[Psidev-pi-dev] Release candidate 4.0.11_rc1 of psi-ms.obo

[mayerg97 <ger...@ru...>]

Dear proteomics community,

attached there's the release candidate 4.0.11_rc1 of the psi-ms.obo file.

It contains new and changed terms for isobaric labelling and
reporter ions used in quantification by isobaric labelling techniques.


New CV terms in version 4.0.11_rc1 of psi-ms.obo:
=================================================
************ New terms for isobaric labelling techniques
[Term]
id: MS:1002756
name: iodoTMT quantitation analysis
def: "Quantitation analysis using the Thermo Fisher sulfhydryl-reactive 
iodo tandem mass tag (iodoTMT) labelling workflow." [PSI:PI, PMID:24926564]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002757
name: glyco-TMT quantitation analysis
def: "Quantitation analysis using the Thermo Fisher carbonyl-reactive 
glyco-tandem mass tag (glyco-TMT) labelling workflow." [PSI:PI, 
PMID:22455665]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002758
name: aminoxyTMT quantitation analysis
def: "Quantitation analysis using the Thermo Fisher carbonyl-reactive 
aminoxy tandem mass tag (aminoxyTMT) labelling workflow." [PSI:PI, 
PMID:25337643]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002759
name: hydrazideTMT quantitation analysis
def: "Quantitation analysis using the Thermo Fisher carbonyl-reactive 
hydrazide tandem mass tag (hydrazide-TMT) labelling workflow." [PSI:PI, 
PMID:25337643]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002760
name: iTRAQH quantitation analysis
def: "Quantification analysis using the carbonyl-reactive isobaric tags 
for relative and absolute quantification hydrazide (iTRAQH) labelling 
workflow." [PSI:PI, PMID:22926130]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002761
name: DiART quantitation analysis
def: "Quantification analysis using the amine-reactive deuterium 
isobaric amine reactive tag (DiART) labelling workflow." [PSI:PI, 
PMID:20715779]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

[Term]
id: MS:1002762
name: DiLeu quantitation analysis
def: "Quantification analysis using the amine-reactive dimethyl leucine 
(DiLeu) tag labelling workflow." [PSI:PI, PMID:20715779]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

************ New terms for TMT 10-plex reagents
[Term]
id: MS:1002763
name: TMT reagent 127N
def: "The name of the sample labelled with the TMT reagent 127N." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002764
name: TMT reagent 127C
def: "The name of the sample labelled with the TMT reagent 127C." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002765
name: TMT reagent 128N
def: "The name of the sample labelled with the TMT reagent 128N." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002766
name: TMT reagent 128C
def: "The name of the sample labelled with the TMT reagent 128C." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002767
name: TMT reagent 129N
def: "The name of the sample labelled with the TMT reagent 129N." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002768
name: TMT reagent 129C
def: "The name of the sample labelled with the TMT reagent 129C." [PSI:PI]
is_a: MS:1002615 ! TMT reagent
[Term]
id: MS:1002769
name: TMT reagent 130N
def: "The name of the sample labelled with the TMT reagent 130N." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

[Term]
id: MS:1002770
name: TMT reagent 130C
def: "The name of the sample labelled with the TMT reagent 130C." [PSI:PI]
is_a: MS:1002615 ! TMT reagent

************ New terms for DiART labelling reagents
[Term]
id: MS:1002771
name: DiART reagent
def: "Deuterium isobaric amine reactive tag labeling reagent." [PSI:PI]
is_a: MS:1002602 ! quantification reagent

[Term]
id: MS:1002772
name: DiART reagent 114
def: "The name of the sample labelled with the DiART reagent 114." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

[Term]
id: MS:1002773
name: DiART reagent 115
def: "The name of the sample labelled with the DiART reagent 115." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

[Term]
id: MS:1002774
name: DiART reagent 116
def: "The name of the sample labelled with the DiART reagent 116." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

