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use abbreviations for evidence codes #11
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so we can either replace the existing label with a synonym, or add a new field like label_short (not sure that the current golr schema supports that though). One concern is that there are many synonyms, how can we select the "right" one? From SciGraph: *http://www.geneontology.org/formats/oboInOwl#id =[ECO:0000501] *http://www.w3.org/2000/01/rdf-schema#label =[evidence used in automatic assertion] *iri =[http://purl.obolibrary.org/obo/ECO_0000501] *label =[evidence used in automatic assertion] *synonym =[inferred from electronic annotation],[IEA] |
In the yaml for the loader it's possible to map arbitrary APs into (I think) arbitrary Neo4j tags (currently: synonym, definition) We would add a new tag for 'code' (or perhaps abbreviation) The tricky part is that you have to inspect the axiom annotation to determine (note: axiom annotations get lost in Neo4j) If this turns out to be too hard we can make a new annotation property in ECO |
shouldn't the synonym have some kind of property to mark it as an abbreviation already? it does not seem to be present in the graph: http://geoffrey.crbs.ucsd.edu:9000/scigraph/graph/ECO:0000501.graphson?project=%2A |
You can see it here, but you don't see the axiom annotations in scigraph: http://geoffrey.crbs.ucsd.edu:9000/scigraph/graph/ECO:0000501.json It will probably be easiest to do this upstream |
we've had a request to display the abbreviation label for "evidence" instead of the full label. (see monarch-initiative/dipper#177)
does this information come in the current golr, or do we need a special way of adding this at golr-generation time? if it is already in the golr, then we need to move this ticket to the monarch-app layer.
This seems like it ought to be a configurable thing, where the label that is placed in golr may be the "label" by default, but could be a special synonym type.
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