Barry Smith
State University of New York, Buffalo
Formal principles governing best practices in classification and definition have for too long been neglected in the construction of biomedical ontologies, in ways which have important negative consequences for data integration and ontology alignment. We argue that the use of such principles in ontology construction can serve as a valuable tool in error-detection and also in supporting reliable manual curation. We argue also that such principles are a prerequisite for the successful application of advanced data integration techniques such as ontology-based multi-database querying, automated ontology alignment and ontology-based text-mining. These theses are illustrated by means of a case study of the Gene Ontology, a project of increasing importance within the field of biomedical data integration.
Keywords Gene Ontology  formal ontology  ontology reasoning
Categories (categorize this paper)
Buy the book Find it on
Edit this record
Mark as duplicate
Export citation
Find it on Scholar
Request removal from index
Revision history

Download options

PhilArchive copy

 PhilArchive page | Other versions
External links

Setup an account with your affiliations in order to access resources via your University's proxy server
Configure custom proxy (use this if your affiliation does not provide a proxy)
Through your library

References found in this work BETA

Add more references

Citations of this work BETA

The Bridge Between Philosophy and Information-Driven Science.Barry Smith - 2021 - Journal of Knowledge Structures and Systems 2 (2):47-55.
Biomedical Ontologies.Barry Smith - forthcoming - In Peter Elkin (ed.), Terminology, Ontology and their Implementations. Springer Nature Switzerland AG.

View all 29 citations / Add more citations

Similar books and articles

Ontology for the Intelligence Analyst.Barry Smith - 2012 - CrossTalk 14 (Nov/Dec):18-25.
A Case Study in the Application of Mathematics to Physics: Descartes' Principles of Philosophy, Part II.Emily R. Grosholz - 1986 - PSA: Proceedings of the Biennial Meeting of the Philosophy of Science Association 1986:116 - 124.
Dependence Relationships Between Gene Ontology Terms Based on TIGR Gene Product Annotations.Anand Kumar, Barry Smith & Christian Borgelt - 2004 - Proceedings of the 3rd International Workshop on Computational Terminology 2004:31-38.


Added to PP index

Total views
338 ( #31,826 of 2,533,563 )

Recent downloads (6 months)
28 ( #32,487 of 2,533,563 )

How can I increase my downloads?


My notes