Authors:
Mohammed Alliheedi
1
;
Yetian Wang
2
and
Robert E. Mercer
3
Affiliations:
1
Department of Computer Science, Al Baha University, Prince Mohammad Bin Saud, Al Bahah 65527, Saudi Arabia, David Cheriton School of Computer Science, University of Waterloo, 200 University Ave., Waterloo, Ontario and Canada
;
2
David Cheriton School of Computer Science, University of Waterloo, 200 University Ave., Waterloo, Ontario and Canada
;
3
David Cheriton School of Computer Science, University of Waterloo, 200 University Ave., Waterloo, Ontario, Canada, Department of Computer Science, The University of Western Ontario, 1151 Richmond St., London, Ontario and Canada
Keyword(s):
Experimental Procedure, Procedural Steps, Sequence of Steps, Biomedical Ontology, Formal Ontology, Knowledge Representation.
Related
Ontology
Subjects/Areas/Topics:
Applications
;
Artificial Intelligence
;
Knowledge Engineering and Ontology Development
;
Knowledge Representation
;
Knowledge-Based Systems
;
Natural Language Processing
;
Pattern Recognition
;
Symbolic Systems
Abstract:
Ontologies must provide the entities, concepts, and relations required by the domain being represented. The domain of interest in this paper is the biochemistry experimental procedure. The ontology language being used is OWL-DL. OWL-DL was adopted due to its well-balanced flexibility among expressiveness (e.g., class description, cardinality restriction, etc.), completeness, and decidability. These procedures are composed of procedure steps which can be represented as sequences. Sequences are composed of totally ordered, partially ordered, and alternative subsequences. Subsequences can be represented with two relations, directlyFollows and directlyPrecedes that are used to represent sequences. Alternative subsequences can be generated by composing a oneOf function in OWL-DL, referred to it as optionalStepOf in this work, which is a simple generalization of exclusiveOR. Alkaline Agarose Gel Electrophoresis, a biochemistry procedure, is described and examples of these subsequences are
provided.
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