Difference between "Influenza" and "Influenza infection"

EBISPOT / efo

Github repo for the Experimental Factor Ontology (EFO)

https://www.ebi.ac.uk/efo/

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Difference between "Influenza" and "Influenza infection" #600

Closed AsierGonzalez closed 4 years ago

AsierGonzalez commented 5 years ago

Both influenza and influenza infection are two separate terms in EFO with two independent lineages (disease vs biological process) but there are NO clear differences between them. Apparently influenza infection has_phenotype influenza but this is not shown in the hierarchy. In addition, the descriptions of both terms are identical and influenza infection is a synonym of influenza.

All in all, these terms seem to be duplicates of each other and they are causing some issues for Open Targets as they have different targets associated to them. Are they really two separate things or should they be merged?

paolaroncaglia commented 5 years ago

@AsierGonzalez Thanks for catching and reporting this. The two terms are indeed duplicates. 'influenza infection' was most likely added first. 'influenza' is more correctly placed, has more cross-references (including all the ones in 'influenza infection' except for SNOMEDCT:6142004), and is aligned with Mondo. I suggest to merge the 2 in favour of 'influenza' (and remove the has_phenotype axiom of course).

paolaroncaglia commented 4 years ago

Addendum to the strategy above for fixing the duplication of 'influenza' terms in EFO: The SNOMEDCT xref is already in EFO:0007328 via Mondo, so no action item there;

[x] When EFO_0001669 is merged into EFO_0007328, notify Mondo, as MONDO:0005812 'influenza' xrefs both http://purl.obolibrary.org/obo/EFO_0007328 and http://purl.obolibrary.org/obo/EFO_0001669.

paolaroncaglia commented 4 years ago

@AsierGonzalez The duplication of 'influenza' terms is now resolved. Edits will be visible in the EFO release scheduled for Feb 17th. Thanks.

AsierGonzalez commented 4 years ago

Fantastic, thank you @paolaroncaglia