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Critical Reviews in Biochemistry and Molecular Biology Volume 41, 2006 - Issue 3
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Research Article

The General Transcription Machinery and General Cofactors

Mary C. Thomas Department of Biochemistry, Case Western Reserve University School of Medicine, Cleveland, OH, USA
&
Cheng-Ming Chiang Department of Biochemistry, Case Western Reserve University School of Medicine, Cleveland, OH, USA
Pages 105-178 | Published online: 11 Oct 2008

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Yuxin Song, Hui Zhang, Zhengdong Song, Yang Yang, Suifeng Zhang, Wenji Wang & Shanyong Zhang. (2022) Long Noncoding RNA GAS5 Inhibits Osteogenic Differentiation through MicroRNA 382-3p/TAF1 Signaling. Molecular and Cellular Biology 42:2.
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Xianqiang Yu, Cheng Qu, Lu Ke, Zhihui Tong & Weiqin Li. (2021) Step-by-Step Construction of Gene Co-Expression Network Analysis for Identifying Novel Biomarkers of Sepsis Occurrence and Progression. International Journal of General Medicine 14, pages 6047-6057.
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Eric A. Gustafson, Kimberly A. Seymour, Kirsten Sigrist, Dirk G. D. E. Rooij & Richard N. Freiman. (2020) ZFP628 Is a TAF4b-Interacting Transcription Factor Required for Mouse Spermiogenesis. Molecular and Cellular Biology 40:7.
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Veronique Fischer, Kenny Schumacher, Laszlo Tora & Didier Devys. (2019) Global role for coactivator complexes in RNA polymerase II transcription. Transcription 10:1, pages 29-36.
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Zhengjian Zhang & Robert Tjian. (2018) Measuring dynamics of eukaryotic transcription initiation: Challenges, insights and opportunities. Transcription 9:3, pages 159-165.
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Chinmoy Mishra, Subodh Kumar, Manjit Panigrahi, H. M. Yathish, Rajni Chaudhary, Anuj Chauhan, Amit Kumar & Arvind A. Sonawane. (2018) Single Nucleotide Polymorphisms in 5’ Upstream Region of Bovine TLR4 Gene Affecting Expression Profile and Transcription Factor Binding Sites. Animal Biotechnology 29:2, pages 119-128.
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Tadashi Nakagawa, Masaki Hosogane, Makiko Nakagawa, Akane Morohoshi, Ryo Funayama & Keiko Nakayama. (2018) Transforming Growth Factor β-Induced Proliferative Arrest Mediated by TRIM26-Dependent TAF7 Degradation and Its Antagonism by MYC. Molecular and Cellular Biology 38:5.
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Douglas G. Baumann, Mu-Shui Dai, Hua Lu & David S. Gilmour. (2018) GFZF, a Glutathione S-Transferase Protein Implicated in Cell Cycle Regulation and Hybrid Inviability, Is a Transcriptional Coactivator. Molecular and Cellular Biology 38:4.
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Rafal Donczew & Steven Hahn. (2018) Mechanistic Differences in Transcription Initiation at TATA-Less and TATA-Containing Promoters. Molecular and Cellular Biology 38:1.
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Olga Calvo. (2018) Sub1 and RNAPII, until termination does them part. Transcription 9:1, pages 52-60.
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Z. Pahi, B. N. Borsos, B. Vedelek, Y. V. Shidlovskii, S. G. Georgieva, I. M. Boros & T. Pankotai. (2017) TAF10 and TAF10b partially redundant roles during Drosophila melanogaster morphogenesis. Transcription 8:5, pages 297-306.
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Naveen Malik, Pinky Agarwal & Akhilesh Tyagi. (2017) Emerging functions of multi-protein complex Mediator with special emphasis on plants. Critical Reviews in Biochemistry and Molecular Biology 52:5, pages 475-502.
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Eva Nogales, Jie Fang & Robert K. Louder. (2017) Structural dynamics and DNA interaction of human TFIID. Transcription 8:1, pages 55-60.
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Bess Ling Chau, King Pan Ng, Kim K C Li & Kevin A.W. Lee. (2016) RGG boxes within the TET/FET family of RNA-binding proteins are functionally distinct. Transcription 7:4, pages 141-151.
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Yiqiong Huo, Zhiqiang Yan, Baoshuai Zhang & Xiaoxue Wang. (2016) Recruitment of Polycomb Repressive Complex 2 is Essential to Suppress the Target Chromatin in Arabidopsis. Critical Reviews in Plant Sciences 35:3, pages 131-145.
