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In Journal of biomedical informatics ; h5-index 55.0

Social determinants of health (SDOH) affect health outcomes, and knowledge of SDOH can inform clinical decision-making. Automatically extracting SDOH information from clinical text requires data-driven information extraction models trained on annotated corpora that are heterogeneous and frequently include critical SDOH. This work presents a new corpus with SDOH annotations, a novel active learning framework, and the first extraction results on the new corpus. The Social History Annotation Corpus (SHAC) includes 4,480 social history sections with detailed annotation for 12 SDOH characterizing the status, extent, and temporal information of 18K distinct events. We introduce a novel active learning framework that selects samples for annotation using a surrogate text classification task as a proxy for a more complex event extraction task. The active learning framework successfully increases the frequency of health risk factors and improves automatic extraction of these events over undirected annotation. An event extraction model trained on SHAC achieves high extraction performance for substance use status (0.82-0.93 F1), employment status (0.81-0.86 F1), and living status type (0.81-0.93 F1) on data from three institutions.

Lybarger Kevin, Ostendorf Mari, Yetisgen Meliha

2020-Dec-05

Active learning, Machine learning, Natural language processing, Social determinants of health