2018 n2c2 shared task on adverse drug events and medication extraction in electronic health records.

Objective: This article summarizes the preparation, organization, evaluation, and results of Track 2 of the 2018 National NLP Clinical Challenges shared task. Track 2 focused on extraction of adverse drug events (ADEs) from clinical records and evaluated 3 tasks: concept extraction, relation classification, and end-to-end systems. We perform an analysis of the results to identify the state of the art in these tasks, learn from it, and build on it.

Cohort selection for clinical trials: n2c2 2018 shared task track 1.

Objective: Track 1 of the 2018 National NLP Clinical Challenges shared tasks focused on identifying which patients in a corpus of longitudinal medical records meet and do not meet identified selection criteria.

Materials And Methods: To address this challenge, we annotated American English clinical narratives for 288 patients according to whether they met these criteria. We chose criteria from existing clinical trials that represented a variety of natural language processing tasks, including concept extraction, temporal reasoning, and inference.

An Exploratory Study on Pseudo-Data Generation in Prescription and Adverse Drug Reaction Extraction.

Prescription information and adverse drug reactions (ADR) are two components of detailed medication instructions that can benefit many aspects of clinical research. Automatic extraction of this information from free-text narratives via Information Extraction (IE) can open it up to downstream uses. IE is commonly tackled by supervised Natural Language Processing (NLP) systems which rely on annotated training data.

An Empirical Test of GRUs and Deep Contextualized Word Representations on De-Identification.

De-identification aims to remove 18 categories of protected health information from electronic health records. Ideally, de-identification systems should be reliable and generalizable. Previous research has focused on improving performance but has not examined generalizability.

FABLE: A Semi-Supervised Prescription Information Extraction System.

Prescription information is an important component of electronic health records (EHRs). This information contains detailed medication instructions that are crucial for patients' well-being and is often detailed in the narrative portions of EHRs. As a result, narratives of EHRs need to be processed with natural language processing (NLP) methods that can extract medication and prescription information from free text.