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External Resources |
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 Candida Resources
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Candida
albicans pages at the NRC-BRI
Genomic information and tools from the
Biotechnology Research Institute (National Research Council,
Canada). View Assembly 21 of the C. albicans genome
sequence and search the annotation of Assembly 19 generated by the
Annotation Working Group, described in the publication by Braun et al., 2005.
CandidaDB
Genomic database for C. albicans and
related species, part of the Galar Fungail Consortium
project. The previous version of CandidaDB is described in the publication by d'Enfert et al., 2005.
Institute for Candida
experimentation at the University of Minnesota
Database containing physical map data and other
molecular biology information.
Candida albicans protein information at UCSF
Data from the Johnson lab.
Comprehensive Yeast Genome Database (CYGD) at MIPS
PEDANT (Protein Extraction, Description and ANalysis Tool) analysis of Assembly 6
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Candida Genomes
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Assembly 19 of the Candida albicans strain SC5314 genome sequence
The C. albicans strain SC5314 genome
sequence and assembly by the Stanford
Genome Technology Center was published by Jones et al.,
2004. View the
paper and download the
supplementary information and sequence files or the
original sequence trace files.
Candida albicans strain WO-1 genome project
The genome of C. albicans strain WO-1, sequenced at the Broad Institute as part of the Fungal Genome Initiative (FGI).
Candida albicans strain 1161 genome project
Home page for C. albicans strain 1161 sequencing
at the Sanger Institute.
Candida dubliniensis genome project
Home page for C. dubliniensis sequencing
at the Sanger Institute.
Candida glabrata genome project
A sequencing project of the Genolevures Consortium.
Candida guilliermondii genome project
The C. guilliermondii genome, sequenced at the Broad Institute as part of the Fungal Genome Initiative (FGI).
Candida lusitaniae genome project
The C. lusitaniae genome, sequenced at the Broad Institute as part of the Fungal Genome Initiative (FGI).
Candida parapsilosis genome project
Home page for C. parapsilosis sequencing
at the Sanger Institute.
Candida tropicalis genome project
The C. tropicalis genome, sequenced at the Broad Institute as part of the Fungal Genome Initiative (FGI).
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Analysis Tools
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C. albicans Multilocus Sequence Typing (MLST)
Tools for strain typing and epidemiology, hosted at Imperial College London, and described in M.-E. Bougnoux et al. (2003).
Bioinformatics and Sequence Analysis Tools
Tools on the web site of the Center for Biological Sequence Analysis at the Technical University of Denmark. Gene-finding, RNA splicing, protein modification, protein sorting predictions, and more.
Regulatory Sequence Analysis (RSA) Tools
Tools for analysis of nucleotide sequence
patterns in Assembly 19.
Pattern Search at CandidaDB
Search for protein and nucleotide sequence
patterns. (Use the "Search Pattern" button on the left-hand
sidebar to access the tool.)
Multi-genome Analysis of Positions and Patterns of Elements of Regulation (MAPPER)
Tools for prediction of transcription factor binding sites.
Fungal Genomes BLAST at SGD
BLAST search for sequence similarity within fungal genomes, provided by the Saccharomyces Genome Database.
Microbial Genomes BLAST at NCBI
BLAST search for sequence similarity within microbial genomes.
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Research Tools
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Candida
albicans microarrays
Obtain oligomer-based spotted microarrays for Candida
albicans, generated by the Genome Sequencing Center at Washington University.
Candida gene
disruption resource
Request strains from the transposon
insertion mutant collection, generated using UAU1 methodology
(Enloe,
B., et al., 2000; Davis,
D.A., et al., 2002.)
Developmental Studies
Hybridoma Bank
Collection of hybridomas and their antibodies
that in the future will include DSHB-Microbe, a collection of
antibodies against C. albicans antigens and those of
other microbial pathogens.
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Medical Mycology Resources
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Candidiasis Information at Medline Plus
Medical information about candidiasis.
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Other Fungal Information
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Saccharomyces
Genome Database
Genome, gene, and protein information for the
model yeast
Saccharomyces cerevisiae.
Debaryomyces hansenii genome project
A sequencing project of the Genolevures Consortium.
Lodderomyces elongisporus Database
The Lodderomyces elongisporus genome, sequenced at the Broad Institute as part of the Fungal Genome Initiative (FGI).
Cryptococcus neoformans genome project
Home page of the genome sequencing effort for the fungal pathogen C. neoformans at the Stanford Genome Technology Center.
The Aspergillus Website
Database with genomic information on the fungal pathogen Aspergillus fumigatus and clinical information on aspergillosis.
Aspergillus nidulans Database
Home page for the A. nidulans genome project at the Broad Institute, part of the Fungal Genome Initiative (FGI).
Ashbya Genome Database
Genome information for Ashbya gossypii, a
hemiascomycete plant pathogen with a small genome that
exhibits remarkable synteny with the S. cerevisiae genome.
Magnaporthe grisea Database
Home page for the M. grisea genome project at
the Broad Institute, part of the Fungal Genome Initiative (FGI).
Schizosaccharomyces pombe genome project
Complete sequence and annotation of the S. pombe ("fission yeast") genome at the Sanger Institute.
Neurospora crassa Database
Home page for the N. crassa genome project at the Broad Institute, part of the Fungal Genome Initiative (FGI).
Fungal Genetics Stock Center
General fungal information, focusing on filamentous fungi; has links to many fungal genome projects.
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Other Resources
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GenBank
Sequence repository at the NCBI, Bethesda, Maryland, USA.
EMBL
Sequence repository at the EBI, Hinxton Hall, Cambridge, UK.
DDBJ
Sequence repository at Mishima, Japan.
GenePalette
Software application, freely available to academic users, for visualizing annotated features and other sequence elements in GenBank sequences.
PredictProtein
Program for protein structure prediction, from the Protein Design Group at EMBL.
Gene Ontology
Gene Ontology (GO) Consortium home page.
KEGG
Metabolic reactions and pathways from Kyoto University, Kyoto, Japan.
Molecular Biology Resources
A set of hyperlinks on all aspects of molecular
biology, biotechnology, molecular evolution, biochemistry, and biomolecular modeling.
WWW Virtual Library: Biosciences
Collection of hyperlinks provided by the Harvard Biolabs.
Microbes.info
The Microbiology Information Portal, containing resources, news, and information about many different aspects
of microbiology. Its General
Microbiology section contains links to various databases, culture
collections, genetic analysis sites, and method sites.
Nucleic Acids Research Database Issues
Articles about genomic and biological databases.
Papers about CGD were published in the 2007 and 2005 Database Issues.
Go to NAR Database Issue for:
2007|
2006|
2005|
2004|
2003|
2002|
2001|
2000|
1999|
1998
CGD Papers
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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
Available here.
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.
Available on request.
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.
Available here.
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