Who let the DoGs out? – biogenesis of stress-induced readthrough transcripts

Integrator is a genome-wide attenuator of non-productive transcription

(2021) Søren Lykke-Andersen et al.   MOLECULAR CELL

Hyperosmotic stress alters the RNA polymerase II interactome and induces readthrough transcription despite widespread transcriptional repression

(2021) Nicolle A. Rosa-Mercado et al.   MOLECULAR CELL

Co-transcriptional splicing regulates 3′ end cleavage during mammalian erythropoiesis

(2021) Kirsten A. Reimer et al.   MOLECULAR CELL

On the existence and functionality of topologically associating domains

(2020) Jonathan A. Beagan et al.   NATURE GENETICS

Herpes simplex virus blocks host transcription termination via the bimodal activities of ICP27

(2020) Xiuye Wang et al.   Nature Communications

ARTDeco: automatic readthrough transcription detection

(2020) Samuel J. Roth et al.   BMC BIOINFORMATICS

The role of cellular senescence in ageing and endocrine disease

(2020) Sundeep Khosla et al.   Nature Reviews Endocrinology

The Human Integrator Complex Facilitates Transcriptional Elongation by Endonucleolytic Cleavage of Nascent Transcripts

(2020) Felipe Beckedorff et al.   Cell Reports

Multivalent Proteins Rapidly and Reversibly Phase-Separate upon Osmotic Cell Volume Change

(2020) Ameya P. Jalihal et al.   MOLECULAR CELL

Cellular functions of long noncoding RNAs

(2019) Run-Wen Yao et al.   NATURE CELL BIOLOGY

Idiosyncrasies of Viral Noncoding RNAs Provide Insights into Host Cell Biology

(2019) Johanna B. Withers et al.   Annual Review of Virology

The histone variant H2A.Z in gene regulation

(2019) Benedetto Daniele Giaimo et al.   Epigenetics & Chromatin

The Integrator complex cleaves nascent mRNAs to attenuate transcription

(2019) Deirdre C. Tatomer et al.   GENES & DEVELOPMENT

Differential Activation of the Transcription Factor IRF1 Underlies the Distinct Immune Responses Elicited by Type I and Type III Interferons

(2019) Adriana Forero et al.   IMMUNITY

Chromatin conformation remains stable upon extensive transcriptional changes driven by heat shock

(2019) Judhajeet Ray et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

New insights into transcriptional reprogramming during cellular stress

(2019) Samu V. Himanen et al.   JOURNAL OF CELL SCIENCE

A unified allosteric/torpedo mechanism for transcriptional termination on human protein-coding genes

(2019) Joshua D. Eaton et al.   GENES & DEVELOPMENT

The Integrator Complex Attenuates Promoter-Proximal Transcription at Protein-Coding Genes

(2019) Nathan D. Elrod et al.   MOLECULAR CELL

Long-read sequencing of nascent RNA reveals coupling among RNA processing events

(2018) Lydia Herzel et al.   GENOME RESEARCH

Herpes Simplex Virus 1 Dramatically Alters Loading and Positioning of RNA Polymerase II on Host Genes Early in Infection

(2018) Claire H. Birkenheuer et al.   JOURNAL OF VIROLOGY

Heat shock causes a reversible increase in RNA polymerase II occupancy downstream of mRNA genes consistent with a global loss in transcriptional termination

(2018) Joseph F. Cardiello et al.   MOLECULAR AND CELLULAR BIOLOGY

TimeLapse-seq: adding a temporal dimension to RNA sequencing through nucleoside recoding

(2018) Jeremy A Schofield et al.   NATURE METHODS

Molecular mechanisms driving transcriptional stress responses

(2018) Anniina Vihervaara et al.   NATURE REVIEWS GENETICS

Integrator subunit 4 is a ‘Symplekin-like’ scaffold that associates with INTS9/11 to form the Integrator cleavage module

(2018) Todd R Albrecht et al.   NUCLEIC ACIDS RESEARCH

Influenza Virus Mounts a Two-Pronged Attack on Host RNA Polymerase II Transcription

(2018) David L.V. Bauer et al.   Cell Reports

HSV-1-induced disruption of transcription termination resembles a cellular stress response but selectively increases chromatin accessibility downstream of genes

(2018) Thomas Hennig et al.   PLoS Pathogens

DoGFinder: a software for the discovery and quantification of readthrough transcripts from RNA-seq

(2018) Yuval Wiesel et al.   BMC GENOMICS

Transcription Elongation Can Affect Genome 3D Structure

(2018) Sven Heinz et al.   CELL

Rapid reversible changes in compartments and local chromatin organization revealed by hyperosmotic shock

(2018) Ramon Amat et al.   GENOME RESEARCH

Deregulated Expression of Mammalian lncRNA through Loss of SPT6 Induces R-Loop Formation, Replication Stress, and Cellular Senescence

