Modifications of RNA polymerase II are pivotal in regulating gene expression states

No abstract is available for this paper.

• Publication year

  2009

• Venue

  EMBO Reports

• Publication date

  2009-11-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1038/embor.2009.221PMID 19834511PMCID PMC2775184
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Rtr1 is a CTD phosphatase that regulates RNA polymerase II during the transition from serine 5 to serine 2 phosphorylation.

  2009cited by this paper
• TFIIH kinase places bivalent marks on the carboxy-terminal domain of RNA polymerase II.

  2009cited by this paper
• Control of inducible gene expression by signal-dependent transcriptional elongation.

  2009cited by this paper
• Regulation of Hox gene activity by transcriptional elongation in Drosophila.

  2009influential reference
• Transcription termination by nuclear RNA polymerases.

  2009cited by this paper
• NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly.

  2008cited by this paper
• Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

  2008cited by this paper
• NELF and GAGA Factor Are Linked to Promoter-Proximal Pausing at Many Genes in Drosophila

  2008influential reference
• Divergent Transcription from Active Promoters

  2008cited by this paper
• Polycomb complexes and epigenetic states.

  2008cited by this paper
• Histone H2A monoubiquitination represses transcription by inhibiting RNA polymerase II transcriptional elongation.

  2008cited by this paper
• Polycomb group proteins Ring1A/B are functionally linked to the core transcriptional regulatory circuitry to maintain ES cell identity

  2008cited by this paper
• Transcription Regulation Through Promoter-Proximal Pausing of RNA Polymerase II

  2008cited by this paper
• Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains

  2008cited by this paper
• A chromatin landmark and transcription initiation at most promoters in human cells.

  2007cited by this paper
• Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

  2007cited by this paper
• Ring1-mediated ubiquitination of H2A restrains poised RNA polymerase II at bivalent genes in mouse ES cells

  2007influential reference
• The Polycomb group protein EZH2 directly controls DNA methylation

  2007cited by this paper
• Overlapping Roles of the Methylated DNA-binding Protein MBD1 and Polycomb Group Proteins in Transcriptional Repression of HOXA Genes and Heterochromatin Foci Formation*

  2007cited by this paper
• RNA polymerase is poised for activation across the genome

  2007cited by this paper
• Serine-7 of the RNA Polymerase II CTD Is Specifically Required for snRNA Gene Expression

  2007influential reference
• RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo

  2007cited by this paper
• Properties of RNA Polymerase II Elongation Complexes Before and After the P-TEFb-mediated Transition into Productive Elongation*

  2007cited by this paper
• Transcribing RNA Polymerase II Is Phosphorylated at CTD Residue Serine-7

  2007influential reference
• Pin1 modulates RNA polymerase II activity during the transcription cycle.

  2007cited by this paper
• Histone Replacement Marks the Boundaries of cis-Regulatory Domains

  2007cited by this paper
• Wwp2-Mediated Ubiquitination of the RNA Polymerase II Large Subunit in Mouse Embryonic Pluripotent Stem Cells

  2007cited by this paper
• The prolyl isomerase PIN1: a pivotal new twist in phosphorylation signalling and disease

  2007cited by this paper
• Genome-wide analysis of Polycomb targets in Drosophila melanogaster

  2006cited by this paper
• The Polycomb group protein EZH2 directly controls DNA methylation

  2006cited by this paper
• Chromatin signatures of pluripotent cell lines

  2006cited by this paper
• Polycomb complexes repress developmental regulators in murine embryonic stem cells

  2006cited by this paper
• P-TEFb-mediated phosphorylation of hSpt5 C-terminal repeats is critical for processive transcription elongation.

  2006cited by this paper
• Genome-wide profiling of PRC1 and PRC2 Polycomb chromatin binding in Drosophila melanogaster

  2006cited by this paper
• Polycomb Repressive Complexes Restrain the Expression of Lineage-Specific Regulators in Embryonic Stem Cells

  2006cited by this paper
• Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions.

  2006cited by this paper
• Splicing speckles are not reservoirs of RNA polymerase II, but contain an inactive form, phosphorylated on serine2 residues of the C-terminal domain.

