README file

pro.obo contains the link to the most up-to-date file.

pro.obo_PRO_Release_2.1 (09/24/2008), the older versions are also available in this folder.

PRO file is in OBO 1.2 format and should be opened with OBO Edit 1.1 or higher. The editor can be downloaded from http://www.oboedit.org/index.html.


The ontology follows the structure: 

Root level -> protein
Family level -> translation product of an evolutionarily-related gene family 
Gene level -> translation product of a specific gene 
Sequence level -> translation product of a specific processed transcript
Modification level -> cleaved/modified translation product

Common sequence forms in mouse and human (but extensible to other organisms) are considered as a unique term. 
At the sequence level, the translation products of the differently processed transcripts of a gene are referred herein as isoforms, whereas the sequence polymorphisms are referred as sequence variants.

The attributes corresponding to each term are displayed in the DBxrefs field, and also in the comment field along with the corresponding experimental evidence and taxon id [PMID, TaxID].

Ontologies and data sources that are cross-referenced: Gene Ontology (GO), Sequence Ontology (SO), Protein Modification Ontology (PSI-MOD), Disease Ontology (DO), OMIM, Pfam, and PANTHER.