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Re: [COI] CT#8 Drug Information Needed for Test Case Query

From: <helen.chen@agfa.com>
Date: Mon, 16 Jun 2008 11:56:19 -0400
To: matthew.williams@cancer.org.uk
Cc: "public-semweb-lifesci@w3.org" <public-semweb-lifesci@w3.org>, public-semweb-lifesci-request@w3.org, "R.Cornet@amc.uva.nl" <R.Cornet@amc.uva.nl>
Message-ID: <OF0FAF6EF2.B621EBF8-ON8525746A.0047FE91-8525746A.00578D88@agfa.com>
Matt

Thanks for your interest. 

The background of this tread is that Vipul is leading a group of people 
working on COI demo [1].

The use case is:

For checking a patient's eligibility for a given CT, we need to run a 
query [2], which specifies drugs in terms of "class of drugs" (i.e alpha 
glucisudase inhibitors)
 In this patient's medical record, we find drug prescription information 
in terms of brand names and packaging information (RxNORM).

As you said, finding the mapping between SNOMED-CT and RxNORM based on 
ingredients is no small task.  Luckily, I was told Samson Tu has 
constructed such an ontology and he is checking with NIH to see if this 
ontology can be shared with HCLS group :).  I will keep you updated.


Kind Regards,

[1] http://esw.w3.org/topic/HCLS/ClinicalObservationsInteroperability
[2] 
http://esw.w3.org/topic/HCLS/ClinicalObservationsInteroperability/SPARQL8.html

Helen Chen | Agfa HealthCare
Senior Researcher | HE/Advanced Clinical Applications Research
T  +1 519 746 6210 Ext.3186 | M  +1 519 498 6244

Agfa HealthCare Inc., 455 Phillip Street, Waterloo, ON N2L 3X2, Canada
http://www.agfa.com/healthcare/
Click on link to read important disclaimer: 
http://www.agfa.com/healthcare/maildisclaimer



Matt Williams <matthew.williams@cancer.org.uk> 
Sent by: public-semweb-lifesci-request@w3.org
12/06/2008 03:57 PM

To
Helen Chen/AMPJB/AGFA@AGFA
cc
"R.Cornet@amc.uva.nl" <R.Cornet@amc.uva.nl>, 
"public-semweb-lifesci@w3.org" <public-semweb-lifesci@w3.org>
Subject
Re: [COI] CT#8 Drug Information Needed for Test Case Query








Dear Helen,

I'd be very interested in how you get on. I can't see how to extract a 
SNOMED-CT ID from RxNorm in the navigator, but I'm sure it can be done 
from the dataset.

More generally, I'm interested why you didn't use drug names from 
something like Pubmed (I'm sure there's a reason - I just don't know 
what it is).

Thanks,

Matt

helen.chen@agfa.com wrote:
> 
> Ronald
> 
> I checked RxNav and it is a good tool to get most of information we 
> needed for the COI test case.
> 
> I will check the mapping between RxNorm ingredients and SNOMED to see 
> how we can get the link between, for example "anticoagulants" to 
> detailed drug names in RxNORM. 
> 
> Thanks for the pointer and good suggestions.
> 
> Helen
> 
> 
> 
> 
> *"Ronald Cornet" <r.cornet@amc.uva.nl>*
> Sent by: public-semweb-lifesci-request@w3.org
> 
> 11/06/2008 02:22 PM
> Please respond to
> "R.Cornet@amc.uva.nl" <R.Cornet@amc.uva.nl>
> 
> 
> 
> To
>                "public-semweb-lifesci@w3.org" 
<public-semweb-lifesci@w3.org>
> cc
> 
> Subject
>                RE: [COI] CT#8 Drug Information Needed for Test Case 
Query
> 
> 
> 
> 
> 
> 
> 
> 
> 
> Helen,
> 
> Looking at RxNorm via RxNav _http://mor.nlm.nih.gov/download/rxnav/_
> Here the brand names below can be mapped to ingredients.
> 
> Looking up the ingredients in SNOMED shows their classes.
> 
> So it seems that adequately combining the two can do the job.
> 
> Regards, Ronald
> 
> 
> ###############################################################
> Ronald Cornet, PhD                    email: R.Cornet@amc.uva.nl
> dept. of Medical Informatics          phone: +31 (0)20 566 5188
> Academic Medical Center, Room J1B-115 fax:   +31 (0)20 691 9840
> P.O.Box 22700                         www: 
> _http://kik.amc.uva.nl/home/rcornet/_
> 1100 DE  Amsterdam
> The Netherlands                       'The truth is out there'
> 
> 
> 
> ------------------------------------------------------------------------
> *From:* public-semweb-lifesci-request@w3.org 
> [mailto:public-semweb-lifesci-request@w3.org] *On Behalf Of 
> *helen.chen@agfa.com*
> Sent:* Wednesday, June 11, 2008 16:34*
> To:* public-semweb-lifesci@w3.org*
> Subject:* [COI] CT#8 Drug Information Needed for Test Case Query
> 
> 
> Eric
> 
> As a minimal requirement to get the test case working In the CT#8 [1], 
> we need to identify the following drug information.  I did some text 
> search in your Medicaiton_DE.txt [2] file and found some examples of 
> drug names under each category
> *
> 1. Metfomin, Insulin secretagogue, or Alpha-glucosidase inhibitors* *
> drug names: *Metformin, Repaglinide, Gliclazide, Glipizide, Acarbose, 
> Miglitol *
> 2. Insulin therapy* *
> drug names: *Aimsco Insulin Syringe, *
> 3. Rosiglitazone or Proglitazone* *
> drug names: *Avandia, Actos *
> 4. corticosteriods treatment* *
> drug names: *Prelone, Medrol, Deltasone, Kenalog, etc *
> 5.  weightloss drugs* *
> drug names: *Xenical, Meridia, Tenuate, Tepanil, Adipex-P, Fastin, 
> Phentermine HCl , etc *
> 6. nonsteroidal anti-inlammatory drugs* *
> drug names: *Ibuprogen, Naproxen Sodium , Diclofenac Potassium, 
> Diclofenac Sodium, etc *
> 7. anticoagulants* *
> drug names: *Coumadin, Plavix, Heparin, etc *
> 8. uricosuric medication* *
> drug names: *Benuryl, Benemid, Probalan, Anturane *
> * 
> 
> Your Medication.DE file seems to contain drug name and package 
> information, but as you can see, there is no "drug" class relationship 
> that represents the above relationship.  I doubt we can find such 
> categorization relationship in RxNorm. 
> 
> For the demonstration purpose, we can construct a small "drug" ontology 
> to cover the above concepts and drug names. 
> 
> But the ideal way is to use an existing and well developed drug ontology 

> for this purpose. 
> 
> Does anyone on the list know such ontology?
> 
> Kind Regards,
> 
> 
> [1] 
> 
http://esw.w3.org/topic/HCLS/ClinicalObservationsInteroperability/SPARQL8.html 

> 
> [2] http://www.w3.org/2008/04/DiabeticPatientsDataSet/Medication_DE.txt
> 
> *
> Helen Chen | **Agfa HealthCare*
> Senior Researcher | HE/Advanced Clinical Applications Research
> T  +1 519 746 6210 Ext.3186 | M  +1 519 498 6244
> 
> Agfa HealthCare Inc., 455 Phillip Street, Waterloo, ON N2L 3X2, Canada_
> __http://www.agfa.com/healthcare/_
> ------------------------------------------------------------------------
> Click on link to read important disclaimer: 
> _http://www.agfa.com/healthcare/maildisclaimer_

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Received on Monday, 16 June 2008 15:57:18 GMT

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