arXivDaily arXiv每日学术速递 周一至周五更新
arXiv 2005.12833cs.CLcs.LGcs.NE

Med-BERT: pre-trained contextualized embeddings on large-scale structured electronic health records for disease prediction

School of Biomedical Informatics, University of Texas Health Science Center at Houston(德克萨斯大学休斯顿健康科学中心生物医学信息学院)

Laila Rasmy, Yang Xiang, Ziqian Xie, Cui Tao, Degui Zhi

英文摘要:

Deep learning (DL) based predictive models from electronic health records (EHR) deliver impressive performance in many clinical tasks. Large training cohorts, however, are often required to achieve high accuracy, hindering the adoption of DL-based models in scenarios with limited training data size. Recently, bidirectional encoder representations from transformers (BERT) and related models have achieved tremendous successes in the natural language processing domain. The pre-training of BERT on a very large training corpus generates contextualized embeddings that can boost the performance of models trained on smaller datasets. We propose Med-BERT, which adapts the BERT framework for pre-training contextualized embedding models on structured diagnosis data from 28,490,650 patients EHR dataset. Fine-tuning experiments are conducted on two disease-prediction tasks: (1) prediction of heart failure in patients with diabetes and (2) prediction of pancreatic cancer from two clinical databases. Med-BERT substantially improves prediction accuracy, boosting the area under receiver operating characteristics curve (AUC) by 2.02-7.12%. In particular, pre-trained Med-BERT substantially improves the performance of tasks with very small fine-tuning training sets (300-500 samples) boosting the AUC by more than 20% or equivalent to the AUC of 10 times larger training set. We believe that Med-BERT will benefit disease-prediction studies with small local training datasets, reduce data collection expenses, and accelerate the pace of artificial intelligence aided healthcare.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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