Nucleic Acids Research, 2005, Vol. 33, Database issue D353-D357
© 2005, the authors
Nucleic Acids Research, Vol. 33, Database issue © Oxford University Press 2005; all rights reserved
CandidaDB: a genome database for Candida albicans pathogenomics
Unité Postulante Biologie et Pathogénicité Fongiques, INRA USC 2019, 1 Génopole Plate-forme Intégration et Analyse Génomiques, 2 Groupe Logiciels et Banques de Données and 3 Unité de Génétique Moléculaire des Levures, CNRS URA 2171, Département Structure et Dynamique des Génomes, Institut Pasteur, Paris, France, 4 Robert Koch Institute, NG4, Berlin, Germany, 5 University of Valencia, Burjassot, Spain, 6 Universidad de Salamanca, Salamanca, Spain, 7 Heinrich-Heine-Universität, Düsseldorf, Germany, 8 Laboratoire de Génétique Moléculaire et Cellulaire, INA-PG-INRA-CNRS, Thiverval-Grignon, France, 9 Universiteit van Amsterdam, Swammerdam Institute for Life Sciences, Amsterdam, The Netherlands, 10 Aberdeen University, Aberdeen, UK and 11 Centro Nacional de Biotecnologia-CSIC, Madrid, Spain
* To whom correspondence should be addressed at Unité Postulante Biologie et Pathogénicité Fongiques, INRA USC 2019, Institut Pasteur, 25 rue du Docteur Roux, 75015 Paris, France. Tel: +33 1 40 61 32 57; Fax: +33 1 45 68 89 38; Email: denfert{at}pasteur.fr
Present addresses: S. Rodriguez-Arnaveilhe, Aventis Pharma, LGI-Bioinformatics, Vitry s/Seine, France
S. Garcia-Sanchez, Department of Biotechnology, NEIKER, Vitoria-Gazteiz, Spain
Received July 30, 2004; Revised October 4, 2004; Accepted October 21, 2004
CandidaDB is a database dedicated to the genome of the most prevalent systemic fungal pathogen of humans, Candida albicans. CandidaDB is based on an annotation of the Stanford Genome Technology Center C.albicans genome sequence data by the European Galar Fungail Consortium. CandidaDB Release 2.0 (June 2004) contains information pertaining to Assembly 19 of the genome of C.albicans strain SC5314. The current release contains 6244 annotated entries corresponding to 130 tRNA genes and 5917 protein-coding genes. For these, it provides tentative functional assignments along with numerous pre-run analyses that can assist the researcher in the evaluation of gene function for the purpose of specific or large-scale analysis. CandidaDB is based on GenoList, a generic relational data schema and a World Wide Web interface that has been adapted to the handling of eukaryotic genomes. The interface allows users to browse easily through genome data and retrieve information. CandidaDB also provides more elaborate tools, such as pattern searching, that are tightly connected to the overall browsing system. As the C.albicans genome is diploid and still incompletely assembled, CandidaDB provides tools to browse the genome by individual supercontigs and to examine information about allelic sequences obtained from complementary contigs. CandidaDB is accessible at http://genolist.pasteur.fr/CandidaDB.
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