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Merge pull request #1741 from obi-ontology/iedb_assays_10.06.2023
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Add two IEDB assays
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@jamesaoverton
jamesaoverton authored Nov 2, 2023
2 parents 04e2041 + 97ce170 commit 850038d
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64 changes: 64 additions & 0 deletions src/ontology/modules/epitope-assays.owl
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<!-- 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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2 changes: 2 additions & 0 deletions src/ontology/templates/epitope-assays.tsv
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Expand Up @@ -500,6 +500,8 @@ OBI:0003486 intracellular cytokine staining assay measuring epitope specific int
OBI:0003487 ELISA measuring epitope specific interleukin-25 production by T cells IL-25 release|ELISA An enzyme-linked immunosorbent assay that detects interleukin-25 production by T cells. IEDB IEDB equivalent enzyme-linked immunosorbent assay ('interleukin-25 production' and ('process is result of' some 'MHC:epitope complex binding to TCR'))
OBI:0003488 cell culture analyte detection bioassay measuring epitope specific tumor necrosis factor superfamily cytokine production by T cells TNF release|bioassay A reporter cell line analyte detection bioassay that detects tumor necrosis factor superfamily cytokine production by T cells. IEDB IEDB equivalent reporter cell line analyte detection bioassay ('tumor necrosis factor superfamily cytokine production' and ('process is result of' some 'MHC:epitope complex binding to TCR'))
OBI:0003602 quartz crystal microbalance assay measuring the dissociation constant [KD] of a B cell epitope:antibody complex quartz crystal microbalance measuring the dissociation constant [KD] of a B cell epitope:antibody complex QCM measuring KD dissociation constant KD|quartz crystal microbalance|nM A quartz crystal microbalance assay that measures the dissociation constant [KD] of an antigen binding with an antibody. IEDB Randi Vita|Bjoern Peters|Sebastian Duesing subclass quartz crystal microbalance assay equilibrium dissociation constant (KD) immunoglobulin binding to epitope nanomolar
OBI:0003612 electron microscopy assay determining the 3D structure of a T cell epitope:MHC:TCR complex 3D structure|electron microscopy An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a T cell epitope:MHC:TCR complex. IEDB PERSON:Randi Vita, Sebastian Duesing, Bjoern Peters equivalent electron-microscopy 3D molecular structure determination assay 3D structural organization datum epitope:MHC:TCR complex
OBI:0003613 electron microscopy assay determining the 3D structure of a MHC:ligand complex 3D structure|electron microscopy An electron-microscopy 3D molecular structure determination assay that characterizes the 3-dimensional molecular structrue of a MHC:ligand complex. IEDB PERSON:Randi Vita, Sebastian Duesing, Bjoern Peters equivalent electron-microscopy 3D molecular structure determination assay 3D structural organization datum MHC:ligand complex
OBI:1110013 ELISPOT assay measuring epitope specific interleukin-2 production by T cells IL-2 release|ELISPOT An enzyme-linked immunospot assay that detects interleukin-2 production by T cells. IEDB PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters equivalent enzyme-linked immunospot assay ('interleukin-2 production' and ('process is result of' some 'MHC:epitope complex binding to TCR'))
OBI:1110037 assay measuring binding of a T cell epitope:MHC:TCR complex T cell binding|any method A T cell epitope assay that measures the binding of T cell receptor to an epitope. IEDB IEDB equivalent assay binding datum MHC:epitope complex binding to TCR
OBI:1110059 ELISPOT assay measuring epitope specific interferon-gamma production by T cells IFNg release|ELISPOT An enzyme-linked immunospot assay that detects interferon-gamma production by T cells. IEDB PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters equivalent enzyme-linked immunospot assay ('interferon-gamma production' and ('process is result of' some 'MHC:epitope complex binding to TCR'))
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