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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 77949533.

Yeast Translation Elongation Factor eIF5A Expression Is Regulated by Nutrient Availability through Different Signalling Pathways

Marina Barba-Aliaga, Carlos Villarroel-Vicente, Alice Stanciu, Alba Corman, María Teresa Martínez-Pastor, Paula Alepuz

Int J Mol Sci. 2021 Jan; 22(1): 219. Published online 2020 Dec 28. doi: 10.3390/ijms22010219

PMCID:: PMC7794953

Abstract Article PDF–2.8M

Select item 72731774.

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

Abstract Article

Select item 67464595.

Mitochondrial cysteinyl-tRNA synthetase is expressed via alternative transcriptional initiation regulated by energy metabolism in yeast cells

Akira Nishimura, Ryo Nasuno, Yuki Yoshikawa, Minkyung Jung, Tomoaki Ida, Tetsuro Matsunaga, Masanobu Morita, Hiroshi Takagi, Hozumi Motohashi, Takaaki Akaike

J Biol Chem. 2019 Sep 13; 294(37): 13781–13788. Published online 2019 Jul 26. doi: 10.1074/jbc.RA119.009203

PMCID:: PMC6746459

Abstract Article PDF–1.2M

Select item 66157106.

The nucleotide sequence of Saccharomyces cerevisiae chromosome XII

M. Johnston, L. Hillier, L. Riles, other members of the Genome Sequencing Center, K. Albermann, B. André, W. Ansorge, V. Benes, M. Brückner, H. Delius, E. Dubois, A. Düsterhöft, K.-D. Entian, M. Floeth, A. Goffeau, U. Hebling, K. Heumann, D. Heuss-Neitzel, H. Hilbert, F. Hilger, K. Kleine, P. Kötter, E. J. Louis, F. Messenguy, H. W. Mewes, T. Miosga, D. Möstl, S. Müller-Auer, U. Nentwich, B. Obermaier, E. Piravandi, T. M. Pohl, D. Portetelle, B. Purnelle, S. Rechmann, M. Rieger, M. Rinke, M. Rose, M. Scharfe, B. Scherens, P. Scholler, C. Schwager, S. Schwarz, A. P. Underwood, L. A. Urrestarazu, M. Vandenbol, P. Verhasselt, F. Vierendeels, M Voet, G. Volckaert, H. Voss, R. Wambutt, E. Wedler, H. Wedler, F. K. Zimmermann, A. Zollner, J. Hani, J. D. Hoheisel

Nature. Author manuscript; available in PMC 2019 Jul 9.

Published in final edited form as: Nature. 1997 May 29; 387(6632 Suppl): 87–90.

PMCID:: PMC6615710

Abstract Article PDF–424K

Select item 62913667.

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 61395598.

Glyceraldehyde-3-phosphate dehydrogenase is a chaperone that allocates labile heme in cells

Elizabeth A. Sweeny, Anuradha Bharara Singh, Ritu Chakravarti, Osiris Martinez-Guzman, Arushi Saini, Mohammad Mahfuzul Haque, Greer Garee, Pablo D. Dans, Luciana Hannibal, Amit R. Reddi, Dennis J. Stuehr

J Biol Chem. 2018 Sep 14; 293(37): 14557–14568. Published online 2018 Jul 16. doi: 10.1074/jbc.RA118.004169

PMCID:: PMC6139559

Abstract Article PDF–3.5M

Select item 60932309.

Heme bioavailability and signaling in response to stress in yeast cells

David A. Hanna, Rebecca Hu, Hyojung Kim, Osiris Martinez-Guzman, Matthew P. Torres, Amit R. Reddi

J Biol Chem. 2018 Aug 10; 293(32): 12378–12393. Published online 2018 Jun 19. doi: 10.1074/jbc.RA118.002125

PMCID:: PMC6093230

Abstract Article PDF–2.5M

Select item 606882910.

Reconstruction of a Global Transcriptional Regulatory Network for Control of Lipid Metabolism in Yeast by Using Chromatin Immunoprecipitation with Lambda Exonuclease Digestion

David Bergenholm, Guodong Liu, Petter Holland, Jens Nielsen

mSystems. 2018 Jul-Aug; 3(4): e00215-17. Published online 2018 Jul 31. doi: 10.1128/mSystems.00215-17

PMCID:: PMC6068829

Abstract Article PDF–2.7M

Select item 597898811.

Linkage mapping of yeast cross protection connects gene expression variation to a higher-order organismal trait

Tara N. Stuecker, Amanda N. Scholes, Jeffrey A. Lewis

PLoS Genet. 2018 Apr; 14(4): e1007335. Published online 2018 Apr 12. doi: 10.1371/journal.pgen.1007335

PMCID:: PMC5978988

Abstract Article PDF–3.4M

Select item 584432112.

A Novel Sterol-Signaling Pathway Governs Azole Antifungal Drug Resistance and Hypoxic Gene Repression in Saccharomyces cerevisiae

Nina D. Serratore, Kortany M. Baker, Lauren A. Macadlo, Abigail R. Gress, Brendan L. Powers, Nadia Atallah, Kirsten M. Westerhouse, Mark C. Hall, Vikki M. Weake, Scott D. Briggs

Genetics. 2018 Mar; 208(3): 1037–1055. Published online 2017 Dec 20. doi: 10.1534/genetics.117.300554

PMCID:: PMC5844321

Abstract Article PDF–2.3M

Select item 576535913.

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 566188514.

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 564187615.

Increased heme synthesis in yeast induces a metabolic switch from fermentation to respiration even under conditions of glucose repression

Tiantian Zhang, Pengli Bu, Joey Zeng, Ales Vancura

J Biol Chem. 2017 Oct 13; 292(41): 16942–16954. Published online 2017 Aug 22. doi: 10.1074/jbc.M117.790923

PMCID:: PMC5641876

Abstract Article PDF–1.8M

Select item 554760416.

Hitchhiking and epistasis give rise to cohort dynamics in adapting populations

Sean W. Buskirk, Ryan Emily Peace, Gregory I. Lang

Proc Natl Acad Sci U S A. 2017 Aug 1; 114(31): 8330–8335. Published online 2017 Jul 18. doi: 10.1073/pnas.1702314114

PMCID:: PMC5547604

Abstract Article PDF–774K

Select item 538928817.

Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome

Richard She, Anupam K. Chakravarty, Curtis J. Layton, Lauren M. Chircus, Johan O. L. Andreasson, Nandita Damaraju, Peter L. McMahon, Jason D. Buenrostro, Daniel F. Jarosz, William J. Greenleaf

Proc Natl Acad Sci U S A. 2017 Apr 4; 114(14): 3619–3624. Published online 2017 Mar 21. doi: 10.1073/pnas.1618370114

PMCID:: PMC5389288

Abstract Article PDF–1.3M

Select item 520434818.

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

Correction in:: Genome Res. 2017 Apr; 27(4): 663.

PMCID:: PMC5204348

Abstract Article PDF–1.3M

Select item 487999019.

Heme metabolism in stress regulation and protein production: From Cinderella to a key player

J. L. Martínez, D. Petranovic, J. Nielsen

Bioengineered. 2016 Mar-Apr; 7(2): 112–115. Published online 2016 Jan 5. doi: 10.1080/21655979.2015.1126016

PMCID:: PMC4879990

Abstract Article PDF–305K

Select item 481371320.

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

Abstract Article PDF–1.2M

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