Data Entry Maintenance

Metadata Commons Identifier

HMC000060

Project Title

Epigenomic Profiling of Normal Human Breast Mammary Tissue Derived From Reduction Mammoplasties

Project Description

<p>This <a rel="noopener" target="_blank" href="https://www.ebi.ac.uk/epirr/">metadata </a>is part of the Canadian Epigenetics, Environment and Health Research Consortium (<a rel="noopener" target="_blank" href="https://thisisepigenetics.ca/home">CEEHRC</a>) Network project's harmonized metadata set for breast mammary tissue samples. To generate the samples, histologically normal breast tissue was obtained with informed consent from eight healthy premenopausal adult female donors undergoing reduction mammoplasty surgeries and used according to procedures approved by the Research Ethics Board of the University of British Columbia. Fresh tissue was viably cryopreserved as enzymatically isolated organoids and then thawed and dissociated into single-cell suspensions and the four defined mammary cell types isolated by fluorescence-activated cell sorting (FACS): luminal cells (LCs), luminal progenitors (LPs), basal cells (BCs), and stromal cells (SCs), the latter consisting of a mixture of fibroblasts and adipocytes.</p> <p>The 256 samples are composed of the following: 8 individuals × 4 cell types (LC, LP, BC, and SC) × 8 types of sequencing (ChIP-seq for H3K27ac, H3K4me1, H3K4me3, H3K36me3, H3K27me3, and H3K9me3, as well as WGBS and RNA-seq). </p> <ul> <li>Metadata: <a rel="noopener" target="_blank" href="https://www.ebi.ac.uk/epirr/">https://www.ebi.ac.uk/epirr/</a> (e.g. <a href="https://www.ebi.ac.uk/epirr/epigenomes/IHECRE00004604.3">https://www.ebi.ac.uk/epirr/epigenomes/IHECRE00004604.3</a> )</li> <li>Raw data: e.g. <a href="https://ega-archive.org/datasets/EGAD00001006220">https://ega-archive.org/datasets/EGAD00001006220</a> (with link to Data Access Request - specific to each dataset) </li> </ul>

Project Funder(s)

Genome Canada, Canadian Institutes of Health Research (CIHR)

Project Institution(s)

University of British Columbia

Project Investigator(s)

Martin Hirst

Data Access Request URL*

https://ega-archive.org/datasets/EGAD00001006220

Keywords

epigenetics, epigenomics, breast, mammary

Publication Link

Study Completed

Cohort Name

CEEHRC Breast Mammary Gland

Cohort Size

Disease/Condition Studied

healthy

Enrollment Time Window

Biobanking Consent Available

Medical History Available

Ethnicity Availability

Time Course

Patient Phenotypes

Patient Outcomes

Clinical Data Types Available

donor age, sex, ethnicity, health status

Time Course Data Points

Enrollment City

Groups

Project

Cohort

Enrollment City

Groups

Samples and Omics