[Psidev-mod-vocab] Version 1.009.1 of the PSI-MOD

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

Version 1.009.1 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 early next week for browsing at
the Ontology Lookup Service
http://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=MOD

This version of PSI-MOD has 1665 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
31 major chemical categories. Fewer than 475 terms have
apparently uncurated definitions. 667 of 699 terms from approved
UniMod entries, and 229 of 306 terms from DeltaMass have been
categorized. 583 terms are from the RESID Database, and 393
terms have been introduced by ontology annotation and by user
request.

These files are minor updates to the PSI-MOD-1.009.obo
release with edits, corrections, new entries from the
RESID Database 61.00 release, and user requests.  In the next
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