Attribute Structuring Improves LLM-Based Evaluation of Clinical Text Summaries

Summarizing clinical text is crucial in health decision-support and clinical research. Large language models (LLMs) have shown the potential to generate accurate clinical text summaries, but still struggle with issues regarding grounding and evaluation, especially in safety-critical domains such as health. Holistically evaluating text summaries is challenging because they may contain unsubstantiated information. Here, we explore a general mitigation framework using Attribute Structuring (AS), which structures the summary evaluation process. It decomposes the evaluation process into a grounded procedure that uses an LLM for relatively simple structuring and scoring tasks, rather than the full task of holistic summary evaluation. Experiments show that AS consistently improves the correspondence between human annotations and automated metrics in clinical text summarization. Additionally, AS yields interpretations in the form of a short text span corresponding to each output, which enables efficient human auditing, paving the way towards trustworthy evaluation of clinical information in resource-constrained scenarios. We release our code, prompts, and an open-source benchmark at https://github.com/microsoft/attribute-structuring.

Enhancing Medical Text Evaluation with GPT-4

In the evaluation of medical text generation, it is essential to scrutinize each piece of information and ensure the utmost accuracy of the evaluation. Existing evaluation metrics either focus on coarse-level evaluation that assigns one score for the whole generated output or rely on evaluation models trained on general domain, resulting in inaccuracies when adapted to the medical domain. To address these issues, we propose a set of factuality-centric evaluation aspects and design corresponding GPT-4-based metrics for medical text generation. We systematically compare these metrics with existing ones on clinical note generation and medical report summarization tasks, revealing low inter-metric correlation. A comprehensive human evaluation confirms that the proposed GPT-4-based metrics exhibit substantially higher agreement with human judgments than existing evaluation metrics. Our study contributes to the understanding of medical text generation evaluation and offers a more reliable alternative to existing metrics.

TRIALSCOPE: A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

The rapid digitization of real-world data offers an unprecedented opportunity for optimizing healthcare delivery and accelerating biomedical discovery. In practice, however, such data is most abundantly available in unstructured forms, such as clinical notes in electronic medical records (EMRs), and it is generally plagued by confounders. In this paper, we present TRIALSCOPE, a unifying framework for distilling real-world evidence from population-level observational data. TRIALSCOPE leverages biomedical language models to structure clinical text at scale, employs advanced probabilistic modeling for denoising and imputation, and incorporates state-of-the-art causal inference techniques to combat common confounders. Using clinical trial specification as generic representation, TRIALSCOPE provides a turn-key solution to generate and reason with clinical hypotheses using observational data. In extensive experiments and analyses on a large-scale real-world dataset with over one million cancer patients from a large US healthcare network, we show that TRIALSCOPE can produce high-quality structuring of real-world data and generates comparable results to marquee cancer trials. In addition to facilitating in-silicon clinical trial design and optimization, TRIALSCOPE may be used to empower synthetic controls, pragmatic trials, post-market surveillance, as well as support fine-grained patient-like-me reasoning in precision diagnosis and treatment.

TRIALSCOPE A Unifying Causal Framework for Scaling Real-World Evidence Generation with Biomedical Language Models

The rapid digitization of real-world data offers an unprecedented opportunity for optimizing healthcare delivery and accelerating biomedical discovery. In practice, however, such data is most abundantly available in unstructured forms, such as clinical notes in electronic medical records (EMRs), and it is generally plagued by confounders. In this paper, we present TRIALSCOPE, a unifying framework for distilling real-world evidence from population-level observational data. TRIALSCOPE leverages biomedical language models to structure clinical text at scale, employs advanced probabilistic modeling for denoising and imputation, and incorporates state-of-the-art causal inference techniques to combat common confounders. Using clinical trial specification as generic representation, TRIALSCOPE provides a turn-key solution to generate and reason with clinical hypotheses using observational data. In extensive experiments and analyses on a large-scale real-world dataset with over one million cancer patients from a large US healthcare network, we show that TRIALSCOPE can produce high-quality structuring of real-world data and generates comparable results to marquee cancer trials. In addition to facilitating in-silicon clinical trial design and optimization, TRIALSCOPE may be used to empower synthetic controls, pragmatic trials, post-market surveillance, as well as support fine-grained patient-like-me reasoning in precision diagnosis and treatment.

Self-Verification Improves Few-Shot Clinical Information Extraction

Extracting patient information from unstructured text is a critical task in health decision-support and clinical research. Large language models (LLMs) have shown the potential to accelerate clinical curation via few-shot in-context learning, in contrast to supervised learning which requires much more costly human annotations. However, despite drastic advances in modern LLMs such as GPT-4, they still struggle with issues regarding accuracy and interpretability, especially in mission-critical domains such as health. Here, we explore a general mitigation framework using self-verification, which leverages the LLM to provide provenance for its own extraction and check its own outputs. This is made possible by the asymmetry between verification and generation, where the latter is often much easier than the former. Experimental results show that our method consistently improves accuracy for various LLMs in standard clinical information extraction tasks. Additionally, self-verification yields interpretations in the form of a short text span corresponding to each output, which makes it very efficient for human experts to audit the results, paving the way towards trustworthy extraction of clinical information in resource-constrained scenarios. To facilitate future research in this direction, we release our code and prompts.