[Psidev-ms-dev] Release candidate 4.1.22_rc1 of psi-ms.obo

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

Dear proteomics/metabolomics community,

following are the new terms for the release candidate 4.1.22_rc1 of the
psi-ms.obo file. It contains some added terms for Bruker instruments, for
a Shimadzu format, some error corrections and the updated terms for the
ion mobility arrays.


New CV terms in version 4.1.22_rc1 of psi-ms.obo:
=================================================
[Term]
id: MS:1003004
name: maXis II
def: "Bruker Daltonics' maXis II." [PSI:MS]
is_a: MS:1001547 ! Bruker Daltonics maXis series

[Term]
id: MS:1003005
name: timsTOF Pro
def: "Bruker Daltonics' timsTOF Pro." [PSI:MS]
is_a: MS:1000122 ! Bruker Daltonics instrument model

[Term]
id: MS:1003006
name: mean inverse reduced ion mobility array
def: "Array of inverse reduced ion mobilities, averaged from a matrix of 
binned m/z and ion mobility values, corresponding to a spectrum of 
individual peaks encoded with an m/z array." [PSI:MS]
xref: value-type:xsd\:float "The allowed value-type for this CV term."
is_a: MS:1002893 ! ion mobility array
relationship: has_units MS:1002814 ! volt-second per square centimeter

[Term]
id: MS:1003007
name: raw ion mobility array
def: "Array of raw drift times." [PSI:MS]
xref: value-type:xsd\:float "The allowed value-type for this CV term."
is_a: MS:1002893 ! ion mobility array
relationship: has_units UO:0000028 ! millisecond
relationship: has_units UO:0000010 ! second

[Term]
id: MS:1003008
name: raw inverse reduced ion mobility array
def: "Array of raw inverse reduced ion mobilities." [PSI:MS]
xref: value-type:xsd\:float "The allowed value-type for this CV term."
is_a: MS:1002893 ! ion mobility array
relationship: has_units MS:1002814 ! volt-second per square centimeter

[Term]
id: MS:1003009
name: Shimadzu Biotech LCD format
def: "Shimadzu Biotech LCD file format." [PSI:PI]
is_a: MS:1000560 ! mass spectrometer file format

[Term]
id: PEFF:0001035
name: initiator methionine
def: "N-terminal methionine residue of a protein that can be 
co-translationally cleaved." [PSI:PEFF]
is_a: PEFF:0001032 ! PEFF molecule processing keyword
xref: value-type:xsd\:string "The allowed value-type for this CV term."
relationship: has_regexp PEFF:1002001 ! regular expression for each 
VariantSimple item



Changed CV terms in version 4.1.22_rc1 of psi-ms.obo:
=====================================================
************    "volt-second per square centimeter"
************ --> volt-second per square centimeter
[Term]
id: MS:1002815
name: inverse reduced ion mobility
def: "Ion mobility measurement for an ion or spectrum of ions as 
measured in an ion mobility mass spectrometer. This might refer to the 
central value of a bin into which all ions within a narrow range of 
mobilities have been aggregated." [PSI:MS]
xref: value-type:xsd\:float "The allowed value-type for this CV term."
is_a: MS:1000455 ! ion selection attribute
is_a: MS:1002892 ! ion mobility attribute
relationship: has_units MS:1002814 ! volt-second per square centimeter

************    Removed relationship: has_units MS:1002814 ! volt-second 
per square centimeter
[Term]
id: MS:1002816
name: mean ion mobility array
def: "Array of drift times, averaged from a matrix of binned m/z and ion 
mobility values, corresponding to a spectrum of individual peaks encoded 
with an m/z array." [PSI:MS]
xref: value-type:xsd\:float "The allowed value-type for this CV term."
is_a: MS:1002893 ! ion mobility array
relationship: has_units UO:0000028 ! millisecond
relationship: has_units UO:0000010 ! second

************     MS:1002901 ! search engine specific score for proteoforms
************ --> MS:1002906 ! search engine specific score for proteoforms
[Term]
id: MS:1002930
name: TopPIC:proteoform-level FDR
def: "TopPIC proteoform-level FDR." [PSI:PI]
xref: value-type:xsd\:double "The allowed value-type for this CV term."
is_a: MS:1002908 ! proteoform-level local FDR
is_a: MS:1002906 ! search engine specific score for proteoforms

[Term]
id: MS:1002952
name: TopMG:proteoform-level FDR
def: "TopMG proteoform-level FDR." [PSI:PI]
xref: value-type:xsd\:double "The allowed value-type for this CV term."
is_a: MS:1002908 ! proteoform-level local FDR
is_a: MS:1002906 ! search engine specific score for proteoforms


Best Regards,
Gerhard

-- 

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

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

*Scientific assistant*

*Medizinisches Proteom-Center*

*DEPARTMENT Medical Bioinformatics*

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*Fon *+49 (0)234 32-29272 | *Fax *+49 (0)234 32-14554

*E-mail *ger...@ru... <mailto:ger...@ru...>

www.medizinisches-proteom-center.de 
<http://www.medizinisches-proteom-center.de/>