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Generalizing Biomedical Event Extraction

Jari Björne, Tapio Salakoski, Generalizing Biomedical Event Extraction. In: Proceedings of the BioNLP Shared Task 2011 Workshop, 183--191, Association for Computational Linguistics, 2011.

Abstract:

We present a system for extracting biomedical events (detailed descriptions of biomolecular interactions) from research articles. This system was developed for the BioNLP’11 Shared Task and extends our BioNLP’09 Shared Task winning Turku Event Extraction System. It uses support vector machines to first detect event-defining words, followed by detection of their relationships. The theme of the BioNLP’11 Shared Task is generalization, extending event extraction to varied biomedical domains. Our current system successfully predicts events for every domain case introduced in the BioNLP’11 Shared Task, being the only system to participate in all eight tasks and all of their subtasks, with best performance in four tasks.

BibTeX entry:

@INPROCEEDINGS{inpBjSaxxa,
  title = {Generalizing Biomedical Event Extraction},
  booktitle = {Proceedings of the BioNLP Shared Task 2011 Workshop},
  author = {Björne, Jari and Salakoski, Tapio},
  publisher = {Association for Computational Linguistics},
  pages = {183--191},
  year = {2011},
  keywords = {text mining, event extraction},
}

Belongs to TUCS Research Unit(s): Turku BioNLP Group

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