Biomedical literature is growing rapidly, making it challenging to curate and extract knowledge manually. Biomedical natural language processing (BioNLP) techniques that can automatically extract information from biomedical literature help alleviate this burden. Recently, large Language Models (LLMs), such as GPT-3 and GPT-4, have gained significant attention for their impressive performance. However, their effectiveness in BioNLP tasks and impact on method development and downstream users remain understudied. This pilot study (1) establishes the baseline performance of GPT-3 and GPT-4 at both zero-shot and one-shot settings in eight BioNLP datasets across four applications: named entity recognition, relation extraction, multi-label document classification, and semantic similarity and reasoning, (2) examines the errors produced by the LLMs and categorized the errors into three types: missingness, inconsistencies, and unwanted artificial content, and (3) provides suggestions for using LLMs in BioNLP applications. We make the datasets, baselines, and results publicly available to the community via https://github.com/qingyu-qc/gpt_bionlp_benchmark.

本研究通过实验验证了GPT-3和GPT-4在8个BioNLP应用中的性能表现，并对其识别错误进行了分析，提出了在BioNLP应用中使用LLMs的建议。

生物医学自然语言处理中的大型语言模型：基准、基线和建议