From 6b3a47f91c4efe6179ac7b6b8ceb2fd1d2de636b Mon Sep 17 00:00:00 2001 From: "Anna V. Anagnostopoulos" Date: Mon, 1 Apr 2024 07:32:34 -0400 Subject: [PATCH] Closes #3957 --- src/ontology/mp-edit.owl | 121 ++++++++++++++++++++++++--------------- 1 file changed, 76 insertions(+), 45 deletions(-) diff --git a/src/ontology/mp-edit.owl b/src/ontology/mp-edit.owl index 55db99b6..8753bbfb 100644 --- a/src/ontology/mp-edit.owl +++ b/src/ontology/mp-edit.owl @@ -27162,6 +27162,7 @@ AnnotationAssertion( "abnormal tarsal conjunctiva morphology") AnnotationAssertion( "abnormal tunica cornea morphology") AnnotationAssertion( "corneal dysplasia") +AnnotationAssertion( "abnormal corneal morphology") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001312") AnnotationAssertion( ) @@ -27182,26 +27183,28 @@ EquivalentClasses( ObjectSomeValuesFr SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( ))) -# Class: (corneal opacity) +# Class: (cornea opacity) AnnotationAssertion(Annotation( "ISBN:0-683-40008-8") Annotation( "MGI:jte") "complete or partial clouding of the cornea") AnnotationAssertion( "tunica cornea opacity") +AnnotationAssertion( "corneal opacity") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001314") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "corneal opacity") +AnnotationAssertion(rdfs:label "cornea opacity") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (corneal scarring) +# Class: (cornea scarring) AnnotationAssertion(Annotation( "J:30249") "appearance of fibrous tissue on the cornea after healing in response to injury") AnnotationAssertion( "tunica cornea scarring") +AnnotationAssertion( "corneal scarring") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001316") -AnnotationAssertion(rdfs:label "corneal scarring") +AnnotationAssertion(rdfs:label "cornea scarring") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -43815,13 +43818,14 @@ AnnotationAssertion(rdfs:label "abno EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (decreased corneal stroma thickness) +# Class: (decreased cornea stroma thickness) AnnotationAssertion(Annotation( ) "reduced width of the lamellated connective tissue layer of the cornea") AnnotationAssertion( "reduced corneal stroma thickness") +AnnotationAssertion( "decreased corneal stroma thickness") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0003092") -AnnotationAssertion(rdfs:label "decreased corneal stroma thickness") +AnnotationAssertion(rdfs:label "decreased cornea stroma thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) SubClassOf( ) @@ -43850,12 +43854,13 @@ AnnotationAssertion( "abnormal cornea posterior stroma morphology") SubClassOf( ) -# Class: (abnormal corneal stroma development) +# Class: (abnormal cornea stroma development) AnnotationAssertion(Annotation( ) Annotation( "PMID:12556382") "anomalous differentiation of the lamellated connective tissue layer of the cornea") +AnnotationAssertion( "abnormal corneal stroma development") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0003095") -AnnotationAssertion(rdfs:label "abnormal corneal stroma development") +AnnotationAssertion(rdfs:label "abnormal cornea stroma development") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) SubClassOf( ) @@ -54068,13 +54073,14 @@ AnnotationAssertion( "abnormal ventral striatum morphology") SubClassOf( ) -# Class: (corneal abrasion) +# Class: (cornea abrasion) AnnotationAssertion(Annotation( ) "scraping away or denuding of the corneal surface") AnnotationAssertion( "tunica cornea abrasion") +AnnotationAssertion( "corneal abrasion") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0004105") -AnnotationAssertion(rdfs:label "corneal abrasion") +AnnotationAssertion(rdfs:label "cornea abrasion") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -55901,12 +55907,13 @@ AnnotationAssertion(rdfs:label "retr EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (absent corneal endothelium) +# Class: (absent cornea endothelium) AnnotationAssertion(Annotation( ) "absence of the single layer of large flattened cells that cover the surface of the cornea") +AnnotationAssertion( "absent corneal endothelium") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0004283") -AnnotationAssertion(rdfs:label "absent corneal endothelium") +AnnotationAssertion(rdfs:label "absent cornea