The 7SK/P-TEFb snRNP controls ultraviolet radiation-induced transcriptional reprogramming

Regulation of the RNAPII Pool Is Integral to the DNA Damage Response

(2020) Ana Tufegdžić Vidaković et al.   CELL

NELF Regulates a Promoter-Proximal Step Distinct from RNA Pol II Pause-Release

(2020) Yuki Aoi et al.   MOLECULAR CELL

P-TEFb Activation by RBM7 Shapes a Pro-survival Transcriptional Response to Genotoxic Stress

(2019) Andrii Bugai et al.   MOLECULAR CELL

Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation

(2019) Leighton Core et al.   GENES & DEVELOPMENT

HiChIRP reveals RNA-associated chromosome conformation

(2019) Maxwell R. Mumbach et al.   NATURE METHODS

Paf1C regulates RNA polymerase II progression by modulating elongation rate

(2019) Liming Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes

(2019) Charlotte Soneson et al.   Nature Communications

The SUMO protease SENP1 and the chromatin remodeller CHD3 interact and jointly affect chromatin accessibility and gene expression

(2018) Fernando Rodríguez-Castañeda et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Cdk9–PP1 switch regulates the elongation–termination transition of RNA polymerase II

(2018) Pabitra K. Parua et al.   NATURE

Structure of activated transcription complex Pol II–DSIF–PAF–SPT6

(2018) Seychelle M. Vos et al.   NATURE

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

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Global unleashing of transcription elongation waves in response to genotoxic stress restricts somatic mutation rate

(2017) Matthieu D. Lavigne et al.   Nature Communications

CDK9-dependent RNA polymerase II pausing controls transcription initiation

(2017) Saskia Gressel et al.   eLife

P-TEFb regulation of transcription termination factor Xrn2 revealed by a chemical genetic screen for Cdk9 substrates

(2016) Miriam Sansó et al.   GENES & DEVELOPMENT

The RNA Response to DNA Damage

(2016) Luciana E. Giono et al.   JOURNAL OF MOLECULAR BIOLOGY

KAP1 Recruitment of the 7SK snRNP Complex to Promoters Enables Transcription Elongation by RNA Polymerase II

(2016) Ryan P. McNamara et al.   MOLECULAR CELL

Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters

(2016) Yun Chen et al.   NATURE GENETICS

Mammalian NET-seq analysis defines nascent RNA profiles and associated RNA processing genome-wide

(2016) Takayuki Nojima et al.   Nature Protocols

7SK-BAF axis controls pervasive transcription at enhancers

(2016) Ryan A Flynn et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Cracking the control of RNA polymerase II elongation by 7SK snRNP and P-TEFb

(2016) Alexandre J. C. Quaresma et al.   NUCLEIC ACIDS RESEARCH

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

An evolutionary conserved Hexim1 peptide binds to the Cdk9 catalytic site to inhibit P-TEFb

(2016) Lydia Kobbi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

7SK-BAF axis controls pervasive transcription at enhancers

(2016) Ryan A Flynn et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing

(2015) Takayuki Nojima et al.   CELL

PPM1G Binds 7SK RNA and Hexim1 To Block P-TEFb Assembly into the 7SK snRNP and Sustain Transcription Elongation

(2015) Swapna Aravind Gudipaty et al.   MOLECULAR AND CELLULAR BIOLOGY

Pausing of RNA Polymerase II Regulates Mammalian Developmental Potential through Control of Signaling Networks

(2015) Lucy H. Williams et al.   MOLECULAR CELL

Getting up to speed with transcription elongation by RNA polymerase II

(2015) Iris Jonkers et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA polymerase II-associated factor 1 regulates the release and phosphorylation of paused RNA polymerase II

(2015) M. Yu et al.   SCIENCE

Release of Positive Transcription Elongation Factor b (P-TEFb) from 7SK Small Nuclear Ribonucleoprotein (snRNP) Activates Hexamethylene Bisacetamide-inducible Protein (HEXIM1) Transcription

(2014) Pingyang Liu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RNA helicase DDX21 coordinates transcription and ribosomal RNA processing

(2014) Eliezer Calo et al.   NATURE

LARP7 suppresses P-TEFb activity to inhibit breast cancer progression and metastasis

(2014) Xiaodan Ji et al.   eLife

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

(2014) Iris Jonkers et al.   eLife

SR Proteins Collaborate with 7SK and Promoter-Associated Nascent RNA to Release Paused Polymerase

(2013) Xiong Ji et al.   CELL

Transcriptional elongation checkpoint control in development and disease

(2013) E. Smith et al.   GENES & DEVELOPMENT

Transcriptional regulation of human DNA repair genes following genotoxic stress: trigger mechanisms, inducible responses and genotoxic adaptation

(2013) M. Christmann et al.   NUCLEIC ACIDS RESEARCH

Transcription Factors Mediate the Enzymatic Disassembly of Promoter-Bound 7SK snRNP to Locally Recruit P-TEFb for Transcription Elongation

(2013) Ryan P. McNamara et al.   Cell Reports

The non-coding snRNA 7SK controls transcriptional termination, poising, and bidirectionality in embryonic stem cells

(2013) Gonçalo Castelo-Branco et al.   GENOME BIOLOGY

RNA Polymerase II Elongation Control

(2012) Qiang Zhou et al.   Annual Review of Biochemistry

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

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

A Higher-Order Complex Containing AF4 and ENL Family Proteins with P-TEFb Facilitates Oncogenic and Physiologic MLL-Dependent Transcription

(2010) Akihiko Yokoyama et al.   CANCER CELL

HIV-1 Tat and Host AFF4 Recruit Two Transcription Elongation Factors into a Bifunctional Complex for Coordinated Activation of HIV-1 Transcription

(2010) Nanhai He et al.   MOLECULAR CELL

AFF4, a Component of the ELL/P-TEFb Elongation Complex and a Shared Subunit of MLL Chimeras, Can Link Transcription Elongation to Leukemia

(2010) Chengqi Lin et al.   MOLECULAR CELL

HIV-1 Tat Assembles a Multifunctional Transcription Elongation Complex and Stably Associates with the 7SK snRNP

(2010) Bijan Sobhian et al.   MOLECULAR CELL

RNA-mediated displacement of an inhibitory snRNP complex activates transcription elongation

(2010) Iván D'Orso et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

7SK RNA, a non-coding RNA regulating P-TEFb, a general transcription factor

(2010) Gaelle Diribarne et al.   RNA Biology

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

DNA Damage Regulates Alternative Splicing through Inhibition of RNA Polymerase II Elongation

(2009) Manuel J. Muñoz et al.   CELL

Spt6 enhances the elongation rate of RNA polymerase II in vivo

(2009) M Behfar Ardehali et al.   EMBO JOURNAL

A capping-independent function of MePCE in stabilizing 7SK snRNA and facilitating the assembly of 7SK snRNP

(2009) Y. Xue et al.   NUCLEIC ACIDS RESEARCH

A La-Related Protein Modulates 7SK snRNP Integrity to Suppress P-TEFb-Dependent Transcriptional Elongation and Tumorigenesis

(2008) Nanhai He et al.   MOLECULAR CELL

LARP7 is a stable component of the 7SK snRNP while P-TEFb, HEXIM1 and hnRNP A1 are reversibly associated

(2008) B. J. Krueger et al.   NUCLEIC ACIDS RESEARCH