

Cell Rep. 2022 Oct 25; 41(4): 111536. Published online 2022 Oct 25. doi: 10.1016/j.celrep.2022.111536

PMCID:: PMC9638028

Abstract Article

Select item 92098117.

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 83717058.

Alanine Represses γ-Aminobutyric Acid Utilization and Induces Alanine Transaminase Required for Mitochondrial Function in Saccharomyces cerevisiae

Dariel Márquez, Ximena Escalera-Fanjul, Mohammed el Hafidi, Beatriz Aguirre-López, Lina Riego-Ruiz, Alicia González

Front Microbiol. 2021; 12: 695382. Published online 2021 Aug 4. doi: 10.3389/fmicb.2021.695382

PMCID:: PMC8371705

Abstract Article PDF–2.3M

Select item 77187519.

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

Abstract Article PDF–1.2M

Select item 766591610.

Effect of the Deletion of Genes Related to Amino Acid Metabolism on the Production of Higher Alcohols by Saccharomyces cerevisiae

Ya-Ping Wang, Xiao-Qing Wei, Xue-Wu Guo, Dong-Guang Xiao

Biomed Res Int. 2020; 2020: 6802512. Published online 2020 Nov 5. doi: 10.1155/2020/6802512

PMCID:: PMC7665916

Abstract Article PDF–775K

Select item 756021611.

AP‐3 vesicle uncoating occurs after HOPS‐dependent vacuole tethering

Jannis Schoppe, Muriel Mari, Erdal Yavavli, Kathrin Auffarth, Margarita Cabrera, Stefan Walter, Florian Fröhlich, Christian Ungermann

EMBO J. 2020 Oct 15; 39(20): e105117. Published online 2020 Aug 25. doi: 10.15252/embj.2020105117

PMCID:: PMC7560216

Abstract Article PDF–3.6M

Select item 621571312.

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 566188513.

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 560025414.

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 559294515.

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 551207016.

Integrative proteomics and biochemical analyses define Ptc6p as the Saccharomyces cerevisiae pyruvate dehydrogenase phosphatase

Xiao Guo, Natalie M. Niemi, Joshua J. Coon, David J. Pagliarini

J Biol Chem. 2017 Jul 14; 292(28): 11751–11759. Published online 2017 May 24. doi: 10.1074/jbc.M117.787341

PMCID:: PMC5512070

Abstract Article PDF–2.1M

Select item 493730417.

The Hsp70 homolog Ssb and the 14-3-3 protein Bmh1 jointly regulate transcription of glucose repressed genes in Saccharomyces cerevisiae

Volker Hübscher, Kaivalya Mudholkar, Marco Chiabudini, Edith Fitzke, Tina Wölfle, Dietmar Pfeifer, Friedel Drepper, Bettina Warscheid, Sabine Rospert

Nucleic Acids Res. 2016 Jul 8; 44(12): 5629–5645. Published online 2016 Mar 21. doi: 10.1093/nar/gkw168

PMCID:: PMC4937304

Abstract Article PDF–8.3M

Select item 438922918.

Cmr1/WDR76 defines a nuclear genotoxic stress body linking genome integrity and protein quality control

Irene Gallina, Camilla Colding, Peter Henriksen, Petra Beli, Kyosuke Nakamura, Judith Offman, David P. Mathiasen, Sonia Silva, Eva Hoffmann, Anja Groth, Chunaram Choudhary, Michael Lisby

Nat Commun. 2015 Mar 30; 6: 6533. Published online 2015 Mar 30. doi: 10.1038/ncomms7533

PMCID:: PMC4389229

Abstract Article PDF–3.1M

Select item 383846519.

Molecular mechanisms underlying genotype-dependent responses to dietary restriction

Jennifer Schleit, Simon C. Johnson, Christopher F. Bennett, Marissa Simko, Natalie Trongtham, Anthony Castanza, Edward J. Hsieh, Richard M. Moller, Brian M. Wasko, Joe R. Delaney, George L. Sutphin, Daniel Carr, Christopher J. Murakami, Autumn Tocchi, Bo Xian, Weiyang Chen, Tao Yu, Sarani Goswami, Sean Higgins, Mollie Holmberg, Ki-Soo Jeong, Jin R. Kim, Shannon Klum, Eric Liao, Michael S. Lin, Winston Lo, Hillary Miller, Brady Olsen, Zhao J. Peng, Tom Pollard, Prarthana Pradeep, Dillon Pruett, Dilreet Rai, Vanessa Ros, Minnie Singh, Benjamin L. Spector, Helen Vander Wende, Elroy H. An, Marissa Fletcher, Monika Jelic, Peter S. Rabinovitch, Michael J. MacCoss, Jing-Dong J. Han, Brian K. Kennedy, Matt Kaeberlein

Aging Cell. Author manuscript; available in PMC 2014 Dec 1.

Published in final edited form as: Aging Cell. 2013 Dec; 12(6): 10.1111/acel.12130. Published online 2013 Aug 11. doi: 10.1111/acel.12130

PMCID:: PMC3838465

Abstract Article PDF–2.3M

Select item 383711420.

A Conserved Protein with AN1 Zinc Finger and Ubiquitin-like Domains Modulates Cdc48 (p97) Function in the Ubiquitin-Proteasome Pathway

Bebiana Sá-Moura, Minoru Funakoshi, Robert J. Tomko, Jr., R. Jürgen Dohmen, Zhiping Wu, Junmin Peng, Mark Hochstrasser

J Biol Chem. 2013 Nov 22; 288(47): 33682–33696. Published online 2013 Oct 11. doi: 10.1074/jbc.M113.521088

PMCID:: PMC3837114

Abstract Article PDF–4.9M

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