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introduction to OA of pharmacogenomics in product labeling

From: Richard Boyce <rdb20@pitt.edu>
Date: Fri, 15 Mar 2013 09:57:25 -0400
Message-ID: <514328C5.1050803@pitt.edu>
To: <public-openannotation@w3.org>
Dear Open Annotators,

My name is Rich Boyce, I am an Assistant Professor at the University of 
Pittsburgh Department of Biomedical Informatics. I have been following 
the work of this group for awhile because and am interested in applying 
Open Data Annotation to my research on medication safety. This email is 
to notify the group of a new resource that I have created using the most 
recent Open Data Annotation guidelines. I am seeking feedback on the 
resource from an Open Data Annotation perspective since the guidelines 
are so fresh and this is my first attempt at developing a resource using 
them.

Currently, I am leading a project that involves annotating 
pharmacogenomics statements in United States product labeling. Drug 
product labels are available in electronic form from the DailyMed 
website [1] and the FDA has created indexed product labels sections that 
make some statement about a pharmacogenomics biomarker [2]. Pharmacists 
have several use cases for the product label statements and find this 
indexing approach unsatisfactory. To address this issue, a team of 
pharmacists at the U of Pittsburgh are annotating the indexed statements 
using a new semantic model [3]. This past week, I  created an RDF data 
set [4] following the Open Data Annotation guidelines [5] for ~140 
annotations that are undergoing final validation. Would anyone be 
interested in reviewing this data set and letting me know if it seems to 
follow the guidelines as intended?

Kind regards,
-Rich Boyce

Richard D Boyce, PhD
Assistant Professor of Biomedical Informatics
Faculty, Geriatric Pharmaceutical Outcomes and Gero-Informatics Research and Training Program
Scholar, Comparative Effectiveness Research Program
University of Pittsburgh
rdb20@pitt.edu
Office: 412-648-9219
Twitter: @bhaapgh



1. dailymed.nlm.nih.gov

2. 
http://www.fda.gov/drugs/scienceresearch/researchareas/pharmacogenetics/ucm083378.htm

3. Boyce, RD., Freimuth, RR., Romagnoli, KM., Pummer, T., Hochheiser, 
H., Empey, PE. Toward semantic modeling of pharmacogenomic knowledge for 
clinical and translational decision support. Proceedings of the 2013 
AMIA Summit on Translational Bioinformatics. San Francisco, March 2013.

4. 
https://code.google.com/p/swat-4-med-safety/source/browse/trunk/analyses/pharmgx-statement-annotation/data/all-NON-VALIDATED-annotations-from-092012-BETA-OA-model-03142013.xml

5. http://www.openannotation.org/spec/core/

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Received on Friday, 15 March 2013 14:01:05 GMT

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