From 22dc66c8fe0663adbaf4cf4497f26c51114cf985 Mon Sep 17 00:00:00 2001 From: James Munro Date: Wed, 30 Nov 2022 09:21:05 -0500 Subject: [PATCH] late November release --- src/ontology/symp-base.owl | 75 ++++++++++++- src/ontology/symp-edit.owl | 2 +- src/ontology/symp.json | 216 +++++++++++++++++++++++++------------ src/ontology/symp.obo | 40 +++++-- src/ontology/symp.owl | 77 +++++++++++-- 5 files changed, 323 insertions(+), 87 deletions(-) diff --git a/src/ontology/symp-base.owl b/src/ontology/symp-base.owl index a02dda3..79d2553 100644 --- a/src/ontology/symp-base.owl +++ b/src/ontology/symp-base.owl @@ -11,7 +11,7 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases. Symptom Ontology @@ -4037,10 +4037,11 @@ - symptoms SYMP:0000286 - floppy head + reviewed 10/2022 & determined to be a disease + obsolete floppy head + true @@ -4696,6 +4697,7 @@ + symptoms SYMP:0000334 muscle necrosis @@ -8938,9 +8940,10 @@ ICD9CM_2005:788.63 UMLS_CUI:C0085606 UMLS_ICD9CM_2005_AUI:A2797703 + urgency of urination symptoms SYMP:0000590 - urgency of urination + urinary urgency @@ -10482,7 +10485,7 @@ - + symptoms SYMP:0000692 low blood pressure @@ -15271,6 +15274,68 @@ SYMP:0020060 low white blood cell count + + + + + + + + A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment. + ICD10CM:K59.02 + ICD9CM:564.02 + UMLS_CUI:C0949134 + symptoms + SYMP:0020061 + outlet dysfunction constipation + + + + + A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment. + url:https://www.med.unc.edu/ibs/wp-content/uploads/sites/450/2017/10/Constipation.pdf + + + + + + + + + A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints. + symptoms + SYMP:0020062 + soft tissue necrosis + + + + + A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints. + url:https://medlineplus.gov/ency/article/001443.htm + url:https://www.health.ny.gov/statistics/cancer/registry/abouts/soft_tissue.htm + + + + + + + + + symptoms + SYMP:0020063 + blood pressure + + + + + + + + + symptoms + SYMP:0020064 + high blood pressure + diff --git a/src/ontology/symp-edit.owl b/src/ontology/symp-edit.owl index 52e664b..5c78adc 100644 --- a/src/ontology/symp-edit.owl +++ b/src/ontology/symp-edit.owl @@ -12,7 +12,7 @@ Prefix(oboInOwl:=) Ontology( - + Annotation(obo:IAO_0000700 obo:SYMP_0000462) Annotation(dc:description "The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases.") Annotation(dc:title "Symptom Ontology") diff --git a/src/ontology/symp.json b/src/ontology/symp.json index f2d9fd5..d69c163 100644 --- a/src/ontology/symp.json +++ b/src/ontology/symp.json @@ -4780,6 +4780,40 @@ }, "type" : "CLASS", "lbl" : "hemorrhagic diarrhea" + }, { + "id" : "http://purl.obolibrary.org/obo/SYMP_0020064", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "symptoms" + } ] + }, + "type" : "CLASS", + "lbl" : "high blood pressure" + }, { + "id" : "http://purl.obolibrary.org/obo/SYMP_0020062", + "meta" : { + "definition" : { + "val" : "A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints.", + "xrefs" : [ "url:https://medlineplus.gov/ency/article/001443.htm", "url:https://www.health.ny.gov/statistics/cancer/registry/abouts/soft_tissue.htm" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "symptoms" + } ] + }, + "type" : "CLASS", + "lbl" : "soft tissue necrosis" + }, { + "id" : "http://purl.obolibrary.org/obo/SYMP_0020063", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "symptoms" + } ] + }, + "type" : "CLASS", + "lbl" : "blood pressure" }, { "id" : "http://purl.obolibrary.org/obo/SYMP_0020060", "meta" : { @@ -4790,6 +4824,27 @@ }, "type" : "CLASS", "lbl" : "low white blood cell count" + }, { + "id" : "http://purl.obolibrary.org/obo/SYMP_0020061", + "meta" : { + "definition" : { + "val" : "A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment.", + "xrefs" : [ "url:https://www.med.unc.edu/ibs/wp-content/uploads/sites/450/2017/10/Constipation.pdf" ] + }, + "xrefs" : [ { + "val" : "UMLS_CUI:C0949134" + }, { + "val" : "ICD9CM:564.02" + }, { + "val" : "ICD10CM:K59.02" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "symptoms" + } ] + }, + "type" : "CLASS", + "lbl" : "outlet dysfunction constipation" }, { "id" : "http://purl.obolibrary.org/obo/SYMP_0000690", "meta" : { @@ -5640,13 +5695,15 @@ }, { "id" : "http://purl.obolibrary.org/obo/SYMP_0000286", "meta" : { + "comments" : [ "reviewed 10/2022 & determined to be a disease" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "symptoms" - } ] + } ], + "deprecated" : true }, "type" : "CLASS", - "lbl" : "floppy head" + "lbl" : "obsolete floppy head" }, { "id" : "http://purl.obolibrary.org/obo/SYMP_0000047", "meta" : { @@ -12150,13 +12207,18 @@ }, { "val" : "ICD9CM_2005:788.63" } ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "urgency of urination", + "xrefs" : [ ] + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "symptoms" } ] }, "type" : "CLASS", - "lbl" : "urgency of urination" + "lbl" : "urinary urgency" }, { "id" : "http://purl.obolibrary.org/obo/SYMP_0000593", "meta" : { @@ -15075,14 +15137,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000879", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000881" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000827", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000529" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000850", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000299" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000827", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000529" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000193", "pred" : "is_a", @@ -15243,14 +15305,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0020021", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000092" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000516", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000514" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000722", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0019163" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000516", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000514" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000826", "pred" : "is_a", @@ -15271,10 +15333,6 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000678", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000480" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000692", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000567" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000403", "pred" : "is_a", @@ -15411,14 +15469,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000221", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000220" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000418", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000417" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000242", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000614" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000418", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000417" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0019185", "pred" : "is_a", @@ -15487,14 +15545,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000022", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000410" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000114", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0019139" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000334", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000183" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000114", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0019139" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000825", "pred" : "is_a", @@ -15575,6 +15633,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000529", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000287" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0020062", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000891" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000268", "pred" : "is_a", @@ -16023,14 +16085,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000216", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000508" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000831", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000761", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000567" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000831", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000257", "pred" : "is_a", @@ -16151,6 +16213,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000389", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000482" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0020064", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0020063" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000130", "pred" : "is_a", @@ -16179,14 +16245,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000778", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000773" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000006", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000241", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000239" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000006", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000852", "pred" : "is_a", @@ -16591,6 +16657,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000541", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000478" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000692", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0020063" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000744", "pred" : "is_a", @@ -16743,6 +16813,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000674", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000336" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0020063", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000567" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000479", "pred" : "is_a", @@ -16839,6 +16913,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000752", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000386" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000334", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0020062" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000136", "pred" : "is_a", @@ -16887,14 +16965,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000861", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000858" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000396", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000254" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000383", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000384" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000396", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000254" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0020048", "pred" : "is_a", @@ -16915,14 +16993,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000840", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000502", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000492" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000630", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000504" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000502", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000492" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0020017", "pred" : "is_a", @@ -17107,14 +17185,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000518", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000457" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000291", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000255", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000459" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000291", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000099" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000355", "pred" : "is_a", @@ -17619,14 +17697,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000311", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000459" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000695", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000473" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000896", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0019163" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000695", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000473" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000041", "pred" : "is_a", @@ -17695,6 +17773,10 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000129", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000128" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0020061", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0019180" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000469", "pred" : "is_a", @@ -17919,14 +18001,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000750", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000488" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000468", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000454" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000454", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000461" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000468", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000454" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000763", "pred" : "is_a", @@ -17935,14 +18017,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000754", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000576" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000374", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000196" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000337", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000566" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000374", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000196" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0019149", "pred" : "is_a", @@ -17951,14 +18033,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000510", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000488" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000614", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000514" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000859", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000858" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000614", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000514" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0019177", "pred" : "is_a", @@ -18239,14 +18321,14 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000248", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000247" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000467", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000454" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000466", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000464" + }, { + "sub" : "http://purl.obolibrary.org/obo/SYMP_0000467", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/SYMP_0000454" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0000224", "pred" : "is_a", @@ -18267,10 +18349,6 @@ "sub" : "http://purl.obolibrary.org/obo/SYMP_0000606", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/SYMP_0000492" - }, { - "sub" : "http://purl.obolibrary.org/obo/SYMP_0000286", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/SYMP_0000480" }, { "sub" : "http://purl.obolibrary.org/obo/SYMP_0020037", "pred" : "is_a", @@ -18318,7 +18396,7 @@ "val" : "https://creativecommons.org/publicdomain/zero/1.0/" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#date", - "val" : "20:10:2022 10:38" + "val" : "30:11:2022 09:11" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#default-namespace", "val" : "symptoms" @@ -18329,7 +18407,7 @@ "pred" : "http://www.geneontology.org/formats/oboInOwl#saved-by", "val" : "lschriml" } ], - "version" : "http://purl.obolibrary.org/obo/symp/releases/2022-10-20/symp.owl" + "version" : "http://purl.obolibrary.org/obo/symp/releases/2022-11-30/symp.owl" }, "equivalentNodesSets" : [ ], "logicalDefinitionAxioms" : [ ], diff --git a/src/ontology/symp.obo b/src/ontology/symp.obo index 8f1a60d..8c56756 100644 --- a/src/ontology/symp.obo +++ b/src/ontology/symp.obo @@ -1,6 +1,6 @@ format-version: 1.2 -data-version: releases/2022-10-20/symp.obo -date: 20:10:2022 10:38 +data-version: releases/2022-11-30/symp.obo +date: 30:11:2022 09:11 saved-by: lschriml default-namespace: symptoms ontology: symp @@ -1635,8 +1635,9 @@ is_a: SYMP:0000030 ! paralysis [Term] id: SYMP:0000286 -name: floppy head -is_a: SYMP:0000480 ! nervous system symptom +name: obsolete floppy head +comment: reviewed 10/2022 & determined to be a disease +is_obsolete: true [Term] id: SYMP:0000287 @@ -1915,6 +1916,7 @@ is_a: SYMP:0000183 ! muscle symptom id: SYMP:0000334 name: muscle necrosis is_a: SYMP:0000183 ! muscle symptom +is_a: SYMP:0020062 ! soft tissue necrosis [Term] id: SYMP:0000335 @@ -3872,8 +3874,9 @@ is_a: SYMP:0000573 ! urinary stream symptom [Term] id: SYMP:0000590 -name: urgency of urination +name: urinary urgency def: "A urinary system symptom that is characterized by a strong and immediate need to urinate due to an increase in pressure in the bladder, resulting in difficulty to hold in the urine. This can occur regardless of whether the bladder is full." [url:https\://www.medicalnewstoday.com/articles/325336#symptoms] +synonym: "urgency of urination" EXACT [] xref: ICD9CM_2005:788.63 xref: UMLS_CUI:C0085606 xref: UMLS_ICD9CM_2005_AUI:A2797703 @@ -4538,7 +4541,7 @@ is_a: SYMP:0019139 ! hemic system symptom [Term] id: SYMP:0000692 name: low blood pressure -is_a: SYMP:0000567 ! general symptom +is_a: SYMP:0020063 ! blood pressure [Term] id: SYMP:0000693 @@ -6425,6 +6428,31 @@ id: SYMP:0020060 name: low white blood cell count is_a: SYMP:0019139 ! hemic system symptom +[Term] +id: SYMP:0020061 +name: outlet dysfunction constipation +def: "A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment." [url:https\://www.med.unc.edu/ibs/wp-content/uploads/sites/450/2017/10/Constipation.pdf] +xref: ICD10CM:K59.02 +xref: ICD9CM:564.02 +xref: UMLS_CUI:C0949134 +is_a: SYMP:0019180 ! constipation + +[Term] +id: SYMP:0020062 +name: soft tissue necrosis +def: "A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints." [url:https\://medlineplus.gov/ency/article/001443.htm, url:https\://www.health.ny.gov/statistics/cancer/registry/abouts/soft_tissue.htm] +is_a: SYMP:0000891 ! musculoskeletal system symptom + +[Term] +id: SYMP:0020063 +name: blood pressure +is_a: SYMP:0000567 ! general symptom + +[Term] +id: SYMP:0020064 +name: high blood pressure +is_a: SYMP:0020063 ! blood pressure + [Typedef] id: part_of name: part_of diff --git a/src/ontology/symp.owl b/src/ontology/symp.owl index d0da754..e4e291d 100755 --- a/src/ontology/symp.owl +++ b/src/ontology/symp.owl @@ -11,12 +11,12 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases. Symptom Ontology - 20:10:2022 10:38 + 30:11:2022 09:11 symptoms 1.2 lschriml @@ -4038,10 +4038,11 @@ - symptoms SYMP:0000286 - floppy head + reviewed 10/2022 & determined to be a disease + obsolete floppy head + true @@ -4697,6 +4698,7 @@ + symptoms SYMP:0000334 muscle necrosis @@ -8939,9 +8941,10 @@ ICD9CM_2005:788.63 UMLS_CUI:C0085606 UMLS_ICD9CM_2005_AUI:A2797703 + urgency of urination symptoms SYMP:0000590 - urgency of urination + urinary urgency @@ -10483,7 +10486,7 @@ - + symptoms SYMP:0000692 low blood pressure @@ -15272,6 +15275,68 @@ SYMP:0020060 low white blood cell count + + + + + + + + A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment. + ICD10CM:K59.02 + ICD9CM:564.02 + UMLS_CUI:C0949134 + symptoms + SYMP:0020061 + outlet dysfunction constipation + + + + + A constipation that is characterized by difficulty passing bowel movements after they reach the rectum. One experiences difficulty evacuating the stool and often has to strain or press the fingers into the vagina or in front of or into the rectum to help remove the stool. Outlet dysfunction can be caused by inappropriate or abnormal muscle contraction of the pelvic floor (called pelvic floor dyssynergia or dyssynergic defecation) which can respond to biofeedback. It may also be due to a rectocele or other structural changes in the pelvic floor that will require medical or at times, surgical treatment. + url:https://www.med.unc.edu/ibs/wp-content/uploads/sites/450/2017/10/Constipation.pdf + + + + + + + + + A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints. + symptoms + SYMP:0020062 + soft tissue necrosis + + + + + A musculoskeletal system symptom that is characterized by necrosis (i.e. tissue death) of soft tissue, including muscle, fat, blood vessels, nerves, tendons, and tissues that surround the bones and joints. + url:https://medlineplus.gov/ency/article/001443.htm + url:https://www.health.ny.gov/statistics/cancer/registry/abouts/soft_tissue.htm + + + + + + + + + symptoms + SYMP:0020063 + blood pressure + + + + + + + + + symptoms + SYMP:0020064 + high blood pressure +