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Title: Role and application of ontology design patterns in bio-ontologies
Author: Aranguren, Mikel Egaña
ISNI:       0000 0004 2668 8499
Awarding Body: University of Manchester
Current Institution: University of Manchester
Date of Award: 2009
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Knowledge Representation (KR) languages such as OWL (Web Ontology Languge), having precise semantics, offer the possibility of computationally exploiting biological knowledge, by codifying it in the axioms of bio-ontologies widely used in life sciences for knowledge management. Knowledge is, however, often represented in bio-ontologies without following rigorous principles of modelling and the resulting bio-ontologies are axiomatically lean. Therefore knowledge cannot be computationally exploited for integrity checking, hypothesis generation, consistency maintenance, integration, or rich querying. A solution that can contribute to the rigorous modelling and axiomatic richness of bio-ontologies is is the use of Ontology Design Patterns (ODPs). ODPs are thoroughly documented and efficient solutions for recurrent problems encountered when building ontologies. Therefore ODPs act as guides on how to use KR languages for creating ontology fragments that have well known advantages and side effects. In order forr ODPs to be efficiently accessed by bio-ontologists, an online catalogue of ODPs has been created, describing different ODPs using a consisistent documentation schema. Such ODPs, apart from being accessed, can be applied automatatically with the Ontology Preprocessor Language (OPPL), as OPPL makes it possible to encapsulate ODPs in scripts to be executed on OWL ontologies, making the application of ODPs replicable and flexible. The infrastructure for applying ODPs formed by the catalogue amd OPPL has been used for applying ODPs in bio-ontologies like the Cell Type Ontology. The results of such application have been evaluated to assess the applied ODPs and the chang on ontology quality.
Supervisor: Not available Sponsor: Not available
Qualification Name: Thesis (Ph.D.) Qualification Level: Doctoral
EThOS ID:  DOI: Not available