  2006cited by this paper
• A bivalent chromatin structure marks key developmental genes in embryonic stem cells.

  2006cited by this paper
• Phosphorylation and functions of the RNA polymerase II CTD.

  2006cited by this paper
• Solution structure of the Set2-Rpb1 interacting domain of human Set2 and its interaction with the hyperphosphorylated C-terminal domain of Rpb1.

  2005cited by this paper
• Multiple mechanisms confining RNA polymerase II ubiquitylation to polymerases undergoing transcriptional arrest.

  2005cited by this paper
• The role of enhancers as centres for general transcription factor recruitment.

  2005cited by this paper
• A high-resolution map of active promoters in the human genome

  2005cited by this paper
• Small CTD Phosphatases Function in Silencing Neuronal Gene Expression

  2005cited by this paper
• Epigenome changes in active and inactive Polycomb‐group‐controlled regions

  2004cited by this paper
• Role of histone H2A ubiquitination in Polycomb silencing

  2004cited by this paper
• Polycomb silencing blocks transcription initiation.

  2004cited by this paper
• Ssu72 Is an RNA polymerase II CTD phosphatase.

  2004cited by this paper
• Dynamics of Human Immunodeficiency Virus Transcription: P-TEFb Phosphorylates RD and Dissociates Negative Effectors from the Transactivation Response Element

  2004cited by this paper
• Methylation of Histone H3 by Set2 in Saccharomyces cerevisiae Is Linked to Transcriptional Elongation by RNA Polymerase II

  2003cited by this paper
• Transcription Factor and Polymerase Recruitment, Modification, and Movement on dhsp70 In Vivo in the Minutes following Heat Shock

  2003cited by this paper
• p53 functions through stress- and promoter-specific recruitment of transcription initiation components before and after DNA damage.

  2003cited by this paper
• CIITA regulates transcription onset via Ser5‐phosphorylation of RNA Pol II

  2003cited by this paper
• Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity.

  2003cited by this paper
• The CTD code

  2003cited by this paper
• Role of Histone H3 Lysine 27 Methylation in Polycomb-Group Silencing

  2002influential reference
• The distribution of RNA polymerase II largest subunit (RPB1) in the Xenopus germinal vesicle.

  2002cited by this paper
• Integrating mRNA processing with transcription.

  2002cited by this paper
• Opposing effects of Ctk1 kinase and Fcp1 phosphatase at Ser 2 of the RNA polymerase II C-terminal domain.

  2001cited by this paper
• A Drosophila Polycomb group complex includes Zeste and dTAFII proteins

  2001cited by this paper
• General transcription factors bind promoters repressed by Polycomb group proteins

  2001cited by this paper
• Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription.

  2000cited by this paper
• Distinct roles for CTD Ser-2 and Ser-5 phosphorylation in the recruitment and allosteric activation of mammalian mRNA capping enzyme.

  1999influential reference
• Growth-related Changes in Phosphorylation of Yeast RNA Polymerase II*

  1998cited by this paper
• Control of RNA Polymerase II Elongation Potential by a Novel Carboxyl-terminal Domain Kinase*

  1996cited by this paper
• UV-induced ubiquitination of RNA polymerase II: a novel modification deficient in Cockayne syndrome cells.

  1996cited by this paper
• The RNA polymerase II molecule at the 5' end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged.

  1988cited by this paper
• Transcription of c-myc in human mononuclear cells is regulated by an elongation block.

  1987cited by this paper
• RNA polymerase II interacts with the promoter region of the noninduced hsp70 gene in Drosophila melanogaster cells.

  1986cited by this paper
• A unique structure at the carboxyl terminus of the largest subunit of eukaryotic RNA polymerase II.

