Overview of the Bacteria Biotope Task at BioNLP Shared Task 2016
Overview of the Bacteria Biotope Task at BioNLP Shared Task 2016
Louise Deléger,Robert Bossy,4 Authors,C. Nédellec
2016 · DOI: 10.18653/v1/W16-3002
Workshop on Biomedical Natural Language Processing · 90 Citations
TLDR
This paper presents the Bacteria Biotope task of the BioNLP Shared Task 2016, which follows the previous 2013 and 2011 editions and describes the different proposed subtasks, the corpus characteristics, the challenge organization, and the evaluation metrics.
Abstract
This paper presents the Bacteria Biotope task of the BioNLP Shared Task 2016, which follows the previous 2013 and 2011 editions. The task focuses on the extraction of the locations (biotopes and geographical places) of bacteria from PubMe abstracts and the characterization of bacteria and their associated habitats with
respect to reference knowledge sources (NCBI taxonomy, OntoBiotope ontology). The task is motivated by the importance of the knowledge on bacteria habitats for fundamental research and applications in microbiology. The paper describes the different proposed subtasks, the corpus characteristics, the challenge organization, and the evaluation metrics. We also provide an analysis of the results obtained by participants.