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.

Missing Contact
Pattern for Local Unique Identifiers

Local identifiers in PhylomeDB should match this regular expression:

Example Local Unique Identifier
Phy000CLXM_RAT   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from PhylomeDB should match this regular expression:

Example CURIE
Metaregistry PhylomeDB

The metaregistry provides mappings between the Bioregistry and other registries. There are 6 mappings to external registries for phylomedb with 2 unique external prefixes.

Registry Name Metaprefix External Prefix
BioContext biocontext PHYLOMEDB
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.7hxxc4 logo miriam phylomedb
Name-to-Thing Name-to-Thing logo n2t phylomedb
Prefix Commons prefixcommons phylomedb
UniProt Cross-ref database uniprot PhylomeDB

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

Name Metaprefix URI
PhylomeDB phylomedb
Bioregistry bioregistry miriam
Name-to-Thing n2t