{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/medical-graph-rag-towards-safe-medical-large","title":"Medical Graph RAG: Towards Safe Medical Large Language Model via Graph Retrieval-Augmented Generation","arxiv_id":"2408.04187","date":"2024-08-08","proceeding":null,"authors":["Junde Wu","Jiayuan Zhu","Yunli Qi","Jingkun Chen","Min Xu","Filippo Menolascina","Vicente Grau"],"abstract":"We introduce a novel graph-based Retrieval-Augmented Generation (RAG) framework specifically designed for the medical domain, called \\textbf{MedGraphRAG}, aimed at enhancing Large Language Model (LLM) capabilities for generating evidence-based medical responses, thereby improving safety and reliability when handling private medical data. Graph-based RAG (GraphRAG) leverages LLMs to organize RAG data into graphs, showing strong potential for gaining holistic insights from long-form documents. However, its standard implementation is overly complex for general use and lacks the ability to generate evidence-based responses, limiting its effectiveness in the medical field. To extend the capabilities of GraphRAG to the medical domain, we propose unique Triple Graph Construction and U-Retrieval techniques over it. In our graph construction, we create a triple-linked structure that connects user documents to credible medical sources and controlled vocabularies. In the retrieval process, we propose U-Retrieval which combines Top-down Precise Retrieval with Bottom-up Response Refinement to balance global context awareness with precise indexing. These effort enable both source information retrieval and comprehensive response generation. Our approach is validated on 9 medical Q\\&A benchmarks, 2 health fact-checking benchmarks, and one collected dataset testing long-form generation. The results show that MedGraphRAG consistently outperforms state-of-the-art models across all benchmarks, while also ensuring that responses include credible source documentation and definitions. Our code is released at: https://github.com/MedicineToken/Medical-Graph-RAG.","url_abs":"https://arxiv.org/abs/2408.04187v2","url_pdf":"https://arxiv.org/pdf/2408.04187v2.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"medical-graph-rag-towards-safe-medical-large","repo_url":"https://github.com/medicinetoken/medical-graph-rag","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":1,"framework":"none","reach":{"status":"ok","spdx":"MIT"}}],"tasks":[{"task_slug":"chunking","task_name":"Chunking"},{"task_slug":"fact-checking","task_name":"Fact Checking"},{"task_slug":"information-retrieval","task_name":"Information Retrieval"},{"task_slug":"language-modeling","task_name":"Language Modeling"},{"task_slug":"language-modelling","task_name":"Language Modelling"},{"task_slug":"large-language-model","task_name":"Large Language Model"},{"task_slug":"rag","task_name":"RAG"},{"task_slug":"response-generation","task_name":"Response Generation"},{"task_slug":"retrieval","task_name":"Retrieval"},{"task_slug":"retrieval-augmented-generation","task_name":"Retrieval-augmented Generation"},{"task_slug":"graph-construction","task_name":"graph construction"}],"methods":[{"method_slug":"adam","method_name":"Adam"},{"method_slug":"attention","method_name":"Attention"},{"method_slug":"attention-dropout","method_name":"Attention Dropout"},{"method_slug":"bart","method_name":"BART"},{"method_slug":"bert","method_name":"BERT"},{"method_slug":"bpe","method_name":"BPE"},{"method_slug":"dense-connections","method_name":"Dense Connections"},{"method_slug":"dropout","method_name":"Dropout"},{"method_slug":"layer-normalization","method_name":"Layer Normalization"},{"method_slug":"linear-layer","method_name":"Linear Layer"},{"method_slug":"linear-warmup-with-linear-decay","method_name":"Linear Warmup With Linear Decay"},{"method_slug":"multi-head-attention","method_name":"Multi-Head Attention"},{"method_slug":"rag","method_name":"RAG"},{"method_slug":"residual-connection","method_name":"Residual Connection"},{"method_slug":"softmax","method_name":"Softmax"},{"method_slug":"weight-decay","method_name":"Weight Decay"},{"method_slug":"wordpiece","method_name":"WordPiece"}],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":"https://syntology.ai/paper/2408.04187","atlas_url":"https://app.syntology.ai/?focus=2408.04187","mcp":{"get_harvested_code_for_paper":{"arxiv_id":"2408.04187"}},"developers":"https://syntology.ai/developers","read_at":"2026-09-25T09:33:49+00:00","read_at_is":"when the build read Syntology's graph, not when any sample ran","claim":"Per-sample execution status on synthesized fixtures; not a correctness claim about the paper. 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