arXiv:2507.15867cs.LGcs.AI2025-07

用轻量智能体从病历中高效挖掘罕见病,降低成本且无需训练

RDMA: Cost Effective Agent-Driven Rare Disease Mining from Electronic Health Records

  • 用小模型+工具链解决缩写、隐含症状和术语对齐问题
  • 零微调下性能超越主流方法,推理成本降10倍,硬件需求降17倍
  • 可私有部署于普通电脑,适合临床真实场景的罕见病标注

罕见病影响美国每10人中有1人,但临床记录系统难以全面覆盖。现有基于ICD的体系无法捕捉其全貌,超过50%的Orphanet编码无直接ICD映射,仅2.2%的HPO编码与ICD匹配,导致患者群体隐形、诊断延迟。挖掘非结构化临床笔记是可行路径,但真实病历冗长、嘈杂、缩写密集,标注有限使微调不可行,需无需特定任务训练即可泛化的方案。本文提出罕见病挖掘智能体(RDMA),为小型量化LLM配备缩写解析、隐含表型推理及与Orphanet、HPO的本体对齐工具。在不同数据特征的基准测试中,RDMA显著优于微调与RAG基线,且无需任何任务特定训练。小型量化模型实现最优性能,推理成本最高降低10倍,本地硬件成本最高降低17倍,可在标准设备上私有部署,避免云端敏感信息暴露。其不确定性标记机制进一步减少专家标注负担,同时保持标注一致性,支持临床实践中罕见病记录的规模化推进。代码已开源:https://github.com/jhnwu3/RDMA。

原文摘要 · Abstract (English)

Rare diseases affect 1 in 10 Americans yet remain systematically underdocumented in clinical records. ICD-based systems cannot capture their breadth, over 50\% of Orphanet codes lack a direct ICD mapping and only 2.2\% of HPO codes have matching ICD codes, leaving patient populations invisible and delaying diagnosis. Mining unstructured clinical notes offers a direct path forward, but real notes are long, noisy, and abbreviation-dense, and limited annotations make fine-tuning infeasible, demanding approaches that generalize without task-specific training. We present Rare Disease Mining Agents (RDMA), an agentic framework equipping smaller quantized LLMs with tools for abbreviation resolution, implicit phenotype reasoning, and ontology grounding against Orphanet and HPO. RDMA substantially outperforms fine-tuned and RAG-based baselines across benchmarks with different data characteristics, without any task-specific training. A small quantized model achieves maximal performance, reducing inference costs by up to 10x and local hardware costs by up to 17x, enabling private deployment on standard hardware without cloud-based PHI exposure. RDMA's uncertainty-flagging mechanism further reduces expert annotation burden while preserving agreement quality, supporting scalable rare disease documentation in clinical practice. Available at https://github.com/jhnwu3/RDMA.

罕见病智能体医疗AI低资源

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