BioNLP 2011 task bacteria biotope: the Alvis system

Authors:
Zorana Ratkovic;Wiktoria Golik;Pierre Warnier;Philippe Veber;Claire Nédellec
Affiliations:
MIG INRA, Domaine de Vilvert, Jouy-en-Josas, France and LaTTiCe UMR CNRS Univ. Paris, rue Maurice Arnoux, Montrouge;MIG INRA, Domaine de Vilvert, Jouy-en-Josas, France;MIG INRA, Domaine de Vilvert, Jouy-en-Josas, France;MIG INRA, Domaine de Vilvert, Jouy-en-Josas, France;MIG INRA, Domaine de Vilvert, Jouy-en-Josas, France
Venue:
BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop
Year:
2011

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BioNLP Shared Task 2011: bacteria biotope

BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop

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Abstract

This paper describes the system of the INRA Bibliome research group applied to the Bacteria Biotope (BB) task of the BioNLP 2011 shared tasks. Bacteria, geographical locations and host entities were processed by a pattern-based approach and domain lexical resources. For the extraction of environment locations, we propose a framework based on semantic analysis supported by an ontology of the biotope domain. Domain-specific rules were developed for dealing with Bacteria anaphora. Official results show that our Alvis system achieves the best performance of participating systems.