Database | URL | Description |
---|---|---|
COGs | http://www.ncbi.nlm.nih.gov/COG/ | Clusters of orthologous groups of proteins, generated from the |
 |  | comparison of protein sequences encoded in 34 complete genomes, |
 |  | representing 26 major phylogenetic lineages. |
DAS | http://stein.cshl.org/das/ | A distributed sequence annotation system software client and |
 |  | database server for the annotation of protein sequences. |
Ensembl | http://www.ensembl.org/ | Software for the automatic annotation of eukaryotic genomes. |
 |  | Annotation and searching with gene, SNP, and cross-genome |
 |  | comparative information. |
EuGenes | http://iubio.bio.indiana.edu:8089/ | Automatic annotations of sequence databases with gene and genomic |
 |  | information, including chromosome, genetic and molecular maps. |
Gene Ontology | http://www.geneontology.org/ | A dynamic, controlled vocabulary applicable to the annotation of |
 |  | eukaryotic genomes. Includes knowledge of the role of genes and |
 |  | proteins within cells. |
GeneCards | http://bioinformatics.weizmann.ac.il/cards | A database of human genes that maps genes, proteins and |
 |  | diseases. Provides information on gene function. |
InterPro | http://www.ebi.ac.uk/interpro/ | Proteome analysis database based on Pfam, SMART, Prosite, PRINTS |
 |  | and ProDom protein and domain family databases and the SWISS- |
 |  | PROT and TrEMBL sequence databases. Also contains software for |
 |  | the annotation of protein sequences using these databases. |
LocusLink | http://www.ncbi.nlm.nih.gov/LocusLink | Interface to a database of sequence and descriptive information |
 |  | correlated with genetic loci. |
Mammalian | http://www.informatics.jax.org/menus/homology_menu.shtml | Mammalian homology and comparative maps. Tools and databases |
Homology | Â | from the Jackson Laboratory for the comparison of mammalian |
 |  | genomes. |
Pfam | http://www.sanger.ac.uk/Pfam | Protein families database containing multiple sequence alignments |
 |  | and hidden Markov models. |
PRINTS | http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/ | Database of protein fingerprints based on protein motifs. |
ProDom | http://www.toulouse.inra.fr/prodom.html | Protein domain database based on an automatic compilation of |
 |  | homologous domains. |
Prosite | http://www.isrec.isb-sib.ch/profile/ | Prosite profiles are protein domain profiles constructed from multiple |
 |  | sequence alignments of proteins from families of related sequences. |
SMART | http://smart.embl-heidelberg.de/ | Protein domain families database containing multiple sequence |
 |  | alignments and hidden Markov models, based on a smaller set of |
 |  | domains than Pfam but designed to find domains that are more |
 |  | difficult to detect. |
SMD | http://genome-www4.stanford.edu/MicroArray/SMD | The Stanford microarray database of raw and normalized data from |
 |  | microarray experiments, including interfaces for data retrieval and |
 |  | analysis. |
SWISS-PROT | http://www.expasy.ch/sprot | Protein sequence databases. SWISS-PROT represents a 'gold |
and Trembl | Â | standard' of annotation. |
TIGRFAMs | http://www.tigr.org/TIGRFAMs/ | Database of protein families based on hidden Markov models of |
 |  | multiple protein sequence alignments. |