(Q41440879)

30 September 2017

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

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Christopher J. Mungall

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Christopher J Mungall

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Kristoffer Vitting-Seerup

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Kristoffer Vitting-Seerup

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Carmelo Ferrai

Carmelo Ferrai

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Malcolm E Fisher

Malcolm E Fisher

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Beatrice Bodega

Beatrice Bodega

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Imad Abugessaisa

Imad Abugessaisa

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Terrence F Meehan

Terrence F Meehan

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Takeya Kasukawa

Takeya Kasukawa

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Louise Winteringham

Louise N Winteringham

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Alexander D Diehl

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

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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Levon Khachigian

Levon M Khachigian

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David A Hume

David A Hume

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Piero Carninci

Piero Carninci

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Dmitry A Ovchinnikov

Dmitry Ovchinnikov

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Meenhard Herlyn

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Meenhard Herlyn

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Yoshihide Hayashizaki

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Yoshihide Hayashizaki

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Andru Tomoiu

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Michael Detmar

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Michael Detmar

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Andreas Lennartsson

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J Kenneth Baillie

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Peter Arner

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Christine Mummery

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James Alexander Briggs

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James Briggs

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Haruhiko Koseki

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Geoffrey J Faulkner

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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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Marina Lizio

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Jessica Severin

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Yuri Ishizu

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Anthony Beckhouse

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Frank Brombacher

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Mitsuhiro Endoh

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Michela Fagiolini

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Lynsey Fairbairn

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Shiro Fukuda

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Reto Guler

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Jayson Harshbarger

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Tomokatsu Ikawa

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Chieko Kai

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Tsugumi Kawashima

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Miki Kojima

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Naoto Kondo

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Berit Lilje

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Niklas Mejhert

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Mitsuyoshi Murata

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Sayaka Nagao-Sato

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Yutaka Nakachi

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Soichi Ogishima

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Mariko Okada-Hatakeyama

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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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Suzana Savvi

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Alka Saxena

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Anita Schwegmann

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Rolf Swoboda

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Misako Yoneda

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Susan Zabierowski

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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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Erik Arner

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Olga Hrydziuszko

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Tom C Freeman

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Richard Axton

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Margaret Davis

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Thomas Ha

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Mitsuko Hara

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Hiroshi Kawamoto

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Sarah Klein

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Ken Miyaguchi

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Yosuke Mizuno

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Mitsuru Morimoto

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Hiroki Sato

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Daisuke Sugiyama

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Hiroshi Tanaka

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Akira Hasegawa

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Serkan Sahin

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Jun Kawai

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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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30 September 2017

5

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published in

Science

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30 September 2017

347

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30 September 2017

1010-1014

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30 September 2017

6225

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Enhancer RNA facilitates NELF release from immediate early genes

30 September 2017

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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

TFClass: an expandable hierarchical classification of human transcription factors

21 January 2018

1 reference

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

The UCSC Genome Browser database: 2014 update

21 January 2018

1 reference

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

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