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Molecular and Cellular Biology Volume 35, 2015 - Issue 1
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Article

Genome-Wide Association of Mediator and RNA Polymerase II in Wild-Type and Mediator Mutant Yeast

Emily Paula Laboratory of Molecular Genetics, Wadsworth Center, New York State Department of Health, Albany, New York, USA
,
Z. Iris Zhuc Computational Biology Branch, National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, Maryland, USA
,
David Landsmanc Computational Biology Branch, National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, Maryland, USACorrespondence[email protected] [email protected]
&
Randall H. Morsea Laboratory of Molecular Genetics, Wadsworth Center, New York State Department of Health, Albany, New York, USA;b Department of Biomedical Science, University at Albany School of Public Health, Albany, New York, USACorrespondence[email protected] [email protected]
Pages 331-342 | Received 28 Jul 2014, Accepted 25 Oct 2014, Published online: 20 Mar 2023

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Randall H. Morse. (2022) Function and dynamics of the Mediator complex: novel insights and new frontiers. Transcription 13:1-3, pages 39-52.
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Jason P. Tourigny, Moustafa M. Saleh, Kenny Schumacher, Didier Devys & Gabriel E. Zentner. (2018) Mediator Is Essential for Small Nuclear and Nucleolar RNA Transcription in Yeast. Molecular and Cellular Biology 38:24.
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Sebastian Grünberg & Gabriel E. Zentner. (2017) Genome-wide characterization of Mediator recruitment, function, and regulation. Transcription 8:3, pages 169-174.
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Jayamani Anandhakumar, Yara W. Moustafa, Surabhi Chowdhary, Amoldeep S. Kainth & David S. Gross. (2016) Evidence for Multiple Mediator Complexes in Yeast Independently Recruited by Activated Heat Shock Factor. Molecular and Cellular Biology 36:14, pages 1943-1960.
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Articles from other publishers (34)

Kévin M. André, Nathalie Giordanengo Aiach, Veronica Martinez-Fernandez, Leo Zeitler, Adriana Alberti, Arach Goldar, Michel Werner, Cyril Denby Wilkes & Julie Soutourina. (2023) Functional interplay between Mediator and RSC chromatin remodeling complex controls nucleosome-depleted region maintenance at promoters. Cell Reports 42:5, pages 112465.
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Élie Lambert, Kavindu Puwakdandawa, Yi Fei Tao & François Robert. (2021) From structure to molecular condensates: emerging mechanisms for Mediator function. The FEBS Journal 290:2, pages 286-309.
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Alicia C. Salinero, Simey Emerson, Tayla C. Cormier, John Yin, Randall H. Morse & M. Joan Curcio. (2022) Reliance of Host-Encoded Regulators of Retromobility on Ty1 Promoter Activity or Architecture. Frontiers in Molecular Biosciences 9.
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Debasish Sarkar, Z. Iris Zhu, Elizabeth R. Knoll, Emily Paul, David Landsman & Randall H. Morse. (2022) Mediator dynamics during heat shock in budding yeast. Genome Research 32:1, pages 111-123.
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Arjuna Rao Vallabhaneni, Merita Kabashi, Matt Haymowicz, Kushal Bhatt, Violet Wayman, Shazia Ahmed & Heather Conrad-Webb. (2021) HSF1 induces RNA polymerase II synthesis of ribosomal RNA in S. cerevisiae during nitrogen deprivation. Current Genetics 67:6, pages 937-951.
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Timothy J Stanek, Victoria J Gennaro, Mason A Tracewell, Daniela Di Marcantonio, Kristen L Pauley, Sabrina Butt, Christopher McNair, Feng Wang, Andrew V Kossenkov, Karen E Knudsen, Tauseef Butt, Stephen M Sykes & Steven B McMahon. (2021) The SAGA complex regulates early steps in transcription via its deubiquitylase module subunit USP22. The EMBO Journal 40:16.
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Moustafa M. Saleh, Célia Jeronimo, François Robert & Gabriel E. Zentner. (2021) Connection of core and tail Mediator modules restrains transcription from TFIID-dependent promoters. PLOS Genetics 17:8, pages e1009529.
