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CGD - Candida Genome Database


NAR Molecular Biology Database Collection entry number 645
Marek S. Skrzypek, Jonathan Binkley, Gail Binkley, Stuart R. Miyasato, Matt Simison, and Gavin Sherlock
Department of Genetics, Stanford University Medical School, Stanford, CA 94305-5120, USA

Database Description

The Candida Genome Database (CGD) provides free online access to genomic sequence data and manually curated functional information about genes and proteins of the human pathogen Candida albicans and related species, C. glabrata, C. parapsilosis and C. dublinensis. CGD collects and organizes data from the biological literature concerning these species, and provides curated gene product descriptions, Gene Ontology annotation, mutant phenotypes, and gene-specific reference lists. In addition, CGD gives access to genome sequences from several other Candida-related species. CGD also contains additional online resources for the Candida research community, including a gene name registry, laboratory contact information, research job opportunities, and research community news.
The Candida Genome Database (CGD) project is funded by the National Institute of Dental & Craniofacial Research at the US National Institutes of Health. The CGD is in the Department of Genetics at the School of Medicine, Stanford University. .

Acknowledgements

CGD thanks the Candida research community for their advice, support and enthusiasm.

References

1. Skrzypek MS, Binkley J, Sherlock G. How to Use the Candida Genome Database. Methods Mol Biol. 2016; 1356:3-15.
2. Binkley J, Arnaud MB, Inglis DO, Skrzypek MS, Shah P, Wymore F, Binkley G, Miyasato SR, Simison M, Sherlock G. The Candida Genome Database: the new homology information page highlights protein similarity and phylogeny. Nucleic Acids Res. 2014 Jan; 42(Database issue):D711-6.

3. Inglis DO, Skrzypek MS, Arnaud MB, Binkley J, Shah P, Wymore F, Sherlock G. Improved Gene Ontology annotation for biofilm formation, filamentous growth and phenotypic switching in Candida albicans. Eukaryot Cell. 2013 Jan;12(1):101-8.

4. Inglis DO, Arnaud MB, Binkley J, Shah P, Skrzypek MS, Wymore F, Binkley G, Miyasato SR, Simison M, Sherlock G. The Candida genome database incorporates multiple Candida species: multispecies search and analysis tools with curated gene and protein information for Candida albicans and Candida glabrata. Nucleic Acids Res. 2012 Jan;40(Database issue):D667-74.

5. Skrzypek MS, Arnaud MB, Costanzo MC, Inglis DO, Shah P, Binkley G, Miyasato SR, Sherlock G. New tools at the Candida Genome Database: biochemical pathways and full-text literature search. Nucleic Acids Res. 2010 Jan;38(Database issue):D428-32.

6. Arnaud MB, Costanzo MC, Shah P, Skrzypek MS, Sherlock G. Gene Ontology and the annotation of pathogen genomes: the case of Candida albicans. Trends Microbiol. 2009 Jul 6;17(7):295-303.

7. Butler G, Rasmussen MD, Lin MF, Santos MA, Sakthikumar S, Munro CA, Rheinbay E, Grabherr M, Forche A, Reedy JL, Agrafioti I, Arnaud MB, Bates S, Brown AJ, Brunke S, Costanzo MC, Fitzpatrick DA, de Groot PW, Harris D, Hoyer LL, Hube B, Klis FM, Kodira C, Lennard N, Logue ME, Martin R, Neiman AM, Nikolaou E, Quail MA, Quinn J, Santos MC, Schmitzberger FF, Sherlock G, Shah P, Silverstein KA, Skrzypek MS, Soll D, Staggs R, Stansfield I, Stumpf MP, Sudbery PE, Srikantha T, Zeng Q, Berman J, Berriman M, Heitman J, Gow NA, Lorenz MC, Birren BW, Kellis M, Cuomo CA. Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature 2009 Jun 4;459(7247):657-62.

8. Arnaud MB, Costanzo MC, Skrzypek MS, Shah P, Binkley G, Lane C, Miyasato SR, Sherlock G. Sequence resources at the Candida Genome Database. Nucleic Acids Res. 2007 Jan; 35(Database issue):D452-6.

8. Costanzo MC, Arnaud MB, Skrzypek MS, Binkley G, Lane C, Miyasato SR, Sherlock G. The Candida Genome Database: Facilitating research on Candida albicans molecular biology. FEMS Yeast Res. 2006 Aug;6(5):671-84.

10. Arnaud MB, Costanzo MC, Skrzypek MS, Binkley G, Lane C, Miyasato SR, Sherlock G. The Candida Genome Database (CGD), a community resource for Candida albicans gene and protein information. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D358-63.



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