Logic-based assessment of the compatibility of UMLS ontology sources
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Other documents of the author: Jiménez Ruiz, Ernesto; Cuenca Grau, Bernardo; Horrocks, Ian; Berlanga Llavori, Rafael
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comunitat-uji-handle2:10234/7038
comunitat-uji-handle3:10234/8634
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Title
Logic-based assessment of the compatibility of UMLS ontology sourcesDate
2011-03-07Publisher
BioMed CentralISSN
2041-1480Bibliographic citation
Journal of biomedical semantics (7 March 2011), vol. 2 (Suppl. 1):S2, 1-16Type
info:eu-repo/semantics/articlePublisher version
http://www.jbiomedsem.com/content/2/S1/S2Version
info:eu-repo/semantics/publishedVersionSubject
Abstract
Background: The UMLS Metathesaurus (UMLS-Meta) is currently the most
comprehensive effort for integrating independently-developed medical thesauri and
ontologies. UMLS-Meta is being used in many applications, including ... [+]
Background: The UMLS Metathesaurus (UMLS-Meta) is currently the most
comprehensive effort for integrating independently-developed medical thesauri and
ontologies. UMLS-Meta is being used in many applications, including PubMed and
ClinicalTrials.gov. The integration of new sources combines automatic techniques,
expert assessment, and auditing protocols. The automatic techniques currently in
use, however, are mostly based on lexical algorithms and often disregard the
semantics of the sources being integrated.
Results: In this paper, we argue that UMLS-Meta’s current design and auditing
methodologies could be significantly enhanced by taking into account the logicbased
semantics of the ontology sources. We provide empirical evidence suggesting
that UMLS-Meta in its 2009AA version contains a significant number of errors; these
errors become immediately apparent if the rich semantics of the ontology sources is
taken into account, manifesting themselves as unintended logical consequences that
follow from the ontology sources together with the information in UMLS-Meta. We
then propose general principles and specific logic-based techniques to effectively
detect and repair such errors.
Conclusions: Our results suggest that the methodologies employed in the design of
UMLS-Meta are not only very costly in terms of human effort, but also error-prone.
The techniques presented here can be useful for both reducing human effort in the
design and maintenance of UMLS-Meta and improving the quality of its contents [-]
Description
This article is part of the supplement: Semantic Web Applications and Tools for Life Sciences (SWAT4LS), 2009
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