STRING Database MCP Server by string-db.org
MCP server · Databases & files · indexed, not reviewed
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No score, grade or rank. This listing is facts from the official MCP registry and our own checks, and it stays out of the rankings until the panel reviews it.
Query STRING interactions, enrichment, annotations, homology, and PPI networks.
Facts
- MCP registry
org.string-db/string-mcp· 1.0.0- Endpoint
https://mcp.string-db.org/- Website
- mcp.string-db.org
- GitHub stars
- 7
- Registry entry
- updated 12 Jun 2026
From the official MCP registry, the package registries and our own checks. JSON · Markdown
Why it's listed
- It's published in the registry under string-db.org, a namespace the registry only gives to whoever proves they control that domain.
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Tools it lists 17 · about 9,812 tokens of context · checked 23 hours ago
| Tool | What it does | Hint |
|---|---|---|
string_resolve_proteinsSTRING: Resolves protein identifiers to metadata | 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 translating raw identifiers… | |
string_interactions_query_setSTRING: Get interactions within 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 network includes… | |
string_all_interaction_partnersSTRING: Get all interaction partners for proteins | 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**. - Use this when asking… | |
string_visual_networkSTRING: Get interaction network image (image URL) | 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: includes all known… | |
string_network_clusteringSTRING: Perform 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 detected cluster’s… | |
string_network_linkSTRING: Get interactive network link (web UI) | 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: includes all known… | |
string_homologySTRING: Get homologs in specified target species | 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 species). - To retrieve… | |
string_interaction_evidenceSTRING: Get links to interaction evidence pages | 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, use… | |
string_enrichmentSTRING: Functional enrichment analysis | 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; enrichment is performed… | |
string_functional_annotationSTRING: Retrieve functional annotations for proteins | 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 — such as Gene… | |
string_enrichment_image_urlSTRING: Get enrichment result figure (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 with another… | |
string_ppi_enrichmentSTRING: Protein–protein interaction (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 by chance). - The… | |
string_proteins_for_termSTRING: Retrieve proteins associated with a functional 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 cross-species comparisons,… | |
string_sequence_searchSTRING: Search proteins by amino acid sequence | 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(s) for the… | |
string_query_speciesSTRING: Query species and clades in STRING | 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 the correct NCBI… | |
string_create_fileSTRING: Create a downloadable STRING result 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, enrichment results,… | |
string_helpSTRING: Help / FAQ | 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) - functionality not available via… |
What https://mcp.string-db.org/ answered to tools/list, asked without credentials over MCP 2025-11-25. The token figure is the size of the list as sent, divided by four; a model sees about that much before it calls anything. Full definitions, input schemas included, are in the listing's JSON under mcpTools.
How its tools read to an agent 0 errors · 19 warnings · 0 notes
- warnTC07string_enrichmentthe description is about 625 tokens
- warnTC16string_all_interaction_partnersno readOnlyHint or destructiveHint
- warnTC16string_create_fileno readOnlyHint or destructiveHint
- warnTC16string_enrichmentno readOnlyHint or destructiveHint
- warnTC16string_enrichment_image_urlno readOnlyHint or destructiveHint
- warnTC16string_functional_annotationno readOnlyHint or destructiveHint
- warnTC16string_helpno readOnlyHint or destructiveHint
- warnTC16string_homologyno readOnlyHint or destructiveHint
- warnTC16string_interaction_evidenceno readOnlyHint or destructiveHint
- warnTC16string_interactions_query_setno readOnlyHint or destructiveHint
- warnTC16string_network_clusteringno readOnlyHint or destructiveHint
- warnTC16string_network_linkno readOnlyHint or destructiveHint
- warnTC16string_ppi_enrichmentno readOnlyHint or destructiveHint
- warnTC16string_proteins_for_termno readOnlyHint or destructiveHint
- warnTC16string_query_speciesno readOnlyHint or destructiveHint
- warnTC16string_resolve_proteinsno readOnlyHint or destructiveHint
- warnTC16string_sequence_searchno readOnlyHint or destructiveHint
- warnTC16string_visual_networkno readOnlyHint or destructiveHint
- warnTC21string_visual_networkdescribed almost the same as string_network_link (88% of the same words)
The checks from /check and anchor check, run each day on the list above: about 9,812 tokens of definitions. Not part of the score yet. Check your own server.