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  • PomBase MCP Server

    ubcd-ibfg
    A
    license
    -
    quality
    C
    maintenance
    Enables AI agents to query the fission yeast PomBase database for gene summaries, GO annotations, phenotypes, orthologs, domains, and interactions via structured API calls.
    MIT

  • rnaseq-mcp

    sbarbi-gh
    F
    license
    A
    quality
    C
    maintenance
    Enables analysis of bulk RNA-seq data using natural language queries, executing R and Python in a Docker container with automatic sample anonymization and privacy controls.
    7
  • Noctua MCP Server by geneontology

    Noctua MCP Serverofficial

    geneontology
    A
    license
    A
    quality
    C
    maintenance
    Enables editing and querying of Gene Ontology Causal Activity Models (GO-CAMs) through the Barista API. Supports model creation, individual and fact management, evidence addition, and causal pathway construction for biological knowledge representation.
    18
    BSD 3-Clause

  • geo-mcp

    MCPmed
    A
    license
    B
    quality
    C
    maintenance
    Enables searching and downloading Gene Expression Omnibus (GEO) data from NCBI, including datasets, series, samples, platforms, and profiles, through natural language queries.
    11
    11
    BSD 3-Clause

  • mcp-gwas-catalog

    pipeworx-io
    A
    license
    -
    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

  • mcp-ebi-ols

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Enables querying and browsing ontologies from the EBI Ontology Lookup Service, including searching for terms, retrieving term details, and navigating ontology hierarchies via natural language.
    8
    MIT

  • mcp-pombase

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Enables AI agents to query the PomBase fission yeast model-organism database for genetic and molecular data through the Pipeworx MCP gateway.
    4
    MIT

  • mcp-interpro

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    This server provides access to InterPro protein family, domain, and functional-site classification data from EBI. It allows querying protein annotations through natural language or direct tool calls.
    4
    MIT

  • mcp-ensembl

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Enables querying Ensembl genomic data including gene lookup, sequence retrieval, homology, variation, and variant effect prediction via MCP tools.
    12
    MIT

  • string-db

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    MCP server for STRING-DB that enables querying protein-protein interaction networks, functional enrichment, and homology mappings.
    9
    MIT

  • mcp-myvariant

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Enables querying metadata from MyVariant.info, a comprehensive variant annotation database, providing dataset statistics, source information, and build versions.
    9
    MIT

  • mcp-uniprot

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Provides access to UniProt protein sequence and function knowledge base, enabling search and retrieval of protein entries, proteomes, taxonomy, and feature annotations.
    7
    MIT

  • mcp-alphafold

    pipeworx-io
    A
    license
    -
    quality
    C
    maintenance
    Provides access to AlphaFold predicted protein 3D structures from EBI, enabling retrieval of prediction metadata, summaries, annotations, and UniProt data.
    19
    MIT