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NCBI Epigenomics specifications

Information


Unique identifier OMICS_01848
Name NCBI Epigenomics
Restrictions to use None
Maintained No
Wikipedia https://en.wikipedia.org/wiki/NCBI_Epigenomics

Publication for NCBI Epigenomics

NCBI Epigenomics citations

 (5)
call_split

Functional annotation of sixty five type 2 diabetes risk SNPs and its application in risk prediction

2017
Sci Rep
PMCID: 5337961
PMID: 28262806
DOI: 10.1038/srep43709
call_split See protocol

[…] several works have shown that transcription factors can bind on both side of a start site. The histone modification datasets are provided by Roadmap Epigenomics Project, whose data repository on the NCBI Epigenomics Gateway where the chromatin state datasets are open sources. As we know that epigenetic events contribute to the etiology of diabetes, H3K4me1, H3K4me3 and H3K27ac are selected for ge […]

library_books

Selecting the most appropriate time points to profile in high throughput studies

2017
eLife
PMCID: 5319842
PMID: 28124972
DOI: 10.7554/eLife.18541.033

[…] NGBS): Igfbp3, Wif1, Cdh11, Eln, Sox9, Tnc, Dnmt3a, Akt, VEGF, Lox, FoxF2, ZFP536 and Src, based on published data (). The presence of CpG islands in 5-UTR, gene body and 3-UTR was interrogated using NCBI Epigenomics database, as well as CpG island searcher (), and EMBOSS Cpgplot (). Targeted NGBS was done by Epigendx Inc. Gene sequences from selected regions were acquired from the Ensembl databas […]

call_split

Epigenetic and transcriptional determinants of the human breast

2015
Nat Commun
PMCID: 4346612
PMID: 25690954
DOI: 10.1038/ncomms7351
call_split See protocol

[…] ntibody vendor, catalogue number and lot are provided along with ChIP-seq library construction details as part of the metadata associated with all ChIP-seq data sets and available through GEO and the NCBI epigenomics portals (for example, http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM613886). Final library distributions were calculated using an Agilent Bioanalyzer and quantified by fluorome […]

library_books

Intermediate DNA methylation is a conserved signature of genome regulation

2015
Nat Commun
PMCID: 4333717
PMID: 25691127
DOI: 10.1038/ncomms7363

[…] ody vendor, catalogue number and lot are provided along with ChIP-seq library construction details as part of the metadata associated with all ChIP-seq data sets and are available through GEO and the NCBI epigenomics portals (for example, http://www-ncbi-nlm-nih-gov.beckerproxy.wustl.edu/geo/query/acc.cgi?acc= GSM613811). Final library distributions were calculated using an Agilent Bioanalyzer and […]

library_books

Regulatory Network Decoded from Epigenomes of Surface Ectoderm Derived Cell Types

2014
Nat Commun
PMCID: 4385735
PMID: 25421844
DOI: 10.1038/ncomms6442

[…] . Antibody vendor, catalog number and lot are provided along with ChIP-seq library construction details as part of the metadata associated with all ChIP-seq datasets and available through GEO and the NCBI epigenomics portals (e.g. http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM669589). Final library distributions were calculated using an Agilent Bioanalyzer and quantified by fluorometric qua […]

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NCBI Epigenomics institution(s)
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA

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