From 5a241955c55ebc427f5586999c61796bf5cf1a09 Mon Sep 17 00:00:00 2001 From: Sue Bello Date: Tue, 8 Aug 2023 11:27:59 -0400 Subject: [PATCH] closes #3804 closes #3805 added new terms and added disorganised as a synonym for disorganized --- src/ontology/mp-edit.owl | 82 ++++++++++++++++++++++++++++++++++++---- 1 file changed, 74 insertions(+), 8 deletions(-) diff --git a/src/ontology/mp-edit.owl b/src/ontology/mp-edit.owl index 9340a0ec..9072bcb5 100644 --- a/src/ontology/mp-edit.owl +++ b/src/ontology/mp-edit.owl @@ -11582,6 +11582,10 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -17776,6 +17780,7 @@ AnnotationAssertion(owl:deprecated " # Class: (disorganized inner root sheath cells) AnnotationAssertion(Annotation( "CL:0002560") "disorganization of the epithelial cells that resides in the inner root sheath of the hair follicle") +AnnotationAssertion( "disorganised inner root sheath cells") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0000387") AnnotationAssertion(rdfs:label "disorganized inner root sheath cells") @@ -17795,6 +17800,7 @@ SubClassOf( (disorganized outer root sheath cells) AnnotationAssertion(Annotation( "PMID:10469309") "disordered enveloping layer of cells of the hair follicle; surrounds inner root and is continuous with basal and spinous layers of the epidermis") +AnnotationAssertion( "disorganised outer root sheath cells") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0000389") AnnotationAssertion(rdfs:label "disorganized outer root sheath cells") @@ -17804,6 +17810,7 @@ SubClassOf( (disorganized matrix sheath cells) AnnotationAssertion(Annotation( "PMID:10469309") "disordered layer of matrix cells of the hair follicle") +AnnotationAssertion( "disorganised matrix sheath cells") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0000390") AnnotationAssertion(rdfs:label "disorganized matrix sheath cells") @@ -22443,6 +22450,7 @@ SubClassOf( (disorganized barrel cortex) AnnotationAssertion(Annotation( "ISBN:0838580343") Annotation( "J:64064") "derangement of the pattern of the discrete functional units of the somatosensory cortex that processes tactile information derived from the vibrissae") +AnnotationAssertion( "disorganised barrel cortex") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0000861") AnnotationAssertion(rdfs:label "disorganized barrel cortex") @@ -23416,8 +23424,8 @@ SubClassOf( "PMID:10804168") Annotation( "PMID:10804169") "loss of segmentation pattern of dorsal root ganglia or loss of regular spacing between the ganglia") AnnotationAssertion( "disorganized DRG") -AnnotationAssertion( "disorganized dorsal root ganglia") AnnotationAssertion( "disorganized spinal ganglia") +AnnotationAssertion( "disorganised dorsal root ganglia") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0000962") AnnotationAssertion(rdfs:label "disorganized dorsal root ganglion") @@ -26057,6 +26065,7 @@ SubClassOf( (disorganized suprabasal layer) AnnotationAssertion(Annotation( "MGI:cwg") "derangement of the pattern of the suprabasal layer of the skin") +AnnotationAssertion( "disorganised suprabasal layer") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001235") AnnotationAssertion(rdfs:label "disorganized suprabasal layer") @@ -27046,7 +27055,7 @@ SubClassOf( (disorganized retina layers) AnnotationAssertion(Annotation( "MGI:smb") "derangement of the pattern of the sheets of cells comprising the optic part of the retina") -AnnotationAssertion( "disorganized retinal layers") +AnnotationAssertion( "disorganised retinal layers") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001328") AnnotationAssertion( ) @@ -30020,6 +30029,7 @@ SubClassOf( (disorganized yolk sac vascular plexus) AnnotationAssertion(Annotation( "MGI:csmith") "derangement in the pattern of the primary (honeycomb-like) vasculature of the yolk sac prior to remodeling into a mature vascular network") +AnnotationAssertion( "disorganised yolk sac vascular plexus") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0001723") AnnotationAssertion(rdfs:label "disorganized yolk sac vascular plexus") @@ -34413,6 +34423,7 @@ SubClassOf( (disorganized myocardium) AnnotationAssertion(Annotation( "ISBN:0-683-40008-8") "derangement of the patterned architecture of the myocardium") +AnnotationAssertion( "disorganised myocardium") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0002190") AnnotationAssertion(rdfs:label "disorganized myocardium") @@ -38305,7 +38316,7 @@ SubClassOf( (disorganized secondary lens fibers) AnnotationAssertion(Annotation( "ISBN:0-683-40008-8") Annotation( "MGI:csmith") "deformation or misalignment of the elongated cells that form the crystalline lens") -AnnotationAssertion( "disorganized secondary lens fibres") +AnnotationAssertion( "disorganised secondary lens fibres") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0002579") AnnotationAssertion(rdfs:label "disorganized secondary lens fibers") @@ -38332,6 +38343,7 @@ SubClassOf( (disorganized