About the BioGRID
Table of Contents
About the BioGRID
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 (thebiogrid.org). BioGRID currently holds over 1,740,000 interactions curated from both high-throughput datasets and individual focused studies, as derived from over 70,000+ publications in the primary literature. Complete coverage of the entire literature is maintained for budding yeast (S. cerevisiae), fission yeast (S. pombe) and thale cress (A. thaliana), and efforts to expand curation across multiple metazoan species are underway. 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 3.5 web interface contains new search and display features that enable rapid queries across multiple data types and sources. BioGRID provides interaction data to several model organism databases, resources such as Entrez-Gene, SGD, TAIR, FlyBase and other interaction meta-databases. The entire BioGRID 3.2 data collection may be downloaded in multiple file formats, including IMEx compatible PSI MI XML. For developers, BioGRID interactions are also available via a REST based Web Service and Cytoscape plugin. All BioGRID documentation is available online in the BioGRID Wiki.
Contact Information
- EMAIL: support@thebiogrid.org
- TWITTER: @biogrid
- YOUTUBE: BioGRID
- GITHUB: BioGRID
BioGRID Team
- Lorrie Boucher [curator, Toronto]
- Bobby-Joe Breitkreutz [software engineer, Toronto]
- Christie Chang [curator, Princeton]
- Andrew Chatr-Aryamontri [curator, Montreal]
- Kara Dolinski [co-principal investigator, Princeton]
- Sonam Dolma [curator, Toronto]
- Nadine Kolas [curator, Toronto]
- Genie Leung [curator, Toronto]
- Lara O’Donnell [curator, Toronto]
- Rose Oughtred [curator, Princeton]
- Jennifer Rust [curator, Princeton]
- Chris Stark [software engineer, Toronto]
- Mike Tyers [principal investigator, Montreal]
- Andrew Willems [curator, Toronto]
- Frederick Zhang [curator, Toronto]
Alumni
- Ashton Breitkreutz [curator, Toronto]
- Daici Chen [curator, Montreal]
- Sven Heinicke [software engineer, Princeton]
- Jodi Hirschman [curator, Princeton]
- Michael Livstone [curator, Princeton]
- Rochelle McAdam [curator, Toronto]
- Julie Nixon [curator, Edinburgh]
- Sara Oster [curator, Toronto]
- Lindsay Ramage [curator, Edinburgh]
- Teresa Reguly [curator, Toronto]
- Adnane Sellam [curator, Montreal]
- Jean Tang [curator, Toronto]
- Chandra Theesfeld [curator, Princeton]
- Andrew Winter [curator, Edinburgh]
BioGRID Funding
NIH - #R01 RR024031
BioGRID Publications
- Oughtred R, Rust J, Chang C, Breitkreutz BJ, Stark C, Willems A, Boucher L, Leung G, Kolas N, Zhang F, Dolma S, Coulombe-Huntington J, Chatr-Aryamontri A, Dolinski K, Tyers M. The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions. Protein Sci. 2020 Oct 18. [ Pubmed, Protein Science ]
- Oughtred R, Stark C, Breitkreutz BJ, Rust J, Boucher L, Chang C, Kolas N, O'Donnell L, Leung G, McAdam R, Zhang F, Dolma S, Willems A, Coulombe-Huntington J, Chatr-Aryamontri A, Dolinski K, Tyers M. The BioGRID interaction database: 2019 update. Nucleic Acids Res. 2019 Jan 8;47(D1):D529-D541 [ Pubmed, NAR ]
- Oughtred R, Chatr-Aryamontri A, Breitkreutz BJ, Chang CS, Rust JM, Theesfeld CL, Heinicke S, Breitkreutz A, Chen D, Hirschman J, Kolas N, Livstone MS, Nixon J, O'Donnell L, Ramage L, Winter A, Reguly T, Sellam A, Stark C, Boucher L, Dolinski K, Tyers M. Use of the BioGRID Database for Analysis of Yeast Protein and Genetic Interactions. Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.prot088880 [ Pubmed ]
