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Published 20 hours ago • verified publisher icon obophenotype

Suggestions for new x-ref with SNOMED-CT and MedDRA

Open nbosc opened this issue 2 years ago • 4 comments

ID x-refs
HP:0030157 MedDRA:10016750
HP:0002910 MedDRA:10024690
HP:0001657 MedDRA:10014387
HP:0003401 MedDRA:10033775
HP:0000708 MedDRA:10061472
HP:0002910 MedDRA:10060795
HP:0002605 MedDRA:10019692
HP:0007185 MedDRA:10024855
HP:0001787 MedDRA:10061781
HP:0001787 SCTID:199745000
HP:0002590 MedDRA:10021333
HP:0032310 MedDRA:10018690
HP:0001942 MedDRA:10027417
HP:0007957 MedDRA:10011035
HP:0032156 MedDRA:10041036
HP:0001913 MedDRA:10018687
HP:0025428 MedDRA:10006482
HP:0006677 MedDRA:10014380
HP:0200119 MedDRA:10019727
HP:0000112 MedDRA:10029151
HP:0000726 MedDRA:10078497
HP:0001824 MedDRA:10047895

Thanks

edit from 9th May 2022:

ID x-refs
HP:0001787 MedDRA:10061781
HP:0004787 MedDRA:10019772

nbosc avatar Mar 15 '22 15:03 nbosc

Does this task include looking at all MedDRA and HPO? eg: the above would miss this: MEDDRA:10013573 for Dizziness is currently not featured in the OWL file. In theory it would be added to HPO term Vertigo https://hpo.jax.org/app/browse/term/HP:0002321 (Synonyms: Dizzy spell, Dizziness). Currently MEDDRA identifiers only appear 93 times in the ontology as dbxrefs for HPO terms, http://purl.obolibrary.org/obo/hp.owl Are there plans to extend the update and integrate more MedDRA IDs to HPO as a cross-ref?

lcdaugherty avatar Apr 21 '22 10:04 lcdaugherty

This is just a modest contribution of xrefs. In no way I tried to map all the MedDRA terms but only those that I was using in a current safety project.

nbosc avatar Apr 22 '22 08:04 nbosc

@nbosc ok thank you - it was wishful thinking on my behalf :)

lcdaugherty avatar Apr 25 '22 14:04 lcdaugherty

Found a couple of additional x-ref. I edited the first message but can create a new issue if you prefer.

nbosc avatar May 09 '22 13:05 nbosc

@nbosc -- sorry for being so long in replying. Currently, the UMLS team is doing mappings of HPO and so if something is missing it would make most sense to report the mappings to them -- @kanems We are delighted that UMLS is doing the mappings and are not doing additional mappings to MEDDRA ourselves.

pnrobinson avatar Sep 05 '22 14:09 pnrobinson

@nbosc: the appropriate way to contact UMLS regarding HPO:CUI mappings is to open a ticket with the NLM Help Desk via this page: https://support.nlm.nih.gov/support/create-case/ (I work with the MedGen dataset, which contains only a subset of UMLS metathesaurus and I have no control over CUI x-refs or 'atoms' in the UMLS vernacular.)

kanems avatar Sep 06 '22 12:09 kanems