Merge pull request #29008 from geneontology/issue-28468

Obsoleted MFs; #28993

src/ontology/go-edit.obo

@@ -67400,7 +67400,7 @@ comment: This term was obsoleted because it refers to targets of effector protei
 synonym: "cleavage of lamin" BROAD []
 synonym: "cleavage of lamin involved in execution phase of apoptosis" EXACT []
 is_obsolete: true
-consider: GO:0097200
+consider: GO:0004197
 
 [Term]
 id: GO:0006923
@@ -67412,7 +67412,7 @@ synonym: "apoptotic cleavage of cytoskeletal proteins" EXACT []
 synonym: "cleavage of cytoskeletal proteins involved in apoptosis" BROAD []
 synonym: "cleavage of cytoskeletal proteins involved in execution phase of apoptosis" EXACT []
 is_obsolete: true
-consider: GO:0097200
+consider: GO:0004197
 
 [Term]
 id: GO:0006924
@@ -167260,7 +167260,7 @@ synonym: "apoptotic cleavage of cytosolic proteins" EXACT []
 synonym: "cleavage of cytosolic proteins involved in apoptosis" BROAD []
 synonym: "cleavage of cytosolic proteins involved in execution phase of apoptosis" EXACT []
 is_obsolete: true
-consider: GO:0097200
+consider: GO:0004197
 
 [Term]
 id: GO:0030973
@@ -412941,13 +412941,15 @@ creation_date: 2011-09-06T02:31:59Z
 
 [Term]
 id: GO:0097153
-name: cysteine-type endopeptidase activity involved in apoptotic process
+name: obsolete cysteine-type endopeptidase activity involved in apoptotic process
 namespace: molecular_function
-def: "Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the apoptotic process." [GOC:mtg_apoptosis]
+def: "OBSOLETE. Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the apoptotic process." [GOC:mtg_apoptosis]
+comment: The reason for obsoletion is that this term represents a GO-CAM model.
 synonym: "caspase activity" BROAD []
 synonym: "metacaspase activity" NARROW [GOC:mtg_apoptosis]
-intersection_of: GO:0004197 ! cysteine-type endopeptidase activity
-intersection_of: part_of GO:0006915 ! apoptotic process
+property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28468" xsd:anyURI
+is_obsolete: true
+replaced_by: GO:0004197
 created_by: pr
 creation_date: 2011-09-09T10:21:56Z
 
@@ -413497,29 +413499,31 @@ creation_date: 2011-12-05T01:19:45Z
 
 [Term]
 id: GO:0097199
-name: cysteine-type endopeptidase activity involved in apoptotic signaling pathway
+name: obsolete cysteine-type endopeptidase activity involved in apoptotic signaling pathway
 namespace: molecular_function
-def: "Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the apoptotic signaling pathway." [GOC:mtg_apoptosis, PMID:11717445, Wikipedia:Caspase]
-comment: Examples of gene products that may be annotated to this term include CASP2, CASP8, CASP9, and CASP10, also called initiator (or apical, or activator) caspases.
+def: "OBSOLETE. Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the apoptotic signaling pathway." [GOC:mtg_apoptosis, PMID:11717445, Wikipedia:Caspase]
+comment: Examples of gene products that may be annotated to this term include CASP2, CASP8, CASP9, and CASP10, also called initiator (or apical, or activator) caspases.\nThe reason for obsoletion is that this term represents a GO-CAM model.
 synonym: "activator caspase activity" NARROW []
 synonym: "apical caspase activity" NARROW []
 synonym: "cysteine-type endopeptidase activity involved in apoptotic signalling pathway" EXACT [GOC:mah]
 synonym: "initiator caspase activity" NARROW []
-intersection_of: GO:0004197 ! cysteine-type endopeptidase activity
-intersection_of: part_of GO:0097190 ! apoptotic signaling pathway
+property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28468" xsd:anyURI
+is_obsolete: true
+replaced_by: GO:0004197
 created_by: pr
 creation_date: 2011-12-12T01:43:00Z
 
 [Term]
 id: GO:0097200
-name: cysteine-type endopeptidase activity involved in execution phase of apoptosis
+name: obsolete cysteine-type endopeptidase activity involved in execution phase of apoptosis
 namespace: molecular_function
-def: "Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the execution phase of apoptosis." [GOC:mtg_apoptosis, Wikipedia:Caspase]
-comment: Examples of gene products that may be annotated to this term include CASP3, CASP6 and CASP7, also called effector (or executioner) caspases.
+def: "OBSOLETE. Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the execution phase of apoptosis." [GOC:mtg_apoptosis, Wikipedia:Caspase]
+comment: Examples of gene products that may be annotated to this term include CASP3, CASP6 and CASP7, also called effector (or executioner) caspases.\nThe reason for obsoletion is that this term represents a GO-CAM model.
 synonym: "effector caspase activity" NARROW []
 synonym: "executioner caspase activity" NARROW []
-intersection_of: GO:0004197 ! cysteine-type endopeptidase activity
-intersection_of: part_of GO:0097194 ! execution phase of apoptosis
+property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28468" xsd:anyURI
+is_obsolete: true
+replaced_by: GO:0004197
 created_by: pr
 creation_date: 2011-12-12T01:46:06Z