extraembryonic tissue) AnnotationAssertion(Annotation( "J:40596") Annotation( "MGI:csmith") "a lack of the regular arrangement of the membranes involved with the embryo's protection and nutrition") +AnnotationAssertion( "disorganised extraembryonic tissue") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0002582") AnnotationAssertion(rdfs:label "disorganized extraembryonic tissue") @@ -51136,6 +51148,7 @@ SubClassOf( (disorganized lens bow) AnnotationAssertion(Annotation( "MGI:brs") "derangement of the area where the lens epithelium pushes into the lens proper and forms new lens fibers") +AnnotationAssertion( "disorganised lens bow") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0003847") AnnotationAssertion(rdfs:label "disorganized lens bow") @@ -52565,6 +52578,7 @@ SubClassOf( (disorganized embryonic tissue) AnnotationAssertion(Annotation( "J:58080") Annotation( "MGI:anna") "a lack of the regular arrangement of any embryonic tissues") +AnnotationAssertion( "disorganised embryonic tissue") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0003988") AnnotationAssertion(rdfs:label "disorganized embryonic tissue") @@ -65547,7 +65561,7 @@ SubClassOf( (disorganized stomach mucosa) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the pattern of the mucous layer of the stomach wall") -AnnotationAssertion( "disorganized gastric mucosa") +AnnotationAssertion( "disorganised gastric mucosa") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0005210") AnnotationAssertion(rdfs:label "disorganized stomach mucosa") @@ -74384,6 +74398,7 @@ SubClassOf( ObjectSomeValuesFrom( (disorganized testis cords) AnnotationAssertion(Annotation( "MGI:anna") "derangement of the pattern of the attachments derived from the primordial seminiferous cords that differentiate into seminiferous tubules in adolescence") +AnnotationAssertion( "disorganised testis cords") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0006419") AnnotationAssertion(rdfs:label "disorganized testis cords") @@ -79921,6 +79936,7 @@ SubClassOf( (disorganized cortical plate) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the patterned arrangement of the cortical plate") +AnnotationAssertion( "disorganised cortical plate") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008442") AnnotationAssertion(rdfs:label "disorganized cortical plate") @@ -80693,7 +80709,7 @@ SubClassOf( (disorganized retina ganglion layer) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the pattern of the innermost nuclear layer of the retina, which contains neurons that project axons through the optic nerve to the brain") -AnnotationAssertion( "disorganized retinal ganglion layer") +AnnotationAssertion( "disorganised retina ganglion layer") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008509") AnnotationAssertion(rdfs:label "disorganized retina ganglion layer") @@ -80728,8 +80744,8 @@ SubClassOf( (disorganized retina inner nuclear layer) AnnotationAssertion(Annotation( "MGI:monikat") "derangement of the normal pattern of the retinal layer that contains the cell bodies of bipolar, horizontal, and amacrine cells") -AnnotationAssertion( "disorganized retinal INL") AnnotationAssertion( "disorganized retinal inner nuclear layer") +AnnotationAssertion( "disorganised retinal INL") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008512") AnnotationAssertion(rdfs:label "disorganized retina inner nuclear layer") @@ -80785,9 +80801,9 @@ SubClassOf( (disorganized retina outer nuclear layer) AnnotationAssertion(Annotation( "MGI:monikat") "derangement of the normal pattern of the retinal layer that contains the nuclei and cell bodies of rods and cones") -AnnotationAssertion( "disorganized retina ONL") AnnotationAssertion( "disorganized retinal ONL") AnnotationAssertion( "disorganized retinal outer nuclear layer") +AnnotationAssertion( "disorganised retina ONL") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008516") AnnotationAssertion(rdfs:label "disorganized retina outer nuclear layer") @@ -80839,9 +80855,9 @@ SubClassOf( (disorganized retina outer plexiform layer) AnnotationAssertion(Annotation( "MGI:monikat") "a derangement of the normal pattern of the retinal layer that is the site of synapses between the rods and cones (axons) and the horizontal and bipolar cells (dendrites)") -AnnotationAssertion( "disorganized retina OPL") AnnotationAssertion( "disorganized retinal OPL") AnnotationAssertion( "disorganized retinal outer plexiform layer") +AnnotationAssertion( "disorganised retina OPL") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008520") AnnotationAssertion(rdfs:label "disorganized retina outer plexiform layer") @@ -81592,6 +81608,7 @@ SubClassOf( (disorganized photoreceptor inner segment) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the pattern of the photoreceptor region which contains the machinery of the cell (mitochondria, golgi, endoplasmic reticulum, etc) and where opsin