Seminar — Fabio Rinaldi
Speaker: | Dr Fabio Rinaldi, University of Zurich |
Title: | OntoGene in the BioNLP shared task and in BioCreative II.5 |
Date: | Monday 6th July 2009 at 14:00 |
Location: | Room MLG.001 (Lecture Theatre) in the MIB Building |
Abstract: |
In this talk I will describe our participation to the BioNLP shared task and the BioCreative II.5 competitions. Our approach is based on a common core: a pipeline of NLP tools and a dependency parser. The adaptation for the BioNLP shared task consisted of suitable input filters and a transformation-based approach which maps syntactic dependencies to event structures. Despite the very simple approach, results were satisfactory (34.78 F-score). The adaptation for BioCreative requires the detection and disambiguation of domain entities, while candidate interactions are proposed on the basis of a simple learning approach. If time allows I will then describe our approach to finding the 'focus organisms' i.e. the organisms in which the experiments have been conducted or which are the source of the interacting proteins. This information is of crucial importance for the correct disambiguation of other entities mentioned in the article.
Speaker Biography:
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