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Peter A. Meyer, Sheng Li, Mincheng Zhang, Kentaro Yamada, Yuichiro Takagi, Grant A. Hartzog & Jianhua Fu. (2015) Structures and Functions of the Multiple KOW Domains of Transcription Elongation Factor Spt5. Molecular and Cellular Biology 35:19, pages 3354-3369.
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Anna Sloutskin, Yehuda M Danino, Yaron Orenstein, Yonathan Zehavi, Tirza Doniger, Ron Shamir & Tamar Juven-Gershon. (2015) ElemeNT: a computational tool for detecting core promoter elements. Transcription 6:3, pages 41-50.
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Barbora Malecová, Valentina S Caputo, Diane F Lee, James J Hsieh & Thomas Oelgeschläger. (2015) Taspase1 processing alters TFIIA cofactor properties in the regulation of TFIID. Transcription 6:2, pages 21-32.
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Yonathan Zehavi, Adi Kedmi, Diana Ideses & Tamar Juven-Gershon. (2015) TRF2: TRansForming the view of general transcription factors. Transcription 6:1, pages 1-6.
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Ivanka Kamenova, Linda Warfield & Steven Hahn. (2014) Mutations on the DNA Binding Surface of TBP Discriminate between Yeast TATA and TATA-Less Gene Transcription. Molecular and Cellular Biology 34:15, pages 2929-2943.
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Malika Saint, Sonal Sawhney, Ishani Sinha, Rana Pratap Singh, Rashmi Dahiya, Anushikha Thakur, Rahul Siddharthan & Krishnamurthy Natarajan. (2014) The TAF9 C-Terminal Conserved Region Domain Is Required for SAGA and TFIID Promoter Occupancy To Promote Transcriptional Activation. Molecular and Cellular Biology 34:9, pages 1547-1563.
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Abigail E Horn, James A Goodrich & Jennifer F Kugel. (2014) Single molecule studies of RNA polymerase II transcription in vitro. Transcription 5:1.
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Zachary C. Poss, Christopher C. Ebmeier & Dylan J. Taatjes. (2013) The Mediator complex and transcription regulation. Critical Reviews in Biochemistry and Molecular Biology 48:6, pages 575-608.
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Venkateswarlu Popuri, Takashi Tadokoro, Deborah L. Croteau & Vilhelm A. Bohr. (2013) Human RECQL5: Guarding the crossroads of DNA replication and transcription and providing backup capability. Critical Reviews in Biochemistry and Molecular Biology 48:3, pages 289-299.
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Anne Gegonne, Ballachanda N. Devaiah & Dinah S. Singer. (2013) TAF7. Transcription 4:1, pages 29-33.
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Yvette Y. Yien & James J. Bieker. (2013) EKLF/KLF1, a Tissue-Restricted Integrator of Transcriptional Control, Chromatin Remodeling, and Lineage Determination. Molecular and Cellular Biology 33:1, pages 4-13.
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Justyna Zaborowska, Alice Taylor, Robert G. Roeder & Shona Murphy. (2012) A novel TBP-TAF complex on RNA Polymerase II-transcribed snRNA genes. Transcription 3:2, pages 92-104.
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Tyler Faust, Alan Frankel & Iván D'Orso. (2012) Transcription control by long non-coding RNAs. Transcription 3:2, pages 78-86.
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Martina Baumann, Marc P. Höppner, Michael Meier, Jens Pontiller, Wolfgang Ernst, Reingard Grabherr, Evan Mauceli & Manfred G. Grabherr. (2012) Artificially designed promoters. Bioengineered 3:2, pages 120-123.
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James Fishburn & Steven Hahn. (2012) Architecture of the Yeast RNA Polymerase II Open Complex and Regulation of Activity by TFIIF. Molecular and Cellular Biology 32:1, pages 12-25.
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Alias J. Smith, Lorissa Chudnovsky, Augusto Simoes-Barbosa, Maria G. Delgadillo-Correa, Zophonias O. Jonsson, James A. Wohlschlegel & Patricia J. Johnson. (2011) Novel Core Promoter Elements and a Cognate Transcription Factor in the Divergent Unicellular Eukaryote Trichomonas vaginalis. Molecular and Cellular Biology 31:7, pages 1444-1458.
