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MCP live MCP 2025-11-25 http

STRING Database MCP Server

org.string-db/string-mcp

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

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Get before/after evidence when observed tools, schemas, authentication access, availability or the endpoint changes.

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Uptime
100.0%
5 direct probes · 30d
Response
642ms
last probe
Tools
17
callable
Resources
0
readable
Prompts
0
available
Primary URL
https://mcp.string-db.org/mcp
Score: 100/100
Handshake verified by our own probe.
why this score
pass Answers the MCP handshake 50/50
The handshake and the list calls succeeded on the primary URL.
pass Lists tools, resources or prompts 30/30
17 tools, 0 resources, 0 prompts returned.
pass 3 or more catalogue items 10/10
17 items in total; 3 or more earns these points.
pass Describes itself 10/10
79 characters; more than 30 earns these points.

Tools · 17

string_resolve_proteins

Maps one or more protein identifiers to their corresponding STRING metadata, including: gene symbol, description, sequence, domains, species, and internal STRING ID. This method is useful for transla…

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 query set. - For a **single protein**, the…

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 proteins in the STRING database**. - U…

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 interactors. - For multiple proteins: inclu…

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 detected cluster. Provide a table with each …

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 interactors. - For multiple proteins: include…

string_homology

Retrieves pairwise protein similarity scores (Smith–Waterman bit scores) for the query proteins. - If no target species (`species_b`) is provided, results are intra-species (within the query specie…

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 determine whether an interaction is supported,…

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 protein’s 10 most likely interactors; enric…

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 databases, tissues, compartments and domains …

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 single enrichment category; call again wi…

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 more functionally connected than expected …

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, pathways, and domains. IMPORTANT: For cro…

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. - Returns the most similar STRING protein…

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 are present in STRING, or when you need…

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 STRING data, tables, protein lists, enrichm…

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_to_use_string, cytoscape) - functiona…

How to use

Add to your Claude Desktop / Cursor / Cline MCP config:

{
  "mcpServers": {
    "string_database_mcp_server": {
      "url": "https://mcp.string-db.org/mcp",
      "transport": "http"
    }
  }
}