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Matthew J. Rossi, Prashant K. Kuntala, William K. M. Lai, Naomi Yamada, Nitika Badjatia, Chitvan Mittal, Guray Kuzu, Kylie Bocklund, Nina P. Farrell, Thomas R. Blanda, Joshua D. Mairose, Ann V. Basting, Katelyn S. Mistretta, David J. Rocco, Emily S. Perkinson, Gretta D. Kellogg, Shaun Mahony & B. Franklin Pugh. (2021) A high-resolution protein architecture of the budding yeast genome. Nature 592:7853, pages 309-314.
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Jason P Tourigny, Kenny Schumacher, Moustafa M Saleh, Didier Devys & Gabriel E Zentner. (2021) Architectural Mediator subunits are differentially essential for global transcription in Saccharomyces cerevisiae . Genetics 217:3.
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Eyal Metzl-Raz, Moshe Kafri, Gilad Yaakov & Naama Barkai. (2020) Gene Transcription as a Limiting Factor in Protein Production and Cell Growth. G3 Genes|Genomes|Genetics 10:9, pages 3229-3242.
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Chengjin Wu, Guoxing Zhu, Qiang Ding, Pei Zhou, Liming Liu & Xiulai Chen. (2020) Cg Cmk1 Activates Cg Rds2 To Resist Low-pH Stress in Candida glabrata . Applied and Environmental Microbiology 86:11.
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Elisabeth R Knoll, Z Iris Zhu, Debasish Sarkar, David Landsman & Randall H Morse. (2020) Kin28 depletion increases association of TFIID subunits Taf1 and Taf4 with promoters in Saccharomyces cerevisiae. Nucleic Acids Research 48:8, pages 4244-4255.
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Cory M. Nadel, Timothy D. Mackie & Richard G. Gardner. (2019) Osmolyte accumulation regulates the SUMOylation and inclusion dynamics of the prionogenic Cyc8-Tup1 transcription corepressor. PLOS Genetics 15:4, pages e1008115.
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Michael J. Trnka, Riccardo Pellarin & Philip J. Robinson. (2019) Role of integrative structural biology in understanding transcriptional initiation. Methods 159-160, pages 4-22.
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Elisabeth R Knoll, Z Iris Zhu, Debasish Sarkar, David Landsman & Randall H Morse. (2018) Role of the pre-initiation complex in Mediator recruitment and dynamics. eLife 7.
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Maria Jessica Bruzzone, Sebastian Grünberg, Slawomir Kubik, Gabriel E. Zentner & David Shore. (2018) Distinct patterns of histone acetyltransferase and Mediator deployment at yeast protein-coding genes. Genes & Development 32:17-18, pages 1252-1265.
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Zongjie Dai, Mingtao Huang, Yun Chen, Verena Siewers & Jens Nielsen. (2018) Global rewiring of cellular metabolism renders Saccharomyces cerevisiae Crabtree negative. Nature Communications 9:1.
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Hélène Jean-Jacques, Siew Lay Poh & Laurent Kuras. (2018) Mediator, known as a coactivator, can act in transcription initiation in an activator-independent manner in vivo. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1861:8, pages 687-696.
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Alicia C. Salinero, Elisabeth R. Knoll, Z. Iris Zhu, David Landsman, M. Joan Curcio & Randall H. Morse. (2018) The Mediator co-activator complex regulates Ty1 retromobility by controlling the balance between Ty1i and Ty1 promoters. PLOS Genetics 14:2, pages e1007232.
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Tingting Wang, Yi-Ping Phoebe Chen, Iona M. MacLeod, Jennie E. Pryce, Michael E. Goddard & Ben J. Hayes. (2017) Application of a Bayesian non-linear model hybrid scheme to sequence data for genomic prediction and QTL mapping. BMC Genomics 18:1.
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Thiago J. Nakayama, Fabiana A. Rodrigues, Norman Neumaier, Juliana Marcolino-Gomes, Hugo B. C. Molinari, Thaís R. Santiago, Eduardo F. Formighieri, Marcos F. Basso, José R. B. Farias, Beatriz M. Emygdio, Ana C. B. de Oliveira, Ângela D. Campos, Aluízio Borém, Frank G. Harmon, Liliane M. Mertz-Henning & Alexandre L. Nepomuceno. (2017) Insights into soybean transcriptome reconfiguration under hypoxic stress: Functional, regulatory, structural, and compositional characterization. PLOS ONE 12:11, pages e0187920.
