An atlas of active enhancers across human cell types and tissues (Q34660689)

3 August 2017

title

An atlas of active enhancers across human cell types and tissues (English)

1 reference

3 August 2017

author

Christopher J. Mungall

32

Christopher J Mungall

1 reference

3 August 2017

Evgenia Ntini

11

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Irene Miguel-Escalada

Irene Miguel-Escalada

3

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Takahiro Suzuki

Takahiro Suzuki

10

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Andreas Lennartsson

Andreas Lennartsson

39

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Owen Rackham

Owen Rackham

24

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Frederik Otzen Bagger

Frederik Otzen Bagger

20

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Nicolas Rapin

Nicolas Rapin

19

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Terrence F Meehan

Terrence F Meehan

33

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Eivind Valen

Eivind Valen

13

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Nicolas Bertin

Nicolas Bertin

23

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Carsten O Daub

Carsten O Daub

40

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Robin Andersson

Robin Andersson

1

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Albin Sandelin

Albin Sandelin

50

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Timo Lassmann

Timo Lassmann

34

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Hideya Kawaji

Hideya Kawaji

36

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Masayoshi Itoh

Masayoshi Itoh

35

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Torben Heick Jensen

Torben Heick Jensen

43

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David A Hume

David A Hume

42

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Piero Carninci

Piero Carninci

48

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Maxwell Burroughs

25

A Maxwell Burroughs

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Yoshihide Hayashizaki

45

Yoshihide Hayashizaki

1 reference

3 August 2017

41

Peter Heutink

1 reference

3 August 2017

26

J Kenneth Baillie

1 reference

ORCID Public Data File 2021

3 August 2017

0 references

1 reference

Emiliano Dalla

1 reference

ORCID Public Data File 2021

Jeroen Laros

1 reference

ORCID Public Data File 2021

Alistair Forrest

47

Alistair R R Forrest

1 reference

3 August 2017

44

Harukazu Suzuki

1 reference

3 August 2017

49

Michael Rehli

1 reference

3 August 2017

27

Yuri Ishizu

1 reference

3 August 2017

4

Ilka Hoof

1 reference

3 August 2017

37

Naoto Kondo

1 reference

3 August 2017

18

Berit Lilje

1 reference

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8

Xiaobei Zhao

1 reference

3 August 2017

2

Claudia Gebhard

1 reference

3 August 2017

5

Jette Bornholdt

1 reference

3 August 2017

6

Mette Boyd

1 reference

3 August 2017

31

Yutaka Negishi

1 reference

3 August 2017

25

A Maxwell Burroughs

1 reference

3 August 2017

Yun Chen

7

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3 August 2017

Christian Schmidl

9

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3 August 2017

Erik Arner

12

1 reference

3 August 2017

Kang Li

14

1 reference

3 August 2017

Lucia Schwarzfischer

15

1 reference

3 August 2017

Dagmar Glatz

16

1 reference

3 August 2017

Johanna Raithel

17

1 reference

3 August 2017

Mette Jørgensen

21

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3 August 2017

Peter Refsing Andersen

22

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Yuri Shimizu

28

1 reference

3 August 2017

Erina Furuhata

29

1 reference

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Shiori Maeda

30

1 reference

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Jun Kawai

38

1 reference

3 August 2017

Ferenc Müller

46

1 reference

3 August 2017

language of work or name

English

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publication date

1 March 2014

1 reference

3 August 2017

number of pages

7

0 references

published in

Nature

1 reference

3 August 2017

volume

507

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3 August 2017

issue

7493

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3 August 2017

page(s)

455-461

1 reference

describes a project that uses

3 August 2017

1 reference

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=5215096

exact match

https://scigraph.springernature.com/pub.10.1038/nature12787

0 references

cites work

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7 July 2018

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Master transcription factors and mediator establish super-enhancers at key cell identity genes

7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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Characterization of genome-wide enhancer-promoter interactions reveals co-expression of interacting genes and modes of higher order chromatin organization

7 July 2018

1 reference

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

7 July 2018

1 reference

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Intragenic enhancers act as alternative promoters

7 July 2018

1 reference

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Shadow enhancers: frequently asked questions about distributed cis-regulatory information and enhancer redundancy

7 July 2018

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HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants

7 July 2018

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Multilineage priming of enhancer repertoires precedes commitment to the B and myeloid cell lineages in hematopoietic progenitors.

7 July 2018

1 reference

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Transcription factor AP1 potentiates chromatin accessibility and glucocorticoid receptor binding

7 July 2018

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

7 July 2018

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A unique chromatin signature uncovers early developmental enhancers in humans

7 July 2018

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7 July 2018

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Regularization Paths for Generalized Linear Models via Coordinate Descent

7 July 2018

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Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Widespread transcription at neuronal activity-regulated enhancers

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

A CTCF-independent role for cohesin in tissue-specific transcription

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

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7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Enhancers: the abundance and function of regulatory sequences beyond promoters

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

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

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

The UCSC Genome Browser database: update 2010

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

The gputools package enables GPU computing in R

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Lineage-specific DNA methylation in T cells correlates with histone methylation and enhancer activity.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Histone modifications at human enhancers reflect global cell-type-specific gene expression

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

TopHat: discovering splice junctions with RNA-Seq

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

RNA exosome depletion reveals transcription upstream of active human promoters

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Model-based analysis of ChIP-Seq (MACS)

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Genome-wide analysis of mammalian promoter architecture and evolution

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

CAGE: cap analysis of gene expression

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Quantitative high-throughput analysis of DNA methylation patterns by base-specific cleavage and mass spectrometry

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Large-scale enhancer detection in the zebrafish genome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

APE: Analyses of Phylogenetics and Evolution in R language

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

MethPrimer: designing primers for methylation PCRs

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

PU.1 and interferon consensus sequence-binding protein regulate the myeloid expression of the human Toll-like receptor 4 gene

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Promoter analysis in living zebrafish embryos identifies a cis-acting motif required for neuronal expression of GATA-2.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Expression of a β-globin gene is enhanced by remote SV40 DNA sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Redundancy of information in enhancers as a principle of mammalian transcription control

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Latent enhancers activated by stimulation in differentiated cells

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Tiny RNAs associated with transcription start sites in animals.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

PerlPrimer: cross-platform, graphical primer design for standard, bisulphite and real-time PCR.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Each hypersensitive site of the human beta-globin locus control region confers a different developmental pattern of expression on the globin genes.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Biogenic mechanisms and utilization of small RNAs derived from human protein-coding genes

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5215096

Automated high-throughput mapping of promoter-enhancer interactions in zebrafish embryos

9 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24670763

12 December 2020

inferred from PubMed ID database lookup

Functional analysis of promoter CpG methylation using a CpG-free luciferase reporter vector

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24670763

12 December 2020

inferred from PubMed ID database lookup

Discovery of expression QTLs using large-scale transcriptional profiling in human lymphocytes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24670763

12 December 2020

inferred from PubMed ID database lookup

Divergence measures based on the Shannon entropy

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE12787

7 January 2021

inferred from DOI database lookup

A Lego System for Conditional Inference

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE12787

7 January 2021

inferred from DOI database lookup

High-Dimensional Regression and Variable Selection Using CAR Scores

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE12787

7 January 2021

inferred from DOI database lookup

Identifiers

DOI

10.1038/NATURE12787

1 reference

Dimensions Publication ID

3 August 2017

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1 reference

3 August 2017

1 reference