  1985cited by this paper

• Direct recruitment of RNA Polymerase II by NANOG to activated target genes

  2025cites this paper
• Hallmarks of glucocorticoid receptor condensates involvement in transcription regulation

  2024cites this paper
• Cocaine-Induced DNA-Dependent Protein Kinase Relieves RNAP II Pausing by Promoting TRIM28 Phosphorylation and RNAP II Hyperphosphorylation to Enhance HIV Transcription

  2024cites this paper
• Cocaine-induced DNA-PK relieves RNAP II pausing by promoting TRIM28 phosphorylation

  2024cites this paper
• Effect of DNA methylation at the CTLA4 gene on the clinical status of autoimmune thyroid diseases.

  2024cites this paper
• Assessing the Role of Post-Translational Modifications of Mitochondrial RNA Polymerase

  2023cites this paper
• Catalytic activity of the Bin3/MEPCE methyltransferase domain is dispensable for 7SK snRNP function in Drosophila melanogaster

  2023cites this paper
• Catalytic activity of the Bin3/MePCE methyltransferase domain is dispensable for 7SK snRNP function in Drosophila melanogaster.

  2023cites this paper
• ERK1/2 signalling dynamics promote neural differentiation by regulating chromatin accessibility and the polycomb repressive complex

  2022cites this paper
• A novel, rapid and sensitive flow cytometry method reveals degradation of promoter proximal paused RNAPII in the presence and absence of UV

  2022cites this paper
• RINGs, DUBs and Abnormal Brain Growth—Histone H2A Ubiquitination in Brain Development and Disease

  2022cites this paper
• Evaluation of the Small-molecule BRD4 Degrader CFT-2718 in Small-cell Lung Cancer and Pancreatic Cancer Models

  2021cites this paper
• Identifying and Validating Differentially Methylated Regions in Newly Diagnosed Patients with Graves' Disease

  2021cites this paper
• A Unique Bipartite Polycomb Signature Regulates Stimulus-Response Transcription during Development

  2021cites this paper
• AGR2-dependent nuclear import of RNA polymerase II constitutes a specific target of pancreatic ductal adenocarcinoma in the context of wild-type p53.

  2021cites this paper
• Polycomb regulation is coupled to cell cycle transition in pluripotent stem cells

  2020cites this paper
• Nucleoporin 153 links nuclear pore complex to chromatin architecture by mediating CTCF and cohesin binding

  2020cites this paper
• KAT7 is a genetic vulnerability of acute myeloid leukemias driven by MLL rearrangements

  2020cites this paper
• KAT7 is a therapeutic vulnerability of MLL-rearranged acute myeloid leukemia

  2020influential citation
• H3K27me3 suppresses sister-lineage somatic gene expression in late embryonic germline cells of the ascidian, Halocynthia roretzi.

  2020cites this paper
• Assessment of the epigenetic nature of chromosomal proteins during DNA replication and mitosis

  2020cites this paper
• Pinning Down the Transcription: A Role for Peptidyl-Prolyl cis-trans Isomerase Pin1 in Gene Expression

  2020cites this paper
• NOMePlot: analysis of DNA methylation and nucleosome occupancy at the single molecule

  2019cites this paper
• Methylation of the first exon in the erythropoietin receptor gene does not correlate with its mRNA and protein level in cancer cells

  2019cites this paper
• Chromatin folding and nuclear architecture: PRC1 function in 3D

  2019cites this paper
• Transcriptional down-regulation of ccr5 in a subset of HIV+ controllers and their family members

  2019cites this paper
• Planarian flatworms as a new model system for understanding the epigenetic regulation of stem cell pluripotency and differentiation.

  2019cites this paper
• Evolving Role of RING1 and YY1 Binding Protein in the Regulation of Germ-Cell-Specific Transcription

  2019cites this paper
• A central role for canonical PRC1 in shaping the 3D nuclear landscape

  2019cites this paper
• Epigenetics in Insects: Genome Regulation and the Generation of Phenotypic Diversity.

  2019cites this paper
• R-Loops Enhance Polycomb Repression at a Subset of Developmental Regulator Genes

  2019cites this paper
• ERK1/2 signalling dynamics promote neural differentiation by regulating the polycomb repressive complex

  2019cites this paper
• RNA Polymerase II and Associated Transcription Factors

  2018cites this paper
• From Flies to Mice: The Emerging Role of Non-Canonical PRC1 Members in Mammalian Development

  2018cites this paper
• Dismissal of RNA Polymerase II Underlies a Large Ligand-Induced Enhancer Decommissioning Program.

