Data integration and knowledge bases as applied to: translational bioinformatics, biospecimen acquisition, clinical/translational research, clinical data repositories, genomic medicine, and comparative effectiveness research
30 years software development (biomedical instrumentation, bioinformatics, clinical informatics), 20 years clinical medicine (pediatrics, neonatology).
a) Foundational and applied research in the context of biomedical informatics support for translational and clinical research as part of the Institute of Translational Health Sciences (www.iths.org), b) facilitation of biospecimen acquisition and subject recruitment as part of two Life Sciences Discovery Fund grants (Washington Phenotyped Biospecimen Resource and the Cancer Biospecimen Resource), c) extraction of phenotype from the electronic medical record and pharmacogenomic decision support as part of the Northwest Institute of Genetic Medicine (www.nwigm.org), d) integration of whole exome data into the electronic medical record as part of the NEXT U01 Clinical Sequencing Exploratory Research grant (Jarvik, PI), e) data integration and clinical data repositories as part of the UW Medicine clinical computing leadership group, f) leveraging electronic medical records for comparative effectiveness research as part of the SCOAP CERTN (www.scoap.org), g) past research on a database of available genetic testing and on the application of genetic testing (GeneTests – http://www.genetests.org/, co-PI 1995-2004, consultant 2004-6) and general purpose data integration systems (2000-2010) (http://www.biomediator.org). Other past research descriptions available at home page.
Head – Division of Biomedical and Health Informatics, Director and PI of UW NLM funded Biomedical and Health Informatics Research Training Program, Deputy Director – Biomedical and Health Informatics Graduate Program, Advisory Committee for Harvard NCBC i2b2 (Informatics for Integrating Biology and the Bedside, http://www.i2b2.org/), Advisory Committee for University of California NCBC iDASH (Integrating Data for Analysis, Anonymization and Sharing, http://idash.ucsd.edu/) Advisory Committee for University of Utah CTSA (http://www.ccts.utah.edu/), Associate Editor for Translational Bioinformatics for the Journal of Biomedical Informatics, Editorial board for the Journal of the American Medical Informatics Association (jamia.bmj.com).
Currently accepting new MS, PhD, and Post-doc students.
- Overby C, Tarczy-Hornoch P, Hoath J, Kalet I, Veenstra D. Feasibility of incorporating genomic knowledge into electronic medical records for pharmacogenomic clinical decision support. Accepted for AMIA Translational Bioinformatics Summit 2010, as one of best papers. BMC Bioinformatics 2010;Oct 28;11 Suppl 9:S10.
- Cadag E, Tarczy-Hornoch P. Supporting Retrieval of Diverse Biomedical Data using Evidence-aware Queries. J Biomed Inform 2010;Dec;43(6):873-82.
- Sarkar, IN, Butte, AJ, Lussier, YA, Tarczy-Hornoch, P, Ohno-Machado, L. “Translational Bioinformatics: A Macroscopic Approach to Bridge the Biological and Clinical Divide”. J Am Med Inform Assoc. 2011 Jul-Aug;18(4):354-7. Epub 2011 May 10 (2011)
- Sittig DF, Hazlehurst BL, Brown J, Murphy S, Rosenman M, Tarczy-Hornoch P, Wilcox A. A survey of informatics platforms that enable distributed comparative research using multiinstitutional heterogeneous clinical data. Accepted April 2012 by Medical Care.
- Overby CL, Devine EB, Tarczy-Hornoch P, Kalet I. Deriving rules and assertions from pharmacogenomic knowledge resources in support of patient drug exposure predictions. J Am Med Inform Assoc 2012 Apr 26 [Epub ahead of print] 2012.