Paper: Combining Tree Structures, Flat Features and Patterns for Biomedical Relation Extraction

ACL ID E12-1043
Title Combining Tree Structures, Flat Features and Patterns for Biomedical Relation Extraction
Venue Annual Meeting of The European Chapter of The Association of Computational Linguistics
Session Main Conference
Year 2012
Authors

Kernel based methods dominate the current trend for various relation extraction tasks including protein-protein interaction (PPI) extraction. PPI information is critical in un- derstanding biological processes. Despite considerable efforts, previously reported PPI extraction results show that none of the approaches already known in the literature is consistently better than other approaches when evaluated on different benchmark PPI corpora. In this paper, we propose a novel hybrid kernel that combines (auto- matically collected) dependency patterns, trigger words, negative cues, walk fea- tures and regular expression patterns along with tree kernel and shallow linguistic ker- nel. The proposed kernel outperforms the exiting state-of-the-art approaches on the BioInfer corpus, the largest PP...