(2018) Takayuki Nojima et al.   MOLECULAR CELL

Comparative analysis reveals genomic features of stress-induced transcriptional readthrough

(2017) Anna Vilborg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cleavage and polyadenylation: Ending the message expands gene regulation

(2017) Jonathan Neve et al.   RNA Biology

Histone Marks in the ‘Driver’s Seat’: Functional Roles in Steering the Transcription Cycle

(2017) Leah A. Gates et al.   TRENDS IN BIOCHEMICAL SCIENCES

Control of Gene Expression in Senescence through Transcriptional Read-Through of Convergent Protein-Coding Genes

(2017) Lisa Muniz et al.   Cell Reports

Evolutionarily Conserved Polyadenosine RNA Binding Protein Nab2 Cooperates with Splicing Machinery To Regulate the Fate of Pre-mRNA

(2016) Sharon Soucek et al.   MOLECULAR AND CELLULAR BIOLOGY

Mammalian Heat Shock Response and Mechanisms Underlying Its Genome-wide Transcriptional Regulation

(2016) Dig B. Mahat et al.   MOLECULAR CELL

Readthrough transcription: How are DoGs made and what do they do?

(2016) Anna Vilborg et al.   RNA Biology

Transcriptional termination in mammals: Stopping the RNA polymerase II juggernaut

(2016) N. J. Proudfoot   SCIENCE

TT-seq maps the human transient transcriptome

(2016) Björn Schwalb et al.   SCIENCE

The Integrator complex controls the termination of transcription at diverse classes of gene targets

(2015) Jeffrey R Skaar et al.   CELL RESEARCH

The host Integrator complex acts in transcription-independent maturation of herpesvirus microRNA 3′ ends

(2015) Mingyi Xie et al.   GENES & DEVELOPMENT

Active chromatin and transcription play a key role in chromosome partitioning into topologically associating domains

(2015) Sergey V. Ulianov et al.   GENOME RESEARCH

Poly(A) Signal-Dependent Transcription Termination Occurs through a Conformational Change Mechanism that Does Not Require Cleavage at the Poly(A) Site

(2015) Huimin Zhang et al.   MOLECULAR CELL

Effects of Transcription Elongation Rate and Xrn2 Exonuclease Activity on RNA Polymerase II Termination Suggest Widespread Kinetic Competition

(2015) Nova Fong et al.   MOLECULAR CELL

Widespread Inducible Transcription Downstream of Human Genes

(2015) Anna Vilborg et al.   MOLECULAR CELL

Integrator mediates the biogenesis of enhancer RNAs

(2015) Fan Lai et al.   NATURE

Integrator: surprisingly diverse functions in gene expression

(2015) David Baillat et al.   TRENDS IN BIOCHEMICAL SCIENCES

Widespread disruption of host transcription termination in HSV-1 infection

(2015) Andrzej J. Rutkowski et al.   Nature Communications

Pervasive transcription read-through promotes aberrant expression of oncogenes and RNA chimeras in renal carcinoma

(2015) Ana R Grosso et al.   eLife

Integrator complex regulates NELF-mediated RNA polymerase II pause/release and processivity at coding genes

(2014) Bernd Stadelmayer et al.   Nature Communications

Widespread Inhibition of Posttranscriptional Splicing Shapes the Cellular Transcriptome following Heat Shock

(2014) Reut Shalgi et al.   Cell Reports

Mechanisms of heat shock response in mammals

(2013) Artem K. Velichko et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Gene regulation by antisense transcription

(2013) Vicent Pelechano et al.   NATURE REVIEWS GENETICS

Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome

(2012) Tom Sexton et al.   CELL

snRNA 3' End Formation Requires Heterodimeric Association of Integrator Subunits

(2012) T. R. Albrecht et al.   MOLECULAR AND CELLULAR BIOLOGY

Evolutionary Conservation of Histone Modifications in Mammals

(2012) Y. H. Woo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Osmotic stress alters chromatin condensation and nucleocytoplasmic transport

(2011) John D. Finan et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Regulation of chromatin by histone modifications

(2011) Andrew J Bannister et al.   CELL RESEARCH

Controlling gene expression in response to stress

(2011) Eulàlia de Nadal et al.   NATURE REVIEWS GENETICS

Histone Methyltransferase Gene SETD2 Is a Novel Tumor Suppressor Gene in Clear Cell Renal Cell Carcinoma

(2010) Gerben Duns et al.   CANCER RESEARCH

The Heat Shock Response: Life on the Verge of Death

(2010) Klaus Richter et al.   MOLECULAR CELL

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

Heat shock factors: integrators of cell stress, development and lifespan

(2010) Malin Åkerfelt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

From Synapse to Nucleus: Calcium-Dependent Gene Transcription in the Control of Synapse Development and Function

(2008) Paul L. Greer et al.   NEURON