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  • Oh My KEGG MCP

    martinuslee
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    An MCP server that provides access to the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, offering 30 tools for searching and analyzing biological data like pathways, genes, and compounds. It supports integration with LangChain and Ollama to enable LLMs to interact with comprehensive genomic and chemical datasets.
    Last updated
    8
    MIT

  • Biomart MCP

    jzinno
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    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

  • hpo-link

    berntpopp
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    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

  • mcp-ubergraph-query

    twhetzel
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    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
  • openpgx by open-pgx

    openpgxofficial

    open-pgx
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    Enables AI-driven pharmacogenomic analysis by querying structured genetic variant, drug response, and disease risk data. Supports natural language questions about medications, traits, and health risks based on user genome data, with privacy-first local execution.
    Last updated
    16
    37
    11
    MIT

  • BioMCP

    genomoncology
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    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
    569
    MIT

  • BioNext-mcp

    Cherine0205
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    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
    22
    8
    MIT

  • BioMCP

    yeyuan98
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    A high-performance MCP server that gives LLMs access to 25 biomedical tools federated across 50+ upstream APIs for genes, variants, drugs, diseases, literature, clinical trials, and structural biology.
    Last updated
    25
    43
    2
    MIT

  • Wegene Assistant MCP Server

    xraywu
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    Leverages large language models to analyze users' WeGene genetic testing reports, providing access to report data via custom URI schemes and enabling profile and report management through OAuth authentication and API utilization.
    Last updated
    4
    4
  • PDBe MCP Servers by PDBeurope

    PDBe MCP Serversofficial

    PDBeurope
    A
    license
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    quality
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    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

  • mcp-alphafold

    zeinab-sheikhi
    F
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    quality
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    maintenance
    Provides programmatic access to AlphaFold protein structure predictions and UniProt data, enabling users to retrieve protein structures, summaries, and annotations through natural language.
    Last updated
    3