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openphacts / GLOBAL

Global project issues [private for now. owner lee harland]
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Add "evidence score" to disease gene associations #277

Open antonisloizou opened 9 years ago

antonisloizou commented 9 years ago

http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25338 is the predicate

 <!-- http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#Score -->

    <owl:Class rdf:about="#C25338">
        <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Score</rdfs:label>
        <rdfs:subClassOf rdf:resource="#C20189"/>
nicklynch commented 9 years ago

See #289

NuriaQueralt commented 8 years ago

@antonisloizou @nicklynch the score is still not added in any call (neither targetsForDisease, diseases4Targets, associations4Disease, nor associations4Target). That said, imho i think this is better an addition for the next release of Open PHACTS because the RDF description of the score in DisGeNET has been modified in the new release, so i am not sure if it is worth it the effort for this OPS version.

On the other hand, there is an evidence score for each gene-disease pair, so its implementation can be in any of the two type of calls: 1) targetsForDisease::list, diseases4Targets::list, and 2) associations4Disease::list, associations4Target::list. Therefore, for the type of calls 2) all the associations related to the same gene-disease pair will have the same score.