The Translational Medicine Ontology and Knowledge Base: Driving personalized medicine by bridging the gap between bench and bedside

被引：39

作者：

Luciano J.S. ^{[1
,2
]}

Andersson B. ^{[3
]}

Batchelor C. ^{[4
]}

Bodenreider O. ^{[5
]}

Clark T. ^{[6
,7
]}

Denney C.K. ^{[8
]}

Domarew C. ^{[9
]}

Gambet T. ^{[10
]}

Harland L. ^{[11
]}

Jentzsch A. ^{[12
]}

Kashyap V. ^{[13
]}

Kos P. ^{[6
]}

Kozlovsky J. ^{[14
]}

Lebo T. ^{[1
]}

Marshall S.M. ^{[15
,16
]}

McCusker J.P. ^{[1
]}

McGuinness D.L. ^{[1
]}

Ogbuji C. ^{[17
]}

Pichler E. ^{[18
]}

Powers R.L. ^{[2
]}

Prud'hommeaux E. ^{[10
]}

Samwald M. ^{[19
,20
,21
]}

Schriml L. ^{[22
]}

Tonellato P.J. ^{[6
]}

Whetzel P.L. ^{[23
]}

Zhao J. ^{[24
]}

Stephens S. ^{[25
]}

Dumontier M. ^{[26
]}

机构：

[1] Rensselaer Polytechnic Institute, Troy, NY

[2] Predictive Medicine Inc., Belmont, MA

[3] AstraZeneca, Lund

[4] Royal Society of Chemistry, Cambridge

[5] National Library of Medicine, Bethesda, MD

[6] Harvard Medical School, Boston, MA

[7] University of Manchester, Manchester

[8] Eli Lilly and Company, Indianapolis, IN

[9] Albany Medical Center, Albany, NY

[10] W3C, Cambridge, MA

[11] Pfizer, Sandwich

[12] Freie Universität, Berlin

[13] Cigna, Hartford, CT

[14] AstraZeneca, Waltham, MA

[15] Leiden University Medical Center, Leiden, NL

[16] University of Amsterdam, Amsterdam, NL

[17] Case Western Reserve University School of Medicine, Cleveland, OH

[18] W3C, W3C HCLSIG, Cambridge, MA

[19] Medical University of Vienna, Vienna

[20] Information Retrieval Facility (IRF), Vienna

[21] National University of Ireland Galway, Digital Enterprise Research Institute (DERI)

[22] Institute for Genome Sciences, University of Maryland

[23] Stanford University, Stanford

[24] University of Oxford, Oxford

[25] Johnson and Johnson Pharmaceutical Research and Development L.L.C., Radnor, PA

[26] Carleton University, Ottawa

来源：

Journal of Biomedical Semantics | / 2卷 / Suppl 2期

关键词：

Resource Description Framework; Personalized Medicine; Electronic Health Record; Translational Medicine; Electronic Health Record System;

D O I：

10.1186/2041-1480-2-S2-S1

中图分类号：

学科分类号：

摘要：

Background: Translational medicine requires the integration of knowledge using heterogeneous data from health care to the life sciences. Here, we describe a collaborative effort to produce a prototype Translational Medicine Knowledge Base (TMKB) capable of answering questions relating to clinical practice and pharmaceutical drug discovery. Results: We developed the Translational Medicine Ontology (TMO) as a unifying ontology to integrate chemical, genomic and proteomic data with disease, treatment, and electronic health records. We demonstrate the use of Semantic Web technologies in the integration of patient and biomedical data, and reveal how such a knowledge base can aid physicians in providing tailored patient care and facilitate the recruitment of patients into active clinical trials. Thus, patients, physicians and researchers may explore the knowledge base to better understand therapeutic options, efficacy, and mechanisms of action. Conclusions: This work takes an important step in using Semantic Web technologies to facilitate integration of relevant, distributed, external sources and progress towards a computational platform to support personalized medicine. Availability: TMO can be downloaded from http://code.google.com/p/translationalmedicineontologyand TMKB can be accessed at http://tm.semanticscience.org/sparql. © 2011 Luciano et al; licensee BioMed Central Ltd.

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