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Items: 1 to 20 of 35

1.
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
2.
Single-molecule quantitation of RNA-binding protein occupancy and stoichiometry defines a role for Yra1 (Aly/REF) in nuclear mRNP organization
Ryuta Asada, Andrew Dominguez, Ben Montpetit
Cell Rep. Author manuscript; available in PMC 2024 Feb 5.
Published in final edited form as: Cell Rep. 2023 Nov 28; 42(11): 113415. Published online 2023 Nov 14. doi: 10.1016/j.celrep.2023.113415
PMCID:
PMC10841842
AbstractArticlePDF–3.9M
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 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
AbstractArticlePDF–1.2M
5.
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
6.
Dynamics in Fip1 regulate eukaryotic mRNA 3′ end processing
Ananthanarayanan Kumar, Conny W.H. Yu, Juan B. Rodríguez-Molina, Xiao-Han Li, Stefan M.V. Freund, Lori A. Passmore
Genes Dev. 2021 Nov 1; 35(21-22): 1510–1526. doi: 10.1101/gad.348671.121
PMCID:
PMC8559680
AbstractArticlePDF–4.0M
7.
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
AbstractArticlePDF–1.9M
8.
Activation of the Endonuclease that Defines mRNA 3′ Ends Requires Incorporation into an 8-Subunit Core Cleavage and Polyadenylation Factor Complex
Chris H. Hill, Vytautė Boreikaitė, Ananthanarayanan Kumar, Ana Casañal, Peter Kubík, Gianluca Degliesposti, Sarah Maslen, Angelica Mariani, Ottilie von Loeffelholz, Mathias Girbig, Mark Skehel, Lori A. Passmore
Mol Cell. 2019 Mar 21; 73(6): 1217–1231.e11. doi: 10.1016/j.molcel.2018.12.023
PMCID:
PMC6436931
AbstractArticle
9.
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
10.
The APT complex is involved in non-coding RNA transcription and is distinct from CPF
Michael Lidschreiber, Ashley D Easter, Sofia Battaglia, Juan B Rodríguez-Molina, Ana Casañal, Manuel Carminati, Carlo Baejen, Pawel Grzechnik, Kerstin C Maier, Patrick Cramer, Lori A Passmore
Nucleic Acids Res. 2018 Nov 30; 46(21): 11528–11538. Published online 2018 Sep 21. doi: 10.1093/nar/gky845
PMCID:
PMC6265451
AbstractArticlePDF–4.0M
11.
Architecture of eukaryotic mRNA 3′-end processing machinery
Ana Casañal, Ananthanarayanan Kumar, Chris H. Hill, Ashley D. Easter, Paul Emsley, Gianluca Degliesposti, Yuliya Gordiyenko, Balaji Santhanam, Jana Wolf, Katrin Wiederhold, Gillian L. Dornan, Mark Skehel, Carol V. Robinson, Lori A. Passmore
Science. 2017; 358(6366): 1056–1059. Published online 2017 Oct 26. doi: 10.1126/science.aao6535
PMCID:
PMC5788269
AbstractArticlePDF–1.4M
12.
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
AbstractArticlePDF–2.2M
13.
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
AbstractArticlePDF–2.6M
14.
An inter‐species protein–protein interaction network across vast evolutionary distance
Quan Zhong, Samuel J Pevzner, Tong Hao, Yang Wang, Roberto Mosca, Jörg Menche, Mikko Taipale, Murat Taşan, Changyu Fan, Xinping Yang, Patrick Haley, Ryan R Murray, Flora Mer, Fana Gebreab, Stanley Tam, Andrew MacWilliams, Amélie Dricot, Patrick Reichert, Balaji Santhanam, Lila Ghamsari, Michael A Calderwood, Thomas Rolland, Benoit Charloteaux, Susan Lindquist, Albert‐László Barabási, David E Hill, Patrick Aloy, Michael E Cusick, Yu Xia, Frederick P Roth, Marc Vidal
Mol Syst Biol. 2016 Apr; 12(4): 865. Published online 2016 Apr 23. doi: 10.15252/msb.20156484
PMCID:
PMC4848758
AbstractArticlePDF–2.1M
15.
Efficient mRNA Polyadenylation Requires a Ubiquitin-Like Domain, a Zinc Knuckle, and a RING Finger Domain, All Contained in the Mpe1 Protein
Susan D. Lee, Claire L. Moore
Mol Cell Biol. 2014 Nov; 34(21): 3955–3967. doi: 10.1128/MCB.00077-14
PMCID:
PMC4386453
AbstractArticlePDF–1.6M
16.
RNA polymerase II termination involves CTD tyrosine dephosphorylation by CPF subunit Glc7
Amelie Schreieck, Ashley D. Easter, Stefanie Etzold, Katrin Wiederhold, Michael Lidschreiber, Patrick Cramer, Lori A. Passmore
Nat Struct Mol Biol. Author manuscript; available in PMC 2014 Aug 1.
Published in final edited form as: Nat Struct Mol Biol. 2014 Feb; 21(2): 175–179. Published online 2014 Jan 12. doi: 10.1038/nsmb.2753
PMCID:
PMC3917824
AbstractArticlePDF–1.1M
17.
Genome-Wide Study of the Adaptation of Saccharomyces cerevisiae to the Early Stages of Wine Fermentation
Maite Novo, Ana Mangado, Manuel Quirós, Pilar Morales, Zoel Salvadó, Ramon Gonzalez
PLoS One. 2013; 8(9): e74086. Published online 2013 Sep 5. doi: 10.1371/journal.pone.0074086
PMCID:
PMC3764036
AbstractArticlePDF–496K
18.
The nuclear localization of SWI/SNF proteins is subjected to oxygen regulation
Ranita Ghosh Dastidar, Jagmohan Hooda, Ajit Shah, Thai M Cao, Robert Michael Henke, Li Zhang
Cell Biosci. 2012; 2: 30. Published online 2012 Aug 29. doi: 10.1186/2045-3701-2-30
PMCID:
PMC3489556
AbstractArticlePDF–2.4M
19.
Ssu72 Phosphatase-dependent Erasure of Phospho-Ser7 Marks on the RNA Polymerase II C-terminal Domain Is Essential for Viability and Transcription Termination
David W. Zhang, Amber L. Mosley, Sreenivasa R. Ramisetty, Juan B. Rodríguez-Molina, Michael P. Washburn, Aseem Z. Ansari
J Biol Chem. 2012 Mar 9; 287(11): 8541–8551. Published online 2012 Jan 10. doi: 10.1074/jbc.M111.335687
PMCID:
PMC3318730
AbstractArticlePDF–2.5M
20.
The Complete Spectrum of Yeast Chromosome Instability Genes Identifies Candidate CIN Cancer Genes and Functional Roles for ASTRA Complex Components
Peter C. Stirling, Michelle S. Bloom, Tejomayee Solanki-Patil, Stephanie Smith, Payal Sipahimalani, Zhijian Li, Megan Kofoed, Shay Ben-Aroya, Kyungjae Myung, Philip Hieter
PLoS Genet. 2011 Apr; 7(4): e1002057. Published online 2011 Apr 28. doi: 10.1371/journal.pgen.1002057
PMCID:
PMC3084213
AbstractArticlePDF–710K

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