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geneontology / go-annotation

This repository hosts the tracker for issues pertaining to GO annotations.
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ACY3 KW-0945 #1875

Open Antonialock opened 6 years ago

Antonialock commented 6 years ago

ACY3 is annotated to viral process by KW mapping KW-0945

ACY3 function: Plays an important role in deacetylating mercapturic acids in kidney proximal tubules. Also acts on N-acetyl-aromatic amino acids

I dont get how this KW mapping is derived?

vanaukenk commented 6 years ago

@Antonialock It looks like the association is coming in via this paper: https://europepmc.org/abstract/MED/19486448 @sylvainpoux - what do you think about this one?

sylvainpoux commented 6 years ago

Hi, annotation is correct here. ACY3 interacts with hepatitis C virus/HCV core protein (PubMed:19486448).

vanaukenk commented 6 years ago

Okay, thanks very much @sylvainpoux I'll go ahead and close this ticket, then.

ValWood commented 6 years ago

But we wouldn't make this as a GO annotation for the human gene would we?

sylvainpoux commented 6 years ago

Well, if you think that reporting an interaction between a host and a pathogen is useless, we might remove this association, but we have many cases like that$ I think it's useful

ValWood commented 6 years ago

It is useful information, for sure, but it isn't really within the scope of GO?

Unfortunately the waters got very muddy in the GO branch for describing processes pathogenesis and interspecies interactions.

We should keep this ticket open. Needs general discussion, at a future consortium meeting. Leave the annotation as it is for the time being.

(as an aside we are currently working with PHIBase to create an ontology for pathogen -host interactions phenotypes and their contribution to virulence and disease aren't normal GO processes)

vanaukenk commented 6 years ago

For reference, here is a link to a related discussion on the go-ontology tracker that is still open:

https://github.com/geneontology/go-ontology/issues/13214

Antonialock commented 4 years ago

@ValWood

ValWood commented 4 years ago

This is an example of the cases we have been discussing recently @pgaudet