Assessing Large Language Models for Oncology Data Inference from Radiology Reports

PurposeWe examined the effectiveness of proprietary and open Large Language Models (LLMs) in detecting disease presence, location, and treatment response in pancreatic cancer from radiology reports. MethodsWe analyzed 203 deidentified radiology reports, manually annotated for disease status, location, and indeterminate nodules needing follow-up. Utilizing GPT-4, GPT-3.5-turbo, and open models like Gemma-7B and Llama3-8B, we employed strategies such as ablation and prompt engineering to boost accuracy. Discrepancies between human and model interpretations were reviewed by a secondary oncologist. ResultsAmong 164 pancreatic adenocarcinoma patients, GPT-4 showed the highest accuracy in inferring disease status, achieving a 75.5% correctness (F1-micro). Open models Mistral-7B and Llama3-8B performed comparably, with accuracies of 68.6% and 61.4%, respectively. Mistral-7B excelled in deriving correct inferences from "Objective Findings" directly. Most tested models demonstrated proficiency in identifying disease containing anatomical locations from a list of choices, with GPT-4 and Llama3-8B showing near parity in precision and recall for disease site identification. However, open models struggled with differentiating benign from malignant post-surgical changes, impacting their precision in identifying findings indeterminate for cancer. A secondary review occasionally favored GPT-3.5s interpretations, indicating the variability in human judgment. ConclusionLLMs, especially GPT-4, are proficient in deriving oncological insights from radiology reports. Their performance is enhanced by effective summarization strategies, demonstrating their potential in clinical support and healthcare analytics. This study also underscores the possibility of zero-shot open model utility in environments where proprietary models are restricted. Finally, by providing a set of annotated radiology reports, this paper presents a valuable dataset for further LLM research in oncology.