RNA polymerase II pausing can be retained or acquired during activation of genes involved in the epithelial to mesenchymal transition

Noise Facilitates Transcriptional Control under Dynamic Inputs

(2015) Ryan A. Kellogg et al.   CELL

Stably paused genes revealed through inhibition of transcription initiation by the TFIIH inhibitor triptolide

(2015) Fei Chen et al.   GENES & DEVELOPMENT

An HDAC-dependent epigenetic mechanism that enhances the efficacy of the antidepressant drug fluoxetine

(2015) C. Schmauss   Scientific Reports

Kinetics of promoter Pol II on Hsp70 reveal stable pausing and key insights into its regulation

(2014) M. S. Buckley et al.   GENES & DEVELOPMENT

Integrator Regulates Transcriptional Initiation and Pause Release following Activation

(2014) Alessandro Gardini et al.   MOLECULAR CELL

Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers

(2014) Leighton J Core et al.   NATURE GENETICS

Dynamic regulation of eve stripe 2 expression reveals transcriptional bursts in living Drosophila embryos

(2014) J. P. Bothma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Comprehensive and High-Resolution Genome-wide Response of p53 to Stress

(2014) Gue Su Chang et al.   Cell Reports

Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

(2014) Iris Jonkers et al.   eLife

Characteristic bimodal profiles of RNA polymerase II at thousands of active mammalian promoters

(2014) Mathieu Quinodoz et al.   GENOME BIOLOGY

Paused Pol II Coordinates Tissue Morphogenesis in the Drosophila Embryo

(2013) Mounia Lagha et al.   CELL

Kinetic Competition between Elongation Rate and Binding of NELF Controls Promoter-Proximal Pausing

(2013) Jian Li et al.   MOLECULAR CELL

Signaling Pathways Differentially Affect RNA Polymerase II Initiation, Pausing, and Elongation Rate in Cells

(2013) Charles G. Danko et al.   MOLECULAR CELL

Stable Pausing by RNA Polymerase II Provides an Opportunity to Target and Integrate Regulatory Signals

(2013) Telmo Henriques et al.   MOLECULAR CELL

The Complex Function of Hsp70 in Metastatic Cancer

(2013) Kata Juhasz et al.   Cancers

Inhibition of HSP70: A challenging anti-cancer strategy

(2012) Anastasia R. Goloudina et al.   CANCER LETTERS

Inhibiting Interactions of Lysine Demethylase LSD1 with Snail/Slug Blocks Cancer Cell Invasion

(2012) G. Ferrari-Amorotti et al.   CANCER RESEARCH

TGF-β signaling and epithelial–mesenchymal transition in cancer progression

(2012) Yoko Katsuno et al.   CURRENT OPINION IN ONCOLOGY

Regulating the regulators: the pervasive effects of Pol II pausing on stimulus-responsive gene networks

(2012) D. A. Gilchrist et al.   GENES & DEVELOPMENT

HDAC inhibitor-based therapies: Can we interpret the code?

(2012) Maria New et al.   Molecular Oncology

Genome-wide structure and organization of eukaryotic pre-initiation complexes

(2012) Ho Sung Rhee et al.   NATURE

Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans

(2012) Karen Adelman et al.   NATURE REVIEWS GENETICS

The super elongation complex (SEC) family in transcriptional control

(2012) Zhuojuan Luo et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Histone Deacetylase Inhibitors Induce Epithelial-to-Mesenchymal Transition in Prostate Cancer Cells

(2012) Dejuan Kong et al.   PLoS One

Defining the Status of RNA Polymerase at Promoters

(2012) Leighton J. Core et al.   Cell Reports

The Ins and Outs of the Epithelial to Mesenchymal Transition in Health and Disease

(2011) M. Angela Nieto   Annual Review of Cell and Developmental Biology

The role of DDX3 in regulating Snail

(2011) Mianen Sun et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

A Rapid, Extensive, and Transient Transcriptional Response to Estrogen Signaling in Breast Cancer Cells

