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Merge branch 'master' into feature/ion-mobility-frame-terms
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‎psi-ms.obo

+27-4
Original file line numberDiff line numberDiff line change
@@ -1,6 +1,6 @@
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format-version: 1.2
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data-version: 4.1.189
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date: 13:01:2025 17:58
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data-version: 4.1.192
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date: 28:02:2025 17:58
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saved-by: Joshua Klein
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default-namespace: MS
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namespace-id-rule: * MS:$sequence(7,0,9999999)$
@@ -3603,7 +3603,7 @@ relationship: part_of MS:1000442 ! spectrum
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[Term]
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id: MS:1000500
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name: scan window upper limit
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def: "The lower m/z bound of a mass spectrometer scan window." [PSI:MS]
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def: "The upper m/z bound of a mass spectrometer scan window." [PSI:MS]
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synonym: "mzRangeStop" RELATED []
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is_a: MS:1000549 ! selection window attribute
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relationship: has_units MS:1000040 ! m/z
@@ -3612,7 +3612,7 @@ relationship: has_value_type xsd:float ! The allowed value-type for this CV term
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[Term]
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id: MS:1000501
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name: scan window lower limit
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def: "The upper m/z bound of a mass spectrometer scan window." [PSI:MS]
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def: "The lower m/z bound of a mass spectrometer scan window." [PSI:MS]
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synonym: "mzRangeStart" RELATED []
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is_a: MS:1000549 ! selection window attribute
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relationship: has_units MS:1000040 ! m/z
@@ -8495,6 +8495,15 @@ def: "Cleavage agent Trypsin/P." [PSI:PI]
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is_a: MS:1001045 ! cleavage agent name
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relationship: has_regexp MS:1001339 ! (?<=[KR])
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[Term]
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id: MS:1003434
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name: AlphaLP
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def: "A serine protease that hydrolyzes peptide bonds at the C-terminus of threonine, alanine, serine, and valine. (EC:3.4.21.12)" [DOI:10.1038/228438a0, DOI:10.1021/bi00445a015]
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is_a: MS:1001045 ! cleavage agent name
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synonym: "alpha-lytic endopeptidase" EXACT []
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synonym: "alpha-lytic protease" EXACT []
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relationship: has_regexp MS:1003435 ! (?<=[TASV])
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[Term]
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id: MS:1001314
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name: V8-DE
@@ -12865,6 +12874,12 @@ name: (?<=W)
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def: "Regular expression for 2-iodobenzoate." [PSI:PI]
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is_a: MS:1001180 ! Cleavage agent regular expression
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[Term]
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id: MS:1003435
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name: (?<=[TSAV])
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def: "Regular expression for alphaLP." [PSI:PI]
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is_a: MS:1001180 ! Cleavage agent regular expression
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[Term]
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id: MS:1001961
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name: peptide spectrum match scoring algorithm
@@ -17934,6 +17949,14 @@ def: "The component or dimension of an object being measured, for example the te
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relationship: part_of MS:1000513 ! binary data array
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relationship: has_value_type xsd:string ! The allowed value-type for this CV term
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[Term]
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id: MS:1002717
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name: Waters DATA Convert
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def: "Software for processing and exporting Waters MassLynx and waters_connect data." [PSI:MS]
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is_a: MS:1000694 ! Waters software
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is_a: MS:1001456 ! analysis software
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is_a: MS:1001457 ! data processing software
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[Term]
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id: MS:1002719
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name: Pegasus BT

