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From "Chen, Pei" <Pei.C...@childrens.harvard.edu>
Subject RE: Information Extraction using ontology
Date Thu, 27 Dec 2012 15:31:28 GMT
Hi Deepal,
Within the dictionary lookup component, you can also plugin other custom dictionaries in additional
to the UMLS ones.
The dictionary itself can be in different formats (MySQL, HSQLDB, Lucene, CSV text file) and
could be configured via the xml files.
Is this what you were referring to?  Do you have an example of "mapping terms to the corresponding
Just curious, Is the heart ontology a subset of UMLS?


> -----Original Message-----
> From: Deepal Dhariwal [mailto:deepaldhariwal@gmail.com]
> Sent: Thursday, December 27, 2012 12:17 AM
> To: ctakes-user@incubator.apache.org; ctakes-dev@incubator.apache.org
> Subject: Information Extraction using ontology
> Hello all,
> I have a heart ontology and I want to extract terms from a clinical text that
> correspond to classes in the ontology. cTAKES UMLS Lookup Annotator
> returns UMLS terms from a given piece of text. Could I modify the annotator
> to extract terms from the ontology and is there is some other component of
> cTAKES that would allow me to do so. I am trying to set up a cTakes pipeline
> where I first extract medical terms from text using UMLS lookup then filter
> cardio vascular terms and identify relations between them using an ontology.
> Thanks
> Deepal Dhariwal

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