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  • paper-search-mcp

    upascal
    F
    license
    Not graded
    quality
    C
    maintenance
    Enables searching for academic papers and preprints across multiple platforms including Semantic Scholar, arXiv, PubMed, and CrossRef. It provides access to research records, DOI lookups, and journal metadata through a unified interface deployed on Cloudflare Workers.

  • MCP PubMed Search

    wavelovey
    A
    license
    B
    quality
    D
    maintenance
    Server to search PubMed (PubMed is a free, online database that allows users to search for biomedical and life sciences literature). I have created on a day MCP came out but was on vacation, I saw someone post similar server in your DB, but figured to post mine.
    1
    47
    MIT

  • reactome-mcp

    tc2fh
    A
    license
    A
    quality
    C
    maintenance
    Enables coding agents to interact with the Reactome pathway database, including search, lookup, hierarchy traversal, SBML/SBGN export, and gene-set enrichment analysis.
    17
    MIT

  • mcp-ubergraph-query

    twhetzel
    A
    license
    A
    quality
    D
    maintenance
    Enables AI assistants to query the Ubergraph biomedical ontology SPARQL endpoint with tools for custom SPARQL queries, term lookup, search, and hierarchy traversal.
    4
    MIT
  • galaxy-mcp by galaxyproject

    galaxy-mcpofficial

    galaxyproject
    A
    license
    Not graded
    quality
    A
    maintenance
    MCP server for interacting with Galaxy bioinformatics platform, enabling AI assistants to connect to Galaxy instances, search and execute tools, manage workflows, and access other features.
    37
    MIT

  • mcp-gwas-catalog

    pipeworx-io
    A
    license
    Not graded
    quality
    C
    maintenance
    MCP server for querying the GWAS Catalog (EBI/NHGRI), a curated catalog of genome-wide association studies. It enables AI agents to search and retrieve study data via natural language or direct tool calls.
    4
    MIT

  • string-mcp

    meringlab
    A
    license
    Not graded
    quality
    B
    maintenance
    MCP server that exposes STRING database functionality, allowing AI agents to resolve protein identifiers, retrieve interaction networks, perform homology lookups, and run functional enrichment analysis.
    5
    MIT

  • Poiesis MCP Server

    JaeAeich
    A
    license
    Not graded
    quality
    D
    maintenance
    Enables AI assistants to create, monitor, and manage computational tasks through GA4GH Task Execution Service (TES) functionality. Provides seamless access to TES-compliant services for executing bioinformatics and scientific computing workflows.
    Apache 2.0

  • genefoundry

    berntpopp
    A
    license
    Not graded
    quality
    A
    maintenance
    Federates 13 gene-related MCP backends (gnomAD, GTEx, etc.) behind a single Streamable HTTP endpoint with collision-free namespacing and search-based tool discovery.
    2
    MIT

  • protein-mcp-server

    cyanheads
    A
    license
    Not graded
    quality
    A
    maintenance
    A Model Context Protocol server providing programmatic access to 3D protein structural data from RCSB PDB, PDBe, and UniProt, enabling search, retrieval, comparison, and analysis of protein structures.
    128
    5
    Apache 2.0