SB-KOM: Integration of Pathway Information with BioPax

  • María Jesús García-Godoy
  • Ismael Navas-Delgado
  • José F. Aldana-Montes
Part of the Lecture Notes in Computer Science book series (LNCS, volume 6620)


BioPax Level 3 is a novel approach to describe pathways at a semantic level by means of an owl ontology. Data provided as BioPax instances is distributed in several databases, and so it is difficult to find integrated information as instances of this ontology. Biopax is a biology ontology that aims to facilitate the integration and exchanged data maintained in biological pathways data. In this paper we present an approach to integrate pathway information by means of an ontology-based mediator (SB-KOM). This mediator has been enabled to produce instances of BioPax Level 3 from integrated data. Thus, it is possible to obtain information about a specific pathway extracting data from distributed databases.


Biopax Level 3 AMMO Pathways SB-KOM Ontology Semantic Web 


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© Springer-Verlag Berlin Heidelberg 2012

Authors and Affiliations

  • María Jesús García-Godoy
    • 1
  • Ismael Navas-Delgado
    • 1
  • José F. Aldana-Montes
    • 1
  1. 1.Computer Languages and Computing Science DepartmentUniversity of MalagaMalagaSpain

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