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Alignment of Biomedical Ontologies Using Life Science Literature

Summary: Alignment of Biomedical Ontologies Using Life
Science Literature
He Tan, Vaida Jakoniene, Patrick Lambrix,
Johan Aberg, and Nahid Shahmehri
Department of Computer and Information Science,
Link¨opings universitet, SE-581 83 Link¨oping, Sweden
Abstract. In recent years many biomedical ontologies have been de-
veloped and many of these ontologies contain overlapping information.
To be able to use multiple ontologies they have to be aligned. In this
paper we propose strategies for aligning ontologies based on life science
literature. We propose a basic algorithm as well as extensions that take
the structure of the ontologies into account. We evaluate the strategies
and compare them with strategies implemented in the alignment system
SAMBO. We also evaluate the combination of the proposed strategies
and the SAMBO strategies.
1 Introduction
Ontologies (e.g. [Lam04, Gom99]) can be seen as defining the basic terms and re-
lations of a domain of interest, as well as the rules for combining these terms and
relations. They are considered to be an important technology for the Semantic
Web. Ontologies are used for communication between people and organizations


Source: Aberg, Johan - Department of Computer and Information Science, Linköpings Universitet


Collections: Computer Technologies and Information Sciences