ChIP-seq accurately predicts tissue-specific activity of enhancers (Q28235102)

Axel Visel

1

0 references

Edward M. Rubin

13

Edward M Rubin

0 references

Len A. Pennacchio

14

Len A Pennacchio

0 references

Malak Shoukry

8

Malak Shoukry

0 references

Ingrid Plajzer-Frick

7

Ingrid Plajzer-Frick

0 references

Jennifer A Akiyama

5

Jennifer A Akiyama

0 references

Amy Holt

6

Amy Holt

0 references

Veena Afzal

11

Veena Afzal

0 references

author name string

Zirong Li

3

0 references

Tao Zhang

4

0 references

Crystal Wright

9

0 references

Feng Chen

10

0 references

Bing Ren

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

12

0 references

language of work or name

English

0 references

publication date

12 February 2009

0 references

published in

Nature

0 references

volume

457

0 references

issue

7231

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page(s)

854-8

0 references

cites work

1 reference

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Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains

20 March 2017

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20 March 2017

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High-resolution mapping and characterization of open chromatin across the genome

20 March 2017

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Ultraconservation identifies a small subset of extremely constrained developmental enhancers

20 March 2017

1 reference

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Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

20 March 2017

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

20 March 2017

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Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences

20 March 2017

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Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

20 March 2017

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VISTA Enhancer Browser--a database of tissue-specific human enhancers

20 March 2017

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NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

20 March 2017

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Transcriptional Regulatory Elements in the Human Genome

20 March 2017

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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

20 March 2017

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Highly conserved non-coding sequences are associated with vertebrate development

20 March 2017

1 reference

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Scanning Human Gene Deserts for Long-Range Enhancers

20 March 2017

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A global transcriptional regulatory role for c-Myc in Burkitt's lymphoma cells

20 March 2017

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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

20 March 2017

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Initial sequencing and comparative analysis of the mouse genome

20 March 2017

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Transcription coactivator TRAP220 is required for PPAR gamma 2-stimulated adipogenesis

20 March 2017

1 reference

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BLAT—The BLAST-Like Alignment Tool

20 March 2017

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Initial sequencing and analysis of the human genome

20 March 2017

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The Sequence of the Human Genome

20 March 2017

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Gene dosage-dependent embryonic development and proliferation defects in mice lacking the transcriptional integrator p300

20 March 2017

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Prediction of complete gene structures in human genomic DNA

20 March 2017

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The transcriptional coactivators p300 and CBP are histone acetyltransferases

20 March 2017

1 reference

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Nuclear protein CBP is a coactivator for the transcription factor CREB

20 March 2017

1 reference

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Molecular cloning and functional analysis of the adenovirus E1A-associated 300-kD protein (p300) reveals a protein with properties of a transcriptional adaptor

20 March 2017

1 reference

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Identification of ancient remains through genomic sequencing

20 March 2017

1 reference

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Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

20 March 2017

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Galaxy: a platform for interactive large-scale genome analysis

7 April 2017

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The UCSC Genome Browser Database: 2008 update

7 April 2017

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In vivo enhancer analysis of human conserved non-coding sequences

7 April 2017

1 reference

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A high-resolution map of active promoters in the human genome

7 April 2017

1 reference

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Ordered recruitment of chromatin modifying and general transcription factors to the IFN-beta promoter

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

7 April 2017

1 reference

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Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif.

7 April 2017

1 reference

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Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding

29 September 2017

1 reference

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Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing

29 September 2017

1 reference

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Genome-wide approaches to studying chromatin modifications

29 September 2017

1 reference

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Genome-wide mapping and analysis of active promoters in mouse embryonic stem cells and adult organs

29 September 2017

1 reference

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Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Predicting tissue-specific enhancers in the human genome

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Close sequence comparisons are sufficient to identify human cis-regulatory elements.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Recruitment of CBP/p300 by the IFN beta enhanceosome is required for synergistic activation of transcription

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Interaction and functional collaboration of p300/CBP and bHLH proteins in muscle and B-cell differentiation

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

A transgene containing lacZ inserted into the dystonia locus is expressed in neural tube.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

Identification of genes controlled by LMX1B in the developing mouse limb bud.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2745234

A conserved retinoic acid response element required for early expression of the homeobox gene Hoxb-1.

27 November 2018

1 reference

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Qualifying the relationship between sequence conservation and molecular function

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19212405

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NATURE07730

1 reference

Dimensions Publication ID

257574

1021031479

0 references

257574

1 reference

1 reference

1 reference