Merge pull request #572 from monarch-initiative/JuneRelease

Final terms for paper

maxo-base.obo

@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: maxo/releases/2023-05-17/maxo-base.owl
+data-version: maxo/releases/2023-06-06/maxo-base.owl
 ontology: maxo/maxo-base
 property_value: http://purl.org/dc/elements/1.1/creator "Leigh Carmody" xsd:string
 property_value: http://purl.org/dc/elements/1.1/creator "Peter Robinson" xsd:string
@@ -8,7 +8,7 @@ property_value: http://purl.org/dc/elements/1.1/title "Medical Action Ontology"
 property_value: http://purl.org/dc/elements/1.1/type IAO:8000001
 property_value: http://purl.org/dc/terms/license https://creativecommons.org/licenses/by/4.0/
 property_value: IAO:0000700 MAXO:0000001
-property_value: owl:versionInfo "2023-05-17" xsd:string
+property_value: owl:versionInfo "2023-06-06" xsd:string
 
 [Term]
 id: MAXO:0000001
@@ -14993,7 +14993,7 @@ id: MAXO:0001469
 name: farnesyltransferase inhibitor agent therapy
 def: "Use of a drug or agent that inhibits farnesyltransferase." []
 synonym: "farnesyltransferase inhibitor treatment" EXACT []
-synonym: "treatment with http://purl.obolibrary.org/obo/CHEBI_64133" EXACT []
+synonym: "treatment with EC 2.5.1.58 (protein farnesyltransferase) inhibitor" EXACT []
 property_value: http://purl.org/dc/elements/1.1/date "2023-05-15T11:00:00Z" xsd:string
 created_by: http://orcid.org/0000-0003-4830-7530
 
@@ -15027,7 +15027,7 @@ created_by: http://orcid.org/0000-0001-7941-2961
 id: MAXO:0001474
 name: thyroid hormone therapy
 def: "Treatment with thyroid hormone or drugs replicating thyroid hormone to maintain a normally functioning thyroid." []
-synonym: "treatment with http://purl.obolibrary.org/obo/CHEBI_60311" EXACT []
+synonym: "treatment with thyroid hormone" EXACT []
 property_value: http://purl.org/dc/elements/1.1/date "2023-05-15T11:00:00Z" xsd:string
 created_by: http://orcid.org/0000-0001-7941-2961
 
@@ -15047,6 +15047,129 @@ synonym: "treatment with http://purl.obolibrary.org/obo/CHEBI_177023" EXACT []
 property_value: http://purl.org/dc/elements/1.1/date "2023-05-15T11:00:00Z" xsd:string
 created_by: http://orcid.org/0000-0001-7941-2961
 
