An Agentic Model Context Protocol Framework for Medical Concept Standardization

• URL: http://arxiv.org/abs/2509.03828v1
• Date: Thu, 04 Sep 2025 02:32:22 GMT
• Title: An Agentic Model Context Protocol Framework for Medical Concept Standardization
• Authors: Jaerong Ahn, Andrew Wen, Nan Wang, Heling Jia, Zhiyi Yue, Sunyang Fu, Hongfang Liu,
• Abstract summary: We develop a zero-training, hallucination-preventive mapping system based on the Model Context Protocol (MCP)<n>The system enables explainable mapping and significantly improves efficiency and accuracy with minimal effort.
• Score: 5.12407270785129
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: The Observational Medical Outcomes Partnership (OMOP) common data model (CDM) provides a standardized representation of heterogeneous health data to support large-scale, multi-institutional research. One critical step in data standardization using OMOP CDM is the mapping of source medical terms to OMOP standard concepts, a procedure that is resource-intensive and error-prone. While large language models (LLMs) have the potential to facilitate this process, their tendency toward hallucination makes them unsuitable for clinical deployment without training and expert validation. Here, we developed a zero-training, hallucination-preventive mapping system based on the Model Context Protocol (MCP), a standardized and secure framework allowing LLMs to interact with external resources and tools. The system enables explainable mapping and significantly improves efficiency and accuracy with minimal effort. It provides real-time vocabulary lookups and structured reasoning outputs suitable for immediate use in both exploratory and production environments.

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