modMine: flexible access to modENCODE data

Sergio Contrino(Ontario Institute for Cancer Research), Richard Smith(Ontario Institute for Cancer Research), Daniela Butano(Ontario Institute for Cancer Research), Adrian R. Carr(Ontario Institute for Cancer Research), Fengyuan Hu(Ontario Institute for Cancer Research), Rachel Lyne(Ontario Institute for Cancer Research), Kim Rutherford(Ontario Institute for Cancer Research), Alex Kalderimis(Ontario Institute for Cancer Research), Julie Sullivan(Ontario Institute for Cancer Research), Seth Carbon(Ontario Institute for Cancer Research), Ellen Kephart(Ontario Institute for Cancer Research), Paul Lloyd(Ontario Institute for Cancer Research), Eo Stinson(Ontario Institute for Cancer Research), Nicole Washington(Ontario Institute for Cancer Research), Marc D. Perry(Ontario Institute for Cancer Research), Peter Ruzanov(Ontario Institute for Cancer Research), Z. Zha(Ontario Institute for Cancer Research), Suzanna Lewis(Ontario Institute for Cancer Research), Lincoln Stein(Ontario Institute for Cancer Research), Gos Micklem(Ontario Institute for Cancer Research)
Nucleic Acids Research
November 12, 2011
10.1093/nar/gkr921
Cited by 136Open Access
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Abstract

In an effort to comprehensively characterize the functional elements within the genomes of the important model organisms Drosophila melanogaster and Caenorhabditis elegans, the NHGRI model organism Encyclopaedia of DNA Elements (modENCODE) consortium has generated an enormous library of genomic data along with detailed, structured information on all aspects of the experiments. The modMine database (http://intermine.modencode.org) described here has been built by the modENCODE Data Coordination Center to allow the broader research community to (i) search for and download data sets of interest among the thousands generated by modENCODE; (ii) access the data in an integrated form together with non-modENCODE data sets; and (iii) facilitate fine-grained analysis of the above data. The sophisticated search features are possible because of the collection of extensive experimental metadata by the consortium. Interfaces are provided to allow both biologists and bioinformaticians to exploit these rich modENCODE data sets now available via modMine.

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