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Merged
hoganwr merged 6 commits into from
Jul 21, 2026
Merged

created 'antibody administration census' and 'antibody administration… #274

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d270c61
created 'antibody administration census' and 'antibody administration…
hoganwr Jul 13, 2026
f78d65a
Merge branch 'main' into issue-273
hoganwr Jul 13, 2026
10ca054
I could have sworn I refreshed main with git pull, but... Anyway, I'v…
hoganwr Jul 13, 2026
7c91477
merging difficulties
hoganwr Jul 13, 2026
d7ed3dd
fixed problems resulting from GEO's OWL import of old IAO version. Pl…
hoganwr Jul 18, 2026
9fb4397
fixing imports to deal with OBI to COB transitions.
hoganwr Jul 19, 2026
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219 changes: 191 additions & 28 deletions apollo_sv-base.json
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Original file line number Diff line number Diff line change
Expand Up @@ -52,11 +52,14 @@
"val" : "When citing Apollo-SV, use the permanent URL of the ontology: http://purl.obolibrary.org/obo/apollo_sv.owl. When referencing a specific component of the Apollo-SV such as a class, object property, annotation property, or individual, use the component's Uniform Resource Identifier (URI)."
}, {
"pred" : "http://www.w3.org/2002/07/owl#versionInfo",
"val" : "2026-03-13"
"val" : "2026-07-19"
} ],
"version" : "http://purl.obolibrary.org/obo/apollo_sv/releases/2026-03-13/apollo_sv-base.json"
"version" : "http://purl.obolibrary.org/obo/apollo_sv/releases/2026-07-19/apollo_sv-base.json"
},
"nodes" : [ {
"id" : "http://humanbehaviourchange.org/ontology/BCIO_036000",
"type" : "CLASS"
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000000",
"lbl" : "purely intentional entity",
"type" : "CLASS",
Expand Down Expand Up @@ -6490,7 +6493,7 @@
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000402",
"lbl" : "individual human behavior",
"lbl" : "obsolete individual human behavior",
"type" : "CLASS",
"meta" : {
"definition" : {
Expand All @@ -6506,9 +6509,10 @@
"pred" : "http://purl.obolibrary.org/obo/IAO_0000600",
"val" : "An individual behavior of a human being."
}, {
"pred" : "http://purl.obolibrary.org/obo/apollo_sv.owl/APOLLO_SV_0000040",
"val" : "HumanBehavior"
} ]
"pred" : "http://purl.obolibrary.org/obo/IAO_0100001",
"val" : "http://humanbehaviourchange.org/ontology/BCIO_036000"
} ],
"deprecated" : true
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000403",
Expand Down Expand Up @@ -11406,6 +11410,131 @@
"val" : "Intent to have one's child vaccinated."
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000653",
"lbl" : "human-to-human communicability",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "A communicability among human beings (homo sapiens)."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "communicability among human beings"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "William R. Hogan"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000600",
"val" : "The ability of a pathogen to transmit from one human host to another human host."