(2011) Nasun Hah et al.   CELL

Promoter-proximal Pol II: When stalling speeds things up

(2011) Sergei Nechaev et al.   CELL CYCLE

Rational therapeutic combinations with histone deacetylase inhibitors for the treatment of cancer

(2011) K Ted Thurn et al.   Future Oncology

Regulating RNA polymerase pausing and transcription elongation in embryonic stem cells

(2011) I. M. Min et al.   GENES & DEVELOPMENT

Heat shock reduces stalled RNA polymerase II and nucleosome turnover genome-wide

(2011) S. S. Teves et al.   GENES & DEVELOPMENT

Negative Elongation Factor Accelerates the Rate at Which Heat Shock Genes Are Shut off by Facilitating Dissociation of Heat Shock Factor

(2011) S. K. B. Ghosh et al.   MOLECULAR AND CELLULAR BIOLOGY

XPB, a subunit of TFIIH, is a target of the natural product triptolide

(2011) Denis V Titov et al.   Nature Chemical Biology

Rapid activity-induced transcription of Arc and other IEGs relies on poised RNA polymerase II

(2011) Ramendra N Saha et al.   NATURE NEUROSCIENCE

The Transcription Factors Snail and Slug Activate the Transforming Growth Factor-Beta Signaling Pathway in Breast Cancer

(2011) Archana Dhasarathy et al.   PLoS One

Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome

(2011) R. A. Flynn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptional Regulation: Effects of Promoter Proximal Pausing on Speed, Synchrony and Reliability

(2011) Alistair N. Boettiger et al.   PLoS Computational Biology

Pausing of RNA Polymerase II Disrupts DNA-Specified Nucleosome Organization to Enable Precise Gene Regulation

(2010) Daniel A. Gilchrist et al.   CELL

Histone deacetylase inhibition suppresses the transforming growth factor β1-induced epithelial-to-mesenchymal transition in hepatocytes

(2010) Aki Kaimori et al.   HEPATOLOGY

Histone deacetylase inhibitors: potential targets responsible for their anti-cancer effect

(2010) Michael Dickinson et al.   INVESTIGATIONAL NEW DRUGS

Epithelial Mesenchymal Transition Traits in Human Breast Cancer Cell Lines Parallel the CD44hi/CD24lo/- Stem Cell Phenotype in Human Breast Cancer

(2010) Tony Blick et al.   JOURNAL OF MAMMARY GLAND BIOLOGY AND NEOPLASIA

Pervasive transcription constitutes a new level of eukaryotic genome regulation

(2009) Julia Berretta et al.   EMBO REPORTS

The basics of epithelial-mesenchymal transition

(2009) Raghu Kalluri et al.   JOURNAL OF CLINICAL INVESTIGATION

Detecting transcriptionally engaged RNA polymerase in eukaryotic cells with permanganate genomic footprinting

(2009) David S. Gilmour et al.   METHODS

Triptolide is an inhibitor of RNA polymerase I and II-dependent transcription leading predominantly to down-regulation of short-lived mRNA

(2009) S. Vispe et al.   MOLECULAR CANCER THERAPEUTICS

Inhibition of epithelial to mesenchymal transition in metastatic prostate cancer cells by the novel proteasome inhibitor, NPI-0052: pivotal roles of Snail repression and RKIP induction

(2009) S Baritaki et al.   ONCOGENE

Synchronous and Stochastic Patterns of Gene Activation in theDrosophilaEmbryo

(2009) Alistair N. Boettiger et al.   SCIENCE

Global Analysis of Short RNAs Reveals Widespread Promoter-Proximal Stalling and Arrest of Pol II in Drosophila

(2009) S. Nechaev et al.   SCIENCE

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Heterogeneity of Embryonic and Adult Stem Cells

(2008) Thomas Graf et al.   Cell Stem Cell

NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly

(2008) D. A. Gilchrist et al.   GENES & DEVELOPMENT

Improved northern blot method for enhanced detection of small RNA

(2008) Gurman S Pall et al.   Nature Protocols

Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

(2008) Leighton J. Core et al.   SCIENCE