+[Term]
+id: MAXO:0001478
+name: fetal MRI
+def: "Magnetic resonance imaging of the developing fetus in utero." []
+is_a: MAXO:0000424 ! medical magnetic resonance imaging procedure
+
+[Term]
+id: MAXO:0001479
+name: allogeneic hematopoietic stem cell transplantation
+def: "A type of hematopoietic stem cell transplantation in which  stem cells are obtained from a donor other than the recipient." []
+is_a: MAXO:0000747 ! hematopoietic stem cell transplantation
+
+[Term]
+id: MAXO:0001480
+name: immunoglobulin infusion therapy
+def: "Intravenous administration of Immune globulin antibodies) derived from the plasma of donors." []
+is_a: MAXO:0001002 ! immunotherapy procedure
+
+[Term]
+id: MAXO:0001481
+name: IgE-targeting biologic therapy
+def: "A type of biologic therapy that is designed to inhibit the activity of IgE immunoglobulins." []
+is_a: MAXO:0000015 ! biologic therapy
+
+[Term]
+id: MAXO:0001482
+name: Th2-targeting biologic therapy
+def: "A type of biologic therapy that is designed to modulate helper 2 (Th2) T cell activity" []
+is_a: MAXO:0000015 ! biologic therapy
+
+[Term]
+id: MAXO:0001483
+name: complement 5 inhibitor therapy
+def: "Therapeutic administration of an inhibitor of complement component 5." []
+is_a: MAXO:0000058 ! pharmacotherapy
+
+[Term]
+id: MAXO:0001484
+name: gene editing therapy
+def: "A molecular genetic produce to alter a target gene sequence with the intention of repairing or altering the activity of a gene product that is related to a disease." []
+is_a: MAXO:0001001 ! gene therapy
+
+[Term]
+id: MAXO:0001485
+name: glutamine supplementation
+def: "Administration of dietary glutamine." []
+is_a: MAXO:0010020 ! amino acid supplementation
+
+[Term]
+id: MAXO:0001486
+name: interferon alpha therapy
+def: "Therapeutic administration of interferon alpha." []
+is_a: MAXO:0000296 ! immune stimulant agent therapy
+
+[Term]
+id: MAXO:0001487
+name: interferon-gamma therapy
+def: "Therapeutic administration of interferon gamma" []
+
+[Term]
+id: MAXO:0001488
+name: interleukin-1 receptor inhibitor therapy
+def: "Therapeutic administration of an inhibitor of interleukin 1" []
+is_a: MAXO:0000297 ! immune suppressant agent therapy
+
+[Term]
+id: MAXO:0001489
+name: live vaccine avoidance
+def: "A medical requirement or recommendation of avoiding vaccination with live (ative) agents" []
+is_a: MAXO:0001014 ! medical action avoidance
+
+[Term]
+id: MAXO:0001490
+name: platelet transfusion
+def: "The infusion of thrombocytes directly into the bloodstream" []
+is_a: MAXO:0000756 ! blood transfusion
+
+[Term]
+id: MAXO:0001491
+name: somatostatin analog therapy
+def: "Therapeutic administration of an analog of somatostatin." []
+is_a: MAXO:0000283 ! hormone modifying therapy
+
+[Term]
+id: MAXO:0001492
+name: surveillance for malignancies
+def: "Ongoing clinical investigations targeted at the early identification or return of cancer." []
+is_a: MAXO:0000487 ! clinical assessment
+
+[Term]
+id: MAXO:0001493
+name: tumor necrosis factor inhibitor therapy
+def: "Therapeutic administration of an inhibitor of tumor necrosis factor." []
+is_a: MAXO:0000297 ! immune suppressant agent therapy
+
+[Term]
+id: MAXO:0001494
+name: ophthalmological diagnostic procedure
+def: "A diagnostic procedure that investigates the eye or vision." []
+is_a: MAXO:0000003 ! diagnostic procedure
+
+[Term]
+id: MAXO:0001496
+name: serotonin-norepinephrine reuptake inhibitor agent therapy avoidance
+def: "Avoid the administration or use of serotonin-norepinephrine reuptake inhibitor agent therapy." []
+synonym: "avoid serotonin-norepinephrine reuptake inhibitor agent therapy" EXACT []
+synonym: "avoiding serotonin-norepinephrine reuptake inhibitor agent therapy" EXACT []
+is_a: MAXO:0001014 ! medical action avoidance
+relationship: MAXO:0001015 MAXO:0000214 ! avoided medical action serotonin-norepinephrine reuptake inhibitor agent therapy
+property_value: http://purl.org/dc/elements/1.1/date "2023-06-06T20:39:14Z" xsd:string
+created_by: http://orcid.org/0000-0001-7941-2961
+
+[Term]
+id: MAXO:0001497
+name: antidepressant agent therapy avoidance
+def: "Avoid the administration or use of antidepressant agent therapy." []
+synonym: "avoid antidepressant agent therapy" EXACT []
+synonym: "avoiding antidepressant agent therapy" EXACT []
+is_a: MAXO:0001014 ! medical action avoidance
+relationship: MAXO:0001015 MAXO:0000160 ! avoided medical action antidepressant agent therapy
+property_value: http://purl.org/dc/elements/1.1/date "2023-06-06T20:39:14Z" xsd:string
+created_by: http://orcid.org/0000-0001-7941-2961
+
 [Term]
 id: MAXO:0002000
 name: cannabis consumption avoidance
@@ -16577,7 +16700,10 @@ created_by: http://orcid.org/0000-0001-7941-2961
 id: MAXO:0010042
 name: thymic transplantation
 def: "The surgical transfer of a whole thymus from a donor to a patient." []
+synonym: "thymus transplantation" EXACT []
 synonym: "transplantation of whole thymus" EXACT []
+synonym: "whole thymic transplantation" EXACT []
+synonym: "whole thymus transplantation" EXACT []
 intersection_of: MAXO:0000068 ! transplantation procedure
 intersection_of: RO:0002233 UBERON:0002370
 property_value: http://purl.org/dc/elements/1.1/date "2020-01-20T10:00:01Z" xsd:string
@@ -18445,6 +18571,7 @@ created_by: http://orcid.org/0000-0002-7463-6306
 id: MAXO:0035001
 name: hand radiography
 def: "Use of an imaging test that uses small amounts of radiation to produce pictures of manus." []
+synonym: "hand radiograph procedure" EXACT []
 synonym: "manus radiogram procedure" EXACT []
 synonym: "manus X-ray procedure" EXACT []
 synonym: "radiograph of manus" EXACT []
@@ -18555,12 +18682,6 @@ name: visual acuity assessment
 def: "A test to determine the smallest letters a patient can clearly see." []
 is_a: MAXO:0000971 ! vision assessment
 
