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Merge branch 'master' into fix_1728
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@jamesaoverton
jamesaoverton authored Nov 2, 2023
2 parents 6f0c6ab + 850038d commit d75885f
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64 changes: 64 additions & 0 deletions src/ontology/modules/epitope-assays.owl
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Expand Up @@ -22784,6 +22784,70 @@



<!-- http://purl.obolibrary.org/obo/OBI_0003612 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003612">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/OBI_0003118"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000299"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0001155"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000299"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000136"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0003120"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a T cell epitope:MHC:TCR complex.</obo:IAO_0000115>
<obo:IAO_0000117>PERSON:Randi Vita, Sebastian Duesing, Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000119>IEDB</obo:IAO_0000119>
<obo:OBI_9991118>3D structure|electron microscopy</obo:OBI_9991118>
<rdfs:label>electron microscopy assay determining the 3D structure of a T cell epitope:MHC:TCR complex</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003613 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003613">
<owl:equivalentClass>
<owl:Class>
<owl:intersectionOf rdf:parseType="Collection">
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/OBI_0003118"/>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000299"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0001155"/>
</owl:Restriction>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/OBI_0000299"/>
<owl:someValuesFrom>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000136"/>
<owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/OBI_0003121"/>
</owl:Restriction>
</owl:someValuesFrom>
</owl:Restriction>
</owl:intersectionOf>
</owl:Class>
</owl:equivalentClass>
<obo:IAO_0000115>An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a MHC:ligand complex.</obo:IAO_0000115>
<obo:IAO_0000117>PERSON:Randi Vita, Sebastian Duesing, Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000119>IEDB</obo:IAO_0000119>
<obo:OBI_9991118>3D structure|electron microscopy</obo:OBI_9991118>
<rdfs:label>electron microscopy assay determining the 3D structure of a MHC:ligand complex</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0600031 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0600031"/>
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81 changes: 71 additions & 10 deletions src/ontology/obi-edit.owl
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Expand Up @@ -502,12 +502,6 @@ https://sourceforge.net/tracker/?func=detail&amp;aid=3603413&amp;group_id=177891



<!-- http://www.w3.org/2002/07/owl#minQualifiedCardinality -->

<owl:AnnotationProperty rdf:about="http://www.w3.org/2002/07/owl#minQualifiedCardinality"/>



<!--
///////////////////////////////////////////////////////////////////////////////////////
//
Expand Down Expand Up @@ -3943,7 +3937,7 @@ Modification made by JZ.</obo:IAO_0000116>
<!-- http://purl.obolibrary.org/obo/OBI_0000086 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0000086">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000023"/>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0003610"/>
<obo:IAO_0000111>reagent role</obo:IAO_0000111>
<obo:IAO_0000112 xml:lang="en">Buffer, dye, a catalyst, a solvating agent.</obo:IAO_0000112>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
Expand Down Expand Up @@ -7132,9 +7126,9 @@ that has_part some material entity is a material entity. If we add as equivalent
<obo:IAO_0000111>manufacturing</obo:IAO_0000111>
<obo:IAO_0000114 rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
<obo:IAO_0000115 xml:lang="en">A planned process with the objective to produce a processed material which will have a function for future use.</obo:IAO_0000115>
<obo:IAO_0000116>A person or organization (having manufacturer role) is a participant in this process</obo:IAO_0000116>
<obo:IAO_0000116>Manufacturing implies reproducibility and responsibility AR</obo:IAO_0000116>
<obo:IAO_0000116 xml:lang="en">This includes a single scientist making a processed material for personal use.</obo:IAO_0000116>
<obo:IAO_0000116>A person or organization (having manufacturer role) is a participant in this process</obo:IAO_0000116>
<obo:IAO_0000117>PERSON: Bjoern Peters</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Frank Gibson</obo:IAO_0000117>
<obo:IAO_0000117>PERSON: Jennifer Fostel</obo:IAO_0000117>
Expand Down Expand Up @@ -22361,6 +22355,73 @@ b) that the amount of analyte/measurand detected is over some predetermined thre



<!-- http://purl.obolibrary.org/obo/OBI_0003607 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003607">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000115 xml:lang="en">An objective specification that is fulfilled by causing a disease in a particular organism.</obo:IAO_0000115>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">disease causation objective</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003608 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003608">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000115>An objective specification that is fulfilled by reducing the severity of a disease in a particular organism.</obo:IAO_0000115>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">disease severity reduction objective</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003609 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003609">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000115>An objective specification that is fulfilled by preventing the development of a disease in a particular organism.</obo:IAO_0000115>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">disease prevention objective</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003610 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003610">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000023"/>
<obo:IAO_0000115 xml:lang="en">A role borne by a biological or chemical entity that participates or has molecular components that participate in a chemical reaction.</obo:IAO_0000115>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">reactant role</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003611 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003611">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0003610"/>
<obo:IAO_0000115 xml:lang="en">A role borne by a biological or chemical entity which serves as the core component of a chemical reaction process, upon which other reactants, like reagents or solvents, act.</obo:IAO_0000115>
<obo:IAO_0000117>Cameron More</obo:IAO_0000117>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">precursor role</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0003614 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0003614">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/IAO_0000005"/>
<obo:IAO_0000115>An objective specification that is fulfilled by reducing the prevalence of a disease in a population of organisms.</obo:IAO_0000115>
<obo:IAO_0000117>Sebastian Duesing</obo:IAO_0000117>
<rdfs:label xml:lang="en">disease prevalence reduction objective</rdfs:label>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/OBI_0005246 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0005246">
Expand Down Expand Up @@ -26941,7 +27002,7 @@ determinations of compounds.</obo:IAO_0000115>
<!-- http://purl.obolibrary.org/obo/OBI_0302732 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0302732">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000023"/>
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0003610"/>
<rdfs:subClassOf>
<owl:Restriction>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/RO_0000052"/>
Expand Down Expand Up @@ -33435,5 +33496,5 @@ realizes some &apos;host of immune response role&apos;</obo:IAO_0000232>



<!-- Generated by the OWL API (version 4.5.25.2023-02-15T19:15:49Z) https://github.com/owlcs/owlapi -->
<!-- Generated by the OWL API (version 4.5.26) https://github.com/owlcs/owlapi -->

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