endothelium") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -66741,24 +66748,26 @@ AnnotationAssertion( "abnormal eye posterior chamber morphology") SubClassOf( ) -# Class: (abnormal corneal stroma morphology) +# Class: (abnormal cornea stroma morphology) AnnotationAssertion(Annotation( "ISBN:0-683-40008-8") Annotation( "MESH:A09.371.060.217.228") "any structural anomaly of the lamellated connective tissue of the cornea between the Bowman and Descemet membranes") +AnnotationAssertion( "abnormal corneal stroma morphology") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005300") AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "abnormal corneal stroma morphology") +AnnotationAssertion(rdfs:label "abnormal cornea stroma morphology") SubClassOf( ) -# Class: (abnormal corneal endothelium morphology) +# Class: (abnormal cornea endothelium morphology) AnnotationAssertion(Annotation( "MESH:A09.371.060.067.318") "any structural anomaly of the single layer of large flattened cells that cover the surface of the cornea") +AnnotationAssertion( "abnormal corneal endothelium morphology") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005301") AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "abnormal corneal endothelium morphology") +AnnotationAssertion(rdfs:label "abnormal cornea endothelium morphology") SubClassOf( ) # Class: (neurogenic bladder) @@ -69122,16 +69131,17 @@ EquivalentClasses( ObjectSomeValuesFr SubClassOf( ) SubClassOf( ) -# Class: (corneal vascularization) +# Class: (cornea vascularization) AnnotationAssertion(Annotation( "ISBN:0-683-40008-8") Annotation( "MGI:cwg") "formation of blood vessels in the cornea, which normally lacks vessels") AnnotationAssertion( "tunica cornea vascularization") +AnnotationAssertion( "corneal vascularization") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005542") AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "corneal vascularization") +AnnotationAssertion(rdfs:label "cornea vascularization") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) ObjectSomeValuesFrom( )))) SubClassOf( ) SubClassOf( ) @@ -69143,19 +69153,21 @@ AnnotationAssertion( "decreased corneal thickness") AnnotationAssertion( "decreased tunica cornea thickness") AnnotationAssertion( "thin cornea") +AnnotationAssertion( "reduced cornea thickness") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005543") AnnotationAssertion(rdfs:label "decreased cornea thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (corneal deposits) +# Class: (cornea deposits) AnnotationAssertion(Annotation( "MGI:cwg") "accumulation of minerals, proteins, or other anomalous substances on the cornea") AnnotationAssertion( "tunica cornea deposits") +AnnotationAssertion( "corneal deposits") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005544") -AnnotationAssertion(rdfs:label "corneal deposits") +AnnotationAssertion(rdfs:label "cornea deposits") SubClassOf( ) # Class: (abnormal lens development) @@ -70627,14 +70639,15 @@ AnnotationAssertion( "small gallbladder") SubClassOf( ) -# Class: (abnormal corneal epithelium morphology) +# Class: (abnormal cornea epithelium morphology) AnnotationAssertion(Annotation( ) Annotation( "MESH:A09.371.060.217.325") "any structural anomaly of the smooth stratified squamous epithelium that covers the outer surface of the cornea") +AnnotationAssertion( "abnormal corneal epithelium morphology") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0006000") AnnotationAssertion( ) AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "abnormal corneal epithelium morphology") +AnnotationAssertion(rdfs:label "abnormal cornea epithelium morphology") SubClassOf( ) SubClassOf( ) @@ -72255,12 +72268,14 @@ AnnotationAssertion(rdfs:label "doub SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( ))) -# Class: (astigmatism) +# Class: (cornea astigmatism) AnnotationAssertion(Annotation( ) Annotation( "NCBI:matt") "the cornea is asymmetrically curved, causing out-of-focus vision") +AnnotationAssertion(Annotation( ) "astigmatism") +AnnotationAssertion(Annotation( ) "corneal astigmatism") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0006151") -AnnotationAssertion(rdfs:label "astigmatism") +AnnotationAssertion(rdfs:label "cornea astigmatism") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -95722,12 +95737,13 @@ AnnotationAssertion(rdfs:label "ecto EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (increased corneal stroma thickness) +# Class: (increased cornea stroma thickness) AnnotationAssertion(Annotation( "MGI:llw2") "increased width of the lamellated connective tissue layer of the cornea") +AnnotationAssertion( "increased corneal stroma thickness") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0009742") -AnnotationAssertion(rdfs:label "increased corneal stroma thickness") +AnnotationAssertion(rdfs:label "increased cornea stroma thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -122728,15 +122744,16 @@ AnnotationAssertion(rdfs:label "immo SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( ))) -# Class: (abnormal corneal stroma collagen fibril morphology) +# Class: (abnormal cornea stroma collagen fibril morphology) AnnotationAssertion(Annotation( ) "any structural anomaly of the connective tissue bundles in the extracellular matrix of corneal stroma that are composed of collagen, and play a role in tissue strength and elasticity") AnnotationAssertion( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2012-04-18T07:12:54Z") +AnnotationAssertion( "abnormal corneal stroma collagen fibril morphology") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0011650") -AnnotationAssertion(rdfs:label "abnormal corneal stroma collagen fibril morphology") +AnnotationAssertion(rdfs:label "abnormal cornea stroma collagen fibril morphology") SubClassOf( ) # Class: (abnormal circulating histidine level) @@ -126969,6 +126986,7 @@ AnnotationAssertion( "csmith") AnnotationAssertion( "2013-03-15T14:53:47Z") AnnotationAssertion( "increased tunica cornea thickness") +AnnotationAssertion( "increased corneal thickness") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0011962") AnnotationAssertion( ) @@ -132272,6 +132290,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2013-11-25T16:17:24Z") +AnnotationAssertion( "corneal degeneration") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0012351") AnnotationAssertion(rdfs:label "cornea degeneration") @@ -132284,6 +132303,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2013-11-25T16:17:24Z") +AnnotationAssertion( "progressive corneal degeneration") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0012352") AnnotationAssertion(rdfs:label "progressive cornea degeneration") @@ -132295,6 +132315,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2013-11-25T16:17:24Z") +AnnotationAssertion( "bilateral corneal degeneration") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0012353") AnnotationAssertion(rdfs:label "bilateral cornea degeneration") @@ -162774,76 +162795,84 @@ AnnotationAssertion(rdfs:label "abno EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (abnormal corneal epithelium thickness) +# Class: (abnormal cornea epithelium thickness) AnnotationAssertion(Annotation( ) "anomaly in the width or number of cell layers of the smooth stratified squamous epithelium that covers the outer surface of the cornea") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:15:53Z"^^xsd:dateTime) +AnnotationAssertion( "abnormal corneal epithelium thickness") AnnotationAssertion( "MP:0020853") -AnnotationAssertion(rdfs:label "abnormal corneal epithelium thickness") +AnnotationAssertion(rdfs:label "abnormal cornea epithelium thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (increased corneal epithelium thickness) +# Class: (increased cornea epithelium thickness) AnnotationAssertion(Annotation( ) "increase in the width or number of cell layers of the smooth stratified squamous epithelium that covers the outer surface of the cornea") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:22:19Z"^^xsd:dateTime) +AnnotationAssertion( "increased corneal epithelium thickness") AnnotationAssertion( "MP:0020854") -AnnotationAssertion(rdfs:label "increased corneal epithelium thickness") +AnnotationAssertion(rdfs:label "increased cornea epithelium thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (decreased corneal epithelium thickness) +# Class: (decreased cornea epithelium thickness) AnnotationAssertion(Annotation( ) "decrease in the width or number of cell layers of the smooth stratified squamous epithelium that covers the outer surface of the cornea") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:22:35Z"^^xsd:dateTime) +AnnotationAssertion( "decreased