[Psidev-mod-vocab] Version 1.009.2 of the PSI-MOD

[John S. G. <joh...@eb...>]

Version 1.009.2 of the PSI-MOD OBO and XML files are available at
http://psidev.cvs.sourceforge.net/psidev/psi/mod/data/
Also available in that repository are the files AtomTabl.XML and
AtomTabl.DTD, used to calculate masses and mass differences.
This release should be available later today for browsing at
the Ontology Lookup Service
http://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=MOD

This version of PSI-MOD has 1690 term entries organized in three
ontologies,
(1) categorized by amino acid modified,
(2) categorized by chemical process, and
(3) categorized by isobaric sets.
The ontology categorized by chemical process is organized into
30 major chemical categories.  390 terms have apparently
uncurated definitions.  670 of 701 terms from approved
UniMod entries, and 234 of 307 terms from DeltaMass have been
categorized. 587 terms are from the RESID Database, and 410
terms have been introduced by ontology annotation and by user
request.

These files are updates to the PSI-MOD-1.009.1.obo release
with edits, corrections, new entries from the RESID Database
61.01 release, and user requests.  In the next major PSI-MOD
release, 1.010, we hope to include cross-references, synonyms
and unmatched terms from OMSSA mods.

As always, we appreciate your comments, suggestions on the
format, names, improvements in the ontology, and requests for
terms accompanied by citations.

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Thanks to Richard Cote for logistic support.

-- 
                          John S. Garavelli
                          EMBL Outstation, European
                             Bioinformatics Institute
                          Wellcome Trust Genome Campus
                          Hinxton, Cambs  CB10 1SD
                          joh...@eb...
                          (044/0)-1223-492529