-[Term]
-id: MAXO:0035016 
-name: optical coherence tomography
-def: "A noninvasive imaging method that uses reflected light to create pictures of the back of your eye." []
-is_a: MAXO:0001155 ! eye examination
-
 [Term]
 id: MAXO:0035017
 name: hair microscopy
@@ -18585,6 +18706,12 @@ name: tissue enzyme activity assessment
 def: "Measurement of the functionality of an enzyme derived from a particular tissue" []
 is_a: MAXO:0035011 ! enzyme activity assessment
 
+[Term]
+id: MAXO:0035021
+name: iron-binding capacity assessment
+def: "A test that measures the ability of the blood to bind iron." []
+is_a: MAXO:0000566 ! clinical chemistry assessment
+
 [Term]
 id: MAXO:0035023
 name: tissue metabolite measurement
@@ -18600,7 +18727,7 @@ is_a: MAXO:0000571 ! computed tomography procedure
 [Term]
 id: MAXO:0035025
 name: in vitro DNA repair study
-def: "A test that measures DNA damage/breakage in patient cells.  DNA damage repair plays an important role in cancer's initiation and progression, and in therapeutic resistance." []
+def: "A test that measures DNA damage/breakage in patient cells.  DNA damage repair plays an important role in cancer initiation and progression, and in therapeutic resistance." []
 is_a: MAXO:0000006 ! clinical laboratory procedure
 
 [Term]
@@ -19033,7 +19160,7 @@ is_a: MAXO:0000487 ! clinical assessment
 
 [Term]
 id: MAXO:0035085
-name: cervical spine radiogrphy
+name: cervical spine radiography
 def: "Use of an imaging test that uses small amounts of radiation to produce pictures of cervical region of vertebral column." []
 synonym: "cervical region of vertebral column radiogram procedure" EXACT []
 synonym: "cervical region of vertebral column X-ray procedure" EXACT []
@@ -19153,12 +19280,6 @@ name: electroretinogram procedure
 def: "The electroretinogram (ERG) is a diagnostic test that measures the electrical activity of the retina in response to a light stimulus." []
 is_a: MAXO:0001155 ! eye examination
 
-[Term]
-id: MAXO:0035100
-name: applanation tonometry
-def: "A test used to measure interocular pressure." []
-is_a: MAXO:0001155 ! eye examination
-
 [Term]
 id: MAXO:0035101
 name: phrenic nerve stimulation test
@@ -19276,6 +19397,12 @@ name: cell function assay
 def: "An assessment of cell function." []
 is_a: MAXO:0000006 ! clinical laboratory procedure
 
+[Term]
+id: MAXO:0035123
+name: viral cell culture
+def: "Test for viral infection based on cytopathic effect and/or antibody staining." []
+is_a: MAXO:0000006 ! clinical laboratory procedure
+
 [Typedef]
 id: MAXO:0000521
 name: avoided behavior