modMine: flexible access to modENCODE data

被引：94

作者：

Contrino, Sergio ^{[1
]}

Smith, Richard N. ^{[1
]}

Butano, Daniela ^{[1
]}

Carr, Adrian ^{[1
]}

Hu, Fengyuan ^{[1
]}

Lyne, Rachel ^{[1
]}

Rutherford, Kim ^{[1
]}

Kalderimis, Alex ^{[1
]}

Sullivan, Julie ^{[1
]}

Carbon, Seth ^{[2
]}

Kephart, Ellen T. ^{[2
]}

Lloyd, Paul ^{[2
]}

Stinson, E. O. ^{[2
]}

Washington, Nicole L. ^{[2
]}

Perry, Marc D. ^{[3
]}

Ruzanov, Peter ^{[3
]}

Zha, Zheng ^{[3
]}

Lewis, Suzanna E. ^{[2
]}

Stein, Lincoln D. ^{[3
]}

Micklem, Gos ^{[1
]}

机构：

[1] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England

[2] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Genom Div, Berkeley, CA 94720 USA

[3] MaRS Ctr, Ontario Inst Canc Res, Toronto, ON M5G 0A3, Canada

来源：

NUCLEIC ACIDS RESEARCH | 2012年 / 40卷 / D1期

基金：

美国国家卫生研究院; 英国惠康基金;

关键词：

GENOME DATABASE; ONTOLOGY; RESOURCE; ANNOTATIONS;

D O I：

10.1093/nar/gkr921

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：D1082 / D1088

页数：7

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