David Osumi-Sutherland
David Osumi-Sutherland
Would be good to have some generic tooling for this. Maybe a standard ROBOT template + some SSSOM-py code to generate mapping files from this? I don't think the SSSOM...
> Instead of pulling from go.owl, all our ontologies that refer to go should instead use go-plus I strongly support this. It will massively improve integration and co-ordination. It is...
On the broader ticket - it makes sense for bridging axioms such as the one discussed in this ticket to live in an upper ontology. Not sure whether it makes...
Is it used in a domain or range? If so, would be good to replace with "'part of' some synapse", to preserve intended semantics.
Potential problems with reasoning across part_of relationships between properties?
> Potential solution: in CL if something 'has plasma membrane part' protein -> inject axiom 'expresses' protein (do this in an automated way) - @dosumis is this ok? Sounds good...
The primary relations in RO are process to process (process is used broadly here - covering GO MF). These are under [causal relation between processes](https://www.ebi.ac.uk/ols/ontologies/ro/properties?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FRO_0002501) This branch has relations for...
> for a pair (c,r) :if i is an instance of MI class c, then r(i.interactorA, i.interactorB)) Looks easy enough to add as SWRL rule.
> ?a1 enabled_by ?gp1 > ?gp1 a GO:'kinase activity’ > ?a1 directly-regulates ?a2 > ?a2 enabled-by ?gp2 > -> > ?gp1 phosphorylates ?gp2 > On 28 Sep 2018, at 01:34,...
Looking at this some more, I think the case needs to be made for why we need these as opposed to just using 'output of' and 'capable of' respectively. For...