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[bioontology-support] Getting CUI and TUI in annotations

Clement Jonquet jonquet.lirmm at gmail.com
Wed Mar 6 12:32:25 PST 2019


Hello Leyla

See 
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5972606/
To use  the NCBO Annotator +
This is currently another server but Stanford is working on offering this directly on their box. 

We have a format that return tabbed results with CUIs. 
See also 
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2429-2

Clement Jonquet
Asst. Prof., Univ.  of Montpellier, LIRMM


> Le 6 mars 2019 à 21:25, Leyla Jael García Castro <leylajael at gmail.com> a écrit :
> 
> Dear all, 
> 
> Is there any how to get CUI and TUI from the annotation service?
> 
> I am using your example http://data.bioontology.org/annotator?text=Melanoma+is+a+malignant+tumor+of+melanocytes+which+are+found+predominantly+in+skin+but+also+in+the+bowel+and+the+eye.
> 
> Melanoma is annotated with OMIM which includes CUI  C0025202  and TUI T191. Is it possible to get that information form the annotation service? I tried  expand_mappings =true but did not work.
> 
> Kind regards,
> lj 
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