In this paper, we propose a semantic inheritance/inverse-inheritance mechanism for systematic bio-ontology construction. This mechanism allows domain experts to easily manage sophisticated bio-ontologies in which biological knowledge is encoded; it automatically captures semantics inferred from the ontology structure being constructed or already constructed. Based on the captured semantics it suggests appropriate recommendation to the experts. While inheritance enables them to consistently determine the semantics of relationships between ontology concepts (or classes), inverse-inheritance allows them to incrementally refine the semantics by exploiting a huge amount of relationships between the instances of the concepts. To demonstrate the feasibility of the mechanism, we also implement an OWL(Web Ontology Language)-based graphical bio-ontology management system. In the system, the mechanism is seamlessly applied to the ontology by well defined graphic notations based on OWL. OWL is adopted to fully express the subtle semantics inherently buried in the bio-ontology.
In this paper we propose a Bio-ontology construction method using object-oriented paradigm. This method is simple yet shows powerful semantic expressiveness. The sophisticated Bio-ontology is built by an intuitive manner reasoning subtle semantics inherently existing between complicated and informative terms. The result of the reasoning is used not only to recommend candidate terms to be linked by relationships but also to answer user queries against the Bio-ontology. Its recommendation facility based on inheritance makes it possible to incrementally refine relationships between terms. The method is supported by Object-oriented Ontology Manager (OOM) which treats terms as objects, and thus sub objects inherit properties from super objects. The constructed Bioontology can be translated into a standard ontology language, RDF/RDFS by a translator in OOM to be easily extended, modified, and reused blending with other external ontologies.
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