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Bioinformatics Advance Access published online on July 13, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn343
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Semantic reclassification of the UMLS concepts

Jung-Wei Fan 1,* and Carol Friedman 1

1Department of Biomedical Informatics, Columbia University, 622 W 168th St VC5, New York, NY10032, USA

*To whom correspondence should be addressed. Jung-Wei Fan, E-mail: fan{at}dbmi.columbia.edu


  Abstract

Summary: Accurate semantic classification is valuable for text mining and knowledge based tasks that perform inference based on semantic classes. To benefit applications using the semantic classification of the UMLS concepts, we automatically reclassified the concepts based on their lexical and contextual features. The new classification is useful for auditing the original UMLS semantic classification and for building biomedical text mining applications.

Availability: http://www.dbmi.columbia.edu/~juf7002/reclassify_production

Contact: fan{at}dbmi.columbia.edu

Supplementary information: at the same webpage above.

Associate Editor: Prof. John Quackenbush

Received on April 30, 2008; revised on June 25, 2008; accepted on July 2, 2008

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