search

monarch-initiative / monarch-legacy

Monarch web application and API
BSD 3-Clause "New" or "Revised" License
42 stars 37 forks source link

mixture of gene symbol and gene name is confusing #1179

Open nlwashington opened 8 years ago

nlwashington commented 8 years ago

the monarch front-end is displaying a mixture of gene full-length names and symbols. these should be standardized. i'd recommend on symbol. @jnguyenx can you figure out what source is contributing the long label? and then when propagating the labels for the cliqueLeader, either take as the label the synonym that is an abbreviation, or fix the data at dipper time to ensure that the symbol is the name.

somewhat related to https://github.com/monarch-initiative/dipper/issues/59

jnguyenx commented 8 years ago

Can you please provide an example?

As far as I know, in SciGraph we have only one label which is the http://www.w3.org/2000/01/rdf-schema#label rdf property.

cmungall commented 8 years ago

yep, the issue is that some dipper sources may be putting the wrong thing into the rdfs:label.

An example: http://monarchinitiative.org/gene/NCBIGene:4137

One of the following has the erroneously long label: ENSEMBL:ENSG00000186868, OMIM:157140, HGNC:6893, Orphanet:123144, KEGG-hsa:4137

nlwashington commented 8 years ago

I fear it may be OMIM...start there. On Mar 2, 2016 5:10 PM, "Chris Mungall" notifications@github.com wrote:

yep, the issue is that some dipper sources may be putting the wrong thing into the rdfs:label.

An example: http://monarchinitiative.org/gene/NCBIGene:4137

One of the following has the erroneously long label: ENSEMBL:ENSG00000186868, OMIM:157140, HGNC:6893, Orphanet:123144, KEGG-hsa:4137

— Reply to this email directly or view it on GitHub https://github.com/monarch-initiative/monarch-app/issues/1179#issuecomment-191523297 .

kshefchek commented 8 years ago

@cmungall was this an attempt to fix? I'm unable to run OMIM until we work out licensing.