gorule-0000007.md

layout	id	title	type	contact	status	fail_mode	implementations
rule	GORULE:0000007	IPI should not be used with GO:0003824 catalytic activity or descendents	report	[email protected]	approved	soft	language code sparql PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> PREFIX owl: <http://www.w3.org/2002/07/owl#> PREFIX RO: <http://purl.obolibrary.org/obo/RO_> PREFIX hasEvidence: <http://purl.obolibrary.org/obo/RO_0002612> PREFIX ECO: <http://purl.obolibrary.org/obo/ECO_> PREFIX GO: <http://purl.obolibrary.org/obo/GO_> PREFIX catalytic_activity: <http://purl.obolibrary.org/obo/GO_0003824> PREFIX IPI: <http://purl.obolibrary.org/obo/ECO_0000353> PREFIX metago: <http://model.geneontology.org/> SELECT ?subj ?relation ?object ?s ?evidence WHERE { GRAPH ?g { ?g metago:graphType metago:gafCam . ?s hasEvidence: ?evidence . ?evidence a IPI: . ?s owl:annotatedSource ?subj . ?s owl:annotatedProperty ?relation . ?s owl:annotatedTarget ?object . ?subj ?relation ?object . ?subj a ?iclass . ?object a catalytic_activity: . FILTER (?iclass != owl:NamedIndividual) # There should be no results where instances of # 'catalytic_activity molecular function' ; GO:0003824 also have evidences of IPI } } LIMIT 100

The IPI (Inferred from Physical Interaction) evidence code is used where an annotation can be supported from interaction evidence between the gene product of interest and another molecule (see the evidence code documentation). While the IPI evidence code is frequently used to support annotations to terms that are children of binding ; GO:0005488, it is thought unlikely by the Binding working group that enough information can be obtained from a binding interaction to support an annotation to a term that is a chid of catalytic activity ; GO:0003824. Such IPI annotations to child terms of catalytic activity ; GO:0003824 may need to be revisited and corrected.

For more information, see the catalytic activity annotation guide on the GO wiki.

Error report (number of errors) in [db_species]-summary.txt & owltools-check.txt (details).