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This article is part of the supplement: Fourth International Workshop on Data and Text Mining in Biomedical Informatics (DTMBio) 2010

Open Access Proceedings

Word sense disambiguation for event trigger word detection in biomedicine

David Martinez12* and Timothy Baldwin12

Author Affiliations

1 NICTA VRL, The University of Melbourne, VIC 3010, Australia

2 Department of Computer Science and Software Engineering, The University of Melbourne, VIC 3010, Australia

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BMC Bioinformatics 2011, 12(Suppl 2):S4  doi:10.1186/1471-2105-12-S2-S4

Published: 29 March 2011


This paper describes a method for detecting event trigger words in biomedical text based on a word sense disambiguation (WSD) approach. We first investigate the applicability of existing WSD techniques to trigger word disambiguation in the BioNLP 2009 shared task data, and find that we are able to outperform a traditional CRF-based approach for certain word types. On the basis of this finding, we combine the WSD approach with the CRF, and obtain significant improvements over the standalone CRF, gaining particularly in recall.