PRotein Ontology (PRO) Release 41.0 (28-May-2014)

There are 59578 PRO terms in the main PRO file:
   54 terms are in the 'external' category.
   347 terms are in the 'family' category.
  23521 terms are in the 'gene' category.
  1844 terms are in the 'sequence' category.
  6632 terms are in the 'modification' category.
   214 terms are in the 'complex' category.
    9 terms are in the 'organism-family' category.
  23810 terms are in the 'organism-gene' category.
  1098 terms are in the 'organism-sequence' category.
  1447 terms are in the 'organism-modification' category.
   368 terms are in the 'organism-complex' category.
   23 terms are in the 'union' category.
2124 terms have some kind of annotation, codifying the information from 1353 papers.
  3501 connections to GO (1253 PRO terms).
   374 connections to MOD (331 PRO terms).
   617 connections to Pfam (371 PRO terms).
   338 connections to SO (317 PRO terms).
    8 annotations of a phenotype (8 PRO terms).

The ontology includes a subset of terms from other ontologies and resources that are used for logical definitions.

_Current changes_

1) Other existing PRO terms in the organism-sequence category (which are thus equivalent to alternative products in UniProtKB entries) have the current PR: id become an alt_id to the UniProtKB-derived id. Thus, the new primary identifier for PR:000025481 (the ontological representation of UniProtKB:Q0QWG9-1) is now PR:Q0QWG9-1.
The OBO stanza thus have:

[Term]
id: PR:Q0QWG9-1
alt_id: PR:000025481
name: delphilin isoform 1 (mouse)
def: "A delphilin isoform 1 that is encoded in the genome of mouse." [PRO:HJD]
comment: Category=organism-sequence.
synonym: "mGRID2IP/iso:1" EXACT PRO-short-label [PRO:DNx]
xref: UniProtKB:Q0QWG9-1
intersection_of: PR:000025480 ! delphilin isoform 1
intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus


_Forthcoming changes_


_Ongoing_

1) Continue to add shorthand labels to terms.

2) Continue to expand the set of mapped terms.

3) Resolve names and synonym duplicates.