Phase Separation and Transcription Regulation: Are Super-Enhancers and Locus Control Regions Primary Sites of Transcription Complex Assembly?

Imaging transcriptional dynamics

(2018) Bomyi Lim   CURRENT OPINION IN BIOTECHNOLOGY

Assessing sufficiency and necessity of enhancer activities for gene expression and the mechanisms of transcription activation

(2018) Rui R. Catarino et al.   GENES & DEVELOPMENT

Widespread transcriptional pausing and elongation control at enhancers

(2018) Telmo Henriques et al.   GENES & DEVELOPMENT

The degree of enhancer or promoter activity is reflected by the levels and directionality of eRNA transcription

(2018) Olga Mikhaylichenko et al.   GENES & DEVELOPMENT

Enhancer hubs and loop collisions identified from single-allele topologies

(2018) Amin Allahyar et al.   NATURE GENETICS

Transient pausing by RNA polymerase II

(2018) David H. Price   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Imaging dynamic and selective low-complexity domain interactions that control gene transcription

(2018) Shasha Chong et al.   SCIENCE

Transcription-coupled changes in nuclear mobility of mammalian cis-regulatory elements

(2018) Bo Gu et al.   SCIENCE

Coactivator condensation at super-enhancers links phase separation and gene control

(2018) Benjamin R. Sabari et al.   SCIENCE

Mediator and RNA polymerase II clusters associate in transcription-dependent condensates

(2018) Won-Ki Cho et al.   SCIENCE

Widespread Enhancer Activity from Core Promoters

(2018) Alejandra Medina-Rivera et al.   TRENDS IN BIOCHEMICAL SCIENCES

Dissecting super-enhancer hierarchy based on chromatin interactions

(2018) Jialiang Huang et al.   Nature Communications

The RNA Polymerase II Factor RPAP1 Is Critical for Mediator-Driven Transcription and Cell Identity

(2018) Cian J. Lynch et al.   Cell Reports

Distinct patterns of histone acetyltransferase and Mediator deployment at yeast protein-coding genes

(2018) Maria Jessica Bruzzone et al.   GENES & DEVELOPMENT

Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II

(2018) Huasong Lu et al.   NATURE

RNA polymerase II clustering through carboxy-terminal domain phase separation

(2018) Marc Boehning et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells

(2018) Bogdan Bintu et al.   SCIENCE

Core Mediator structure at 3.4 Å extends model of transcription initiation complex

(2017) Kayo Nozawa et al.   NATURE

Transcription regulation by the Mediator complex

(2017) Julie Soutourina   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Integrator complex and transcription regulation: Recent findings and pathophysiology

(2016) Monica Rienzo et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Dephosphorylating eukaryotic RNA polymerase II

(2016) Joshua E. Mayfield et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Gene activation by metazoan enhancers: Diverse mechanisms stimulate distinct steps of transcription

(2016) Robert A. Beagrie et al.   BIOESSAYS

Enhancer Control of Transcriptional Bursting

(2016) Takashi Fukaya et al.   CELL

Functional interplay between Mediator and TFIIB in preinitiation complex assembly in relation to promoter architecture

(2016) Thomas Eychenne et al.   GENES & DEVELOPMENT

Tail and Kinase Modules Differently Regulate Core Mediator Recruitment and Function In Vivo

(2016) Célia Jeronimo et al.   MOLECULAR CELL

Enhancer Regulation of Transcriptional Bursting Parameters Revealed by Forced Chromatin Looping

(2016) Caroline R. Bartman et al.   MOLECULAR CELL

Hierarchy within the mammary STAT5-driven Wap super-enhancer

(2016) Ha Youn Shin et al.   NATURE GENETICS

The pol II CTD: new twists in the tail

(2016) Justyna Zaborowska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A single-molecule view of transcription reveals convoys of RNA polymerases and multi-scale bursting

(2016) Katjana Tantale et al.   Nature Communications

The pol II CTD: new twists in the tail

(2016) Justyna Zaborowska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Set1/COMPASS and Mediator are repurposed to promote epigenetic transcriptional memory

(2016) Agustina D'Urso et al.   eLife

Architectural and Functional Commonalities between Enhancers and Promoters

(2015) Tae-Kyung Kim et al.   CELL

Transcription of Mammalian cis-Regulatory Elements Is Restrained by Actively Enforced Early Termination

(2015) Liv M.I. Austenaa et al.   MOLECULAR CELL

Integrator mediates the biogenesis of enhancer RNAs

(2015) Fan Lai et al.   NATURE

What are super-enhancers?

(2015) Sebastian Pott et al.   NATURE GENETICS

The Hierarchy of Transcriptional Activation: From Enhancer to Promoter

(2015) Douglas Vernimmen et al.   TRENDS IN GENETICS

TFIIH Phosphorylation of the Pol II CTD Stimulates Mediator Dissociation from the Preinitiation Complex and Promoter Escape

(2014) Koon Ho Wong et al.   MOLECULAR CELL

Kin28 regulates the transient association of Mediator with core promoters

(2014) Célia Jeronimo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dissecting the function of the adult β-globin downstream promoter region using an artificial zinc finger DNA-binding domain

(2014) Joeva J. Barrow et al.   NUCLEIC ACIDS RESEARCH

Terminate and make a loop: regulation of transcriptional directionality

(2014) Pawel Grzechnik et al.   TRENDS IN BIOCHEMICAL SCIENCES

Nuclear stability and transcriptional directionality separate functionally distinct RNA species

(2014) Robin Andersson et al.   Nature Communications

Phosphorylation-Regulated Binding of RNA Polymerase II to Fibrous Polymers of Low-Complexity Domains

(2013) Ilmin Kwon et al.   CELL

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes

(2013) Warren A. Whyte et al.   CELL

Super-Enhancers in the Control of Cell Identity and Disease

(2013) Denes Hnisz et al.   CELL

In vivo live imaging of RNA polymerase II transcription factories in primary cells

(2013) A. Ghamari et al.   GENES & DEVELOPMENT

The multitalented Mediator complex

(2013) Jonas O.P. Carlsten et al.   TRENDS IN BIOCHEMICAL SCIENCES

Promoter Sequence Determines the Relationship between Expression Level and Noise

(2013) Lucas B. Carey et al.   PLOS BIOLOGY

Transcription elongation factors DSIF and NELF: Promoter-proximal pausing and beyond

(2012) Yuki Yamaguchi et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The hypersensitive sites of the murine  -globin locus control region act independently to affect nuclear localization and transcriptional elongation

(2012) M. A. Bender et al.   BLOOD

Controlling Long-Range Genomic Interactions at a Native Locus by Targeted Tethering of a Looping Factor

(2012) Wulan Deng et al.   CELL

Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation

(2012) Guoliang Li et al.   CELL

The Chromatin Fingerprint of Gene Enhancer Elements

(2012) Gabriel E. Zentner et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Functional and Mechanistic Diversity of Distal Transcription Enhancers

(2011) Michael Bulger et al.   CELL

USF and NF-E2 Cooperate to Regulate the Recruitment and Activity of RNA Polymerase II in the β-Globin Gene Locus

(2010) Zhuo Zhou et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

Mediator and cohesin connect gene expression and chromatin architecture

(2010) Michael H. Kagey et al.   NATURE

A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers

(2010) Francesca De Santa et al.   PLOS BIOLOGY

Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

(2009) Stefan Schoenfelder et al.   NATURE GENETICS

Locus control region mediated regulation of adult β-globin gene expression

(2008) Shermi Liang et al.   JOURNAL OF CELLULAR BIOCHEMISTRY