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The BioGRID Interaction Database: 2011 update

Stark, Chris and Breitkreutz, Bobby-Joe and Chatr-aryamontri, Andrew and Boucher, Lorrie and Oughtred, Rose and Livstone, Michael S. and Nixon, Julie and Van Auken, Kimberly and Wang, Xiaodong and Shi, Xiaoqi and Reguly, Teresa and Rust, Jennifer M. and Winter, Andrew and Dolinski, Kara and Tyers, Mike (2011) The BioGRID Interaction Database: 2011 update. Nucleic Acids Research, 39 (Supple). D698-D704. ISSN 0305-1048. PMCID PMC3013707. http://resolver.caltech.edu/CaltechAUTHORS:20110322-093738471

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Abstract

The Biological General Repository for Interaction Datasets (BioGRID) is a public database that archives and disseminates genetic and protein interaction data from model organisms and humans (http://www.thebiogrid.org). BioGRID currently holds 347 966 interactions (170 162 genetic, 177 804 protein) curated from both high-throughput data sets and individual focused studies, as derived from over 23 000 publications in the primary literature. Complete coverage of the entire literature is maintained for budding yeast (Saccharomyces cerevisiae), fission yeast (Schizosaccharomyces pombe) and thale cress (Arabidopsis thaliana), and efforts to expand curation across multiple metazoan species are underway. The BioGRID houses 48 831 human protein interactions that have been curated from 10 247 publications. Current curation drives are focused on particular areas of biology to enable insights into conserved networks and pathways that are relevant to human health. The BioGRID 3.0 web interface contains new search and display features that enable rapid queries across multiple data types and sources. An automated Interaction Management System (IMS) is used to prioritize, coordinate and track curation across international sites and projects. BioGRID provides interaction data to several model organism databases, resources such as Entrez-Gene and other interaction meta-databases. The entire BioGRID 3.0 data collection may be downloaded in multiple file formats, including PSI MI XML. Source code for BioGRID 3.0 is freely available without any restrictions.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1093/nar/gkq1116 DOIArticle
http://nar.oxfordjournals.org/content/39/suppl_1/D698PublisherArticle
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013707/PubMed CentralArticle
ORCID:
AuthorORCID
Van Auken, Kimberly0000-0002-1706-4196
Additional Information:© The Author(s) 2010. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/ by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors. Received September 30, 2010; Revised October 18, 2010; Accepted October 19, 2010. First published online: November 11, 2010. We thank Mike Cherry, Paul Sternberg, Bill Gelbart, Gary Bader, Quaid Morris, Olga Troyanskaya, David Botstein, Henning Hermjakob, Shoshana Wodak, Ian Donaldson, Anne-Claude Gingras, Val Wood, Jurg Bahler, Lincoln Stein and Judy Blake for support and helpful discussions.
Funders:
Funding AgencyGrant Number
NIH National Center for Research Resources1R01RR024031
Biotechnology and Biological Sciences Research CouncilBB/F010486/1
Canadian Institutes of Health ResearchFRN 82940
European Commission2007-223411
NIH National Human Genome Research InstituteP41-HG02223
Royal Society UNSPECIFIED
Scottish Universities Life Sciences Alliance through the Scottish Funding Council UNSPECIFIED
NIH1R01RR024031
PubMed Central ID:PMC3013707
Record Number:CaltechAUTHORS:20110322-093738471
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20110322-093738471
Usage Policy:This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/ by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
ID Code:23041
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:22 Mar 2011 21:59
Last Modified:30 Oct 2017 20:21

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