The use of concept maps during knowledge elicitation in ontology development processes – the nutrigenomics use case

Incorporation of ontologies into annotations has enabled 'semantic integration' of complex data, making explicit the knowledge within a certain field. One of the major bottlenecks in developing bio-ontologies is the lack of a unified methodology. Different methodologies have been proposed...

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Bibliographic Details
Published in:BMC bioinformatics Vol. 7; no. 1; p. 267
Main Authors: Castro, Alexander Garcia, Rocca-Serra, Philippe, Stevens, Robert, Taylor, Chris, Nashar, Karim, Ragan, Mark A, Sansone, Susanna-Assunta
Format: Journal Article
Language:English
Published: England BioMed Central 25.05.2006
BMC
Subjects:
Algorithms
Artificial Intelligence
Computer Simulation
Databases, Factual
Genomics - methods
Methodology
Models, Biological
Natural Language Processing
Nutritional Physiological Phenomena
Terminology as Topic
ISSN:1471-2105, 1471-2105
Online Access:Get full text
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Summary:Incorporation of ontologies into annotations has enabled 'semantic integration' of complex data, making explicit the knowledge within a certain field. One of the major bottlenecks in developing bio-ontologies is the lack of a unified methodology. Different methodologies have been proposed for different scenarios, but there is no agreed-upon standard methodology for building ontologies. The involvement of geographically distributed domain experts, the need for domain experts to lead the design process, the application of the ontologies and the life cycles of bio-ontologies are amongst the features not considered by previously proposed methodologies. Here, we present a methodology for developing ontologies within the biological domain. We describe our scenario, competency questions, results and milestones for each methodological stage. We introduce the use of concept maps during knowledge acquisition phases as a feasible transition between domain expert and knowledge engineer. The contributions of this paper are the thorough description of the steps we suggest when building an ontology, example use of concept maps, consideration of applicability to the development of lower-level ontologies and application to decentralised environments. We have found that within our scenario conceptual maps played an important role in the development process.
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ISSN:1471-2105
1471-2105
DOI:10.1186/1471-2105-7-267