Re: [Psidev-ms-dev] Version 3.33.0 of psi-ms.obo releases

[Eric D. <ede...@sy...>]

Thank you, Gerhard!


> -----Original Message-----
> From: Gerhard Mayer [mailto:may...@ru...]
> Sent: Tuesday, September 11, 2012 11:52 PM
> To: psi...@li...; psidev-pi-
> de...@li...; psi...@li...
> Subject: [Psidev-ms-dev] Version 3.33.0 of psi-ms.obo releases
>
> Dear proteomics community,
>
> attached you find the new version 3.33.0 of psi-ms.obo.
>
> It contains some changed and new CV's for use in mzQuantML proposed by
> Martin Eisenacher
> and a new term for the PAnalyzer software.
>
> Comments and hints are as always welcome.
>
>
> Changed CV terms in version 3.33.0 of psi-ms.obo:
> =================================================
> ************ Deleted matchedfeature form the definition as this concept
> was dropped
> [Term]
> id: MS:1001805
> name: quantification datatype
> def: "The data type of the value reported in a QuantLayer for a
> feature,
> peptide, protein, protein group." [PSI:MS]
> is_a: MS:1001129 ! quantification information
>
> ************ Made the following term obsolete
> [Term]
> id: MS:1001849
> name: sum of MatchedFeature values
> def: "OBSOLETE Peptide quantification value calculated as sum of
> MatchedFeature quantification values." [PSI:PI]
> comment: This term was made obsolete because the concept MatchedFeature
> was dropped.
> is_a: MS:1001805 ! quantification datatype
> is_obsolete: true
>
>
> New CV terms in version 3.33.0 of psi-ms.obo:
> =============================================
> [Term]
> id: MS:1002067
> name: protein value: median of peptide ratios
> def: "Protein quantification value calculated as median of peptide
> ratios." [PSI:PI]
> is_a: MS:1001805 ! quantification datatype
>
> [Term]
> id: MS:1002068
> name: metabolic labelling: heavy N (mainly 15N)
> def: "Metabolic labelling: heavy N (mainly 15N)." [PSI:PI]
> is_a: MS:1001055 ! modification parameters
>
> [Term]
> id: MS:1002069
> name: metabolic labelling: labelling purity
> def: "Metabolic labelling: Description of labelling purity. Usually the
> purity of feeding material (e.g. 95%), or the inclusion rate derived
> from isotopic peak pattern shape." [PSI:PI]
> xref: value-type:xsd\:string "The allowed value-type for this CV term."
> is_a: MS:1001055 ! modification parameters
>
> [Term]
> id: MS:1002070
> name: t-test
> def: "Perform a t-test (two groups). Specify in string value, whether
> paired / unpaired, variance equal / different, one- / two-sided version
> is performed." [PSI:PI]
> xref: value-type:xsd\:string "The allowed value-type for this CV term."
> is_a: MS:1001861 ! quantification data processing
>
> [Term]
> id: MS:1002071
> name: ANOVA-test
> def: "Perform an ANOVA-test (more than two groups). Specify in string
> value, which version is performed." [PSI:PI]
> xref: value-type:xsd\:string "The allowed value-type for this CV term."
> is_a: MS:1001861 ! quantification data processing
>
> [Term]
> id: MS:1002072
> name: p-value
> def: "P-value as result of one of the processing steps described.
> Specify in the description, which processing step it was." [PSI:PI]
> xref: value-type:xsd\:string "The allowed value-type for this CV term."
> is_a: MS:1001805 ! quantification datatype
>
> [Term]
> id: MS:1002073
> name: mzIdentML
> def: "Proteomics Standards Inititative mzIdentML file format. File
> extension '.mzid'." [PSI:MS]
> is_a: MS:1001040 ! intermediate analysis format
>
> [Term]
> id: MS:1002074
> name: quantification file format
> def: "File format containing quantification results." [PSI:PI]
> is_a: MS:1001459 ! file format
>
> [Term]
> id: MS:1002075
> name: mzQuantML
> def: "Proteomics Standards Inititative mzQuantML file format. File
> extension '.mzq'." [PSI:MS]
> is_a: MS:1002074 ! quantification file format
>
> [Term]
> id: MS:1002076
> name: PAnalyzer
> def: "PAnalyzer software for getting protein evidence categories."
> [http://code.google.com/p/ehu-bio/wiki/PAnalyzer]
> is_a: MS:1001456 ! analysis software
>
>
> Best Regards,
> Gerhard
>
> --
> ------------
> Dipl. Inform. med., Dipl. Wirtsch. Inf. Gerhard Mayer
> Kairos GmbH
> Universitätsstraße 136 44799 Bochum
> Email: ger...@ka...
>
>
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