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From John Green <john.travis.gr...@gmail.com>
Subject Re: Procedure
Date Thu, 17 Jul 2014 13:03:44 GMT
General so that I dont keep generating work for others :-)

Specifically: Temperature wasnt annotated, neither was Heart rate, for

different but related: it picked up "abdominal mass" (C0000734) but not
"pulsatile abdominal mass" (C0266835) when given "pulsatile abdominal
mass". I understand that this may be expected given the word order. If it
wasnt, then the concern, of course, is that by clinical intuition abdominal
mass isnt very specific and one wouldnt jump to thinking AAA. However,
pulsatile abdominal mass you would immediately think AAA. While this delta
is fairly well reflected in ytex's semantic similarity measure
(particularly LCH) with the distance being 0.84 and 0.64 for abdominal mass
to pulsatile abdominal mass and Abdominal Aortic Aneurysm (C0162871)

Pulsatile abdominal mass was in the lookup window.


On Wed, Jul 16, 2014 at 3:07 PM, Masanz, James J. <Masanz.James@mayo.edu>

> It depends on the type of annotation.
> Some are rule-based. Some are machine-learning based (models).  Some are
> dictionary dependent.  And some are based on annotations earlier in the
> pipeline, and so looking at the part of speech tags within the tokens, for
> example, can explain which chunk something appears in, which can explain
> why something might not have been annotated as a DiseaseDisorderMention,
> for example.
> Are you asking a general question or is there a specific type of
> annotation you are most interested in.
> -----Original Message-----
> From: John Green [mailto:john.travis.green@gmail.com]
> Sent: Wednesday, July 16, 2014 2:01 PM
> To: dev@ctakes.apache.org
> Subject: Procedure
> Is there a generally accepted procedure for identifying why an annotation
> wasnt made?
> JG

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