Extraction of biomedical events using case-based reasoning

Authors:
Mariana L. Neves;José M. Carazo;Alberto Pascual-Montano
Affiliations:
Centro Nacional de Biotecnología - CSIC, Madrid, Spain;Centro Nacional de Biotecnología - CSIC, Madrid, Spain;Universidad Complutense de Madrid, Madrid, Spain
Venue:
BioNLP '09 Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing: Shared Task
Year:
2009

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Abstract

The BioNLP'09 Shared Task on Event Extraction presented an evaluation on the extraction of biological events related to genes/proteins from the literature. We propose a system that uses the case-based reasoning (CBR) machine learning approach for the extraction of the entities (events, sites and location). The mapping of the proteins in the texts to the previously extracted entities is carried out by some simple manually developed rules for each of the arguments under consideration (cause, theme, site or location). We have achieved an f-measure of 24.15 and 21.15 for Task 1 and 2, respectively.