From: PHIDIAS: a pathogen-host interaction data integration and analysis system
Databases | Â | Â |
---|---|---|
Resources | Databases and analysis programs | Comments |
   NCBI | RefSeq | Reference sequences |
 | Genome | Genome summary |
 | Gene | Gene information |
 | Protein | Protein information |
 | Nucleotide | Nucleotide information |
 | CDD | Conserved domains |
 | COGs | Clusters of orthologous groups |
 | Taxonomy | Brucella taxonomy information |
 | PubMed | Biomedical publications |
 | GEO | Gene expression database |
   EBI and SIB | ArrayExpress | Gene expression database |
 | Swissprot | Annotated protein data |
 | TrEMBL | Protein data |
 | InterPro | Protein families, domains and functions |
 | PROSITE | Protein families and domains |
   VBI | PathInfo | PIML documents via web service |
 | MiNet | MiNetML documents via web service |
   TIGR | CMR | Comprehensive microbial resource |
 | TIGRfam | TIGRfam assignments |
 | GO | Gene ontology |
 | KEGG | Pathways |
 | BioCyc | Biological pathways |
 | PFam | Protein domains and families |
 | ProDom | Protein domain families |
 | PDB | Protein database |
   University of Michigan | BBP | Brucella bioinformatics portal |
 | HazARD | Hazards in animal research database |
Software programs integrated | Â | Â |
   NCBI | BLAST | Blastn, blastp, blastx, tblastn, tblastx, PSI/PHI Blast, Mega Blast, Blast 2 sequences |
   GMOD | GBrowse | Genome browsing and analysis |
 | BioPerl | Programming tools |
 | BioPAX | Biological pathway data exchange format |