TreeFam is a database of phylogenetic trees of gene families found in animals. Automatically generated trees are curated, to create a curated resource that presents the accurate evolutionary history of all animal gene families, as well as reliable ortholog and paralog assignments.

Prefix
treefam
Keywords
classification gene
Links
Homepage
Contact
Fabian Schreiber   0000-0001-9150-5706   fabsta
Pattern for Local Unique Identifiers

Local identifiers in TreeFam should match this regular expression:
^\w{1,2}\d+$

Example Local Unique Identifier
TF101014   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from TreeFam should match this regular expression:
^treefam:\w{1,2}\d+$

Example CURIE
treefam:TF101014
Publications
2013 TreeFam v9: a new website, more species and orthology-on-the-fly
Metaregistry TreeFam

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

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext TREEFAM
Integbio Integbio logo integbio nbdc01596
Identifiers.org Identifiers.org logo miriam treefam
N2T Name-to-Thing logo n2t treefam
Prefix Commons Prefix Commons logo prefixcommons treefam
UniProt UniProt Cross-ref database logo uniprot DB-0185
Providers

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier TF101014 is used to demonstrate the providers available for TreeFam. A guide for curating additional providers can be found here.

Name Metaprefix URI
TreeFam treefam http://www.treefam.org/family/TF101014
Bioregistry bioregistry https://bioregistry.io/treefam:TF101014
Identifiers.org miriam https://identifiers.org/treefam:TF101014
Name-to-Thing n2t https://n2t.net/treefam:TF101014
Extra Providers

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.

Code Name URL
bio2rdf Bio2RDF http://bio2rdf.org/treefam:TF101014