  2018cites this paper
• Dynamics of promoter bivalency and RNAP II pausing in mouse stem and differentiated cells

  2018cites this paper
• Cyclin D1 overexpression induces global transcriptional downregulation in lymphoid neoplasms

  2018cites this paper
• Long-Acting β2-Adrenoceptor Agonists Enhance Glucocorticoid Receptor (GR)–Mediated Transcription by Gene-Specific Mechanisms Rather Than Generic Effects via GR

  2018cites this paper
• Rpb5 modulates the RNA polymerase II transition from initiation to elongation by influencing Spt5 association and backtracking.

  2018cites this paper
• Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells

  2017cites this paper
• Rpb 5 modulates the RNA polymerase II transition from initiation to elongation by influencing Spt 5 association and backtracking Running title : Rpb 5 in initiation to elongation transition

  2017cites this paper
• Deregulation of &agr;‐synuclein in Parkinson's disease: Insight from epigenetic structure and transcriptional regulation of SNCA

  2017influential citation
• Transcription factor heterogeneity in pluripotent stem cells

  2017cites this paper
• Late-stage differentiation of embryonic pancreatic β-cells requires Jarid2

  2017cites this paper
• Landscape of histone modifications in a sponge reveals the origin of animal cis-regulatory complexity

  2017cites this paper
• RNA polymerase II primes Polycomb‐repressed developmental genes throughout terminal neuronal differentiation

  2017cites this paper
• Chapter 10 Epigenetic Reprogramming in Stem Cells

  2017cites this paper
• Exploration of nucleosome positioning patterns in transcription factor function

  2016cites this paper
• Morphological, biochemical, transcriptional and epigenetic responses to fasting and refeeding in intestine of Xenopus laevis

  2016cites this paper
• GAGA factor, a positive regulator of global gene expression, modulates transcriptional pausing and organization of upstream nucleosomes

  2016cites this paper
• Divergent Binding and Transactivation by Two Related Steroid Receptors at the Same Response Element*

  2016cites this paper
• A Transcription Factor Pulse Can Prime Chromatin for Heritable Transcriptional Memory

  2016cites this paper
• Analysis of host gene regulation by Epstein-Barr Virus Nuclear Antigen 3B (EBNA3B)

  2016cites this paper
• Profiling of DNA and histone methylation reveals epigenetic-based regulation of gene expression during retinal differentiation of stem/progenitor cells isolated from the ciliary pigment epithelium of human cadaveric eyes.

  2016cites this paper
• DNA Methylation and Chromatin Organization in Insects: Insights from the Ant Camponotus floridanus

  2015cites this paper
• The regulation and function of mRNA cap methylation in pluripotency and differentiation

  2015cites this paper
• Poised RNA polymerase II and master regulation in Metazoa

  2015cites this paper
• Methylation of RNA polymerase II non-consensus Lysine residues marks early transcription in mammalian cells

  2015cites this paper
• High‐wire act: the poised genome and cellular memory

  2015cites this paper
• Epigenetics in Social Insects

  2015cites this paper
• Characteristic bimodal profiles of RNA polymerase II at thousands of active mammalian promoters

  2014cites this paper
• DEV102624 2173..2181

  2014cites this paper
• EZH2 and KDM6A Act as an Epigenetic Switch to Regulate Mesenchymal Stem Cell Lineage Specification

  2014cites this paper
• Regulation and role of RNA Pol II CTD phosphorylation in the transcription cycle of the Nos 2 gene

  2014cites this paper
• Transcriptional complexity and roles of Fra-1/AP-1 at the uPA/Plau locus in aggressive breast cancer

  2014cites this paper
• Variable induction of PRDM1 and differentiation in chronic lymphocytic leukemia is associated with anergy.

