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  • SPARQL MCP Server

    sib-swiss
    A
    license
    -
    quality
    D
    maintenance
    Enables users to write and execute SPARQL queries against open-access SPARQL endpoints by providing relevant query examples, schema information, and endpoint metadata. Supports querying biological databases like UniProt and Bgee through natural language interactions.
    Last updated
    9
    MIT

  • uniprot-link

    berntpopp
    A
    license
    A
    quality
    A
    maintenance
    An MCP server that grounds protein research in the UniProt SPARQL endpoint, providing tools for querying proteins, sequences, variants, diseases, and more via intent-named tools and raw SPARQL.
    Last updated
    15
    MIT

  • hgnc-link

    berntpopp
    A
    license
    A
    quality
    A
    maintenance
    Grounds gene-nomenclature work in the HUGO Gene Nomenclature Committee (HGNC) dataset, enabling resolution of gene symbols and IDs to canonical HGNC identifiers, plus cross-references and batch operations.
    Last updated
    9
    MIT

  • TransBench

    kayomarz97
    F
    license
    A
    quality
    B
    maintenance
    TransBench is a translational research agent that takes free-text clinical observations, decomposes them into biological axes, generates falsifiable hypotheses grounded in PubMed evidence, and designs reproducible computational experiments with concrete datasets for Claude Science.
    Last updated
    3

  • reactome-db-mcp

    tc2fh
    A
    license
    A
    quality
    C
    maintenance
    Provides direct SQL access to a locally hosted Reactome database, enabling schema discovery, guarded read-only queries, and ergonomic helpers over the full relational schema.
    Last updated
    9
    MIT

  • openi

    LeviReisJs
    A
    license
    A
    quality
    B
    maintenance
    Enables searching biomedical images (X-rays, CT/MRI, clinical photos, etc.) from the Open-i database using natural language queries, returning image results as Markdown links.
    Last updated
    2
    MIT

  • searchloinc

    jesse-smith
    A
    license
    A
    quality
    B
    maintenance
    Enables LLMs to search LOINC terms with free-text, relevance-ranked, and faceted queries via the LOINC Search API, mirroring the loinc.org/search experience.
    Last updated
    5
    MIT

  • hpo-link

    berntpopp
    A
    license
    A
    quality
    B
    maintenance
    MCP server that provides tools for querying the Human Phenotype Ontology (HPO) including term lookup, hierarchy exploration, cross-ontology mappings, and gene-phenotype-disease associations, all grounded in a local SQLite database for fast offline lookups.
    Last updated
    17
    MIT

  • NPI Registry MCP Server

    eliotk
    A
    license
    A
    quality
    D
    maintenance
    A Model Context Protocol (MCP) server for searching the National Provider Identifier (NPI) registry. This server provides tools to search and retrieve information about healthcare providers and organizations in the United States.
    Last updated
    1
    4
    Python
    MIT
  • PDBe MCP Servers by PDBeurope

    PDBe MCP Serversofficial

    PDBeurope
    A
    license
    A
    quality
    A
    maintenance
    Provides seamless access to the Protein Data Bank in Europe (PDBe) API and search capabilities, enabling AI clients to query protein structures, perform advanced searches, and retrieve structural biology data.
    Last updated
    33
    36
    Apache 2.0

  • Define-XML MCP Server

    defineEditor
    F
    license
    A
    quality
    D
    maintenance
    A TypeScript MCP server for interacting with CDISC Define-XML 2.0 and 2.1 files, enabling users to load, search, and retrieve clinical data metadata including datasets, variables, and codelists. It supports local file processing with document caching and provides responses in both JSON and Markdown formats.
    Last updated
    13

  • schrodinger-mcp

    Nimieeee
    A
    license
    A
    quality
    B
    maintenance
    Enables AI assistants to execute computational chemistry and drug discovery workflows using Schrödinger Suites 2026, including protein preparation, docking, ADMET, QM/MM calculations, and job management.
    Last updated
    28
    MIT