Advancing the State of the Art in Clinical Natural Language Processing through Shared Tasks

Michele Filannino; Özlem Uzuner

doi:10.1055/s-0038-1667079

Yearbook of Medical Informatics, Table of Contents

CC BY-NC-ND 4.0 · Yearb Med Inform 2018; 27(01): 184-192
DOI: 10.1055/s-0038-1667079

Section 9: Natural Language Processing

Survey

Georg Thieme Verlag KG Stuttgart

Advancing the State of the Art in Clinical Natural Language Processing through Shared Tasks

Authors

Michele Filannino

¹George Mason University, Fairfax, VA, USA

²Massachusetts Institute of Technology, Cambridge, MA, USA
Özlem Uzuner

¹George Mason University, Fairfax, VA, USA

²Massachusetts Institute of Technology, Cambridge, MA, USA

Abstract

Summary

Objectives: To review the latest scientific challenges organized in clinical Natural Language Processing (NLP) by highlighting the tasks, the most effective methodologies used, the data, and the sharing strategies.

Methods: We harvested the literature by using Google Scholar and PubMed Central to retrieve all shared tasks organized since 2015 on clinical NLP problems on English data.

Results: We surveyed 17 shared tasks. We grouped the data into four types (synthetic, drug labels, social data, and clinical data) which are correlated with size and sensitivity. We found named entity recognition and classification to be the most common tasks. Most of the methods used to tackle the shared tasks have been data-driven. There is homogeneity in the methods used to tackle the named entity recognition tasks, while more diverse solutions are investigated for relation extraction, multi-class classification, and information retrieval problems.

Conclusions: There is a clear trend in using data-driven methods to tackle problems in clinical NLP. The availability of more and varied data from different institutions will undoubtedly lead to bigger advances in the field, for the benefit of healthcare as a whole.

Keywords

Clinical natural language processing - shared tasks - scientific challenges - survey

Full Text

References

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