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phs000610.v2.p1 : RM Epigenomics Program - Broad_Alz_and_Age-Related

Study Description

For the NIH Roadmap Epigenomics project, we applied ChlP-Seq, HTBS and WGBS pipelines to generate comprehensive high-resolution maps of chromatin state and DNA methylation for 100 diverse cell types. Cell types were selected for their biological and medical importance, and for their potential to maximize the comprehensiveness of acquired epigenomic data. They include human ES cells, ES-derived cells, mesenchymal stem cells, reprogrammed stem cells and primary tissues. Comprehensive characterization of epigenetic marks ("the epigenome") is a critical step towards a global understanding of the human genome in health and disease. In this study we provide unprecedented views of the human epigenetic landscape and its variation across cell states, which offer fundamental insight into the functions and interrelationships of epigenetic marks, and provide a framework for future studies of normal and diseased epigenomes.

The Roadmap Epigenomics Broad cohort is utilized in the following dbGaP sub-study. To view molecular data and derived variables collected in this sub-study, please click on the following sub-study below or in the "Sub-studies" section of this top-level study page phs000700 the Roadmap Epigenomics Broad cohort.

  • Study Design:
    • Methods
  • Study Type:
    • Epigenetics
  • Number of study subjects that have individual-level data available through Authorized Access:
Authorized Access
Publicly Available Data (Public ftp)

Connect to the public download site. The site contains release notes and manifests. The site also contains data dictionaries, variable summaries, documents, and truncated analyses, whenever available.

Study Inclusion/Exclusion Criteria

Inclusion by the Roadmap Epigenomics Program was limited to tissue samples judged as normal following pathology examination.

Molecular Data
TypeSourcePlatformNumber of Oligos/SNPsSNP Batch IdComment
ChIP-Sequencing Illumina HiSeq 2000 N/A N/A
Whole Genome Bisulfite Shotgun Sequencing Illumina HiSeq 2000 N/A N/A
RNA Sequencing Illumina HiSeq 2000 N/A N/A
Multiplexed Reduced Representation Bisulfite Sequencing Illumina HiSeq 2000 N/A N/A
Selected publications
Diseases/Traits Related to Study (MeSH terms)
Links to Related Resources
Authorized Data Access Requests
See research articles citing use of the data from this study
Study Attribution