Cancer data integration and querying with GeneTegra

E. Patrick Shironoshita, Yves R. Jean-Mary, Ray M. Bradley, Patricia Buendia, Mansur R. Kabuka

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

We present the GeneTegra system, an ontology-based information integration environment. We show its ability to query multiple data sources, and we evaluate the relative performance of different data repositories. GeneTegra uses Semantic Web standards to resolve the semantic and syntactic diversity of the large and increasingly complex body of publicly available data. GeneTegra contains mechanisms to create ontology models of data sources using the OWL 2 Web Ontology Language, and to define, plan, and execute queries against these models using the SPARQL query language. Data source formats supported include relational databases and XML and RDF data sources. Experimental results have been obtained to show that GeneTegra obtains equivalent results from different data repositories containing the same data, illustrating the ability of the methods proposed in querying heterogeneous sources using the same modeling paradigm.

Original languageEnglish (US)
Title of host publicationData Integration in the Life Sciences - 8th International Conference, DILS 2012, Proceedings
Pages56-70
Number of pages15
DOIs
StatePublished - Jul 23 2012
Event8th International Conference on Data Integration in the Life Sciences, DILS 2012 - College Park, MD, United States
Duration: Jun 28 2012Jun 29 2012

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume7348 LNBI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other8th International Conference on Data Integration in the Life Sciences, DILS 2012
CountryUnited States
CityCollege Park, MD
Period6/28/126/29/12

Keywords

  • Data integration
  • ontology
  • OWL
  • Semantic Web
  • SPARQL

ASJC Scopus subject areas

  • Computer Science(all)
  • Theoretical Computer Science

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