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RTXteam / RTX-KG2

Build system for the RTX-KG2 biomedical knowledge graph, part of the ARAX reasoning system (https://github.com/RTXTeam/RTX)
MIT License
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incorrect subclass-of edge in KG2.9.0pre #377

Open saramsey opened 1 month ago

saramsey commented 1 month ago

This issue was brought to our attention by Kaiwen He of Team Unsecret Agent.

"UMLS:C2267095" ("M [Preparations]") -"biolink:subclass_of"-> "UMLS:C0025598"
 ("metformin")
"UMLS:C0025424" ("Mercury") -"biolink:subclass_of"->  "UMLS:C2267095" ("M [Preparations]")

This looks to be coming from UMLS MEDRT:

{"domain_range_exclusion": false, "id": "UMLS:C2267095---UMLS:has_parent---None---None---None---UMLS:C0025598---umls_source:MED-RT", "negated": false, "object": "UMLS:C0025598", "predicate": "biolink:subclass_of", "predicate_label": "has_parent", "primary_knowledge_source": "infores:medrt-umls", "publications": [], "publications_info": {}, "qualified_object_aspect": null, "qualified_object_direction": null, "qualified_predicate": null, "relation_label": "has_parent", "source_predicate": "UMLS:has_parent", "subject": "UMLS:C2267095", "update_date": "2023"}

{"domain_range_exclusion": false, "id": "UMLS:C2267095---UMLS:parent_of---None---None---None---UMLS:C0025424---umls_source:MED-RT", "negated": false, "object": "UMLS:C2267095", "predicate": "biolink:subclass_of", "predicate_label": "parent_of", "primary_knowledge_source": "infores:medrt-umls", "publications": [], "publications_info": {}, "qualified_object_aspect": null, "qualified_object_direction": null, "qualified_predicate": null, "relation_label": "INVERTED:parent_of", "source_predicate": "UMLS:parent_of", "subject": "UMLS:C0025424", "update_date": "2023"}