Updated regulation curation model at the Saccharomyces Genome Database. (27th February 2018)

• Record Type: Journal Article
• Authors: Engel, Stacia R; Skrzypek, Marek S; Hellerstedt, Sage T; Wong, Edith D; Nash, Robert S; Weng, Shuai; Binkley, Gail; Sheppard, Travis K; Karra, Kalpana; Cherry, J Michael
• Is Part Of: Database. Volume 2018(2018)
• Publication Date: 2018-02-27
• Subjects: Biology -- Databases -- Periodicals; Bioinformatics -- Periodicals; 570.285
• DOI: 10.1093/database/bay007
• Languages: English
• ISSNs: 1758-0463

Abstract

Abstract: The Saccharomyces Genome Database (SGD) provides comprehensive, integrated biological information for the budding yeast Saccharomyces cerevisiae, along with search and analysis tools to explore these data, enabling the discovery of functional relationships between sequence and gene products in fungi and higher organisms. We have recently expanded our data model for regulation curation to address regulation at the protein level in addition to transcription, and are presenting the expanded data on the 'Regulation' pages at SGD. These pages include a summary describing the context under which the regulator acts, manually curated and high-throughput annotations showing the regulatory relationships for that gene and a graphical visualization of its regulatory network and connected networks. For genes whose products regulate other genes or proteins, the Regulation page includes Gene Ontology enrichment analysis of the biological processes in which those targets participate. For DNA-binding transcription factors, we also provide other information relevant to their regulatory function, such as DNA binding site motifs and protein domains. As with other data types at SGD, all regulatory relationships and accompanying data are available through YeastMine, SGD's data warehouse based on InterMine. Database URL : http://www.yeastgenome.org