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From "Murphy, Sean P. [RO BIT]" <Murphy.S...@mayo.edu>
Subject FW: question about drug-ner
Date Wed, 19 Jun 2013 15:59:59 GMT
Hello Chen,
	The drugner pipeline attempts to assign the drug signature elements such as strength, strength
unit, frequency, route, etc. in a very linear, left-to-right approach.   It doesn't have any
ability to cross reference the mentions, so it sees each drug named entity as a new distinct
mention.
	Therefore, in your example below there are actually four entities being parsed:
	1)   melformin from '1 Bottle(s)metformin PO undefined' which is assigned route as "Enteral_Oral"
only
	2)  Methotrexate from ' Methotrexate (ORAL) 15 MG (2.5MG TABLET Take 6) PO QWEEK , 6 tablets,
once a week #24 Tablet(s)' which is assigned 		route "Enteral_Oral",  dose "24", form "tablet",
strength "15", strength unit "MG"
	3) Metrocream from 'Metrocream' with no attributes and
	4) METRONIDAZOLE from 'METRONIDAZOLE 0.75% Cream' with route "Topical", form "cream", strength
"0.75" and strength unit "%"

	So the window that dictates where these terms are assigned is bordered by the actual drug
mentions, themselves.

MedicationDosage pertains to the quantity, typically a numeric value followed by the form.
MedicationStrength pertains to the quantity, also typically a numeric value followed by a
strength unit.

	So I think the situation you are seeing could be disjointed or out of context with the entity
mention that owns the attribute.

	Thanks,
	~Sean
From: dev-return-1691-Masanz.James=mayo.edu@ctakes.apache.org [dev-return-1691-Masanz.James=mayo.edu@ctakes.apache.org]
on behalf of Lin, Chen [Chen.Lin@childrens.harvard.edu]
Sent: Wednesday, June 19, 2013 9:25 AM
To: dev@ctakes.apache.org
Subject: question about drug-ner

Dear ctakes developers,

May I please have your help on a drug-ner question? I am wondering what the difference between
MedicationDosage and MedicationStrength is? My goal is to extract the dosage information for
a drug called "methothrexate". I used MedicationStrength to get the number and unit. It seems
working for many cases. However, I met some problems when processing the following sentence:

"... #1 Bottle(s)metformin PO undefined Methotrexate (ORAL) 15 MG (2.5MG TABLET Take 6) PO
QWEEK , 6 tablets, once a week #24 Tablet(s)Metrocream (METRONIDAZOLE 0.75% Cream)..."

I thought the number should be "15", and the unit should be "MG". Instead, I got the number
as "15", but the unit as "%". I have no idea where the "%" is from. And the MedicationDosage
showed that the value is "24". Would any please help explain the results? I would appreciate
your help very much!

Best,
Chen


Chen Lin
Applications Development Specialist
Children's Hospital Boston
Informatics Program
300 Longwood Avenue
Enders 142
Boston, MA 02115
Phone: 617-919-3421
chen.lin@childrens.harvard.edu<mailto:chen.lin@childrens.harvard.edu>

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