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Items: 1 to 20 of 137

1.
Disordered sequences of transcription factors regulate genomic binding by integrating diverse sequence grammars and interaction types
Bohdana Hurieva, Divya Krishna Kumar, Rotem Morag, Offir Lupo, Miri Carmi, Naama Barkai, Felix Jonas
Nucleic Acids Res. 2024 Aug 27; 52(15): 8763–8777. Published online 2024 Jun 22. doi: 10.1093/nar/gkae521
PMCID:
PMC11347154
AbstractArticlePDF–2.9M
2.
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
AbstractArticlePDF–1.7M
3.
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
AbstractArticlePDF–20M
4.
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
AbstractArticlePDF–857K
5.
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
AbstractArticle
6.
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
AbstractArticlePDF–818K
7.
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
AbstractArticlePDF–5.1M
8.
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
AbstractArticlePDF–1.4M
9.
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
AbstractArticlePDF–2.2M
10.
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
AbstractArticlePDF–5.9M
11.
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
AbstractArticlePDF–3.1M
12.
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
AbstractArticlePDF–17M
13.
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
AbstractArticlePDF–3.0M
14.
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
AbstractArticlePDF–1.8M
15.
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
AbstractArticlePDF–3.8M
16.
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
AbstractArticlePDF–2.7M
17.
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
AbstractArticlePDF–1.6M
18.
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
AbstractArticlePDF–3.0M
19.
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
AbstractArticlePDF–1.2M
20.
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
AbstractArticlePDF–3.0M

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