Paper: Generalizing an Approximate Subgraph Matching-based System to Extract Events in Molecular Biology and Cancer Genetics

ACL ID W13-2010
Title Generalizing an Approximate Subgraph Matching-based System to Extract Events in Molecular Biology and Cancer Genetics
Venue Proceedings of the BioNLP Shared Task 2013 Workshop
Session
Year 2013
Authors

We participated in the BioNLP 2013 shared tasks, addressing the GENIA (GE) and the Can- cer Genetics (CG) event extraction tasks. Our event extraction is based on the system we re- cently proposed for mining relations and events involving genes or proteins in the biomedical literature using a novel, approximate subgraph matching-based approach. In addition to han- dling the GE task involving 13 event types uni- formly related to molecular biology, we gener- alized our system to address the CG task tar- geting a challenging set of 40 event types re- lated to cancer biology with various arguments involving 18 kinds of biological entities. More- over, we attempted to integrate a distributional similarity model into our system to extend the graph matching scheme for more events. In ad- dition,...