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Célia Jeronimo & François Robert. (2017) The Mediator Complex: At the Nexus of RNA Polymerase II Transcription. Trends in Cell Biology 27:10, pages 765-783.
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Yanli Qi, Hui Liu, Jiayin Yu, Xiulai Chen & Liming Liu. (2017) Med15B Regulates Acid Stress Response and Tolerance in Candida glabrata by Altering Membrane Lipid Composition. Applied and Environmental Microbiology 83:18.
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Răzvan V. Chereji, Vasudha Bharatula, Nils Elfving, Jeanette Blomberg, Miriam Larsson, Alexandre V. Morozov, James R. Broach & Stefan Björklund. (2017) Mediator binds to boundaries of chromosomal interaction domains and to proteins involved in DNA looping, RNA metabolism, chromatin remodeling, and actin assembly. Nucleic Acids Research 45:15, pages 8806-8821.
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Natalia Petrenko, Yi Jin, Koon Ho Wong & Kevin Struhl. (2017) Evidence that Mediator is essential for Pol II transcription, but is not a required component of the preinitiation complex in vivo. eLife 6.
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Răzvan V. Chereji, Josefina Ocampo & David J. Clark. (2017) MNase-Sensitive Complexes in Yeast: Nucleosomes and Non-histone Barriers. Molecular Cell 65:3, pages 565-577.e3.
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Sebastian Grünberg, Steven Henikoff, Steven Hahn & Gabriel E Zentner. (2016) Mediator binding to UAS s is broadly uncoupled from transcription and cooperative with TFIID recruitment to promoters . The EMBO Journal 35:22, pages 2435-2446.
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Natalia Petrenko, Yi Jin, Koon Ho Wong & Kevin Struhl. (2016) Mediator Undergoes a Compositional Change during Transcriptional Activation. Molecular Cell 64:3, pages 443-454.
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Célia Jeronimo, Marie-France Langelier, Alain R. Bataille, John M. Pascal, B. Franklin Pugh & François Robert. (2016) Tail and Kinase Modules Differently Regulate Core Mediator Recruitment and Function In Vivo. Molecular Cell 64:3, pages 455-466.
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Julie Parenteau, Mathieu Lavoie, Mathieu Catala, Mustafa Malik-Ghulam, Jules Gagnon & Sherif Abou Elela. (2015) Preservation of Gene Duplication Increases the Regulatory Spectrum of Ribosomal Protein Genes and Enhances Growth under Stress. Cell Reports 13:11, pages 2516-2526.
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Slawomir Kubik, Maria Jessica Bruzzone, Philippe Jacquet, Jean-Luc Falcone, Jacques Rougemont & David Shore. (2015) Nucleosome Stability Distinguishes Two Different Promoter Types at All Protein-Coding Genes in Yeast. Molecular Cell 60:3, pages 422-434.
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Fanny Eyboulet, Sandra Wydau-Dematteis, Thomas Eychenne, Olivier Alibert, Helen Neil, Claire Boschiero, Marie-Claire Nevers, Hervé Volland, David Cornu, Virginie Redeker, Michel Werner & Julie Soutourina. (2015) Mediator independently orchestrates multiple steps of preinitiation complex assembly in vivo . Nucleic Acids Research 43:19, pages 9214-9231.
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Sebastian Wienerroither, Priyank Shukla, Matthias Farlik, Andrea Majoros, Bernadette Stych, Claus Vogl, HyeonJoo Cheon, George R. Stark, Birgit Strobl, Mathias Müller & Thomas Decker. (2015) Cooperative Transcriptional Activation of Antimicrobial Genes by STAT and NF-κB Pathways by Concerted Recruitment of the Mediator Complex. Cell Reports 12:2, pages 300-312.
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Emily Paul, Itay Tirosh, William Lai, Michael J Buck, Michael J Palumbo & Randall H Morse. (2015) Chromatin Mediation of a Transcriptional Memory Effect in Yeast. G3 Genes|Genomes|Genetics 5:5, pages 829-838.
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