Open source

FHIR MCP Server brings true AI integration to healthcare data

Transform clinical data silos into intelligent conversations. Our Model Context Protocol server enables AI agents to query FHIR resources using natural language, eliminating the gap between AI capabilities and healthcare data accessibility.

Bartosz Michalak
Director of Engineering
Sebastian Kalisz
Senior Software Engineer
Dominik Cywiński
AI/ML Engineer
what it does

Connect AI agents to healthcare data with natural language

FHIR MCP Server bridges the gap between AI agents and FHIR-compliant backends through natural language queries. Healthcare providers can finally unlock their clinical data without wrestling with complex FHIR resource structures or risking AI hallucination in medical contexts.

Transform questions like "Has this patient had a lipid panel in the last year?" into precise FHIR resource queries with automatic LOINC code resolution. Built on the Model Context Protocol for seamless integration with Claude Desktop, Cursor, and any MCP-compatible client.

40%

of physician time spent on documentation instead of patient care

60%

of healthcare data remains unstructured and difficult to analyze with traditional tools

150+

FHIR resources exist, but most systems only use a handful effectively

Key features

Built for healthcare developers who need it to just work

Natural Language to FHIR Queries

Transform clinical questions into precise FHIR resource queries with automatic LOINC code resolution. Eliminates AI hallucination risks in medical terminology through standardized healthcare vocabularies.

Universal FHIR Server Support

Works with any FHIR-compliant server - Medplum, HAPI FHIR, Azure Health Data Services, or custom implementations. OAuth2 authentication and standardized resource management built-in.

AI-Powered Document Processing

Intelligent document ingestion with chunking for TXT, PDF, CSV, and JSON formats. Vector embeddings with Pinecone integration enable semantic search across medical documents.

MCP Protocol Native

Built specifically for Model Context Protocol. One-minute configuration gets you started with Claude Desktop, Cursor, CoPilot, and any MCP-compatible client immediately.

LOINC Code Intelligence

Automatic translation of natural language queries into standardized LOINC codes through official LOINC API integration. Ensures clinical accuracy and interoperability.

HIPAA-Ready Architecture

Designed with healthcare compliance in mind. Run locally or deploy in your own cloud environment with complete data privacy control. Azure OpenAI integration available for BAA-compliant scenarios.

How it works

From clinical question to precise answer in seconds

From clinical question to precise answer in seconds

Natural Language Input

Ask clinical questions in plain English: "Does this patient's diabetes history correlate with current symptoms?"

1
 

Natural Language Input

Ask clinical questions in plain English: "Does this patient's diabetes history correlate with current symptoms?"

Intelligent Query Translation

FHIR-MCP Server automatically translates your question into precise FHIR resource queries, complete with proper LOINC codes and clinical context.

2
 

Intelligent Query Translation

FHIR-MCP Server automatically translates your question into precise FHIR resource queries, complete with proper LOINC codes and clinical context.

Secure Data Retrieval

Connect to your FHIR server (Medplum, HAPI FHIR, Azure Health Data Services) with OAuth2 authentication and retrieve relevant patient data securely.

3
 

Secure Data Retrieval

Connect to your FHIR server (Medplum, HAPI FHIR, Azure Health Data Services) with OAuth2 authentication and retrieve relevant patient data securely.

Contextual Analysis

AI agents analyze the retrieved clinical data, cross-referencing conditions, medications, and encounter history to provide comprehensive insights.

4

Contextual Analysis

AI agents analyze the retrieved clinical data, cross-referencing conditions, medications, and encounter history to provide comprehensive insights.

demo

Clinical decision support that speaks your language

Watch how FHIR-MCP Server enables natural language queries for complex clinical analysis, helping doctors make faster, more informed decisions.

This demo shows how Claude uses FHIR-MCP Server to communicate with a FHIR server (Medplum) to analyze patient conditions, medications, and encounter history through natural language queries.

FOR WHO

Built for healthcare innovators who move fast

Clinical Decision Support Developers

Build AI-powered clinical decision support systems that physicians actually want to use. Enable natural language queries across patient histories, improving diagnostic accuracy while reducing manual chart review time.

Perfect for hospitals and health systems looking to enhance clinical workflows with AI-powered insights that integrate seamlessly with existing FHIR infrastructure.

HealthTech Startup Founders

Accelerate your AI healthcare product development without deep FHIR expertise. Transform how your users interact with clinical data - from complex API calls to natural conversations.

Ideal for startups building data-driven healthcare products who want to focus on user experience instead of FHIR implementation complexities.

Healthcare AI Researchers

Simplify clinical data analysis for research purposes. Use natural language instead of complex queries to explore patient demographics, treatment outcomes, and population health trends across large FHIR datasets.

Essential for research institutions and pharmaceutical companies analyzing clinical patterns without extensive technical overhead.

Ready to try FHIR MCP Server yourself?

Explore the code, read the docs, and start building intelligent healthcare applications with natural language queries to FHIR resources.

Find out more

Learn more about MCP
in healthcare

Explore insights and practical guides on building healthcare AI applications with Model Context Protocol and FHIR integration.

Introducing FHIR MCP Server: Natural Language Interface for Healthcare Data

Discover how FHIR MCP Server helps healthcare teams build AI apps faster with natural language queries and modular integration.

Bartosz Michalak
|
September 30, 2025

FHIR MCP Server: Use Cases for Healthcare Developers

Open-source MCP server for FHIR healthcare data. Query patient records, lab results, and medications with natural language. Build clinical AI faster.

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|
November 5, 2025

Creating Synthetic Training Data for Healthcare AI: What to Do When You Don't Have Big Datasets

Learn how to use synthetic training data in healthcare AI. Explore generation methods, augmentation, validation, and risks when real datasets are scarce.

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|
September 25, 2025
Talk to us

We don't just build healthcare AI tools.

We make them work.

Beyond building open-source tools, we help healthcare innovators implement them successfully in production environments. Whether you're building clinical decision support systems, patient engagement platforms, or AI-powered analytics tools, our team brings deep healthcare AI expertise to your project.

Hire us