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Biology & Bioinformatics MCP Servers & Tools

Browse 118 curated Model Context Protocol servers tagged with “Biology & Bioinformatics”. Connect these servers directly to Claude Desktop, Cursor, or Windsurf to equip your AI agents with verified capabilities.

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HealthChain

Biology & Bioinformatics

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]

Noodle Biomedical Literature Discovery MCP

VerifiedBiology & Bioinformatics

Official public, read-only Model Context Protocol server from Helena Bioinformatics for biomedical literature discovery. Agents can search PubMed and scholarly research, resolve PMID, DOI, and PMCID identifiers, inspect publication metadata, find related papers, traverse bounded citation graphs, explore semantic literature neighborhoods, and check corpus coverage. Use the hosted Streamable HTTP endpoint https://api.helena.bio/noodle/v1/mcp; no npm or npx package is required.

Folklore Clinical Variant Interpretation MCP

VerifiedBiology & Bioinformatics

Folklore MCP 1.5.0 is Helena Bioinformatics’ public, read-only bioinformatics MCP for genomic variant interpretation, ClinGen gene-disease evidence and literature. Seven tools include get_gene_disease_associations (gene symbol/HGNC ID to diseases) and search_disease_genes (MONDO ID/disease name to genes), preserving inheritance, source classifications and provenance. Existing GRCh38 germline variant and literature tools remain available, alongside the optional support_helena helper. Streamable HTTP; no account or API key. No patient data, raw DNA/VCF ingestion or batch processing. Results require professional review and are not diagnoses.

Gramps MCP MCP Server

Biology & Bioinformatics

MCP server for Gramps genealogy via the Gramps Web API: CRUD, search, merge, timelines, DNA.

Ncbi Variation

Biology & Bioinformatics

dbSNP refSNP records and HGVS/SPDI/rsID normalization for human genetic variants, from NCBI…

Candor

Biology & Bioinformatics

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

Codeindex

Biology & Bioinformatics

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

Pdbe

Biology & Bioinformatics

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

String Db

Biology & Bioinformatics

STRING protein-protein interaction networks across ~12k organisms

Molecare MCP

Biology & Bioinformatics

Educational dermatology knowledge and lesion tooling. No credentials needed. Not a medical device.

Prism

Biology & Bioinformatics

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

Wcagc MCP

WCAG-Compliance

Biology & Bioinformatics

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.

Dingdawg Healthcare Agent

Biology & Bioinformatics

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

Appendix

Biology & Bioinformatics

Physician-reviewed medical opinions and prescriptions for AI agents.

OpenFDA Regulatory Metadata

Biology & Bioinformatics

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

Cbioportal

Biology & Bioinformatics

cBioPortal MCP — cancer genomics portal.

Ncbi Eutils

Biology & Bioinformatics

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

Puumed

Biology & Bioinformatics

PubMed MCP — wraps the NCBI E-utilities API (biomedical literature, free, no auth)

Causely

Biology & Bioinformatics

Causal reasoning for reliability: root cause, blast radius, and service health for agents.

Dep Oracle

Biology & Bioinformatics

Predictive dependency security engine. Trust scores, zombie detection, blast radius analysis.

Repo Graph

Biology & Bioinformatics

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.

Omophub MCP

Biology & Bioinformatics

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

Loa Healthcare Pricing

Biology & Bioinformatics

Search source-labeled hospital prices, CPT codes, providers, and healthcare cost estimates.

Vortex Iq

Biology & Bioinformatics

Read-only access to your VortexIQ store data: audits, KPIs, alerts, Brand DNA, reports, Ask VIQ.

Healthcare Fhir MCP

Biology & Bioinformatics

Healthcare Fhir tools for AI agents. Capabilities: search patients, get patient, search cond...

Seshat MCP

Biology & Bioinformatics

Structural code intelligence for AI agents: real call graphs, blast radius, and change history.

Maccabi Health

Biology & Bioinformatics

Read your own Maccabi Healthcare records: labs, prescriptions, visits, referrals, PDFs.

Bindingdb

Biology & Bioinformatics

BindingDB — measured protein/small-molecule binding affinities.

Bold Systems

Biology & Bioinformatics

BOLD Systems (Barcode of Life Data System, University of Guelph) — the global DNA barcode…

Ncbi Datasets

Biology & Bioinformatics

NCBI Datasets — the US National Library of Medicine's genome, gene and taxonomy reference service…