CDK9-dependent RNA polymerase II pausing controls transcription initiation (Q47111692)

http://europepmc.org/abstract/PMC/5669633

8 January 2018

title

CDK9-dependent RNA polymerase II pausing controls transcription initiation (English)

1 reference

http://europepmc.org/abstract/PMC/5669633

8 January 2018

author

Saskia Gressel

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Björn Schwalb

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Tim-Michael Decker

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Patrick Cramer

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

author name string

Weihua Qin

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Heinrich Leonhardt

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Dirk Eick

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

language of work or name

English

0 references

publication date

10 October 2017

1 reference

http://europepmc.org/abstract/PMC/5669633

8 January 2018

published in

eLife

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

volume

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

Distinctive Patterns of Transcription and RNA Processing for Human lincRNAs

2 June 2020

cites work

1 reference

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Structure of a Complete Mediator-RNA Polymerase II Pre-Initiation Complex

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

TT-seq maps the human transient transcriptome

23 May 2018

1 reference

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Near-atomic resolution visualization of human transcription promoter opening

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Transcription initiation complex structures elucidate DNA opening

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Structure of promoter-bound TFIID and model of human pre-initiation complex assembly

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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

23 May 2018

1 reference

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Overview of CDK9 as a target in cancer research.

23 May 2018

1 reference

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Mapping RNA-seq Reads with STAR

23 May 2018

1 reference

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PAF1, a Molecular Regulator of Promoter-Proximal Pausing by RNA Polymerase II

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Native elongating transcript sequencing reveals human transcriptional activity at nucleotide resolution

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

CDK9 inhibitors define elongation checkpoints at both ends of RNA polymerase II-transcribed genes.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Genome editing. The new frontier of genome engineering with CRISPR-Cas9

23 May 2018

1 reference

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The logic and design of analog-sensitive kinases and their small molecule inhibitors.

23 May 2018

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HTSeq--a Python framework to work with high-throughput sequencing data

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Development and applications of CRISPR-Cas9 for genome engineering

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

RECQL5 controls transcript elongation and suppresses genome instability associated with transcription stress

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Rate of elongation by RNA polymerase II is associated with specific gene features and epigenetic modifications

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Brd4 and JMJD6-associated anti-pause enhancers in regulation of transcriptional pause release

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Stable pausing by RNA polymerase II provides an opportunity to target and integrate regulatory signals

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Genome engineering using the CRISPR-Cas9 system

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Precise maps of RNA polymerase reveal how promoters direct initiation and pausing

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

An integrated encyclopedia of DNA elements in the human genome

23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

23 May 2018

ViennaRNA Package 2.0

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Differential expression analysis for sequence count data

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

c-Myc regulates transcriptional pause release

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila

23 May 2018

1 reference

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23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Promoter elements associated with RNA Pol II stalling in the Drosophila embryo

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

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23 May 2018

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23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Transcription Factor and Polymerase Recruitment, Modification, and Movement on dhsp70 In Vivo in the Minutes following Heat Shock

23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

23 May 2018

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The RNA polymerase II molecule at the 5' end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged.

23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Control of formation of two distinct classes of RNA polymerase II elongation complexes.

23 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Hold back of RNA polymerase II at the transcription start site mediates down-regulation of c-myc in vivo

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Paused RNA polymerase II inhibits new transcriptional initiation.

23 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Cellular Fractionation and Isolation of Chromatin-Associated RNA.

15 August 2018

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Enhancer loops appear stable during development and are associated with paused polymerase.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

Mechanistic interpretation of promoter-proximal peaks and RNAPII density maps.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5669633

The 8-nucleotide-long RNA:DNA hybrid is a primary stability determinant of the RNA polymerase II elongation complex

15 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28994650

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Thermodynamic parameters to predict stability of RNA/DNA hybrid duplexes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28994650

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28994650

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.7554/ELIFE.29736

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28994650%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

1 reference