molecules are assembled and passed to be part of the outer segment region") +AnnotationAssertion( "disorganised photoreceptor inner segment") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008581") AnnotationAssertion(rdfs:label "disorganized photoreceptor inner segment") @@ -81639,6 +81656,7 @@ SubClassOf( (disorganized photoreceptor outer segment) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the pattern of the photoreceptor region that is rich in the visual pigment rhodopsin") +AnnotationAssertion( "disorganised photoreceptor outer segment") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0008586") AnnotationAssertion(rdfs:label "disorganized photoreceptor outer segment") @@ -90101,6 +90119,7 @@ SubClassOf( (disorganized pancreatic islets) AnnotationAssertion(Annotation( "MGI:csmith") "derangement of the normal pattern of the hormone-producing cells within an islet; normally, the beta cells occupy the central portion of the islet and are surrounded by a corona of alpha and delta cells") +AnnotationAssertion( "disorganised pancreatic islets") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0009254") AnnotationAssertion(rdfs:label "disorganized pancreatic islets") @@ -100516,6 +100535,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2010-05-05T03:27:36Z") +AnnotationAssertion( "disorganised hair shaft") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0010142") AnnotationAssertion(rdfs:label "disorganized hair shaft") @@ -120198,6 +120218,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2011-12-09T03:29:30Z") +AnnotationAssertion( "disorganised placental labyrinth") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0011527") AnnotationAssertion(rdfs:label "disorganized placental labyrinth") @@ -121972,6 +121993,7 @@ AnnotationAssertion(Annotation( ) AnnotationAssertion( "csmith") AnnotationAssertion( "2012-04-12T01:40:51Z") +AnnotationAssertion( "disorganised mitochondrial cristae") AnnotationAssertion( "MPheno.ontology") AnnotationAssertion( "MP:0011636") AnnotationAssertion(rdfs:label "disorganized mitochondrial cristae") @@ -150755,6 +150777,48 @@ AnnotationAssertion( "hindlimb syndactyly") SubClassOf( ) +# Class: (abnormal adrenal gland zona fasciculata size) + +AnnotationAssertion(Annotation( ) "anomaly in the size of the wide middle zone of the adrenal cortex that produces cortisol") +AnnotationAssertion( "2023-08-08T14:51:31Z"^^xsd:dateTime) +AnnotationAssertion( ) +AnnotationAssertion( "MP:0014284") +AnnotationAssertion(rdfs:label "abnormal adrenal gland zona fasciculata size") +EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) +SubClassOf( ) + +# Class: (disorganized adrenal gland zona fasciculata) + +AnnotationAssertion(Annotation( ) "derangement of the pattern of the cells in the wide middle zone of the adrenal cortex") +AnnotationAssertion( "2023-08-08T14:52:20Z"^^xsd:dateTime) +AnnotationAssertion( ) +AnnotationAssertion( "disorganised adrenal gland zona fasciculata") +AnnotationAssertion( "MP:0014285") +AnnotationAssertion(rdfs:label "disorganized adrenal gland zona fasciculata") +EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) +SubClassOf( ) + +# Class: (increased adrenal gland zona fasciculata size) + +AnnotationAssertion(Annotation( ) "increase in the size of the wide middle zone of the adrenal cortex that produces cortisol") +AnnotationAssertion( "2023-08-08T14:53:41Z"^^xsd:dateTime) +AnnotationAssertion( ) +AnnotationAssertion( "enlarged adrenal gland zona fasciculata area") +AnnotationAssertion( "expanded adrenal gland zona fasciculata") +AnnotationAssertion( "MP:0014286") +AnnotationAssertion(rdfs:label "increased adrenal gland zona fasciculata size") +SubClassOf( ) + +# Class: (decreased adrenal gland zona fasciculata size) + +AnnotationAssertion(Annotation( ) "decrease in the size of the wide middle zone of the adrenal cortex that produces cortisol") +AnnotationAssertion( "2023-08-08T14:53:50Z"^^xsd:dateTime) +AnnotationAssertion( ) +AnnotationAssertion( "reduced adrenal gland zona fasciculata size") +AnnotationAssertion( "MP:0014287") +AnnotationAssertion(rdfs:label "decreased adrenal gland zona fasciculata size") +SubClassOf( ) + # Class: (abnormal response to antigen) AnnotationAssertion(Annotation( ) "anomaly in the immune response after exposure to an antigen") @@ -156719,6 +156783,7 @@ SubClassOf( "MGI:smb") "derangement of the pattern of thalamic tissues") AnnotationAssertion( ) AnnotationAssertion( "2018-01-24T20:40:28Z"^^xsd:dateTime) +AnnotationAssertion( "disorganised thalamus") AnnotationAssertion( "MP:0020530") AnnotationAssertion(rdfs:label "disorganized thalamus") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) @@ -160426,6 +160491,7 @@ SubClassOf( "MGI:smb") "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( "MP:0020859") AnnotationAssertion(rdfs:label "disorganized corneal epithelium") EquivalentClasses( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))))