Relational patterns in OWL and their application to OBO

Robert Hoehndorf, Anika Oellrich, M. Dumontier, Janet Kelso, Heinrich Herre, D. Rebholz Schuhmann

Research output: Contribution to journalConference article in journalAcademicpeer-review

Abstract

Directed acyclic graphs are commonly used to represent ontologies in the biomedical domain. They provide an intuitive means to formalize relations that hold between ontological categories. However, their semantics is usually not explicit. We provide a semantics for a part of the OBO Flatfile Format by extending OWL with a method to express relational patterns. These patterns are OWL axioms with variables for classes. The variables can only be filled with named classes. Addition- Ally, we provide a semantics for open patterns in OWL. Our method is applicable to the OBO Flatfile Format, and provides a means to design OWL ontologies using complex ontology design patterns. Therefore, it leads not only to an integration of the OBO Flatfile Format and OWL, but extends OWL with an intuitive interface for designing ontologies using complex definition patterns. A prototypic implementation and test results are available at http://bioonto.de/obo2owl.

Original languageEnglish
Article number1
Number of pages10
JournalCEUR Workshop Proceedings
Volume614
Publication statusPublished - 2010
Externally publishedYes

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