(Q35702332)

9 August 2017

title

Inferring regulatory element landscapes and transcription factor networks from cancer methylomes (English)

1 reference

9 August 2017

4

1 reference

9 August 2017

Benjamin P Berman

5

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author name string

Lijing Yao

series ordinal

1

1 reference

9 August 2017

Hui Shen

series ordinal

2

1 reference

9 August 2017

Peter W Laird

series ordinal

3

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9 August 2017

language of work or name

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21 May 2015

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9 August 2017

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9 August 2017

volume

16

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9 August 2017

page(s)

105

1 reference

https://scigraph.springernature.com/pub.10.1186/s13059-015-0668-3

9 August 2017

exact match

0 references

cites work

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12 July 2018

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12 July 2018

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12 July 2018

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High expression of ZNF703 independent of amplification indicates worse prognosis in patients with luminal B breast cancer

12 July 2018

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Cross-talk between site-specific transcription factors and DNA methylation states

12 July 2018

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A high-resolution map of the three-dimensional chromatin interactome in human cells

12 July 2018

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12 July 2018

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12 July 2018

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12 July 2018

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12 July 2018

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12 July 2018

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DNA methylation dynamics in health and disease

12 July 2018

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Highly recurrent TERT promoter mutations in human melanoma

12 July 2018

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12 July 2018

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Comprehensive genomic characterization of squamous cell lung cancers

12 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=4460959

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Linking disease associations with regulatory information in the human genome

12 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=4460959

Systematic localization of common disease-associated variation in regulatory DNA

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

The long-range interaction landscape of gene promoters

12 July 2018

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An integrated encyclopedia of DNA elements in the human genome

12 July 2018

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Genome-wide epigenetic data facilitate understanding of disease susceptibility association studies

12 July 2018

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Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3.

12 July 2018

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Comprehensive molecular characterization of human colon and rectal cancer

12 July 2018

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Cys2His2 zinc finger protein family: classification, functions, and major members.

12 July 2018

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Epigenomic enhancer profiling defines a signature of colon cancer

12 July 2018

1 reference

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Unsupervised pattern discovery in human chromatin structure through genomic segmentation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

ChromHMM: automating chromatin-state discovery and characterization

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Intragenic enhancers act as alternative promoters

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A-TCF7L2 fusion

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Increased methylation variation in epigenetic domains across cancer types

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

DNA methylation status predicts cell type-specific enhancer activity.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Mapping and analysis of chromatin state dynamics in nine human cell types

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

FIMO: scanning for occurrences of a given motif

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

c-Jun N-terminal phosphorylation antagonises recruitment of the Mbd3/NuRD repressor complex

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

A unique chromatin signature uncovers early developmental enhancers in humans

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Histone H3K27ac separates active from poised enhancers and predicts developmental state

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

The NIH Roadmap Epigenomics Mapping Consortium

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Systematic protein location mapping reveals five principal chromatin types in Drosophila cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

ChIP-Seq identification of weakly conserved heart enhancers

12 July 2018

1 reference

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GATA Switches as Developmental Drivers

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Conserved role of intragenic DNA methylation in regulating alternative promoters

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

An atlas of combinatorial transcriptional regulation in mouse and man

12 July 2018

1 reference

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GATA3 inhibits breast cancer metastasis through the reversal of epithelial-mesenchymal transition

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

General transcription factor binding at CpG islands in normal cells correlates with resistance to de novo DNA methylation in cancer cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Human DNA methylomes at base resolution show widespread epigenomic differences

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

GATA3 in development and cancer differentiation: cells GATA have it!

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

The 8q24 cancer risk variant rs6983267 shows long-range interaction with MYC in colorectal cancer

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Regulation of the hTERT promoter activity by MSH2, the hnRNPs K and D, and GRHL2 in human oral squamous cell carcinoma cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

A genome-wide screen for beta-catenin binding sites identifies a downstream enhancer element that controls c-Myc gene expression

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

GATA-3 and the regulation of the mammary luminal cell fate

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

GATA-3 links tumor differentiation and dissemination in a luminal breast cancer model

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

A comprehensive ChIP-chip analysis of E2F1, E2F4, and E2F6 in normal and tumor cells reveals interchangeable roles of E2F family members

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Chromatin crosstalk in development and disease: lessons from REST

12 July 2018

1 reference

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

GATA factors in vertebrate heart development and disease

12 July 2018

1 reference

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A cell-type-specific transcriptional network required for estrogen regulation of cyclin D1 and cell cycle progression in breast cancer

12 July 2018

1 reference

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The GATA family (vertebrates and invertebrates).

12 July 2018

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Glucocorticoid-induced DNA demethylation and gene memory during development

12 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=4460959

Systematic analysis of noncoding somatic mutations and gene expression alterations across 14 tumor types.

12 July 2018

1 reference

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DNA methylation of transcriptional enhancers and cancer predisposition.

25 September 2018

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A blueprint for an international cancer epigenome consortium. A report from the AACR Cancer Epigenome Task Force.

25 September 2018

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Mice lacking a Myc enhancer that includes human SNP rs6983267 are resistant to intestinal tumors.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

DNA-binding factors shape the mouse methylome at distal regulatory regions

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Acute myeloid leukemia induced by graded reduction of a lineage-specific transcription factor, PU.1.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Significance of p63 amplification and overexpression in lung cancer development and prognosis.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4460959

Expressing the human genome

25 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2FS13059-015-0668-3

ENCODE and our very busy genome

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25994056

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/S13059-015-0668-3

1 reference

Dimensions Publication ID

9 August 2017

1051094540

0 references

Fatcat ID

release_pkgqfemf3vde3chvo7gyrh2dne

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/pkgqfemf3vde3chvo7gyrh2dne

mapped directly with Wikidata item

24 November 2022

based on heuristic

PMC publication ID

4460959

1 reference

9 August 2017

1 reference