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  • Omics AI MCP Server

    mfiume
    A
    license
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    quality
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    maintenance
    Enables AI agents to conversationally interact with genomics research networks for data analysis and discovery across multiple Omics AI Explorer platforms. It provides tools for exploring data collections, examining table schemas, and executing SQL queries against datasets like Viral AI and Neuroscience AI.
    Last updated
    6
    1
    MIT

  • Biomart MCP

    jzinno
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    license
    A
    quality
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    maintenance
    A Model Context Protocol server that interfaces with Biomart databases, allowing models to discover biological datasets, explore attributes/filters, retrieve biological data, and translate between different biological identifiers.
    Last updated
    8
    7
    MIT

  • Rosetta MCP Server

    Arielbs
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    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.
    Last updated
    19
    138
    17
    MIT

  • mcp-ubergraph-query

    twhetzel
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    quality
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    maintenance
    Enables AI assistants to query the Ubergraph biomedical ontology SPARQL endpoint with tools for custom SPARQL queries, term lookup, search, and hierarchy traversal.
    Last updated
    4
    MIT

  • BioMCP

    genomoncology
    A
    license
    A
    quality
    A
    maintenance
    Provides LLMs with structured access to critical biomedical databases including PubTator3 (PubMed/PMC), ClinicalTrials.gov, and MyVariant.info through the Model Context Protocol.
    Last updated
    35
    557
    MIT

  • BioNext-mcp

    Cherine0205
    A
    license
    A
    quality
    D
    maintenance
    Enables bioinformatics analysis through natural language conversations with Claude Desktop, automatically generating and executing Python scripts to produce HTML reports and visualizations.
    Last updated
    3
    5
    8
    MIT
  • PDBe MCP Servers by PDBeurope

    PDBe MCP Serversofficial

    PDBeurope
    A
    license
    B
    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

  • gnomAD MCP Server

    shukwong
    F
    license
    B
    quality
    D
    maintenance
    Enables AI assistants to query genetic variant data, gene constraints, and population genetics information from the gnomAD (Genome Aggregation Database) through its GraphQL API. Supports searching for genes and variants, retrieving constraint scores, analyzing population frequencies, and accessing genomic coverage data.
    Last updated
    9
    10

  • MCPymol

    chemrich
    A
    license
    C
    quality
    B
    maintenance
    A Model Context Protocol server that lets you drive PyMOL with natural language, enabling structure loading, analytical views, measurements, and protein exploration through AI assistants.
    Last updated
    100
    15
    MIT

  • cBioPortal MCP Server

    pickleton89
    A
    license
    C
    quality
    D
    maintenance
    A server that enables AI assistants to interact with cancer genomics data from cBioPortal, allowing users to explore cancer studies, access genomic data, and retrieve mutations and clinical information.
    Last updated
    17
    5
    MIT