Journal article

Coreference resolution improves extraction of Biological Expression Language statements from texts

Miji Choi, Haibin Liu, William Baumgartner, Justin Zobel, Karin Verspoor

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION | OXFORD UNIV PRESS | Published : 2016

Abstract

We describe a system that automatically extracts biological events from biomedical journal articles, and translates those events into Biological Expression Language (BEL) statements. The system incorporates existing text mining components for coreference resolution, biological event extraction and a previously formally untested strategy for BEL statement generation. Although addressing the BEL track (Track 4) at BioCreative V (2015), we also investigate how incorporating coreference resolution might impact event extraction in the biomedical domain. In this paper, we report that our system achieved the best performance of 20.2 and 35.2 in F-score for the full BEL statement level on both stage..

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Grants

Awarded by Australian Research Council


Funding Acknowledgements

This work was supported by the University of Melbourne, and by the Australian Federal and Victorian State governments and the Australian Research Council through the ICT Centre of Excellence program, National ICT Australia (NICTA). The project receives funding from the Australian Research Council through a Discovery Project grant, DP150101550.