Use of the BioGRID Database for Analysis of Yeast Protein and Genetic Interactions

Oughtred, Rose; Chatr-aryamontri, Andrew; Breitkreutz, Bobby-Joe; Chang, Christie S.; Rust, Jennifer M.; Theesfeld, Chandra L.; Heinicke, Sven; Breitkreutz, Ashton; Chen, Daici; Hirschman, Jodi; Kolas, Nadine; Livstone, Michael S.; Nixon, Julie; O’Donnell, Lara; Ramage, Lindsay; Winter, Andrew; Reguly, Teresa; Sellam, Adnane; Stark, Chris; Boucher, Lorrie; Dolinski, Kara; Tyers, Mike

Abstract

The BioGRID database is an extensive repository of curated genetic and protein interactions for the budding yeast Saccharomyces cerevisiae, the fission yeast Schizosaccharomyces pombe, and the yeast Candida albicans SC5314, as well as for several other model organisms and humans. This protocol describes how to use the BioGRID website to query genetic or protein interactions for any gene of interest, how to visualize the associated interactions using an embedded interactive network viewer, and how to download data files for either selected interactions or the entire BioGRID interaction data set.

Citation

Oughtred, R., Chatr-aryamontri, A., Breitkreutz, B.-J., Chang, C. S., Rust, J. M., Theesfeld, C. L., Heinicke, S., Breitkreutz, A., Chen, D., Hirschman, J., Kolas, N., Livstone, M. S., Nixon, J., O’Donnell, L., Ramage, L., Winter, A., Reguly, T., Sellam, A., Stark, C., Boucher, L., …Tyers, M. (2016). Use of the BioGRID Database for Analysis of Yeast Protein and Genetic Interactions. Cold Spring Harbor protocols, 2016(1), pdb.prot088880. https://doi.org/10.1101/pdb.prot088880

• Journal Article Type: Article
• Acceptance Date: Dec 1, 2015
• Online Publication Date: Jan 4, 2016
• Publication Date: 2016-01
• Deposit Date: Mar 25, 2017
• Publicly Available Date: Mar 28, 2017
• Journal: Cold Spring Harbor Protocols
• Print ISSN: 1940-3402
• Peer Reviewed: Peer Reviewed
• Volume: 2016
• Issue: 1
• Pages: pdb.prot088880
• DOI: https://doi.org/10.1101/pdb.prot088880
• Keywords: BIOGRID, protein interactions, bioinformatics,
• Public URL: http://researchrepository.napier.ac.uk/Output/819926