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NaCTeM success at BioCreative V

2015-09-15

For the third time, NaCTeM has achieved success during its participation in the BioCreative Challenge Evaluation Workshop. In the recently completed fifth workshop, BioCreative V, various biomedical text mining tracks were organised, including the chemical-disease relations (CDR) track, which aimed to improve the state of the art for automatic extraction of biomarker chemical-disease relations. NaCTeM participated in the Disease Named Entity Recognition and Normalisation (DNER) task of the CDR track, together with 15 other teams, and obtained the best precision (89.89%) amongst the three top-performing teams.

Of further note is the fact that NaCTeM's Web-based workbench, Argo, was one of only three text mining systems selected for presentation in BioCreative V's User Interactive Track. Argo's ability to facilitate the curation of chronic obstructive pulmonary disease (COPD) phenotypes was demonstrated and evaluated as part of the workshop.

Below are the relevant papers from the workshop proceedings:

Batista-Navarro, R. T. B. and Ananiadou, S.(2015). Augmenting the Medical Subject Headings vocabulary with semantically rich variants to improve disease mention normalisation. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop, Seville, Spain, pp. 311-316.

Batista-Navarro, R. T. B., Carter, J. and Ananiadou, S. (2015). Semi-automatic curation of chronic obstructive pulmonary disease phenotypes using Argo. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop, Seville, Spain, pp. 403-408.