[Psidev-ms-dev] Re: Psidev-ms-dev digest, Vol 1 #83 - 1 msg

[Randy J. <rkj...@in...>]

Richard,

All acronyms require context.  I like the idea of expanding them.  Are 
there other ontologies being developed by the PSI that have the same 
problem?

Randy





Richard Cote wrote:

>Hi Randy
>
>A quick comment on the ontology. I believe that the use of acronyms as term
>names should be avoided if possible. The OBO format allows for the use of
>synonyms and I believe that the acronyms should be placed there, with the
>full name as the primary term name. In other ontolgies that I have seen,
>this is common practice. The mzData/analysisXML files will not have the
>definitions and some of these acronyms, taken out of context, quickly become
>meaningless. 
>
>id: PSI:1000070
>name: APCI
>
>id: PSI:1000071
>name: CI
>
>id: PSI:1000072
>name: EI
>
>id: PSI:1000073
>name: ESI
>
>id: PSI:1000074
>name: FAB
>
>id: PSI:1000075
>name: MALDI
>
>id: PSI:1000079
>name: FT-ICR
>
>id: PSI:1000084
>name: TOF
>
>id: PSI:1000086
>name: FWHM
>
>id: PSI:1000111
>name: EMT
>
>id: PSI:1000117
>name: ADC
>
>id: PSI:1000119
>name: TDC
>
>id: PSI:1000133
>name: CID
>
>id: PSI:1000134
>name: PD
>
>id: PSI:1000135
>name: PSD
>
>id: PSI:1000136
>name: SID
>
>Best regards,
>Richard
>--
>Richard Cote
>Software Engineer - PRIDE Project Team (Sequence Database Group)
>             
>European Bioinformatics Institute             
>Wellcome Trust Genome Campus            RC...@eb...      
>Hinxton                                 
>Cambridge CB10 1SD                      Phone: (+44) 1223 492610  
>United Kingdom                          Fax  : (+44) 1223 494468 
>
>
>  
>