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PRotein Ontology (PRO) Release 43.0, version 0
18-September-2014

The Protein Ontology Consortium--Protein Information Resource, The Jackson Laboratory, Reactome, and the Department of Philosophy at the State University of New York at Buffalo--is pleased to announce PRO Release 43.0 (18-September-2014). PRO describes the relationships of proteins and protein evolutionary classes, delineates the multiple protein forms of a gene locus (ontology for protein forms), protein complexes, and interconnects existing ontologies. Further information is available at http://pir.georgetown.edu/pro/.

In PRO Release 43.0, version 0:

There are 219118 PRO terms
      54 terms are in the 'external' category.
     352 terms are in the 'family' category.
   23523 terms are in the 'gene' category.
    8298 terms are in the 'sequence' category.
    6649 terms are in the 'modification' category.
     214 terms are in the 'complex' category.
      15 terms are in the 'organism-family' category.
  113050 terms are in the 'organism-gene' category.
   64846 terms are in the 'organism-sequence' category.
    1503 terms are in the 'organism-modification' category.
     372 terms are in the 'organism-complex' category.
      26 terms are in the 'union' category.
2400 terms have some kind of annotation, codifying the information from 1575 papers.
    4348 connections to GO (1526 PRO terms).
     374 connections to MOD (330 PRO terms).
     621 connections to Pfam (374 PRO terms).
     338 connections to SO (317 PRO terms).
     349 annotations of a phenotype (342 PRO terms).


The ontology includes a subset of terms from GO, MOD, CHEBI, and SO ontologies that are used for logical definitions. If using OBO Edit to view PRO, please turn on the reasoner in order to display the hierarchy.

_Current changes_

1) The content from the promapping.obo file has been merged with the pro.obo file.
2) Changes in the annotation file (PAF):

 a) the relation used for disease terms has been replaced. Instead of agent_in we now use 'associated_with_disease_progression' or 'associated_with_disease_suppression'. Note however that the relation may change in the future as progress on this field occurs.

 b) the column Equivalent_Form has been removed as it is not longer maintained in this file.

_Forthcoming changes_

1) Starting from release 45.0 the distribution file promapping.obo will not longer be provided as it is now included in the main onlogy file (pro.obo).

Ongoing

1) Continue to add shorthand labels to terms.

2) Continue to expand the set of mapped terms.

3) Resolve names and synonym duplicates.




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