Dataset Information

McGill EMC Community projects Release 7 for cell line "SaOS-2" - samples

ABSTRACT: Complete reference epigenome (as defined by IHEC) of a SaOS-2 cell line with osteosarcoma.

PROVIDER: EGAD00001007678 | EGA |

REPOSITORIES: EGA

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Publications

Epigenome data release: a participant-centered approach to privacy protection.

Dyke Stephanie O M SO Cheung Warren A WA Joly Yann Y Ammerpohl Ole O Lutsik Pavlo P Rothstein Mark A MA Caron Maxime M Busche Stephan S Bourque Guillaume G Rönnblom Lars L Flicek Paul P Beck Stephan S Hirst Martin M Stunnenberg Henk H Siebert Reiner R Walter Jörn J Pastinen Tomi T

Genome biology 20150717

Large-scale epigenome mapping by the NIH Roadmap Epigenomics Project, the ENCODE Consortium and the International Human Epigenome Consortium (IHEC) produces genome-wide DNA methylation data at one base-pair resolution. We examine how such data can be made open-access while balancing appropriate interpretation and genomic privacy. We propose guidelines for data release that both reduce ambiguity in the interpretation of open-access data and limit immediate access to genetic variation data that ar ...[more]

PMID: 26185018

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Project description:The McGill Epigenomics Mapping Centre (EMC) and Data Coordination Centre (EDCC) were established in 2012 at the McGill University and Genome Quebec Innovation Centre (Montreal, Canada) to support large-scale human epigenome mapping for a broad spectrum of cell types and diseases. Previous epigenetic studies have provided profiles of specific chromatin marks in relation to basic biological processes, and future studies of molecular mechanisms must build upon these proofs-of-concept by integrating sequence-based variation with multiple levels of epigenetic and transcriptional regulation across the genome of human tissues and animal disease models. This project leverages the high-throughput sequencing infrastructure and expertise in genomics and transcriptomics at the McGill Innovation Centre to carry out this research. Controlled access to the data by collaborators and the greater scientific community is gained via a portal, which takes advantage of Compute Canada high-performance computing cluster resources to manage the large volume of data associated from the generation of reference epigenome maps. McGill University is one of two Canadian mapping and data coordination centres, the other based at the Michael Smith Genome Sciences Centre in Vancouver, British Columbia. The generation of comprehensive epigenome maps at McGill University is part of a larger international effort that is coordinated by the International Human Epigenome Consortium (IHEC), whose overall long-term objective is to determine the extent to which the epigenome shapes human populations over generations and in response to the environment. This project is funded under the Canadian Epigenetics, Environment, and Health Research Consortium (CEEHRC) by the Canadian Institutes of Health Research and by Genome Quebec, with additional support from Genome Canada. The computing and networking infrastructure, and part of the software development, are provided by Compute Canada and CANARIE.

Dataset Information

McGill EMC Community projects Release 7 for cell line "SaOS-2" - samples

Publications

Epigenome data release: a participant-centered approach to privacy protection.

Similar Datasets

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