STRING Database MCP Server

Name: STRING Database MCP Server
Author: org.string-db

MCP serverMCP

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

by org.string-dbrepository ↗homepage ↗v1.0.0

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30-day availability5/5 checks ok

30 days ago

Tools observed via MCP handshake

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 both a **network image URL** and details about each detected cluster. Use the same
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 the STRING enrichment figure image *URL* for a set of proteins.
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

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Official MCP Registryorg.string-db/string-mcp

first seen 30 h ago · fetched 30 h agoopen ↗

Field history (7 recent events)

30 h ago · declared · summary → "Query STRING interactions, enrichment, annotations, homology, and PPI networks."
30 h ago · declared · description → "Query STRING interactions, enrichment, annotations, homology, and PPI networks."
30 h ago · declared · publisherName → "org.string-db"
30 h ago · declared · homepageUrl → "https://mcp.string-db.org/"
30 h ago · declared · repoUrl → "https://github.com/meringlab/string-mcp"
30 h ago · declared · version → "1.0.0"
30 h ago · declared · protocols → ["mcp"]

when	check	result	http	latency	detail
32 min ago	mcp initialize	ok	200	81 ms	server STRING Database MCP Server 2.14.7 · protocol 2025-06-18 · 17 tools
8 h ago	mcp initialize	ok	200	72 ms	server STRING Database MCP Server 2.14.7 · protocol 2025-06-18 · 17 tools
14 h ago	mcp initialize	ok	200	64 ms	server STRING Database MCP Server 2.14.7 · protocol 2025-06-18 · 17 tools
21 h ago	mcp initialize	ok	200	144 ms	server STRING Database MCP Server 2.14.7 · protocol 2025-06-18 · 17 tools
28 h ago	mcp initialize	ok	200	82 ms	server STRING Database MCP Server 2.14.7 · protocol 2025-06-18 · 17 tools

STRING Database MCP Server

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