Omophub Mcp
Connects Claude to the OHDSI ATHENA vocabulary, which covers 10M+ medical concepts across SNOMED CT, ICD-10, RxNorm, LOINC, and 100+ other terminologies. Exposes tools for concept search, cross-vocabulary mapping, hierarchy navigation, semantic search with embeddings, and FHIR code resolution. Useful when building phenotype definitions, validating medical codes, or translating between coding systems without downloading multi-gigabyte CSV files or running a local database. Includes guided prompts for assembling concept sets and code lookup workflows. Requires an API key from omophub.com. Available via npm or a hosted HTTP endpoint that multiple clients can share.
- GitHub stars
- 3
- tools
- 11
- auth
- Secret needed
- transport
- STDIO
- env var
- 1
- last updated
- Mar 5, 2026
Tools
11 toolsPublic tool metadata for what this MCP can expose to an agent.
search_conceptsSearch for medical concepts by name or clinical term across all vocabularies
Search for medical concepts by name or clinical term across all vocabularies
No parameter schema in public metadata yet.
get_conceptGet detailed info about a specific OMOP concept by `concept_id`
Get detailed info about a specific OMOP concept by `concept_id`
No parameter schema in public metadata yet.
get_concept_by_codeLook up a concept using a vocabulary-specific code (e.g., ICD-10 `E11.9`)
Look up a concept using a vocabulary-specific code (e.g., ICD-10 `E11.9`)
No parameter schema in public metadata yet.
map_conceptMap a concept to equivalent concepts in other vocabularies (paginated — see note below)
Map a concept to equivalent concepts in other vocabularies (paginated — see note below)
No parameter schema in public metadata yet.
get_hierarchyNavigate concept hierarchy - ancestors, descendants, or both
Navigate concept hierarchy - ancestors, descendants, or both
No parameter schema in public metadata yet.
list_vocabulariesList available medical vocabularies with statistics
List available medical vocabularies with statistics
No parameter schema in public metadata yet.
semantic_searchSearch using natural language with neural embeddings (understands clinical meaning)
Search using natural language with neural embeddings (understands clinical meaning)
No parameter schema in public metadata yet.
find_similar_conceptsFind concepts similar to a reference concept, name, or description
Find concepts similar to a reference concept, name, or description
No parameter schema in public metadata yet.
explore_conceptGet concept details, hierarchy, and cross-vocabulary mappings in one call
Get concept details, hierarchy, and cross-vocabulary mappings in one call
No parameter schema in public metadata yet.
fhir_resolveResolve a FHIR coded value (incl. administrative codes via the HL7 FHIR-to-OMOP IG ConceptMaps) to its OMOP standard concept and CDM target table
Resolve a FHIR coded value (incl. administrative codes via the HL7 FHIR-to-OMOP IG ConceptMaps) to its OMOP standard concept and CDM target table
No parameter schema in public metadata yet.
fhir_resolve_codeable_conceptResolve a FHIR CodeableConcept — best match by OHDSI vocabulary preference, honoring `userSelected`
Resolve a FHIR CodeableConcept — best match by OHDSI vocabulary preference, honoring `userSelected`
No parameter schema in public metadata yet.
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OMOPHUB_API_KEY*secretYour OMOPHub API key. Get one at https://omophub.com/dashboard/api-keys
Readme
OMOPHub MCP Server
Medical vocabularies for AI agents.
Search, map, and navigate 11M+ OMOP concepts: SNOMED CT, ICD-10, RxNorm, LOINC, and more. Directly from Claude, Cursor, VS Code, or any MCP-compatible client.
Details
- Repository
- github.com/omophub/omophub-mcp
- Category
- Search & Web Crawling
- Package
@omophub/omophub-mcp- Transport
- STDIO
- Auth
- Required
- Registry
- MCP registry, active
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