‎psi-ms.owl

+72-7
Original file line numberDiff line numberDiff line change
@@ -10,13 +10,13 @@
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xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
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xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
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<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/ms.owl">
13-
<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/ms/4.1.188/ms.owl"/>
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<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/ms/4.1.191/ms.owl"/>
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<oboInOwl:NamespaceIdRule>* MS:$sequence(7,0,9999999)$</oboInOwl:NamespaceIdRule>
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<oboInOwl:NamespaceIdRule>* PEFF:$sequence(7,0,9999999)$</oboInOwl:NamespaceIdRule>
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<oboInOwl:date>13:01:2025 17:58</oboInOwl:date>
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<oboInOwl:date>12:02:2025 17:58</oboInOwl:date>
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<oboInOwl:default-namespace>MS</oboInOwl:default-namespace>
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<oboInOwl:hasOBOFormatVersion>1.2</oboInOwl:hasOBOFormatVersion>
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<oboInOwl:saved-by>Joshua Klein</oboInOwl:saved-by>
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<oboInOwl:saved-by>Eric Deutsch</oboInOwl:saved-by>
2020
<rdfs:comment>For any queries contact [email protected]</rdfs:comment>
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<rdfs:comment>This work is licensed under the Creative Commons Attribution 4.0 International (CC BY 4.0) license.</rdfs:comment>
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<rdfs:comment>To view a copy of this license, visit https://creativecommons.org/licenses/by/4.0/ or send a letter to Creative Commons, 444 Castro Street, Suite 900, Mountain View, California, 94041, USA.</rdfs:comment>
@@ -10366,7 +10366,7 @@
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<owl:someValuesFrom rdf:resource="http://www.w3.org/2001/XMLSchema#float"/>
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</owl:Restriction>
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</rdfs:subClassOf>
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<obo:IAO_0000115>The lower m/z bound of a mass spectrometer scan window.</obo:IAO_0000115>
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<obo:IAO_0000115>The upper m/z bound of a mass spectrometer scan window.</obo:IAO_0000115>
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<oboInOwl:hasOBONamespace>MS</oboInOwl:hasOBONamespace>
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<oboInOwl:hasRelatedSynonym>mzRangeStop</oboInOwl:hasRelatedSynonym>
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<oboInOwl:id>MS:1000500</oboInOwl:id>
@@ -10375,7 +10375,7 @@
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<owl:Axiom>
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<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MS_1000500"/>
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<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
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<owl:annotatedTarget>The lower m/z bound of a mass spectrometer scan window.</owl:annotatedTarget>
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<owl:annotatedTarget>The upper m/z bound of a mass spectrometer scan window.</owl:annotatedTarget>
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<oboInOwl:hasDbXref>PSI:MS</oboInOwl:hasDbXref>
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</owl:Axiom>
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@@ -10397,7 +10397,7 @@
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<owl:someValuesFrom rdf:resource="http://www.w3.org/2001/XMLSchema#float"/>
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</owl:Restriction>
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</rdfs:subClassOf>
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<obo:IAO_0000115>The upper m/z bound of a mass spectrometer scan window.</obo:IAO_0000115>
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<obo:IAO_0000115>The lower m/z bound of a mass spectrometer scan window.</obo:IAO_0000115>
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<oboInOwl:hasOBONamespace>MS</oboInOwl:hasOBONamespace>
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<oboInOwl:hasRelatedSynonym>mzRangeStart</oboInOwl:hasRelatedSynonym>
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<oboInOwl:id>MS:1000501</oboInOwl:id>
@@ -10406,7 +10406,7 @@
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<owl:Axiom>
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<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MS_1000501"/>
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<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
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<owl:annotatedTarget>The upper m/z bound of a mass spectrometer scan window.</owl:annotatedTarget>
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<owl:annotatedTarget>The lower m/z bound of a mass spectrometer scan window.</owl:annotatedTarget>
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<oboInOwl:hasDbXref>PSI:MS</oboInOwl:hasDbXref>
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</owl:Axiom>
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@@ -56195,6 +56195,26 @@
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<!-- http://purl.obolibrary.org/obo/MS_1002717 -->
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<owl:Class rdf:about="http://purl.obolibrary.org/obo/MS_1002717">
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<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MS_1000694"/>
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<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MS_1001456"/>
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<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MS_1001457"/>
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<obo:IAO_0000115>Software for processing and exporting Waters MassLynx and waters_connect data.</obo:IAO_0000115>
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<oboInOwl:hasOBONamespace>MS</oboInOwl:hasOBONamespace>
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<oboInOwl:id>MS:1002717</oboInOwl:id>
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<rdfs:label>Waters DATA Convert</rdfs:label>
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</owl:Class>
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<owl:Axiom>
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<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MS_1002717"/>
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<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
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<owl:annotatedTarget>Software for processing and exporting Waters MassLynx and waters_connect data.</owl:annotatedTarget>
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<oboInOwl:hasDbXref>PSI:MS</oboInOwl:hasDbXref>
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</owl:Axiom>
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<!-- http://purl.obolibrary.org/obo/MS_1002719 -->
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<owl:Class rdf:about="http://purl.obolibrary.org/obo/MS_1002719">
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<!-- http://purl.obolibrary.org/obo/MS_1003434 -->
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<owl:Class rdf:about="http://purl.obolibrary.org/obo/MS_1003434">
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<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MS_1001045"/>
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<rdfs:subClassOf>
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<owl:Restriction>
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<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/ms#has_regexp"/>
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<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/MS_1003435"/>
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</owl:Restriction>
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</rdfs:subClassOf>
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<obo:IAO_0000115>A serine protease that hydrolyzes peptide bonds at the C-terminus of threonine, alanine, serine, and valine. (EC:3.4.21.12)</obo:IAO_0000115>
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<oboInOwl:hasExactSynonym>alpha-lytic endopeptidase</oboInOwl:hasExactSynonym>
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<oboInOwl:hasExactSynonym>alpha-lytic protease</oboInOwl:hasExactSynonym>
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<oboInOwl:hasOBONamespace>MS</oboInOwl:hasOBONamespace>
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<oboInOwl:id>MS:1003434</oboInOwl:id>
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<rdfs:label>AlphaLP</rdfs:label>
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</owl:Class>
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<owl:Axiom>
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<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MS_1003434"/>
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<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
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<owl:annotatedTarget>A serine protease that hydrolyzes peptide bonds at the C-terminus of threonine, alanine, serine, and valine. (EC:3.4.21.12)</owl:annotatedTarget>
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<oboInOwl:hasDbXref>DOI:10.1021/bi00445a015</oboInOwl:hasDbXref>
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<oboInOwl:hasDbXref>DOI:10.1038/228438a0</oboInOwl:hasDbXref>
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</owl:Axiom>
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<!-- http://purl.obolibrary.org/obo/MS_1003435 -->
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<owl:Class rdf:about="http://purl.obolibrary.org/obo/MS_1003435">
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<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MS_1001180"/>
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<obo:IAO_0000115>Regular expression for alphaLP.</obo:IAO_0000115>
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<oboInOwl:hasOBONamespace>MS</oboInOwl:hasOBONamespace>
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<oboInOwl:id>MS:1003435</oboInOwl:id>
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<rdfs:label>(?&lt;=[TSAV])</rdfs:label>
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</owl:Class>
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<owl:Axiom>
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<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/MS_1003435"/>
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<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
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<owl:annotatedTarget>Regular expression for alphaLP.</owl:annotatedTarget>
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<oboInOwl:hasDbXref>PSI:PI</oboInOwl:hasDbXref>
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</owl:Axiom>
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<!-- http://purl.obolibrary.org/obo/MS_4000000 -->
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<owl:Class rdf:about="http://purl.obolibrary.org/obo/MS_4000000">

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