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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 107001382.

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

Abstract Article PDF–20M

Select item 98363483.

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 92860234.

Mediator recruits the cohesin loader Scc2 to RNA Pol II-transcribed genes and promotes sister chromatid cohesion

Mark Mattingly, Chris Seidel, Sofía Muñoz, Yan Hao, Ying Zhang, Zhihui Wen, Laurence Florens, Frank Uhlmann, Jennifer L. Gerton

Curr Biol. 2022 Jul 11; 32(13): 2884–2896.e6. doi: 10.1016/j.cub.2022.05.019

PMCID:: PMC9286023

Abstract Article

Select item 92098115.

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 86323366.

Snx4-assisted vacuolar targeting of transcription factors defines a new autophagy pathway for controlling ATG expression

Sara E. Hanley, Stephen D. Willis, Katrina F. Cooper

Autophagy. 2021; 17(11): 3547–3565. Published online 2021 Mar 8. doi: 10.1080/15548627.2021.1877934

PMCID:: PMC8632336

Abstract Article PDF–5.1M

Select item 81896797.

Inferring TF activities and activity regulators from gene expression data with constraints from TF perturbation data

Cynthia Z Ma, Michael R Brent

Bioinformatics. 2021 May 1; 37(9): 1234–1245. Published online 2020 Dec 22. doi: 10.1093/bioinformatics/btaa947

PMCID:: PMC8189679

Abstract Article PDF–1.4M

Select item 80495578.

N- and C-terminal Gln3–Tor1 interaction sites: one acting negatively and the other positively to regulate nuclear Gln3 localization

Jennifer J Tate, Rajendra Rai, Claudio De Virgilio, Terrance G Cooper

Genetics. 2021 Apr; 217(4): iyab017. Published online 2021 Feb 3. doi: 10.1093/genetics/iyab017

PMCID:: PMC8049557

Abstract Article PDF–2.2M

Select item 78794829.

Analysis of the TORC1 interactome reveals a spatially distinct function of TORC1 in mRNP complexes

Yeonji Chang, Gyubum Lim, Won-Ki Huh

J Cell Biol. 2021 Apr 5; 220(4): e201912060. Published online 2021 Feb 10. doi: 10.1083/jcb.201912060

PMCID:: PMC7879482

Abstract Article PDF–5.9M

Select item 751569410.

RNA-binding and prion domains: the Yin and Yang of phase separation

Nieves Lorenzo Gotor, Alexandros Armaos, Giulia Calloni, Marc Torrent Burgas, R Martin Vabulas, Natalia Sanchez De Groot, Gian Gaetano Tartaglia

Nucleic Acids Res. 2020 Sep 25; 48(17): 9491–9504. Published online 2020 Aug 28. doi: 10.1093/nar/gkaa681

PMCID:: PMC7515694

Abstract Article PDF–3.1M

Select item 738743411.

Role of Saccharomyces cerevisiae Nutrient Signaling Pathways During Winemaking: A Phenomics Approach

Beatriz Vallejo, Emilien Peltier, Victor Garrigós, Emilia Matallana, Philippe Marullo, Agustín Aranda

Front Bioeng Biotechnol. 2020; 8: 853. Published online 2020 Jul 22. doi: 10.3389/fbioe.2020.00853

PMCID:: PMC7387434

Abstract Article PDF–17M

Select item 727546512.

Saccharomyces cerevisiae nutrient signaling pathways show an unexpected early activation pattern during winemaking

Beatriz Vallejo, Emilia Matallana, Agustín Aranda

Microb Cell Fact. 2020; 19: 124. Published online 2020 Jun 6. doi: 10.1186/s12934-020-01381-6

PMCID:: PMC7275465

Abstract Article PDF–3.0M

Select item 724010513.

An Optimized Competitive-Aging Method Reveals Gene-Drug Interactions Underlying the Chronological Lifespan of Saccharomyces cerevisiae

J. Abraham Avelar-Rivas, Michelle Munguía-Figueroa, Alejandro Juárez-Reyes, Erika Garay, Sergio E. Campos, Noam Shoresh, Alexander DeLuna

Front Genet. 2020; 11: 468. Published online 2020 May 14. doi: 10.3389/fgene.2020.00468

PMCID:: PMC7240105

Abstract Article PDF–1.8M

Select item 671170614.

A nuclear role for the DEAD-box protein Dbp5 in tRNA export

Azra Lari, Arvind Arul Nambi Rajan, Rima Sandhu, Taylor Reiter, Rachel Montpetit, Barry P Young, Chris JR Loewen, Ben Montpetit

eLife. 2019; 8: e48410. Published online 2019 Aug 27. doi: 10.7554/eLife.48410

Correction in:: eLife. 2020; 9: e63264.

PMCID:: PMC6711706

Abstract Article PDF–3.8M

Select item 670745615.

Sit4 and PP2A Dephosphorylate Nitrogen Catabolite Repression-Sensitive Gln3 When TorC1 Is Up- as Well as Downregulated

Jennifer J. Tate, Elizabeth A. Tolley, Terrance G. Cooper

Genetics. 2019 Aug; 212(4): 1205–1225. Published online 2019 Jun 18. doi: 10.1534/genetics.119.302371

PMCID:: PMC6707456

Abstract Article PDF–2.7M

Select item 638118016.

The flavonoid 4,4′-dimethoxychalcone promotes autophagy-dependent longevity across species

Didac Carmona-Gutierrez, Andreas Zimmermann, Katharina Kainz, Federico Pietrocola, Guo Chen, Silvia Maglioni, Alfonso Schiavi, Jihoon Nah, Sara Mertel, Christine B. Beuschel, Francesca Castoldi, Valentina Sica, Gert Trausinger, Reingard Raml, Cornelia Sommer, Sabrina Schroeder, Sebastian J. Hofer, Maria A. Bauer, Tobias Pendl, Jelena Tadic, Christopher Dammbrueck, Zehan Hu, Christoph Ruckenstuhl, Tobias Eisenberg, Sylvere Durand, Noélie Bossut, Fanny Aprahamian, Mahmoud Abdellatif, Simon Sedej, David P. Enot, Heimo Wolinski, Jörn Dengjel, Oliver Kepp, Christoph Magnes, Frank Sinner, Thomas R. Pieber, Junichi Sadoshima, Natascia Ventura, Stephan J. Sigrist, Guido Kroemer, Frank Madeo

Nat Commun. 2019; 10: 651. Published online 2019 Feb 19. doi: 10.1038/s41467-019-08555-w

PMCID:: PMC6381180

Abstract Article PDF–1.6M

Select item 629136617.

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 610372318.

Aminoacyl-tRNA quality control is required for efficient activation of the TOR pathway regulator Gln3p

Kyle Mohler, Rebecca Mann, Amanda Kyle, Noah Reynolds, Michael Ibba

RNA Biol. 2018; 15(4-5): 594–603. Published online 2017 Oct 6. doi: 10.1080/15476286.2017.1379635

PMCID:: PMC6103723

Abstract Article PDF–1.2M

Select item 594018019.

Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response

Matthew E. MacGilvray, Evgenia Shishkova, Deborah Chasman, Michael Place, Anthony Gitter, Joshua J. Coon, Audrey P. Gasch

PLoS Comput Biol. 2018 May; 13(5): e1006088. Published online 2018 May 8. doi: 10.1371/journal.pcbi.1006088

PMCID:: PMC5940180

Abstract Article PDF–3.0M

Select item 576535920.

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

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