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Priya Kapoor-Vazirani, Jacob D. Kagey & Paula M. Vertino. (2011) SUV420H2-Mediated H4K20 Trimethylation Enforces RNA Polymerase II Promoter-Proximal Pausing by Blocking hMOF-Dependent H4K16 Acetylation. Molecular and Cellular Biology 31:8, pages 1594-1609.
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Petro Yakovchuk, James A. Goodrich & Jennifer F. Kugel. (2011) B2 RNA represses TFIIH phosphorylation of RNA polymerase II. Transcription 2:1, pages 45-49.
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Ju Huck Lee, Gang Cai, Aswini K. Panigrahi, Star Dunham-Ems, Tu N. Nguyen, Justin D. Radolf, Francisco J. Asturias & Arthur Günzl. (2010) A TFIIH-Associated Mediator Head Is a Basal Factor of Small Nuclear Spliced Leader RNA Gene Transcription in Early-Diverged Trypanosomes. Molecular and Cellular Biology 30:23, pages 5502-5513.
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Yuming Wang & Stefan G.E. Roberts. (2010) New insights into the role of TFIIB in transcription initiation. Transcription 1:3, pages 126-129.
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Sacha De Carlo, Shih-Chieh Lin, Dylan J. Taatjes & Andreas Hoenger. (2010) Molecular basis of transcription initiation in Archaea. Transcription 1:2, pages 103-111.
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Joshua W. M. Theisen, Chin Yan Lim & James T. Kadonaga. (2010) Three Key Subregions Contribute to the Function of the Downstream RNA Polymerase II Core Promoter. Molecular and Cellular Biology 30:14, pages 3471-3479.
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Stacey D. Wagner, Jennifer F. Kugel & James A. Goodrich. (2010) TFIIF Facilitates Dissociation of RNA Polymerase II from Noncoding RNAs That Lack a Repression Domain. Molecular and Cellular Biology 30:1, pages 91-97.
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Raghuvir S. Tomar, James N. Psathas, Hesheng Zhang, Zhengjian Zhang & Joseph C. Reese. (2009) A Novel Mechanism of Antagonism between ATP-Dependent Chromatin Remodeling Complexes Regulates RNR3 Expression. Molecular and Cellular Biology 29:12, pages 3255-3265.
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Bryan J. Venters & B. Franklin Pugh. (2009) How eukaryotic genes are transcribed. Critical Reviews in Biochemistry and Molecular Biology 44:2-3, pages 117-141.
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Wensheng Deng, Barbora Malecová, Thomas Oelgeschläger & Stefan G. E. Roberts. (2009) TFIIB Recognition Elements Control the TFIIA-NC2 Axis in Transcriptional Regulation. Molecular and Cellular Biology 29:6, pages 1389-1400.
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James A. Goodrich & Jennifer F. Kugel. (2009) From bacteria to humans, chromatin to elongation, and activation to repression: The expanding roles of noncoding RNAs in regulating transcription. Critical Reviews in Biochemistry and Molecular Biology 44:1, pages 3-15.
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Michele Ceribelli, Diletta Dolfini, Daniele Merico, Raffaella Gatta, Alessandra M. Viganò, Giulio Pavesi & Roberto Mantovani. (2008) The Histone-Like NF-Y Is a Bifunctional Transcription Factor. Molecular and Cellular Biology 28:6, pages 2047-2058.
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Sayura Aoyagi & Trevor K. Archer. (2008) Nicotinamide Uncouples Hormone-Dependent Chromatin Remodeling from Transcription Complex Assembly. Molecular and Cellular Biology 28:1, pages 30-39.
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Thomas Westerling, Emilia Kuuluvainen & Tomi P. Maäkelaä. (2007) Cdk8 Is Essential for Preimplantation Mouse Development. Molecular and Cellular Biology 27:17, pages 6177-6182.
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Igor Chernukhin, Shaharum Shamsuddin, Sung Yun Kang, Rosita Bergström, Yoo-Wook Kwon, WenQiang Yu, Joanne Whitehead, Rituparna Mukhopadhyay, France Docquier, Dawn Farrar, Ian Morrison, Marc Vigneron, Shwu-Yuan Wu, Cheng-Ming Chiang, Dmitri Loukinov, Victor Lobanenkov, Rolf Ohlsson & Elena Klenova. (2007) CTCF Interacts with and Recruits the Largest Subunit of RNA Polymerase II to CTCF Target Sites Genome-Wide. Molecular and Cellular Biology 27:5, pages 1631-1648.
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