DNA methylation status predicts cell type-specific enhancer activity. (Q35176962)

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5 February 2020

title

DNA methylation status predicts cell type-specific enhancer activity (English)

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5 February 2020

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5 February 2020

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5 February 2020

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5 February 2020

Gordon L Hager

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5 February 2020

Sam John

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5 February 2020

Songjoon Baek

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5 February 2020

Thomas A Johnson

1 reference

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5 February 2020

Thelma Escobar

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5 February 2020

Catherine A Simmons

1 reference

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5 February 2020

Kenneth H Pearce

1 reference

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5 February 2020

Pete J Sabo

1 reference

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5 February 2020

Robert E Thurman

1 reference

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5 February 2020

John A Stamatoyannopoulos

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5 February 2020

language of work or name

English

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publication date

24 June 2011

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5 February 2020

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5 February 2020

volume

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issue

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5 February 2020

page(s)

3028-3039

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21701563%20AND%20SRC:MED&resulttype=core&format=json

Control of nuclear receptor function by local chromatin structure.

5 February 2020

cites work

1 reference

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Chromatin accessibility pre-determines glucocorticoid receptor binding patterns.

13 July 2018

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CpG methylation of half-CRE sequences creates C/EBPα binding sites that activate some tissue-specific genes

13 July 2018

1 reference

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Chromatin and DNA methylation dynamics during retinoic acid-induced RET gene transcriptional activation in neuroblastoma cells.

13 July 2018

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Conserved role of intragenic DNA methylation in regulating alternative promoters

13 July 2018

1 reference

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Relationship between nucleosome positioning and DNA methylation

13 July 2018

1 reference

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DNA methylome in human CD4+ T cells identifies transcriptionally repressive and non-repressive methylation peaks

13 July 2018

1 reference

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CpG islands influence chromatin structure via the CpG-binding protein Cfp1.

13 July 2018

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High nucleosome occupancy is encoded at human regulatory sequences

13 July 2018

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Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells

13 July 2018

1 reference

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DNA demethylation in hormone-induced transcriptional derepression

13 July 2018

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Human DNA methylomes at base resolution show widespread epigenomic differences

13 July 2018

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The logic of chromatin architecture and remodelling at promoters

13 July 2018

1 reference

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Mapping accessible chromatin regions using Sono-Seq

13 July 2018

1 reference

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High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing

13 July 2018

1 reference

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

13 July 2018

1 reference

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DNA Binding Site Sequence Directs Glucocorticoid Receptor Structure and Activity

13 July 2018

1 reference

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Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

13 July 2018

1 reference

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DNA methylation analysis of chromosome 21 gene promoters at single base pair and single allele resolution

13 July 2018

1 reference

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Global mapping of protein-DNA interactions in vivo by digital genomic footprinting

13 July 2018

1 reference

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

13 July 2018

1 reference

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Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver

13 July 2018

1 reference

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DNA demethylation by DNA repair

13 July 2018

1 reference

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Kinetic complexity of the global response to glucocorticoid receptor action.

13 July 2018

1 reference

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DNA demethylation in zebrafish involves the coupling of a deaminase, a glycosylase, and gadd45.

13 July 2018

1 reference

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DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) in mouse promoter regions demonstrating tissue-specific gene expression

13 July 2018

1 reference

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Genome-scale DNA methylation maps of pluripotent and differentiated cells

13 July 2018

1 reference

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The colorful history of active DNA demethylation.

13 July 2018

1 reference

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

13 July 2018

1 reference

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Combinatorial patterns of histone acetylations and methylations in the human genome

13 July 2018

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DNA methylation landscapes: provocative insights from epigenomics

13 July 2018

1 reference

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Interaction of the glucocorticoid receptor with the chromatin landscape

13 July 2018

1 reference

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Methyl-CpG binding proteins: specialized transcriptional repressors or structural components of chromatin?

13 July 2018

1 reference

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Transient cyclical methylation of promoter DNA.

13 July 2018

1 reference

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Cyclical DNA methylation of a transcriptionally active promoter

13 July 2018

1 reference

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

13 July 2018

1 reference

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A novel CpG island set identifies tissue-specific methylation at developmental gene loci

13 July 2018

1 reference

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Genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters

13 July 2018

1 reference

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Demethylation of a specific hypersensitive site in the Th2 locus control region

13 July 2018

1 reference

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue-specific enhancers in embryonic stem cells

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Determinants of cell- and gene-specific transcriptional regulation by the glucocorticoid receptor

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

High-resolution profiling of histone methylations in the human genome

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome

13 July 2018

1 reference

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Coregulators: from whence came these "master genes".

13 July 2018

1 reference

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FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Active cytosine demethylation triggered by a nuclear receptor involves DNA strand breaks.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Genomic DNA methylation: the mark and its mediators

13 July 2018

1 reference

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Chromatin immunoprecipitation (ChIP) scanning identifies primary glucocorticoid receptor target genes.

13 July 2018

1 reference

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Nature of the accessible chromatin at a glucocorticoid-responsive enhancer

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

DNA Methylation-Related Chromatin Remodeling in Activity-Dependent Bdnf Gene Regulation

13 July 2018

1 reference

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MethPrimer: designing primers for methylation PCRs

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Glucocorticoid-induced DNA demethylation and gene memory during development

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

MethTools--a toolbox to visualize and analyze DNA methylation data

13 July 2018

1 reference

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Coactivator and corepressor complexes in nuclear receptor function

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

The position and length of the steroid-dependent hypersensitive region in the mouse mammary tumor virus long terminal repeat are invariant despite multiple nucleosome B frames

13 July 2018

1 reference

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The rate of hydrolytic deamination of 5-methylcytosine in double-stranded DNA

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Specific protection of methylated CpGs in mammalian nuclei

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Crystallographic analysis of the interaction of the glucocorticoid receptor with DNA

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Helper-independent transformation by unintegrated Harvey sarcoma virus DNA

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Reversible and persistent changes in chromatin structure accompany activation of a glucocorticoid-dependent enhancer element.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3160184

Chromatin structure and DNA methylation of the IL-4 gene in human T(H)2 cells

27 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21701563

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Activation of globin genes during chicken development

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21701563

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/EMBOJ.2011.210

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21701563%20AND%20SRC:MED&resulttype=core&format=json

5 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21701563%20AND%20SRC:MED&resulttype=core&format=json

5 February 2020

PubMed publication ID

21701563

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21701563%20AND%20SRC:MED&resulttype=core&format=json