  2014cites this paper
• Exploring the role of nuclear phosphatases and their associated protein in cell growth and development

  2014cites this paper
• Identification of five patterns of nucleosome positioning that globally describe transcription factor function

  2014cites this paper
• Ioxynil and tetrabromobisphenol A suppress thyroid-hormone-induced activation of transcriptional elongation mediated by histone modifications and RNA polymerase II phosphorylation.

  2014cites this paper
• VE-CADHERIN ORCHESTRATES EPIGENETIC MODIFICATIONS AIMED AT ENDOTHELIAL STABILISATION

  2014cites this paper
• Depletion of REF/Aly alters gene expression and reduces RNA polymerase II occupancy

  2014influential citation
• Maternal vitamin D deficiency during pregnancy results in insulin resistance in rat offspring, which is associated with inflammation and Iκbα methylation

  2014cites this paper
• Transcription factor heterogeneity in pluripotent stem cells: a stochastic advantage

  2014cites this paper
• Epigenetic Reprogramming in Stem Cells

  2013cites this paper
• H2A.Z-dependent crosstalk between enhancer and promoter regulates Cyclin D1 expression

  2013cites this paper
• Emerging roles for chromatin as a signal integration and storage platform

  2013cites this paper
• Phylogenomic Analyses of Nuclear Genes Reveal the Evolutionary Relationships within the BEP Clade and the Evidence of Positive Selection in Poaceae

  2013cites this paper
• The methyltransferase SMYD3 mediates the recruitment of transcriptional cofactors at the myostatin and c-Met genes and regulates skeletal muscle atrophy.

  2013cites this paper
• p68/DdX5 Supports β-Catenin & RNAP II during Androgen Receptor Mediated Transcription in Prostate Cancer

  2013cites this paper
• Rad26, the Transcription-Coupled Repair Factor in Yeast, Is Required for Removal of Stalled RNA Polymerase-II following UV Irradiation

  2013cites this paper
• Gene regulation by the act of long non-coding RNA transcription

  2013cites this paper
• PNUTS/PP1 Regulates RNAPII-Mediated Gene Expression and Is Necessary for Developmental Growth

  2013cites this paper
• Time- and residue-specific differences in histone acetylation induced by VPA and SAHA in AML1/ETO-positive leukemia cells

  2013cites this paper
• RNAP-II Molecules Participate in the Anchoring of the ORC to rDNA Replication Origins

  2013cites this paper
• Hira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells.

  2013cites this paper
• In vivo live imaging of RNA polymerase II transcription factories in primary cells.

  2013cites this paper
• Cytokine-induced Chromatin Modifications of the Type I Collagen Alpha 2 Gene during Intestinal Endothelial-to-Mesenchymal Transition

  2013influential citation
• Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription.

  2013cites this paper
• Emerging roles for chromatin as a signal integration and storage platform.

  2013cites this paper
• The effect of histone deacetylase inhibitors on SRC and BCL2L1 gene expression and a potential role for phosphatases in their transcriptional repression

  2013cites this paper
• Transcription et épissage des gènes d’immunoglobulines non-productifs : étude des mécanismes mis en jeu et de leur influence au cours du développement des lymphocytes B

  2013cites this paper
• Synergistic transcriptional regulation of collagenase gene expression in chondrocytes

  2013cites this paper
• Differential chromatin topology and transcription factor enhancer binding regulate spatiotemporal gene expression in limb development

  2013cites this paper
• Epigenetic PU.1 silencing in myeloid leukemia by mimicrying a T cell specific chromatin loop

  2013influential citation
• Characterization of the role of the Aurora B kinase in quiescent lymphocytes

  2013cites this paper
• Molecular Insights into the Distinct Mechanisms Regulating the TLR4 Mediated Activation, Shut Down, and Endotoxin Tolerance of the IL1B and TNF Genes

  2013influential citation
• Using Single Molecule FRET to Study the Mechanisms of DNA Bending by TBP and HMGB1

  2013influential citation
• Bivalent chromatin modification

  2013cites this paper
• Radiation-induced alterations in histone modification patterns and their potential impact on short-term radiation effects

  2012cites this paper
• Distinct requirement of RNA polymerase II CTD phosphorylations in budding and fission yeast

  2012cites this paper