corneal epithelium thickness") +AnnotationAssertion( "reduced corneal epithelium thickness") AnnotationAssertion( "MP:0020855") -AnnotationAssertion(rdfs:label "decreased corneal epithelium thickness") +AnnotationAssertion(rdfs:label "decreased cornea epithelium thickness") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (absent corneal epithelium) +# Class: (absent cornea epithelium) AnnotationAssertion(Annotation( ) "absence of the smooth stratified squamous epithelium that covers the outer surface of the cornea") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:46:24Z"^^xsd:dateTime) +AnnotationAssertion( "absent corneal epithelium") AnnotationAssertion( "MP:0020856") -AnnotationAssertion(rdfs:label "absent corneal epithelium") +AnnotationAssertion(rdfs:label "absent cornea epithelium") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (corneal epithelium hyperplasia) +# Class: (cornea epithelium hyperplasia) AnnotationAssertion(Annotation( ) "increase in the number of normal cells in normal arrangement in the corneal epithelium, typically resulting in increased size") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:51:19Z"^^xsd:dateTime) AnnotationAssertion( "hyperplastic corneal epithelium") +AnnotationAssertion( "corneal epithelium hyperplasia") AnnotationAssertion( "MP:0020857") -AnnotationAssertion(rdfs:label "corneal epithelium hyperplasia") +AnnotationAssertion(rdfs:label "cornea epithelium hyperplasia") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (corneal epithelium hypoplasia) +# Class: (cornea epithelium hypoplasia) AnnotationAssertion(Annotation( ) "decrease in the number of normal cells in normal arrangement in the corneal epithelium, typically resulting in decreased size") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:51:36Z"^^xsd:dateTime) AnnotationAssertion( "hypoplastic corneal epithelium") +AnnotationAssertion( "corneal epithelium hypoplasia") AnnotationAssertion( "MP:0020858") -AnnotationAssertion(rdfs:label "corneal epithelium hypoplasia") +AnnotationAssertion(rdfs:label "cornea epithelium hypoplasia") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) -# Class: (disorganized corneal epithelium) +# Class: (disorganized cornea epithelium) AnnotationAssertion(Annotation( ) "derangement of the pattern of the smooth stratified squamous epithelium that covers the outer surface of the cornea") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T15:58:42Z"^^xsd:dateTime) AnnotationAssertion( "disorganised corneal epithelium") +AnnotationAssertion( "disorganized corneal epithelium") AnnotationAssertion( "MP:0020859") -AnnotationAssertion(rdfs:label "disorganized corneal epithelium") +AnnotationAssertion(rdfs:label "disorganized cornea epithelium") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) @@ -162855,17 +162884,19 @@ AnnotationAssertion( "abnormal cornea of camera-type eye physiology") AnnotationAssertion( "abnormal tarsal conjunctiva physiology") AnnotationAssertion( "abnormal tunica cornea physiology") +AnnotationAssertion( "abnormal corneal physiology") AnnotationAssertion( "MP:0020860") AnnotationAssertion(rdfs:label "abnormal cornea physiology") SubClassOf( ) -# Class: (abnormal corneal wound healing) +# Class: (abnormal cornea wound healing) AnnotationAssertion(Annotation( ) "aberrant process of repair of trauma to the cornea, especially that caused by physical means") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T18:20:42Z"^^xsd:dateTime) +AnnotationAssertion( "abnormal corneal wound healing") AnnotationAssertion( "MP:0020861") -AnnotationAssertion(rdfs:label "abnormal corneal wound healing") +AnnotationAssertion(rdfs:label "abnormal cornea wound healing") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) SubClassOf( ) SubClassOf( ) @@ -162875,8 +162906,8 @@ SubClassOf( "https://medical-dictionary.thefreedictionary.com/corneal+fragility") "increase in the susceptibility of the cornea to damage or rupture") AnnotationAssertion( ) AnnotationAssertion( "2018-10-17T18:26:52Z"^^xsd:dateTime) -AnnotationAssertion( "corneal fragility") AnnotationAssertion( "fragile cornea") +AnnotationAssertion( "increased corneal fragility") AnnotationAssertion( "MP:0020862") AnnotationAssertion(rdfs:label "increased cornea fragility") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))))