Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells (Q41440879)

30 September 2017

Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells (English)

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Carmelo Ferrai

Carmelo Ferrai

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Alexander D Diehl

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Finn Drabløs

Finn Drabløs

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Christine A Wells

Christine Wells

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Soichi Kojima

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Kim M Summers

Kim M Summers

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Masayoshi Itoh

Masayoshi Itoh

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Daniel Goldowitz

Daniel Goldowitz

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David A Hume

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Piero Carninci

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Meenhard Herlyn

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Yoshihide Hayashizaki

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Michael Detmar

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Christine Mummery

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Haruhiko Koseki

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Carsten O Daub

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Lesley Forrester

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Alistair R R Forrest

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FANTOM Consortium

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Harukazu Suzuki

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Michiel J L de Hoon

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Anthony Beckhouse

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Frank Brombacher

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Michela Fagiolini

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Tomokatsu Ikawa

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Tsugumi Kawashima

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Yutaka Nakachi

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Soichi Ogishima

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Mariko Okada-Hatakeyama

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Yasushi Okazaki

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Valerio Orlando

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Robert Passier

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Sugata Roy

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Peter Zhang

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Fumi Hori

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Sachi Ishikawa-Kato

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Masaaki Furuno

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Hiromi Nishiyori-Sueki

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Hiromi Nishiyori-Sueki

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Anna Ehrlund

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Afsaneh Eslami

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Kelly J Morris

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Margaret Patrikakis

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Xian-Yang Qin

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Chiyo Yanagi-Mizuochi

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Chiyo Yanagi-Mizuochi

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Michelle Rönnerblad

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Ahmad M N Alhendi

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S Peter Klinken

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30 September 2017

language of work or name

English

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publication date

12 February 2015

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published in

Science

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347

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6225

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1010-1014

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Enhancer RNA facilitates NELF release from immediate early genes

30 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Tissue-specific RNA expression marks distant-acting developmental enhancers

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Long non-coding RNAs and enhancer RNAs regulate the lipopolysaccharide-induced inflammatory response in human monocytes

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Enhancer RNAs participate in androgen receptor-driven looping that selectively enhances gene activation

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Looping back to leap forward: transcription enters a new era

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

A promoter-level mammalian expression atlas

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

An atlas of active enhancers across human cell types and tissues

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Rapid and pervasive changes in genome-wide enhancer usage during mammalian development

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Developmental fate and cellular maturity encoded in human regulatory DNA landscapes

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

An integrated encyclopedia of DNA elements in the human genome

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Topological domains in mammalian genomes identified by analysis of chromatin interactions

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Widespread transcription at neuronal activity-regulated enhancers

1 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Enhancer transcripts mark active estrogen receptor binding sites

1 October 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development

11 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Nuclear stability and transcriptional directionality separate functionally distinct RNA species

11 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Analysis of the DNA methylome and transcriptome in granulopoiesis reveals timed changes and dynamic enhancer methylation

19 August 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription.

19 August 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4681433

Unamplified cap analysis of gene expression on a single-molecule sequencer.

19 August 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

Differential expression analysis for sequence count data

21 January 2018

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https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

Pfam: the protein families database

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

A census of human transcription factors: function, expression and evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

Transcription factor expression in lipopolysaccharide-activated peripheral-blood-derived mononuclear cells

21 January 2018

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https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

TFClass: an expandable hierarchical classification of human transcription factors

21 January 2018

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https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

The UCSC Genome Browser database: 2014 update

21 January 2018

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https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

T-Coffee: A novel method for fast and accurate multiple sequence alignment

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

MotEvo: integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updates

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

Immediate-early and delayed primary response genes are distinct in function and genomic architecture

21 January 2018

1 reference

https://api.crossref.org/works/10.1126%2FSCIENCE.1259418

21 January 2018

Identifiers

DOI

10.1126/SCIENCE.1259418

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30 September 2017

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30 September 2017

PubMed publication ID

25678556

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