From 73b0d37d2872ad27782658a55131d39e73520c3e Mon Sep 17 00:00:00 2001 From: Trish Whetzel Date: Fri, 24 Jan 2025 10:52:21 -0600 Subject: [PATCH] remove gene associations from obsolete classes --- src/ontology/mondo-edit.obo | 14 -------------- 1 file changed, 14 deletions(-) diff --git a/src/ontology/mondo-edit.obo b/src/ontology/mondo-edit.obo index c4d9b9070..d29323605 100644 --- a/src/ontology/mondo-edit.obo +++ b/src/ontology/mondo-edit.obo @@ -179615,7 +179615,6 @@ xref: GARD:7802 {source="MONDO:obsoleteEquivalent", source="MONDO:GARD"} xref: MESH:C566033 {source="MONDO:obsoleteEquivalent"} xref: OMIM:190351 {source="MONDO:obsoleteEquivalent"} xref: Orphanet:77258 {source="OMIM:190351"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/12340 {source="OMIM:190351"} ! TRPS1 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludeHistoricalDisease"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4948" xsd:anyURI property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/6749" xsd:anyURI @@ -202601,7 +202600,6 @@ xref: Orphanet:247651 {source="MONDO:obsoleteEquivalent", source="DOID:0110914", xref: Orphanet:436 {source="OMIM:241500"} xref: SCTID:55236002 {source="MONDO:obsoleteEquivalent"} relationship: curated_content_resource https://search.clinicalgenome.org/kb/conditions/MONDO:0009427 {source="MONDO:CLINGEN"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/438 {source="OMIM:241500"} ! ALPL property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/2906" xsd:anyURI property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4948" xsd:anyURI @@ -202631,7 +202629,6 @@ xref: Orphanet:247667 {source="MONDO:obsoleteEquivalent", source="DOID:0110915", xref: Orphanet:436 {source="OMIM:241510"} xref: SCTID:30174008 {source="MONDO:obsoleteEquivalent"} relationship: curated_content_resource https://search.clinicalgenome.org/kb/conditions/MONDO:0009428 {source="MONDO:CLINGEN"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/438 {source="OMIM:241510"} ! ALPL property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/2906" xsd:anyURI property_value: seeAlso "https://rarediseases.info.nih.gov/diseases/8735/childhood-hypophosphatasia" xsd:anyURI {source="GARD:0008735"} @@ -228783,7 +228780,6 @@ xref: DOID:0112124 {source="MONDO:obsoleteEquivalent"} xref: MESH:C567595 {source="MONDO:obsoleteEquivalent"} xref: OMIM:300455 {source="Orphanet:247522", source="MONDO:obsoleteEquivalent", source="Orphanet:247522/e"} xref: Orphanet:247522 {source="MONDO:obsoleteEquivalent", source="OMIM:300455"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/10295 {source="OMIM:300455"} ! RPGR property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/3898" xsd:anyURI is_obsolete: true @@ -255120,7 +255116,6 @@ synonym: "GLC1F" RELATED ABBREVIATION [MONDO:Lexical] xref: MESH:C566383 {source="MONDO:obsoleteEquivalent"} xref: OMIM:603383 {source="MONDO:obsoleteEquivalent"} relationship: curated_content_resource https://search.clinicalgenome.org/kb/conditions/MONDO:0011311 {source="MONDO:CLINGEN"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/17185 {source="OMIM:603383"} ! ASB10 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludeGeneticCarrier"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4936" xsd:anyURI is_obsolete: true @@ -278078,7 +278073,6 @@ xref: DOID:0111504 {source="MONDO:obsoleteEquivalent"} xref: MESH:C563755 {source="MONDO:obsoleteEquivalent"} xref: OMIM:609265 {source="MONDO:obsoleteEquivalent"} xref: Orphanet:524 {source="OMIM:609265"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/16627 {source="OMIM:609265"} ! CHEK2 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludeHistoricalDisease"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/6260" xsd:anyURI property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/6269" xsd:anyURI @@ -280960,7 +280954,6 @@ synonym: "WDR36 open-angle glaucoma" EXACT [MONDO:design_pattern, MONDO:patterns xref: MESH:C563692 {source="MONDO:obsoleteEquivalent"} xref: OMIM:609887 {source="MONDO:obsoleteEquivalent"} relationship: curated_content_resource https://search.clinicalgenome.org/kb/conditions/MONDO:0012357 {source="MONDO:CLINGEN"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/30696 {source="OMIM:609887"} ! WDR36 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludeGeneticCarrier"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4936" xsd:anyURI is_obsolete: true @@ -288168,7 +288161,6 @@ synonym: "glaucoma 1, open angle, H" EXACT [MONDO:Lexical] synonym: "GLC1H" EXACT ABBREVIATION [MONDO:Lexical] xref: MESH:C566976 {source="MONDO:obsoleteEquivalent"} xref: OMIM:611276 {source="MONDO:obsoleteEquivalent"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/3218 {source="OMIM:611276"} ! EFEMP1 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludeGeneticCarrier"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4936" xsd:anyURI is_obsolete: true @@ -333087,7 +333079,6 @@ synonym: "ALPHA-fetoprotein deficiency" RELATED [MONDO:Lexical] xref: MESH:C566300 {source="MONDO:obsoleteEquivalent"} xref: OMIM:615969 {source="MONDO:obsoleteEquivalent", source="Orphanet:168612", source="Orphanet:168612/e"} xref: Orphanet:168612 {source="MONDO:obsoleteEquivalent", source="OMIM:615969"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/317 {source="OMIM:615969"} ! AFP property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/181" xsd:anyURI is_obsolete: true @@ -340400,7 +340391,6 @@ synonym: "HMLR2" RELATED ABBREVIATION [MONDO:Lexical] synonym: "peroxisome biogenesis disorder 4C" RELATED [] xref: DOID:0080624 {source="MONDO:obsoleteEquivalent"} xref: OMIM:616617 {source="MONDO:obsoleteEquivalent"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/8859 {source="OMIM:616617"} ! PEX6 property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/3222" xsd:anyURI is_obsolete: true @@ -342265,7 +342255,6 @@ synonym: "Prembl" RELATED [] synonym: "PREMBL1" EXACT ABBREVIATION [] synonym: "TLE6 preimplantation embryonic lethality" EXACT [MONDO:design_pattern, MONDO:patterns/disease_series_by_gene] xref: OMIM:616814 {source="MONDO:obsoleteEquivalent"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/30788 {source="OMIM:616814"} ! TLE6 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludePhenotype"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/4521" xsd:anyURI property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/5091" xsd:anyURI @@ -346781,7 +346770,6 @@ synonym: "preimplantation embryonic lethality caused by mutation in PADI6" EXACT synonym: "preimplantation embryonic lethality type 2" EXACT [MONDORULE:1] synonym: "PREMBL2" EXACT ABBREVIATION [] xref: OMIM:617234 {source="MONDO:obsoleteEquivalent"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/20449 {source="OMIM:617234"} ! PADI6 property_value: IAO:0000231 OMO:0001000 {source="MONDO:excludePhenotype"} property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/5091" xsd:anyURI is_obsolete: true @@ -492498,7 +492486,6 @@ synonym: "peroxisome biogenesis disorder 1C" RELATED [] xref: DOID:0080623 {source="MONDO:obsoleteEquivalent"} xref: OMIM:234580 {source="MONDO:obsoleteEquivalent"} xref: Orphanet:3220 {source="OMIM:234580"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/8850 {source="OMIM:234580"} ! PEX1 property_value: IAO:0000231 OMO:0001000 property_value: IAO:0000233 "https://github.com/monarch-initiative/mondo/issues/3222" xsd:anyURI is_obsolete: true @@ -525749,7 +525736,6 @@ synonym: "blood group--Lutheran INHIBITOR" RELATED [] synonym: "dominant 50U (A-B-) phenotype" RELATED [] synonym: "INLU" RELATED ABBREVIATION [] xref: OMIM:111150 {source="MONDO:obsoleteEquivalent"} -relationship: has_material_basis_in_germline_mutation_in http://identifiers.org/hgnc/6345 {source="OMIM:111150"} ! KLF1 is_obsolete: true [Term]