Saccharomyces Genome Database: the genomics resource of budding yeast - PubMed (original) (raw)

. 2012 Jan;40(Database issue):D700-5.

doi: 10.1093/nar/gkr1029. Epub 2011 Nov 21.

Eurie L Hong, Craig Amundsen, Rama Balakrishnan, Gail Binkley, Esther T Chan, Karen R Christie, Maria C Costanzo, Selina S Dwight, Stacia R Engel, Dianna G Fisk, Jodi E Hirschman, Benjamin C Hitz, Kalpana Karra, Cynthia J Krieger, Stuart R Miyasato, Rob S Nash, Julie Park, Marek S Skrzypek, Matt Simison, Shuai Weng, Edith D Wong

Affiliations

• PMID: 22110037
• PMCID: PMC3245034
• DOI: 10.1093/nar/gkr1029

Saccharomyces Genome Database: the genomics resource of budding yeast

J Michael Cherry et al. Nucleic Acids Res. 2012 Jan.

Abstract

The Saccharomyces Genome Database (SGD, http://www.yeastgenome.org) is the community resource for the budding yeast Saccharomyces cerevisiae. The SGD project provides the highest-quality manually curated information from peer-reviewed literature. The experimental results reported in the literature are extracted and integrated within a well-developed database. These data are combined with quality high-throughput results and provided through Locus Summary pages, a powerful query engine and rich genome browser. The acquisition, integration and retrieval of these data allow SGD to facilitate experimental design and analysis by providing an encyclopedia of the yeast genome, its chromosomal features, their functions and interactions. Public access to these data is provided to researchers and educators via web pages designed for optimal ease of use.

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References

1. 1. Petranovic D, Tyo K, Vemuri GN, Nielsen J. Prospects of yeast systems biology for human health: integrating lipid, protein and energy metabolism. FEMS Yeast Res. 2010;10:1046–1059. - PubMed
2. 1. Goeckeler JL, Brodsky JL. Molecular chaperones and substrate ubiquitination control the efficiency of endoplasmic reticulum-associated degradation. Diabetes Obes. Metab. 2010;12(Suppl.):32–38. - PMC - PubMed
3. 1. Rinaldi T, Dallabona C, Ferrero I, Frontali L, Bolotin-Fukuhara M. Mitochondrial diseases and the role of the yeast models. FEMS Yeast Res. 2010;10:1006–1022. - PubMed
4. 1. Bharadwaj P, Martins R, Macreadie I. Yeast as a model for studying Alzheimer's disease. FEMS Yeast Res. 2010;10:961–969. - PubMed
5. 1. Barros MH, da Cunha FM, Oliveira GA, Tahara EB, Kowaltowski AJ. Yeast as a model to study mitochondrial mechanisms in ageing. Mech. Ageing Dev. 2010;131:494–502. - PubMed

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