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Database (Oxford). 2011 Aug 19;2011:bar023. doi: 10.1093/database/bar023. Print 2011.

The modENCODE Data Coordination Center: lessons in harvesting comprehensive experimental details.

Author information

1
Lawrence Berkeley National Laboratory, Genomics Division, 1 Cyclotron Road MS64-121, Berkeley, CA 94720, USA.

Abstract

The model organism Encyclopedia of DNA Elements (modENCODE) project is a National Human Genome Research Institute (NHGRI) initiative designed to characterize the genomes of Drosophila melanogaster and Caenorhabditis elegans. A Data Coordination Center (DCC) was created to collect, store and catalog modENCODE data. An effective DCC must gather, organize and provide all primary, interpreted and analyzed data, and ensure the community is supplied with the knowledge of the experimental conditions, protocols and verification checks used to generate each primary data set. We present here the design principles of the modENCODE DCC, and describe the ramifications of collecting thorough and deep metadata for describing experiments, including the use of a wiki for capturing protocol and reagent information, and the BIR-TAB specification for linking biological samples to experimental results. modENCODE data can be found at http://www.modencode.org.

PMID:
21856757
PMCID:
PMC3170170
DOI:
10.1093/database/bar023
[Indexed for MEDLINE]
Free PMC Article

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