}, {
"pred" : "http://purl.obolibrary.org/obo/apollo_sv.owl/APOLLO_SV_0000040",
"val" : "HumanToHumanCommunicability"
}, {
"pred" : "http://purl.org/dc/terms/contributor",
"val" : "https://orcid.org/0000-0002-9881-1017"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000654",
"lbl" : "historical scenario",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "An infectious disease scenario that represents or reconstructs an outbreak or epidemic that actually occurred, usually constrained by observed data."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "historical infectious disease scenario date"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "William R. Hogan"
}, {
"pred" : "http://purl.org/dc/elements/1.1/contributor",
"val" : "John Levander"
}, {
"pred" : "http://purl.org/dc/terms/contributor",
"val" : "https://orcid.org/0000-0002-9881-1017"
}, {
"pred" : "http://purl.org/dc/terms/created",
"val" : "2026-04-04T19:36:00Z"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000655",
"lbl" : "hypothetical scenario",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "An infectious disease scenario that represents a possible, assumed, projected, or counterfactual outbreak or epidemic, and does not need to correspond to a specific observed event."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000111",
"val" : "hypothetical infecctious disease scenario"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "William R. Hogan"
}, {
"pred" : "http://purl.org/dc/elements/1.1/contributor",
"val" : "John Levander"
}, {
"pred" : "http://purl.org/dc/terms/contributor",
"val" : "https://orcid.org/0000-0002-9881-1017"
}, {
"pred" : "http://purl.org/dc/terms/created",
"val" : "2026-04-04T19:52:04Z"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000656",
"lbl" : "antibody administration control strategy",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "An individual treatment control strategy that has as part an action specification that (has a concretization that) is realized in an antibody injection process."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "William R. Hogan"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000233",
"val" : "https://github.com/ApolloDev/apollo-sv/issues/273"
}, {
"pred" : "http://purl.org/dc/elements/1.1/contributor",
"val" : "Lucie Contamin"
}, {
"pred" : "http://purl.org/dc/terms/created",
"val" : "2026-07-13T14:13:40Z"
}, {
"pred" : "http://purl.org/dc/terms/creator",
"val" : "https://orcid.org/0000-0002-9881-1017"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000657",
"lbl" : "antibody administration census",
"type" : "CLASS",
"meta" : {
"definition" : {
"val" : "A population treatment census that is about one or more antibody administrations to organisms in a population."
},
"basicPropertyValues" : [ {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
"val" : "William R. Hogan"
}, {
"pred" : "http://purl.obolibrary.org/obo/IAO_0000233",
"val" : "https://github.com/ApolloDev/apollo-sv/issues/273"
}, {
"pred" : "http://purl.org/dc/elements/1.1/contributor",
"val" : "Lucie Contamin"
}, {
"pred" : "http://purl.org/dc/terms/created",
"val" : "2026-07-13T13:52:47Z"
}, {
"pred" : "http://purl.org/dc/terms/creator",
"val" : "https://orcid.org/0000-0002-9881-1017"
} ]
}
}, {
"id" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000793",
"lbl" : "epidemic simulator action specification",
Expand Down Expand Up @@ -11597,6 +11726,9 @@
}, {
"id" : "http://purl.obolibrary.org/obo/DRON_00000005",
"type" : "CLASS"
}, {
"id" : "http://purl.obolibrary.org/obo/DRON_00000031",
"type" : "CLASS"
}, {
"id" : "http://purl.obolibrary.org/obo/ENVO_01001079",
"type" : "CLASS"
Expand Down Expand Up @@ -11711,6 +11843,9 @@
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0020010",
"type" : "CLASS"
}, {
"id" : "http://purl.obolibrary.org/obo/IDO_0000623",
"type" : "CLASS"
}, {
"id" : "http://purl.obolibrary.org/obo/MF_0000073",
"type" : "CLASS"
Expand Down Expand Up @@ -12281,6 +12416,10 @@
"id" : "http://purl.obolibrary.org/obo/IAO_0000232",
"type" : "PROPERTY",
"propertyType" : "ANNOTATION"
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000233",
"type" : "PROPERTY",
"propertyType" : "ANNOTATION"
}, {
"id" : "http://purl.obolibrary.org/obo/IAO_0000600",
"type" : "PROPERTY",
Expand Down Expand Up @@ -12317,6 +12456,14 @@
"id" : "http://purl.org/dc/terms/contributor",
"type" : "PROPERTY",
"propertyType" : "ANNOTATION"
}, {
"id" : "http://purl.org/dc/terms/created",
"type" : "PROPERTY",
"propertyType" : "ANNOTATION"
}, {
"id" : "http://purl.org/dc/terms/creator",
"type" : "PROPERTY",
"propertyType" : "ANNOTATION"
}, {
"id" : "http://purl.org/dc/terms/description",
"type" : "PROPERTY",
Expand Down Expand Up @@ -12366,10 +12513,6 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/COB_0000035"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/OBI_0000011"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000009",
"pred" : "is_a",
