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| Name/description | URL |
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| Genome Databases | |
| National Center for Biotechnology Information (NCBI). | http://www.ncbi.nlm.nih.gov/ |
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| NIH genetic sequences database. | http://www.ncbi.nlm.nih.gov/Genbank/ |
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| Fungal Genomes Central, information and resources pertaining to fungi and fungal sequencing projects. | http://www.ncbi.nlm.nih.gov/projects/genome/guide/fungi/ |
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| The Gene Index proyect (GI). The Computational Biology and Functional Genomics Laboratory, and the Dana-Faber Institute and Public School of Public Health. | http://compbio.dfci.harvard.edu/tgi/fungi.html |
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| Fungal Genome Initiative of The Broad Institute (FGI). | http://www.broadinstitute.org/science/projects/fungal-genome-initiative/fungal-genome-initiative |
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| Genoscope, Sequencing National Centre. | http://www.genoscope.cns.fr/spip/Fungi-sequenced-at-Genoscope.html |
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| Joint Genome Institute (JGI). | http://www.jgi.doe.gov/ |
|
| The Genome Center at Washington University (WU-GSC). | http://genome.wustl.edu/genomes/list/plant_fungi |
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| The Sanger Institute fungal sequencing. | http://www.sanger.ac.uk/Projects/Fungi/ |
|
| Genome projects. | http://genomesonline.org/ |
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| The MIPS F. Graminearum Genome Database. | http://mips.gsf.de/projects/fungi/Fgraminearum/ |
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| The MIPS U. Maydis Database. | http://mips.gsf.de/genre/proj/ustilago |
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| The MIPS Neurospora crassa Genome Database. | http://mips.helmholtz-muenchen.de/genre/proj/ncrassa/ |
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| COGEME, Phytopathogenic Fungi and Oomycete EST Database (v1.6), constructed and maintained by Darren Soanes (University of Exeter, UK). | http://cogeme.ex.ac.uk/ |
|
| SGD, Saccaromyces Genome Database, scientific database of the molecular biology and genetics of the yeast Saccharomyces cerevisiae. | http://www.yeastgenome.org/ |
|
| e-Fungi, warehouse which integrates sequence data (genomic data, EST data, Gene Ontology annotation, KEGG pathways and results of the following analyses performed on the genomic data) from multiple fungal sequences in a way that facilitates the systematic comparative study of those genomes (School of Computer Science and the Faculty of Life Sciences at the University of Manchester and the Departments of Computer Science and Biological Sciences at the University of Exeter). | http://beaconw.cs.manchester.ac.uk/efungi/execute/welcome |
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| CADRE, Central Aspergillus Database Repository, resource for viewing assemblies and annotated genes arising from various Aspergillus sequencing and annotation projects. | http://www.cadre-genomes.org.uk/ |
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| FungalGenome, website with several links and references for the currently available fungal genomes sequences or proposed fungal genomes. | http://fungalgenomes.org/wiki/Fungal_Genomes_Links |
|
| Proteome Databases | |
| The Expasy (Expert Protein Analysis System) proteomics server of Swiss Institute of Bioinformatics (SIB). Analysis of protein sequences, structures and 2-D-PAGE. | http://ca.expaxy.org/ |
|
| MIPS, Munich Information Center for Protein Sequences. | http://mips.gsf.de/http://ca.expaxy.org/ |
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| The PRIDE, Proteinomics IDEntifications Database. EMBL-EBI (European Bioinformatic Institute). | http://www.ebi.ac.uk/pride/ |
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| Integr8, Integrated information about deciphered genomes and their corresponding proteomes. EMBL-EBI. | http://www.ebi.ac.uk/integr8/EBI-Integr8-HomePage.do |
|
| SNAPPVIEW (Structure, iNterfaces and Aligments for Protein-Protein Interactions). | http://www.compbio.dundee.ac.uk/SNAPPI/download.jsp |
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| Phospho3. Database of three-dimensional structures of phosphorylation sites. | http://cbm.bio.uniroma2.it/phospho3d/ |
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| Proteome Analyst PA-GOSUB 2.5. Sequences, predicted GO molecular functions and subcellular localisations. | http://www.cs.ualberta.ca/~bioinfo/PA/GOSUB/ |
|
| RCSB, The Research Collaboratory for Structural Bioinformatics. Protein Database (PDB). | http://www.rcbs.org/pdb/home/home.do |
|
| PDB-Site. Comprehensive structural and functional information on PTMs, catalytic active sites, ligand binding (protein-protein, protein-DNA, protein-RNA interacions) in the Protein Data Bank (PDB). | http://wwwmgs.bionet.nsc.ru/mgs/gnw/pbbsite/ |
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| WoLF PSORT, Protein Subcellular Localization Prediction. | http://wolfpsort.org/ |
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| NMPdb, Nuclear Matrix Associated Proteins. | http://cubic.bioc.columbia.edu/db/NMPdb/ |
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| TargetP, predicts the subcellular location of eukaryotic proteins, based on the predicted presence of the N-terminal presequences. | http://www.cbs.dtu.dk/services/TargetP/ |
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| MitoP2, Mitochondrial Database. This database provides a comprehensive list of mitochondrial proteins of yeast, mouse, Arabidopsis thaliana, neurospora and human. | http://www.mitop.de:8080/mitop2/ |
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| The SecretomeP, Prediction of protein secretion and information on various PTMs and localisational aspect of the protein. | http://www.cbs.dtu.dk/services/SecretomeP/ |
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| MASCOT, a powerful search engine that uses MS data to identify proteins from primary sequence databases. | http://www.matrixscience.com/ |
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| VEMS, Virtual Expert Mass Spectrometrist. Program for integrated proteome analysis. | http://www.yass.sdu.dk/ |
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| The NetPhos server produces neural network predictions for serine, threonine and tyrosine phosphorylation sites in eukaryotic proteins. | http://www.cbs.dtu.dk/services/NetPhos/ |
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| ProPrInt, Protein-Protein Interaction Predictor. Compilation of web-resources in the field of Protein-Protein Interaction (PPI). | http://www.imtech.res.in/raghava/proprint/resources.htm |
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| ProteomeCommons, public proteomics database for annotations and other information linked to the Tranche data repository and to other resources. It provides public access to free, open-source proteomics tools and data. | https://proteomecommons.org |
|
| Fungal Proteome Specialized Databases | |
| MPID, Protein-protein interaction Database of M. grisea. | http://bioinformatics.cau.edu.cn/cgi-bin/zzd-cgi/ppi/mpid.pl |
|
| FPPI, Protein-protein interaction database of F. graminearum. | http://csb.shu.edu.cn/fppi |
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