Applying Ontology Design Patterns in Bio-ontologies

  • Mikel Egaña
  • Alan Rector
  • Robert Stevens
  • Erick Antezana
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5268)

Abstract

Biological knowledge has been, to date, coded by biologists in axiomatically lean bio-ontologies. To facilitate axiomatic enrichment, complex semantics can be encapsulated as Ontology Design Patterns (ODPs). These can be applied across an ontology to make the domain knowledge explicit and therefore available for computational inference. The same ODP is often required in many different parts of the same ontology and the manual construction of often complex ODP semantics is loaded with the possibility of slips, inconsistencies and other errors. To address this issue we present the Ontology PreProcessor Language (OPPL), an axiom-based language for selecting and transforming portions of OWL ontologies, offering a means for applying ODPs. Example ODPs for the common need to represent “modifiers” of independent entities are presented and one of them is used as a demonstration of how to use OPPL to apply it.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2008

Authors and Affiliations

  • Mikel Egaña
    • 1
  • Alan Rector
    • 1
  • Robert Stevens
    • 1
  • Erick Antezana
    • 2
    • 3
  1. 1.School of Computer ScienceUniversity of ManchesterUK
  2. 2.Department of Plant Systems Biology, VIBGentBelgium
  3. 3.Department of Molecular GeneticsGent UniversityBelgium

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