Medical Graph RAG: Evidence-based Medical Large Language Model via Graph Retrieval-Augmented Generation

Junde Wu, Jiayuan Zhu, Yunli Qi, Jingkun Chen, Min Xu, Filippo Menolascina, Yueming Jin, Vicente Grau


Abstract
We introduce MedGraphRAG, a novel graph-based Retrieval-Augmented Generation (RAG) framework designed to enhance LLMs in generating evidence-based medical responses, improving safety and reliability with private medical data. We introduce Triple Graph Construction and U-Retrieval to enhance GraphRAG, enabling holistic insights and evidence-based response generation for medical applications. Specifically, we connect user documents to credible medical sources and integrate Top-down Precise Retrieval with Bottom-up Response Refinement for balanced context awareness and precise indexing. Validated on 9 medical Q&A benchmarks, 2 health fact-checking datasets, and a long-form generation test set, MedGraphRAG outperforms state-of-the-art models while ensuring credible sourcing. Our code is publicly available.
Anthology ID:
2025.acl-long.1381
Volume:
Proceedings of the 63rd Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)
Month:
July
Year:
2025
Address:
Vienna, Austria
Editors:
Wanxiang Che, Joyce Nabende, Ekaterina Shutova, Mohammad Taher Pilehvar
Venue:
ACL
SIG:
Publisher:
Association for Computational Linguistics
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Pages:
28443–28467
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URL:
https://preview.aclanthology.org/ingestion-acl-25/2025.acl-long.1381/
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Bibkey:
Cite (ACL):
Junde Wu, Jiayuan Zhu, Yunli Qi, Jingkun Chen, Min Xu, Filippo Menolascina, Yueming Jin, and Vicente Grau. 2025. Medical Graph RAG: Evidence-based Medical Large Language Model via Graph Retrieval-Augmented Generation. In Proceedings of the 63rd Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers), pages 28443–28467, Vienna, Austria. Association for Computational Linguistics.
Cite (Informal):
Medical Graph RAG: Evidence-based Medical Large Language Model via Graph Retrieval-Augmented Generation (Wu et al., ACL 2025)
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PDF:
https://preview.aclanthology.org/ingestion-acl-25/2025.acl-long.1381.pdf