- Oughtred R, Chatr-Aryamontri A, Breitkreutz BJ, Chang CS, Rust JM, Theesfeld CL, Heinicke S, Breitkreutz A, Chen D, Hirschman J, Kolas N, Livstone MS, Nixon J, O'Donnell L, Ramage L, Winter A, Reguly T, Sellam A, Stark C, Boucher L, Dolinski K, Tyers M. BioGRID: A Resource for Studying Biological Interactions in Yeast. Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.top080754 [ Pubmed ]
- Wildenhain J, Spitzer M, Dolma S, Jarvik N, White R, Roy M, Griffiths E, Bellows DS, Wright GD, Tyers M. Prediction of Synergism from Chemical-Genetic Interactions by Machine Learning. Cell Systems. Dec. 23, 2015, 1(6):383-95. [ Pubmed ]
- Chatr-Aryamontri A, Breitkreutz BJ, Oughtred R, Boucher L, Heinicke S, Chen D, Stark C, Breitkreutz A, Kolas N, O'Donnell L, Reguly T, Nixon J, Ramage L, Winter A, Sellam A, Chang C, Hirschman J, Theesfeld C, Rust J, Livstone MS, Dolinski K, Tyers M. The BioGRID interaction database: 2015 update. Nucleic Acids Research. Nov. 2014, [ Pubmed ]
- Sadowski I, Breitkreutz BJ, Stark C, Su TC, Dahabieh M, Raithatha S, Bernhard W, Oughtred R, Dolinski K, Barreto K, Tyers M. The PhosphoGRID Saccharomyces cerevisiae Protein Phosphorylation Site Database: Version 2.0 Update. Database (Oxford) May 2013; [ Pubmed ]
- Chatr-Aryamontri A, Breitkreutz BJ, Heinicke S, Boucher L, Winter A, Stark C, Nixon J, Ramage L, Kolas N, O'Donnell L, Reguly T, Breitkreutz A, Sellam A, Chen D, Chang C, Rust JM, Livstone MS, Oughtred R, Dolinski K, Tyers M. The BioGRID Interaction Database: 2013 update. Nucleic Acids Res. 2012 Nov 30. [ Pubmed ]
- Winter AG, Wildenhain J, Tyers M. BioGRID REST Service, BiogridPlugin2 and BioGRID WebGraph: new tools for access to interaction data at BioGRID. Bioinformatics, 2011 Apr 1. [ Pubmed ]
- Stark C, Breitkreutz BJ, Chatr-Aryamontri A, Boucher L, Oughtred R, Livstone MS, Nixon J, Van Auken K, Wang X, Shi X, Reguly T, Rust JM, Winter A, Dolinski K, Tyers M. The BioGRID Interaction Database: 2011 update. Nucleic Acids Res. 2010 Nov 11. [ Pubmed ]
- Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M. A global protein kinase and phosphatase interaction network in yeast. Science. 2010 May 21;328(5981):1043-6. [ Pubmed ]
- Stark C, Ting-Cheng Su, Breitkreutz A, Lourenco P, Dahabieh M, Breitkreutz BJ, Tyers M, Sadowski I. PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae. Database. 2010 Jan; Vol. 2010 [ Pubmed ]
- Salwinski L, Licata L, Winter A, Thorneycroft D, Khadake J, Ceol A, Aryamontri AC, Oughtred R, Livstone M, Boucher L, Botstein D, Dolinski K, Berardini T, Huala E, Tyers M, Eisenberg D, Cesareni G, Hermjakob H. Recurated protein interaction datasets. Nat Methods. 2009 Jan;6(1):39-46. [ Pubmed ]
- Breitkreutz BJ, Stark C, Reguly T, Boucher L, Breitkreutz A, Livstone M, Oughtred R, Lackner DH, Bähler J, Wood V, Dolinski K, Tyers M. The BioGRID Interaction Database: 2008 update. Nucleic Acids Res. 2008 Jan;36(Database issue):D637-40. Epub 2007 Nov 13. [ Pubmed ]
- Reguly T, Breitkreutz A, Boucher L, Breitkreutz BJ, Hon GC, Myers CL, Parsons A, Friesen H, Oughtred R, Tong A, Stark C, Ho Y, Botstein D, Andrews B, Boone C, Troyanskya OG, Ideker T, Dolinski K, Batada NN, Tyers M. Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae. J Biol. 2006;5(4):11. Epub 2006 Jun 8. [ Pubmed ]
- Stark C, Breitkreutz BJ, Reguly T, Boucher L, Breitkreutz A, Tyers M. BioGRID: a general repository for interaction datasets. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D535-9. [ Pubmed ]
- Breitkreutz BJ, Stark C, Tyers M. The GRID: the General Repository for Interaction Datasets. Genome Biol. 2003;4(3):R23. Epub 2003 Feb 27. [ Pubmed ]
- Breitkreutz BJ, Stark C, Tyers M. Osprey: a network visualization system. Genome Biol. 2003;4(3):R23. Epub 2003 Feb 27. [ Pubmed ]
BioGRID Affiliations
