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geneontology / go-ontology

Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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Does 'regulation of MF' always result in 'regulation of BP'? #21181

Closed vanaukenk closed 1 year ago

vanaukenk commented 3 years ago

This question came up on the GO-CAM office hours call today

There are asserted relationships in the ontology between some 'regulation of MF' terms and a corresponding 'regulation of BP'.

If, in GO-CAMs and our standard annotations, we model MFs like 'DNA-binding transcription factor activity' as regulating the MF of the gene product resulting from transcription of a target gene, then in some cases we also get an annotation to a corresponding 'regulation of BP' when there is an is_a relation between the two regulation terms asserted in the ontology.

So, for example, DNA-binding transcription factor activity might positively regulate a transporter activity and, via the assertion in the ontology, that would be a 'positive regulation of transport'.

Does this hold for all regulation of MF terms and do we want these BP assertions for things like transcription factors and miRNAs that regulate gene expression?

@RLovering @thomaspd @ukemi @pgaudet

ValWood commented 1 year ago

This seems out of date becasue "regulation of MF" terms will be obsolete. Please reopen if not...

pgaudet commented 1 year ago

Sounds right