Biology & Bioinformatics MCP servers & tools

Comprehensive PubMed MCP Server to search, retrieve, and analyze biomedical literature from NCBI.

Provides rich tools to search, retrieve, and analyze data from ClinicalTrials.gov API v2.

Typed, validated FHIR tools for healthcare AI agents — build, read, validate, and code FHIR resources from a patient bundle, with terminology lookup and machine-readable validation reports built for fix-and-retry. pip install healthchain[mcp]

Your own SLATE health data in your AI assistant: read, trend, plan and log. Never suggests a dose.

An MCP server that provides access to medical information, drug databases, and healthcare resources. Enables AI assistants to query medical data, drug interactions, and clinical guidelines.

Unified MCP server for ICD-11 (WHO), LOINC, RxNorm, MeSH (NLM), ATC, CID-10 (Brazilian DataSUS), and optional SNOMED CT. 28 tools (34 with SNOMED) with structuredContent + outputSchema on every default tool. Hosted on Cloudflare Workers, listed on Smithery, and on npm.

MCP server to interact with the BioThings API, including genes, genetic variants, drugs, and taxonomic information.

Securely access and manage FHIR healthcare data stored in Medplum.

Connect your Oura Ring to Claude AI assistants. Health metrics with smart analysis tools.

Privacy-first Google Health API MCP server for health, sleep, activity and HR agents

FHIR MCP server with SMART Backend Services, response compaction, FHIRPath, and guarded writes.

HEOR (Health Economics and Outcomes Research) MCP server with 7 tools for literature search across 41 medical data sources (PubMed, NICE, CADTH, ICER, etc.), cost-effectiveness modeling (Markov/PartSA/PSA), and HTA dossier preparation for pharmaceutical and biotech teams.

MCP server for the SynergyAge database of synergistic and antagonistic genetic interactions in longevity.

Biomedical research server providing access to PubMed, ClinicalTrials.gov, and MyVariant.info.

PubMed literature search and US/UK drug labelling for AI assistants.

Governance proxy for MCP servers: allowlist, forced dry run, human confirmation, blast radius, audit

Structural code intelligence over MCP: symbols, callers, imports and blast radius, 40+ languages.

Local-first repo intelligence for agents: DNA, health, blast radius, and Dispatch jobs.

Search, lookup, map, and navigate OMOP medical vocabularies via AI agents

MCP server for Tebra/Kareo practice management — patients, billing, scheduling, FHIR (45 tools)

An MCP server that provides access to exported data from Apple Health. Data analytics included.

Medicare and commercial payer policies, prior auth, claim risk, and medical codes from Backwork.

Per-function effect analysis for agents: blast radius, what reaches the network, gate verdicts.

MCP to search and read medical / life sciences papers from PubMed.

Healthcare billing AI for agents: ICD-10/CPT/HCPCS code lookup (81,769 codes with RVU + OPPS pricing), prior auth prediction, medical NER, claims validation, denial-risk scoring, HIPAA compliance auditing, and NPI/drug enrichment. 20 tools, 10 free credits then pay-per-call via credits or anonymous USDC (x402). npx @mymedi-ai/mcp-server

Read-only Medplum chart search and patient context for MCP clients.

A DICOMweb MCP server that exposes a DICOMweb-compliant DICOM archive to AI assistants, enabling search of studies, series and instances, metadata inspection, structured report reading, encapsulated PDF text extraction, and frame rendering.

Model Context Protocol server for Fast Healthcare Interoperability Resources (FHIR) APIs. Provides seamless integration with FHIR servers, enabling AI assistants to search, retrieve, create, update, and analyze clinical healthcare data with SMART-on-FHIR authentication support.

Local-first continuous glucose monitor MCP server for Dexcom Developer API and FreeStyle Libre via LibreLink Up.

Live codebase intelligence for AI agents: conventions, blast radius, import graphs, git insights.

DICOM integration to query, read, and move medical images and reports from PACS and other DICOM compliant systems.

AlphaFold DB MCP — predicted protein structures.

Taiwan's first public MCP server for National Health Insurance (NHI) data — 234 rejection codes, 1,497 ICD-10→procedure mappings across 20 specialties, audit indicators (008/014/027/P043), and semantic wiki search over 8,232 chunks of official NHI documentation. Powered by OPDSTAR. Install: npx @opdstar/nhi-mcp.

MCP Server that connects AI agents to FHIR servers. One example use case is querying patient history in natural language.

HIPAA-aware healthcare AI. Clinical documentation, compliance checks, audit prep. Free local tier.

ClinicalTrials MCP — wraps ClinicalTrials.gov API v2 (free, no auth)

FDA medical-device regulatory intelligence from keyless openFDA datasets.

Analyze biomarker panels with an MD-led clinical engine. Guideline-cited. Synthetic data only.

Deterministic axe-core accessibility scanning (WCAG 2.1 AA, EN 301 549, PDF/UA) through a wcagc account: scan any public URL or PDF, crawl a whole registered site, replay saved multi-step journeys, and read violation trends. Returns structured findings — rule, severity counts and the success criteria involved — so the assistant reasons over real results rather than guessing from markup. Every scan result carries an automated-coverage disclaimer instead of a score or a pass/fail verdict. Hosted at https://mcp.wcagc.com/mcp, or run it locally with npx -y @wcagc/mcp.

GLOBOCAN — the IARC/WHO Global Cancer Observatory.

IUPHAR/BPS Guide to PHARMACOLOGY (GtoPdb) MCP — keyless.

Human Phenotype Ontology — clinical phenotype terms + gene/disease annotations

MedlinePlus MCP — NIH consumer health info

MHRA (UK Medicines and Healthcare products Regulatory Agency) — the public

STRING protein-protein interaction networks across ~12k organisms

Resolve FDA application numbers and product names to regulatory metadata (CDER, CBER, CDRH).

Europe PubMed Central — biomedical literature search and full text

EMA Medicines MCP — the European Medicines Agency's public medicines register.

Structural graph map of any codebase for AI coding assistants. Scans entities, relationships, and feature flows across 13 languages so LLMs navigate by structure instead of grepping through everything.

Monarch biomedical knowledge graph — diseases, phenotypes, genes, variants

WHO Global Tuberculosis Programme — the TME data collection.

MyHealthfinder MCP — U.S. preventive-services & health-screening guidance

OpenFDA MCP — wraps the openFDA API (free, no auth required)

PDBe (Protein Data Bank in Europe, EBI) MCP.

EBI Ontology Lookup Service — 250+ biomedical ontologies

InterPro MCP (EBI) — protein family / domain / functional-site classification.

RCSB PDB MCP — experimentally determined macromolecular structures.

NCBI E-utilities — federated Entrez search/fetch (PubMed/Gene/Nucleotide/…)

bioRxiv + medRxiv preprint server API

cBioPortal MCP — cancer genomics portal.