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"How to interact with SQL databases" matching MCP servers:

  • Biomart MCP

    jzinno
    A
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    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

  • BioMCP

    genomoncology
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    quality
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    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
    556
    MIT

  • Omics AI MCP Server

    mfiume
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    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

  • BioMCP

    acashmoney
    F
    license
    B
    quality
    D
    maintenance
    A Model Context Protocol server that enhances language models with protein structure analysis capabilities, enabling detailed active site analysis and disease-related protein searches through established protein databases.
    Last updated
    2
    18

  • reactome-mcp

    tc2fh
    A
    license
    -
    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.
    Last updated
    MIT

  • GenomeMCP

    Eldergenix
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    quality
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    Enables AI agents to query clinical genomics databases, retrieve supporting literature, analyze population genetics, and visualize biological pathways.
    Last updated
    6
    MIT

  • TogoMCP

    arkinjo
    A
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    quality
    F
    maintenance
    Executes SPARQL queries against biological and biomedical RDF databases from the RDF Portal, with additional REST API integrations for bioinformatics resources.
    Last updated
    1
    MIT

  • ncbi-mcp

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

  • tacc-mcp-bio

    Narasimhan-Lab
    F
    license
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    quality
    C
    maintenance
    Enables Claude Code to interact with a TACC or SLURM HPC cluster for bioinformatics pipelines, allowing job management, log reading, file browsing, remote script execution, and job submission through natural language.
    Last updated

  • reactome-db-mcp

    tc2fh
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    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

  • 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.
    Last updated
    19
    238
    16
    MIT