Toward principles for the design of ontologies used for knowledge sharing
International Journal of Human-Computer Studies - Special issue: the role of formal ontology in the information technology
CYC: a large-scale investment in knowledge infrastructure
Communications of the ACM
Evaluating ontological decisions with OntoClean
Communications of the ACM - Ontology: different ways of representing the same concept
Towards a standard upper ontology
Proceedings of the international conference on Formal Ontology in Information Systems - Volume 2001
Granular partitions and vagueness
Proceedings of the international conference on Formal Ontology in Information Systems - Volume 2001
Sweetening Ontologies with DOLCE
EKAW '02 Proceedings of the 13th International Conference on Knowledge Engineering and Knowledge Management. Ontologies and the Semantic Web
Proceedings of the 2nd international conference on Knowledge capture
A reference ontology for biomedical informatics: the foundational model of anatomy
Journal of Biomedical Informatics - Special issue: Unified medical language system
Obol: integrating language and meaning in bio-ontologies: Conference Papers
Comparative and Functional Genomics
From concepts to clinical reality: an essay on the benchmarking of biomedical terminologies
Journal of Biomedical Informatics - Special issue: Biomedical ontologies
Strategies for referent tracking in electronic health records
Journal of Biomedical Informatics - Special issue: Biomedical ontologies
Logical properties of foundational relations in bio-ontologies
Artificial Intelligence in Medicine
Applying evolutionary terminology auditing to the Gene Ontology
Journal of Biomedical Informatics
Proceedings of the 2008 conference on Formal Ontology in Information Systems: Proceedings of the Fifth International Conference (FOIS 2008)
Against Idiosyncrasy in Ontology Development
Proceedings of the 2006 conference on Formal Ontology in Information Systems: Proceedings of the Fourth International Conference (FOIS 2006)
A formal theory for spatial representation and reasoning in biomedical ontologies
Artificial Intelligence in Medicine
Realism for scientific ontologies
Proceedings of the 2010 conference on Formal Ontology in Information Systems: Proceedings of the Sixth International Conference (FOIS 2010)
Ontological realism: Methodology or misdirection?
Applied Ontology
A set of ontologies to drive tools for the control of vector-borne diseases
Journal of Biomedical Informatics
Hematopoietic cell types: Prototype for a revised cell ontology
Journal of Biomedical Informatics
Evolution of the Sequence Ontology terms and relationships
Journal of Biomedical Informatics
Towards an ontological theory of substance intolerance and hypersensitivity
Journal of Biomedical Informatics
Towards an ontological representation of resistance: The case of MRSA
Journal of Biomedical Informatics
MIREOT: The minimum information to reference an external ontology term
Applied Ontology - Biomedical Ontologies
The use of foundational ontologies in ontology development: an empirical assessment
ESWC'11 Proceedings of the 8th extended semantic web conference on The semantic web: research and applications - Volume Part I
The emotion ontology: enabling interdisciplinary research in the affective sciences
CONTEXT'11 Proceedings of the 7th international and interdisciplinary conference on Modeling and using context
A realism-based analysis of the OpenEHR entry model
Proceedings of the first international workshop on Managing interoperability and complexity in health systems
Transforming semi-structured life science diagrams into meaningful domain ontologies with DiDOn
Journal of Biomedical Informatics
Is there beauty in ontologies?
Applied Ontology - Is there Beauty in Ontologies?
Semantic Recommendation of Information Sources for Lifelong Learning
Journal of Integrated Design & Process Science
Relationships and relata in ontologies and thesauri: Differences and similarities
Applied Ontology - Ontologies and Terminologies: Continuum or Dichotomy?
A metaontology for applied ontology
Applied Ontology
Hi-index | 0.00 |
Since 2002 we have been testing and refining a methodology for ontology development that is now being used by multiple groups of researchers in different life science domains. Gary Merrill, in a recent paper in this journal, describes some of the reasons why this methodology has been found attractive by researchers in the biological and biomedical sciences. At the same time he assails the methodology on philosophical grounds, focusing specifically on our recommendation that ontologies developed for scientific purposes should be constructed in such a way that their terms are seen as referring to what we call universals or types in reality. As we show, Merrill's critique is of little relevance to the success of our realist project, since it not only reveals no actual errors in our work but also criticizes views on universals that we do not in fact hold. However, it nonetheless provides us with a valuable opportunity to clarify the realist methodology, and to show how some of its principles are being applied, especially within the framework of the OBO (Open Biomedical Ontologies) Foundry initiative.