Semantic Web Approach to Database Integration in the Life Sciences

  • Kei-Hoi Cheung
  • Andrew K. Smith
  • Kevin Y. L. Yip
  • Christopher J. O. Baker
  • Mark B. Gerstein

Abstract

This chapter describes the challenges involved in the integration of databases storing diverse but related types of life sciences data. A major challenge in this regard is the syntactic and semantic heterogeneity of life sciences databases. There is a strong need for standardizing the syntactic and semantic data representations. We discuss how to address this by using the emerging Semantic Web technologies based on the Resource Description Framework (RDF) standard. This chapter presents two use cases, namely YeastHub and LinkHub, which demonstrate how to use the latest RDF database technology to build data warehouses that facilitate integration of genomic/proteomic data and identifiers.

Key words

RDF database integration Semantic Web molecular biology 

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Copyright information

© Springer Science+Business Media, LLC 2007

Authors and Affiliations

  • Kei-Hoi Cheung
    • 1
    • 2
    • 3
    • 4
  • Andrew K. Smith
    • 4
  • Kevin Y. L. Yip
    • 4
  • Christopher J. O. Baker
    • 6
    • 7
  • Mark B. Gerstein
    • 4
    • 5
  1. 1.Yale Center for Medical InformaticsYale UniversityUSA
  2. 2.AnesthesiologyYale UniversityUSA
  3. 3.GeneticsYale UniversityUSA
  4. 4.Computer ScienceYale UniversityUSA
  5. 5.Molecular Biophysics and BiochemistryYale UniversityUSA
  6. 6.Computer Science and Software EngineeringConcordia UniversityCanada
  7. 7.Institute for Infocomm ResearchSingapore

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