Hi, I am seeing the same behavior. But I am not sure if it is really a dictionary issue.
Look here: http://browser.ihtsdotools.org/?perspective=full&conceptId1=404684003&edition=en-edition&release=v20180131&server=http://browser.ihtsdotools.org/api/v1/snomed&langRefset=900000000000509007 When I search for “influenza vaccine” it finds 168 matches including the correct the concepts: “substance”, “product”, “situation” and “disorder” in the top 10. Interestingly, a search for “flu vaccine” finds 3 matches only: “situation”, “product” and “substance” I wonder what the exact “chunk” is, that is used for the look-up. Any guidance on where to look in the CAS (or the display thereof in the CVD) for the query string? Cheers, Gundolf. From: Ory Henn <[email protected]> Reply-To: "[email protected]" <[email protected]> Date: Monday, October 15, 2018 at 10:20 To: "[email protected]" <[email protected]> Subject: Re: UMLS dictionary lookup issues Kevin, This looks indeed like a dictionary issue. You can take a look at the thread started by me a couple of months ago [Titled "How do I add a dictionary (like NCI) to cTakes lookup?"] which has more links and resources as well as workarounds for some issues you may encounter. Good luck Ory On Mon, Oct 15, 2018 at 7:57 PM nishant kumar <[email protected]<mailto:[email protected]>> wrote: Hi Kevin, It seems you are facing an issue related to the dictionary your cTAKES is mapped to. The cTAKES installation by default is mapped to the RxNORM and SNOMED CT dictionaries. If you wish to capture concepts which are more specific to another ontology then you need to build the corresponding dictionary and point it to your cTAKES installation. This can be done by using the dictionary creator tool. Here is some info on how to build a dictionary: https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI Hope it helps. thanks Nishant On Fri, Oct 12, 2018 at 10:54 PM Cox, Kevin (US - Raleigh) <[email protected]<mailto:[email protected]>> wrote: Hi: I’ve installed CTAKES 4.0.0 along with the additional resources package. Further, my UMLS account has been setup to be used with the CTAKES installation. However, when I use CVD to run the AggregatePlaintextFastUMLSProcessor engine, it’s not able to identify the most specific UMLS concept mapping. For example, when I search for “influenza vaccine”…only the term “vaccine” is mapped to the UMLS medication concept with ID C0042210 (Vaccines). However, doing a similar search for “flu vaccine”…it’s able to find the more specific UMLS medication concept with ID C0021403 (Influenza virus vaccine). Looking at the UMLS Metathesaurus, I see all the necessary synonyms that should make this concept lookup possible. So, I’m wondering why CTAKES is not able to map to the more specific UMLS concepts. I’ve looked at the CTAKES online demos, and they have the same issue…so, I don’t think this is an issue with my local setup. Wondering if others have found a solution to this… I appreciate any guidance you can provide. Thanks, Kevin Cox Product Architect | Deloitte Platforms Deloitte Consulting Raleigh, NC Tel/Direct: (919) 546-8079 | Fax: (855) 534-6906 | Mobile: (919) 604-5404 [email protected]<mailto:[email protected]> | www.deloitte.com<http://www.deloitte.com> This message (including any attachments) contains confidential information intended for a specific individual and purpose, and is protected by law. If you are not the intended recipient, you should delete this message and any disclosure, copying, or distribution of this message, or the taking of any action based on it, by you is strictly prohibited. v.E.1 -- I'm going to have to sleep my way to the top! Wake me when I'm there. H. Simpson [https://res.cloudinary.com/dyswk0o6o/image/upload/v1525083591/logo4email_smaller_f5pqgv.png] <https://trialmatch.me>www.trialjectory.com<https://trialjectory.com>
