MCP server

String Db

io.github.pipeworx-io/string-db

Checked 26 Oct 2026, 08:29 UTC · Connected to it and listed its tools

STRING-DB MCP — protein-protein interaction networks.

Website Source

At a glance

Type

MCP server

Publisher

pipeworx.io (verified by the MCP Registry)

Status

Working at last check

Tools

47

Token cost

About 27,040 tokens per request

Sets up in

Claude Code, Claude Desktop, Codex, Gemini CLI, Cursor, VS Code, Antigravity, ChatGPT, OpenAI API, Grok

Last checked

26 Oct 2026, 08:29 UTC

Connect it to your agent

Add to CursorAdd to VS CodeVS Code Insiders

Opens the app, which shows the server and asks you to confirm. For other apps, copy the setup below.

Claude Code

claude mcp add --transport http string-db https://gateway.pipeworx.io/string-db/mcp

Claude Desktop

Settings → Connectors → Add custom connector, and paste the URL.

Codex (config.toml)

[mcp_servers.string-db]
url = "https://gateway.pipeworx.io/string-db/mcp"

Gemini CLI

{"mcpServers":{"string-db":{"httpUrl":"https://gateway.pipeworx.io/string-db/mcp"}}}

Cursor

{"mcpServers":{"string-db":{"url":"https://gateway.pipeworx.io/string-db/mcp"}}}

VS Code

{"servers":{"string-db":{"type":"http","url":"https://gateway.pipeworx.io/string-db/mcp"}}}

Antigravity

agy mcp add string-db https://gateway.pipeworx.io/string-db/mcp

ChatGPT

Settings → Apps & Connectors → Advanced settings: turn on Developer mode, then Create a connector and paste the URL. Which plans can do this varies.

OpenAI API (Responses tools)

{"type":"mcp","server_label":"string-db","server_url":"https://gateway.pipeworx.io/string-db/mcp","require_approval":"always"}

Grok (xAI API tools)

{"type":"mcp","server_label":"string-db","server_url":"https://gateway.pipeworx.io/string-db/mcp"}

Tools

• enrichment ~121 tokens
  Functional enrichment (GO, KEGG, Pfam, Reactome, …) for a gene set.
• homology ~153 tokens
  Retrieve STRING-DB homology mappings for a list of protein identifiers (gene symbols or accessions) within a given NCBI taxonomy species (default 9606=human), returning cross-species homolog relationships.
• interactions ~189 tokens
  Interaction partners for a set of proteins.
• network ~128 tokens
  Network image url + tabular interaction data.
• resolve ~146 tokens
  Map free-text identifiers (gene symbols, accessions) → STRING identifiers.

Browse

• GitHub tools
• Company data
• GitHub and code hosting

Related MCP servers

• STRING Database MCP Server
  Query STRING interactions, enrichment, annotations, homology, and PPI networks.
• Intact
  IntAct (EBI) molecular-interaction database MCP. Keyless.
• SiteCheck Health & Travel
  121 pay-per-call agent tools: health care, drug, provider and travel data tools. x402
• Guidetopharmacology
  IUPHAR/BPS Guide to PHARMACOLOGY (GtoPdb) MCP — BYO key. Expert-curated pharmacology database of…
• Jean — Molecular Biology & Genomics
  Validated molecular biology tools: cloning, primers, CRISPR, Sanger, alignment, qPCR, phylogenetics
• Suppscience
  993 evidence-graded supplements: claims, doses, safety, interactions, FAQ, PubMed refs. 5 languages
• Dominionobservatory Observatory
  Runtime behavioral trust scoring for MCP servers. Check reliability before calling unknown tools.
• VIA Network: Agentic Commerce
  Agentic commerce network: discover sellers and products, negotiate, and pay USDC on Base via x402.

Badge for your README

[![AptLynx](https://aptlynx.net/badge/io.github.pipeworx-io/string-db.svg)](https://aptlynx.net/servers/io.github.pipeworx-io/string-db)

Listing text is written by the maker; AptLynx lists tools and does not vouch for them. Find another tool · Browse by topic · For agents