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Public databases and software programs integrated in PHIDIAS |
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| Resources |
Databases and analysis programs |
Comments |
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| Databases |
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| NCBI |
RefSeq |
Reference sequences |
| Genome |
Genome summary |
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| Gene |
Gene information |
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| Protein |
Protein information |
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| Nucleotide |
Nucleotide information |
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| CDD |
Conserved domains |
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| COGs |
Clusters of orthologous groups |
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| Taxonomy |
Brucella taxonomy information |
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| PubMed |
Biomedical publications |
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| GEO |
Gene expression database |
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| EBI and SIB |
ArrayExpress |
Gene expression database |
| Swissprot |
Annotated protein data |
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| TrEMBL |
Protein data |
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| InterPro |
Protein families, domains and functions |
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| PROSITE |
Protein families and domains |
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| VBI |
PathInfo |
PIML documents via web service |
| MiNet |
MiNetML documents via web service |
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| TIGR |
CMR |
Comprehensive microbial resource |
| TIGRfam |
TIGRfam assignments |
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| GO |
Gene ontology |
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| KEGG |
Pathways |
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| BioCyc |
Biological pathways |
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| PFam |
Protein domains and families |
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| ProDom |
Protein domain families |
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| PDB |
Protein database |
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| University of Michigan |
BBP |
Brucella bioinformatics portal |
| HazARD |
Hazards in animal research database |
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| Software programs integrated |
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| NCBI |
BLAST |
Blastn, blastp, blastx, tblastn, tblastx, PSI/PHI Blast, Mega Blast, Blast 2 sequences |
| GMOD |
GBrowse |
Genome browsing and analysis |
| BioPerl |
Programming tools |
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| BioPAX |
Biological pathway data exchange format |
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CMR, TIGR Comprehensive Microbial Resource; GO, Gene Ontology; MeSH, Medical Subject Headings; PDB, Protein Data Bank. | ||
Xiang et al. Genome Biology 2007 8:R150 doi:10.1186/gb-2007-8-7-r150 |
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