Title | Integration of prostate cancer clinical data using an ontology. |
Publication Type | Journal Article |
Year of Publication | 2009 |
Authors | Min, H, Manion, FJ, Goralczyk, E, Wong, Y-N, Ross, E, J Beck, R |
Journal | J Biomed Inform |
Volume | 42 |
Issue | 6 |
Pagination | 1035-45 |
Date Published | 2009 Dec |
ISSN | 1532-0480 |
Keywords | Computational Biology, Database Management Systems, Databases, Factual, Humans, Information Storage and Retrieval, Male, Prostatic Neoplasms, Semantics, Terminology as Topic, User-Computer Interface |
Abstract | It is increasingly important for investigators to efficiently and effectively access, interpret, and analyze the data from diverse biological, literature, and annotation sources in a unified way. The heterogeneity of biomedical data and the lack of metadata are the primary sources of the difficulty for integration, presenting major challenges to effective search and retrieval of the information. As a proof of concept, the Prostate Cancer Ontology (PCO) is created for the development of the Prostate Cancer Information System (PCIS). PCIS is applied to demonstrate how the ontology is utilized to solve the semantic heterogeneity problem from the integration of two prostate cancer related database systems at the Fox Chase Cancer Center. As the results of the integration process, the semantic query language SPARQL is applied to perform the integrated queries across the two database systems based on PCO. |
DOI | 10.1016/j.jbi.2009.05.007 |
Alternate Journal | J Biomed Inform |
PubMed ID | 19497389 |
PubMed Central ID | PMC2784120 |
Grant List | P30 CA 06927 / CA / NCI NIH HHS / United States P30 CA006927-41 / CA / NCI NIH HHS / United States |
Research reported in this publication was supported by the National Cancer Institutes of
Health under Award Number P30CA046592. The content is solely the responsibility
of the authors and does not necessarily represent the official views of the
National Institutes of Health.
Research reported in this publication was supported by the National Cancer Institutes of
Health under Award Number P30CA046592 by the use of the following Cancer Center
Shared Resource(s): Biostatistics, Analytics & Bioinformatics; Flow Cytometry;
Transgenic Animal Models; Tissue and Molecular Pathology; Structure & Drug
Screening; Cell & Tissue Imaging; Experimental Irradiation; Preclinical
Imaging & Computational Analysis; Health Communications; Immune Monitoring;
Pharmacokinetics)
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