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  • TogoMCP

    dbcls
    A
    license
    A
    quality
    A
    maintenance
    An MCP server that gives AI assistants access to biological and biomedical RDF databases via SPARQL at the RDF Portal, as well as selected REST APIs (NCBI E-utilities, UniProt, ChEMBL, PDB, Reactome, Rhea, MeSH, and more).
    29
    11
    MIT

  • 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

  • gromacs-mcp

    Alierkn
    A
    license
    B
    quality
    A
    maintenance
    Enables running GROMACS molecular dynamics simulations through natural language, with tools for topology building, solvation, simulation management, and trajectory processing via the Model Context Protocol.
    31
    MIT

  • Bio-OS MCP Server

    GBA-BI
    A
    license
    C
    quality
    B
    maintenance
    Enables workflow management and Docker image building for Bio-OS platform. Supports WDL workflow submission, validation, and monitoring, along with Docker image building and status tracking for bioinformatics workflows.
    22
    5
    MIT
  • galaxy-mcp by galaxyproject

    galaxy-mcpofficial

    galaxyproject
    A
    license
    -
    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

  • ncbi-mcp

    QiGoki
    A
    license
    -
    quality
    D
    maintenance
    A server providing access to NCBI E-utilities API for searching and retrieving data from databases like PubMed, Protein, and Nucleotide.
    MIT

  • OrigeneMCP

    GENTEL-lab
    F
    license
    -
    quality
    D
    maintenance
    An advanced integrated MCP server platform that combines 600+ tools and multiple biomedical databases to enable comprehensive information retrieval across molecules, proteins, genes, and diseases for accelerating therapeutic research.
    38

  • 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.
    15
    MIT

  • nucleotide_archive_mcp

    biocontext-ai
    A
    license
    A
    quality
    C
    maintenance
    An MCP server for searching and accessing RNA sequencing datasets from the European Nucleotide Archive (ENA), supporting bulk, single-cell, and spatial transcriptomics with advanced filtering and download capabilities.
    11
    1
    Apache 2.0

  • mgi-link

    berntpopp
    A
    license
    A
    quality
    A
    maintenance
    An MCP server that provides mouse genetics data from Mouse Genome Informatics (MGI), enabling LLM agents to query markers, mutations, alleles, phenotypes, and disease models.
    13
    1
    MIT

  • Gigwa-MCP

    gkanogiannis
    A
    license
    A
    quality
    A
    maintenance
    An MCP server that interfaces with Gigwa for genotyping data import, analysis, and audit, enabling users to perform complex workflows through natural language commands.
    29
    Apache 2.0

  • Rosetta MCP Server

    Arielbs
    A
    license
    A
    quality
    F
    maintenance
    An MCP server that enables AI coding assistants to interact with Rosetta, PyRosetta, and Biotite for running RosettaScripts, validating XML, translating between Rosetta and Biotite, scoring structures, and querying documentation.
    19
    112
    18
    MIT

  • ncbi-datasets-mcp

    syntheticgio
    F
    license
    A
    quality
    A
    maintenance
    An MCP server that gives Claude access to NCBI Datasets v2 — search genome assembly metadata, retrieve taxonomy records, and download data packages without leaving your conversation.
    10