Expand Down Expand Up @@ -12494,10 +12637,6 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/COB_0000035"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/OBI_0000011"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033",
"pred" : "http://purl.obolibrary.org/obo/OBI_0000299",
Expand Down Expand Up @@ -12746,10 +12885,6 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000089",
"pred" : "http://purl.obolibrary.org/obo/IAO_0000136",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000025"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000090",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/COB_0000035"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000090",
"pred" : "is_a",
Expand Down Expand Up @@ -14105,7 +14240,7 @@
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000402",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/GO_0007610"
"obj" : "http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000403",
"pred" : "is_a",
Expand Down Expand Up @@ -14626,6 +14761,10 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000531",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/IAO_0000027"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532",
"pred" : "is_a",
"obj" : "http://humanbehaviourchange.org/ontology/BCIO_036000"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000532",
"pred" : "is_a",
Expand Down Expand Up @@ -14685,7 +14824,7 @@
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000546",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000402"
"obj" : "http://humanbehaviourchange.org/ontology/BCIO_036000"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000547",
"pred" : "is_a",
Expand Down Expand Up @@ -14734,6 +14873,10 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000557",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000007"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000558",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/OBI_0000011"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000558",
"pred" : "is_a",
Expand Down Expand Up @@ -14933,7 +15076,7 @@
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000601",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000402"
"obj" : "http://humanbehaviourchange.org/ontology/BCIO_036000"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000602",
"pred" : "is_a",
Expand Down Expand Up @@ -15174,6 +15317,30 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000652",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000650"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000653",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/IDO_0000623"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000654",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000184"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000655",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000184"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000656",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000194"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000657",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000187"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000657",
"pred" : "http://purl.obolibrary.org/obo/IAO_0000136",
"obj" : "http://purl.obolibrary.org/obo/DRON_00000031"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000793",
"pred" : "is_a",
Expand All @@ -15190,10 +15357,6 @@
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/COB_0000035"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796",
"pred" : "is_a",
"obj" : "http://purl.obolibrary.org/obo/OBI_0000011"
}, {
"sub" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796",
"pred" : "http://purl.obolibrary.org/obo/OBI_0000299",
Expand Down Expand Up @@ -15252,7 +15415,7 @@
"genusIds" : [ "http://purl.obolibrary.org/obo/IAO_0020000" ]
}, {
"definedClassId" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000008",
"genusIds" : [ "http://purl.obolibrary.org/obo/OBI_0000011" ]
"genusIds" : [ "http://purl.obolibrary.org/obo/COB_0000035" ]
}, {
"definedClassId" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000009",
"genusIds" : [ "http://purl.obolibrary.org/obo/IAO_0020000" ]
Expand Down Expand Up @@ -15284,7 +15447,7 @@
} ]
}, {
"definedClassId" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000033",
"genusIds" : [ "http://purl.obolibrary.org/obo/OBI_0000011" ],
"genusIds" : [ "http://purl.obolibrary.org/obo/COB_0000035" ],
"restrictions" : [ {
"propertyId" : "http://purl.obolibrary.org/obo/OBI_0000299",
"fillerId" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000032"
Expand Down Expand Up @@ -15721,7 +15884,7 @@
} ]
}, {
"definedClassId" : "http://purl.obolibrary.org/obo/APOLLO_SV_00000796",
"genusIds" : [ "http://purl.obolibrary.org/obo/OBI_0000011" ],
"genusIds" : [ "http://purl.obolibrary.org/obo/COB_0000035" ],
"restrictions" : [ {
"propertyId" : "http://purl.obolibrary.org/obo/OBI_0000299",
"fillerId" : "http://purl.obolibrary.org/obo/IAO_0000100"
Expand Down
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