Michel Dumontier

BioOHDSI PublicationsRelated/Noteworthy Publications
Michel Dumontier

Michel Dumontier, PhD
Associate Professor of Medicine (Biomedical Informatics)
Stanford University School of Medicine
Web Site: http://dumontierlab.com/

Michel Dumontier is an Associate Professor of Medicine (Biomedical Informatics) at Stanford University. His research focuses on the development of computational methods to understand of how living systems respond to chemical agents. At the core of the research program is the development and use of Semantic Web technologies to formally represent and reason about data and services so as to facilitate the publishing, sharing and discovery of scientific knowledge to enable the evaluation scientific hypotheses pertaining to the structure, function and behavior of living systems. Dr. Dumontier serves as a co-chair for the World Wide Web Consortium Semantic Web for Health Care and Life Sciences Interest Group (W3C HCLSIG) and is the Scientific Director for Bio2RDF, a widely recognized open-source project to create and provide Linked Data for life sciences.

RD Boyce, PB Ryan, GN Norén, MJ Schuemie, C Reich, J Duke, NP Tatonetti, G Trifirò, R Harpaz, JM Overhage, AG Hartzema, M Khayter, EA Voss, CG Lambert, V Huser, M Dumontier. Bridging islands of information to establish an integrated knowledge base of drugs and health outcomes of interest. Drug Safety. 2014. 1-11.

M Dumontier, CJO Baker, J Baran, A Callahan, L Chepelev, J Cruz-Toledo, G Duck, LI Furlong, D Klassen, JP McCusker, N Queralt-Rosinach, M Samwald, N Villanueva-Rosales, M Wilkinson, and R Hoehndorf. The Semanticscience Integrated Ontology (SIO) for Biomedical Research and Knowledge Discovery. Journal of Biomedical Semantics. Journal of biomedical semantics. 2014; 5 (1): 14.

Hoehndorf, R., Hiebert, T., Hardy, N. W., Schofield, P. N., Gkoutos, G. V., Dumontier, M. Mouse model phenotypes provide information about human drug targets. Bioinformatics.2014; 30 (5): 719-25.

M Samwald, R Freimuth, JS Luciano, S Lin, RL Powers, MS Marshall, KP Adlassnig, M Dumontier, RD Boyce. An RDF/OWL Knowledge Base for Query Answering and Decision Support in Clinical Pharmacogenetics. Stud Health Technol Inform. 2013;192:539-42.

A Callahan, J Cruz-Toledo, M Dumontier. Querying Bio2RDF Linked Open Data with a Global Schema. 2013. Journal of Biomedical Semantics. 4(Suppl 1):S1.

B Vandervalk, EL McCarthy, J Cruz-Toledo, A Klein, CJO Baker, M Dumontier, MD Wilkinson. The SADI Personal Health Lens: A Web Browser Based System for Identifying Personally Relevant Drug, Food, and Herb Interactions. 2013. JMIR Research Protocols. 2(1):e14.

R Hoehndorf, M Dumontier, GV Gkoutos. Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics. Bioinformatics. 2012. Aug 15;28(16):2169-75.

M Samwald, A Coulet, I Huerga, RL Powers, JS Luciano, RR Freimuth, F Whipple, E Pichler, E Prud’hommeaux, M Dumontier, MS Marshall. Semantically enabling pharmacogenomic data for the realization of personalized medicine. Pharmacogenomics. 2012 Jan;13(2):201-12.

M Courtot, N Juty, C Knüpfer, D Waltemath, A Zhukova, A Dräger, M Dumontier, A Finney, M Golebiewski, J Hastings, S Hoops, S Keating, D B Kell, S Kerrien, J Lawson, A Lister, J Lu, R Machne, P Mendes, M Pocock, N Rodriguez, A Villeger, D J Wilkinson, S Wimalaratne, C Laibe, M Hucka, N Le Novère. Controlled vocabularies and semantics in Systems Biology. 2011. Molecular Systems Biology. 7:543.

J Hastings, L Chepelev, E Willighagen, N Adams, C Steinbeck and M Dumontier. The Chemical Information Ontology: provenance and disambiguation for chemical data on the biological semantic web. 2011. PLOS One 6(10): e25513.

R Hoehndorf, M Dumontier, J H. Gennari, S Wimalaratne, B de Bono, D Cook and GV Gkoutos. Integrating systems biology models and biomedical ontologies. 2011. BMC Systems Biology 5:124.

A Callahan, M Dumontier, NH Shah. HyQue: evaluating hypotheses using Semantic Web technologies. J Biomed Semantics. 2011 May 17;2 Suppl 2:S3.

JS Luciano, B Andersson, C Batchelor, O Bodenreider, T Clark, CK Denney, C Domarew, T Gambet, L Harland, A Jentzsch, V Kashyap, P Kos, J Kozlovsky, T Lebo, SM Marshall, JP McCusker, DL McGuinness, C Ogbuji, E Pichler, RL Powers, E Prud’hommeaux, M Samwald, L Schriml, PJ Tonellato, PL Whetzel, J Zhao, S Stephens, M Dumontier. The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside. J Biomed Semantics. 2011 May 17;2 Suppl 2:S1.