org.string-db/string-mcp

up checked 2026-11-11T07:40:01.268Z

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Publisher-provided title

STRING Database MCP Server

Publisher-provided description

Query STRING interactions, enrichment, annotations, homology, and PPI networks.

Summary by lookupd

Queries protein interactions, enrichment, annotations, homology and network images from the STRING biological database.

Install

Claude Code, remote (streamable-http)

claude mcp add --transport http string https://mcp.string-db.org/

Codex, remote (streamable-http)

codex mcp add string --url https://mcp.string-db.org/

Cursor, remote (streamable-http) → .cursor/mcp.json

{
  "mcpServers": {
    "string": {
      "url": "https://mcp.string-db.org/"
    }
  }
}

Other clients: docs. Or tell your agent: Set up lookupd for me: read https://lookupd.com/agent.md and follow it.

Tools (17 tools)

Publisher-provided text

• string_resolve_proteins Maps one or more protein identifiers to their corresponding STRING metadata, including: gene symbol, description, sequence, domains, species, and internal STRIN
• string_interactions_query_set Retrieves the interactions between the query proteins. Use this method only when you specifically need to list the interactions between all proteins in your que
• string_all_interaction_partners Retrieves all interaction partners for one or more proteins from STRING. This tool returns all known interactions between your query protein(s) and **any other
• string_visual_network Retrieves a URL to a **STRING interaction network image** for one or more proteins. - For a single protein: includes the protein and its top 10 most likely int
• string_network_clustering Performs **network clustering** on a STRING interaction network and returns a network image URL, an interactive STRING network URL, and details about each detec
• string_network_link Retrieves a stable URL to an interactive STRING network for one or more proteins. - For a single protein: includes the protein and its top 10 most likely inter
• string_homology Retrieves pairwise protein similarity scores (Smith–Waterman bit scores) for the query proteins. - If no target species (`species_b`) is provided, results ar
• string_interaction_evidence Retrieves direct links to STRING evidence pages for protein–protein interaction pairs. Use this tool only when a STRING evidence page/link is needed. To determ
• string_enrichment This tool retrieves functional enrichment for a set of proteins using STRING. - If queried with a single protein, the tool expands the query to include the pro
• string_functional_annotation This tool retrieves curated functional annotations for a set of proteins. Each input protein is mapped to known biological terms from ontologies, pathway datab
• string_enrichment_image_url Retrieves a STRING enrichment figure (image URL) for a set of proteins. For the enriched terms and FDR values, use `string_enrichment`. - Each figure shows a s
• string_ppi_enrichment This tool tests if your network is enriched in protein-protein interactions compared to the background proteome-wide distribution (i.e., if your proteins are mo
• string_proteins_for_term Retrieve proteins annotated with a functional term or descriptive text in a single species. You can query for tissues, compartments, diseases, processes, path
• string_sequence_search Searches the STRING database using **amino acid sequences** to identify matching proteins. - Accepts a single sequence or multiple sequences in FASTA format. -
• string_query_species Search for species or clades available in STRING by free-text query and return their NCBI taxonomy IDs. - Use this when the user asks which species or clades a
• string_create_file Creates a downloadable file for STRING-derived results. Use this tool when the user explicitly asks to download, save, export, or receive a file containing STR
• string_help Provides explanatory text for STRING features and limitations. Use this tool when the user question involves: - What is STRING is or how to use the tool (how

Details

• Version: 1.13.1
• Transports: streamable-http
• Uptime (7 days): 100%
• Median latency: 903 ms
• First indexed: 2026-11-01T10:08:13.497Z
• Last seen in registry: 2026-11-01T10:08:13.506Z
• Repository: https://github.com/meringlab/string-mcp
• Website: https://mcp.string-db.org/

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