[Term]
id: MS:1002775
name: DiART reagent 117
def: "The name of the sample labelled with the DiART reagent 117." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

[Term]
id: MS:1002776
name: DiART reagent 118
def: "The name of the sample labelled with the DiART reagent 118." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

[Term]
id: MS:1002777
name: DiART reagent 119
def: "The name of the sample labelled with the DiART reagent 119." [PSI:PI]
is_a: MS:1002771 ! DiART reagent

************ New terms for DiLeu labelling reagents
[Term]
id: MS:1002778
name: DiLeu reagent
def: "Dimethyl leucine labeling reagent." [PSI:PI]
is_a: MS:1002602 ! quantification reagent

[Term]
id: MS:1002779
name: DiLeu reagent 115
def: "The name of the sample labelled with the DiLeu reagent 115." [PSI:PI]
is_a: MS:1002778 ! DiLeu reagent

[Term]
id: MS:1002780
name: DiLeu reagent 116
def: "The name of the sample labelled with the DiLeu reagent 116." [PSI:PI]
is_a: MS:1002778 ! DiLeu reagent

[Term]
id: MS:1002781
name: DiLeu reagent 117
def: "The name of the sample labelled with the DiLeu reagent 117." [PSI:PI]
is_a: MS:1002778 ! DiLeu reagent

[Term]
id: MS:1002782
name: DiLeu reagent 118
def: "The name of the sample labelled with the DiLeu reagent 118." [PSI:PI]
is_a: MS:1002778 ! DiLeu reagent


Changed CV terms in version 4.0.11_rc1 of psi-ms.obo:
=====================================================
************ added is_a: MS:1001833 ! quantitation analysis summary
************ added amine-reactive to the definition
[Term]
id: MS:1001837
name: iTRAQ quantitation analysis
def: "Quantification analysis using the SCIEX amine-reactive isobaric 
tags for relative and absolute quantification (iTRAQ) labelling 
workflow, wherein 2-8 reporter ions are measured in MS2 spectra near in 
the 114-121 m/z range." [PSI:PI, PMID:15385600]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

************ added amine-reactive to the definition
[Term]
id: MS:1002010
name: TMT quantitation analysis
def: "Quantitation analysis using the Thermo Fisher amine-reactive 
tandem mass tag (TMT) labelling workflow, wherein 2-10 reporter ions are 
measured in MS2 spectra in the 126-131 m/z." [PSI:PI, PMID:12713048]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

************ added is_a: MS:1001833 ! quantitation analysis summary
************ and added PMID-reference
[Term]
id: MS:1002212
name: IPTL quantitation analysis
def: "Quantification analysis using a labelling strategy where both 
peptide termini are labelled so that the peptides from different 
labelling schema are isobaric." [PSI:PI, PMID:19655813]
is_a: MS:1001833 ! quantitation analysis summary
is_a: MS:1002009 ! isobaric label quantitation analysis

************ Changed definition to include glycoTMT, iodoTMT, aminoxyTMT 
or hydrazideTMT
[Term]
id: MS:1002615
name: TMT reagent
def: "Tandem mass tag reagent used in TMT, glycoTMT, iodoTMT, aminoxyTMT 
or hydrazideTMT isobaric labeling." [PSI:PI]
is_a: MS:1002602 ! quantification reagent

************ Changed definition to include iTRAQH
[Term]
id: MS:1002622
name: iTRAQ reagent
def: "Isobaric tag for relative and absolute quantitation (iTRAQ or 
iTRAQH) reagent." [PSI:PI]
is_a: MS:1002602 ! quantification reagent


Best Regards,
Gerhard

-- 

*--------------------------------------------------------------------*

*Dipl. Inform. med., Dipl. Wirtsch. **Inf. GERHARD MAYER*

*PhD student*

*Medizinisches Proteom-Center*

*DEPARTMENT Medical Bioinformatics*

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