Language Models (LMs) have performed well on biomedical natural language processing applications. In this study, we conducted some experiments to use prompt methods to extract knowledge from LMs as new knowledge Bases (LMs as KBs). However, prompting can only be used as a low bound for knowledge extraction, and perform particularly poorly on biomedical domain KBs. In order to make LMs as KBs more in line with the actual application scenarios of the biomedical domain, we specifically add EHR notes as context to the prompt to improve the low bound in the biomedical domain. We design and validate a series of experiments for our Dynamic-Context-BioLAMA task. Our experiments show that the knowledge possessed by those language models can distinguish the correct knowledge from the noise knowledge in the EHR notes, and such distinguishing ability can also be used as a new metric to evaluate the amount of knowledge possessed by the model.
@article{arxiv.2209.07859,
title = {Extracting Biomedical Factual Knowledge Using Pretrained Language Model and Electronic Health Record Context},
author = {Zonghai Yao and Yi Cao and Zhichao Yang and Vijeta Deshpande and Hong Yu},
journal= {arXiv preprint arXiv:2209.07859},
year = {2022}
}
Comments
Presented at the AMIA 2022 Annual Symposium as an oral paper. Revised some content in Introduction and Related Work section