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From Kim Ebert <kim.eb...@perfectsearchcorp.com>
Subject Re: Regarding inconsistency in UMLS Dictionary Lookup Annotator
Date Mon, 15 Apr 2013 20:41:14 GMT
To see if batch processing is the culprit, please check by running an
individual record through a process after restarting that process. If
the records are identified, then it would be a problem of batch processing.

Thanks,

Kim Ebert
1.801.669.7342
Perfect Search Corp
http://www.perfectsearchcorp.com/

On 04/15/2013 02:27 PM, Deepal Dhariwal wrote:
> Also I found that in few records canonical forms of words were not
> annotated. For instance diabetes mellitus is recognized as a clinical
> concept , however diabetic is not recognized. Similarly
> catheterrization is annotated as medical concept however catheterized
> is not considered valid.
>
> Attached herewith are screenshots for the same. Kindly let me know is
> this also related to batch processing or is this a limitation of
> cTAKES Aggregate UMLS Document Processor.
>
> Thanks
> Deepal Dhariwal
>
> On Mon, Apr 15, 2013 at 3:53 PM, Deepal Dhariwal
> <deepaldhariwal@gmail.com <mailto:deepaldhariwal@gmail.com>> wrote:
>
>     Hello Kim,
>
>     Yeah when I processed record individually blood pressure was
>     annotated as a medical concept. Can you kindly explain the reason
>     behind this difference in behavior.
>
>     Thanks so much.
>
>     Regards
>     Deepal Dhariwal
>
>
>
>
>     On Mon, Apr 15, 2013 at 3:39 PM, Kim Ebert
>     <kim.ebert@perfectsearchcorp.com
>     <mailto:kim.ebert@perfectsearchcorp.com>> wrote:
>
>         Hi Deepal,
>
>         Trying running the records individually and see if it
>         identifies the terms correctly; if so I may have an idea of
>         the problem.
>
>         Thanks,
>
>         Kim Ebert
>         1.801.669.7342 <tel:1.801.669.7342>
>         Perfect Search Corp
>         http://www.perfectsearchcorp.com/
>
>         On 04/15/2013 01:36 PM, Deepal Dhariwal wrote:
>>         Hello Kim,
>>
>>         The records were processed in a batch using UIMA Collection
>>         processing Engine.
>>         The parameters for UIMA CPE were as follows:
>>         Descriptor: UIMA File System Collection Reader
>>         Analysis Engine: cTAKES Aggregate UMLS Plaintext Processor
>>         CAS Consumer: XMI Writer CAS Consumer
>>
>>         Thanks
>>         Deepal Dhariwal
>>
>>
>>         On Mon, Apr 15, 2013 at 3:31 PM, Kim Ebert
>>         <kim.ebert@perfectsearchcorp.com
>>         <mailto:kim.ebert@perfectsearchcorp.com>> wrote:
>>
>>             Hi Deepal,
>>
>>             Was either record processed in a batch of records? Or
>>             where they
>>             processed as individual records?
>>
>>             Kim Ebert
>>             1.801.669.7342 <tel:1.801.669.7342>
>>             Perfect Search Corp
>>             http://www.perfectsearchcorp.com/
>>
>>             On 04/15/2013 12:49 PM, Deepal Dhariwal wrote:
>>             > Hello all,
>>             >
>>             > I have 2 medical records with the following content:
>>             >
>>             > Record 1 :
>>             > He went to the hospital Emergency Room where his blood
>>             pressure was
>>             > 120 / 80 , heart rate 94.
>>             >
>>             > Record 2:
>>             > Weight 197 lbs, up to 6 lbs, blood pressure 128/88,
>>             heart rate 70 .
>>             >
>>             > In the first record blood pressure is getting annotated
>>             as a Clinical
>>             > Entity Mention and a Medical Concept while in second
>>             record blood
>>             > pressure is not getting annotated as a clinical entity.
>>             >
>>             > Could someone shed some light on why the difference in
>>             behavior ? I
>>             > have attached the screenshots for reference.
>>             >
>>             > Regards
>>             > Deepal Dhariwal
>>
>>
>
>
>


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