[Psidev-mod-vocab] Version 1.010.1 of the PSI-MOD

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

Version 1.010.1 of 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 is also available for browsing at the Ontology
Lookup Service
http://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=MOD

This version of PSI-MOD has 1814 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 33 major chemical categories. Fewer than 340 terms have
apparently uncurated definitions. 744 of 773 terms from
approved UniMod entries, 238 of 304 terms from DeltaMass,
and 135 terms from OMSSA have been categorized. 609 terms
are from the RESID Database, and 447 terms have been
introduced by ontology annotation and by user request.

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, Rui Wang, Attila Csordas, and David
OvelleiroR 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