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From "Savova, Guergana" <Guergana.Sav...@childrens.harvard.edu>
Subject RE: concept identification query
Date Fri, 12 Apr 2013 14:58:59 GMT
You would need to get a UMLS license to get the full functionality. It takes 2-3 days to be
approved for it.
Hope this helps.
--Guergana

From: Rooney, Niall [mailto:nf.rooney@ulster.ac.uk]
Sent: Friday, April 12, 2013 10:26 AM
To: user@ctakes.apache.org
Subject: RE: concept identification query

Pei,

I don't have a UMLS license yet but thanks for looking into this.

From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
Sent: 12 April 2013 15:10
To: <user@ctakes.apache.org>
Subject: Re: concept identification query

Thanks Tim for confirming...
AggregatePlaintextUMLSProcessor.xmlshould pick up stomach and aphasia etc.

Sent from my iPhone

On Apr 12, 2013, at 9:25 AM, "Tim Miller" <timothy.miller@childrens.harvard.edu<mailto:timothy.miller@childrens.harvard.edu>>
wrote:
Niall,
I'm sure Pei will get back to you soon, but just wanted to let you know, many of those entities
will be found by the standard ctakes installation. I get aphasia and stomach.  It does not
get blood pressure, I think because this is filtered out by UMLS semantic class - I think
it is categorized as a "measurement," and cTAKES will find things like disease/disorder, signs/symptoms,
and a few others, which this does not fit into exactly.  It may be worth thinking about how
to include it if it will be useful. In this example it looks like it's linked to some assessment
"HB +20%", I assume that is some measurement that would be useful to extract?
Tim
On 04/12/2013 07:05 AM, Rooney, Niall wrote:
Hi,

I have question concerning concept identification.  I have modifying the example text given
in the installation instructions to demonstrate the use of CAS Visual Debugger.

My text is:

Dr. Nutritious

Medical Nutrition Therapy for Hyperlipidemia and Aphasia

Referral from: Julie Tester, RD, LD, CNSD
Phone contact: (555) 555-1212
Height: 144 cm   Current Weight: 45 kg   Date of current weight: 02-29-2001   Admit Weight:
 53 kg   BMI: 18 kg/m2
Diet: General
Daily Calorie needs (kcals): 1500 calories, assessed as HB + 20% for activity and blood pressure.
Daily Protein needs: 40 grams,  assessed as 1.0 g/kg.
Pt has been on a 3-day calorie count and has had an average intake of 1100 calories.  She
was instructed to drink 2-3 cans of liquid supplement to help promote weight gain.
 She agrees with the plan and has my number for further assessment. May want a Metabolic Rate
as well. She takes Codeine a day for knee and stomach pain.


Original entities and concepts are identified such as "Hyperlidemia" , "knee","pain". However
concepts associated with addition to the text are not identified such as "Aphasia", "blood
pressure", "stomach".  Also "metabolic rate" is not identified. Does anyone know why this
is?



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________________________________

This email and any attachments are confidential and intended solely for the use of the addressee
and may contain information which is covered by legal, professional or other privilege. If
you have received this email in error please notify the system manager at postmaster@ulster.ac.uk<mailto:postmaster@ulster.ac.uk>
and delete this email immediately. Any views or opinions expressed are solely those of the
author and do not necessarily represent those of the University of Ulster. The University's
computer systems may be monitored and communications carried out on them may be recorded to
secure the effective operation of the system and for other lawful purposes. The University
of Ulster does not guarantee that this email or any attachments are free from viruses or 100%
secure. Unless expressly stated in the body of a separate attachment, the text of email is
not intended to form a binding contract. Correspondence to and from the University may be
subject to requests for disclosure by 3rd parties under relevant legislation. The University
of Ulster was founded by Royal Charter in 1984 and is registered with company number RC000726
and VAT registered number GB672390524.The primary contact address for the University of Ulster
in Northern Ireland is,Cromore Road, Coleraine, Co. Londonderry BT52 1SA

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