PhylomeDB is a database of complete phylomes derived for different genomes within a specific taxonomic range. It provides alignments, phylogentic trees and tree-based orthology predictions for all encoded proteins.

Prefix

phylomedb

Links

Homepage

Contact

Missing Contact

Pattern for Local Unique Identifiers

Local identifiers in PhylomeDB should match this regular expression:
^\w+$

Example Local Unique Identifier

Phy000CLXM_RAT   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from PhylomeDB should match this regular expression:
^phylomedb:\w+$

Example CURIE

phylomedb:Phy000CLXM_RAT

Publications

• 2013 PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome.
• 2007 PhylomeDB: a database for genome-wide collections of gene phylogenies.

The metaregistry provides mappings between the Bioregistry and other registries. There are 6 mappings to external registries for phylomedb with 3 unique external prefixes.

Providers are various services that resolve CURIEs to URLs. The example CURIE phylomedb:Phy000CLXM_RAT is used to demonstrate the provides available for phylomedb. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.