A text-to-tabular approach to generate synthetic patient data using LLMs

TL;DR

This paper introduces a novel method using large language models to generate realistic synthetic patient data solely from database descriptions, bypassing the need for original data and enabling privacy-preserving medical research.

Contribution

It presents a data-agnostic approach leveraging LLMs and medical knowledge to produce high-quality synthetic patient data without access to original datasets.

Findings

Generated data preserves clinical correlations

Approach outperforms baseline in privacy metrics

Effective in low-resource settings

Abstract

Access to large-scale high-quality healthcare databases is key to accelerate medical research and make insightful discoveries about diseases. However, access to such data is often limited by patient privacy concerns, data sharing restrictions and high costs. To overcome these limitations, synthetic patient data has emerged as an alternative. However, synthetic data generation (SDG) methods typically rely on machine learning (ML) models trained on original data, leading back to the data scarcity problem. We propose an approach to generate synthetic tabular patient data that does not require access to the original data, but only a description of the desired database. We leverage prior medical knowledge and in-context learning capabilities of large language models (LLMs) to generate realistic patient data, even in a low-resource setting. We quantitatively evaluate our approach against state-of-the-art SDG models, using fidelity, privacy, and utility metrics. Our results show that while LLMs may not match the performance of state-of-the-art models trained on the original data, they effectively generate realistic patient data with well-preserved clinical correlations. An ablation study highlights key elements of our prompt contributing to high-quality synthetic patient data generation. This approach, which is easy to use and does not require original data or advanced ML skills, is particularly valuable for quickly generating custom-designed patient data, supporting project implementation and providing educational resources.