Bioinformatics data source integration based on semantic relationships across species

Authors:
Badr Al-Daihani;Alex Gray;Peter Kille
Affiliations:
School of Computer Sciences, Cardiff University, Cardiff, UK;School of Computer Sciences, Cardiff University, Cardiff, UK;School of Biosciences, Cardiff University, Cardiff, UK
Venue:
VDMB'06 Proceedings of the First international conference on Data Mining and Bioinformatics
Year:
2006

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Abstract

Bioinformatics databases are heterogeneous, differ in their representation as well as in their query capabilities across diverse information held in distributed autonomous resources. Current approaches to integrating heterogeneous bioinformatics data sources are based on one of a: common field, ontology or cross-reference. In this paper we investigate the use of semantic relationships across species to link, integrate and annotate genes from publicly available data sources and a novel Soft Link approach is introduced, to link information across species held in biological databases, through providing a flexible method of joining related information from different databases, including non-bioinformatics databases. A measure of relationship closeness will afford a biologist a new tool in their repertoire for analysis. Soft Links are identified as interrelated concepts and can be used to create a rich set of possible relation types supporting the investigation of alternative hypothesis.